A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

## A

AbstractBoxMuller - Class in org.encog.mathutil.randomize.generate
  Provides the ability for subclasses to generate normally distributed random numbers.
AbstractBoxMuller() - Constructor for class org.encog.mathutil.randomize.generate.AbstractBoxMuller
AbstractGenerateRandom - Class in org.encog.mathutil.randomize.generate
  Provides a foundation for most random number generation.
AbstractGenerateRandom() - Constructor for class org.encog.mathutil.randomize.generate.AbstractGenerateRandom
AbstractGenerator - Class in org.encog.app.generate.generators
  Abstract class that forms the foundation of most code generators.
AbstractGenerator() - Constructor for class org.encog.app.generate.generators.AbstractGenerator
AbstractGenomeComparator - Class in org.encog.ml.ea.sort
  Provides base functionality for comparing genomes.
AbstractGenomeComparator() - Constructor for class org.encog.ml.ea.sort.AbstractGenomeComparator
AbstractGraphSearch - Class in org.encog.ml.graph.search
AbstractGraphSearch(BasicGraph, BasicNode, SearchGoal) - Constructor for class org.encog.ml.graph.search.AbstractGraphSearch
AbstractPNN - Class in org.encog.neural.pnn
  Abstract class to build PNN networks upon.
AbstractPNN(PNNKernelType, PNNOutputMode, int, int) - Constructor for class org.encog.neural.pnn.AbstractPNN
  Constructor.
AbstractPrgGenerator - Class in org.encog.ml.prg.generator
  The abstract base for Full and Grow program generation.
AbstractPrgGenerator(EncogProgramContext, int) - Constructor for class org.encog.ml.prg.generator.AbstractPrgGenerator
  Construct the generator.
AbstractTemplateGenerator - Class in org.encog.app.generate.generators
  Provides a basic implementation of a template generator.
AbstractTemplateGenerator() - Constructor for class org.encog.app.generate.generators.AbstractTemplateGenerator
Action - Interface in org.encog.ml.world
ACTION_EAST - Static variable in class org.encog.ml.world.grid.GridWorld
ACTION_NORTH - Static variable in class org.encog.ml.world.grid.GridWorld
ACTION_SOUTH - Static variable in class org.encog.ml.world.grid.GridWorld
ACTION_WEST - Static variable in class org.encog.ml.world.grid.GridWorld
ActionNode - Class in org.encog.ml.schedule
ActionNode(String) - Constructor for class org.encog.ml.schedule.ActionNode
ActionNode(String, double) - Constructor for class org.encog.ml.schedule.ActionNode
actionPerformed(ActionEvent) - Method in class org.encog.platformspecific.j2se.TrainingDialog
  Called when the user clicks the stop button.
ActionProbability - Interface in org.encog.ml.world
ACTIVATION_CYCLES - Static variable in class org.encog.persist.PersistConst
  Snapshot.
ACTIVATION_FUNCTION - Static variable in class org.encog.persist.PersistConst
  Activation function.
ACTIVATION_TYPE - Static variable in class org.encog.persist.PersistConst
  An activation function.
ActivationBiPolar - Class in org.encog.engine.network.activation
  BiPolar activation function.
ActivationBiPolar() - Constructor for class org.encog.engine.network.activation.ActivationBiPolar
  Construct the bipolar activation function.
ActivationBipolarSteepenedSigmoid - Class in org.encog.engine.network.activation
  The bipolar sigmoid activation function is like the regular sigmoid activation function, except Bipolar sigmoid activation function.
ActivationBipolarSteepenedSigmoid() - Constructor for class org.encog.engine.network.activation.ActivationBipolarSteepenedSigmoid
ActivationClippedLinear - Class in org.encog.engine.network.activation
  Linear activation function that bounds the output to [-1,+1].
ActivationClippedLinear() - Constructor for class org.encog.engine.network.activation.ActivationClippedLinear
ActivationCompetitive - Class in org.encog.engine.network.activation
  An activation function that only allows a specified number, usually one, of the out-bound connection to win.
ActivationCompetitive() - Constructor for class org.encog.engine.network.activation.ActivationCompetitive
  Create a competitive activation function with one winner allowed.
ActivationCompetitive(int) - Constructor for class org.encog.engine.network.activation.ActivationCompetitive
  Create a competitive activation function with the specified maximum number of winners.
ActivationElliott - Class in org.encog.engine.network.activation
  Computationally efficient alternative to ActivationSigmoid.
ActivationElliott() - Constructor for class org.encog.engine.network.activation.ActivationElliott
  Construct a basic HTAN activation function, with a slope of 1.
ActivationElliottSymmetric - Class in org.encog.engine.network.activation
  Computationally efficient alternative to ActivationTANH.
ActivationElliottSymmetric() - Constructor for class org.encog.engine.network.activation.ActivationElliottSymmetric
  Construct a basic HTAN activation function, with a slope of 1.
activationFunction(double[], int, int) - Method in class org.encog.engine.network.activation.ActivationBiPolar
  Implements the activation function.
activationFunction(double[], int, int) - Method in class org.encog.engine.network.activation.ActivationBipolarSteepenedSigmoid
  Implements the activation function.
activationFunction(double[], int, int) - Method in class org.encog.engine.network.activation.ActivationClippedLinear
  Implements the activation function.
activationFunction(double[], int, int) - Method in class org.encog.engine.network.activation.ActivationCompetitive
  Implements the activation function.
activationFunction(double[], int, int) - Method in class org.encog.engine.network.activation.ActivationElliott
  Implements the activation function.
activationFunction(double[], int, int) - Method in class org.encog.engine.network.activation.ActivationElliottSymmetric
  Implements the activation function.
ActivationFunction - Interface in org.encog.engine.network.activation
  This interface allows various activation functions to be used with the neural network.
activationFunction(double[], int, int) - Method in interface org.encog.engine.network.activation.ActivationFunction
  Implements the activation function.
activationFunction(double[], int, int) - Method in class org.encog.engine.network.activation.ActivationGaussian
  Implements the activation function.
activationFunction(double[], int, int) - Method in class org.encog.engine.network.activation.ActivationLinear
  Implements the activation function.
activationFunction(double[], int, int) - Method in class org.encog.engine.network.activation.ActivationLOG
  Implements the activation function.
activationFunction(double[], int, int) - Method in class org.encog.engine.network.activation.ActivationRamp
  Implements the activation function.
activationFunction(double[], int, int) - Method in class org.encog.engine.network.activation.ActivationSigmoid
  Implements the activation function.
activationFunction(double[], int, int) - Method in class org.encog.engine.network.activation.ActivationSIN
  Implements the activation function.
activationFunction(double[], int, int) - Method in class org.encog.engine.network.activation.ActivationSoftMax
  Implements the activation function.
activationFunction(double[], int, int) - Method in class org.encog.engine.network.activation.ActivationSteepenedSigmoid
  Implements the activation function.
activationFunction(double[], int, int) - Method in class org.encog.engine.network.activation.ActivationStep
  Implements the activation function.
activationFunction(double[], int, int) - Method in class org.encog.engine.network.activation.ActivationTANH
  Implements the activation function.
ActivationGaussian - Class in org.encog.engine.network.activation
  An activation function based on the Gaussian function.
ActivationGaussian() - Constructor for class org.encog.engine.network.activation.ActivationGaussian
ActivationLinear - Class in org.encog.engine.network.activation
  The Linear layer is really not an activation function at all.
ActivationLinear() - Constructor for class org.encog.engine.network.activation.ActivationLinear
  Construct a linear activation function, with a slope of 1.
ActivationLOG - Class in org.encog.engine.network.activation
  An activation function based on the logarithm function.
ActivationLOG() - Constructor for class org.encog.engine.network.activation.ActivationLOG
  Construct the activation function.
ActivationRamp - Class in org.encog.engine.network.activation
  A ramp activation function.
ActivationRamp() - Constructor for class org.encog.engine.network.activation.ActivationRamp
  Default constructor.
ActivationRamp(double, double, double, double) - Constructor for class org.encog.engine.network.activation.ActivationRamp
  Construct a ramp activation function.
ActivationSigmoid - Class in org.encog.engine.network.activation
  The sigmoid activation function takes on a sigmoidal shape.
ActivationSigmoid() - Constructor for class org.encog.engine.network.activation.ActivationSigmoid
  Construct a basic sigmoid function, with a slope of 1.
ActivationSIN - Class in org.encog.engine.network.activation
  An activation function based on the sin function, with a double period.
ActivationSIN() - Constructor for class org.encog.engine.network.activation.ActivationSIN
  Construct the sin activation function.
ActivationSoftMax - Class in org.encog.engine.network.activation
  The softmax activation function.
ActivationSoftMax() - Constructor for class org.encog.engine.network.activation.ActivationSoftMax
  Construct the soft-max activation function.
ActivationSteepenedSigmoid - Class in org.encog.engine.network.activation
  The Steepened Sigmoid is an activation function typically used with NEAT.
ActivationSteepenedSigmoid() - Constructor for class org.encog.engine.network.activation.ActivationSteepenedSigmoid
  Construct a steepend sigmoid activation function.
ActivationStep - Class in org.encog.engine.network.activation
  The step activation function is a very simple activation function.
ActivationStep() - Constructor for class org.encog.engine.network.activation.ActivationStep
  Create a basic step activation with low=0, center=0, high=1.
ActivationStep(double, double, double) - Constructor for class org.encog.engine.network.activation.ActivationStep
  Construct a step activation function.
ActivationTANH - Class in org.encog.engine.network.activation
  The hyperbolic tangent activation function takes the curved shape of the hyperbolic tangent.
ActivationTANH() - Constructor for class org.encog.engine.network.activation.ActivationTANH
  Construct a basic HTAN activation function, with a slope of 1.
ActivationUtil - Class in org.encog.util.obj
ActivationUtil() - Constructor for class org.encog.util.obj.ActivationUtil
AdaBoost - Class in org.encog.ensemble.adaboost
AdaBoost(int, int, EnsembleMLMethodFactory, EnsembleTrainFactory, EnsembleAggregator) - Constructor for class org.encog.ensemble.adaboost.AdaBoost
ADALINEPattern - Class in org.encog.neural.pattern
  Construct an ADALINE neural network.
ADALINEPattern() - Constructor for class org.encog.neural.pattern.ADALINEPattern
add(double) - Method in class org.encog.app.quant.util.BarBuffer
  Add a bar.
add(double[]) - Method in class org.encog.app.quant.util.BarBuffer
  Add a bar.
add(UniverseCell) - Method in class org.encog.ca.universe.basic.BasicContinuousCell
add(UniverseCell) - Method in interface org.encog.ca.universe.ContinuousCell
add(MLData) - Method in class org.encog.ensemble.data.EnsembleDataSet
add(MLData, MLData) - Method in class org.encog.ensemble.data.EnsembleDataSet
add(MLDataPair) - Method in class org.encog.ensemble.data.EnsembleDataSet
add(int) - Method in class org.encog.mathutil.IntPair
add(int, int) - Method in class org.encog.mathutil.IntPair
add(int, int, double) - Method in class org.encog.mathutil.matrices.Matrix
  Add a value to one cell in the matrix.
add(Matrix) - Method in class org.encog.mathutil.matrices.Matrix
  Add the specified matrix to this matrix.
add(Matrix, Matrix) - Static method in class org.encog.mathutil.matrices.MatrixMath
  Add two matrixes.
add(RandomVariable) - Method in class org.encog.mathutil.probability.vars.VariableList
add(double[], double[]) - Method in class org.encog.mathutil.VectorAlgebra
  v1 = v1 + v2
add(MLData) - Method in class org.encog.ml.data.auto.AutoFloatDataSet
add(MLData, MLData) - Method in class org.encog.ml.data.auto.AutoFloatDataSet
add(MLDataPair) - Method in class org.encog.ml.data.auto.AutoFloatDataSet
add(int, double) - Method in class org.encog.ml.data.basic.BasicMLComplexData
  Add a value to the specified index.
add(int, ComplexNumber) - Method in class org.encog.ml.data.basic.BasicMLComplexData
  Add a complex number to the specified index.
add(int, double) - Method in class org.encog.ml.data.basic.BasicMLData
  Add a value to the specified index.
add(MLData) - Method in class org.encog.ml.data.basic.BasicMLDataCentroid
  Add an element to the centroid.
add(MLDataPair) - Method in class org.encog.ml.data.basic.BasicMLDataPairCentroid
  Add an element to the centroid.
add(MLData) - Method in class org.encog.ml.data.basic.BasicMLDataSet
  Add a object to the dataset.
add(MLData, MLData) - Method in class org.encog.ml.data.basic.BasicMLDataSet
  Add a set of input and ideal data to the dataset.
add(MLDataPair) - Method in class org.encog.ml.data.basic.BasicMLDataSet
  Add a an object to the dataset.
add(MLData) - Method in class org.encog.ml.data.basic.BasicMLSequenceSet
  Add a object to the dataset.
add(MLData, MLData) - Method in class org.encog.ml.data.basic.BasicMLSequenceSet
  Add a set of input and ideal data to the dataset.
add(MLDataPair) - Method in class org.encog.ml.data.basic.BasicMLSequenceSet
  Add a an object to the dataset.
add(MLDataSet) - Method in class org.encog.ml.data.basic.BasicMLSequenceSet
add(MLData) - Method in class org.encog.ml.data.buffer.BufferedMLDataSet
  Add only input data, for an unsupervised dataset.
add(MLData, MLData) - Method in class org.encog.ml.data.buffer.BufferedMLDataSet
  Add both the input and ideal data.
add(MLDataPair) - Method in class org.encog.ml.data.buffer.BufferedMLDataSet
  Add a data pair of both input and ideal data.
add(MLData) - Method in class org.encog.ml.data.folded.FoldedDataSet
  Not supported.
add(MLData, MLData) - Method in class org.encog.ml.data.folded.FoldedDataSet
  Not supported.
add(MLDataPair) - Method in class org.encog.ml.data.folded.FoldedDataSet
  Not supported.
add(int, ComplexNumber) - Method in interface org.encog.ml.data.MLComplexData
  Add a complex number to the specified index.
add(int, double) - Method in interface org.encog.ml.data.MLData
  Add a value to the specified index.
add(MLData) - Method in interface org.encog.ml.data.MLDataSet
  Add a object to the dataset.
add(MLData, MLData) - Method in interface org.encog.ml.data.MLDataSet
  Add a set of input and ideal data to the dataset.
add(MLDataPair) - Method in interface org.encog.ml.data.MLDataSet
  Add a an object to the dataset.
add(MLDataSet) - Method in interface org.encog.ml.data.MLSequenceSet
  Add a new sequence.
add(int, double) - Method in class org.encog.ml.data.sparse.SparseMLData
  Add a value to the specified index.
add(int, double) - Method in class org.encog.ml.data.specific.BiPolarNeuralData
  This will throw an error, as "add" is not supported for bipolar.
add(MLData) - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
  Adding directly is not supported.
add(MLData, MLData) - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
  Adding directly is not supported.
add(MLDataPair) - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
  Adding directly is not supported.
add(MLData) - Method in class org.encog.ml.data.versatile.MatrixMLDataSet
  Add a object to the dataset.
add(MLData, MLData) - Method in class org.encog.ml.data.versatile.MatrixMLDataSet
  Add a set of input and ideal data to the dataset.
add(MLDataPair) - Method in class org.encog.ml.data.versatile.MatrixMLDataSet
  Add a an object to the dataset.
add(Genome) - Method in class org.encog.ml.ea.species.BasicSpecies
  Add a genome to this species.
add(Genome) - Method in interface org.encog.ml.ea.species.Species
  Add a genome to this species.
add(BasicPath) - Method in class org.encog.ml.graph.search.FrontierHolder
add(MLData) - Method in class org.encog.ml.kmeans.BasicCluster
  Add to the cluster.
add(MLData) - Method in interface org.encog.ml.MLCluster
  Add data to this cluster.
add(ExpressionValue, ExpressionValue) - Static method in class org.encog.ml.prg.expvalue.EvaluateExpr
  Perform an add on two expression values.
add(ProgramExtensionTemplate) - Method in enum org.encog.ml.prg.extension.EncogOpcodeRegistry
  Add an opcode.
add(FreeformConnection) - Method in class org.encog.neural.freeform.basic.BasicActivationSummation
  Add an input connection.
add(FreeformNeuron) - Method in class org.encog.neural.freeform.basic.BasicFreeformLayer
  Add a neuron to this layer.
add(FreeformNeuron) - Method in interface org.encog.neural.freeform.FreeformLayer
  Add a neuron to this layer.
add(FreeformConnection) - Method in interface org.encog.neural.freeform.InputSummation
  Add an input connection.
add(EncogPersistor) - Method in class org.encog.persist.PersistorRegistry
  Add a persistor.
add(double[]) - Method in class org.encog.util.arrayutil.VectorWindow
  Add a single vector to the window.
add(double[]) - Method in class org.encog.util.arrayutil.WindowDouble
  Add an array to the window.
add() - Method in class org.encog.util.datastruct.StackInt
add(int) - Method in class org.encog.util.datastruct.WindowInt
add(double[], double[]) - Static method in class org.encog.util.EngineArray
add(String, File) - Method in class org.encog.util.http.FormUtility
  Add a file to a multipart form.
add(String, String) - Method in class org.encog.util.http.FormUtility
  Add a regular text field to either a regular or multipart form.
add(O) - Method in interface org.encog.util.kmeans.Centroid
  Add an element to the centroid.
add(T) - Method in class org.encog.util.kmeans.Cluster
  Add a element to the cluster.
add(double, T) - Method in class org.encog.util.obj.ChooseObject
  Add an object.
ADD_NOT_SUPPORTED - Static variable in class org.encog.ml.data.folded.FoldedDataSet
  Error message: adds are not supported.
ADD_NOT_SUPPORTED - Static variable in class org.encog.ml.data.temporal.TemporalMLDataSet
  Error message: adds are not supported.
addAction(Action) - Method in class org.encog.ml.world.basic.BasicWorld
addAction(Action) - Method in interface org.encog.ml.world.World
addAgent(WorldAgent) - Method in class org.encog.ml.world.basic.BasicWorld
addAgent(WorldAgent) - Method in interface org.encog.ml.world.World
addAllTypes() - Method in class org.encog.ml.prg.extension.ParamTemplate
  Add all known types.
addAnalystListener(AnalystListener) - Method in class org.encog.app.analyst.EncogAnalyst
  Add a listener.
addArg(double) - Method in class org.encog.app.generate.program.EncogProgramNode
  Add a double argument.
addArg(int) - Method in class org.encog.app.generate.program.EncogProgramNode
  Add an int argument.
addArg(Object) - Method in class org.encog.app.generate.program.EncogProgramNode
  Add an object argument.
addArg(String) - Method in class org.encog.app.generate.program.EncogProgramNode
  Add a string argument.
addAttribute(String, String) - Method in class org.encog.parse.tags.write.WriteTags
  Add an attribute to be written with the next tag.
addBaseEvent(ParsedEvent) - Method in class org.encog.ml.bayesian.parse.ParsedProbability
  Add a base event.
addBreak() - Method in class org.encog.app.generate.generators.AbstractGenerator
  Add a line break;
addCDATA(String) - Method in class org.encog.parse.tags.write.WriteTags
  Add CDATA to the output stream.
addChild(BayesianEvent) - Method in class org.encog.ml.bayesian.BayesianEvent
  Add a child event.
addChild(Genome) - Method in class org.encog.ml.ea.train.basic.BasicEA
  Add a child to the next iteration.
addChild(ActionNode, String, double) - Method in class org.encog.ml.schedule.ScheduleGraph
addChildNodes(TreeNode[]) - Method in class org.encog.ml.tree.basic.BasicTreeNode
addChildNodes(TreeNode[]) - Method in interface org.encog.ml.tree.TreeNode
  Add child nodes.
addClass(int) - Method in class org.encog.mathutil.probability.CalcProbability
addColumn(BaseCachedColumn) - Method in class org.encog.app.analyst.csv.basic.BasicCachedFile
  Add a new column.
addColumn(float[]) - Method in class org.encog.ml.data.auto.AutoFloatDataSet
addColumn(int, boolean) - Method in class org.encog.ml.data.buffer.EncogEGBFile
  Add a column.
addColumn(boolean) - Method in class org.encog.persist.EncogWriteHelper
  Add a boolean value as a column.
addColumn(double) - Method in class org.encog.persist.EncogWriteHelper
  Add a column as a double.
addColumn(int) - Method in class org.encog.persist.EncogWriteHelper
  Add a column as an integer.
addColumn(String) - Method in class org.encog.persist.EncogWriteHelper
  Add a column as a string.
addColumn(ActivationFunction) - Method in class org.encog.persist.EncogWriteHelper
addColumns(List<String>) - Method in class org.encog.persist.EncogWriteHelper
  Add a list of string columns.
addCommand(Cmd) - Method in class org.encog.app.analyst.EncogAnalyst
  Add a command.
addComment(String) - Method in class org.encog.app.generate.program.EncogTreeNode
  Add a comment.
addConstraintRule(ConstraintRule) - Method in class org.encog.ml.ea.rules.BasicRuleHolder
  Add a constraint rule.
addConstraintRule(ConstraintRule) - Method in interface org.encog.ml.ea.rules.RuleHolder
  Add a constraint rule.
addContent(DocumentRange) - Method in class org.encog.bot.browse.WebPage
  Add to the content collection.
addDataUnit(DataUnit) - Method in class org.encog.bot.browse.WebPage
  Add a data unit to the collection.
addDescription(TemporalDataDescription) - Method in class org.encog.ml.data.market.MarketMLDataSet
  Add one description of the type of market data that we are seeking at each datapoint.
addDescription(TemporalDataDescription) - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
  Add a data description.
addElement(DocumentRange) - Method in class org.encog.bot.browse.range.DocumentRange
  Add an element.
addExtension(ProgramExtensionTemplate) - Method in class org.encog.ml.prg.extension.FunctionFactory
  Add an opcode to the function factory.
addExtension(String, int) - Method in class org.encog.ml.prg.extension.FunctionFactory
  Add an opcode to the function factory from the opcode registry.
addField(OutputFieldGrouped) - Method in class org.encog.util.normalize.output.BasicOutputFieldGroup
  Add a field to this group.
addField(OutputFieldGrouped) - Method in interface org.encog.util.normalize.output.OutputFieldGroup
  Add an output field to the group.
addFilenameBase(File, String) - Static method in class org.encog.util.file.FileUtil
addGiven(String) - Method in class org.encog.ml.bayesian.bif.BIFDefinition
addGivenEvent(ParsedEvent) - Method in class org.encog.ml.bayesian.parse.ParsedProbability
addGoal(State) - Method in class org.encog.ml.world.basic.BasicWorld
addGoal(State) - Method in interface org.encog.ml.world.World
addHiddenLayer(int) - Method in class org.encog.neural.pattern.ADALINEPattern
  Not used, the ADALINE has no hidden layers, this will throw an error.
addHiddenLayer(int) - Method in class org.encog.neural.pattern.ART1Pattern
  This will fail, hidden layers are not supported for this type of network.
addHiddenLayer(int) - Method in class org.encog.neural.pattern.BAMPattern
  Unused, a BAM has no hidden layers.
addHiddenLayer(int) - Method in class org.encog.neural.pattern.BoltzmannPattern
  Not supported, will throw an exception, Boltzmann networks have no hidden layers.
addHiddenLayer(int) - Method in class org.encog.neural.pattern.CPNPattern
  Not used, will throw an error.
addHiddenLayer(int) - Method in class org.encog.neural.pattern.ElmanPattern
  Add a hidden layer with the specified number of neurons.
addHiddenLayer(int) - Method in class org.encog.neural.pattern.FeedForwardPattern
  Add a hidden layer, with the specified number of neurons.
addHiddenLayer(int) - Method in class org.encog.neural.pattern.HopfieldPattern
  Add a hidden layer.
addHiddenLayer(int) - Method in class org.encog.neural.pattern.JordanPattern
  Add a hidden layer, there should be only one.
addHiddenLayer(int) - Method in interface org.encog.neural.pattern.NeuralNetworkPattern
  Add the specified hidden layer.
addHiddenLayer(int) - Method in class org.encog.neural.pattern.PNNPattern
  Add a hidden layer.
addHiddenLayer(int) - Method in class org.encog.neural.pattern.RadialBasisPattern
  Add the hidden layer, this should be called once, as a RBF has a single hidden layer.
addHiddenLayer(int) - Method in class org.encog.neural.pattern.SOMPattern
  Add a hidden layer.
addHiddenLayer(int) - Method in class org.encog.neural.pattern.SVMPattern
  Unused, a BAM has no hidden layers.
addHiddenLayer(int, int) - Method in class org.encog.neural.prune.PruneIncremental
  Add a hidden layer's min and max.
addInclude(String) - Method in class org.encog.app.generate.generators.AbstractGenerator
  Add an include.
addInput(FreeformConnection) - Method in class org.encog.neural.freeform.basic.BasicFreeformNeuron
  Add an input connection to this neuron.
addInput(FreeformConnection) - Method in interface org.encog.neural.freeform.FreeformNeuron
  Add an input connection to this neuron.
addInputField(InputField) - Method in class org.encog.util.normalize.DataNormalization
  Add an input field.
addItem(InputField, double) - Method in class org.encog.util.normalize.output.nominal.OutputEquilateral
  Add a nominal value based on a single value.
addItem(InputField, double, double) - Method in class org.encog.util.normalize.output.nominal.OutputEquilateral
  Add a nominal item based on a range.
addItem(InputField, double) - Method in class org.encog.util.normalize.output.nominal.OutputOneOf
  Add a nominal value specifying a single value, the high and low values will be 0.5 below and 0.5 above.
addItem(InputField, double, double) - Method in class org.encog.util.normalize.output.nominal.OutputOneOf
  Add a nominal item, specify the low and high values.
addLayer(Layer) - Method in class org.encog.neural.networks.BasicNetwork
  Add a layer to the neural network.
addLine(String) - Method in class org.encog.app.generate.generators.AbstractGenerator
  Add a line of code, indent proper.
addLine(String) - Method in class org.encog.app.generate.generators.AbstractTemplateGenerator
  Add a line, with proper indention.
addLine(double, boolean, boolean...) - Method in class org.encog.ml.bayesian.table.BayesianTable
  Add a new line.
addLine(double, int, boolean...) - Method in class org.encog.ml.bayesian.table.BayesianTable
  Add a new line.
addLine(double, int, int...) - Method in class org.encog.ml.bayesian.table.BayesianTable
  Add a new line.
addLine(String) - Method in class org.encog.persist.EncogWriteHelper
  Add a line.
addListener(UniverseListener) - Method in class org.encog.ca.runner.BasicCARunner
addListener(UniverseListener) - Method in interface org.encog.ca.runner.CARunner
addMapping(String) - Method in class org.encog.util.normalize.input.InputFieldCSVText
  Add a string mapping.
addMember(EnsembleML) - Method in class org.encog.ensemble.adaboost.AdaBoost
addMember(EnsembleML) - Method in class org.encog.ensemble.Ensemble
  Add a member to the ensemble
addNameValue(String, double[]) - Method in class org.encog.app.generate.generators.AbstractTemplateGenerator
  Add a name value definition, as a double array.
addNameValue(String, int) - Method in class org.encog.app.generate.generators.AbstractTemplateGenerator
  Add a name-value as an int.
addNameValue(String, int[]) - Method in class org.encog.app.generate.generators.AbstractTemplateGenerator
  Add a name-value array where the value is an int array.
addNameValue(String, String) - Method in class org.encog.app.generate.generators.AbstractTemplateGenerator
  Add a name-value where a string is the value.
addNeuronID(long, List<NEATNeuronGene>, NEATGenome, NEATGenome) - Method in class org.encog.neural.neat.training.opp.NEATCrossover
  Add a neuron.
addObjective(double, CalculateScore) - Method in class org.encog.ml.fitness.MultiObjectiveFitness
  Add an objective.
addOperation(double, EvolutionaryOperator) - Method in class org.encog.ml.ea.train.basic.BasicEA
  Add an operation.
addOperation(double, EvolutionaryOperator) - Method in interface org.encog.ml.ea.train.EvolutionaryAlgorithm
  Add an operation.
addOption(String) - Method in class org.encog.ml.bayesian.bif.BIFVariable
addOutput(FreeformConnection) - Method in class org.encog.neural.freeform.basic.BasicFreeformNeuron
  Add an output connection to this neuron.
addOutput(FreeformConnection) - Method in interface org.encog.neural.freeform.FreeformNeuron
  Add an output connection to this neuron.
addOutputField(OutputField) - Method in class org.encog.util.normalize.DataNormalization
  Add an output field.
addOutputField(OutputField, boolean) - Method in class org.encog.util.normalize.DataNormalization
  Add a field and allow it to be specified as an "ideal output field".
addParent(BayesianEvent) - Method in class org.encog.ml.bayesian.BayesianEvent
  Add a parent event.
addPattern(MLData, MLData) - Method in class org.encog.neural.bam.BAM
  Add a pattern to the neural network.
addPattern(MLData) - Method in class org.encog.neural.thermal.HopfieldNetwork
  Train the neural network for the specified pattern.
addPerformer(ConcurrentTrainingPerformer) - Method in class org.encog.neural.networks.training.concurrent.ConcurrentTrainingManager
  Add a performer.
addPopulationMember(PrgPopulation, EncogProgram) - Method in class org.encog.ml.prg.generator.AbstractPrgGenerator
  Add a population member from one of the threads.
addProperties(Map<String, String>) - Method in class org.encog.persist.EncogWriteHelper
  Add the specified properties.
addProperty(String, double) - Method in class org.encog.parse.tags.write.WriteTags
  Add a property as a double.
addProperty(String, int) - Method in class org.encog.parse.tags.write.WriteTags
  Add a property as an integer.
addProperty(String, String) - Method in class org.encog.parse.tags.write.WriteTags
  Add a property as a string.
addProperty(String, double[], int) - Method in class org.encog.parse.tags.write.WriteTags
  Write an array as a property.
addProperty(String, int[], int) - Method in class org.encog.parse.tags.write.WriteTags
  Write an array as a property.
addRange(double, double, double) - Method in class org.encog.util.normalize.output.mapped.OutputFieldEncode
  Add a ranged mapped to a value.
addRange(double, double, boolean) - Method in class org.encog.util.normalize.segregate.RangeSegregator
  Add a range.
addRange(SegregationRange) - Method in class org.encog.util.normalize.segregate.RangeSegregator
  Add a range.
addRawHeadings(StringBuilder, String, CSVFormat) - Method in class org.encog.app.analyst.script.normalize.AnalystField
  Add headings for a raw file.
Address - Class in org.encog.bot.browse
  A URL address.
Address(URL) - Constructor for class org.encog.bot.browse.Address
  Construct the address from a URL.
Address(URL, String) - Constructor for class org.encog.bot.browse.Address
  Construct a URL using a perhaps relative URL and a base URL.
addRewriteRule(RewriteRule) - Method in class org.encog.ml.ea.rules.BasicRuleHolder
  Add a rewrite rule.
addRewriteRule(RewriteRule) - Method in interface org.encog.ml.ea.rules.RuleHolder
  Add a rewrite rule.
addRow(int) - Method in class org.encog.ml.data.buffer.EncogEGBFile
  Add a row.
addScoreAdjuster(AdjustScore) - Method in class org.encog.ml.ea.train.basic.BasicEA
  Add a score adjuster.
addScoreAdjuster(AdjustScore) - Method in interface org.encog.ml.ea.train.EvolutionaryAlgorithm
  Add a score adjuster.
addSection(String) - Method in class org.encog.persist.EncogWriteHelper
  Add a new section.
addSegregator(Segregator) - Method in class org.encog.util.normalize.DataNormalization
  Add a segregator.
addShutdownTask(EncogShutdownTask) - Method in class org.encog.Encog
  Add a shutdown task.
addSourceColumn(ColumnDefinition) - Method in class org.encog.ml.data.versatile.NormalizationHelper
  Add a source column.
addSpeciesMember(Species, Genome) - Method in class org.encog.ml.ea.species.ThresholdSpeciation
  Add a genome.
addState(State) - Method in class org.encog.ml.world.basic.BasicWorld
addState(State) - Method in interface org.encog.ml.world.World
addStrategy(Strategy) - Method in class org.encog.ml.ea.train.basic.TrainEA
  Training strategies can be added to improve the training results.
addStrategy(Strategy) - Method in class org.encog.ml.hmm.train.bw.BaseBaumWelch
addStrategy(Strategy) - Method in class org.encog.ml.hmm.train.kmeans.TrainKMeans
addStrategy(Strategy) - Method in class org.encog.ml.train.BasicTraining
  Training strategies can be added to improve the training results.
addStrategy(Strategy) - Method in interface org.encog.ml.train.MLTrain
  Training strategies can be added to improve the training results.
addSubSection(String) - Method in class org.encog.persist.EncogWriteHelper
  Add a new subsection.
addTask(AnalystTask) - Method in class org.encog.app.analyst.script.AnalystScript
  Add a task.
addTempTraining(int, double) - Method in class org.encog.neural.freeform.basic.BasicFreeformConnection
  Add to the specified temp value.
addTempTraining(int, double) - Method in class org.encog.neural.freeform.basic.BasicFreeformNeuron
  Add to the specified temp value.
addTempTraining(int, double) - Method in interface org.encog.neural.freeform.TempTrainingData
  Add to the specified temp value.
addText(String) - Method in class org.encog.parse.tags.write.WriteTags
  Add text.
addToBeginning(String) - Method in class org.encog.app.generate.generators.AbstractGenerator
  Add to the beginning of the file.
addTrainingJob(TrainingJob) - Method in class org.encog.neural.networks.training.concurrent.ConcurrentTrainingManager
  Add a training job.
addType(String) - Method in class org.encog.ml.prg.extension.ParamTemplate
  Add the specified type.
addType(ValueType) - Method in class org.encog.ml.prg.extension.ParamTemplate
  Add a type using a type enum.
addWeight(double) - Method in class org.encog.neural.freeform.basic.BasicFreeformConnection
  Add to the connection weight.
addWeight(double) - Method in interface org.encog.neural.freeform.FreeformConnection
  Add to the connection weight.
addWeight(int, int, int, double) - Method in class org.encog.neural.networks.BasicNetwork
  Add to a weight.
addWeight(int, int, double) - Method in class org.encog.neural.thermal.ThermalNetwork
  Add to the specified weight.
addX(int) - Method in class org.encog.mathutil.IntPair
addY(int) - Method in class org.encog.mathutil.IntPair
AdjustScore - Interface in org.encog.ml.ea.score
  Score adjusters adjust the score according to some means.
adjustWeights() - Method in class org.encog.neural.art.ART1
  Adjust the weights for the pattern just presented.
advance() - Method in class org.encog.util.SimpleParser
advance(int) - Method in class org.encog.util.SimpleParser
AF_BIPOLAR - Static variable in class org.encog.ml.factory.MLActivationFactory
AF_COMPETITIVE - Static variable in class org.encog.ml.factory.MLActivationFactory
AF_GAUSSIAN - Static variable in class org.encog.ml.factory.MLActivationFactory
AF_LINEAR - Static variable in class org.encog.ml.factory.MLActivationFactory
AF_LOG - Static variable in class org.encog.ml.factory.MLActivationFactory
AF_RAMP - Static variable in class org.encog.ml.factory.MLActivationFactory
AF_SIGMOID - Static variable in class org.encog.ml.factory.MLActivationFactory
AF_SIN - Static variable in class org.encog.ml.factory.MLActivationFactory
AF_SOFTMAX - Static variable in class org.encog.ml.factory.MLActivationFactory
AF_SSIGMOID - Static variable in class org.encog.ml.factory.MLActivationFactory
AF_STEP - Static variable in class org.encog.ml.factory.MLActivationFactory
AF_TANH - Static variable in class org.encog.ml.factory.MLActivationFactory
AgentPolicy - Interface in org.encog.ml.world
aggregator - Variable in class org.encog.ensemble.Ensemble
aggregatorDataSet - Variable in class org.encog.ensemble.Ensemble
allConstChildren() - Method in class org.encog.ml.prg.ProgramNode
allConstDescendants() - Method in class org.encog.ml.prg.ProgramNode
allLeafChildren() - Method in class org.encog.ml.tree.basic.BasicTreeNode
allLeafChildren() - Method in interface org.encog.ml.tree.TreeNode
allocate(int) - Method in class org.encog.app.analyst.csv.basic.BaseCachedColumn
  Allocate enough space for this column.
allocateInputVector() - Method in class org.encog.ml.data.versatile.NormalizationHelper
  Allocate a data item large enough to hold a single input vector.
allocateInputVector(int) - Method in class org.encog.ml.data.versatile.NormalizationHelper
  Allocate a data item large enough to hold several input vectors.
allocateMask(int) - Method in class org.encog.ml.data.versatile.division.DataDivision
  Allocat space to hold the mask.
allocateTempTraining(int) - Method in class org.encog.neural.freeform.basic.BasicFreeformConnection
  Allocate the specified length of temp training.
allocateTempTraining(int) - Method in class org.encog.neural.freeform.basic.BasicFreeformNeuron
  Allocate the specified length of temp training.
allocateTempTraining(int) - Method in interface org.encog.neural.freeform.TempTrainingData
  Allocate the specified length of temp training.
alpha - Variable in class org.encog.ml.hmm.alog.ForwardBackwardCalculator
  Alpha matrix.
alphaElement(int, int) - Method in class org.encog.ml.hmm.alog.ForwardBackwardCalculator
  Alpha element.
AnalystClassItem - Class in org.encog.app.analyst.script
  Holds a class item for the script.
AnalystClassItem(String, String, int) - Constructor for class org.encog.app.analyst.script.AnalystClassItem
  Construct a class item.
AnalystClusterCSV - Class in org.encog.app.analyst.csv
  Used by the analyst to cluster a CSV file.
AnalystClusterCSV() - Constructor for class org.encog.app.analyst.csv.AnalystClusterCSV
AnalystCodeGenerationError - Exception in org.encog.app.generate
  Analyst code generation error.
AnalystCodeGenerationError(String) - Constructor for exception org.encog.app.generate.AnalystCodeGenerationError
  Construct a message exception.
AnalystCodeGenerationError(String, Throwable) - Constructor for exception org.encog.app.generate.AnalystCodeGenerationError
  Construct an exception that holds another exception.
AnalystCodeGenerationError(Throwable) - Constructor for exception org.encog.app.generate.AnalystCodeGenerationError
  Construct an exception that holds another exception.
AnalystError - Exception in org.encog.app.analyst
  An error has occured with the Encog Analyst.
AnalystError(String) - Constructor for exception org.encog.app.analyst.AnalystError
  Construct a message exception.
AnalystError(Throwable) - Constructor for exception org.encog.app.analyst.AnalystError
  Construct an exception that holds another exception.
AnalystError(String, Throwable) - Constructor for exception org.encog.app.analyst.AnalystError
  Construct an exception that holds another exception.
AnalystEvaluateCSV - Class in org.encog.app.analyst.csv
  Used by the analyst to evaluate a CSV file.
AnalystEvaluateCSV() - Constructor for class org.encog.app.analyst.csv.AnalystEvaluateCSV
AnalystEvaluateRawCSV - Class in org.encog.app.analyst.csv
  Used by the analyst to evaluate a CSV file.
AnalystEvaluateRawCSV() - Constructor for class org.encog.app.analyst.csv.AnalystEvaluateRawCSV
AnalystField - Class in org.encog.app.analyst.script.normalize
  Holds a field to be analyzed.
AnalystField() - Constructor for class org.encog.app.analyst.script.normalize.AnalystField
  Construct the object with a range of 1 and -1.
AnalystField(AnalystField) - Constructor for class org.encog.app.analyst.script.normalize.AnalystField
  Construct an analyst field.
AnalystField(double, double) - Constructor for class org.encog.app.analyst.script.normalize.AnalystField
  Construct the object.
AnalystField(NormalizationAction, String) - Constructor for class org.encog.app.analyst.script.normalize.AnalystField
  Construct an object.
AnalystField(NormalizationAction, String, double, double, double, double) - Constructor for class org.encog.app.analyst.script.normalize.AnalystField
  Construct the field, with no defaults.
AnalystField(String, NormalizationAction, double, double) - Constructor for class org.encog.app.analyst.script.normalize.AnalystField
  Construct an analyst field to use.
AnalystFileFormat - Enum in org.encog.app.analyst
  CSV file formats used by the Encog Analyst.
analystFileFormat2String(AnalystFileFormat) - Static method in class org.encog.app.analyst.util.ConvertStringConst
  Convert a file format to a string.
AnalystGoal - Enum in org.encog.app.analyst
  What is the goal of the Encog Analyst?
AnalystListener - Interface in org.encog.app.analyst
  Reports the progress of the Encog Analyst.
AnalystNormalize - Class in org.encog.app.analyst.script.normalize
  This class holds information about the fields that the Encog Analyst will normalize.
AnalystNormalize(AnalystScript) - Constructor for class org.encog.app.analyst.script.normalize.AnalystNormalize
  Construct the object.
AnalystNormalizeCSV - Class in org.encog.app.analyst.csv.normalize
  Normalize, or denormalize, a CSV file.
AnalystNormalizeCSV() - Constructor for class org.encog.app.analyst.csv.normalize.AnalystNormalizeCSV
AnalystNormalizeToEGB - Class in org.encog.app.analyst.csv.normalize
  Normalize, or denormalize, a CSV file.
AnalystNormalizeToEGB() - Constructor for class org.encog.app.analyst.csv.normalize.AnalystNormalizeToEGB
AnalystPreprocess - Class in org.encog.app.analyst.script.preprocess
AnalystPreprocess(AnalystScript) - Constructor for class org.encog.app.analyst.script.preprocess.AnalystPreprocess
  Construct the object.
AnalystProcess - Class in org.encog.app.analyst.csv.process
  Perform many different types of transformations on a CSV.
AnalystProcess(EncogAnalyst, int, int) - Constructor for class org.encog.app.analyst.csv.process.AnalystProcess
  Construct the object.
AnalystProcess - Class in org.encog.app.analyst.script.process
  Script holder for Encog Analyst preprocessing.
AnalystProcess() - Constructor for class org.encog.app.analyst.script.process.AnalystProcess
AnalystReport - Class in org.encog.app.analyst.report
  Produce a simple report on the makeup of the script and data to be analyued.
AnalystReport(EncogAnalyst) - Constructor for class org.encog.app.analyst.report.AnalystReport
  Construct the report.
AnalystReportBridge - Class in org.encog.app.analyst.util
  Used to bridge the AnalystListerner to an StatusReportable object.
AnalystReportBridge(EncogAnalyst) - Constructor for class org.encog.app.analyst.util.AnalystReportBridge
  Construct the bridge object.
AnalystScript - Class in org.encog.app.analyst.script
  Holds a script for the Encog Analyst.
AnalystScript() - Constructor for class org.encog.app.analyst.script.AnalystScript
  Construct an analyst script.
AnalystSegregate - Class in org.encog.app.analyst.script.segregate
  Holds all of the segregation targets for a script.
AnalystSegregate() - Constructor for class org.encog.app.analyst.script.segregate.AnalystSegregate
AnalystSegregateTarget - Class in org.encog.app.analyst.script.segregate
  This class specifies a target for the segregation process.
AnalystSegregateTarget(String, int) - Constructor for class org.encog.app.analyst.script.segregate.AnalystSegregateTarget
  Construct the segregation target.
AnalystTask - Class in org.encog.app.analyst.script.task
  Holds a task in the script.
AnalystTask(String) - Constructor for class org.encog.app.analyst.script.task.AnalystTask
  Construct an analyst task.
AnalystUtility - Class in org.encog.app.analyst.util
  Provides an interface to the analyst usually used by other programs.
AnalystUtility(EncogAnalyst) - Constructor for class org.encog.app.analyst.util.AnalystUtility
  Construct the analyst utility.
AnalystWizard - Class in org.encog.app.analyst.wizard
  The Encog Analyst Wizard can be used to create Encog Analyst script files from a CSV file.
AnalystWizard(EncogAnalyst) - Constructor for class org.encog.app.analyst.wizard.AnalystWizard
  Construct the analyst wizard.
analyze(EncogAnalyst, File, boolean, CSVFormat) - Method in class org.encog.app.analyst.csv.AnalystClusterCSV
  Analyze the data.
analyze(EncogAnalyst, File, boolean, CSVFormat) - Method in class org.encog.app.analyst.csv.AnalystEvaluateCSV
  Analyze the data.
analyze(EncogAnalyst, File, boolean, CSVFormat) - Method in class org.encog.app.analyst.csv.AnalystEvaluateRawCSV
  Analyze the data.
analyze(File, boolean, CSVFormat) - Method in class org.encog.app.analyst.csv.balance.BalanceCSV
  Analyze the data.
analyze(File, boolean, CSVFormat) - Method in class org.encog.app.analyst.csv.basic.BasicCachedFile
  Analyze the input file.
analyze(File, boolean, CSVFormat) - Method in class org.encog.app.analyst.csv.filter.FilterCSV
  Analyze the file.
analyze(File, boolean, CSVFormat, EncogAnalyst) - Method in class org.encog.app.analyst.csv.normalize.AnalystNormalizeCSV
  Analyze the file.
analyze(File, boolean, CSVFormat, EncogAnalyst) - Method in class org.encog.app.analyst.csv.normalize.AnalystNormalizeToEGB
  Analyze the file.
analyze(File, boolean, CSVFormat) - Method in class org.encog.app.analyst.csv.process.AnalystProcess
  Analyze the neural network.
analyze(File, boolean, CSVFormat) - Method in class org.encog.app.analyst.csv.segregate.SegregateCSV
  Analyze the input file.
analyze(File, boolean, CSVFormat) - Method in class org.encog.app.analyst.csv.shuffle.ShuffleCSV
  Analyze the neural network.
analyze(File, boolean, AnalystFileFormat) - Method in class org.encog.app.analyst.EncogAnalyst
  Analyze the specified file.
analyze(double) - Method in class org.encog.app.analyst.script.normalize.AnalystField
  Analyze the specified value.
analyze(File) - Method in class org.encog.app.analyst.util.AnalystUtility
analyze(String) - Method in class org.encog.ml.data.versatile.columns.ColumnDefinition
  Analyze the specified value.
analyze() - Method in class org.encog.ml.data.versatile.VersatileMLDataSet
  Analyze the input and determine max, min, mean, etc.
analyze(double) - Method in class org.encog.util.arrayutil.NormalizedField
  Analyze the specified value.
analyze(double[]) - Method in class org.encog.util.arrayutil.TemporalWindowArray
  Analyze the 1D array.
analyze(double[][]) - Method in class org.encog.util.arrayutil.TemporalWindowArray
  Analyze the 2D array.
analyze1(String) - Method in class org.encog.app.analyst.analyze.AnalyzedField
  Perform a pass one analysis of this field.
analyze2(String) - Method in class org.encog.app.analyst.analyze.AnalyzedField
  Perform a pass two analysis of this field.
AnalyzedField - Class in org.encog.app.analyst.analyze
  This class represents a field that the Encog Analyst is in the process of analyzing.
AnalyzedField(AnalystScript, String) - Constructor for class org.encog.app.analyst.analyze.AnalyzedField
  Construct an analyzed field.
AnalyzeNetwork - Class in org.encog.neural.networks.structure
  Allows the weights and bias values of the neural network to be analyzed.
AnalyzeNetwork(BasicNetwork) - Constructor for class org.encog.neural.networks.structure.AnalyzeNetwork
  Construct a network analyze class.
ANNEAL_CYCLES - Static variable in class org.encog.neural.thermal.BoltzmannMachine
  The property for anneal cycles.
AnnealFactory - Class in org.encog.ml.factory.train
  A factory to create simulated annealing trainers.
AnnealFactory() - Constructor for class org.encog.ml.factory.train.AnnealFactory
appendSeparator(StringBuilder, CSVFormat) - Static method in class org.encog.app.analyst.csv.basic.BasicFile
  Append a separator.
applyBonus(double, double) - Method in class org.encog.ml.ea.sort.AbstractGenomeComparator
  Apply a bonus, this is a simple percent that is applied in the direction specified by the "should minimize" property of the score function.
applyBonus(double, double) - Method in interface org.encog.ml.ea.sort.GenomeComparator
  Apply a bonus, this is a simple percent that is applied in the direction specified by the "should minimize" property of the score function.
applyMinMax(double) - Method in class org.encog.util.normalize.input.BasicInputField
  Given the current value, apply to the min and max values.
applyMinMax(double) - Method in interface org.encog.util.normalize.input.InputField
  Update the min and max values for this field with the specified values.
applyPenalty(double, double) - Method in class org.encog.ml.ea.sort.AbstractGenomeComparator
  Apply a penalty, this is a simple percent that is applied in the direction specified by the "should minimize" property of the score function.
applyPenalty(double, double) - Method in interface org.encog.ml.ea.sort.GenomeComparator
  Apply a penalty, this is a simple percent that is applied in the direction specified by the "should minimize" property of the score function.
ArchitectureLayer - Class in org.encog.ml.factory.parse
  Holds the parse results for one layer.
ArchitectureLayer() - Constructor for class org.encog.ml.factory.parse.ArchitectureLayer
ArchitectureParse - Class in org.encog.ml.factory.parse
  This class is used to parse a Encog architecture string.
arg() - Method in class org.encog.mathutil.ComplexNumber
  Argument of this Complex number (the angle in radians with the x-axis in polar coordinates).
arrayAdd(double[][], double[][]) - Static method in class org.encog.util.EngineArray
arrayCopy(double[]) - Static method in class org.encog.util.EngineArray
  Copy a double array.
arrayCopy(byte[]) - Static method in class org.encog.util.EngineArray
  Copy a byte array.
arrayCopy(double[], double[]) - Static method in class org.encog.util.EngineArray
  Completely copy one array into another.
arrayCopy(double[], float[]) - Static method in class org.encog.util.EngineArray
  Copy an array of floats to an array of doubles.
arrayCopy(double[], int, double[], int, int) - Static method in class org.encog.util.EngineArray
  Copy an array of doubles.
arrayCopy(double[][]) - Static method in class org.encog.util.EngineArray
  Copy a 2D double array.
arrayCopy(float[], double[]) - Static method in class org.encog.util.EngineArray
  Copy an array of floats to an array of doubles.
arrayCopy(int[]) - Static method in class org.encog.util.EngineArray
  Copy an int array.
arrayCopy(int[], int[]) - Static method in class org.encog.util.EngineArray
  Completely copy one array into another.
arrayCopy(byte[], int, byte[], int, int) - Static method in class org.encog.util.EngineArray
arrayCopy(int[], int, int[], int, int) - Static method in class org.encog.util.EngineArray
ArrayDataCODEC - Class in org.encog.ml.data.buffer.codec
  A CODEC used for arrays.
ArrayDataCODEC(double[][], double[][]) - Constructor for class org.encog.ml.data.buffer.codec.ArrayDataCODEC
  Construct an array CODEC.
ArrayDataCODEC() - Constructor for class org.encog.ml.data.buffer.codec.ArrayDataCODEC
  Default constructor.
ArrayGenome - Interface in org.encog.ml.genetic.genome
  An array genome represents an array of "something", this allows array operators such as crossover and mutate to work on the genome.
arrayToNetwork(double[], MLMethod) - Static method in class org.encog.neural.networks.structure.NetworkCODEC
  Use an array to populate the memory of the neural network.
ART - Class in org.encog.neural.art
  Adaptive Resonance Theory (ART) is a form of neural network developed by Stephen Grossberg and Gail Carpenter.
ART() - Constructor for class org.encog.neural.art.ART
ART1 - Class in org.encog.neural.art
  Implements an ART1 neural network.
ART1() - Constructor for class org.encog.neural.art.ART1
  Default constructor, used mainly for persistence.
ART1(int, int) - Constructor for class org.encog.neural.art.ART1
  Construct the ART1 network.
ART1Pattern - Class in org.encog.neural.pattern
  Pattern to create an ART-1 neural network.
ART1Pattern() - Constructor for class org.encog.neural.pattern.ART1Pattern
assignGeneID() - Method in class org.encog.neural.neat.NEATPopulation
assignInnovationID() - Method in class org.encog.neural.neat.NEATPopulation
assignInputNormalizer(ColumnType, Normalizer) - Method in class org.encog.ml.data.versatile.normalizers.strategies.BasicNormalizationStrategy
  Assign a normalizer to the specified column type for output.
assignOutputNormalizer(ColumnType, Normalizer) - Method in class org.encog.ml.data.versatile.normalizers.strategies.BasicNormalizationStrategy
  Assign a normalizer to the specified column type for output.
AStarSearch - Class in org.encog.ml.graph.search
AStarSearch(BasicGraph, BasicNode, SearchGoal, CostEstimator) - Constructor for class org.encog.ml.graph.search.AStarSearch
ATanErrorFunction - Class in org.encog.neural.error
  An ATan based error function.
ATanErrorFunction() - Constructor for class org.encog.neural.error.ATanErrorFunction
attemptCreateGenome(Random, Population) - Method in class org.encog.ml.prg.generator.AbstractPrgGenerator
  Attempt to create a genome.
autoDecay() - Method in class org.encog.neural.som.training.basic.BasicTrainSOM
  Should be called each iteration if autodecay is desired.
AutoFloatColumn - Class in org.encog.ml.data.auto
AutoFloatColumn(float[]) - Constructor for class org.encog.ml.data.auto.AutoFloatColumn
AutoFloatColumn(float[], float, float) - Constructor for class org.encog.ml.data.auto.AutoFloatColumn
AutoFloatDataSet - Class in org.encog.ml.data.auto
AutoFloatDataSet(int, int, int, int) - Constructor for class org.encog.ml.data.auto.AutoFloatDataSet
AutoFloatDataSet.AutoFloatIterator - Class in org.encog.ml.data.auto
AutoFloatDataSet.AutoFloatIterator() - Constructor for class org.encog.ml.data.auto.AutoFloatDataSet.AutoFloatIterator
autoMinMax() - Method in class org.encog.ml.data.auto.AutoFloatColumn
average(int) - Method in class org.encog.app.quant.util.BarBuffer
  Average all of the bars.
averageGain(int) - Method in class org.encog.app.quant.util.BarBuffer
  Get the average gain.
averageLoss(int) - Method in class org.encog.app.quant.util.BarBuffer
  Get the average loss.
Averaging - Class in org.encog.ensemble.aggregator
Averaging() - Constructor for class org.encog.ensemble.aggregator.Averaging

## B

Backpropagation - Class in org.encog.neural.networks.training.propagation.back
  This class implements a backpropagation training algorithm for feed forward neural networks.
Backpropagation(ContainsFlat, MLDataSet) - Constructor for class org.encog.neural.networks.training.propagation.back.Backpropagation
  Create a class to train using backpropagation.
Backpropagation(ContainsFlat, MLDataSet, double, double) - Constructor for class org.encog.neural.networks.training.propagation.back.Backpropagation
BackpropagationFactory - Class in org.encog.ensemble.training
BackpropagationFactory() - Constructor for class org.encog.ensemble.training.BackpropagationFactory
BackPropFactory - Class in org.encog.ml.factory.train
  A factory for backpropagation training.
BackPropFactory() - Constructor for class org.encog.ml.factory.train.BackPropFactory
backward(ActionNode) - Method in class org.encog.ml.schedule.CalculateScheduleTimes
Bagging - Class in org.encog.ensemble.bagging
Bagging(int, int, EnsembleMLMethodFactory, EnsembleTrainFactory, EnsembleAggregator) - Constructor for class org.encog.ensemble.bagging.Bagging
BagOfWords - Class in org.encog.util.text
BagOfWords(int) - Constructor for class org.encog.util.text.BagOfWords
BagOfWords() - Constructor for class org.encog.util.text.BagOfWords
BALANCE_CONFIG_BALANCE_FIELD - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "BALANCE:CONFIG_balanceField".
BALANCE_CONFIG_COUNT_PER - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "BALANCE:CONFIG_countPer".
BALANCE_CONFIG_SOURCE_FILE - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "BALANCE:CONFIG_sourceFile".
BALANCE_CONFIG_TARGET_FILE - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "BALANCE:CONFIG_targetFile".
BalanceCSV - Class in org.encog.app.analyst.csv.balance
  Balance a CSV file.
BalanceCSV() - Constructor for class org.encog.app.analyst.csv.balance.BalanceCSV
BAM - Class in org.encog.neural.bam
  Bidirectional associative memory (BAM) is a type of neural network developed by Bart Kosko in 1988.
BAM() - Constructor for class org.encog.neural.bam.BAM
  Default constructor, used mainly for persistence.
BAM(int, int) - Constructor for class org.encog.neural.bam.BAM
  Construct the BAM network.
BAMPattern - Class in org.encog.neural.pattern
  Construct a Bidirectional Access Memory (BAM) neural network.
BAMPattern() - Constructor for class org.encog.neural.pattern.BAMPattern
BarBuffer - Class in org.encog.app.quant.util
  A buffer of bar segments.
BarBuffer(int) - Constructor for class org.encog.app.quant.util.BarBuffer
  Construct the object.
Base64 - Class in org.encog.util.text
  Encodes and decodes to and from Base64 notation.
Base64.InputStream - Class in org.encog.util.text
  A `Base64.InputStream` will read data from another `java.io.InputStream`, given in the constructor, and encode/decode to/from Base64 notation on the fly.
Base64.InputStream(InputStream) - Constructor for class org.encog.util.text.Base64.InputStream
  Constructs a `Base64.InputStream` in DECODE mode.
Base64.InputStream(InputStream, int) - Constructor for class org.encog.util.text.Base64.InputStream
  Constructs a `Base64.InputStream` in either ENCODE or DECODE mode.
Base64.OutputStream - Class in org.encog.util.text
  A `Base64.OutputStream` will write data to another `java.io.OutputStream`, given in the constructor, and encode/decode to/from Base64 notation on the fly.
Base64.OutputStream(OutputStream) - Constructor for class org.encog.util.text.Base64.OutputStream
  Constructs a `Base64.OutputStream` in ENCODE mode.
Base64.OutputStream(OutputStream, int) - Constructor for class org.encog.util.text.Base64.OutputStream
  Constructs a `Base64.OutputStream` in either ENCODE or DECODE mode.
BaseBaumWelch - Class in org.encog.ml.hmm.train.bw
  This class provides the base implementation for Baum-Welch learning for HMM's.
BaseBaumWelch(HiddenMarkovModel, MLSequenceSet) - Constructor for class org.encog.ml.hmm.train.bw.BaseBaumWelch
BaseCachedColumn - Class in org.encog.app.analyst.csv.basic
  A basic cached column.
BaseCachedColumn(String, boolean, boolean) - Constructor for class org.encog.app.analyst.csv.basic.BaseCachedColumn
  Construct the cached column.
BasicAction - Class in org.encog.ml.world.basic
BasicAction(String) - Constructor for class org.encog.ml.world.basic.BasicAction
BasicActivationSummation - Class in org.encog.neural.freeform.basic
  Provides a basic implementation of an input summation.
BasicActivationSummation(ActivationFunction) - Constructor for class org.encog.neural.freeform.basic.BasicActivationSummation
  Construct the activation summation.
BasicActivationSummationFactory - Class in org.encog.neural.freeform.basic
  A factory to create BasicFactivationSUmmation objects.
BasicActivationSummationFactory() - Constructor for class org.encog.neural.freeform.basic.BasicActivationSummationFactory
BasicAgent - Class in org.encog.ml.world.basic
BasicAgent() - Constructor for class org.encog.ml.world.basic.BasicAgent
BasicCachedFile - Class in org.encog.app.analyst.csv.basic
  Forms the foundation of all of the cached files in Encog Quant.
BasicCachedFile() - Constructor for class org.encog.app.analyst.csv.basic.BasicCachedFile
BasicCARunner - Class in org.encog.ca.runner
BasicCARunner(Universe, CAProgram) - Constructor for class org.encog.ca.runner.BasicCARunner
BasicCAVisualizer - Class in org.encog.ca.visualize.basic
BasicCAVisualizer(Universe) - Constructor for class org.encog.ca.visualize.basic.BasicCAVisualizer
BasicCellFactory - Class in org.encog.ca.universe.basic
BasicCellFactory(int, double, double) - Constructor for class org.encog.ca.universe.basic.BasicCellFactory
BasicCellFactory(int, int) - Constructor for class org.encog.ca.universe.basic.BasicCellFactory
BasicCluster - Class in org.encog.ml.kmeans
  Holds a cluster of MLData items that have been clustered by the KMeansClustering class.
BasicCluster(Cluster<BasicMLDataPair>) - Constructor for class org.encog.ml.kmeans.BasicCluster
  Construct a cluster from another.
BasicContinuousCell - Class in org.encog.ca.universe.basic
BasicContinuousCell(int, double, double) - Constructor for class org.encog.ca.universe.basic.BasicContinuousCell
BasicDiscreteCell - Class in org.encog.ca.universe.basic
BasicDiscreteCell(int, int) - Constructor for class org.encog.ca.universe.basic.BasicDiscreteCell
BasicEA - Class in org.encog.ml.ea.train.basic
  Provides a basic implementation of a multi-threaded Evolutionary Algorithm.
BasicEA(Population, CalculateScore) - Constructor for class org.encog.ml.ea.train.basic.BasicEA
  Construct an EA.
BasicEdge - Class in org.encog.ml.graph
BasicEdge(BasicNode, BasicNode, double) - Constructor for class org.encog.ml.graph.BasicEdge
BasicFile - Class in org.encog.app.analyst.csv.basic
  Many of the Encog quant CSV processors are based upon this class.
BasicFile() - Constructor for class org.encog.app.analyst.csv.basic.BasicFile
  Construct the object, and set the defaults.
BasicFreeformConnection - Class in org.encog.neural.freeform.basic
  A basic freeform connection.
BasicFreeformConnection(FreeformNeuron, FreeformNeuron) - Constructor for class org.encog.neural.freeform.basic.BasicFreeformConnection
  Construct a basic freeform connection.
BasicFreeformConnectionFactory - Class in org.encog.neural.freeform.basic
BasicFreeformConnectionFactory() - Constructor for class org.encog.neural.freeform.basic.BasicFreeformConnectionFactory
BasicFreeformLayer - Class in org.encog.neural.freeform.basic
  Implements a basic freeform layer.
BasicFreeformLayer() - Constructor for class org.encog.neural.freeform.basic.BasicFreeformLayer
BasicFreeformLayerFactory - Class in org.encog.neural.freeform.basic
  A factory that creates BasicFreeformLayer objects.
BasicFreeformLayerFactory() - Constructor for class org.encog.neural.freeform.basic.BasicFreeformLayerFactory
BasicFreeformNeuron - Class in org.encog.neural.freeform.basic
  This class provides a basic implementation of a freeform neuron.
BasicFreeformNeuron(InputSummation) - Constructor for class org.encog.neural.freeform.basic.BasicFreeformNeuron
BasicFreeformNeuronFactory - Class in org.encog.neural.freeform.basic
  A factory to create BasicFreeformNeuron objects.
BasicFreeformNeuronFactory() - Constructor for class org.encog.neural.freeform.basic.BasicFreeformNeuronFactory
BasicGenerateID - Class in org.encog.util.identity
  Used to generate a unique id.
BasicGenerateID() - Constructor for class org.encog.util.identity.BasicGenerateID
  Construct the ID generator to start at 1.
BasicGenerateRandom - Class in org.encog.mathutil.randomize.generate
  A wrapper over Java's built in random number generator.
BasicGenerateRandom(long) - Constructor for class org.encog.mathutil.randomize.generate.BasicGenerateRandom
  Construct a random number generator with the specified seed.
BasicGenerateRandom() - Constructor for class org.encog.mathutil.randomize.generate.BasicGenerateRandom
  Construct a random number generator with a time-based seed.
BasicGenome - Class in org.encog.ml.ea.genome
  A basic abstract genome.
BasicGenome() - Constructor for class org.encog.ml.ea.genome.BasicGenome
BasicGraph - Class in org.encog.ml.graph
BasicGraph(BasicNode) - Constructor for class org.encog.ml.graph.BasicGraph
BasicHessian - Class in org.encog.mathutil.matrices.hessian
  Some basic code used to calculate Hessian matrixes.
BasicHessian() - Constructor for class org.encog.mathutil.matrices.hessian.BasicHessian
BasicInputField - Class in org.encog.util.normalize.input
  Provides basic functionality, such as min/max and current value for other input fields.
BasicInputField() - Constructor for class org.encog.util.normalize.input.BasicInputField
BasicLayer - Class in org.encog.neural.networks.layers
  Basic functionality that most of the neural layers require.
BasicLayer(ActivationFunction, boolean, int) - Constructor for class org.encog.neural.networks.layers.BasicLayer
  Construct this layer with a non-default activation function, also determine if a bias is desired or not.
BasicLayer(int) - Constructor for class org.encog.neural.networks.layers.BasicLayer
  Construct this layer with a sigmoid activation function.
BasicML - Class in org.encog.ml
  A class that provides basic property functionality for the MLProperties interface.
BasicML() - Constructor for class org.encog.ml.BasicML
BasicMLComplexData - Class in org.encog.ml.data.basic
  This class implements a data object that can hold complex numbers.
BasicMLComplexData(double[]) - Constructor for class org.encog.ml.data.basic.BasicMLComplexData
  Construct this object with the specified data.
BasicMLComplexData(ComplexNumber[]) - Constructor for class org.encog.ml.data.basic.BasicMLComplexData
  Construct this object with the specified data.
BasicMLComplexData(int) - Constructor for class org.encog.ml.data.basic.BasicMLComplexData
  Construct this object with blank data and a specified size.
BasicMLComplexData(MLData) - Constructor for class org.encog.ml.data.basic.BasicMLComplexData
  Construct a new BasicMLData object from an existing one.
BasicMLData - Class in org.encog.ml.data.basic
  Basic implementation of the MLData interface that stores the data in an array.
BasicMLData(double[]) - Constructor for class org.encog.ml.data.basic.BasicMLData
  Construct this object with the specified data.
BasicMLData(int) - Constructor for class org.encog.ml.data.basic.BasicMLData
  Construct this object with blank data and a specified size.
BasicMLData(MLData) - Constructor for class org.encog.ml.data.basic.BasicMLData
  Construct a new BasicMLData object from an existing one.
BasicMLDataCentroid - Class in org.encog.ml.data.basic
  A basic implementation of a centroid.
BasicMLDataCentroid(MLData) - Constructor for class org.encog.ml.data.basic.BasicMLDataCentroid
  Construct the centroid.
BasicMLDataPair - Class in org.encog.ml.data.basic
  A basic implementation of the MLDataPair interface.
BasicMLDataPair(MLData) - Constructor for class org.encog.ml.data.basic.BasicMLDataPair
  Construct the object with only input.
BasicMLDataPair(MLData, MLData) - Constructor for class org.encog.ml.data.basic.BasicMLDataPair
  Construct a BasicMLDataPair class with the specified input and ideal values.
BasicMLDataPairCentroid - Class in org.encog.ml.data.basic
  A centroid for BasicMLDataPair.
BasicMLDataPairCentroid(BasicMLDataPair) - Constructor for class org.encog.ml.data.basic.BasicMLDataPairCentroid
  Construct the centroid.
BasicMLDataSet - Class in org.encog.ml.data.basic
  Stores data in an ArrayList.
BasicMLDataSet() - Constructor for class org.encog.ml.data.basic.BasicMLDataSet
  Default constructor.
BasicMLDataSet(double[][], double[][]) - Constructor for class org.encog.ml.data.basic.BasicMLDataSet
  Construct a data set from an input and ideal array.
BasicMLDataSet(List<MLDataPair>) - Constructor for class org.encog.ml.data.basic.BasicMLDataSet
  Construct a data set from an already created list.
BasicMLDataSet(MLDataSet) - Constructor for class org.encog.ml.data.basic.BasicMLDataSet
  Copy whatever dataset type is specified into a memory dataset.
BasicMLDataSet.BasicMLIterator - Class in org.encog.ml.data.basic
  An iterator to be used with the BasicMLDataSet.
BasicMLDataSet.BasicMLIterator() - Constructor for class org.encog.ml.data.basic.BasicMLDataSet.BasicMLIterator
BasicMLSequenceSet - Class in org.encog.ml.data.basic
  A basic implementation of the MLSequenceSet.
BasicMLSequenceSet() - Constructor for class org.encog.ml.data.basic.BasicMLSequenceSet
  Default constructor.
BasicMLSequenceSet(BasicMLSequenceSet) - Constructor for class org.encog.ml.data.basic.BasicMLSequenceSet
BasicMLSequenceSet(double[][], double[][]) - Constructor for class org.encog.ml.data.basic.BasicMLSequenceSet
  Construct a data set from an input and ideal array.
BasicMLSequenceSet(List<MLDataPair>) - Constructor for class org.encog.ml.data.basic.BasicMLSequenceSet
  Construct a data set from an already created list.
BasicMLSequenceSet(MLDataSet) - Constructor for class org.encog.ml.data.basic.BasicMLSequenceSet
  Copy whatever dataset type is specified into a memory dataset.
BasicMLSequenceSet.BasicMLSeqIterator - Class in org.encog.ml.data.basic
  An iterator to be used with the BasicMLDataSet.
BasicMLSequenceSet.BasicMLSeqIterator() - Constructor for class org.encog.ml.data.basic.BasicMLSequenceSet.BasicMLSeqIterator
BasicNetwork - Class in org.encog.neural.networks
  This class implements a neural network.
BasicNetwork() - Constructor for class org.encog.neural.networks.BasicNetwork
  Construct an empty neural network.
BasicNeuralData - Class in org.encog.neural.data.basic
  This is an alias class for Encog 2.5 compatibility.
BasicNeuralData(double[]) - Constructor for class org.encog.neural.data.basic.BasicNeuralData
  Construct from a double array.
BasicNeuralData(int) - Constructor for class org.encog.neural.data.basic.BasicNeuralData
  Construct to a specific size.
BasicNeuralData(NeuralData) - Constructor for class org.encog.neural.data.basic.BasicNeuralData
  Construct from another object.
BasicNeuralDataPair - Class in org.encog.neural.data.basic
  This is an alias class for Encog 2.5 compatibility.
BasicNeuralDataPair(NeuralData) - Constructor for class org.encog.neural.data.basic.BasicNeuralDataPair
  Construct with input only.
BasicNeuralDataPair(NeuralData, NeuralData) - Constructor for class org.encog.neural.data.basic.BasicNeuralDataPair
  Construct from input and ideal.
BasicNeuralDataSet - Class in org.encog.neural.data.basic
  This is an alias class for Encog 2.5 compatibility.
BasicNeuralDataSet() - Constructor for class org.encog.neural.data.basic.BasicNeuralDataSet
  Construct empty.
BasicNeuralDataSet(double[][], double[][]) - Constructor for class org.encog.neural.data.basic.BasicNeuralDataSet
  Construct from 2d arrays.
BasicNeuralDataSet(List<MLDataPair>) - Constructor for class org.encog.neural.data.basic.BasicNeuralDataSet
  Construct from another list.
BasicNeuralDataSet(NeuralDataSet) - Constructor for class org.encog.neural.data.basic.BasicNeuralDataSet
  Construct from another object.
BasicNode - Class in org.encog.ml.graph
BasicNode(String) - Constructor for class org.encog.ml.graph.BasicNode
BasicNormalizationStrategy - Class in org.encog.ml.data.versatile.normalizers.strategies
  Provides a basic normalization strategy that will work with most models built into Encog.
BasicNormalizationStrategy(double, double, double, double) - Constructor for class org.encog.ml.data.versatile.normalizers.strategies.BasicNormalizationStrategy
  Construct the basic normalization strategy.
BasicNormalizationStrategy() - Constructor for class org.encog.ml.data.versatile.normalizers.strategies.BasicNormalizationStrategy
  Default constructor.
BasicOutputField - Class in org.encog.util.normalize.output
  Provides very basic functionality for output fields.
BasicOutputField() - Constructor for class org.encog.util.normalize.output.BasicOutputField
BasicOutputFieldGroup - Class in org.encog.util.normalize.output
  Provides very basic functionality that other output field groups will use.
BasicOutputFieldGroup() - Constructor for class org.encog.util.normalize.output.BasicOutputFieldGroup
BasicPath - Class in org.encog.ml.graph
BasicPath(BasicNode) - Constructor for class org.encog.ml.graph.BasicPath
BasicPath(BasicPath, BasicNode) - Constructor for class org.encog.ml.graph.BasicPath
BasicPNN - Class in org.encog.neural.pnn
  This class implements either a: Probabilistic Neural Network (PNN) General Regression Neural Network (GRNN) To use a PNN specify an output mode of classification, to make use of a GRNN specify either an output mode of regression or un-supervised autoassociation.
BasicPNN(PNNKernelType, PNNOutputMode, int, int) - Constructor for class org.encog.neural.pnn.BasicPNN
  Construct a BasicPNN network.
BasicPopulation - Class in org.encog.ml.ea.population
  Defines the basic functionality for a population of genomes.
BasicPopulation() - Constructor for class org.encog.ml.ea.population.BasicPopulation
  Construct an empty population.
BasicPopulation(int, GenomeFactory) - Constructor for class org.encog.ml.ea.population.BasicPopulation
  Construct a population.
BasicProgram - Class in org.encog.ca.program.basic
BasicProgram(Movement[]) - Constructor for class org.encog.ca.program.basic.BasicProgram
BasicQuery - Class in org.encog.ml.bayesian.query
  Provides basic functionality for a Bayesian query.
BasicQuery() - Constructor for class org.encog.ml.bayesian.query.BasicQuery
  Default constructor.
BasicQuery(BayesianNetwork) - Constructor for class org.encog.ml.bayesian.query.BasicQuery
BasicRandomFactory - Class in org.encog.mathutil.randomize.factory
  Basic random number generator factory.
BasicRandomFactory() - Constructor for class org.encog.mathutil.randomize.factory.BasicRandomFactory
  Construct a random generator factory.
BasicRandomFactory(long) - Constructor for class org.encog.mathutil.randomize.factory.BasicRandomFactory
  Construct a random generator factory with the specified seed.
BasicRandomizer - Class in org.encog.mathutil.randomize
  Provides basic functionality that most randomizers will need.
BasicRandomizer() - Constructor for class org.encog.mathutil.randomize.BasicRandomizer
  Construct a random number generator with a random(current time) seed.
BasicRBF - Class in org.encog.mathutil.rbf
  Basic radial basis function.
BasicRBF() - Constructor for class org.encog.mathutil.rbf.BasicRBF
BasicRuleHolder - Class in org.encog.ml.ea.rules
  Basic implementation of a rule holder.
BasicRuleHolder() - Constructor for class org.encog.ml.ea.rules.BasicRuleHolder
BasicSpecies - Class in org.encog.ml.ea.species
  Provides basic functionality for a species.
BasicSpecies() - Constructor for class org.encog.ml.ea.species.BasicSpecies
  Default constructor, used mainly for persistence.
BasicSpecies(Population, Genome) - Constructor for class org.encog.ml.ea.species.BasicSpecies
  Construct a species.
BasicState - Class in org.encog.ml.world.basic
BasicState() - Constructor for class org.encog.ml.world.basic.BasicState
BasicTemplate - Class in org.encog.ml.prg.extension
  A basic template.
BasicTemplate(int, String, NodeType, boolean, int) - Constructor for class org.encog.ml.prg.extension.BasicTemplate
  Construct a basic template object.
BasicTemplate(String) - Constructor for class org.encog.ml.prg.extension.BasicTemplate
  Construct a function based on the provided signature.
BasicTraining - Class in org.encog.ml.train
  An abstract class that implements basic training for most training algorithms.
BasicTraining() - Constructor for class org.encog.ml.train.BasicTraining
  Used for serialization.
BasicTraining(TrainingImplementationType) - Constructor for class org.encog.ml.train.BasicTraining
BasicTrainSOM - Class in org.encog.neural.som.training.basic
  This class implements competitive training, which would be used in a winner-take-all neural network, such as the self organizing map (SOM).
BasicTrainSOM(SOM, double, MLDataSet, NeighborhoodFunction) - Constructor for class org.encog.neural.som.training.basic.BasicTrainSOM
  Create an instance of competitive training.
BasicTreeNode - Class in org.encog.ml.tree.basic
BasicTreeNode() - Constructor for class org.encog.ml.tree.basic.BasicTreeNode
BasicUniverse - Class in org.encog.ca.universe.basic
BasicUniverse(int, int, UniverseCellFactory) - Constructor for class org.encog.ca.universe.basic.BasicUniverse
BasicWorld - Class in org.encog.ml.world.basic
BasicWorld() - Constructor for class org.encog.ml.world.basic.BasicWorld
BatchSize - Interface in org.encog.neural.networks.training
  The batch size.
BayesEstimator - Interface in org.encog.ml.bayesian.training.estimator
  An estimator is used during Bayesian training to determine optimal probability values.
BayesianChoice - Class in org.encog.ml.bayesian
  A choice in a Bayesian network.
BayesianChoice(String, double, double) - Constructor for class org.encog.ml.bayesian.BayesianChoice
  Construct a continuous choice that covers the specified range.
BayesianChoice(String, int) - Constructor for class org.encog.ml.bayesian.BayesianChoice
  Construct a discrete choice for the specified index.
BayesianError - Exception in org.encog.ml.bayesian
  Thrown when an error occurs working with Bayesian networks.
BayesianError(String) - Constructor for exception org.encog.ml.bayesian.BayesianError
  Construct a message exception.
BayesianError(Throwable) - Constructor for exception org.encog.ml.bayesian.BayesianError
  Construct an exception that holds another exception.
BayesianError(String, Throwable) - Constructor for exception org.encog.ml.bayesian.BayesianError
  Construct an exception that holds another exception.
BayesianEvent - Class in org.encog.ml.bayesian
  Events make up a Bayesian network.
BayesianEvent(String, List<BayesianChoice>) - Constructor for class org.encog.ml.bayesian.BayesianEvent
  Construct an event with the specified label and choices.
BayesianEvent(String, String[]) - Constructor for class org.encog.ml.bayesian.BayesianEvent
  Construct an event with the specified label and choices.
BayesianEvent(String) - Constructor for class org.encog.ml.bayesian.BayesianEvent
  Construct a boolean event.
BayesianFactory - Class in org.encog.ml.factory.method
  Factory to create bayesian networks.
BayesianFactory() - Constructor for class org.encog.ml.factory.method.BayesianFactory
BayesianInit - Enum in org.encog.ml.bayesian.training
  The method by which a Bayesian network should be initialized.
BayesianNetwork - Class in org.encog.ml.bayesian
  The Bayesian Network is a machine learning method that is based on probability, and particularly Bayes' Rule.
BayesianNetwork() - Constructor for class org.encog.ml.bayesian.BayesianNetwork
BayesianQuery - Interface in org.encog.ml.bayesian.query
  A Bayesian query.
BayesianTable - Class in org.encog.ml.bayesian.table
  Holds a Bayesian truth table.
BayesianTable(BayesianEvent) - Constructor for class org.encog.ml.bayesian.table.BayesianTable
BayesSearch - Interface in org.encog.ml.bayesian.training.search.k2
  Search for a good Bayes structure.
beginBar(Date) - Method in class org.encog.app.quant.ninja.NinjaStreamWriter
  Begin a bar, for the specified date/time.
beginBody() - Method in class org.encog.util.HTMLReport
beginDocument() - Method in class org.encog.parse.tags.write.WriteTags
  Called to begin the document.
beginHTML() - Method in class org.encog.util.HTMLReport
beginList() - Method in class org.encog.util.HTMLReport
beginLoad(int, int) - Method in class org.encog.ml.data.buffer.BufferedMLDataSet
  Begin loading to the binary file.
beginPara() - Method in class org.encog.util.HTMLReport
beginRow() - Method in class org.encog.util.HTMLReport
beginRow() - Method in class org.encog.util.normalize.output.nominal.NominalItem
  Begin a row.
beginTable() - Method in class org.encog.util.HTMLReport
beginTableInCell(int) - Method in class org.encog.util.HTMLReport
beginTag(String) - Method in class org.encog.parse.tags.write.WriteTags
  Begin a tag with the specified name.
BestClose - Class in org.encog.app.quant.indicators.predictive
  Get the best close.
BestClose(int, boolean) - Constructor for class org.encog.app.quant.indicators.predictive.BestClose
  Construct the object.
BestMatchingUnit - Class in org.encog.neural.som.training.basic
  The "Best Matching Unit" or BMU is a very important concept in the training for a SOM.
BestMatchingUnit(SOM) - Constructor for class org.encog.neural.som.training.basic.BestMatchingUnit
  Construct a BestMatchingUnit class.
BestReturn - Class in org.encog.app.quant.indicators.predictive
  Get the best return.
BestReturn(int, boolean) - Constructor for class org.encog.app.quant.indicators.predictive.BestReturn
  Construct the object.
beta - Variable in class org.encog.ml.hmm.alog.ForwardBackwardCalculator
  Beta matrix.
betaElement(int, int) - Method in class org.encog.ml.hmm.alog.ForwardBackwardCalculator
  Beta element, best element.
BIFDefinition - Class in org.encog.ml.bayesian.bif
  Holds a BIF definition.
BIFDefinition() - Constructor for class org.encog.ml.bayesian.bif.BIFDefinition
BIFHandler - Class in org.encog.ml.bayesian.bif
  Handler, used to parse the XML BIF files.
BIFHandler() - Constructor for class org.encog.ml.bayesian.bif.BIFHandler
  Constructor.
BIFUtil - Class in org.encog.ml.bayesian.bif
  A utility class to read and write Bayesian networks in BIF format.
BIFUtil() - Constructor for class org.encog.ml.bayesian.bif.BIFUtil
BIFVariable - Class in org.encog.ml.bayesian.bif
  A BIF variable.
BIFVariable() - Constructor for class org.encog.ml.bayesian.bif.BIFVariable
binary2External(File) - Method in class org.encog.ml.data.buffer.BinaryDataLoader
  Convert an Encog binary file to an external form, such as CSV.
BinaryDataLoader - Class in org.encog.ml.data.buffer
  This class is used, together with a CODEC, to move data to/from the Encog binary training file format.
BinaryDataLoader(DataSetCODEC) - Constructor for class org.encog.ml.data.buffer.BinaryDataLoader
  Construct a loader with the specified CODEC.
bipolar2double(boolean) - Static method in class org.encog.mathutil.matrices.BiPolarUtil
  Convert a boolean to a bipolar number.
bipolar2double(boolean[]) - Static method in class org.encog.mathutil.matrices.BiPolarUtil
  Convert a boolean array to a bipolar array.
bipolar2double(boolean[][]) - Static method in class org.encog.mathutil.matrices.BiPolarUtil
BiPolarNeuralData - Class in org.encog.ml.data.specific
  A NeuralData implementation designed to work with bipolar data.
BiPolarNeuralData(boolean[]) - Constructor for class org.encog.ml.data.specific.BiPolarNeuralData
  Construct this object with the specified data.
BiPolarNeuralData(int) - Constructor for class org.encog.ml.data.specific.BiPolarNeuralData
  Construct a data object with the specified size.
BiPolarUtil - Class in org.encog.mathutil.matrices
  This class contains a number of utility methods used to work with bipolar numbers.
bold(String) - Method in class org.encog.util.HTMLReport
BoltzmannMachine - Class in org.encog.neural.thermal
  Implements a Boltzmann machine.
BoltzmannMachine() - Constructor for class org.encog.neural.thermal.BoltzmannMachine
  Default constructors.
BoltzmannMachine(int) - Constructor for class org.encog.neural.thermal.BoltzmannMachine
  Construct a Boltzmann machine with the specified number of neurons.
BoltzmannPattern - Class in org.encog.neural.pattern
  Pattern to create a Boltzmann machine.
BoltzmannPattern() - Constructor for class org.encog.neural.pattern.BoltzmannPattern
BotError - Exception in org.encog.bot
  Used to represent any error that occurs in the bot part of Encog.
BotError(String) - Constructor for exception org.encog.bot.BotError
  Construct a message exception.
BotError(Throwable) - Constructor for exception org.encog.bot.BotError
  Construct an exception that holds another exception.
BotUtil - Class in org.encog.bot
  Utility class for bots.
bound(double) - Static method in class org.encog.mathutil.BoundNumbers
  Bound the number so that it does not become too big or too small.
BoundMath - Class in org.encog.mathutil
  Java will sometimes return Math.NaN or Math.Infinity when numbers get to large or too small.
BoundNumbers - Class in org.encog.mathutil
  A simple class that prevents numbers from getting either too big or too small.
boxMuller(double, double) - Method in class org.encog.mathutil.randomize.GaussianRandomizer
  Compute a Gaussian random number.
BPROPJob - Class in org.encog.neural.networks.training.concurrent.jobs
  A training definition for BPROP training.
BPROPJob(BasicNetwork, MLDataSet, boolean, double, double) - Constructor for class org.encog.neural.networks.training.concurrent.jobs.BPROPJob
  Construct a job definition for RPROP.
BreadthFirstSearch - Class in org.encog.ml.graph.search
BreadthFirstSearch(BasicGraph, BasicNode, SearchGoal) - Constructor for class org.encog.ml.graph.search.BreadthFirstSearch
brentmin(int, double, double, double, CalculationCriteria, double) - Method in class org.encog.neural.networks.training.pnn.GlobalMinimumSearch
  Use the "Brent Method" to find a better minimum.
BrowseError - Exception in org.encog.bot.browse
  Thrown when any sort of error related to web browsing is encountered.
BrowseError(String) - Constructor for exception org.encog.bot.browse.BrowseError
  Construct a message exception.
BrowseError(Throwable) - Constructor for exception org.encog.bot.browse.BrowseError
  Construct an exception that holds another exception.
Browser - Class in org.encog.bot.browse
  The main class for web browsing.
Browser() - Constructor for class org.encog.bot.browse.Browser
BUFFER_SIZE - Static variable in class org.encog.bot.BotUtil
  How much data to read at once.
BUFFER_SIZE - Static variable in class org.encog.util.file.Directory
  Default buffer size for read/write operations.
BUFFER_SIZE - Static variable in class org.encog.util.http.FormUtility
  The size of the read buffer.
BufferedDataError - Exception in org.encog.ml.data.buffer
  An error occurs working with the Encog binary training format.
BufferedDataError(String) - Constructor for exception org.encog.ml.data.buffer.BufferedDataError
  Construct a message exception.
BufferedDataError(Throwable) - Constructor for exception org.encog.ml.data.buffer.BufferedDataError
  Construct an exception that holds another exception.
BufferedDataError(String, Throwable) - Constructor for exception org.encog.ml.data.buffer.BufferedDataError
  Construct an exception that holds another exception.
BufferedDataSetIterator - Class in org.encog.ml.data.buffer
  An iterator for the BufferedNeuralDataSet.
BufferedDataSetIterator(BufferedMLDataSet) - Constructor for class org.encog.ml.data.buffer.BufferedDataSetIterator
  Construct the iterator.
BufferedMLDataSet - Class in org.encog.ml.data.buffer
  This class is not memory based, so very long files can be used, without running out of memory.
BufferedMLDataSet(File) - Constructor for class org.encog.ml.data.buffer.BufferedMLDataSet
  Construct the dataset using the specified binary file.
buildCPPNActivationFunctions(ChooseObject<ActivationFunction>) - Static method in class org.encog.neural.hyperneat.HyperNEATGenome
  Build the CPPN activation functions.
buildForNetworkInput(double[]) - Method in class org.encog.util.normalize.DataNormalization
  Build "input data for a neural network" based on the input values provided.

## C

C - Variable in class org.encog.mathutil.libsvm.svm_parameter
C_SVC - Static variable in class org.encog.mathutil.libsvm.svm_parameter
cache_size - Variable in class org.encog.mathutil.libsvm.svm_parameter
calcErrorWithMultipleSigma(double[], double[], double[], boolean) - Method in interface org.encog.neural.networks.training.pnn.CalculationCriteria
  Calculate the error with multiple sigmas.
calcErrorWithMultipleSigma(double[], double[], double[], boolean) - Method in class org.encog.neural.networks.training.pnn.TrainBasicPNN
  Calculate the error with multiple sigmas.
calcErrorWithSingleSigma(double) - Method in interface org.encog.neural.networks.training.pnn.CalculationCriteria
  Calculate the error with a single sigma.
calcErrorWithSingleSigma(double) - Method in class org.encog.neural.networks.training.pnn.TrainBasicPNN
  Calculate the error using a common sigma.
CalcProbability - Class in org.encog.mathutil.probability
CalcProbability(int) - Constructor for class org.encog.mathutil.probability.CalcProbability
CalcProbability() - Constructor for class org.encog.mathutil.probability.CalcProbability
calculate(Map<String, BaseCachedColumn>, int) - Method in class org.encog.app.quant.indicators.Indicator
  Calculate this indicator.
calculate(Map<String, BaseCachedColumn>, int) - Method in class org.encog.app.quant.indicators.MovingAverage
  Calculate this indicator.
calculate(Map<String, BaseCachedColumn>, int) - Method in class org.encog.app.quant.indicators.predictive.BestClose
  Calculate the indicator.
calculate(Map<String, BaseCachedColumn>, int) - Method in class org.encog.app.quant.indicators.predictive.BestReturn
  Calculate the indicator.
calculate(UniverseCell) - Method in class org.encog.ca.program.generic.Trans
calculate() - Method in class org.encog.mathutil.error.ErrorCalculation
  Returns the root mean square error for a complete training set.
calculate(int) - Method in class org.encog.mathutil.probability.CalcProbability
calculate(double[]) - Method in class org.encog.mathutil.rbf.GaussianFunction
  Calculate the result from the function.
calculate(double[]) - Method in class org.encog.mathutil.rbf.InverseMultiquadricFunction
  Calculate the RBF result for the specified value.
calculate(double[]) - Method in class org.encog.mathutil.rbf.MexicanHatFunction
  Calculate the result from the function.
calculate(double[]) - Method in class org.encog.mathutil.rbf.MultiquadricFunction
  Calculate the RBF result for the specified value.
calculate(double[]) - Method in interface org.encog.mathutil.rbf.RadialBasisFunction
  Calculate the RBF result for the specified value.
calculate(ScheduleGraph) - Method in class org.encog.ml.schedule.CalculateScheduleTimes
calculate(State, State, Action) - Method in interface org.encog.ml.world.ActionProbability
calculate(State, State, Action) - Method in class org.encog.ml.world.grid.probability.GridDeterministicProbability
calculate(State, State, Action) - Method in class org.encog.ml.world.grid.probability.GridStochasticProbability
calculate() - Method in class org.encog.neural.freeform.basic.BasicActivationSummation
  Perform the summation, and apply the activation function.
calculate() - Method in interface org.encog.neural.freeform.InputSummation
  Perform the summation, and apply the activation function.
calculate(int, double, double, double, CalculationCriteria, int, double[], double, double[], double[], double[], double[], double[]) - Method in class org.encog.neural.networks.training.pnn.DeriveMinimum
  Derive the minimum, using a conjugate gradient method.
calculate(int) - Method in class org.encog.util.normalize.output.mapped.OutputFieldEncode
  Calculate the value for this field.
calculate(int) - Method in class org.encog.util.normalize.output.multiplicative.OutputFieldMultiplicative
  Calculate the value for this output field.
calculate(int) - Method in class org.encog.util.normalize.output.nominal.OutputEquilateral
  Calculate the value for the specified subfield.
calculate(int) - Method in class org.encog.util.normalize.output.nominal.OutputOneOf
  Calculate the value for the specified subfield.
calculate(int) - Method in interface org.encog.util.normalize.output.OutputField
  Calculate the value for this field.
calculate(int) - Method in class org.encog.util.normalize.output.OutputFieldDirect
  Calculate the value for this field.
calculate(double, double, double, double, double) - Static method in class org.encog.util.normalize.output.OutputFieldRangeMapped
  Calculate a ranged mapped value.
calculate(int) - Method in class org.encog.util.normalize.output.OutputFieldRangeMapped
  Calculate this output field.
calculate(int) - Method in class org.encog.util.normalize.output.zaxis.OutputFieldZAxis
  Calculate the current value for this field.
calculate(int) - Method in class org.encog.util.normalize.output.zaxis.OutputFieldZAxisSynthetic
  Calculate the synthetic value for this Z-Axis normalization.
calculateActualSetSize() - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
  Calculate the actual set size, this is the number of training set entries that will be generated.
calculateAdjustment(Genome) - Method in class org.encog.ml.ea.score.adjust.ComplexityAdjustedScore
  Calculate the score adjustment.
calculateAdjustment(Genome) - Method in interface org.encog.ml.ea.score.AdjustScore
  Calculate the score adjustment.
calculateBMU(MLData) - Method in class org.encog.neural.som.training.basic.BestMatchingUnit
  Calculate the best matching unit (BMU).
calculateClassificationError(MLClassification, MLDataSet) - Static method in class org.encog.util.simple.EncogUtility
  Calculate the classification error.
calculateEnergy() - Method in class org.encog.neural.thermal.ThermalNetwork
calculateError(MLDataSet) - Method in class org.encog.ml.bayesian.BayesianNetwork
  Calculate the error of the ML method, given a dataset.
calculateError(MLDataSet) - Method in class org.encog.ml.fitting.linear.LinearRegression
calculateError(MLDataSet) - Method in interface org.encog.ml.MLError
  Calculate the error of the ML method, given a dataset.
calculateError(MLMethod, MLDataSet) - Method in class org.encog.ml.model.EncogModel
  Calculate the error for the given method and dataset.
calculateError(MLDataSet) - Method in class org.encog.ml.prg.EncogProgram
  Calculate the error of the ML method, given a dataset.
calculateError(MLDataSet) - Method in class org.encog.ml.svm.SVM
  Calculate the error for this SVM.
calculateError(MLDataSet) - Method in class org.encog.neural.cpn.CPN
  Calculate the error for this neural network.
calculateError(double[], double[], double[]) - Method in class org.encog.neural.error.ATanErrorFunction
  Calculate the error.
calculateError(double[], double[], double[]) - Method in interface org.encog.neural.error.ErrorFunction
  Calculate the error.
calculateError(double[], double[], double[]) - Method in class org.encog.neural.error.LinearErrorFunction
  Calculate the error.
calculateError(double[], double[], double[]) - Method in class org.encog.neural.error.OutputErrorFunction
calculateError(MLDataSet) - Method in class org.encog.neural.flat.FlatNetwork
  Calculate the error for this neural network.
calculateError(MLDataSet) - Method in class org.encog.neural.freeform.FreeformNetwork
  Calculate the error of the ML method, given a dataset.
calculateError(MLDataSet) - Method in class org.encog.neural.neat.NEATNetwork
  Calculate the error for this neural network.
calculateError(MLDataSet) - Method in class org.encog.neural.neat.NEATPopulation
  Calculate the error of the ML method, given a dataset.
calculateError(MLDataSet) - Method in class org.encog.neural.networks.BasicNetwork
  Calculate the error for this neural network.
calculateError(MLDataSet, boolean) - Method in class org.encog.neural.networks.training.pnn.TrainBasicPNN
  Calculate the error for the entire training set.
calculateError(MLDataSet) - Method in class org.encog.neural.pnn.BasicPNN
  Calculate the error of the ML method, given a dataset.
calculateError(MLDataSet) - Method in class org.encog.neural.rbf.RBFNetwork
  Calculate the error for this neural network.
calculateError(MLDataSet) - Method in class org.encog.neural.som.SOM
  Calculate the error of the ML method, given a dataset.
calculateError(MLRegression, MLDataSet) - Static method in class org.encog.util.error.CalculateRegressionError
calculateESS() - Method in class org.encog.mathutil.error.ErrorCalculation
  Calculate the error with SSE.
calculateEuclideanDistance(Matrix, MLData, int) - Method in class org.encog.neural.som.training.basic.BestMatchingUnit
  Calculate the Euclidean distance for the specified output neuron and the input vector.
calculateG(BayesianNetwork, BayesianEvent, List<BayesianEvent>) - Method in class org.encog.ml.bayesian.training.search.k2.SearchK2
  Calculate G.
calculateGradients() - Method in class org.encog.neural.networks.training.propagation.Propagation
  Calculate the gradients.
calculateGradients() - Method in class org.encog.neural.networks.training.propagation.scg.ScaledConjugateGradient
  Calculate the gradients.
calculateInputColumns() - Method in class org.encog.app.analyst.script.normalize.AnalystNormalize
calculateLowerStep(DimensionConstraint, int) - Method in class org.encog.mathutil.dimension.MultiDimension
calculateMax(int, int) - Method in class org.encog.util.arrayutil.WindowDouble
  Calculate the max value, for the specified index, over all of the data in the window.
calculateMin(int, int) - Method in class org.encog.util.arrayutil.WindowDouble
  Calculate the max value, for the specified index, over all of the data in the window.
calculateMSE() - Method in class org.encog.mathutil.error.ErrorCalculation
  Calculate the error with MSE.
calculateN(BayesianNetwork, BayesianEvent, List<BayesianEvent>, int[], int) - Method in class org.encog.ml.bayesian.training.search.k2.SearchK2
  Calculate the value N, which is the number of cases, from the training data, where the desiredValue matches the training data.
calculateN(BayesianNetwork, BayesianEvent, List<BayesianEvent>, int[]) - Method in class org.encog.ml.bayesian.training.search.k2.SearchK2
  Calculate the value N, which is the number of cases, from the training data, where the desiredValue matches the training data.
calculateNeuronCount() - Method in class org.encog.neural.networks.BasicNetwork
  Calculate the total number of neurons in the network across all layers.
calculateNeuronCounts() - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
  Calculate how many input and output neurons will be needed for the current data.
calculateNormalizedInputCount() - Method in class org.encog.ml.data.versatile.NormalizationHelper
calculateNormalizedOutputCount() - Method in class org.encog.ml.data.versatile.NormalizationHelper
calculateOutputColumns() - Method in class org.encog.app.analyst.script.normalize.AnalystNormalize
  Calculate the output columns.
calculateParameterCount() - Method in class org.encog.ml.bayesian.BayesianEvent
calculateParameterCount() - Method in class org.encog.ml.bayesian.BayesianNetwork
calculatePathCost(BasicPath) - Method in class org.encog.ml.graph.search.AStarSearch
calculatePercentInvalid() - Method in class org.encog.ca.universe.basic.BasicUniverse
calculatePercentInvalid() - Method in interface org.encog.ca.universe.Universe
calculatePointsInRange() - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
  Calculate how many points are in the high and low range.
calculateProbability(BayesianEvent, int, int[]) - Method in class org.encog.ml.bayesian.training.estimator.SimpleEstimator
  Calculate the probability.
CalculateRegressionError - Class in org.encog.util.error
CalculateRegressionError() - Constructor for class org.encog.util.error.CalculateRegressionError
calculateRegressionError(MLRegression, MLDataSet) - Static method in class org.encog.util.simple.EncogUtility
calculateRMS() - Method in class org.encog.mathutil.error.ErrorCalculation
  Calculate the error with RMS.
CalculateScheduleTimes - Class in org.encog.ml.schedule
CalculateScheduleTimes() - Constructor for class org.encog.ml.schedule.CalculateScheduleTimes
calculateScore() - Method in class org.encog.ml.anneal.SimulatedAnnealing
  Subclasses should provide a method that evaluates the score for the current solution.
CalculateScore - Interface in org.encog.ml
  Used by simulated annealing and genetic algorithms to calculate the score for a machine learning method.
calculateScore(MLMethod) - Method in interface org.encog.ml.CalculateScore
  Calculate this network's score.
calculateScore(MLMethod) - Method in class org.encog.ml.ea.score.EmptyScoreFunction
  Calculate this network's score.
calculateScore(Genome) - Method in class org.encog.ml.ea.train.basic.BasicEA
  Calculate the score for a genome.
calculateScore(Genome) - Method in interface org.encog.ml.ea.train.EvolutionaryAlgorithm
  Calculate the score for a genome.
calculateScore(MLMethod) - Method in class org.encog.ml.fitness.MultiObjectiveFitness
  Calculate this network's score.
calculateScore(MLMethod) - Method in class org.encog.ml.prg.train.ZeroEvalScoreFunction
  Calculate this network's score.
calculateScore() - Method in class org.encog.neural.networks.training.anneal.NeuralSimulatedAnnealingHelper
  Used to pass the determineError call on to the parent object.
calculateScore(MLMethod) - Method in class org.encog.neural.networks.training.TrainingSetScore
  Calculate the score for the network.
calculateScoreAdjustment(Genome, List<AdjustScore>) - Static method in class org.encog.ml.ea.train.basic.BasicEA
  Calculate the score adjustment, based on adjusters.
calculateShare(boolean, double) - Method in class org.encog.ml.ea.species.BasicSpecies
  Calculate this genome's share of the next population.
calculateShare(boolean, double) - Method in interface org.encog.ml.ea.species.Species
  Calculate this genome's share of the next population.
calculateSize() - Method in class org.encog.neural.networks.structure.NeuralStructure
  Calculate the size that an array should be to hold all of the weights and bias values.
calculateStartIndex() - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
  Calculate the index to start at.
calculateUpperStep(DimensionConstraint, int) - Method in class org.encog.mathutil.dimension.MultiDimension
calculateValue(State) - Method in class org.encog.ml.world.learning.mdp.ValueIteration
calculateWorkers() - Method in class org.encog.util.concurrency.DetermineWorkload
  Calculate the high and low ranges for each worker.
CalculationCriteria - Interface in org.encog.neural.networks.training.pnn
  Calculate criteria.
call() - Method in class org.encog.ml.ea.train.basic.EAWorker
canContinue() - Method in class org.encog.ml.bayesian.training.TrainBayesian
canContinue() - Method in class org.encog.ml.ea.train.basic.TrainEA
canContinue() - Method in class org.encog.ml.fitting.gaussian.TrainGaussian
canContinue() - Method in class org.encog.ml.fitting.linear.TrainLinearRegression
canContinue() - Method in class org.encog.ml.genetic.MLMethodGeneticAlgorithm
canContinue() - Method in class org.encog.ml.hmm.train.bw.BaseBaumWelch
canContinue() - Method in class org.encog.ml.hmm.train.kmeans.TrainKMeans
canContinue() - Method in class org.encog.ml.svm.training.SVMSearchTrain
canContinue() - Method in class org.encog.ml.svm.training.SVMTrain
canContinue() - Method in interface org.encog.ml.train.MLTrain
canContinue() - Method in class org.encog.neural.cpn.training.TrainInstar
canContinue() - Method in class org.encog.neural.cpn.training.TrainOutstar
canContinue() - Method in class org.encog.neural.freeform.training.FreeformPropagationTraining
canContinue() - Method in class org.encog.neural.networks.training.anneal.NeuralSimulatedAnnealing
canContinue() - Method in class org.encog.neural.networks.training.cross.CrossValidationKFold
canContinue() - Method in class org.encog.neural.networks.training.lma.LevenbergMarquardtTraining
canContinue() - Method in class org.encog.neural.networks.training.nm.NelderMeadTraining
canContinue() - Method in class org.encog.neural.networks.training.pnn.TrainBasicPNN
canContinue() - Method in class org.encog.neural.networks.training.propagation.back.Backpropagation
canContinue() - Method in class org.encog.neural.networks.training.propagation.manhattan.ManhattanPropagation
  This training type does not support training continue.
canContinue() - Method in class org.encog.neural.networks.training.propagation.quick.QuickPropagation
canContinue() - Method in class org.encog.neural.networks.training.propagation.resilient.ResilientPropagation
canContinue() - Method in class org.encog.neural.networks.training.propagation.scg.ScaledConjugateGradient
  This training type does not support training continue.
canContinue() - Method in class org.encog.neural.networks.training.pso.NeuralPSO
canContinue() - Method in class org.encog.neural.networks.training.simple.TrainAdaline
canContinue() - Method in class org.encog.neural.rbf.training.SVDTraining
canContinue() - Method in class org.encog.neural.som.training.basic.BasicTrainSOM
canContinue() - Method in class org.encog.neural.som.training.clustercopy.SOMClusterCopyTraining
CANT_DEFINE_ACT - Static variable in class org.encog.ml.factory.method.FeedforwardFactory
  Error.
CAProgram - Interface in org.encog.ca.program
CARunner - Interface in org.encog.ca.runner
CAVisualizer - Interface in org.encog.ca.visualize
CDATA_BEGIN - Static variable in class org.encog.parse.tags.TagConst
  The beginning of a CDATA section.
CDATA_END - Static variable in class org.encog.parse.tags.TagConst
  THe end of a CDATA section.
cell(String) - Method in class org.encog.util.HTMLReport
cell(String, int) - Method in class org.encog.util.HTMLReport
CellularAutomataError - Exception in org.encog.ca
CellularAutomataError(String) - Constructor for exception org.encog.ca.CellularAutomataError
  Construct a message exception.
CellularAutomataError(Throwable) - Constructor for exception org.encog.ca.CellularAutomataError
  Construct an exception that holds another exception.
CellularAutomataError(String, Throwable) - Constructor for exception org.encog.ca.CellularAutomataError
  Construct an exception that holds another exception.
Centroid<O> - Interface in org.encog.util.kmeans
  A centroid.
centroid() - Method in class org.encog.util.kmeans.Cluster
CentroidFactory<O> - Interface in org.encog.util.kmeans
  An object that can create centroids.
CGOLD - Static variable in class org.encog.neural.networks.training.pnn.GlobalMinimumSearch
  The golden section.
ChainRuleWorker - Class in org.encog.mathutil.matrices.hessian
  A threaded worker that is used to calculate the first derivatives of the output of the neural network.
ChainRuleWorker(FlatNetwork, MLDataSet, int, int) - Constructor for class org.encog.mathutil.matrices.hessian.ChainRuleWorker
  Construct the chain rule worker.
changeNeuronCount(int, int) - Method in class org.encog.neural.prune.PruneSelective
  Change the neuron count for the network.
CHAR_BULLET - Static variable in class org.encog.parse.tags.read.ReadTags
  The bullet character.
CHAR_TRADEMARK - Static variable in class org.encog.parse.tags.read.ReadTags
  The bullet character.
characters(char[], int, int) - Method in class org.encog.ml.bayesian.bif.BIFHandler
checkError() - Method in class org.encog.util.concurrency.EngineConcurrency
  Check to see if one of the threads has thrown an error.
CHOICES_TRUE_FALSE - Static variable in class org.encog.ml.bayesian.BayesianNetwork
  Default choices for a boolean event.
CholeskyDecomposition - Class in org.encog.mathutil.matrices.decomposition
  Cholesky Decomposition.
CholeskyDecomposition(Matrix) - Constructor for class org.encog.mathutil.matrices.decomposition.CholeskyDecomposition
  Cholesky algorithm for symmetric and positive definite matrix.
ChooseObject<T> - Class in org.encog.util.obj
  This class is used to choose between several objects with a specified probability.
ChooseObject() - Constructor for class org.encog.util.obj.ChooseObject
chooseRandomNeuron(NEATGenome, boolean) - Method in class org.encog.neural.neat.training.opp.NEATMutation
  Choose a random neuron.
chs() - Method in class org.encog.mathutil.ComplexNumber
  Negative of this complex number (chs stands for change sign).
clamp(double, double) - Method in class org.encog.ca.universe.basic.BasicContinuousCell
clamp(double, double) - Method in interface org.encog.ca.universe.ContinuousCell
clampComponents(double[], double) - Method in class org.encog.mathutil.VectorAlgebra
  For each components, reset their value to maxValue if their absolute value exceeds it.
clampWeight(double, double) - Static method in class org.encog.neural.neat.NEATPopulation
  Change the weight, do not allow the weight to go out of the weight range.
classify(MLData) - Method in class org.encog.ensemble.GenericEnsembleML
classify(MLData) - Method in class org.encog.ml.bayesian.BayesianNetwork
  Classify the input.
classify(MLData) - Method in interface org.encog.ml.MLClassification
  Classify the input into a group.
classify(MLData) - Method in class org.encog.ml.svm.SVM
  Classify the input into a group.
classify(MLData) - Method in class org.encog.neural.art.ART1
  Classify the input data to a class number.
classify(MLData) - Method in class org.encog.neural.freeform.FreeformNetwork
  Classify the input into a group.
classify(MLData) - Method in class org.encog.neural.networks.BasicNetwork
  Classify the input into a group.
classify(MLData) - Method in class org.encog.neural.pnn.BasicPNN
  Classify the input into a group.
classify(MLData) - Method in class org.encog.neural.som.SOM
  Classify the input into a group.
ClassItem - Class in org.encog.util.arrayutil
  A class item.
ClassItem(String, int) - Constructor for class org.encog.util.arrayutil.ClassItem
  Construct the object.
clear() - Method in class org.encog.mathutil.matrices.hessian.BasicHessian
  Clear the Hessian and gradients.
clear() - Method in interface org.encog.mathutil.matrices.hessian.ComputeHessian
  Clear the Hessian and gradients.
clear() - Method in class org.encog.mathutil.matrices.Matrix
  Set all rows and columns to zero.
clear() - Method in class org.encog.ml.data.basic.BasicMLComplexData
  Clear any data to zero.
clear() - Method in class org.encog.ml.data.basic.BasicMLData
  Clear any data to zero.
clear() - Method in interface org.encog.ml.data.MLData
  Clear any data to zero.
clear() - Method in class org.encog.ml.data.sparse.SparseMLData
  Clear any data to zero.
clear() - Method in class org.encog.ml.data.specific.BiPolarNeuralData
  Set all data to false.
clear() - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
  Clear the entire dataset.
clear() - Method in class org.encog.ml.ea.population.BasicPopulation
  Clear all genomes from this population.
clear() - Method in interface org.encog.ml.ea.population.Population
  Clear all genomes from this population.
clear() - Method in class org.encog.neural.bam.BAM
  Clear any connection weights.
clear() - Method in class org.encog.neural.pattern.ADALINEPattern
  Clear out any parameters.
clear() - Method in class org.encog.neural.pattern.ART1Pattern
  Clear any properties set for this network.
clear() - Method in class org.encog.neural.pattern.BAMPattern
  Clear any settings on the pattern.
clear() - Method in class org.encog.neural.pattern.BoltzmannPattern
  Clear any properties set on this network.
clear() - Method in class org.encog.neural.pattern.CPNPattern
  Clear any parameters that were set.
clear() - Method in class org.encog.neural.pattern.ElmanPattern
  Clear out any hidden neurons.
clear() - Method in class org.encog.neural.pattern.FeedForwardPattern
  Clear out any hidden neurons.
clear() - Method in class org.encog.neural.pattern.HopfieldPattern
  Nothing to clear.
clear() - Method in class org.encog.neural.pattern.JordanPattern
  Clear out any hidden neurons.
clear() - Method in interface org.encog.neural.pattern.NeuralNetworkPattern
  Clear the hidden layers so that they can be redefined.
clear() - Method in class org.encog.neural.pattern.PNNPattern
  Clear out any hidden neurons.
clear() - Method in class org.encog.neural.pattern.RadialBasisPattern
  Clear out any hidden neurons.
clear() - Method in class org.encog.neural.pattern.SOMPattern
  Clear out any hidden neurons.
clear() - Method in class org.encog.neural.pattern.SVMPattern
  Clear any settings on the pattern.
clear() - Method in class org.encog.neural.thermal.ThermalNetwork
  Clear any connection weights.
clear() - Method in class org.encog.parse.tags.Tag
  Clear the name, type and attributes.
clear() - Method in class org.encog.util.arrayutil.WindowDouble
  Clear the contents of the window.
clear() - Method in class org.encog.util.HTMLReport
clear() - Method in class org.encog.util.obj.ChooseObject
  CLear all objects from the collection.
clear() - Method in class org.encog.util.text.BagOfWords
clearConnectionLimit() - Method in class org.encog.neural.flat.FlatNetwork
  Clear any connection limits.
clearContext() - Method in interface org.encog.ml.MLContext
  Clear the context.
clearContext() - Method in class org.encog.neural.flat.FlatNetwork
  Clear any context neurons.
clearContext() - Method in class org.encog.neural.freeform.FreeformNetwork
  Clear the context.
clearContext() - Method in class org.encog.neural.networks.BasicNetwork
  Clear any data from any context layers.
clearDefinedVariables() - Method in class org.encog.ml.prg.EncogProgramContext
  Clear the defined variables.
clearFilenames() - Method in class org.encog.app.analyst.script.prop.ScriptProperties
  Clear out all filenames.
clearInputOutput() - Method in class org.encog.ml.data.versatile.NormalizationHelper
  Clear the input/output columns, but not the source columns.
clearPerformers() - Method in class org.encog.neural.networks.training.concurrent.ConcurrentTrainingManager
  Clear all of the performers.
clearQueue() - Method in class org.encog.neural.networks.training.concurrent.ConcurrentTrainingManager
  Clear the workload.
clearTasks() - Method in class org.encog.app.analyst.script.AnalystScript
  Clear all tasks.
clearTempTraining() - Method in class org.encog.neural.freeform.basic.BasicFreeformConnection
  Clear the temp training.
clearTempTraining() - Method in class org.encog.neural.freeform.basic.BasicFreeformNeuron
  Clear the temp training.
clearTempTraining() - Method in interface org.encog.neural.freeform.TempTrainingData
  Clear the temp training.
clone() - Method in class org.encog.ca.universe.basic.BasicUniverse
clone() - Method in interface org.encog.ca.universe.Universe
clone() - Method in class org.encog.engine.network.activation.ActivationBiPolar
clone() - Method in class org.encog.engine.network.activation.ActivationBipolarSteepenedSigmoid
clone() - Method in class org.encog.engine.network.activation.ActivationClippedLinear
clone() - Method in class org.encog.engine.network.activation.ActivationCompetitive
clone() - Method in class org.encog.engine.network.activation.ActivationElliott
clone() - Method in class org.encog.engine.network.activation.ActivationElliottSymmetric
clone() - Method in interface org.encog.engine.network.activation.ActivationFunction
clone() - Method in class org.encog.engine.network.activation.ActivationGaussian
clone() - Method in class org.encog.engine.network.activation.ActivationLinear
clone() - Method in class org.encog.engine.network.activation.ActivationLOG
clone() - Method in class org.encog.engine.network.activation.ActivationRamp
  Clone the object.
clone() - Method in class org.encog.engine.network.activation.ActivationSigmoid
clone() - Method in class org.encog.engine.network.activation.ActivationSIN
clone() - Method in class org.encog.engine.network.activation.ActivationSoftMax
clone() - Method in class org.encog.engine.network.activation.ActivationSteepenedSigmoid
clone() - Method in class org.encog.engine.network.activation.ActivationStep
clone() - Method in class org.encog.engine.network.activation.ActivationTANH
clone() - Method in class org.encog.mathutil.IntPair
clone() - Method in class org.encog.mathutil.libsvm.svm_parameter
clone() - Method in class org.encog.mathutil.matrices.Matrix
  Create a copy of the matrix.
clone() - Method in class org.encog.ml.bayesian.query.BasicQuery
clone() - Method in interface org.encog.ml.bayesian.query.BayesianQuery
clone() - Method in class org.encog.ml.bayesian.query.enumerate.EnumerationQuery
clone() - Method in class org.encog.ml.bayesian.query.sample.SamplingQuery
clone() - Method in class org.encog.ml.data.basic.BasicMLComplexData
  Clone this object.
clone() - Method in class org.encog.ml.data.basic.BasicMLData
  Clone this object.
clone() - Method in class org.encog.ml.data.basic.BasicMLDataSet
clone() - Method in class org.encog.ml.data.basic.BasicMLSequenceSet
clone() - Method in interface org.encog.ml.data.MLData
  Clone this object.
clone() - Method in class org.encog.ml.data.sparse.SparseMLData
  Clone this object.
clone() - Method in class org.encog.ml.data.specific.BiPolarNeuralData
clone() - Method in class org.encog.ml.hmm.distributions.ContinousDistribution
clone() - Method in class org.encog.ml.hmm.distributions.DiscreteDistribution
clone() - Method in interface org.encog.ml.hmm.distributions.StateDistribution
clone() - Method in class org.encog.ml.hmm.HiddenMarkovModel
clone() - Method in class org.encog.neural.flat.FlatNetwork
  Clone the network.
clone() - Method in class org.encog.neural.flat.FlatNetworkRBF
  Clone the network.
clone() - Method in class org.encog.neural.freeform.FreeformNetwork
  Return a clone of this neural network.
clone() - Method in class org.encog.neural.networks.BasicNetwork
  Return a clone of this neural network.
clone() - Method in class org.encog.parse.tags.Tag
cloneBranch(EncogProgram, ProgramNode) - Method in class org.encog.ml.prg.EncogProgramContext
  Clone a branch of the program from the specified node.
cloneFlatNetwork(FlatNetwork) - Method in class org.encog.neural.flat.FlatNetwork
  Clone into the flat network passed in.
cloneProgram(EncogProgram) - Method in class org.encog.ml.prg.EncogProgramContext
  Clone an entire program, keep the same context.
cloneStructure() - Method in class org.encog.ml.hmm.HiddenMarkovModel
CLOSE - Static variable in class org.encog.app.analyst.csv.basic.FileData
  The close value.
close() - Method in class org.encog.app.quant.ninja.NinjaStreamWriter
  Close the file.
close() - Method in class org.encog.ensemble.data.EnsembleDataSet
close() - Method in class org.encog.ml.data.auto.AutoFloatDataSet
close() - Method in class org.encog.ml.data.basic.BasicMLDataSet
  Close this datasource and release any resources obtained by it, including any iterators created.
close() - Method in class org.encog.ml.data.basic.BasicMLSequenceSet
  Close this datasource and release any resources obtained by it, including any iterators created.
close() - Method in class org.encog.ml.data.buffer.BufferedMLDataSet
  Close the dataset.
close() - Method in class org.encog.ml.data.buffer.codec.ArrayDataCODEC
  Close any open files.
close() - Method in class org.encog.ml.data.buffer.codec.CSVDataCODEC
  Close any open files.
close() - Method in interface org.encog.ml.data.buffer.codec.DataSetCODEC
  Close any open files.
close() - Method in class org.encog.ml.data.buffer.codec.ExcelCODEC
  Close any open files.
close() - Method in class org.encog.ml.data.buffer.codec.NeuralDataSetCODEC
  Close any open files.
close() - Method in class org.encog.ml.data.buffer.codec.SQLCODEC
  Close any open files.
close() - Method in class org.encog.ml.data.buffer.EncogEGBFile
  Close the file.
close() - Method in class org.encog.ml.data.folded.FoldedDataSet
  Close the dataset.
close() - Method in interface org.encog.ml.data.MLDataSet
  Close this datasource and release any resources obtained by it, including any iterators created.
close() - Method in class org.encog.ml.data.versatile.MatrixMLDataSet
  Close this datasource and release any resources obtained by it, including any iterators created.
close() - Method in class org.encog.parse.tags.write.WriteTags
  Close this object.
close() - Method in class org.encog.persist.EncogReadHelper
  Close the file.
close() - Method in class org.encog.util.csv.ReadCSV
  Close the file.
close() - Method in interface org.encog.util.normalize.target.NormalizationStorage
  Open the storage.
close() - Method in class org.encog.util.normalize.target.NormalizationStorageArray1D
  Not needed for this storage type.
close() - Method in class org.encog.util.normalize.target.NormalizationStorageArray2D
  Not needed for this storage type.
close() - Method in class org.encog.util.normalize.target.NormalizationStorageCSV
  Close the CSV file.
close() - Method in class org.encog.util.normalize.target.NormalizationStorageEncogCollection
close() - Method in class org.encog.util.normalize.target.NormalizationStorageNeuralDataSet
  Not needed for this storage type.
close() - Method in class org.encog.util.text.Base64.OutputStream
  Flushes and closes (I think, in the superclass) the stream.
cluster(int) - Method in class org.encog.ml.hmm.train.kmeans.Clusters
cluster(MLDataPair) - Method in class org.encog.ml.hmm.train.kmeans.Clusters
Cluster<T extends CentroidFactory<? super T>> - Class in org.encog.util.kmeans
  A cluster.
Cluster() - Constructor for class org.encog.util.kmeans.Cluster
  Create an empty cluster.
Cluster(T) - Constructor for class org.encog.util.kmeans.Cluster
  Create a cluster with one initial data point.
CLUSTER_CONFIG_CLUSTERS - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "CLUSTER:CONFIG_clusters".
CLUSTER_CONFIG_SOURCE_FILE - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "CLUSTER:CONFIG_sourceFile".
CLUSTER_CONFIG_TARGET_FILE - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "CLUSTER:CONFIG_targetFile".
CLUSTER_CONFIG_TYPE - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "CLUSTER:CONFIG_type".
Clusters - Class in org.encog.ml.hmm.train.kmeans
  Clusters used for the KMeans HMM training algorithm.
Clusters(int, MLDataSet) - Constructor for class org.encog.ml.hmm.train.kmeans.Clusters
ClusterSOMFactory - Class in org.encog.ml.factory.train
  Create a trainer that uses the SOM cluster training method.
ClusterSOMFactory() - Constructor for class org.encog.ml.factory.train.ClusterSOMFactory
Cmd - Class in org.encog.app.analyst.commands
  Base class for Encog Analyst commands.
Cmd(EncogAnalyst) - Constructor for class org.encog.app.analyst.commands.Cmd
  Construct this command.
CmdBalance - Class in org.encog.app.analyst.commands
  Performs the balance command.
CmdBalance(EncogAnalyst) - Constructor for class org.encog.app.analyst.commands.CmdBalance
  Construct the balance command.
CmdCluster - Class in org.encog.app.analyst.commands
  This command is used to randomize the lines in a CSV file.
CmdCluster(EncogAnalyst) - Constructor for class org.encog.app.analyst.commands.CmdCluster
  Construct the cluster command.
CmdCode - Class in org.encog.app.analyst.commands
  This command is used to generate the binary EGB file from a CSV file.
CmdCode(EncogAnalyst) - Constructor for class org.encog.app.analyst.commands.CmdCode
  Construct this generate command.
CmdCreate - Class in org.encog.app.analyst.commands
  The Encog Analyst create command.
CmdCreate(EncogAnalyst) - Constructor for class org.encog.app.analyst.commands.CmdCreate
  Construct the create command.
CmdEvaluate - Class in org.encog.app.analyst.commands
  This class is used to evaluate a machine learning method.
CmdEvaluate(EncogAnalyst) - Constructor for class org.encog.app.analyst.commands.CmdEvaluate
  Construct the evaluate command.
CmdEvaluateRaw - Class in org.encog.app.analyst.commands
  This class is used to evaluate a machine learning method.
CmdEvaluateRaw(EncogAnalyst) - Constructor for class org.encog.app.analyst.commands.CmdEvaluateRaw
  Construct an evaluate raw command.
CmdGenerate - Class in org.encog.app.analyst.commands
  This command is used to generate the binary EGB file from a CSV file.
CmdGenerate(EncogAnalyst) - Constructor for class org.encog.app.analyst.commands.CmdGenerate
  Construct this generate command.
CmdNormalize - Class in org.encog.app.analyst.commands
  The normalize command is used to normalize data.
CmdNormalize(EncogAnalyst) - Constructor for class org.encog.app.analyst.commands.CmdNormalize
  Construct the normalize command.
CmdProcess - Class in org.encog.app.analyst.commands
  This command is used to preprocess a CSV file.
CmdProcess(EncogAnalyst) - Constructor for class org.encog.app.analyst.commands.CmdProcess
  Construct the randomize command.
CmdRandomize - Class in org.encog.app.analyst.commands
  This command is used to randomize the lines in a CSV file.
CmdRandomize(EncogAnalyst) - Constructor for class org.encog.app.analyst.commands.CmdRandomize
  Construct the randomize command.
CmdReset - Class in org.encog.app.analyst.commands
  Analyst command that allows all properties to be reset to what they were originally loaded from the Encog EGA file.
CmdReset(EncogAnalyst) - Constructor for class org.encog.app.analyst.commands.CmdReset
  Construct the reset command.
CmdSegregate - Class in org.encog.app.analyst.commands
  This command is used to segregate one CSV file into several.
CmdSegregate(EncogAnalyst) - Constructor for class org.encog.app.analyst.commands.CmdSegregate
  Construct the segregate command.
CmdSet - Class in org.encog.app.analyst.commands
  The set command allows a script to override a property value.
CmdSet(EncogAnalyst) - Constructor for class org.encog.app.analyst.commands.CmdSet
  Construct the set command with the analyst.
CmdTrain - Class in org.encog.app.analyst.commands
  This command is used to perform training on a machine learning method and dataset.
CmdTrain(EncogAnalyst) - Constructor for class org.encog.app.analyst.commands.CmdTrain
  Construct the train command.
code(TimeUnit) - Method in class org.encog.util.time.EnglishTimeUnitNames
  Get the code for a TimeUnit.
code(TimeUnit) - Method in interface org.encog.util.time.TimeUnitNames
  Get the code for the specified time unit.
CODE_CONFIG_EMBED_DATA - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "GENERATE:CONFIG_embedData".
CODE_CONFIG_TARGET_FILE - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "GENERATE:CONFIG_targetFile".
CODE_CONFIG_TARGET_LANGUAGE - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "GENERATE:CONFIG_targetLanguage".
CodeDataUnit - Class in org.encog.bot.dataunit
  A data unit that holds code.
CodeDataUnit() - Constructor for class org.encog.bot.dataunit.CodeDataUnit
coef0 - Variable in class org.encog.mathutil.libsvm.svm_parameter
COLS - Static variable in class org.encog.persist.PersistConst
COLUMN_FIVE - Static variable in class org.encog.app.analyst.script.ScriptLoad
  Column 5.
COLUMN_FOUR - Static variable in class org.encog.app.analyst.script.ScriptLoad
  Column 4.
COLUMN_ONE - Static variable in class org.encog.app.analyst.script.ScriptLoad
  Column 1.
COLUMN_THREE - Static variable in class org.encog.app.analyst.script.ScriptLoad
  Column 3.
COLUMN_TWO - Static variable in class org.encog.app.analyst.script.ScriptLoad
  Column 2.
ColumnDefinition - Class in org.encog.ml.data.versatile.columns
  Defines a column definition.
ColumnDefinition(String, ColumnType) - Constructor for class org.encog.ml.data.versatile.columns.ColumnDefinition
  The column definition.
columnIndex(String) - Method in class org.encog.ml.data.versatile.sources.CSVDataSource
  Obtain the column index for the specified name.
columnIndex(String) - Method in interface org.encog.ml.data.versatile.sources.VersatileDataSource
  Obtain the column index for the specified name.
ColumnType - Enum in org.encog.ml.data.versatile.columns
  The type of column, defined using level of measurement.
combine(long, int) - Static method in class org.encog.util.time.NumericDateUtil
COMMA - Static variable in class org.encog.persist.EncogWriteHelper
  A comma char.
COMMAND_NAME - Static variable in class org.encog.app.analyst.commands.CmdBalance
  The name of this command.
COMMAND_NAME - Static variable in class org.encog.app.analyst.commands.CmdCluster
  The name of this command.
COMMAND_NAME - Static variable in class org.encog.app.analyst.commands.CmdCode
  The name of this command.
COMMAND_NAME - Static variable in class org.encog.app.analyst.commands.CmdCreate
  The name of this command.
COMMAND_NAME - Static variable in class org.encog.app.analyst.commands.CmdEvaluate
  The name of this command.
COMMAND_NAME - Static variable in class org.encog.app.analyst.commands.CmdEvaluateRaw
  The name of the command.
COMMAND_NAME - Static variable in class org.encog.app.analyst.commands.CmdGenerate
  The name of this command.
COMMAND_NAME - Static variable in class org.encog.app.analyst.commands.CmdNormalize
  The name of this command.
COMMAND_NAME - Static variable in class org.encog.app.analyst.commands.CmdProcess
  The name of the command.
COMMAND_NAME - Static variable in class org.encog.app.analyst.commands.CmdRandomize
  The name of the command.
COMMAND_NAME - Static variable in class org.encog.app.analyst.commands.CmdReset
  The name of this command.
COMMAND_NAME - Static variable in class org.encog.app.analyst.commands.CmdSegregate
  The name of this command.
COMMAND_NAME - Static variable in class org.encog.app.analyst.commands.CmdSet
  The name of this command.
COMMAND_NAME - Static variable in class org.encog.app.analyst.commands.CmdTrain
  The name of this command.
COMMENT_BEGIN - Static variable in class org.encog.parse.tags.TagConst
  The beginning of a comment.
COMMENT_END - Static variable in class org.encog.parse.tags.TagConst
  The end of a comment.
CommonRender - Class in org.encog.parse.expression
  Common functions for some renders.
CommonRender() - Constructor for class org.encog.parse.expression.CommonRender
compare(LoadedRow, LoadedRow) - Method in class org.encog.app.analyst.csv.sort.RowComparator
  Compare two LoadedRow objects.
compare(Universe) - Method in class org.encog.ca.universe.basic.BasicUniverse
compare(Universe) - Method in interface org.encog.ca.universe.Universe
compare(Genome, Genome) - Method in class org.encog.ml.ea.sort.MaximizeAdjustedScoreComp
compare(Genome, Genome) - Method in class org.encog.ml.ea.sort.MaximizeScoreComp
compare(Genome, Genome) - Method in class org.encog.ml.ea.sort.MinimizeAdjustedScoreComp
compare(Genome, Genome) - Method in class org.encog.ml.ea.sort.MinimizeScoreComp
compare(Genome, Genome) - Method in class org.encog.ml.ea.sort.SortGenomesForSpecies
compare(Species, Species) - Method in class org.encog.ml.ea.sort.SpeciesComparator
compare(EncogProgram, EncogProgram) - Method in class org.encog.ml.prg.species.CompareEncogProgram
  Compare program 1 and 2 node for node.
compareArgs(int[]) - Method in class org.encog.ml.bayesian.table.TableLine
  Compare this truth line's arguments to others.
CompareEncogProgram - Class in org.encog.ml.prg.species
  Compare two Encog programs for speciation.
CompareEncogProgram() - Constructor for class org.encog.ml.prg.species.CompareEncogProgram
compareTo(AnalystClassItem) - Method in class org.encog.app.analyst.script.AnalystClassItem
compareTo(PropertyEntry) - Method in class org.encog.app.analyst.script.prop.PropertyEntry
compareTo(Trans) - Method in class org.encog.ca.program.generic.Trans
compareTo(BayesianChoice) - Method in class org.encog.ml.bayesian.BayesianChoice
compareTo(LoadedMarketData) - Method in class org.encog.ml.data.market.loader.LoadedMarketData
compareTo(TemporalPoint) - Method in class org.encog.ml.data.temporal.TemporalPoint
compareTo(SuccessorState) - Method in class org.encog.ml.world.SuccessorState
compareTo(NEATLink) - Method in class org.encog.neural.neat.NEATLink
compareTo(NEATBaseGene) - Method in class org.encog.neural.neat.training.NEATBaseGene
compatibleTypes(List<ValueType>, List<ValueType>) - Static method in class org.encog.ml.prg.opp.LevelHolder
  Determine if the specified child types are compatible with the parent types.
compileEPL(String) - Method in class org.encog.ml.prg.EncogProgram
  Compile the specified EPL into an actual program node structure, for later execution.
compileExpression(String) - Method in class org.encog.ml.prg.EncogProgram
  Compile the specified expression.
complete() - Method in class org.encog.util.http.FormUtility
  Complete the building of the form.
completePass1() - Method in class org.encog.app.analyst.analyze.AnalyzedField
  Complete pass 1.
completePass2() - Method in class org.encog.app.analyst.analyze.AnalyzedField
  Complete pass 2.
ComplexityAdjustedScore - Class in org.encog.ml.ea.score.adjust
  Adjust scores to penalize complexity.
ComplexityAdjustedScore(int, int, double, double) - Constructor for class org.encog.ml.ea.score.adjust.ComplexityAdjustedScore
  Construct a adjustor to penalize complexity.
ComplexityAdjustedScore() - Constructor for class org.encog.ml.ea.score.adjust.ComplexityAdjustedScore
ComplexNumber - Class in org.encog.mathutil
  A complex number class.
ComplexNumber(double, double) - Constructor for class org.encog.mathutil.ComplexNumber
  Constructs the complex number z = u + i*v
ComplexNumber(ComplexNumber) - Constructor for class org.encog.mathutil.ComplexNumber
  Create a complex number from another complex number.
CompoundOperator - Class in org.encog.ml.ea.opp
  A compound operator randomly chooses sub-operators to perform the actual operation.
CompoundOperator() - Constructor for class org.encog.ml.ea.opp.CompoundOperator
compute(MLData) - Method in class org.encog.ensemble.Ensemble
  Compute the output for a specific input
compute(MLData) - Method in class org.encog.ensemble.GenericEnsembleML
compute() - Method in interface org.encog.mathutil.matrices.hessian.ComputeHessian
  Compute the Hessian.
compute() - Method in class org.encog.mathutil.matrices.hessian.HessianCR
  Compute the Hessian.
compute() - Method in class org.encog.mathutil.matrices.hessian.HessianFD
  Compute the Hessian.
compute(MLData) - Method in class org.encog.ml.fitting.gaussian.GaussianFitting
compute(MLData) - Method in class org.encog.ml.fitting.linear.LinearRegression
compute(MLData) - Method in interface org.encog.ml.MLRegression
  Compute regression.
compute(MLData) - Method in class org.encog.ml.prg.EncogProgram
  Compute the output from the input MLData.
compute(MLData) - Method in class org.encog.ml.prg.train.PrgPopulation
  Compute the output from the best Genome.
compute(MLData) - Method in class org.encog.ml.svm.SVM
  Compute the output for the given input.
compute(BiPolarNeuralData, BiPolarNeuralData) - Method in class org.encog.neural.art.ART1
  Compute the output from the ART1 network.
compute(MLData) - Method in class org.encog.neural.art.ART1
  Compute the output for the BasicNetwork class.
compute(MLData) - Method in class org.encog.neural.bam.BAM
  Setup the network logic, read parameters from the network.
compute(NeuralDataMapping) - Method in class org.encog.neural.bam.BAM
  Compute the network for the specified input.
compute(MLData) - Method in class org.encog.neural.cpn.CPN
  Compute regression.
compute(double[], double[]) - Method in class org.encog.neural.flat.FlatNetwork
  Calculate the output for the given input.
compute(double[], double[]) - Method in class org.encog.neural.flat.FlatNetworkRBF
  Calculate the output for the given input.
compute(MLData) - Method in class org.encog.neural.freeform.FreeformNetwork
  Compute regression.
compute(MLData) - Method in class org.encog.neural.neat.NEATNetwork
  Compute the output from this synapse.
compute(MLData) - Method in class org.encog.neural.neat.NEATPopulation
  Compute regression.
compute(double[], double[]) - Method in class org.encog.neural.networks.BasicNetwork
  Compute the output for this network.
compute(MLData) - Method in class org.encog.neural.networks.BasicNetwork
  Compute the output for a given input to the neural network.
compute(MLData) - Method in class org.encog.neural.pnn.AbstractPNN
  Compute the output from the network.
compute(MLData) - Method in class org.encog.neural.pnn.BasicPNN
  Compute the output from this network.
compute(MLData) - Method in class org.encog.neural.rbf.RBFNetwork
  Compute regression.
compute(MLData) - Method in class org.encog.neural.thermal.BoltzmannMachine
  Note: for Boltzmann networks, you will usually want to call the "run" method to compute the output.
compute(MLData) - Method in class org.encog.neural.thermal.HopfieldNetwork
  Note: for Hopfield networks, you will usually want to call the "run" method to compute the output.
computeAlpha(HiddenMarkovModel, MLDataSet) - Method in class org.encog.ml.hmm.alog.ForwardBackwardCalculator
  Compute alpha.
computeAlpha(HiddenMarkovModel, MLDataSet) - Method in class org.encog.ml.hmm.alog.ForwardBackwardScaledCalculator
computeAlphaInit(HiddenMarkovModel, MLDataPair, int) - Method in class org.encog.ml.hmm.alog.ForwardBackwardCalculator
  Compute the alpha init.
computeAlphaStep(HiddenMarkovModel, MLDataPair, int, int) - Method in class org.encog.ml.hmm.alog.ForwardBackwardCalculator
  Compute the alpha step.
computeBeta(HiddenMarkovModel, MLDataSet) - Method in class org.encog.ml.hmm.alog.ForwardBackwardCalculator
  Compute the beta step.
computeBeta(HiddenMarkovModel, MLDataSet) - Method in class org.encog.ml.hmm.alog.ForwardBackwardScaledCalculator
computeBetaStep(HiddenMarkovModel, MLDataPair, int, int) - Method in class org.encog.ml.hmm.alog.ForwardBackwardCalculator
  Compute the beta step.
computeDeriv(MLData, MLData) - Method in class org.encog.neural.networks.training.pnn.TrainBasicPNN
  Compute the derivative for target data.
computeDistance(String, String) - Static method in class org.encog.util.text.LevenshteinDistance
ComputeHessian - Interface in org.encog.mathutil.matrices.hessian
  Compute (estimate) the Hessian matrix.
computeInstar(MLData) - Method in class org.encog.neural.cpn.CPN
  Compute the instar layer.
computeLayer(int) - Method in class org.encog.neural.flat.FlatNetwork
  Calculate a layer.
computeOutstar(MLData) - Method in class org.encog.neural.cpn.CPN
  Compute the outstar layer.
computeProbability(MLData) - Method in class org.encog.ml.bayesian.BayesianNetwork
ConcurrentJob - Class in org.encog.util.concurrency.job
  This class forms the basis for a job that can be run concurrently.
ConcurrentJob(StatusReportable) - Constructor for class org.encog.util.concurrency.job.ConcurrentJob
  Construct a concurrent job.
ConcurrentTrainingManager - Class in org.encog.neural.networks.training.concurrent
  Concurrent training manager.
ConcurrentTrainingPerformer - Interface in org.encog.neural.networks.training.concurrent.performers
  Performers actually perform the training.
ConcurrentTrainingPerformerCPU - Class in org.encog.neural.networks.training.concurrent.performers
  This performer allows jobs to be performed by the CPU.
ConcurrentTrainingPerformerCPU(int) - Constructor for class org.encog.neural.networks.training.concurrent.performers.ConcurrentTrainingPerformerCPU
  Construct the performer.
cond() - Method in class org.encog.mathutil.matrices.decomposition.SingularValueDecomposition
  Two norm condition number
conj() - Method in class org.encog.mathutil.ComplexNumber
  Complex conjugate of this Complex number (the conjugate of x+i*y is x-i*y).
connect(BasicNode, BasicNode, double) - Method in class org.encog.ml.graph.BasicGraph
connect(BasicNode, double) - Method in class org.encog.ml.graph.BasicNode
ConnectionTask - Interface in org.encog.neural.freeform.task
  Implements a task that will be performed for every connection.
connectLayers(FreeformLayer, FreeformLayer) - Method in class org.encog.neural.freeform.FreeformNetwork
  Connect two layers.
connectLayers(FreeformLayer, FreeformLayer, ActivationFunction, double, boolean) - Method in class org.encog.neural.freeform.FreeformNetwork
  Connect two layers.
ConnectLayers(FreeformLayer, FreeformLayer, ActivationFunction) - Method in class org.encog.neural.freeform.FreeformNetwork
  Connect two layers, assume bias activation of 1.0 and non-recurrent connection.
ConsistentRandomizer - Class in org.encog.mathutil.randomize
  A randomizer that takes a seed and will always produce consistent results.
ConsistentRandomizer(double, double) - Constructor for class org.encog.mathutil.randomize.ConsistentRandomizer
  Construct a range randomizer.
ConsistentRandomizer(double, double, int) - Constructor for class org.encog.mathutil.randomize.ConsistentRandomizer
  Construct a range randomizer.
ConsoleAnalystListener - Class in org.encog.app.analyst
  A console implementation of the Encog Analyst listener.
ConsoleAnalystListener() - Constructor for class org.encog.app.analyst.ConsoleAnalystListener
ConsoleStatusReportable - Class in org.encog
  A simple status report that goes to the console.
ConsoleStatusReportable() - Constructor for class org.encog.ConsoleStatusReportable
ConstMutation - Class in org.encog.ml.prg.opp
  Mutate the constant nodes of an Encog program.
ConstMutation(EncogProgramContext, double, double) - Constructor for class org.encog.ml.prg.opp.ConstMutation
  Construct a const mutator.
ConstraintRule - Interface in org.encog.ml.ea.rules
  Defines a constraint.
ConstRandomizer - Class in org.encog.mathutil.randomize
  A randomizer that will create always set the random number to a const value, used mainly for testing.
ConstRandomizer(double) - Constructor for class org.encog.mathutil.randomize.ConstRandomizer
  Construct a range randomizer.
constructNEATTrainer(CalculateScore, int, int, int) - Static method in class org.encog.neural.neat.NEATUtil
constructNEATTrainer(NEATPopulation, CalculateScore) - Static method in class org.encog.neural.neat.NEATUtil
  Construct a NEAT (or HyperNEAT trainer.
constructURL(URL, String, boolean) - Static method in class org.encog.util.http.URLUtility
  Construct a URL from its basic parts.
contains(int[], int) - Static method in class org.encog.util.EngineArray
contains(String) - Method in class org.encog.util.text.BagOfWords
containsDestination(BasicNode) - Method in class org.encog.ml.graph.search.FrontierHolder
ContainsFlat - Interface in org.encog.neural.networks
  Interface that specifies that a machine learning method contains a flat network.
containsInvalidURLCharacters(String) - Static method in class org.encog.util.http.URLUtility
  Returns true if the URL contains any invalid characters.
contents() - Method in class org.encog.mathutil.probability.vars.VariableList
ContinousDistribution - Class in org.encog.ml.hmm.distributions
  A continuous distribution represents an infinite range of choices between two real numbers.
ContinousDistribution(double[], double[][]) - Constructor for class org.encog.ml.hmm.distributions.ContinousDistribution
  Construct a continuous distribution.
ContinousDistribution(int) - Constructor for class org.encog.ml.hmm.distributions.ContinousDistribution
  Construct a continuous distribution with the specified number of dimensions.
ContinuousCell - Interface in org.encog.ca.universe
Convert - Class in org.encog.mathutil
  This class is used to convert strings into numeric values.
convertBack(double) - Method in class org.encog.util.normalize.output.OutputFieldRangeMapped
  Convert a number back after its been normalized.
convertCSV2Binary(File, File, int, int, boolean) - Static method in class org.encog.util.simple.EncogUtility
  Convert a CSV file to a binary training file.
convertCSV2Binary(String, String, int, int, boolean) - Static method in class org.encog.util.simple.EncogUtility
  Convert a CSV file to a binary training file.
convertCSV2Binary(File, CSVFormat, File, int[], int[], boolean) - Static method in class org.encog.util.simple.EncogUtility
convertDoubleToString(double[], int) - Static method in class org.encog.util.text.DoubleString
convertFilename(String, URL, boolean) - Static method in class org.encog.util.http.URLUtility
  Convert a filename for local storage.
ConvertStringConst - Class in org.encog.app.analyst.util
  Convert several Analyst String to the correct object.
convertStringToDouble(String, double[], int) - Static method in class org.encog.util.text.DoubleString
convertToCSVFormat(AnalystFileFormat) - Static method in class org.encog.app.analyst.util.ConvertStringConst
  Convert an analyst format to a csv format.
ConwayProgram - Class in org.encog.ca.program.conway
ConwayProgram(Universe) - Constructor for class org.encog.ca.program.conway.ConwayProgram
CookieUtility - Class in org.encog.util.http
  This class allows URLConnection objects to process cookies.
CookieUtility() - Constructor for class org.encog.util.http.CookieUtility
copy(UniverseCell) - Method in class org.encog.ca.universe.basic.BasicContinuousCell
copy(UniverseCell) - Method in class org.encog.ca.universe.basic.BasicDiscreteCell
copy(Universe) - Method in class org.encog.ca.universe.basic.BasicUniverse
copy(Universe) - Method in interface org.encog.ca.universe.Universe
copy(UniverseCell) - Method in interface org.encog.ca.universe.UniverseCell
copy(Matrix, Matrix) - Static method in class org.encog.mathutil.matrices.MatrixMath
  Copy from one matrix to another.
copy(double[], double[]) - Method in class org.encog.mathutil.VectorAlgebra
  dst = src Copy a vector.
copy(Genome) - Method in interface org.encog.ml.ea.genome.Genome
  Copy from the specified genome into this one.
copy(ArrayGenome, int, int) - Method in interface org.encog.ml.genetic.genome.ArrayGenome
  Copy elements from another array genome into this one.
copy(ArrayGenome, int, int) - Method in class org.encog.ml.genetic.genome.DoubleArrayGenome
  Copy elements from another array genome into this one.
copy(Genome) - Method in class org.encog.ml.genetic.genome.DoubleArrayGenome
  Copy from the specified genome into this one.
copy(ArrayGenome, int, int) - Method in class org.encog.ml.genetic.genome.IntegerArrayGenome
  Copy elements from another array genome into this one.
copy(Genome) - Method in class org.encog.ml.genetic.genome.IntegerArrayGenome
  Copy from the specified genome into this one.
copy(Genome) - Method in class org.encog.ml.prg.EncogProgram
  Copy from the specified genome into this one.
copy(Genome) - Method in class org.encog.neural.neat.training.NEATGenome
  Copy from the specified genome into this one.
copy(NEATLinkGene) - Method in class org.encog.neural.neat.training.NEATLinkGene
  Copy from another gene.
copy(NEATNeuronGene) - Method in class org.encog.neural.neat.training.NEATNeuronGene
  Copy another gene to this one.
copy(NeuralDataMapping, NeuralDataMapping) - Static method in class org.encog.neural.networks.NeuralDataMapping
  Copy from one object to the other.
copy(File, File) - Static method in class org.encog.util.file.FileUtil
copy(InputStream, OutputStream) - Static method in class org.encog.util.file.FileUtil
copyFile(File, File) - Static method in class org.encog.util.file.Directory
  Copy the specified file.
copyFromNetwork(FlatNetwork) - Method in class org.encog.neural.networks.training.cross.NetworkFold
  Copy the weights and output from the network.
copyResource(String, File) - Static method in class org.encog.util.file.FileUtil
COPYRIGHT - Static variable in class org.encog.Encog
  The current engog version, this should be read from the properties.
copyToNetwork(FlatNetwork) - Method in class org.encog.neural.networks.training.cross.NetworkFold
  Copy weights and output to the network.
copyWindow(double[], int) - Method in class org.encog.util.arrayutil.VectorWindow
  Copy the entire window to a complete vector.
cos(double) - Static method in class org.encog.mathutil.BoundMath
  Calculate the cos.
cos() - Method in class org.encog.mathutil.ComplexNumber
  Cosine of this Complex number (doesn't change this Complex number).
cosh() - Method in class org.encog.mathutil.ComplexNumber
  Hyperbolic cosine of this Complex number (doesn't change this Complex number).
CostEstimator - Interface in org.encog.ml.graph.search
countActiveFields() - Method in class org.encog.app.analyst.script.normalize.AnalystNormalize
countInputFields() - Method in class org.encog.util.arrayutil.TemporalWindowArray
  Count the number of input fields, or fields used to predict.
countPredictFields() - Method in class org.encog.util.arrayutil.TemporalWindowArray
  Count the number of fields that are that are in the prediction.
CPN - Class in org.encog.neural.cpn
  Counterpropagation Neural Networks (CPN) were developed by Professor Robert Hecht-Nielsen in 1987.
CPN(int, int, int, int) - Constructor for class org.encog.neural.cpn.CPN
  Construct the counterpropagation neural network.
CPNPattern - Class in org.encog.neural.pattern
  Pattern that creates a CPN neural network.
CPNPattern() - Constructor for class org.encog.neural.pattern.CPNPattern
create(int, int) - Method in class org.encog.ml.data.buffer.EncogEGBFile
  Create a new RGB file.
create(String, int, int) - Method in class org.encog.ml.factory.method.BayesianFactory
  Create a bayesian network.
create(String, int, int) - Method in class org.encog.ml.factory.method.EPLFactory
  Create a feed forward network.
create(String, int, int) - Method in class org.encog.ml.factory.method.FeedforwardFactory
  Create a feed forward network.
create(String, int, int) - Method in class org.encog.ml.factory.method.NEATFactory
  Create a NEAT population.
create(String, int, int) - Method in class org.encog.ml.factory.method.PNNFactory
  Create a PNN network.
create(String, int, int) - Method in class org.encog.ml.factory.method.RBFNetworkFactory
  Create a RBF network.
create(String, int, int) - Method in class org.encog.ml.factory.method.SOMFactory
  Create a SOM.
create(String, int, int) - Method in class org.encog.ml.factory.method.SRNFactory
  Create the SRN.
create(String, int, int) - Method in class org.encog.ml.factory.method.SVMFactory
  Create the SVM.
create(String) - Method in class org.encog.ml.factory.MLActivationFactory
create(String, String, int, int) - Method in class org.encog.ml.factory.MLMethodFactory
  Create a new machine learning method.
create(MLMethod, MLDataSet, String, String) - Method in class org.encog.ml.factory.MLTrainFactory
  Create a trainer.
create(MLMethod, MLDataSet, String) - Method in class org.encog.ml.factory.train.AnnealFactory
  Create an annealing trainer.
create(MLMethod, MLDataSet, String) - Method in class org.encog.ml.factory.train.BackPropFactory
  Create a backpropagation trainer.
create(MLMethod, MLDataSet, String) - Method in class org.encog.ml.factory.train.ClusterSOMFactory
  Create a cluster SOM trainer.
create(MLMethod, MLDataSet, String) - Method in class org.encog.ml.factory.train.EPLGAFactory
  Create an EPL GA trainer.
create(MLMethod, MLDataSet, String) - Method in class org.encog.ml.factory.train.GeneticFactory
  Create an annealing trainer.
create(MLMethod, MLDataSet, String) - Method in class org.encog.ml.factory.train.LMAFactory
  Create a LMA trainer.
create(MLMethod, MLDataSet, String) - Method in class org.encog.ml.factory.train.ManhattanFactory
  Create a Manhattan trainer.
create(MLMethod, MLDataSet, String) - Method in class org.encog.ml.factory.train.NEATGAFactory
  Create an NEAT GA trainer.
create(MLMethod, MLDataSet, String) - Method in class org.encog.ml.factory.train.NeighborhoodSOMFactory
  Create a LMA trainer.
create(MLMethod, MLDataSet, String) - Method in class org.encog.ml.factory.train.NelderMeadFactory
  Create a Nelder Mead trainer.
create(MLMethod, MLDataSet, String) - Method in class org.encog.ml.factory.train.PNNTrainFactory
  Create a PNN trainer.
create(MLMethod, MLDataSet, String) - Method in class org.encog.ml.factory.train.PSOFactory
  Create a PSO trainer.
create(MLMethod, MLDataSet, String) - Method in class org.encog.ml.factory.train.QuickPropFactory
  Create a quick propagation trainer.
create(MLMethod, MLDataSet, String) - Method in class org.encog.ml.factory.train.RBFSVDFactory
  Create a RBF-SVD trainer.
create(MLMethod, MLDataSet, String) - Method in class org.encog.ml.factory.train.RPROPFactory
  Create a RPROP trainer.
create(MLMethod, MLDataSet, String) - Method in class org.encog.ml.factory.train.SCGFactory
  Create a SCG trainer.
create(MLMethod, MLDataSet, String) - Method in class org.encog.ml.factory.train.SVMFactory
  Create a SVM trainer.
create(MLMethod, MLDataSet, String) - Method in class org.encog.ml.factory.train.SVMSearchFactory
  Create a SVM trainer.
create(MLMethod, MLDataSet, String) - Method in class org.encog.ml.factory.train.TrainBayesianFactory
  Create a K2 trainer.
createAbsorbingState(State, double) - Method in class org.encog.ml.world.basic.BasicWorld
createActivationFunction(String) - Method in interface org.encog.plugin.EncogPluginService1
  Create an activation function.
createActivationFunction(String) - Method in class org.encog.plugin.system.SystemActivationPlugin
  Create an activation function.
createActivationFunction(String) - Method in class org.encog.plugin.system.SystemMethodsPlugin
  Create an activation function.
createActivationFunction(String) - Method in class org.encog.plugin.system.SystemTrainingPlugin
  This plugin does not support activation functions, so it will always return null.
createActivations(FlatNetwork) - Method in class org.encog.app.generate.generators.AbstractTemplateGenerator
  Create an array of activations based on a flat network.
createAll(EncogProgramContext) - Static method in class org.encog.ml.prg.extension.StandardExtensions
  Add all known opcodes to a context.
createArray(String, double[]) - Method in class org.encog.app.generate.program.EncogProgramNode
  Create an array.
createBasicFunctions(EncogProgramContext) - Static method in class org.encog.ml.prg.extension.StandardExtensions
  Add the opcodes for basic operations to a context.
createBooleanOperators(EncogProgramContext) - Static method in class org.encog.ml.prg.extension.StandardExtensions
  Add the opcodes for boolean operations to a context.
createCentroid() - Method in class org.encog.ml.data.basic.BasicMLComplexData
  Not supported.
createCentroid() - Method in class org.encog.ml.data.basic.BasicMLData
createCentroid() - Method in class org.encog.ml.data.basic.BasicMLDataPair
createCentroid() - Method in class org.encog.ml.data.sparse.SparseMLData
createCentroid() - Method in class org.encog.ml.data.specific.BiPolarNeuralData
  Not supported.
createCentroid() - Method in interface org.encog.util.kmeans.CentroidFactory
createClass(String) - Method in class org.encog.app.generate.program.EncogGenProgram
  Create a new class.
createCoefficients() - Method in class org.encog.mathutil.matrices.hessian.HessianFD
  Compute finite difference coefficients according to the method provided here: http://en.wikipedia.org/wiki/Finite_difference_coefficients
createColumnMatrix(double[]) - Static method in class org.encog.mathutil.matrices.Matrix
  Turn an array of doubles into a column matrix.
createContext(FreeformLayer, FreeformLayer) - Method in class org.encog.neural.freeform.FreeformNetwork
  Create a context connection, such as those used by Jordan/Elmann.
createConversionFunctions(EncogProgramContext) - Static method in class org.encog.ml.prg.extension.StandardExtensions
  Add the opcodes for type conversion operations to a context.
createDataSet() - Method in class org.encog.ml.kmeans.BasicCluster
  Create a dataset from the clustered data.
createDataSet() - Method in interface org.encog.ml.MLCluster
  Create a machine learning dataset from the data.
createDate(int, int, int) - Static method in class org.encog.util.time.DateUtil
  Create a Date object with the specified date.
createDependency(BayesianEvent, BayesianEvent) - Method in class org.encog.ml.bayesian.BayesianNetwork
  Create a dependency between two events.
createDependency(BayesianEvent, BayesianEvent...) - Method in class org.encog.ml.bayesian.BayesianNetwork
  Create a dependency between a parent and multiple children.
createDependency(String, String) - Method in class org.encog.ml.bayesian.BayesianNetwork
  Create a dependency between two labels.
createElman(int, int, int, ActivationFunction) - Static method in class org.encog.neural.freeform.FreeformNetwork
  Construct an Elmann recurrent neural network.
createEvent(BayesianEvent) - Method in class org.encog.ml.bayesian.BayesianNetwork
  Create, or register, the specified event with this bayesian network.
createEvent(String, List<BayesianChoice>) - Method in class org.encog.ml.bayesian.BayesianNetwork
  Create an event specified on the label and options provided.
createEvent(String, String...) - Method in class org.encog.ml.bayesian.BayesianNetwork
  Create the specified events based on a variable number of options, or choices.
createFeedforward(int, int, int, int, ActivationFunction) - Static method in class org.encog.neural.freeform.FreeformNetwork
  Create a feedforward freeform neural network.
createFunction(String) - Method in class org.encog.app.generate.program.EncogProgramNode
  Create a function.
createFunctionCall(EncogProgramNode, String, String) - Method in class org.encog.app.generate.program.EncogProgramNode
  Create a function call.
createFunctionCall(String, String, String) - Method in class org.encog.app.generate.program.EncogProgramNode
  Create a function call.
createHiddenNode() - Method in class org.encog.neural.hyperneat.substrate.Substrate
createInputLayer(int) - Method in class org.encog.neural.freeform.FreeformNetwork
  Create the input layer.
createInputNode() - Method in class org.encog.neural.hyperneat.substrate.Substrate
createInputStream(String) - Static method in class org.encog.util.ResourceLoader
  Create an input stream to read from the resource.
createKey(String, int) - Static method in enum org.encog.ml.prg.extension.EncogOpcodeRegistry
  Construct a lookup key for the hash map.
createLayer(int) - Method in class org.encog.neural.freeform.FreeformNetwork
  Create a hidden layer.
createLink(SubstrateNode, SubstrateNode) - Method in class org.encog.neural.hyperneat.substrate.Substrate
createLink(NEATGenome, long, long, double) - Method in class org.encog.neural.neat.training.opp.NEATMutation
  Create a link between two neuron id's.
createMainFunction() - Method in class org.encog.app.generate.program.EncogProgramNode
  Create a new main function.
createMethod() - Method in class org.encog.ml.model.EncogModel
  Create the selected method.
createMethod(String, String, int, int) - Method in interface org.encog.plugin.EncogPluginService1
  Create a new machine learning method.
createMethod(String, String, int, int) - Method in class org.encog.plugin.system.SystemActivationPlugin
  Create a new machine learning method.
createMethod(String, String, int, int) - Method in class org.encog.plugin.system.SystemMethodsPlugin
  Create a new machine learning method.
createMethod(String, String, int, int) - Method in class org.encog.plugin.system.SystemTrainingPlugin
createML(int, int) - Method in interface org.encog.ensemble.EnsembleMLMethodFactory
createML(int, int) - Method in class org.encog.ensemble.ml.mlp.factory.MultiLayerPerceptronFactory
createNetworkFunction(String, File) - Method in class org.encog.app.generate.program.EncogProgramNode
  Create a new network function.
createNewDistribution() - Method in class org.encog.ml.hmm.HiddenMarkovModel
createNode(Random, EncogProgram, int, List<ValueType>) - Method in class org.encog.ml.prg.generator.PrgFullGenerator
  Create a random node for an Encog Program.
createNode(Random, EncogProgram, int, List<ValueType>) - Method in interface org.encog.ml.prg.generator.PrgGenerator
  Create a random node for an Encog Program.
createNode(Random, EncogProgram, int, List<ValueType>) - Method in class org.encog.ml.prg.generator.PrgGrowGenerator
  Create a random node for an Encog Program.
createNode(Random, EncogProgram, int, List<ValueType>) - Method in class org.encog.ml.prg.generator.RampedHalfAndHalf
  Create a random node for an Encog Program.
createNode() - Method in class org.encog.neural.hyperneat.substrate.Substrate
createNumericOperators(EncogProgramContext) - Static method in class org.encog.ml.prg.extension.StandardExtensions
  Add the opcodes for numeric operations to a context, do not use protected division.
createNumericOperators(EncogProgramContext, boolean) - Static method in class org.encog.ml.prg.extension.StandardExtensions
  Add the opcodes for numeric operations to a context.
createOutputLayer(int) - Method in class org.encog.neural.freeform.FreeformNetwork
  Create the output layer.
createOutputNode() - Method in class org.encog.neural.hyperneat.substrate.Substrate
createPair(int, int) - Static method in class org.encog.ml.data.basic.BasicMLDataPair
  Create a new data pair object of the correct size for the machine learning method that is being trained.
createParams(FlatNetwork) - Method in class org.encog.app.generate.generators.AbstractTemplateGenerator
  Create an array of doubles to hold the specified flat network.
createPoint(Date) - Method in class org.encog.ml.data.market.MarketMLDataSet
  Create a datapoint at the specified date.
createPoint(Date) - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
  Create a temporal point from a time.
createPoint(int) - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
  Create a temporal data point using a sequence number.
createProgram(String) - Method in class org.encog.ml.prg.EncogProgramContext
  Create a new program, using this context.
createRandomNode(Random, EncogProgram, int, List<ValueType>, boolean, boolean) - Method in class org.encog.ml.prg.generator.AbstractPrgGenerator
  Create a random note according to the specified paramaters.
createRowMatrix(double[]) - Static method in class org.encog.mathutil.matrices.Matrix
  Turn an array of doubles into a row matrix.
createSpecies() - Method in class org.encog.ml.ea.population.BasicPopulation
  Create a species.
createSpecies() - Method in interface org.encog.ml.ea.population.Population
  Create a species.
createStringFunctions(EncogProgramContext) - Static method in class org.encog.ml.prg.extension.StandardExtensions
  Add the opcodes for string operations to a context.
createTaskGroup() - Method in class org.encog.util.concurrency.EngineConcurrency
  Create a new task group.
createTerminalNode(Random, EncogProgram, List<ValueType>) - Method in class org.encog.ml.prg.generator.AbstractPrgGenerator
  Create a terminal node.
createTrainer(boolean) - Method in class org.encog.neural.networks.training.concurrent.jobs.BPROPJob
  Create a trainer to use.
createTrainer(boolean) - Method in class org.encog.neural.networks.training.concurrent.jobs.RPROPJob
  Create a trainer to use.
createTrainer(boolean) - Method in class org.encog.neural.networks.training.concurrent.jobs.TrainingJob
  Create a trainer to use.
createTraining(MLMethod, MLDataSet, String, String) - Method in interface org.encog.plugin.EncogPluginService1
  Create a trainer.
createTraining(MLMethod, MLDataSet, String, String) - Method in class org.encog.plugin.system.SystemActivationPlugin
  Create a trainer.
createTraining(MLMethod, MLDataSet, String, String) - Method in class org.encog.plugin.system.SystemMethodsPlugin
  Create a trainer.
createTraining(MLMethod, MLDataSet, String, String) - Method in class org.encog.plugin.system.SystemTrainingPlugin
createTrigFunctions(EncogProgramContext) - Static method in class org.encog.ml.prg.extension.StandardExtensions
  Add the opcodes for trig functions operations to a context.
CrossTraining - Class in org.encog.neural.networks.training.cross
  Base class for cross training trainers.
CrossTraining(MLMethod, FoldedDataSet) - Constructor for class org.encog.neural.networks.training.cross.CrossTraining
  Construct a cross trainer.
crossvalidate(int, boolean) - Method in class org.encog.ml.model.EncogModel
  Crossvalidate and fit.
CrossValidationKFold - Class in org.encog.neural.networks.training.cross
  Train using K-Fold cross validation.
CrossValidationKFold(MLTrain, int) - Constructor for class org.encog.neural.networks.training.cross.CrossValidationKFold
  Construct a cross validation trainer.
CSVDataCODEC - Class in org.encog.ml.data.buffer.codec
  A CODEC used to read/write data from/to a CSV data file.
CSVDataCODEC(File, CSVFormat, boolean) - Constructor for class org.encog.ml.data.buffer.codec.CSVDataCODEC
  Constructor to create CSV from binary..
CSVDataCODEC(File, CSVFormat, boolean, int, int, boolean) - Constructor for class org.encog.ml.data.buffer.codec.CSVDataCODEC
  Create a CODEC to load data from CSV to binary.
CSVDataSource - Class in org.encog.ml.data.versatile.sources
  Allow a CSV file to serve as a source for the versatile data source.
CSVDataSource(File, boolean, char) - Constructor for class org.encog.ml.data.versatile.sources.CSVDataSource
  Construct a CSV source from a filename.
CSVDataSource(File, boolean, CSVFormat) - Constructor for class org.encog.ml.data.versatile.sources.CSVDataSource
  Construct a CSV source from a filename.
CSVError - Exception in org.encog.util.csv
  An error has occured while working with CSV data.
CSVError(String) - Constructor for exception org.encog.util.csv.CSVError
  Construct a message exception.
CSVError(Throwable) - Constructor for exception org.encog.util.csv.CSVError
  Construct an exception that holds another exception.
CSVFormat - Class in org.encog.util.csv
  Specifies a CSV format.
CSVFormat() - Constructor for class org.encog.util.csv.CSVFormat
  By default use USA conventions.
CSVFormat(char, char) - Constructor for class org.encog.util.csv.CSVFormat
  Construct a CSV format with he specified decimal and separator characters.
CSVHeaders - Class in org.encog.app.analyst.util
  Utility class to help deal with CSV headers.
CSVHeaders(File, boolean, CSVFormat) - Constructor for class org.encog.app.analyst.util.CSVHeaders
  Construct the object.
CSVHeaders(List<String>) - Constructor for class org.encog.app.analyst.util.CSVHeaders
  Construct the object.
CSVHeaders(String[]) - Constructor for class org.encog.app.analyst.util.CSVHeaders
  Construct the object.
CSVNeuralDataSet - Class in org.encog.ml.data.specific
  An implementation of the NeuralDataSet interface designed to provide a CSV file to the neural network.
CSVNeuralDataSet(String, int, int, boolean) - Constructor for class org.encog.ml.data.specific.CSVNeuralDataSet
  Construct this data set using a comma as a delimiter.
CSVNeuralDataSet(String, int, int, boolean, CSVFormat, boolean) - Constructor for class org.encog.ml.data.specific.CSVNeuralDataSet
  Construct this data set using a comma as a delimiter.
CUT - Static variable in class org.encog.neural.networks.training.anneal.NeuralSimulatedAnnealing
  The cutoff for random data.
CYCLES - Static variable in class org.encog.ml.factory.MLTrainFactory
  The number of cycles.

## D

DATA - Static variable in class org.encog.persist.PersistConst
  Data.
DATA_CONFIG_GOAL - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "DATA:CONFIG_goal".
DataDivision - Class in org.encog.ml.data.versatile.division
  A division of data inside of a versatile data set.
DataDivision(double) - Constructor for class org.encog.ml.data.versatile.division.DataDivision
  Construct a division.
DataField - Class in org.encog.app.analyst.script
  Holds stats on a data field for the Encog Analyst.
DataField(String) - Constructor for class org.encog.app.analyst.script.DataField
  Construct the data field.
DataFold - Class in org.encog.ml.data.cross
DataFold(MatrixMLDataSet, MatrixMLDataSet) - Constructor for class org.encog.ml.data.cross.DataFold
DataNormalization - Class in org.encog.util.normalize
  This class is used to normalize both input and ideal data for neural networks.
DataNormalization() - Constructor for class org.encog.util.normalize.DataNormalization
DataSetCODEC - Interface in org.encog.ml.data.buffer.codec
  A CODEC is used to encode and decode data.
dataSetFactory - Variable in class org.encog.ensemble.Ensemble
dataSetSize - Variable in class org.encog.ensemble.data.factories.EnsembleDataSetFactory
dataSource - Variable in class org.encog.ensemble.data.factories.EnsembleDataSetFactory
DataUnit - Class in org.encog.bot.dataunit
  Data units are very abstract pieces of data that the browser processes.
DataUnit() - Constructor for class org.encog.bot.dataunit.DataUnit
DATE - Static variable in class org.encog.app.analyst.csv.basic.FileData
  The date.
date2Long(Date) - Static method in class org.encog.util.time.NumericDateUtil
DateUtil - Class in org.encog.util.time
  Simple date utility class.
DAYS_WEEK - Static variable in class org.encog.util.time.TimeSpan
  Days in a week.
decay(double) - Method in class org.encog.neural.som.training.basic.BasicTrainSOM
  Called to decay the learning rate and radius by the specified amount.
decay(double, double) - Method in class org.encog.neural.som.training.basic.BasicTrainSOM
  Decay the learning rate and radius by the specified amount.
DECIMAL_COMMA - Static variable in class org.encog.util.csv.CSVFormat
  Use a decimal comma, and a semicolon to separate numbers.
DECIMAL_POINT - Static variable in class org.encog.util.csv.CSVFormat
  Use a decimal point, and a comma to separate numbers.
decode(boolean, boolean, double[], MLData) - Method in class org.encog.app.analyst.util.AnalystUtility
  Decode fields, using the analyst.
decode(double[]) - Method in class org.encog.mathutil.Equilateral
  Decode a set of activations and see which set it has the lowest Euclidean distance from.
decode(Genome) - Method in interface org.encog.ml.ea.codec.GeneticCODEC
  Decode the specified genome into a phenome.
decode(Genome) - Method in class org.encog.ml.ea.codec.GenomeAsPhenomeCODEC
  Decode the specified genome into a phenome.
decode(Genome) - Method in class org.encog.ml.genetic.MLEncodableCODEC
  Decode the specified genome into a phenome.
decode() - Method in class org.encog.ml.genetic.MLMethodGenome
  Decode the phenotype.
decode(Genome) - Method in class org.encog.ml.prg.PrgCODEC
  Decode the specified genome into a phenome.
decode(Genome) - Method in class org.encog.neural.hyperneat.HyperNEATCODEC
  Decode the specified genome into a phenome.
decode(NEATPopulation, Substrate, Genome) - Method in class org.encog.neural.hyperneat.HyperNEATCODEC
decode(Genome) - Method in class org.encog.neural.neat.NEATCODEC
  Decode the specified genome into a phenome.
DECODE - Static variable in class org.encog.util.text.Base64
  Specify decoding in first bit.
decode(byte[]) - Static method in class org.encog.util.text.Base64
  Low-level access to decoding ASCII characters in the form of a byte array.
decode(byte[], int, int, int) - Static method in class org.encog.util.text.Base64
  Low-level access to decoding ASCII characters in the form of a byte array.
decode(String) - Static method in class org.encog.util.text.Base64
  Decodes data from Base64 notation, automatically detecting gzip-compressed data and decompressing it.
decode(String, int) - Static method in class org.encog.util.text.Base64
  Decodes data from Base64 notation, automatically detecting gzip-compressed data and decompressing it.
decodeFileToFile(String, String) - Static method in class org.encog.util.text.Base64
  Reads `infile` and decodes it to `outfile`.
decodeFromArray(double[]) - Method in interface org.encog.ml.MLEncodable
  Decode an array to this object.
decodeFromArray(double[]) - Method in class org.encog.neural.freeform.FreeformNetwork
  Decode an array to this object.
decodeFromArray(double[]) - Method in class org.encog.neural.networks.BasicNetwork
  Decode an array to this object.
decodeFromArray(double[]) - Method in class org.encog.neural.rbf.RBFNetwork
  Decode an array to this object.
decodeFromFile(String) - Static method in class org.encog.util.text.Base64
  Convenience method for reading a base64-encoded file and decoding it.
decodeNetwork(double[]) - Method in class org.encog.neural.flat.FlatNetwork
  Decode the specified data into the weights of the neural network.
decodeToFile(String, String) - Static method in class org.encog.util.text.Base64
  Convenience method for decoding data to a file.
decodeToObject(String) - Static method in class org.encog.util.text.Base64
  Attempts to decode Base64 data and deserialize a Java Object within.
decodeToObject(String, int, ClassLoader) - Static method in class org.encog.util.text.Base64
  Attempts to decode Base64 data and deserialize a Java Object within.
decreaseLevel() - Method in class org.encog.ml.prg.opp.LevelHolder
  Decrease the level.
decreaseTemperature(double) - Method in class org.encog.neural.thermal.BoltzmannMachine
  Decrease the temperature by the specified amount.
deepCopy(Object) - Static method in class org.encog.util.obj.ObjectCloner
  Perform a deep copy.
DEFAULT_ALTERNATE_CYCLES - Static variable in class org.encog.ml.train.strategy.HybridStrategy
  The default number of cycles to use the alternate training for.
DEFAULT_BIAS_ACTIVATION - Static variable in class org.encog.neural.flat.FlatNetwork
  The default bias activation.
DEFAULT_BUFFER_SIZE - Static variable in class org.encog.app.analyst.csv.shuffle.ShuffleCSV
  The default buffer size.
DEFAULT_C - Static variable in class org.encog.ml.svm.SVM
  The default C.
DEFAULT_CACHE_SIZE - Static variable in class org.encog.ml.svm.SVM
  The default cache size.
DEFAULT_COEF0 - Static variable in class org.encog.ml.svm.SVM
  The default COEF0.
DEFAULT_CONNECTION_LIMIT - Static variable in class org.encog.neural.networks.BasicNetwork
  The default connection limit.
DEFAULT_CONST_BEGIN - Static variable in class org.encog.ml.svm.training.SVMSearchTrain
  The default starting number for C.
DEFAULT_CONST_END - Static variable in class org.encog.ml.svm.training.SVMSearchTrain
  The default ending number for C.
DEFAULT_CONST_STEP - Static variable in class org.encog.ml.svm.training.SVMSearchTrain
  The default step for C.
DEFAULT_CYCLES - Static variable in class org.encog.neural.neat.NEATPopulation
  Default number of activation cycles.
DEFAULT_DEGREE - Static variable in class org.encog.ml.svm.SVM
  The default degree.
DEFAULT_DOUBLE_EQUAL - Static variable in class org.encog.Encog
  Default point at which two doubles are equal.
DEFAULT_ENCODING - Static variable in class org.encog.Encog
  The default encoding used by Encog.
DEFAULT_EPS - Static variable in class org.encog.ml.svm.SVM
  The default EPS.
DEFAULT_EVAL_PERCENT - Static variable in class org.encog.app.analyst.wizard.AnalystWizard
  The default evaluation percent.
DEFAULT_GAMMA_BEGIN - Static variable in class org.encog.ml.svm.training.SVMSearchTrain
  The default gamma begin.
DEFAULT_GAMMA_END - Static variable in class org.encog.ml.svm.training.SVMSearchTrain
  The default gamma end.
DEFAULT_GAMMA_STEP - Static variable in class org.encog.ml.svm.training.SVMSearchTrain
  The default gamma step.
DEFAULT_INC - Static variable in class org.encog.mathutil.randomize.generate.LinearCongruentialRandom
  Default inc.
DEFAULT_INITIAL_UPDATE - Static variable in class org.encog.neural.networks.training.propagation.resilient.RPROPConst
  The starting update for a delta.
DEFAULT_ITERATIONS - Static variable in class org.encog.app.analyst.commands.CmdCluster
  The default number of iterations.
DEFAULT_MAX_CLASS - Static variable in class org.encog.app.analyst.script.AnalystScript
  The default MAX size for a class.
DEFAULT_MAX_ERROR - Static variable in class org.encog.neural.networks.training.pnn.TrainBasicPNN
  The default max error.
DEFAULT_MAX_STEP - Static variable in class org.encog.neural.networks.training.propagation.resilient.RPROPConst
  The maximum amount a delta can reach.
DEFAULT_MIN_IMPROVEMENT - Static variable in class org.encog.ml.train.strategy.HybridStrategy
  The default minimum improvement before we switch to the alternate training method.
DEFAULT_MIN_IMPROVEMENT - Static variable in class org.encog.ml.train.strategy.StopTrainingStrategy
  The default minimum improvement before training stops.
DEFAULT_MIN_IMPROVEMENT - Static variable in class org.encog.neural.networks.training.pnn.TrainBasicPNN
  The default minimum improvement before stop.
DEFAULT_MOD1 - Static variable in class org.encog.mathutil.randomize.generate.LinearCongruentialRandom
  First part of default mod.
DEFAULT_MOD2 - Static variable in class org.encog.mathutil.randomize.generate.LinearCongruentialRandom
  Second part of default mod.
DEFAULT_MULT - Static variable in class org.encog.mathutil.randomize.generate.LinearCongruentialRandom
  Default mult.
DEFAULT_NU - Static variable in class org.encog.ml.svm.SVM
  The default NU.
DEFAULT_NUM_SIGMAS - Static variable in class org.encog.neural.networks.training.pnn.TrainBasicPNN
  The default number of sigmas to evaluate between the low and high.
DEFAULT_P - Static variable in class org.encog.ml.svm.SVM
  The default P.
DEFAULT_PRECISION - Static variable in class org.encog.Encog
  The default precision to use for compares.
DEFAULT_SAMPLE_SIZE - Static variable in class org.encog.ml.bayesian.query.sample.SamplingQuery
  The default sample size.
DEFAULT_SIGMA_HIGH - Static variable in class org.encog.neural.networks.training.pnn.TrainBasicPNN
  The default sigma high value.
DEFAULT_SIGMA_LOW - Static variable in class org.encog.neural.networks.training.pnn.TrainBasicPNN
  THe default sigma low value.
DEFAULT_SURVIVAL_RATE - Static variable in class org.encog.neural.neat.NEATPopulation
  The default survival rate.
DEFAULT_TOLERATE_CYCLES - Static variable in class org.encog.ml.train.strategy.HybridStrategy
  The default number of cycles to tolerate bad improvement for.
DEFAULT_TOLERATE_CYCLES - Static variable in class org.encog.ml.train.strategy.StopTrainingStrategy
  The default number of cycles to tolerate.
DEFAULT_TRAIN_ERROR - Static variable in class org.encog.app.analyst.wizard.AnalystWizard
  The default training error.
DEFAULT_TRAIN_PERCENT - Static variable in class org.encog.app.analyst.wizard.AnalystWizard
  The default training percent.
DEFAULT_ZERO_TOLERANCE - Static variable in class org.encog.neural.networks.training.propagation.resilient.RPROPConst
  The default zero tolerance.
defineClass(String, FieldDirection, NormalizationAction, List<ClassItem>) - Method in class org.encog.app.analyst.script.AnalystScript
defineClass(String) - Method in class org.encog.ml.data.versatile.columns.ColumnDefinition
  Define a class for a catagorical value.
defineClass(String[]) - Method in class org.encog.ml.data.versatile.columns.ColumnDefinition
  Define an array of classes for a catagorical value.
defineClassificationStructure(String) - Method in class org.encog.ml.bayesian.BayesianNetwork
  Define a classification structure of the form P(A|B) = P(C)
defineConst(EncogArgType, String, String) - Method in class org.encog.app.generate.program.EncogProgramNode
  Define a const.
defineEventType(BayesianEvent, EventType) - Method in class org.encog.ml.bayesian.query.BasicQuery
  Define an event type to be either hidden(default), evidence(input) or outcome (output).
defineEventType(BayesianEvent, EventType) - Method in interface org.encog.ml.bayesian.query.BayesianQuery
  Define an event type to be either hidden(default), evidence(input) or outcome (output).
defineField(String, FieldDirection, NormalizationAction, double, double) - Method in class org.encog.app.analyst.script.AnalystScript
defineInput(ColumnDefinition) - Method in class org.encog.ml.data.versatile.VersatileMLDataSet
  Define an input column.
defineMissingHandler(ColumnDefinition, MissingHandler) - Method in class org.encog.ml.data.versatile.NormalizationHelper
  Define a missing value handler.
defineOutput(ColumnDefinition) - Method in class org.encog.ml.data.versatile.VersatileMLDataSet
  Define an output column.
defineProbability(String, double) - Method in class org.encog.ml.bayesian.BayesianNetwork
  Define the probability for an event.
defineProbability(String) - Method in class org.encog.ml.bayesian.BayesianNetwork
  Define a probability.
defineRelationship(String) - Method in class org.encog.ml.bayesian.BayesianNetwork
  Define a relationship.
defineRelationships(BayesianNetwork) - Method in class org.encog.ml.bayesian.parse.ParsedProbability
  Define the relationships.
defineSingleOutputOthersInput(ColumnDefinition) - Method in class org.encog.ml.data.versatile.VersatileMLDataSet
  Define a single column as an output column, all others as inputs.
defineSourceColumn(String, int, ColumnType) - Method in class org.encog.ml.data.versatile.NormalizationHelper
  Define a source column.
defineSourceColumn(String, int, ColumnType) - Method in class org.encog.ml.data.versatile.VersatileMLDataSet
  Define a source column.
defineSourceColumn(String, ColumnType) - Method in class org.encog.ml.data.versatile.VersatileMLDataSet
  Define a source column.
defineTruthTable(BayesianNetwork, double) - Method in class org.encog.ml.bayesian.parse.ParsedProbability
  Define the truth table.
defineUnknownValue(String) - Method in class org.encog.ml.data.versatile.NormalizationHelper
  Define the string that signifies an unknown value (eg "?")
defineVariable(String) - Method in class org.encog.ml.prg.EncogProgramContext
  Define the specified variable as floating point.
defineVariable(String, ValueType) - Method in class org.encog.ml.prg.EncogProgramContext
  Define the specified variable as the specified type.
defineVariable(String, ValueType, int, int) - Method in class org.encog.ml.prg.EncogProgramContext
  Define a variable.
defineVariable(VariableMapping) - Method in class org.encog.ml.prg.EncogProgramContext
  Define a variable, based on a mapping.
defineVariable(VariableMapping) - Method in class org.encog.ml.prg.EncogProgramVariables
  Define the specified variable mapping.
deg2rad(double) - Static method in class org.encog.mathutil.EncogMath
  Convert degrees to radians.
DEG_CIRCLE - Static variable in class org.encog.mathutil.MathConst
  Degrees in a circle.
DEG_SEMICIRCLE - Static variable in class org.encog.mathutil.MathConst
  Degrees in a semicircle.
degree - Variable in class org.encog.mathutil.libsvm.svm_parameter
deleteCol(Matrix, int) - Static method in class org.encog.mathutil.matrices.MatrixMath
  Delete one column from the matrix.
deleteCol(int) - Method in class org.encog.ml.data.buffer.EncogEGBFile
  Delete a column.
deleteDirectory(File) - Static method in class org.encog.util.file.Directory
  Delete a directory and all children.
deleteRow(Matrix, int) - Static method in class org.encog.mathutil.matrices.MatrixMath
  Delete a row from the matrix.
deleteRow(int) - Method in class org.encog.ml.data.buffer.EncogEGBFile
  Delete a row.
DELTA_MIN - Static variable in class org.encog.neural.networks.training.propagation.resilient.RPROPConst
  The minimum delta value for a weight matrix value.
deNormalize(double) - Method in class org.encog.app.analyst.script.normalize.AnalystField
  Denormalize the specified value.
deNormalize(double) - Method in class org.encog.util.arrayutil.NormalizedField
  Denormalize the specified value.
denormalizeColumn(ColumnDefinition, MLData, int) - Method in class org.encog.ml.data.versatile.normalizers.IndexedNormalizer
  Denormalize a value.
denormalizeColumn(ColumnDefinition, MLData, int) - Method in interface org.encog.ml.data.versatile.normalizers.Normalizer
  Denormalize a value.
denormalizeColumn(ColumnDefinition, MLData, int) - Method in class org.encog.ml.data.versatile.normalizers.OneOfNNormalizer
  Denormalize a value.
denormalizeColumn(ColumnDefinition, MLData, int) - Method in class org.encog.ml.data.versatile.normalizers.PassThroughNormalizer
  Denormalize a value.
denormalizeColumn(ColumnDefinition, MLData, int) - Method in class org.encog.ml.data.versatile.normalizers.RangeNormalizer
  Denormalize a value.
denormalizeColumn(ColumnDefinition, MLData, int) - Method in class org.encog.ml.data.versatile.normalizers.RangeOrdinal
  Denormalize a value.
denormalizeColumn(ColumnDefinition, boolean, MLData, int) - Method in class org.encog.ml.data.versatile.normalizers.strategies.BasicNormalizationStrategy
  Normalize a column, with a double input.
denormalizeColumn(ColumnDefinition, boolean, MLData, int) - Method in interface org.encog.ml.data.versatile.normalizers.strategies.NormalizationStrategy
  Normalize a column, with a double input.
denormalizeOutputVectorToString(MLData) - Method in class org.encog.ml.data.versatile.NormalizationHelper
  Denormalize a complete output vector to an array of strings.
DEPTH - Static variable in class org.encog.persist.PersistConst
  Depth.
DepthFirstSearch - Class in org.encog.ml.graph.search
DepthFirstSearch(BasicGraph, BasicNode, SearchGoal) - Constructor for class org.encog.ml.graph.search.DepthFirstSearch
DepthFirstTraversal - Class in org.encog.ml.tree.traverse
  Performs a depth-first traversal.
DepthFirstTraversal() - Constructor for class org.encog.ml.tree.traverse.DepthFirstTraversal
derivativeFunction(double, double) - Method in class org.encog.engine.network.activation.ActivationBiPolar
  Calculate the derivative.
derivativeFunction(double, double) - Method in class org.encog.engine.network.activation.ActivationBipolarSteepenedSigmoid
  Calculate the derivative.
derivativeFunction(double, double) - Method in class org.encog.engine.network.activation.ActivationClippedLinear
  Calculate the derivative.
derivativeFunction(double, double) - Method in class org.encog.engine.network.activation.ActivationCompetitive
  Calculate the derivative.
derivativeFunction(double, double) - Method in class org.encog.engine.network.activation.ActivationElliott
  Calculate the derivative.
derivativeFunction(double, double) - Method in class org.encog.engine.network.activation.ActivationElliottSymmetric
  Calculate the derivative.
derivativeFunction(double, double) - Method in interface org.encog.engine.network.activation.ActivationFunction
  Calculate the derivative.
derivativeFunction(double, double) - Method in class org.encog.engine.network.activation.ActivationGaussian
  Calculate the derivative.
derivativeFunction(double, double) - Method in class org.encog.engine.network.activation.ActivationLinear
  Calculate the derivative.
derivativeFunction(double, double) - Method in class org.encog.engine.network.activation.ActivationLOG
  Calculate the derivative.
derivativeFunction(double, double) - Method in class org.encog.engine.network.activation.ActivationRamp
  Calculate the derivative.
derivativeFunction(double, double) - Method in class org.encog.engine.network.activation.ActivationSigmoid
  Calculate the derivative.
derivativeFunction(double, double) - Method in class org.encog.engine.network.activation.ActivationSIN
  Calculate the derivative.
derivativeFunction(double, double) - Method in class org.encog.engine.network.activation.ActivationSoftMax
  Calculate the derivative.
derivativeFunction(double, double) - Method in class org.encog.engine.network.activation.ActivationSteepenedSigmoid
  Calculate the derivative.
derivativeFunction(double, double) - Method in class org.encog.engine.network.activation.ActivationStep
  Calculate the derivative.
derivativeFunction(double, double) - Method in class org.encog.engine.network.activation.ActivationTANH
  Calculate the derivative.
DeriveMinimum - Class in org.encog.neural.networks.training.pnn
  This class determines optimal values for multiple sigmas in a PNN kernel.
DeriveMinimum() - Constructor for class org.encog.neural.networks.training.pnn.DeriveMinimum
DESCRIPTION - Static variable in class org.encog.persist.PersistConst
  A description.
det() - Method in class org.encog.mathutil.matrices.decomposition.LUDecomposition
  Determinant
detectPerformers() - Method in class org.encog.neural.networks.training.concurrent.ConcurrentTrainingManager
  Detect performers.
detectPerformers(boolean) - Method in class org.encog.neural.networks.training.concurrent.ConcurrentTrainingManager
  Detect performers.
determinant(Matrix) - Static method in class org.encog.mathutil.matrices.MatrixMath
determineActionState(GridState, Action) - Method in class org.encog.ml.world.grid.probability.GridAbstractProbability
determineActionToState(GridState, GridState) - Method in class org.encog.ml.world.grid.GridWorld
determineArgumentTypes(List<ValueType>) - Method in class org.encog.ml.prg.extension.ParamTemplate
  Determine the possable argument types, given the parent types.
determineBestSpecies() - Method in class org.encog.ml.ea.population.BasicPopulation
  Determine which species has the top genome.
determineBestSpecies() - Method in interface org.encog.ml.ea.population.Population
  Determine which species has the top genome.
determineClass(double[]) - Method in class org.encog.app.analyst.script.normalize.AnalystField
  Determine what class the specified data belongs to.
determineClass(int, double[]) - Method in class org.encog.app.analyst.script.normalize.AnalystField
  Determine the class using part of an array.
determineClass(double[]) - Method in class org.encog.util.arrayutil.NormalizedField
  Determine what class the specified data belongs to.
determineClasses(MLData) - Method in class org.encog.ml.bayesian.BayesianNetwork
  Determine the classes for the specified input.
determineCost(World, State, Action) - Method in interface org.encog.ml.world.PerformAction
determineFormat() - Method in class org.encog.app.analyst.script.AnalystScript
  Determine the output format.
determineInputCount() - Method in class org.encog.app.analyst.EncogAnalyst
  Determine the input count.
determineInputFieldCount() - Method in class org.encog.app.analyst.EncogAnalyst
  Determine the input field count, the fields are higher-level than columns.
determineMaxDepth(Random) - Method in class org.encog.ml.prg.generator.AbstractPrgGenerator
determineMaxDepth(Random) - Method in class org.encog.ml.prg.generator.RampedHalfAndHalf
determineMaxTimeSlice() - Method in class org.encog.app.analyst.EncogAnalyst
determineMinTimeSlice() - Method in class org.encog.app.analyst.EncogAnalyst
determineMode(EncogAnalyst) - Method in class org.encog.app.analyst.script.normalize.AnalystField
  Determine the mode, this is the class item that has the most instances.
determineNeuronSignificance(int, int) - Method in class org.encog.neural.prune.PruneSelective
  Determine the significance of the neuron.
determineNextAction(WorldAgent) - Method in interface org.encog.ml.world.AgentPolicy
determineNodeType(ProgramNode) - Method in class org.encog.parse.expression.CommonRender
determineNodeType(ProgramNode) - Method in class org.encog.parse.expression.latex.RenderLatexExpression
determineOutputCount() - Method in class org.encog.app.analyst.EncogAnalyst
  Determine the output count, this is the number of output columns needed.
determineOutputCount(VersatileMLDataSet) - Method in class org.encog.ml.model.config.FeedforwardConfig
  Determine the needed output count.
determineOutputCount(VersatileMLDataSet) - Method in interface org.encog.ml.model.config.MethodConfig
  Determine the needed output count.
determineOutputCount(VersatileMLDataSet) - Method in class org.encog.ml.model.config.NEATConfig
  Determine the needed output count.
determineOutputCount(VersatileMLDataSet) - Method in class org.encog.ml.model.config.PNNConfig
  Determine the needed output count.
determineOutputCount(VersatileMLDataSet) - Method in class org.encog.ml.model.config.RBFNetworkConfig
  Determine the needed output count.
determineOutputCount(VersatileMLDataSet) - Method in class org.encog.ml.model.config.SVMConfig
determineOutputFieldCount() - Method in class org.encog.app.analyst.EncogAnalyst
  Determine the number of output fields.
determineResultingAction(GridState, GridState) - Method in class org.encog.ml.world.grid.probability.GridAbstractProbability
determineSuccessorStates(State, Action) - Method in interface org.encog.ml.world.ActionProbability
determineSuccessorStates(State, Action) - Method in class org.encog.ml.world.grid.probability.GridDeterministicProbability
determineSuccessorStates(State, Action) - Method in class org.encog.ml.world.grid.probability.GridStochasticProbability
determineTotalColumns() - Method in class org.encog.app.analyst.EncogAnalyst
determineTotalInputFieldCount() - Method in class org.encog.app.analyst.EncogAnalyst
  Determine the total input field count, minus ignored fields.
determineUniqueColumns() - Method in class org.encog.app.analyst.EncogAnalyst
  Determine how many unique columns there are.
determineUniqueInputFieldCount() - Method in class org.encog.app.analyst.EncogAnalyst
  Determine the unique input field count.
determineUniqueOutputFieldCount() - Method in class org.encog.app.analyst.EncogAnalyst
  Determine the unique output field count.
DetermineWorkload - Class in org.encog.util.concurrency
  Used by several Encog training methods to break up a workload.
DetermineWorkload(int, int) - Constructor for class org.encog.util.concurrency.DetermineWorkload
  Determine the workload.
DimensionConstraint - Class in org.encog.mathutil.dimension
  Specifies a constraint for dimensions, using a lower and upper bound.
DimensionConstraint(int, int, int) - Constructor for class org.encog.mathutil.dimension.DimensionConstraint
  Construct the constraint.
Directory - Class in org.encog.util.file
  Directory utilities.
DiscardMissing - Class in org.encog.app.analyst.missing
  Handle missing values by discarding them.
DiscardMissing() - Constructor for class org.encog.app.analyst.missing.DiscardMissing
DiscreteCell - Interface in org.encog.ca.universe
DiscreteDistribution - Class in org.encog.ml.hmm.distributions
  A discrete distribution is a distribution with a finite set of states that it can be in.
DiscreteDistribution(double[][]) - Constructor for class org.encog.ml.hmm.distributions.DiscreteDistribution
  Construct a discrete distribution with the specified probabilities.
DiscreteDistribution(int[]) - Constructor for class org.encog.ml.hmm.distributions.DiscreteDistribution
  Construct a discrete distribution.
displayDate(Date) - Static method in class org.encog.util.csv.ReadCSV
  Format a date.
distance(MLData) - Method in class org.encog.ml.data.basic.BasicMLDataCentroid
  The distance between this centroid and an element.
distance(MLDataPair) - Method in class org.encog.ml.data.basic.BasicMLDataPairCentroid
  The distance between this centroid and an element.
distance(EuclideanNode, EuclideanNode) - Static method in class org.encog.ml.graph.EuclideanNode
distance(HiddenMarkovModel, HiddenMarkovModel) - Method in class org.encog.ml.hmm.alog.KullbackLeiblerDistanceCalculator
distance(O) - Method in interface org.encog.util.kmeans.Centroid
  The distance between this centroid and an element.
Distort - Class in org.encog.mathutil.randomize
  A randomizer that distorts what is already present in the neural network.
Distort(double) - Constructor for class org.encog.mathutil.randomize.Distort
  Construct a distort randomizer for the specified factor.
Div - Class in org.encog.bot.browse.range
  A document range that represents the beginning and ending DIV tag, as well as any tages embedded between them.
Div(WebPage) - Constructor for class org.encog.bot.browse.range.Div
  Construct a range to hold the DIV tag.
div(ComplexNumber) - Method in class org.encog.mathutil.ComplexNumber
  Division of Complex numbers (doesn't change this Complex number).
div(ExpressionValue, ExpressionValue) - Static method in class org.encog.ml.prg.expvalue.EvaluateExpr
  Perform a division on two expression values.
div() - Method in class org.encog.util.datastruct.StackInt
divide(Matrix, double) - Static method in class org.encog.mathutil.matrices.MatrixMath
  Return a matrix with each cell divided by the specified value.
divide(List<DataDivision>, boolean, GenerateRandom) - Method in class org.encog.ml.data.versatile.VersatileMLDataSet
  Divide, and optionally shuffle, the dataset.
DivisionByZeroError - Exception in org.encog.ml.prg.expvalue
  A division by zero.
DivisionByZeroError() - Constructor for exception org.encog.ml.prg.expvalue.DivisionByZeroError
DivisionByZeroError(String) - Constructor for exception org.encog.ml.prg.expvalue.DivisionByZeroError
  Just a message.
DivisionByZeroError(String, Throwable) - Constructor for exception org.encog.ml.prg.expvalue.DivisionByZeroError
  Message with a throwable.
DivisionByZeroError(Throwable) - Constructor for exception org.encog.ml.prg.expvalue.DivisionByZeroError
  Just a throwable.
DO_BREAK_LINES - Static variable in class org.encog.util.text.Base64
  Do break lines when encoding.
DocumentRange - Class in org.encog.bot.browse.range
  Base class that represents a document range.
DocumentRange(WebPage) - Constructor for class org.encog.bot.browse.range.DocumentRange
  Construct a document range from the specified WebPage.
DONT_GUNZIP - Static variable in class org.encog.util.text.Base64
  Specify that gzipped data should not be automatically gunzipped.
dotForm(String, String, String) - Static method in class org.encog.app.analyst.script.prop.PropertyEntry
  Put a property in dot form, which is "section.subsection.name".
dotProduct(Matrix, Matrix) - Static method in class org.encog.mathutil.matrices.MatrixMath
  Compute the dot product for the two matrixes.
dotProduct(double[], double[]) - Method in class org.encog.mathutil.VectorAlgebra
  Take the dot product of two vectors.
double2bipolar(double) - Static method in class org.encog.mathutil.matrices.BiPolarUtil
  Convert a bipolar value to a boolean.
double2bipolar(double[]) - Static method in class org.encog.mathutil.matrices.BiPolarUtil
  Convert a bipolar array to booleans.
double2bipolar(double[][]) - Static method in class org.encog.mathutil.matrices.BiPolarUtil
  Convert a bipolar array to a boolean array.
DOUBLE_SIZE - Static variable in class org.encog.ml.data.buffer.EncogEGBFile
  The size of a double.
DoubleArrayGenome - Class in org.encog.ml.genetic.genome
  A genome made up of continuous doubles.
DoubleArrayGenome(int) - Constructor for class org.encog.ml.genetic.genome.DoubleArrayGenome
  Construct a genome of a specific size.
DoubleArrayGenome(DoubleArrayGenome) - Constructor for class org.encog.ml.genetic.genome.DoubleArrayGenome
  Construct a genome based on another genome.
DoubleArrayGenomeFactory - Class in org.encog.ml.genetic.genome
  A factory that creates DoubleArrayGenome objects of a specific size.
DoubleArrayGenomeFactory(int) - Constructor for class org.encog.ml.genetic.genome.DoubleArrayGenomeFactory
  Construct the genome factory.
doubleEquals(double, double) - Static method in class org.encog.mathutil.EncogMath
  Determine if one double equals another, within the default percision.
DoubleString - Class in org.encog.util.text
DoubleString() - Constructor for class org.encog.util.text.DoubleString
doubleToObject(double[]) - Static method in class org.encog.util.EngineArray
  Convert an array of double primitives to Double objects.
download() - Method in class org.encog.app.analyst.EncogAnalyst
  Download a raw file from the Internet.
downloadPage(URL, File) - Static method in class org.encog.bot.BotUtil
  Load the specified URL to a file.
downsample(Downsample, boolean, int, int, double, double) - Method in class org.encog.platformspecific.j2se.data.image.ImageMLData
  Downsample, and copy, the image contents into the data of this object.
downsample(int, int) - Method in class org.encog.platformspecific.j2se.data.image.ImageMLDataSet
  Downsample all images and generate training data.
Downsample - Interface in org.encog.util.downsample
  Utility to downsample an image.
downSample(Image, int, int) - Method in interface org.encog.util.downsample.Downsample
  Downsample the image to the specified height and width.
downSample(Image, int, int) - Method in class org.encog.util.downsample.RGBDownsample
  Called to downsample the image and store it in the down sample component.
downSample(Image, int, int) - Method in class org.encog.util.downsample.SimpleIntensityDownsample
  Called to downsample the image and store it in the down sample component.
downSampleRegion(int, int) - Method in class org.encog.util.downsample.RGBDownsample
  Called to downsample a region of the image.
dump() - Method in class org.encog.ml.schedule.ScheduleGraph
dumpArray(double[]) - Static method in class org.encog.util.logging.DumpMatrix
  Dump an array of numbers to a string.
dumpAsCommonExpression() - Method in class org.encog.ml.prg.EncogProgram
dumpCounts() - Method in class org.encog.app.analyst.csv.balance.BalanceCSV
  Return a string that lists the counts per class.
dumpCounts() - Method in class org.encog.util.normalize.segregate.IntegerBalanceSegregator
dumpCurrentState() - Method in class org.encog.ml.bayesian.query.sample.SamplingQuery
DumpMatrix - Class in org.encog.util.logging
  A utility for writing matrixes to the log.
dumpMatrix(Matrix) - Static method in class org.encog.util.logging.DumpMatrix
  Dump a matrix to a string.
dumpMembers(int) - Method in class org.encog.ml.prg.train.PrgPopulation
  Dump the specified number of genomes.
dumpNode(StringBuilder, ActionNode, Map<ActionNode, ActionNode>) - Method in class org.encog.ml.schedule.ScheduleGraph
dumpWeights() - Method in class org.encog.neural.networks.BasicNetwork

## E

EACompileError - Exception in org.encog.ml.ea.exception
  The genome has generated a compile error and is invalid.
EACompileError(String) - Constructor for exception org.encog.ml.ea.exception.EACompileError
  Construct the error.
EACompileError(String, Throwable) - Constructor for exception org.encog.ml.ea.exception.EACompileError
  Construct the error.
EACompileError(Throwable) - Constructor for exception org.encog.ml.ea.exception.EACompileError
  Construct the error.
EAError - Exception in org.encog.ml.ea.exception
  A general evolutionary algorithm error.
EAError(String) - Constructor for exception org.encog.ml.ea.exception.EAError
  Construct the exception.
EAError(String, Throwable) - Constructor for exception org.encog.ml.ea.exception.EAError
  Construct the exception.
EAError(Throwable) - Constructor for exception org.encog.ml.ea.exception.EAError
  Construct the exception.
EarlyStoppingStrategy - Class in org.encog.ml.train.strategy.end
  Stop early when validation set no longer improves.
EarlyStoppingStrategy(MLDataSet, MLDataSet) - Constructor for class org.encog.ml.train.strategy.end.EarlyStoppingStrategy
  Construct the early stopping strategy.
EarlyStoppingStrategy(MLDataSet, MLDataSet, int, double, double) - Constructor for class org.encog.ml.train.strategy.end.EarlyStoppingStrategy
  Construct the early stopping strategy.
EARuntimeError - Exception in org.encog.ml.ea.exception
  An error has occurred while running a phenotype (or genome).
EARuntimeError(String) - Constructor for exception org.encog.ml.ea.exception.EARuntimeError
  Construct an error.
EARuntimeError(String, Throwable) - Constructor for exception org.encog.ml.ea.exception.EARuntimeError
  Construct an error.
EARuntimeError(Throwable) - Constructor for exception org.encog.ml.ea.exception.EARuntimeError
  Construct an error.
eatWhitespace() - Method in class org.encog.parse.tags.read.ReadTags
  Remove any whitespace characters that are next in the InputStream.
eatWhiteSpace() - Method in class org.encog.util.SimpleParser
EAWorker - Class in org.encog.ml.ea.train.basic
  A worker thread for an Evolutionary Algorithm.
EAWorker(BasicEA, Species) - Constructor for class org.encog.ml.ea.train.basic.EAWorker
  Construct the EA worker.
EG_FORMAT - Static variable in class org.encog.util.csv.CSVFormat
  EG files, internally use a decimal point and comma separator.
EigenvalueDecomposition - Class in org.encog.mathutil.matrices.decomposition
  Eigenvalues and eigenvectors of a real matrix.
EigenvalueDecomposition(Matrix) - Constructor for class org.encog.mathutil.matrices.decomposition.EigenvalueDecomposition
  Check for symmetry, then construct the eigenvalue decomposition Structure to access D and V.
EIGHT_SPAN - Static variable in class org.encog.app.analyst.report.AnalystReport
  Used as a col-span.
ELEMENT_COUNT - Static variable in class org.encog.ca.universe.basic.BasicUniverse
ElementaryCA - Class in org.encog.ca.program.elementary
ElementaryCA(Universe, int) - Constructor for class org.encog.ca.program.elementary.ElementaryCA
ElmanPattern - Class in org.encog.neural.pattern
  This class is used to generate an Elman style recurrent neural network.
ElmanPattern() - Constructor for class org.encog.neural.pattern.ElmanPattern
  Create an object to generate Elman neural networks.
embedTraining(File) - Method in class org.encog.app.generate.program.EncogProgramNode
  Embed training data.
EmptyScoreFunction - Class in org.encog.ml.ea.score
  An empty score function.
EmptyScoreFunction() - Constructor for class org.encog.ml.ea.score.EmptyScoreFunction
enableConnection(int, int, int, boolean) - Method in class org.encog.neural.networks.BasicNetwork
  Enable, or disable, a connection.
ENABLED - Static variable in class org.encog.persist.PersistConst
  Enabled.
encode(int) - Method in class org.encog.app.analyst.script.normalize.AnalystField
  Encode the class.
encode(String) - Method in class org.encog.app.analyst.script.normalize.AnalystField
  Encode the string to numeric form.
encode(double) - Method in class org.encog.app.analyst.script.normalize.AnalystField
encode(boolean, boolean, double[], MLData) - Method in class org.encog.app.analyst.util.AnalystUtility
  Encode fields, using the analyst.
encode(int) - Method in class org.encog.mathutil.Equilateral
  Get the activations for the specified set.
encode(MLMethod) - Method in interface org.encog.ml.ea.codec.GeneticCODEC
  Attempt to build a genome from a phenome.
encode(MLMethod) - Method in class org.encog.ml.ea.codec.GenomeAsPhenomeCODEC
  Attempt to build a genome from a phenome.
encode(MLMethod) - Method in class org.encog.ml.genetic.MLEncodableCODEC
  Attempt to build a genome from a phenome.
encode(MLMethod) - Method in class org.encog.ml.prg.PrgCODEC
  Attempt to build a genome from a phenome.
encode(MLDataSet, int) - Static method in class org.encog.ml.svm.training.EncodeSVMProblem
  Encode the Encog dataset.
encode(MLMethod) - Method in class org.encog.neural.hyperneat.HyperNEATCODEC
encode(MLMethod) - Method in class org.encog.neural.neat.NEATCODEC
  This method is not currently implemented.
encode(String) - Static method in class org.encog.util.HTMLReport
ENCODE - Static variable in class org.encog.util.http.FormUtility
  The charset to use for URL encoding.
ENCODE - Static variable in class org.encog.util.text.Base64
  Specify encoding in first bit.
encode(ByteBuffer, ByteBuffer) - Static method in class org.encog.util.text.Base64
  Performs Base64 encoding on the `raw` ByteBuffer, writing it to the `encoded` ByteBuffer.
encode(ByteBuffer, CharBuffer) - Static method in class org.encog.util.text.Base64
  Performs Base64 encoding on the `raw` ByteBuffer, writing it to the `encoded` CharBuffer.
encodeBytes(byte[]) - Static method in class org.encog.util.text.Base64
  Encodes a byte array into Base64 notation.
encodeBytes(byte[], int) - Static method in class org.encog.util.text.Base64
  Encodes a byte array into Base64 notation.
encodeBytes(byte[], int, int) - Static method in class org.encog.util.text.Base64
  Encodes a byte array into Base64 notation.
encodeBytes(byte[], int, int, int) - Static method in class org.encog.util.text.Base64
  Encodes a byte array into Base64 notation.
encodeBytesToBytes(byte[]) - Static method in class org.encog.util.text.Base64
  Similar to `Base64.encodeBytes(byte[])` but returns a byte array instead of instantiating a String.
encodeBytesToBytes(byte[], int, int, int) - Static method in class org.encog.util.text.Base64
  Similar to `Base64.encodeBytes(byte[], int, int, int)` but returns a byte array instead of instantiating a String.
encodedArrayLength() - Method in interface org.encog.ml.MLEncodable
encodedArrayLength() - Method in class org.encog.neural.freeform.FreeformNetwork
encodedArrayLength() - Method in class org.encog.neural.networks.BasicNetwork
encodedArrayLength() - Method in class org.encog.neural.rbf.RBFNetwork
encodeEquilateral(int) - Method in class org.encog.app.analyst.script.normalize.AnalystField
  Perform an equilateral encode.
encodeFileToFile(String, String) - Static method in class org.encog.util.text.Base64
  Reads `infile` and encodes it to `outfile`.
encodeFromFile(String) - Static method in class org.encog.util.text.Base64
  Convenience method for reading a binary file and base64-encoding it.
encodeHeaders() - Method in class org.encog.util.arrayutil.NormalizedField
  Encode the headers used by this field.
encodeNetwork() - Method in class org.encog.neural.flat.FlatNetwork
  Encode the neural network to an array of doubles.
encodeObject(Serializable) - Static method in class org.encog.util.text.Base64
  Serializes an object and returns the Base64-encoded version of that serialized object.
encodeObject(Serializable, int) - Static method in class org.encog.util.text.Base64
  Serializes an object and returns the Base64-encoded version of that serialized object.
EncoderTrainingFactory - Class in org.encog.util.benchmark
  This benchmark implements a Fahlman Encoder.
EncoderTrainingFactory() - Constructor for class org.encog.util.benchmark.EncoderTrainingFactory
encodeSingleField(int) - Method in class org.encog.util.arrayutil.NormalizedField
  Encode a single field.
EncodeSVMProblem - Class in org.encog.ml.svm.training
  Encode an Encog dataset as a SVM problem.
encodeToArray(double[]) - Method in interface org.encog.ml.MLEncodable
  Encode the object to the specified array.
encodeToArray(double[]) - Method in class org.encog.neural.freeform.FreeformNetwork
  Encode the object to the specified array.
encodeToArray(double[]) - Method in class org.encog.neural.networks.BasicNetwork
  Encode the object to the specified array.
encodeToArray(double[]) - Method in class org.encog.neural.rbf.RBFNetwork
  Encode the object to the specified array.
encodeToFile(byte[], String) - Static method in class org.encog.util.text.Base64
  Convenience method for encoding data to a file.
Encog - Class in org.encog
  Main Encog class, does little more than provide version information.
ENCOG_FILE_VERSION - Static variable in class org.encog.Encog
  The encog file version.
ENCOG_VERSION - Static variable in class org.encog.Encog
  The version of the Encog JAR we are working with.
EncogAnalyst - Class in org.encog.app.analyst
  The Encog Analyst runs Encog Analyst Script files (EGA) to perform many common machine learning tasks.
EncogAnalyst() - Constructor for class org.encog.app.analyst.EncogAnalyst
  Construct the Encog analyst.
EncogArgType - Enum in org.encog.app.generate.program
  The type of argument.
EncogBenchmark - Class in org.encog.util.benchmark
  Benchmark Encog with several network types.
EncogBenchmark(StatusReportable) - Constructor for class org.encog.util.benchmark.EncogBenchmark
  Construct a benchmark object.
EncogCodeGeneration - Class in org.encog.app.generate
  Perform Encog code generation.
EncogCodeGeneration(TargetLanguage) - Constructor for class org.encog.app.generate.EncogCodeGeneration
  Construct the generation object.
EncogDirectoryPersistence - Class in org.encog.persist
  Handles Encog persistence for a directory.
EncogDirectoryPersistence(File) - Constructor for class org.encog.persist.EncogDirectoryPersistence
  Construct the object.
EncogEGBFile - Class in org.encog.ml.data.buffer
  Used to access an Encog Binary Training file (*.EGB).
EncogEGBFile(File) - Constructor for class org.encog.ml.data.buffer.EncogEGBFile
  Construct an EGB file.
EncogError - Exception in org.encog
  General error class for Encog.
EncogError(String) - Constructor for exception org.encog.EncogError
  Construct a message exception.
EncogError(Throwable) - Constructor for exception org.encog.EncogError
  Construct an exception that holds another exception.
EncogError(String, Throwable) - Constructor for exception org.encog.EncogError
  Construct an exception that holds another exception.
EncogFileSection - Class in org.encog.persist
  This class is used internally to parse Encog files.
EncogFileSection(String, String) - Constructor for class org.encog.persist.EncogFileSection
  Construct the object.
EncogFormatter - Class in org.encog.util.logging
  A simple formatter for logging.
EncogFormatter() - Constructor for class org.encog.util.logging.EncogFormatter
EncogFunction - Interface in org.encog.mathutil
  A generic single or multivariate function.
EncogGenProgram - Class in org.encog.app.generate.program
  Holds a generated Encog program.
EncogGenProgram() - Constructor for class org.encog.app.generate.program.EncogGenProgram
  Construct the program.
EncogLogging - Class in org.encog.util.logging
  This class provides logging for Encog.
EncogLogging() - Constructor for class org.encog.util.logging.EncogLogging
EncogMath - Class in org.encog.mathutil
  Several useful math functions for Encog.
EncogMathError - Exception in org.encog.mathutil
  Thrown when a math error happens.
EncogMathError(String) - Constructor for exception org.encog.mathutil.EncogMathError
  Construct a message exception.
EncogMathError(String, Throwable) - Constructor for exception org.encog.mathutil.EncogMathError
  Construct an exception that holds another exception.
EncogMathError(Throwable) - Constructor for exception org.encog.mathutil.EncogMathError
  Construct an exception that holds another exception.
EncogModel - Class in org.encog.ml.model
  Encog model is designed to allow you to easily swap between different model types and automatically normalize data.
EncogModel(VersatileMLDataSet) - Constructor for class org.encog.ml.model.EncogModel
  Construct a model for the specified dataset.
EncogOpcodeRegistry - Enum in org.encog.ml.prg.extension
  Holds all known EPL opcodes.
EncogPersistor - Interface in org.encog.persist
  This interface defines an Encog Persistor.
EncogPlatformSpecific - Class in org.encog.platformspecific.j2se
EncogPlatformSpecific() - Constructor for class org.encog.platformspecific.j2se.EncogPlatformSpecific
EncogPluginBase - Interface in org.encog.plugin
  The base plugin for Encog.
EncogPluginLogging1 - Interface in org.encog.plugin
  A plugin that supports logging.
EncogPluginService1 - Interface in org.encog.plugin
  A service plugin provides services, such as the creation of activation functions, machine learning methods and training methods.
EncogProgram - Class in org.encog.ml.prg
  Holds an Encog Programming Language (EPL) program.
EncogProgram() - Constructor for class org.encog.ml.prg.EncogProgram
  Construct the Encog program and create a default context and variable holder.
EncogProgram(EncogProgramContext) - Constructor for class org.encog.ml.prg.EncogProgram
  Construct the Encog program with the specified context, but create a new variable holder.
EncogProgram(EncogProgramContext, EncogProgramVariables) - Constructor for class org.encog.ml.prg.EncogProgram
  Construct an Encog program using the specified context and variable holder.
EncogProgram(String) - Constructor for class org.encog.ml.prg.EncogProgram
  Construct an Encog program using the specified expression, but create an empty context and variable holder.
EncogProgramArg - Class in org.encog.app.generate.program
  A function argument for Encog created code.
EncogProgramArg(double) - Constructor for class org.encog.app.generate.program.EncogProgramArg
  Construct the argument.
EncogProgramArg(EncogArgType, Object) - Constructor for class org.encog.app.generate.program.EncogProgramArg
  Construct the argument.
EncogProgramArg(int) - Constructor for class org.encog.app.generate.program.EncogProgramArg
  Construct a floating point arguement from an integer.
EncogProgramArg(Object) - Constructor for class org.encog.app.generate.program.EncogProgramArg
  Construct using an object.
EncogProgramArg(String) - Constructor for class org.encog.app.generate.program.EncogProgramArg
  Construct a string argument.
EncogProgramContext - Class in org.encog.ml.prg
  Every EncogProgram must belong to a context.
EncogProgramContext() - Constructor for class org.encog.ml.prg.EncogProgramContext
  Construct the context with an English number format and an empty function factory.
EncogProgramContext(CSVFormat) - Constructor for class org.encog.ml.prg.EncogProgramContext
  Construct a context with the specified number format and an empty function factory.
EncogProgramContext(CSVFormat, FunctionFactory) - Constructor for class org.encog.ml.prg.EncogProgramContext
  Construct the context with the specified format and function factory.
EncogProgramNode - Class in org.encog.app.generate.program
  A node that holds a program.
EncogProgramNode(EncogGenProgram, EncogTreeNode, NodeType, String) - Constructor for class org.encog.app.generate.program.EncogProgramNode
  Construct the program node.
EncogProgramVariables - Class in org.encog.ml.prg
  This class stores the actual variable values for an Encog Program.
EncogProgramVariables() - Constructor for class org.encog.ml.prg.EncogProgramVariables
EncogReadHelper - Class in org.encog.persist
  Used to read an Encog EG/EGA file.
EncogReadHelper(InputStream) - Constructor for class org.encog.persist.EncogReadHelper
  Construct the object.
EncogShutdownTask - Interface in org.encog
EncogTreeNode - Class in org.encog.app.generate.program
  A tree node that represents code to be generated.
EncogTreeNode(EncogGenProgram, EncogTreeNode) - Constructor for class org.encog.app.generate.program.EncogTreeNode
  Construct a tree node.
EncogUtility - Class in org.encog.util.simple
  General utility class for Encog.
EncogValidate - Class in org.encog.util
  Used to validate if training is valid.
EncogWriteHelper - Class in org.encog.persist
  Used to write an Encog EG/EGA file.
EncogWriteHelper(OutputStream) - Constructor for class org.encog.persist.EncogWriteHelper
  Construct the object.
endBar() - Method in class org.encog.app.quant.ninja.NinjaStreamWriter
  End the current bar.
endBody() - Method in class org.encog.util.HTMLReport
endDocument() - Method in class org.encog.ml.bayesian.bif.BIFHandler
endDocument() - Method in class org.encog.parse.tags.write.WriteTags
  End the document.
endElement(String, String, String) - Method in class org.encog.ml.bayesian.bif.BIFHandler
endHTML() - Method in class org.encog.util.HTMLReport
EndIterationsStrategy - Class in org.encog.ml.train.strategy.end
EndIterationsStrategy(int) - Constructor for class org.encog.ml.train.strategy.end.EndIterationsStrategy
endList() - Method in class org.encog.util.HTMLReport
endLoad() - Method in class org.encog.ml.data.buffer.BufferedMLDataSet
  This method should be called once all the data has been loaded.
EndMaxErrorStrategy - Class in org.encog.ml.train.strategy.end
EndMaxErrorStrategy(double) - Constructor for class org.encog.ml.train.strategy.end.EndMaxErrorStrategy
EndMinutesStrategy - Class in org.encog.ml.train.strategy.end
EndMinutesStrategy(int) - Constructor for class org.encog.ml.train.strategy.end.EndMinutesStrategy
endPara() - Method in class org.encog.util.HTMLReport
endRow() - Method in class org.encog.util.HTMLReport
endTable() - Method in class org.encog.util.HTMLReport
endTableInCell() - Method in class org.encog.util.HTMLReport
endTag() - Method in class org.encog.parse.tags.write.WriteTags
  End the current tag.
endTag(String) - Method in class org.encog.parse.tags.write.WriteTags
  End a tag, require that we are ending the specified tag.
EndTrainingStrategy - Interface in org.encog.ml.train.strategy.end
enforceLimit() - Method in class org.encog.neural.networks.structure.NeuralStructure
  Enforce that all connections are above the connection limit.
EngineArray - Class in org.encog.util
  Some array functions used by Encog.
EngineConcurrency - Class in org.encog.util.concurrency
  This class abstracts thread pools, and potentially grids and other types of concurrency.
EngineConcurrency() - Constructor for class org.encog.util.concurrency.EngineConcurrency
  Construct a concurrency object.
EngineTask - Interface in org.encog.util.concurrency
  An individual task that can be submitted to the EncogCurrency utility.
ENGLISH - Static variable in class org.encog.util.csv.CSVFormat
  Decimal point is typically used in English speaking counties.
EnglishTimeUnitNames - Class in org.encog.util.time
  Class used to get the English names for TimeUnits.
EnglishTimeUnitNames() - Constructor for class org.encog.util.time.EnglishTimeUnitNames
Ensemble - Class in org.encog.ensemble
Ensemble() - Constructor for class org.encog.ensemble.Ensemble
Ensemble.NotPossibleInThisMethod - Exception in org.encog.ensemble
Ensemble.NotPossibleInThisMethod() - Constructor for exception org.encog.ensemble.Ensemble.NotPossibleInThisMethod
EnsembleAggregator - Interface in org.encog.ensemble
EnsembleDataSet - Class in org.encog.ensemble.data
EnsembleDataSet(int, int) - Constructor for class org.encog.ensemble.data.EnsembleDataSet
EnsembleDataSet(MLDataSet) - Constructor for class org.encog.ensemble.data.EnsembleDataSet
EnsembleDataSetFactory - Class in org.encog.ensemble.data.factories
EnsembleDataSetFactory(int) - Constructor for class org.encog.ensemble.data.factories.EnsembleDataSetFactory
EnsembleML - Interface in org.encog.ensemble
EnsembleMLMethodFactory - Interface in org.encog.ensemble
EnsembleTrainFactory - Interface in org.encog.ensemble
EnsembleTypes - Class in org.encog.ensemble
EnsembleTypes() - Constructor for class org.encog.ensemble.EnsembleTypes
EnsembleTypes.ProblemType - Enum in org.encog.ensemble
EnumerationQuery - Class in org.encog.ml.bayesian.query.enumerate
  An enumeration query allows probabilistic queries on a Bayesian network.
EnumerationQuery(BayesianNetwork) - Constructor for class org.encog.ml.bayesian.query.enumerate.EnumerationQuery
  Construct the enumeration query.
EnumerationQuery() - Constructor for class org.encog.ml.bayesian.query.enumerate.EnumerationQuery
  Default constructor.
eol() - Method in class org.encog.util.SimpleParser
EPLFactory - Class in org.encog.ml.factory.method
EPLFactory() - Constructor for class org.encog.ml.factory.method.EPLFactory
EPLGAFactory - Class in org.encog.ml.factory.train
EPLGAFactory() - Constructor for class org.encog.ml.factory.train.EPLGAFactory
eps - Variable in class org.encog.mathutil.libsvm.svm_parameter
EPSILON_SVR - Static variable in class org.encog.mathutil.libsvm.svm_parameter
equ(ExpressionValue, ExpressionValue) - Static method in class org.encog.ml.prg.expvalue.EvaluateExpr
  Perform an equal on two expressions.
equals(Matrix, int) - Method in class org.encog.mathutil.matrices.Matrix
  Compare to matrixes with the specified level of precision.
equals(Object) - Method in class org.encog.mathutil.matrices.Matrix
  Check to see if this matrix equals another, using default precision.
equals(Object) - Method in class org.encog.ml.data.market.TickerSymbol
equals(Object) - Method in class org.encog.neural.neat.NEATLink
equals(Object) - Method in class org.encog.neural.networks.BasicNetwork
  Compare the two neural networks.
equals(BasicNetwork, int) - Method in class org.encog.neural.networks.BasicNetwork
  Determine if this neural network is equal to another.
equals(BasicNetwork, BasicNetwork) - Static method in class org.encog.neural.networks.structure.NetworkCODEC
  Determine if the two neural networks are equal.
equals(BasicNetwork, BasicNetwork, int) - Static method in class org.encog.neural.networks.structure.NetworkCODEC
  Determine if the two neural networks are equal.
Equilateral - Class in org.encog.mathutil
  Used to produce an array of activations to classify data into groups.
Equilateral(int, double, double) - Constructor for class org.encog.mathutil.Equilateral
  Construct an equilateral matrix.
ERROR - Static variable in class org.encog.persist.PersistConst
  Error.
ERROR_ADD - Static variable in class org.encog.ml.data.buffer.BufferedMLDataSet
  Error message for ADD.
ERROR_REMOVE - Static variable in class org.encog.ml.data.buffer.BufferedMLDataSet
  Error message for REMOVE.
ErrorCalculation - Class in org.encog.mathutil.error
  Calculate the error of a neural network.
ErrorCalculation() - Constructor for class org.encog.mathutil.error.ErrorCalculation
ErrorCalculationMode - Enum in org.encog.mathutil.error
  Selects the error calculation mode for Encog.
ErrorFunction - Interface in org.encog.neural.error
  An error function.
establishEquilibrium() - Method in class org.encog.neural.thermal.BoltzmannMachine
  Run the network until thermal equilibrium is established.
estimateCost(BasicNode, SearchGoal) - Method in interface org.encog.ml.graph.search.CostEstimator
estimateCost(BasicNode, SearchGoal) - Method in class org.encog.ml.graph.search.EuclideanCostEstimator
estimateGamma(double[][][], ForwardBackwardCalculator) - Method in class org.encog.ml.hmm.train.bw.BaseBaumWelch
estimateGamma(double[][][], ForwardBackwardCalculator) - Method in class org.encog.ml.hmm.train.bw.TrainBaumWelch
estimateXi(MLDataSet, ForwardBackwardCalculator, HiddenMarkovModel) - Method in class org.encog.ml.hmm.train.bw.BaseBaumWelch
estimateXi(MLDataSet, ForwardBackwardCalculator, HiddenMarkovModel) - Method in class org.encog.ml.hmm.train.bw.TrainBaumWelch
estimateXi(MLDataSet, ForwardBackwardCalculator, HiddenMarkovModel) - Method in class org.encog.ml.hmm.train.bw.TrainBaumWelchScaled
EstimatorNone - Class in org.encog.ml.bayesian.training.estimator
  A simple estimator that does nothing.
EstimatorNone() - Constructor for class org.encog.ml.bayesian.training.estimator.EstimatorNone
EuclideanCostEstimator - Class in org.encog.ml.graph.search
EuclideanCostEstimator() - Constructor for class org.encog.ml.graph.search.EuclideanCostEstimator
euclideanDistance(GridState, GridState) - Static method in class org.encog.ml.world.grid.GridWorld
euclideanDistance(double[], double[]) - Static method in class org.encog.util.EngineArray
EuclideanNode - Class in org.encog.ml.graph
EuclideanNode(String, double[]) - Constructor for class org.encog.ml.graph.EuclideanNode
EuclideanNode(String, double, double) - Constructor for class org.encog.ml.graph.EuclideanNode
EULERS_NUMBER - Static variable in class org.encog.mathutil.MathConst
  Euler's number.
evaluate(ArrayList<MLData>) - Method in class org.encog.ensemble.aggregator.Averaging
evaluate(ArrayList<MLData>, double, double, double) - Method in class org.encog.ensemble.aggregator.MajorityVoting
evaluate(ArrayList<MLData>) - Method in class org.encog.ensemble.aggregator.MajorityVoting
evaluate(ArrayList<MLData>) - Method in class org.encog.ensemble.aggregator.MetaClassifier
evaluate(ArrayList<MLData>) - Method in interface org.encog.ensemble.EnsembleAggregator
evaluate() - Method in class org.encog.ml.prg.EncogProgram
  Execute the program and return the result.
evaluate(ProgramNode) - Method in interface org.encog.ml.prg.extension.ProgramExtensionTemplate
  Evaluate the specified actual program node, using this opcode template.
evaluate() - Method in class org.encog.ml.prg.ProgramNode
Evaluate - Class in org.encog.util.benchmark
  Used to evaluate the training time for a network.
Evaluate() - Constructor for class org.encog.util.benchmark.Evaluate
evaluate(MLRegression, MLDataSet) - Static method in class org.encog.util.simple.EncogUtility
  Evaluate the network and display (to the console) the output for every value in the training set.
EvaluateExpr - Class in org.encog.ml.prg.expvalue
  Simple utility class that performs some basic operations on ExpressionValue objects.
evaluateTrain(int, int, int, int) - Static method in class org.encog.util.benchmark.Evaluate
evaluateTrain(BasicNetwork, MLDataSet) - Static method in class org.encog.util.benchmark.Evaluate
  Evaluate how long it takes to calculate the error for the network.
eventExists(String) - Method in class org.encog.ml.bayesian.BayesianNetwork
  Return true if the specified event exists.
EventState - Class in org.encog.ml.bayesian.query.sample
  Holds the state of an event during a query.
EventState(BayesianEvent) - Constructor for class org.encog.ml.bayesian.query.sample.EventState
  Construct an event state for the specified event.
EventType - Enum in org.encog.ml.bayesian
  The type of event for a Bayesian Network.
EvolutionaryAlgorithm - Interface in org.encog.ml.ea.train
  This interface defines the basic functionality of an Evolutionary Algorithm.
EvolutionaryOperator - Interface in org.encog.ml.ea.opp
  An evolutionary operator is used to create new offspring genomes based on parent genomes.
ExcelCODEC - Class in org.encog.ml.data.buffer.codec
  A CODEC that can read/write Microsoft Excel (*.XLSX) files.
ExcelCODEC(File) - Constructor for class org.encog.ml.data.buffer.codec.ExcelCODEC
  Constructor to create Excel from binary.
ExcelCODEC(File, int, int) - Constructor for class org.encog.ml.data.buffer.codec.ExcelCODEC
  Create a CODEC to load data from Excel to binary.
exclude(int, String) - Method in class org.encog.app.analyst.csv.filter.FilterCSV
  Exclude rows where the specified field has the specified value.
ExcludedField - Class in org.encog.app.analyst.csv.filter
  Used internally to track excluded fields from the FilterCSV.
ExcludedField(int, String) - Constructor for class org.encog.app.analyst.csv.filter.ExcludedField
  Construct the object.
execute() - Method in interface org.encog.ml.bayesian.query.BayesianQuery
  Execute the query.
execute() - Method in class org.encog.ml.bayesian.query.enumerate.EnumerationQuery
  Execute the query.
execute() - Method in class org.encog.ml.bayesian.query.sample.SamplingQuery
  Execute the query.
executeCommand(String) - Method in class org.encog.app.analyst.commands.Cmd
  Execute this command.
executeCommand(String) - Method in class org.encog.app.analyst.commands.CmdBalance
  Execute this command.
executeCommand(String) - Method in class org.encog.app.analyst.commands.CmdCluster
  Execute this command.
executeCommand(String) - Method in class org.encog.app.analyst.commands.CmdCode
  Execute this command.
executeCommand(String) - Method in class org.encog.app.analyst.commands.CmdCreate
  Execute this command.
executeCommand(String) - Method in class org.encog.app.analyst.commands.CmdEvaluate
  Execute this command.
executeCommand(String) - Method in class org.encog.app.analyst.commands.CmdEvaluateRaw
  Execute this command.
executeCommand(String) - Method in class org.encog.app.analyst.commands.CmdGenerate
  Execute this command.
executeCommand(String) - Method in class org.encog.app.analyst.commands.CmdNormalize
  Execute this command.
executeCommand(String) - Method in class org.encog.app.analyst.commands.CmdProcess
  Execute this command.
executeCommand(String) - Method in class org.encog.app.analyst.commands.CmdRandomize
  Execute this command.
executeCommand(String) - Method in class org.encog.app.analyst.commands.CmdReset
  Execute this command.
executeCommand(String) - Method in class org.encog.app.analyst.commands.CmdSegregate
  Execute this command.
executeCommand(String) - Method in class org.encog.app.analyst.commands.CmdSet
  Execute this command.
executeCommand(String) - Method in class org.encog.app.analyst.commands.CmdTrain
  Execute this command.
executeTask(AnalystTask) - Method in class org.encog.app.analyst.EncogAnalyst
  Execute a task.
executeTask(String) - Method in class org.encog.app.analyst.EncogAnalyst
  Execute a task.
exp(double) - Static method in class org.encog.mathutil.BoundMath
  Calculate the exp.
exp() - Method in class org.encog.mathutil.ComplexNumber
  Complex exponential (doesn't change this Complex number).
expectInputHeaders(String) - Method in class org.encog.app.analyst.script.AnalystScript
  Determine if input headers are expected.
explainErrorMSE(MLRegression, MatrixMLDataSet) - Static method in class org.encog.util.simple.EncogUtility
explainErrorRMS(MLRegression, MatrixMLDataSet) - Static method in class org.encog.util.simple.EncogUtility
ExpressionNodeType - Enum in org.encog.parse.expression
ExpressionValue - Class in org.encog.ml.prg.expvalue
  An EncogProgram expression value.
ExpressionValue(boolean) - Constructor for class org.encog.ml.prg.expvalue.ExpressionValue
  Construct a boolean expression.
ExpressionValue(double) - Constructor for class org.encog.ml.prg.expvalue.ExpressionValue
  Construct a boolean expression.
ExpressionValue(ExpressionValue) - Constructor for class org.encog.ml.prg.expvalue.ExpressionValue
  Construct a expression based on an expression.
ExpressionValue(int, long) - Constructor for class org.encog.ml.prg.expvalue.ExpressionValue
  Construct an enum expression.
ExpressionValue(long) - Constructor for class org.encog.ml.prg.expvalue.ExpressionValue
  Construct an integer expression.
ExpressionValue(String) - Constructor for class org.encog.ml.prg.expvalue.ExpressionValue
  Construct a string expression.
ExpressionValue(ValueType) - Constructor for class org.encog.ml.prg.expvalue.ExpressionValue
  Construct a value of the specified type.
EXTENSION_ABS - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard numeric absolute value function.
EXTENSION_ACOS - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard numeric acos function.
EXTENSION_ADD - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard binary add operator.
EXTENSION_AND - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard boolean binary and operator.
EXTENSION_ASIN - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard numeric asin function.
EXTENSION_ATAN - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard numeric atan function.
EXTENSION_ATAN2 - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard numeric atan2 function.
EXTENSION_CBOOL - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard string cbool function.
EXTENSION_CEIL - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard numeric ceil function.
EXTENSION_CFLOAT - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard string cfloat function.
EXTENSION_CINT - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard string cint function.
EXTENSION_CLAMP - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard string clamp function.
EXTENSION_CONST_SUPPORT - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Numeric const.
EXTENSION_COS - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard numeric cos function.
EXTENSION_COSH - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard numeric cosh function.
EXTENSION_CSTR - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard string cstr function.
EXTENSION_DATA_NAME - Static variable in class org.encog.app.analyst.csv.process.ProcessExtension
EXTENSION_DIV - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard binary div operator.
EXTENSION_EQUAL - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard boolean binary equal operator.
EXTENSION_EXP - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard numeric exp function.
EXTENSION_FLOOR - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard numeric floor function.
EXTENSION_FORMAT - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Numeric formatting function.
EXTENSION_GT - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard boolean binary greater than operator.
EXTENSION_GTE - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard boolean binary greater than operator.
EXTENSION_IFF - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard string iff function.
EXTENSION_LEFT - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  String left function.
EXTENSION_LENGTH - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard string length function.
EXTENSION_LOG - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard numeric log function.
EXTENSION_LOG10 - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard numeric log10 function.
EXTENSION_LT - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard boolean binary less than operator.
EXTENSION_LTE - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard boolean binary less than operator.
EXTENSION_MAX - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard numeric max function.
EXTENSION_MIN - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard numeric max function.
EXTENSION_MUL - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard binary multiply operator.
EXTENSION_NEG - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard unary minus operator.
EXTENSION_NOT - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard boolean binary and operator.
EXTENSION_NOT_EQUAL - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard boolean not equal operator.
EXTENSION_OR - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard boolean binary or operator.
EXTENSION_PDIV - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard binary protected div operator.
EXTENSION_POWER - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard binary power operator.
EXTENSION_POWFN - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard numeric pow function.
EXTENSION_RANDOM - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard numeric random function.
EXTENSION_RIGHT - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  String right function.
EXTENSION_ROUND - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard numeric log10 function.
EXTENSION_SIN - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard numeric sin function.
EXTENSION_SINH - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard numeric sinh function.
EXTENSION_SQRT - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard numeric sqrt function.
EXTENSION_SUB - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard binary sub operator.
EXTENSION_TAN - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard numeric tan function.
EXTENSION_TANH - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard numeric tanh function.
EXTENSION_TODEG - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard numeric toDegrees function.
EXTENSION_TORAD - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Standard numeric toRadians function.
EXTENSION_VAR_SUPPORT - Static variable in class org.encog.ml.prg.extension.StandardExtensions
  Variable support.
external2Binary(File) - Method in class org.encog.ml.data.buffer.BinaryDataLoader
  Convert an external file format, such as CSV, to the Encog binary training format.
external2Memory() - Method in class org.encog.ml.data.buffer.MemoryDataLoader
  Convert an external file format, such as CSV, to an Encog memory training set.
extract(String, String, String, int) - Static method in class org.encog.bot.BotUtil
  This method is very useful for grabbing information from a HTML page.
extractFields(EncogAnalyst, CSVHeaders, ReadCSV, int, boolean) - Static method in class org.encog.app.analyst.csv.normalize.AnalystNormalizeCSV
  Extract fields from a file into a numeric array for machine learning.
extractFromIndex(String, String, String, int, int) - Static method in class org.encog.bot.BotUtil
  This method is very useful for grabbing information from a HTML page.

## F

factor() - Method in class org.encog.ca.universe.basic.BasicCellFactory
factor() - Method in interface org.encog.ca.universe.UniverseCellFactory
factor() - Method in class org.encog.mathutil.randomize.factory.BasicRandomFactory
factor() - Method in interface org.encog.mathutil.randomize.factory.RandomFactory
factor() - Method in interface org.encog.ml.ea.genome.GenomeFactory
factor(Genome) - Method in interface org.encog.ml.ea.genome.GenomeFactory
  Create a clone of the other genome.
factor() - Method in class org.encog.ml.genetic.genome.DoubleArrayGenomeFactory
factor(Genome) - Method in class org.encog.ml.genetic.genome.DoubleArrayGenomeFactory
  Create a clone of the other genome.
factor() - Method in class org.encog.ml.genetic.genome.IntegerArrayGenomeFactory
factor(Genome) - Method in class org.encog.ml.genetic.genome.IntegerArrayGenomeFactory
  Create a clone of the other genome.
factor() - Method in class org.encog.ml.genetic.MLMethodGenomeFactory
factor(Genome) - Method in class org.encog.ml.genetic.MLMethodGenomeFactory
  Create a clone of the other genome.
factor() - Method in interface org.encog.ml.MethodFactory
factor() - Method in class org.encog.ml.prg.train.PrgGenomeFactory
factor(Genome) - Method in class org.encog.ml.prg.train.PrgGenomeFactory
  Create a clone of the other genome.
factor(ActivationFunction) - Method in class org.encog.neural.freeform.basic.BasicActivationSummationFactory
  Create a new input summation.
factor(FreeformNeuron, FreeformNeuron) - Method in class org.encog.neural.freeform.basic.BasicFreeformConnectionFactory
  Create a connection.
factor() - Method in class org.encog.neural.freeform.basic.BasicFreeformLayerFactory
  Create a layer.
factor(FreeformNeuron, FreeformNeuron) - Method in interface org.encog.neural.freeform.factory.FreeformConnectionFactory
  Create a connection.
factor() - Method in interface org.encog.neural.freeform.factory.FreeformLayerFactory
  Create a layer.
factor(ActivationFunction) - Method in interface org.encog.neural.freeform.factory.InputSummationFactory
  Create a new input summation.
factor() - Method in class org.encog.neural.hyperneat.FactorHyperNEATGenome
factor(Genome) - Method in class org.encog.neural.hyperneat.FactorHyperNEATGenome
  Create a clone of the other genome.
factor(List<NEATNeuronGene>, List<NEATLinkGene>, int, int) - Method in class org.encog.neural.hyperneat.FactorHyperNEATGenome
  Create a NEAT genome from a list of links and neurons.
factor(Random, NEATPopulation, int, int, double) - Method in class org.encog.neural.hyperneat.FactorHyperNEATGenome
  Create a new random NEAT genome.
factor() - Method in class org.encog.neural.neat.FactorNEATGenome
factor(Genome) - Method in class org.encog.neural.neat.FactorNEATGenome
  Create a clone of the other genome.
factor(List<NEATNeuronGene>, List<NEATLinkGene>, int, int) - Method in class org.encog.neural.neat.FactorNEATGenome
  Create a NEAT genome from a list of links and neurons.
factor(Random, NEATPopulation, int, int, double) - Method in class org.encog.neural.neat.FactorNEATGenome
  Create a new random NEAT genome.
factor(List<NEATNeuronGene>, List<NEATLinkGene>, int, int) - Method in interface org.encog.neural.neat.NEATGenomeFactory
  Create a NEAT genome from a list of links and neurons.
factor(Random, NEATPopulation, int, int, double) - Method in interface org.encog.neural.neat.NEATGenomeFactory
  Create a new random NEAT genome.
factorContext(FreeformNeuron) - Method in class org.encog.neural.freeform.basic.BasicFreeformNeuronFactory
  Create a context neuron.
factorContext(FreeformNeuron) - Method in interface org.encog.neural.freeform.factory.FreeformNeuronFactory
  Create a context neuron.
factorFactory() - Method in class org.encog.mathutil.randomize.factory.BasicRandomFactory
factorFactory() - Method in interface org.encog.mathutil.randomize.factory.RandomFactory
FactorHyperNEATGenome - Class in org.encog.neural.hyperneat
  Create a Genome for use with HyperNEAT.
FactorHyperNEATGenome() - Constructor for class org.encog.neural.hyperneat.FactorHyperNEATGenome
factorial(int) - Static method in class org.encog.mathutil.EncogMath
  Calculate x!.
FactorNEATGenome - Class in org.encog.neural.neat
  This factory is used to create NEATGenomes.
FactorNEATGenome() - Constructor for class org.encog.neural.neat.FactorNEATGenome
factorProgramNode(ProgramExtensionTemplate, EncogProgram, ProgramNode[]) - Method in class org.encog.ml.prg.extension.FunctionFactory
  Factor a new program node, based in a template object.
factorProgramNode(String, EncogProgram, ProgramNode[]) - Method in class org.encog.ml.prg.extension.FunctionFactory
  Factor a new program node, based on an opcode name and arguments.
factorRegular(InputSummation) - Method in class org.encog.neural.freeform.basic.BasicFreeformNeuronFactory
  Create a regular neuron.
factorRegular(InputSummation) - Method in interface org.encog.neural.freeform.factory.FreeformNeuronFactory
  Create a regular neuron.
factorSandwichSubstrate(int, int) - Static method in class org.encog.neural.hyperneat.substrate.SubstrateFactory
  Create a sandwich substrate.
FanInRandomizer - Class in org.encog.mathutil.randomize
  A randomizer that attempts to create starting weight values that are conducive to propagation training.
FanInRandomizer() - Constructor for class org.encog.mathutil.randomize.FanInRandomizer
  Create a fan-in randomizer with default values.
FanInRandomizer(double, boolean) - Constructor for class org.encog.mathutil.randomize.FanInRandomizer
  Construct a fan-in randomizer along the specified boundary.
FanInRandomizer(double, double, boolean) - Constructor for class org.encog.mathutil.randomize.FanInRandomizer
  Construct a fan-in randomizer.
FeedforwardConfig - Class in org.encog.ml.model.config
  Config class for EncogModel to use a feedforward neural network.
FeedforwardConfig() - Constructor for class org.encog.ml.model.config.FeedforwardConfig
FeedforwardFactory - Class in org.encog.ml.factory.method
  A factor to create feedforward networks.
FeedforwardFactory() - Constructor for class org.encog.ml.factory.method.FeedforwardFactory
FeedForwardPattern - Class in org.encog.neural.pattern
  Used to create feedforward neural networks.
FeedForwardPattern() - Constructor for class org.encog.neural.pattern.FeedForwardPattern
FieldDirection - Enum in org.encog.app.analyst.util
FieldPreprocess - Class in org.encog.app.analyst.script.preprocess
FieldPreprocess(PreprocessAction, String, String) - Constructor for class org.encog.app.analyst.script.preprocess.FieldPreprocess
FILE_BALANCE - Static variable in class org.encog.app.analyst.wizard.AnalystWizard
  The balanced file.
FILE_CLUSTER - Static variable in class org.encog.app.analyst.wizard.AnalystWizard
  The clustered file.
FILE_CODE - Static variable in class org.encog.app.analyst.wizard.AnalystWizard
  The generated code file.
FILE_EVAL - Static variable in class org.encog.app.analyst.wizard.AnalystWizard
  The evaluation file.
FILE_EVAL_NORM - Static variable in class org.encog.app.analyst.wizard.AnalystWizard
  The eval file normalization file.
FILE_ML - Static variable in class org.encog.app.analyst.wizard.AnalystWizard
  The machine learning file.
FILE_NORMALIZE - Static variable in class org.encog.app.analyst.wizard.AnalystWizard
  The normalized file.
FILE_OUTPUT - Static variable in class org.encog.app.analyst.wizard.AnalystWizard
  The output file.
FILE_PRE - Static variable in class org.encog.app.analyst.wizard.AnalystWizard
  The processed data.
FILE_RANDOM - Static variable in class org.encog.app.analyst.wizard.AnalystWizard
  The randomized file.
FILE_RAW - Static variable in class org.encog.app.analyst.wizard.AnalystWizard
  The raw file.
FILE_TRAIN - Static variable in class org.encog.app.analyst.wizard.AnalystWizard
  The training file.
FILE_TRAINSET - Static variable in class org.encog.app.analyst.wizard.AnalystWizard
  The training set.
FileData - Class in org.encog.app.analyst.csv.basic
  A column that is based off of a column in a CSV file.
FileData(String, int, boolean, boolean) - Constructor for class org.encog.app.analyst.csv.basic.FileData
  Construct the object.
FileSection - Enum in org.encog.ml.bayesian.bif
  The section of the BIF file that we are currently in.
FileUtil - Class in org.encog.util.file
FileUtil() - Constructor for class org.encog.util.file.FileUtil
fill(double[], double) - Static method in class org.encog.util.EngineArray
  Fill a double array.
fill(float[], float) - Static method in class org.encog.util.EngineArray
  Fill a float array.
fill(double[][], int) - Static method in class org.encog.util.EngineArray
fill(boolean[], boolean) - Static method in class org.encog.util.EngineArray
fill(int[], int) - Static method in class org.encog.util.EngineArray
FilterCSV - Class in org.encog.app.analyst.csv.filter
  This class can be used to remove certain rows from a CSV.
FilterCSV() - Constructor for class org.encog.app.analyst.csv.filter.FilterCSV
finalizeField() - Method in class org.encog.app.analyst.analyze.AnalyzedField
  Finalize the field, and create a DataField.
finalizeLimit() - Method in class org.encog.neural.networks.structure.NeuralStructure
  Parse/finalize the limit value for connections.
finalizeStructure() - Method in class org.encog.ml.bayesian.BayesianEvent
  Finalize the structure.
finalizeStructure() - Method in class org.encog.ml.bayesian.BayesianNetwork
  Finalize the structure of this Bayesian network.
finalizeStructure() - Method in class org.encog.ml.bayesian.query.BasicQuery
finalizeStructure() - Method in interface org.encog.ml.bayesian.query.BayesianQuery
finalizeStructure() - Method in class org.encog.neural.networks.structure.NeuralStructure
  Build the synapse and layer structure.
finalizeStructure() - Method in class org.encog.util.obj.ChooseObject
  Finalize the structure and set the probabilities.
finalizeTraining() - Method in class org.encog.ml.fitting.gaussian.GaussianFitting
find(String) - Method in class org.encog.app.analyst.util.CSVHeaders
  Find the specified column.
find(Class<?>, int) - Method in class org.encog.bot.browse.WebPage
  Find the specified DocumentRange subclass in the contents list.
findAllOpcodes() - Method in enum org.encog.ml.prg.extension.EncogOpcodeRegistry
findAnalystField(String) - Method in class org.encog.app.analyst.script.AnalystScript
findBestRange(double, double, int, boolean, double, CalculationCriteria) - Method in class org.encog.neural.networks.training.pnn.GlobalMinimumSearch
  Find the best common gamma.
findBestSpecies() - Method in class org.encog.ml.ea.species.ThresholdSpeciation
  Find the best species.
findBounds() - Method in interface org.encog.util.downsample.Downsample
  Find the bounds around the image to exclude whitespace.
findBounds() - Method in class org.encog.util.downsample.RGBDownsample
  This method is called to automatically crop the image so that whitespace is removed.
findClass(int) - Method in class org.encog.app.analyst.script.normalize.AnalystField
findClosestStateTo(List<GridState>, GridState) - Method in class org.encog.ml.world.grid.GridWorld
findClosestStateToGoal(List<GridState>) - Method in class org.encog.ml.world.grid.GridWorld
findDataField(String) - Method in class org.encog.app.analyst.script.AnalystScript
  Find the specified data field.
findDataFieldIndex(DataField) - Method in class org.encog.app.analyst.script.AnalystScript
  Find the specified data field and return its index.
findEndTag(int, Tag) - Method in class org.encog.bot.browse.LoadWebPage
  Find the end tag that lines up to the beginning tag.
findEntry(String) - Method in class org.encog.app.analyst.script.prop.PropertyConstraints
  Find an entry based on a string.
findField(Class<?>, String) - Static method in class org.encog.util.obj.ReflectionUtil
  Find the specified field, look also in superclasses.
findFunction(String) - Method in class org.encog.ml.prg.extension.FunctionFactory
  Find a function with the specified name.
findIndex(int) - Method in class org.encog.ml.data.sparse.SparseMLData
findInnovation(long) - Method in class org.encog.neural.neat.training.NEATInnovationList
  Find an innovation for a single neuron.
findInnovation(long, long) - Method in class org.encog.neural.neat.training.NEATInnovationList
  Find an innovation for a new link added between two existing neurons.
findInnovationSplit(long, long) - Method in class org.encog.neural.neat.training.NEATInnovationList
  Find an innovation for a hidden neuron that split a existing link.
findInputField(Class<?>, int) - Method in class org.encog.util.normalize.DataNormalization
  Find an input field by its class.
findLine(int, int[]) - Method in class org.encog.ml.bayesian.table.BayesianTable
  Find the specified truth table line.
findLink(String) - Method in class org.encog.bot.browse.WebPage
  Find the link that contains the specified string.
findNeuron(long) - Method in class org.encog.neural.neat.training.NEATGenome
  Find the neuron with the specified nodeID.
findNode(int) - Method in class org.encog.ml.prg.EncogProgram
  Find the specified node by index.
findNormalizedField(String, int) - Method in class org.encog.app.analyst.script.AnalystScript
  Find the specified normalized field.
findOccurance(String, String, int) - Static method in class org.encog.bot.BotUtil
  Find the specified occurrence of one string in another string.
findOpcode(String, int) - Method in enum org.encog.ml.prg.extension.EncogOpcodeRegistry
  Find the specified opcode.
findOpcodes(List<ValueType>, EncogProgramContext, boolean, boolean) - Method in class org.encog.ml.prg.extension.FunctionFactory
  Find all opcodes that match the search criteria.
findOperator(char, char) - Method in class org.encog.ml.prg.extension.FunctionFactory
  This method is used when parsing an expression.
findOutputField(Class<?>, int) - Method in class org.encog.util.normalize.DataNormalization
  Find an output field by its class.
findStringInArray(String[], String) - Static method in class org.encog.util.EngineArray
  Search for a string in an array.
findTag(String, boolean) - Method in class org.encog.parse.tags.read.ReadXML
  Advance until the specified tag is found.
findTrans(Set<Trans>, UniverseCell) - Method in class org.encog.ca.program.generic.GenericCA
findType(String, int) - Method in class org.encog.bot.browse.range.Form
  Find the form input by type.
findVariablesByTypes(List<ValueType>) - Method in class org.encog.ml.prg.EncogProgramContext
  Find all of the variables of the specified types.
finishNode - Variable in class org.encog.ml.schedule.ScheduleGraph
finishTraining() - Method in class org.encog.ml.ea.train.basic.BasicEA
  Called when training is finished.
finishTraining() - Method in class org.encog.ml.ea.train.basic.TrainEA
  Called when training is finished.
finishTraining() - Method in interface org.encog.ml.ea.train.EvolutionaryAlgorithm
  Called when training is finished.
finishTraining() - Method in class org.encog.ml.hmm.train.bw.BaseBaumWelch
finishTraining() - Method in class org.encog.ml.hmm.train.kmeans.TrainKMeans
finishTraining() - Method in class org.encog.ml.svm.training.SVMSearchTrain
  Should be called after training has completed and the iteration method will not be called any further.
finishTraining() - Method in class org.encog.ml.train.BasicTraining
  Should be called after training has completed and the iteration method will not be called any further.
finishTraining() - Method in interface org.encog.ml.train.MLTrain
  Should be called once training is complete and no more iterations are needed.
finishTraining() - Method in class org.encog.neural.freeform.training.FreeformPropagationTraining
  Should be called after training has completed and the iteration method will not be called any further.
finishTraining() - Method in class org.encog.neural.networks.training.propagation.Propagation
  Should be called after training has completed and the iteration method will not be called any further.
FIRST_LAMBDA - Static variable in class org.encog.neural.networks.training.propagation.scg.ScaledConjugateGradient
  The starting value for lambda.
FIRST_SIGMA - Static variable in class org.encog.neural.networks.training.propagation.scg.ScaledConjugateGradient
  The starting value for sigma.
fit(MLDataSet) - Method in class org.encog.ml.hmm.distributions.ContinousDistribution
  Fit this distribution to the specified data set.
fit(MLDataSet, double[]) - Method in class org.encog.ml.hmm.distributions.ContinousDistribution
  Fit this distribution to the specified data set, given the specified weights, per element.
fit(MLDataSet) - Method in class org.encog.ml.hmm.distributions.DiscreteDistribution
  Fit this distribution to the specified data.
fit(MLDataSet, double[]) - Method in class org.encog.ml.hmm.distributions.DiscreteDistribution
  Fit this distribution to the specified data, with weights.
fit(MLDataSet) - Method in interface org.encog.ml.hmm.distributions.StateDistribution
  Fit this distribution to the specified data set.
fit(MLDataSet, double[]) - Method in interface org.encog.ml.hmm.distributions.StateDistribution
  Fit this distribution to the specified data set, given the specified weights, per element.
FitnessObjective - Class in org.encog.ml.fitness
  A fitness objective.
FitnessObjective(double, CalculateScore) - Constructor for class org.encog.ml.fitness.FitnessObjective
  Construct the fitness objective.
FIVE - Static variable in class org.encog.mathutil.NumericRange
  Display to five decimal places.
FIVE_SPAN - Static variable in class org.encog.app.analyst.report.AnalystReport
  Used as a col-span.
fixFlatSpot(boolean) - Method in class org.encog.neural.networks.training.propagation.Propagation
  Default is true.
fixSingleValue() - Method in class org.encog.app.analyst.script.normalize.AnalystField
  Fix normalized fields that have a single value for the min/max.
fixSingleValue() - Method in class org.encog.util.arrayutil.NormalizedField
  Fix normalized fields that have a single value for the min/max.
flat - Variable in class org.encog.mathutil.matrices.hessian.BasicHessian
  The flat network.
FLAT_SPOT_CONST - Static variable in class org.encog.neural.freeform.training.FreeformPropagationTraining
  The constant to use to fix the flat spot problem.
FlatLayer - Class in org.encog.neural.flat
  Used to configure a flat layer.
FlatLayer() - Constructor for class org.encog.neural.flat.FlatLayer
  Do not use this constructor.
FlatLayer(ActivationFunction, int, double) - Constructor for class org.encog.neural.flat.FlatLayer
  Construct a flat layer.
FlatNetwork - Class in org.encog.neural.flat
  Implements a flat (vector based) neural network in the Encog Engine.
FlatNetwork() - Constructor for class org.encog.neural.flat.FlatNetwork
  Default constructor.
FlatNetwork(FlatLayer[]) - Constructor for class org.encog.neural.flat.FlatNetwork
  Create a flat network from an array of layers.
FlatNetwork(int, int, int, int, boolean) - Constructor for class org.encog.neural.flat.FlatNetwork
  Construct a flat neural network.
FlatNetworkRBF - Class in org.encog.neural.flat
  A flat network designed to handle an RBF.
FlatNetworkRBF() - Constructor for class org.encog.neural.flat.FlatNetworkRBF
  Default constructor.
FlatNetworkRBF(int, int, int, RadialBasisFunction[]) - Constructor for class org.encog.neural.flat.FlatNetworkRBF
  Construct an RBF flat network.
flatten(DimensionConstraint) - Method in class org.encog.mathutil.dimension.MultiDimension
  Flatten the multi-dimensional index into a single dimension index.
flatten() - Method in class org.encog.ml.ea.population.BasicPopulation
  Flatten the species into a single list of genomes.
flatten() - Method in interface org.encog.ml.ea.population.Population
  Flatten the species into a single list of genomes.
flatToMatrix(double[], int, double[][]) - Method in class org.encog.neural.rbf.training.SVDTraining
flush() - Method in class org.encog.persist.EncogWriteHelper
  Flush the file.
flushBase64() - Method in class org.encog.util.text.Base64.OutputStream
  Method added by PHIL.
fn(double[]) - Method in interface org.encog.mathutil.EncogFunction
fn(double[]) - Method in class org.encog.neural.networks.training.nm.NelderMeadTraining
  Calculate the error for the neural network with a given set of weights.
fold(int) - Method in class org.encog.ml.data.folded.FoldedDataSet
  Fold the dataset.
FoldedDataSet - Class in org.encog.ml.data.folded
  A folded data set allows you to "fold" the data into several equal(or nearly equal) datasets.
FoldedDataSet(MLDataSet) - Constructor for class org.encog.ml.data.folded.FoldedDataSet
  Create a folded dataset.
FoldedIterator - Class in org.encog.ml.data.folded
  Used to iterate over a folded data set.
FoldedIterator(FoldedDataSet) - Constructor for class org.encog.ml.data.folded.FoldedIterator
  Construct the folded iterator.
forceExtension(String, String) - Static method in class org.encog.util.file.FileUtil
Form - Class in org.encog.bot.browse.range
  A document range that represents a form, and all embedded tags.
Form(WebPage) - Constructor for class org.encog.bot.browse.range.Form
  Construct a form on the specified web page.
Form.Method - Enum in org.encog.bot.browse.range
  The method for this form.
format(double, int) - Method in class org.encog.util.csv.CSVFormat
  Format the specified number to a string with the specified number of fractional digits.
Format - Class in org.encog.util
  Provides the ability for Encog to format numbers and times.
format(LogRecord) - Method in class org.encog.util.logging.EncogFormatter
  Format the log record.
formatDouble(double, int) - Static method in class org.encog.util.Format
  Format a double.
formatEventName(BayesianEvent, int) - Static method in class org.encog.ml.bayesian.BayesianEvent
  Format the event name with +, - and =.
formatInteger(int) - Static method in class org.encog.util.Format
  Format an integer.
formatMemory(long) - Static method in class org.encog.util.Format
  Format a memory amount, to something like 32 MB.
formatNeuralData(MLData) - Static method in class org.encog.util.simple.EncogUtility
  Format neural data as a list of numbers.
formatPercent(double) - Static method in class org.encog.util.Format
  Format a percent.
formatPercentWhole(double) - Static method in class org.encog.util.Format
  Format a percent with no decimal places.
formatTimeSpan(int) - Static method in class org.encog.util.Format
  Format a time span as seconds, minutes, hours and days.
formatYesNo(boolean) - Static method in class org.encog.util.Format
  Format a boolean as yes/no.
FormElement - Class in org.encog.bot.browse.range
  A document range that represents one individual component to a form.
FormElement(WebPage) - Constructor for class org.encog.bot.browse.range.FormElement
  Construct a form element from the specified web page.
FormUtility - Class in org.encog.util.http
  This class is used to construct responses to HTML forms.
FormUtility(OutputStream, String) - Constructor for class org.encog.util.http.FormUtility
  Prepare to access either a regular, or multipart, form.
forward(DimensionConstraint) - Method in class org.encog.mathutil.dimension.MultiDimension
  Roll the dimension forward by one.
forward() - Method in class org.encog.ml.bayesian.query.enumerate.EnumerationQuery
  Roll the enumeration events forward by one.
forward(ActionNode) - Method in class org.encog.ml.schedule.CalculateScheduleTimes
ForwardBackwardCalculator - Class in org.encog.ml.hmm.alog
  The forward-backward algorithm is an inference algorithm for hidden Markov models which computes the posterior marginals of all hidden state variables given a sequence of observations.
ForwardBackwardCalculator() - Constructor for class org.encog.ml.hmm.alog.ForwardBackwardCalculator
  Construct an empty object.
ForwardBackwardCalculator(MLDataSet, HiddenMarkovModel) - Constructor for class org.encog.ml.hmm.alog.ForwardBackwardCalculator
  Construct the forward/backward calculator.
ForwardBackwardCalculator(MLDataSet, HiddenMarkovModel, EnumSet<ForwardBackwardCalculator.Computation>) - Constructor for class org.encog.ml.hmm.alog.ForwardBackwardCalculator
  Construct the object.
ForwardBackwardCalculator.Computation - Enum in org.encog.ml.hmm.alog
ForwardBackwardScaledCalculator - Class in org.encog.ml.hmm.alog
  The forward-backward algorithm is an inference algorithm for hidden Markov models which computes the posterior marginals of all hidden state variables given a sequence of observations.
ForwardBackwardScaledCalculator(MLDataSet, HiddenMarkovModel) - Constructor for class org.encog.ml.hmm.alog.ForwardBackwardScaledCalculator
ForwardBackwardScaledCalculator(MLDataSet, HiddenMarkovModel, EnumSet<ForwardBackwardCalculator.Computation>) - Constructor for class org.encog.ml.hmm.alog.ForwardBackwardScaledCalculator
FRAC_SHIFT - Static variable in class org.encog.util.text.DoubleString
FreeformBackPropagation - Class in org.encog.neural.freeform.training
  Perform backpropagation for a freeform neural network.
FreeformBackPropagation(FreeformNetwork, MLDataSet, double, double) - Constructor for class org.encog.neural.freeform.training.FreeformBackPropagation
  Construct a back propagation trainer.
FreeformConnection - Interface in org.encog.neural.freeform
  Defines a freeform connection between neurons.
FreeformConnectionFactory - Interface in org.encog.neural.freeform.factory
  A factory that creates connections.
FreeformContextNeuron - Class in org.encog.neural.freeform
  Defines a freeform context neuron.
FreeformContextNeuron(FreeformNeuron) - Constructor for class org.encog.neural.freeform.FreeformContextNeuron
  Construct the context neuron.
FreeformLayer - Interface in org.encog.neural.freeform
  Defines a freeform layer.
FreeformLayerFactory - Interface in org.encog.neural.freeform.factory
  A factory that creates layers.
FreeformNetwork - Class in org.encog.neural.freeform
  Implements a freefrom neural network.
FreeformNetwork() - Constructor for class org.encog.neural.freeform.FreeformNetwork
  Default constructor.
FreeformNetwork(BasicNetwork) - Constructor for class org.encog.neural.freeform.FreeformNetwork
  Craete a freeform network from a basic network.
FreeformNetworkError - Exception in org.encog.neural.freeform
  Freeform neural network error.
FreeformNetworkError(String) - Constructor for exception org.encog.neural.freeform.FreeformNetworkError
  Construct a message exception.
FreeformNetworkError(String, Throwable) - Constructor for exception org.encog.neural.freeform.FreeformNetworkError
  Construct an exception that holds another exception.
FreeformNetworkError(Throwable) - Constructor for exception org.encog.neural.freeform.FreeformNetworkError
  Construct an exception that holds another exception.
FreeformNeuron - Interface in org.encog.neural.freeform
  This interface defines a freeform neuron.
FreeformNeuronFactory - Interface in org.encog.neural.freeform.factory
  A factory that creates neurons.
FreeformPropagationTraining - Class in org.encog.neural.freeform.training
  Provides basic propagation functions to other trainers.
FreeformPropagationTraining() - Constructor for class org.encog.neural.freeform.training.FreeformPropagationTraining
  Don't use this constructor, it is for serialization only.
FreeformPropagationTraining(FreeformNetwork, MLDataSet) - Constructor for class org.encog.neural.freeform.training.FreeformPropagationTraining
  Construct the trainer.
FreeformResilientPropagation - Class in org.encog.neural.freeform.training
FreeformResilientPropagation(FreeformNetwork, MLDataSet) - Constructor for class org.encog.neural.freeform.training.FreeformResilientPropagation
  Construct the RPROP trainer, Use default intiial update and max step.
FreeformResilientPropagation(FreeformNetwork, MLDataSet, double, double) - Constructor for class org.encog.neural.freeform.training.FreeformResilientPropagation
  Construct the RPROP trainer.
fromList(CSVFormat, String) - Static method in class org.encog.util.csv.NumberList
  Get an array of double's from a string of comma separated text.
fromListInt(CSVFormat, String) - Static method in class org.encog.util.csv.NumberList
fromPackedArray(double[], int) - Method in class org.encog.mathutil.matrices.Matrix
  Create a matrix from a packed array.
FrontierHolder - Class in org.encog.ml.graph.search
FrontierHolder(Prioritizer) - Constructor for class org.encog.ml.graph.search.FrontierHolder
function(int, int) - Method in class org.encog.neural.som.training.basic.neighborhood.NeighborhoodBubble
  Determine how much the current neuron should be affected by training based on its proximity to the winning neuron.
function(int, int) - Method in interface org.encog.neural.som.training.basic.neighborhood.NeighborhoodFunction
  Determine how much the current neuron should be affected by training based on its proximity to the winning neuron.
function(int, int) - Method in class org.encog.neural.som.training.basic.neighborhood.NeighborhoodRBF
  Calculate the value for the multi RBF function.
function(int, int) - Method in class org.encog.neural.som.training.basic.neighborhood.NeighborhoodRBF1D
  Determine how much the current neuron should be affected by training based on its proximity to the winning neuron.
function(int, int) - Method in class org.encog.neural.som.training.basic.neighborhood.NeighborhoodSingle
  Determine how much the current neuron should be affected by training based on its proximity to the winning neuron.
FunctionFactory - Class in org.encog.ml.prg.extension
  A function factory maps the opcodes contained in the EncogOpcodeRegistry into an EncogProgram.
FunctionFactory() - Constructor for class org.encog.ml.prg.extension.FunctionFactory
  Default constructor.

## G

gamma - Variable in class org.encog.mathutil.libsvm.svm_parameter
GaussianFitting - Class in org.encog.ml.fitting.gaussian
GaussianFitting(int) - Constructor for class org.encog.ml.fitting.gaussian.GaussianFitting
GaussianFunction - Class in org.encog.mathutil.rbf
  Multi-dimensional gaussian function.
GaussianFunction() - Constructor for class org.encog.mathutil.rbf.GaussianFunction
  Default constructor, used for reflection.
GaussianFunction(double, double, double) - Constructor for class org.encog.mathutil.rbf.GaussianFunction
  Construct a single-dimension Gaussian function with the specified peak, centers and widths.
GaussianFunction(double, double[], double) - Constructor for class org.encog.mathutil.rbf.GaussianFunction
  Construct a multi-dimension Gaussian function with the specified peak, centers and widths.
GaussianFunction(int) - Constructor for class org.encog.mathutil.rbf.GaussianFunction
  Create centered at zero, width 0, and peak 0.
GaussianRandomizer - Class in org.encog.mathutil.randomize
  Generally, you will not want to use this randomizer as a pure neural network randomizer.
GaussianRandomizer(double, double) - Constructor for class org.encog.mathutil.randomize.GaussianRandomizer
  Construct a Gaussian randomizer.
generate(EncogAnalyst) - Method in class org.encog.app.generate.EncogCodeGeneration
  Generate the code from Encog Analyst.
generate(File, File) - Method in class org.encog.app.generate.EncogCodeGeneration
  Generate from a method and data.
generate(EncogAnalyst) - Method in class org.encog.app.generate.generators.AbstractTemplateGenerator
  Generate based on the provided Encog Analyst.
generate(EncogGenProgram, boolean) - Method in class org.encog.app.generate.generators.cs.GenerateCS
generate(EncogGenProgram, boolean) - Method in class org.encog.app.generate.generators.java.GenerateEncogJava
generate(EncogGenProgram, boolean) - Method in class org.encog.app.generate.generators.js.GenerateEncogJavaScript
generate(EncogGenProgram, boolean) - Method in interface org.encog.app.generate.generators.ProgramGenerator
generate(EncogAnalyst) - Method in interface org.encog.app.generate.generators.TemplateGenerator
  Generate the template based on Encog Analyst script.
generate(Random) - Method in class org.encog.mathutil.randomize.RandomChoice
  Generate a random choice, based on the probabilities provided to the constructor.
generate(Random, int) - Method in class org.encog.mathutil.randomize.RandomChoice
  Generate a random choice, but skip one of the choices.
generate() - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
  Generate the training sets.
generate(Random) - Method in interface org.encog.ml.ea.population.PopulationGenerator
  Generate a random genome.
generate(Random, Population) - Method in interface org.encog.ml.ea.population.PopulationGenerator
  Generate a random population.
generate() - Method in class org.encog.ml.hmm.distributions.ContinousDistribution
  Generate a random data pair, based on the probabilities.
generate() - Method in class org.encog.ml.hmm.distributions.DiscreteDistribution
  Generate a random sequence.
generate() - Method in interface org.encog.ml.hmm.distributions.StateDistribution
  Generate a random data pair, based on the probabilities.
generate(Random) - Method in class org.encog.ml.prg.generator.AbstractPrgGenerator
  Generate a random genome.
generate(Random, Population) - Method in class org.encog.ml.prg.generator.AbstractPrgGenerator
  Generate a random population.
generate() - Method in class org.encog.neural.pattern.ADALINEPattern
  Generate the network.
generate() - Method in class org.encog.neural.pattern.ART1Pattern
  Generate the neural network.
generate() - Method in class org.encog.neural.pattern.BAMPattern
generate() - Method in class org.encog.neural.pattern.BoltzmannPattern
  Generate the network.
generate() - Method in class org.encog.neural.pattern.CPNPattern
  Generate the network.
generate() - Method in class org.encog.neural.pattern.ElmanPattern
  Generate the Elman neural network.
generate() - Method in class org.encog.neural.pattern.FeedForwardPattern
  Generate the feedforward neural network.
generate() - Method in class org.encog.neural.pattern.HopfieldPattern
  Generate the Hopfield neural network.
generate() - Method in class org.encog.neural.pattern.JordanPattern
  Generate a Jordan neural network.
generate() - Method in interface org.encog.neural.pattern.NeuralNetworkPattern
  Generate the specified neural network.
generate() - Method in class org.encog.neural.pattern.PNNPattern
  Generate the RSOM network.
generate() - Method in class org.encog.neural.pattern.RadialBasisPattern
  Generate the RBF network.
generate() - Method in class org.encog.neural.pattern.SOMPattern
  Generate the RSOM network.
generate() - Method in class org.encog.neural.pattern.SVMPattern
generate(long, int, int, int, double, double) - Static method in class org.encog.util.benchmark.RandomTrainingFactory
  Generate a random training set.
generate(MLDataSet, long, int, double, double) - Static method in class org.encog.util.benchmark.RandomTrainingFactory
  Generate random training into a training set.
generate() - Method in class org.encog.util.identity.BasicGenerateID
  Generate the next ID.
generate() - Method in interface org.encog.util.identity.GenerateID
  Generate the next ID.
GENERATE_CONFIG_SOURCE_FILE - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "GENERATE:CONFIG_sourceFile".
GENERATE_CONFIG_TARGET_FILE - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "GENERATE:CONFIG_targetFile".
generateActivationFactory(String, ActivationFunction) - Static method in class org.encog.util.obj.ActivationUtil
GenerateCS - Class in org.encog.app.generate.generators.cs
GenerateCS() - Constructor for class org.encog.app.generate.generators.cs.GenerateCS
GenerateEncogJava - Class in org.encog.app.generate.generators.java
GenerateEncogJava() - Constructor for class org.encog.app.generate.generators.java.GenerateEncogJava
GenerateEncogJavaScript - Class in org.encog.app.generate.generators.js
GenerateEncogJavaScript() - Constructor for class org.encog.app.generate.generators.js.GenerateEncogJavaScript
generateEPL() - Method in class org.encog.ml.prg.EncogProgram
generateForwardBackwardCalculator(MLDataSet, HiddenMarkovModel) - Method in class org.encog.ml.hmm.train.bw.BaseBaumWelch
generateForwardBackwardCalculator(MLDataSet, HiddenMarkovModel) - Method in class org.encog.ml.hmm.train.bw.TrainBaumWelch
generateForwardBackwardCalculator(MLDataSet, HiddenMarkovModel) - Method in class org.encog.ml.hmm.train.bw.TrainBaumWelchScaled
GenerateID - Interface in org.encog.util.identity
  Interface that defines a unique ID generator.
generateInputForPrediction(Date) - Method in class org.encog.ml.data.market.MarketMLDataSet
  To be implemented later.
generateInputNeuralData(int) - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
  Generate input neural data for the specified index.
generateLoadTraining(File) - Method in class org.encog.app.generate.program.EncogProgramNode
  Load the training data.
GenerateMQL4 - Class in org.encog.app.generate.generators.mql4
GenerateMQL4() - Constructor for class org.encog.app.generate.generators.mql4.GenerateMQL4
GenerateNinjaScript - Class in org.encog.app.generate.generators.ninja
GenerateNinjaScript() - Constructor for class org.encog.app.generate.generators.ninja.GenerateNinjaScript
generateOutputNeuralData(int) - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
  Generate neural ideal data for the specified index.
GenerateRandom - Interface in org.encog.mathutil.randomize.generate
  Interface that defines how random numbers are generated.
generateRandom(int...) - Method in class org.encog.ml.bayesian.table.BayesianTable
  Generate a random sampling based on this truth table.
generateRandomOpcode(Random, List<ProgramExtensionTemplate>) - Method in class org.encog.ml.prg.generator.AbstractPrgGenerator
  Generate a random opcode.
generateSequences(int, int) - Method in class org.encog.ml.hmm.alog.MarkovGenerator
generateSingleDataRange(EncogFunction, double, double, double) - Static method in class org.encog.util.data.GenerationUtil
generateTable(BayesianEvent) - Static method in class org.encog.ml.bayesian.bif.BIFUtil
  Generate a table, in BIF format.
generateTraining(int, boolean) - Static method in class org.encog.util.benchmark.EncoderTrainingFactory
  Generate an encoder training set over the range [0.0,1.0].
generateTraining(int, boolean, double, double) - Static method in class org.encog.util.benchmark.EncoderTrainingFactory
  Generate an encoder over the specified range.
generateTraining(int, boolean, double, double, double, double) - Static method in class org.encog.util.benchmark.EncoderTrainingFactory
GenerateWorker - Class in org.encog.ml.prg.generator
  Used to thread the generation process.
GenerateWorker(AbstractPrgGenerator, PrgPopulation) - Constructor for class org.encog.ml.prg.generator.GenerateWorker
  Construct the worker.
GenerationUtil - Class in org.encog.util.data
  Utility class used to create training data from a function.
GenerationUtil() - Constructor for class org.encog.util.data.GenerationUtil
GenericCA - Class in org.encog.ca.program.generic
GenericCA() - Constructor for class org.encog.ca.program.generic.GenericCA
GenericCA(Universe, int) - Constructor for class org.encog.ca.program.generic.GenericCA
GenericEnsembleML - Class in org.encog.ensemble
GenericEnsembleML(MLMethod, String) - Constructor for class org.encog.ensemble.GenericEnsembleML
GenericIO - Class in org.encog.ca.program.generic
GenericIO() - Constructor for class org.encog.ca.program.generic.GenericIO
GeneticCODEC - Interface in org.encog.ml.ea.codec
  A CODEC defines how to transfer between a genome and phenome.
GeneticError - Exception in org.encog.ml.genetic
  An error raised by the genetic algorithm.
GeneticError(String) - Constructor for exception org.encog.ml.genetic.GeneticError
  Construct a message exception.
GeneticError(String, Throwable) - Constructor for exception org.encog.ml.genetic.GeneticError
  Construct an exception that holds another exception.
GeneticError(Throwable) - Constructor for exception org.encog.ml.genetic.GeneticError
  Construct an exception that holds another exception.
GeneticFactory - Class in org.encog.ml.factory.train
  A factory to create genetic algorithm trainers.
GeneticFactory() - Constructor for class org.encog.ml.factory.train.GeneticFactory
Genome - Interface in org.encog.ml.ea.genome
  A genome is the basic blueprint for creating an phenome (organism) in Encog.
GenomeAsPhenomeCODEC - Class in org.encog.ml.ea.codec
  This is a simple pass-through CODEC.
GenomeAsPhenomeCODEC() - Constructor for class org.encog.ml.ea.codec.GenomeAsPhenomeCODEC
GenomeComparator - Interface in org.encog.ml.ea.sort
  Defines methods for comparing genomes.
GenomeFactory - Interface in org.encog.ml.ea.genome
  Defines a factory that produces genomes.
get(int) - Method in class org.encog.ca.universe.basic.BasicContinuousCell
get(int) - Method in class org.encog.ca.universe.basic.BasicDiscreteCell
get(int, int) - Method in class org.encog.ca.universe.basic.BasicUniverse
get(int, int) - Method in interface org.encog.ca.universe.Universe
get(int) - Method in interface org.encog.ca.universe.UniverseCell
get(int) - Method in class org.encog.ensemble.data.EnsembleDataSet
get(int, int) - Method in class org.encog.mathutil.matrices.Matrix
  Read the specified cell in the matrix.
get(String) - Method in class org.encog.mathutil.probability.vars.VariableList
get(int) - Method in class org.encog.mathutil.probability.vars.VariableList
get(int) - Method in class org.encog.ml.data.auto.AutoFloatDataSet
get(int) - Method in class org.encog.ml.data.basic.BasicMLDataSet
get(int) - Method in class org.encog.ml.data.basic.BasicMLSequenceSet
get(int) - Method in class org.encog.ml.data.buffer.BufferedMLDataSet
get(int) - Method in class org.encog.ml.data.folded.FoldedDataSet
get(int) - Method in interface org.encog.ml.data.MLDataSet
get(int) - Method in class org.encog.ml.data.versatile.MatrixMLDataSet
get(int) - Method in class org.encog.ml.kmeans.BasicCluster
  Get the specified data item by index.
get(int) - Method in interface org.encog.ml.MLCluster
  Get the specified data item by index.
get(String) - Method in class org.encog.neural.networks.training.propagation.TrainingContinuation
  Get an object by name.
get(int) - Method in class org.encog.util.csv.ReadCSV
  Get the specified column as a string.
get(String) - Method in class org.encog.util.csv.ReadCSV
  Get the column by its string name, as a string.
get(int) - Method in class org.encog.util.kmeans.KMeansUtil
  Get a cluster by index.
getA() - Method in class org.encog.util.ObjectPair
getA1() - Method in class org.encog.neural.art.ART1
getA1() - Method in class org.encog.neural.pattern.ART1Pattern
getAction() - Method in class org.encog.app.analyst.script.normalize.AnalystField
getAction() - Method in class org.encog.app.analyst.script.preprocess.FieldPreprocess
getAction() - Method in class org.encog.bot.browse.range.Form
getAction() - Method in class org.encog.util.arrayutil.NormalizedField
getAction() - Method in class org.encog.util.arrayutil.TemporalWindowField
getActions() - Method in class org.encog.ml.world.basic.BasicWorld
getActions() - Method in interface org.encog.ml.world.World
getActivation() - Method in class org.encog.neural.flat.FlatLayer
getActivation() - Method in class org.encog.neural.freeform.basic.BasicFreeformNeuron
getActivation() - Method in interface org.encog.neural.freeform.FreeformNeuron
getActivation(int) - Method in class org.encog.neural.networks.BasicNetwork
  Get the activation function for the specified layer.
getActivationCycles() - Method in class org.encog.neural.hyperneat.substrate.Substrate
getActivationCycles() - Method in class org.encog.neural.neat.NEATNetwork
getActivationCycles() - Method in class org.encog.neural.neat.NEATPopulation
getActivationFunction() - Method in class org.encog.ml.data.temporal.TemporalDataDescription
getActivationFunction() - Method in class org.encog.neural.freeform.basic.BasicActivationSummation
getActivationFunction() - Method in interface org.encog.neural.freeform.InputSummation
getActivationFunction() - Method in class org.encog.neural.neat.training.NEATNeuronGene
getActivationFunction() - Method in class org.encog.neural.networks.layers.BasicLayer
getActivationFunction() - Method in interface org.encog.neural.networks.layers.Layer
getActivationFunctions() - Method in class org.encog.neural.flat.FlatNetwork
getActivationFunctions() - Method in class org.encog.neural.neat.NEATNetwork
getActivationFunctions() - Method in class org.encog.neural.neat.NEATPopulation
getActivationOutput() - Method in class org.encog.neural.pattern.FeedForwardPattern
getActualHigh() - Method in class org.encog.app.analyst.script.normalize.AnalystField
getActualHigh() - Method in class org.encog.util.arrayutil.NormalizedField
getActualLow() - Method in class org.encog.app.analyst.script.normalize.AnalystField
getActualLow() - Method in class org.encog.util.arrayutil.NormalizedField
getActualMax() - Method in class org.encog.ml.data.auto.AutoFloatColumn
getActualMin() - Method in class org.encog.ml.data.auto.AutoFloatColumn
getAdd1() - Method in class org.encog.ca.program.generic.Trans
getAdd2() - Method in class org.encog.ca.program.generic.Trans
getAdjacentStates(GridState) - Method in class org.encog.ml.world.grid.GridWorld
getAdjustedScore() - Method in class org.encog.ml.ea.genome.BasicGenome
getAdjustedScore() - Method in interface org.encog.ml.ea.genome.Genome
  Get the adjusted score, this considers old-age penalties and youth bonuses.
getAdjusters() - Method in class org.encog.ml.ea.score.parallel.ParallelScore
getAge() - Method in class org.encog.ml.ea.species.BasicSpecies
getAge() - Method in interface org.encog.ml.ea.species.Species
getAgents() - Method in class org.encog.ml.world.basic.BasicWorld
getAgents() - Method in interface org.encog.ml.world.World
getAggregator() - Method in class org.encog.ensemble.Ensemble
getAllFields(Class<?>) - Static method in class org.encog.util.obj.ReflectionUtil
  Get all of the fields from the specified class as a collection.
getAllFields(Class<?>, Collection<Field>) - Static method in class org.encog.util.obj.ReflectionUtil
  Get all of the fields in the specified class and super classes.
getAllValues() - Method in class org.encog.neural.networks.structure.AnalyzeNetwork
getAnalyst() - Method in class org.encog.app.analyst.commands.Cmd
getAnalyst() - Method in class org.encog.app.analyst.csv.TimeSeriesUtil
getAnalyst() - Method in class org.encog.app.generate.generators.AbstractTemplateGenerator
getAnalyzedClassMembers() - Method in class org.encog.app.analyst.analyze.AnalyzedField
  Get the class members.
getAnnealCycles() - Method in class org.encog.neural.pattern.BoltzmannPattern
getAnnealCycles() - Method in class org.encog.neural.thermal.BoltzmannMachine
getArgCount() - Method in class org.encog.app.analyst.script.ml.ScriptOpcode
getArgs() - Method in class org.encog.app.generate.program.EncogProgramNode
getArgs(BayesianNetwork) - Method in class org.encog.ml.bayesian.parse.ParsedProbability
  Get the arguments to this event.
getArguments() - Method in class org.encog.ml.bayesian.table.TableLine
getArray() - Method in class org.encog.ml.anneal.SimulatedAnnealing
  Subclasses must provide access to an array that makes up the solution.
getArray() - Method in class org.encog.neural.networks.training.anneal.NeuralSimulatedAnnealing
  Get the network as an array of doubles.
getArray() - Method in class org.encog.neural.networks.training.anneal.NeuralSimulatedAnnealingHelper
  Used to pass the getArray call on to the parent object.
getArray() - Method in class org.encog.util.normalize.target.NormalizationStorageArray1D
getArray() - Method in class org.encog.util.normalize.target.NormalizationStorageArray2D
getArrayCopy() - Method in class org.encog.mathutil.matrices.Matrix
getArrayCopy() - Method in class org.encog.ml.anneal.SimulatedAnnealing
  Get a copy of the array.
getArrayCopy() - Method in class org.encog.neural.networks.training.anneal.NeuralSimulatedAnnealing
getArrayCopy() - Method in class org.encog.neural.networks.training.anneal.NeuralSimulatedAnnealingHelper
  Used to pass the getArrayCopy call on to the parent object.
getAttributeInt(String) - Method in class org.encog.parse.tags.Tag
  Get the specified attribute as an integer.
getAttributes() - Method in class org.encog.bot.rss.RSS
  Get the list of attributes.
getAttributes() - Method in class org.encog.parse.tags.Tag
  Get a map of all attributes.
getAttributeValue(String) - Method in class org.encog.parse.tags.Tag
  Get the value of the specified attribute.
getAvg() - Method in class org.encog.ca.universe.basic.BasicContinuousCell
getAvg() - Method in class org.encog.ca.universe.basic.BasicDiscreteCell
getAvg() - Method in interface org.encog.ca.universe.UniverseCell
getB() - Method in class org.encog.util.ObjectPair
getB1() - Method in class org.encog.neural.art.ART1
getB1() - Method in class org.encog.neural.pattern.ART1Pattern
getBackConnections() - Method in class org.encog.ml.graph.BasicNode
getBackwardWindowSize() - Method in class org.encog.app.analyst.csv.process.ProcessExtension
getBaseDataset() - Method in class org.encog.ml.data.cross.KFoldCrossvalidation
getBaseEvents() - Method in class org.encog.ml.bayesian.parse.ParsedProbability
getBaseHeader(int) - Method in class org.encog.app.analyst.util.CSVHeaders
  Get the base header, strip any (...).
getBasePath() - Method in class org.encog.app.analyst.script.AnalystScript
getBatchSize() - Method in class org.encog.neural.freeform.training.FreeformPropagationTraining
getBatchSize() - Method in interface org.encog.neural.networks.training.BatchSize
  The batch size.
getBatchSize() - Method in class org.encog.neural.networks.training.propagation.Propagation
  The batch size.
getBegin() - Method in class org.encog.bot.browse.range.DocumentRange
getBeginningIndex() - Method in class org.encog.app.quant.indicators.Indicator
getBeginTraining() - Method in class org.encog.neural.flat.FlatNetwork
getBestComparator() - Method in class org.encog.ml.ea.train.basic.BasicEA
  Get the comparator that is used to choose the "true best" genome.
getBestComparator() - Method in interface org.encog.ml.ea.train.EvolutionaryAlgorithm
  Get the comparator that is used to choose the "true best" genome.
getBestConst() - Method in class org.encog.ml.svm.training.SVMSearchTrain
getBestGamma() - Method in class org.encog.ml.svm.training.SVMSearchTrain
getBestGenome() - Method in class org.encog.ml.ea.population.BasicPopulation
getBestGenome() - Method in interface org.encog.ml.ea.population.Population
getBestGenome() - Method in class org.encog.ml.ea.train.basic.BasicEA
getBestGenome() - Method in interface org.encog.ml.ea.train.EvolutionaryAlgorithm
getBestNetwork() - Method in class org.encog.neural.prune.PruneIncremental
getBestScore() - Method in class org.encog.ml.ea.species.BasicSpecies
getBestScore() - Method in interface org.encog.ml.ea.species.Species
getBias() - Method in class org.encog.neural.networks.structure.AnalyzeNetwork
getBiasActivation() - Method in class org.encog.neural.flat.FlatLayer
getBiasActivation() - Method in class org.encog.neural.flat.FlatNetwork
getBiasActivation() - Method in interface org.encog.neural.networks.layers.Layer
  Most layer types will default this value to one.
getBiasedNodes() - Method in class org.encog.neural.hyperneat.substrate.Substrate
getBiasValues() - Method in class org.encog.neural.networks.structure.AnalyzeNetwork
getBinaryScore() - Method in class org.encog.util.benchmark.EncogBenchmark
getBirthGeneration() - Method in class org.encog.ml.ea.genome.BasicGenome
getBirthGeneration() - Method in interface org.encog.ml.ea.genome.Genome
getBoolean(int) - Method in class org.encog.ml.data.specific.BiPolarNeuralData
  Get the specified data item as a boolean.
getBoolean(String, boolean, boolean) - Method in class org.encog.util.ParamsHolder
  Get a param as a boolean.
getBoundary() - Static method in class org.encog.util.http.FormUtility
  Generate a boundary for a multipart form.
getBuffer() - Method in class org.encog.app.analyst.csv.TimeSeriesUtil
getBufferSize() - Method in class org.encog.app.analyst.csv.shuffle.ShuffleCSV
getC() - Method in class org.encog.ml.svm.training.SVMTrain
getC1() - Method in class org.encog.neural.art.ART1
getC1() - Method in class org.encog.neural.networks.training.pso.NeuralPSO
  Get the cognition coefficient (c1).
getC1() - Method in class org.encog.neural.pattern.ART1Pattern
getC2() - Method in class org.encog.neural.networks.training.pso.NeuralPSO
  Get the social coefficient (c2).
getCalculatedFields() - Method in class org.encog.app.analyst.script.preprocess.AnalystPreprocess
getCalculatedIdealSize() - Method in class org.encog.ml.data.versatile.MatrixMLDataSet
getCalculatedInputSize() - Method in class org.encog.ml.data.versatile.MatrixMLDataSet
getCalculateScore() - Method in class org.encog.neural.networks.training.anneal.NeuralSimulatedAnnealing
getCalculation() - Method in class org.encog.app.analyst.script.preprocess.FieldPreprocess
getCatchAll() - Method in class org.encog.util.normalize.output.mapped.OutputFieldEncode
getCellFactory() - Method in class org.encog.ca.universe.basic.BasicUniverse
getCellFactory() - Method in interface org.encog.ca.universe.Universe
getCenter() - Method in class org.encog.engine.network.activation.ActivationStep
getCenter(int) - Method in class org.encog.mathutil.rbf.BasicRBF
  Get the center of this RBD.
getCenter(int) - Method in interface org.encog.mathutil.rbf.RadialBasisFunction
  Get the center of this RBD.
getCenters() - Method in class org.encog.mathutil.rbf.BasicRBF
getCenters() - Method in interface org.encog.mathutil.rbf.RadialBasisFunction
getCentroid() - Method in class org.encog.ml.kmeans.BasicCluster
getChampMutation() - Method in class org.encog.ml.ea.train.basic.BasicEA
getChildEvent() - Method in class org.encog.ml.bayesian.parse.ParsedProbability
getChildNode(int) - Method in class org.encog.ml.prg.ProgramNode
  Get the specified child node.
getChildNodeCount() - Method in class org.encog.ml.prg.extension.BasicTemplate
getChildNodeCount() - Method in interface org.encog.ml.prg.extension.ProgramExtensionTemplate
getChildNodes() - Method in class org.encog.ml.tree.basic.BasicTreeNode
getChildNodes() - Method in interface org.encog.ml.tree.TreeNode
getChildren() - Method in class org.encog.app.generate.program.EncogTreeNode
getChildren() - Method in class org.encog.ml.bayesian.BayesianEvent
getChoice(int) - Method in class org.encog.ml.bayesian.BayesianEvent
  Return the choice specified by the index.
getChoices() - Method in class org.encog.mathutil.probability.vars.RandomVariable
getChoices() - Method in class org.encog.ml.bayesian.BayesianEvent
getClassAttribute() - Method in class org.encog.bot.browse.range.DocumentRange
getClassCount() - Method in class org.encog.mathutil.probability.CalcProbability
getClasses() - Method in class org.encog.app.analyst.script.normalize.AnalystField
getClasses() - Method in class org.encog.ml.data.versatile.columns.ColumnDefinition
getClasses() - Method in class org.encog.util.arrayutil.NormalizedField
getClassificationStructure() - Method in class org.encog.ml.bayesian.BayesianNetwork
getClassificationTarget() - Method in class org.encog.ml.bayesian.BayesianNetwork
  Get the classification target.
getClassificationTargetEvent() - Method in class org.encog.ml.bayesian.BayesianNetwork
getClassMembers() - Method in class org.encog.app.analyst.script.DataField
getClScore() - Method in class org.encog.util.benchmark.EncogBenchmark
getCluster(int) - Method in class org.encog.util.kmeans.KMeansUtil
  Get a cluster by index.
getClusters() - Method in class org.encog.ml.kmeans.KMeansClustering
getClusters() - Method in interface org.encog.ml.MLClustering
getCode() - Method in class org.encog.app.analyst.script.AnalystClassItem
getCode() - Method in class org.encog.bot.dataunit.CodeDataUnit
getCodec() - Method in class org.encog.ml.data.buffer.BinaryDataLoader
getCodec() - Method in class org.encog.ml.data.buffer.MemoryDataLoader
getCodec() - Method in class org.encog.ml.ea.score.parallel.ParallelScore
getCODEC() - Method in class org.encog.ml.ea.train.basic.BasicEA
getCODEC() - Method in interface org.encog.ml.ea.train.EvolutionaryAlgorithm
getCODEC() - Method in class org.encog.neural.neat.NEATPopulation
getCodeTargetLanguage() - Method in class org.encog.app.analyst.wizard.AnalystWizard
getCol(int) - Method in class org.encog.mathutil.matrices.Matrix
  Read one entire column from the matrix as a sub-matrix.
getCols() - Method in class org.encog.mathutil.matrices.Matrix
  Get the columns in the matrix.
getColumn() - Method in class org.encog.ml.world.grid.GridState
getColumnCount() - Method in class org.encog.app.analyst.csv.basic.BasicFile
getColumnCount() - Method in class org.encog.util.csv.ReadCSV
  Get the column count.
getColumnData(String, ReadCSV) - Method in class org.encog.app.analyst.csv.basic.BasicCachedFile
  Get the data for a specific column.
getColumnMapping() - Method in class org.encog.app.analyst.csv.basic.BasicCachedFile
getColumnmMovement() - Method in class org.encog.ca.program.basic.Movement
getColumnNames() - Method in class org.encog.util.csv.ReadCSV
getColumns() - Method in class org.encog.app.analyst.csv.basic.BasicCachedFile
getColumns() - Method in class org.encog.ca.universe.basic.BasicUniverse
getColumns() - Method in interface org.encog.ca.universe.Universe
getColumns() - Method in class org.encog.ml.world.grid.GridWorld
getColumnsNeeded() - Method in class org.encog.app.analyst.script.normalize.AnalystField
getColumnsNeeded() - Method in class org.encog.util.arrayutil.NormalizedField
getCommand() - Method in class org.encog.app.analyst.script.process.ProcessField
getCompareValue() - Method in class org.encog.ml.bayesian.query.sample.EventState
getCompatibilityScore(Genome, Genome) - Method in class org.encog.ml.ea.species.ThresholdSpeciation
  Determine how compatible two genomes are.
getCompatibilityScore(Genome, Genome) - Method in class org.encog.ml.prg.species.PrgSpeciation
  Determine how compatible two genomes are.
getCompatibilityScore(Genome, Genome) - Method in class org.encog.neural.neat.training.species.OriginalNEATSpeciation
  Determine how compatible two genomes are.
getCompatibilityThreshold() - Method in class org.encog.ml.ea.species.ThresholdSpeciation
getComplexData() - Method in class org.encog.ml.data.basic.BasicMLComplexData
getComplexData(int) - Method in class org.encog.ml.data.basic.BasicMLComplexData
  Get the complex data at the specified index.
getComplexData() - Method in interface org.encog.ml.data.MLComplexData
getComplexData(int) - Method in interface org.encog.ml.data.MLComplexData
  Get the complex data at the specified index.
getComplexityFullPenalty() - Method in class org.encog.ml.ea.score.adjust.ComplexityAdjustedScore
getComplexityPenalty() - Method in class org.encog.ml.ea.score.adjust.ComplexityAdjustedScore
getComplexityPenaltyThreshold() - Method in class org.encog.ml.ea.score.adjust.ComplexityAdjustedScore
getComplexityPentaltyFullThreshold() - Method in class org.encog.ml.ea.score.adjust.ComplexityAdjustedScore
getComponents() - Method in class org.encog.ml.ea.opp.CompoundOperator
getConnectionLimit() - Method in class org.encog.neural.flat.FlatNetwork
getConnectionLimit() - Method in class org.encog.neural.networks.structure.NeuralStructure
getConnections() - Method in class org.encog.ml.graph.BasicNode
getConstBegin() - Method in class org.encog.ml.svm.training.SVMSearchTrain
getConstDisjoint() - Method in class org.encog.neural.neat.training.species.OriginalNEATSpeciation
getConstEnd() - Method in class org.encog.ml.svm.training.SVMSearchTrain
getConstExcess() - Method in class org.encog.neural.neat.training.species.OriginalNEATSpeciation
getConstMatched() - Method in class org.encog.neural.neat.training.species.OriginalNEATSpeciation
getConstraintRules() - Method in class org.encog.ml.ea.rules.BasicRuleHolder
getConstraintRules() - Method in interface org.encog.ml.ea.rules.RuleHolder
getConstStep() - Method in class org.encog.ml.svm.training.SVMSearchTrain
getContents() - Method in class org.encog.app.generate.generators.AbstractGenerator
  Get the contents.
getContents() - Method in class org.encog.app.generate.generators.AbstractTemplateGenerator
getContents() - Method in interface org.encog.app.generate.generators.LanguageSpecificGenerator
getContents() - Method in class org.encog.bot.browse.WebPage
getContents() - Method in class org.encog.ml.bayesian.BayesianNetwork
getContents() - Method in class org.encog.ml.graph.search.FrontierHolder
getContents() - Method in class org.encog.neural.networks.training.propagation.TrainingContinuation
getContents() - Method in class org.encog.util.kmeans.Cluster
getContext() - Method in class org.encog.ml.prg.EncogProgram
getContext() - Method in class org.encog.ml.prg.generator.AbstractPrgGenerator
getContext() - Method in class org.encog.ml.prg.train.PrgPopulation
getContextCount() - Method in class org.encog.neural.flat.FlatLayer
getContextFedBy() - Method in class org.encog.neural.flat.FlatLayer
getContextSource() - Method in class org.encog.neural.freeform.FreeformContextNeuron
getContextTargetOffset() - Method in class org.encog.neural.flat.FlatNetwork
getContextTargetSize() - Method in class org.encog.neural.flat.FlatNetwork
getCost() - Method in class org.encog.ml.graph.BasicEdge
getCost(BasicNode) - Method in class org.encog.ml.graph.BasicNode
getCount() - Method in class org.encog.app.analyst.script.AnalystClassItem
getCount() - Method in class org.encog.ml.data.versatile.columns.ColumnDefinition
getCount() - Method in class org.encog.ml.data.versatile.division.DataDivision
getCount() - Method in class org.encog.ml.factory.parse.ArchitectureLayer
getCount() - Method in class org.encog.neural.flat.FlatLayer
getCount() - Method in class org.encog.util.normalize.segregate.IntegerBalanceSegregator
getCount(String) - Method in class org.encog.util.text.BagOfWords
getCountPer() - Method in class org.encog.neural.pnn.BasicPNN
getCounts() - Method in class org.encog.app.analyst.csv.balance.BalanceCSV
getCovariance() - Method in class org.encog.ml.hmm.distributions.ContinousDistribution
getCpuScore() - Method in class org.encog.util.benchmark.EncogBenchmark
getCSVFormat() - Method in class org.encog.util.normalize.DataNormalization
getCurrentBlue() - Method in class org.encog.util.downsample.RGBDownsample
getCurrentFlatNetwork() - Method in class org.encog.neural.networks.training.propagation.Propagation
getCurrentFold() - Method in class org.encog.ml.data.folded.FoldedDataSet
getCurrentFoldOffset() - Method in class org.encog.ml.data.folded.FoldedDataSet
getCurrentFoldSize() - Method in class org.encog.ml.data.folded.FoldedDataSet
getCurrentGreen() - Method in class org.encog.util.downsample.RGBDownsample
getCurrentID() - Method in class org.encog.util.identity.BasicGenerateID
getCurrentID() - Method in interface org.encog.util.identity.GenerateID
getCurrentIndex() - Method in class org.encog.util.normalize.segregate.index.IndexSegregator
getCurrentLevel() - Method in class org.encog.ml.prg.opp.LevelHolder
getCurrentLevel() - Method in class org.encog.util.logging.EncogLogging
getCurrentPage() - Method in class org.encog.bot.browse.Browser
getCurrentRed() - Method in class org.encog.util.downsample.RGBDownsample
getCurrentSection() - Method in class org.encog.persist.EncogWriteHelper
getCurrentState() - Method in class org.encog.ml.hmm.alog.MarkovGenerator
getCurrentState() - Method in class org.encog.ml.world.basic.BasicAgent
getCurrentState() - Method in interface org.encog.ml.world.WorldAgent
getCurrentState() - Method in class org.encog.neural.thermal.ThermalNetwork
getCurrentValue() - Method in class org.encog.util.normalize.input.BasicInputField
getCurrentValue() - Method in interface org.encog.util.normalize.input.InputField
getCycles() - Method in class org.encog.ml.anneal.SimulatedAnnealing
getD() - Method in class org.encog.mathutil.matrices.decomposition.EigenvalueDecomposition
  Return the block diagonal eigenvalue matrix
getD1() - Method in class org.encog.neural.art.ART1
getD1() - Method in class org.encog.neural.pattern.ART1Pattern
getData() - Method in class org.encog.app.analyst.csv.basic.BaseCachedColumn
getData() - Method in class org.encog.app.analyst.csv.basic.LoadedRow
getData() - Method in class org.encog.app.quant.util.BarBuffer
getData() - Method in class org.encog.bot.browse.WebPage
getData() - Method in class org.encog.mathutil.matrices.Matrix
getData() - Method in class org.encog.ml.data.auto.AutoFloatColumn
getData() - Method in class org.encog.ml.data.basic.BasicMLComplexData
getData(int) - Method in class org.encog.ml.data.basic.BasicMLComplexData
  Get the element specified index value.
getData() - Method in class org.encog.ml.data.basic.BasicMLData
getData(int) - Method in class org.encog.ml.data.basic.BasicMLData
  Get the element specified index value.
getData() - Method in class org.encog.ml.data.basic.BasicMLDataSet
  Get the data held by this container.
getData(MarketDataType) - Method in class org.encog.ml.data.market.loader.LoadedMarketData
  Get one type of market data from this date.
getData() - Method in interface org.encog.ml.data.MLData
getData(int) - Method in interface org.encog.ml.data.MLData
  Get the element specified index value.
getData() - Method in class org.encog.ml.data.sparse.SparseMLData
getData(int) - Method in class org.encog.ml.data.sparse.SparseMLData
  Get the element specified index value.
getData() - Method in class org.encog.ml.data.specific.BiPolarNeuralData
  Get the data held by this object as an array of doubles.
getData(int) - Method in class org.encog.ml.data.specific.BiPolarNeuralData
  Get the data held by the index.
getData() - Method in class org.encog.ml.data.temporal.TemporalPoint
getData(int) - Method in class org.encog.ml.data.temporal.TemporalPoint
  Get the data at the specified index.
getData() - Method in class org.encog.ml.data.versatile.MatrixMLDataSet
getData() - Method in class org.encog.ml.genetic.genome.DoubleArrayGenome
getData() - Method in class org.encog.ml.genetic.genome.IntegerArrayGenome
getData() - Method in class org.encog.ml.graph.EuclideanNode
getData() - Method in class org.encog.ml.kmeans.BasicCluster
getData() - Method in interface org.encog.ml.MLCluster
getData() - Method in class org.encog.ml.prg.ProgramNode
getData() - Method in class org.encog.util.datastruct.WindowInt
getDataset() - Method in class org.encog.ml.data.versatile.division.DataDivision
getDataset() - Method in class org.encog.ml.model.EncogModel
getDataset() - Method in class org.encog.util.normalize.target.NormalizationStorageNeuralDataSet
getDataSetSize() - Method in class org.encog.ensemble.data.factories.EnsembleDataSetFactory
getDataSize() - Method in class org.encog.bot.browse.WebPage
  Get the number of data items in this collection.
getDataSize() - Method in class org.encog.ml.prg.extension.BasicTemplate
getDataSize() - Method in interface org.encog.ml.prg.extension.ProgramExtensionTemplate
getDataType() - Method in class org.encog.ml.data.market.MarketDataDescription
getDataType() - Method in class org.encog.ml.data.versatile.columns.ColumnDefinition
getDataUnit(int) - Method in class org.encog.bot.browse.WebPage
  Get the DataUnit unit at the specified index.
getDate() - Method in class org.encog.bot.rss.RSSItem
  Get the publication date.
getDate(String) - Method in class org.encog.util.csv.ReadCSV
  Get the column as a date.
GetDayOfWeek(long) - Static method in class org.encog.util.time.NumericDateUtil
getDecimal() - Method in class org.encog.util.csv.CSVFormat
getDecimalCharacter() - Static method in class org.encog.util.csv.CSVFormat
  Get the decimal character currently in use by the computer's default location.
getDefinedVariables() - Method in class org.encog.ml.prg.EncogProgramContext
getDeriv() - Method in class org.encog.neural.pnn.AbstractPNN
getDeriv2() - Method in class org.encog.neural.pnn.AbstractPNN
getDerivative() - Method in class org.encog.mathutil.matrices.hessian.ChainRuleWorker
getDescription() - Method in class org.encog.bot.rss.RSSItem
  Get the description.
getDescription() - Method in class org.encog.neural.networks.training.pso.NeuralPSO
  Get a description of all the current settings.
getDescriptions() - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
getDesiredSetSize() - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
getDestinationNode() - Method in class org.encog.ml.graph.BasicPath
getDeterminant() - Method in class org.encog.mathutil.matrices.decomposition.CholeskyDecomposition
getDimension(int) - Method in class org.encog.mathutil.dimension.MultiDimension
  Get a dimension.
getDimensions() - Method in class org.encog.mathutil.dimension.MultiDimension
getDimensions() - Method in class org.encog.mathutil.rbf.BasicRBF
getDimensions() - Method in interface org.encog.mathutil.rbf.RadialBasisFunction
getDimensions() - Method in class org.encog.neural.hyperneat.substrate.Substrate
getDisabledConnections() - Method in class org.encog.neural.networks.structure.AnalyzeNetwork
getDistance(double[], int) - Method in class org.encog.mathutil.Equilateral
  Get the Euclidean distance between the specified data and the set number.
getDouble(int) - Method in class org.encog.util.csv.ReadCSV
  Get the column as a double specified by index.
getDouble(String) - Method in class org.encog.util.csv.ReadCSV
  Get the specified column as a double.
getDouble(String, boolean, double) - Method in class org.encog.util.ParamsHolder
  Get a param as a double.
getDoublePivot() - Method in class org.encog.mathutil.matrices.decomposition.LUDecomposition
  Return pivot permutation vector as a one-dimensional double array
getDownSampleBottom() - Method in interface org.encog.util.downsample.Downsample
getDownSampleBottom() - Method in class org.encog.util.downsample.RGBDownsample
getDownSampleLeft() - Method in interface org.encog.util.downsample.Downsample
getDownSampleLeft() - Method in class org.encog.util.downsample.RGBDownsample
getDownSampleRight() - Method in interface org.encog.util.downsample.Downsample
getDownSampleRight() - Method in class org.encog.util.downsample.RGBDownsample
getDownSampleTop() - Method in interface org.encog.util.downsample.Downsample
getDownSampleTop() - Method in class org.encog.util.downsample.RGBDownsample
getDuration() - Method in class org.encog.ml.schedule.ActionNode
getEarliestStartTime() - Method in class org.encog.ml.schedule.ActionNode
getEGB() - Method in class org.encog.ml.data.buffer.BufferedMLDataSet
getElapsedMilliseconds() - Method in class org.encog.util.Stopwatch
getElapsedTicks() - Method in class org.encog.util.Stopwatch
getElementCount() - Method in class org.encog.ca.universe.basic.BasicCellFactory
getElementPos(NEATGenome, long) - Method in class org.encog.neural.neat.training.opp.NEATMutation
  Get the specified neuron's index.
getElements() - Method in class org.encog.bot.browse.range.DocumentRange
getEliteRate() - Method in class org.encog.ml.ea.train.basic.BasicEA
getEncodeLength() - Method in class org.encog.neural.flat.FlatNetwork
getEncogType(String) - Method in class org.encog.persist.EncogDirectoryPersistence
  Get the type of an Encog object in an EG file, without the need to read the entire file.
getEnd() - Method in class org.encog.bot.browse.range.DocumentRange
getEndingIndex() - Method in class org.encog.app.quant.indicators.Indicator
getEndingIndex() - Method in class org.encog.util.normalize.segregate.index.IndexRangeSegregator
getEndingIndex() - Method in class org.encog.util.normalize.segregate.index.IndexSampleSegregator
getEndTraining() - Method in class org.encog.neural.flat.FlatNetwork
getEntries(String, String) - Method in class org.encog.app.analyst.script.prop.PropertyConstraints
  Get all entries for a section/subsection.
getEntry(String, String, String) - Method in class org.encog.app.analyst.script.prop.PropertyConstraints
  Get a single property entry.
getEntryType() - Method in class org.encog.app.analyst.script.prop.PropertyEntry
getEnumCount(int) - Method in class org.encog.ml.prg.EncogProgramContext
  Get the enum ordinal count for the specified enumeration type.
getEnumType() - Method in class org.encog.ml.prg.expvalue.ExpressionValue
getEnumType() - Method in class org.encog.ml.prg.VariableMapping
getEnumValueCount() - Method in class org.encog.ml.prg.VariableMapping
geteOpt() - Method in class org.encog.ml.train.strategy.end.EarlyStoppingStrategy
getEq() - Method in class org.encog.app.analyst.script.normalize.AnalystField
getEq() - Method in class org.encog.util.arrayutil.NormalizedField
getEquilateral() - Method in class org.encog.util.normalize.output.nominal.OutputEquilateral
getError(EnsembleDataSet) - Method in interface org.encog.ensemble.EnsembleML
  Get the error for this ML on the dataset
getError(EnsembleDataSet) - Method in class org.encog.ensemble.GenericEnsembleML
getError() - Method in class org.encog.mathutil.matrices.hessian.ChainRuleWorker
getError() - Method in class org.encog.ml.ea.train.basic.BasicEA
getError() - Method in interface org.encog.ml.ea.train.EvolutionaryAlgorithm
getError() - Method in class org.encog.ml.hmm.train.bw.BaseBaumWelch
getError() - Method in class org.encog.ml.hmm.train.kmeans.TrainKMeans
getError() - Method in class org.encog.ml.train.BasicTraining
getError() - Method in interface org.encog.ml.train.MLTrain
getError() - Method in class org.encog.neural.freeform.training.FreeformPropagationTraining
getError() - Method in class org.encog.neural.networks.training.concurrent.jobs.TrainingJob
getError() - Method in class org.encog.neural.pnn.AbstractPNN
getErrorCalculation() - Method in class org.encog.neural.networks.training.propagation.GradientWorker
getEstimator() - Method in class org.encog.ml.graph.search.AStarSearch
getEvent(String) - Method in class org.encog.ml.bayesian.BayesianNetwork
  Get an event based on the string label.
getEvent() - Method in class org.encog.ml.bayesian.query.sample.EventState
getEventError(String) - Method in class org.encog.ml.bayesian.BayesianNetwork
  Get an event based on label, throw an error if not found.
getEventIndex(BayesianEvent) - Method in class org.encog.ml.bayesian.BayesianNetwork
getEventMap() - Method in class org.encog.ml.bayesian.BayesianNetwork
getEvents() - Method in class org.encog.ml.bayesian.BayesianNetwork
getEvents() - Method in class org.encog.ml.bayesian.query.BasicQuery
getEvents() - Method in interface org.encog.ml.bayesian.query.BayesianQuery
getEventState(BayesianEvent) - Method in class org.encog.ml.bayesian.query.BasicQuery
  Get the event state for a given event.
getEventState(BayesianEvent) - Method in interface org.encog.ml.bayesian.query.BayesianQuery
  Get the event state for a given event.
getEventType(BayesianEvent) - Method in class org.encog.ml.bayesian.query.BasicQuery
  Get the event type.
getEventType(BayesianEvent) - Method in interface org.encog.ml.bayesian.query.BayesianQuery
  Get the event type.
getEventType() - Method in class org.encog.ml.bayesian.query.sample.EventState
getEvidenceEvents() - Method in class org.encog.ml.bayesian.query.BasicQuery
getEvidenceEvents() - Method in interface org.encog.ml.bayesian.query.BayesianQuery
getEvidenceSegements() - Method in class org.encog.app.analyst.wizard.AnalystWizard
getExchange() - Method in class org.encog.ml.data.market.TickerSymbol
getExclude() - Method in class org.encog.neural.pnn.AbstractPNN
getExcluded() - Method in class org.encog.app.analyst.csv.filter.FilterCSV
getExpressionType() - Method in class org.encog.ml.prg.expvalue.ExpressionValue
getExtension() - Method in enum org.encog.app.generate.TargetLanguage
getExtraData(String) - Method in class org.encog.ml.prg.EncogProgram
  Get extra data that might be needed by user extended opcodes.
getF1Count() - Method in class org.encog.neural.art.ART1
getF1Count() - Method in class org.encog.neural.bam.BAM
getF2Count() - Method in class org.encog.neural.art.ART1
getF2Count() - Method in class org.encog.neural.bam.BAM
getFactoryArchitecture() - Method in interface org.encog.ml.MLFactory
getFactoryArchitecture() - Method in class org.encog.neural.networks.BasicNetwork
getFactoryCode() - Method in class org.encog.engine.network.activation.ActivationBiPolar
getFactoryCode() - Method in class org.encog.engine.network.activation.ActivationBipolarSteepenedSigmoid
getFactoryCode() - Method in class org.encog.engine.network.activation.ActivationClippedLinear
getFactoryCode() - Method in class org.encog.engine.network.activation.ActivationCompetitive
getFactoryCode() - Method in class org.encog.engine.network.activation.ActivationElliott
getFactoryCode() - Method in class org.encog.engine.network.activation.ActivationElliottSymmetric
getFactoryCode() - Method in interface org.encog.engine.network.activation.ActivationFunction
getFactoryCode() - Method in class org.encog.engine.network.activation.ActivationGaussian
getFactoryCode() - Method in class org.encog.engine.network.activation.ActivationLinear
getFactoryCode() - Method in class org.encog.engine.network.activation.ActivationLOG
getFactoryCode() - Method in class org.encog.engine.network.activation.ActivationRamp
getFactoryCode() - Method in class org.encog.engine.network.activation.ActivationSigmoid
getFactoryCode() - Method in class org.encog.engine.network.activation.ActivationSIN
getFactoryCode() - Method in class org.encog.engine.network.activation.ActivationSoftMax
getFactoryCode() - Method in class org.encog.engine.network.activation.ActivationSteepenedSigmoid
getFactoryCode() - Method in class org.encog.engine.network.activation.ActivationStep
getFactoryCode() - Method in class org.encog.engine.network.activation.ActivationTANH
getFactoryType() - Method in interface org.encog.ml.MLFactory
getFactoryType() - Method in class org.encog.neural.networks.BasicNetwork
getFalseValue() - Method in class org.encog.util.normalize.output.nominal.OutputOneOf
getFc() - Method in class org.encog.ml.data.buffer.EncogEGBFile
getFetchSize() - Method in class org.encog.ml.data.buffer.codec.SQLCODEC
getField(String, int) - Method in class org.encog.app.analyst.csv.process.ProcessExtension
getField() - Method in class org.encog.util.normalize.input.MLDataFieldHolder
getField() - Method in class org.encog.util.normalize.output.OutputFieldRangeMapped
getFieldNumber() - Method in class org.encog.app.analyst.csv.filter.ExcludedField
getFields() - Method in class org.encog.app.analyst.script.AnalystScript
getFields() - Method in class org.encog.app.analyst.script.process.AnalystProcess
  The fields.
getFields() - Method in class org.encog.util.arrayutil.TemporalWindowArray
getFieldValue() - Method in class org.encog.app.analyst.csv.filter.ExcludedField
getFile() - Method in class org.encog.app.analyst.script.segregate.AnalystSegregateTarget
getFile() - Method in class org.encog.ml.data.buffer.BufferedMLDataSet
getFile() - Method in class org.encog.ml.data.buffer.EncogEGBFile
getFile() - Method in class org.encog.util.normalize.input.InputFieldCSV
getFileExt(File) - Static method in class org.encog.util.file.FileUtil
getFilename() - Method in class org.encog.app.analyst.csv.segregate.SegregateTargetPercent
getFilename(String) - Method in class org.encog.app.analyst.script.prop.ScriptProperties
  Get a filename.
getFilename() - Method in class org.encog.ml.data.specific.CSVNeuralDataSet
getFileName(File) - Static method in class org.encog.util.file.FileUtil
getFilenames() - Method in class org.encog.app.analyst.script.prop.ScriptProperties
  Get all filenames.
getFileVersion() - Method in class org.encog.ca.universe.basic.PersistBasicUniverse
getFileVersion() - Method in class org.encog.ml.bayesian.PersistBayes
getFileVersion() - Method in class org.encog.ml.hmm.PersistHMM
getFileVersion() - Method in class org.encog.ml.prg.PersistPrgPopulation
getFileVersion() - Method in class org.encog.ml.svm.PersistSVM
getFileVersion() - Method in class org.encog.neural.art.PersistART1
getFileVersion() - Method in class org.encog.neural.bam.PersistBAM
getFileVersion() - Method in class org.encog.neural.cpn.PersistCPN
getFileVersion() - Method in class org.encog.neural.neat.PersistNEATPopulation
getFileVersion() - Method in class org.encog.neural.networks.PersistBasicNetwork
getFileVersion() - Method in class org.encog.neural.networks.training.propagation.PersistTrainingContinuation
getFileVersion() - Method in class org.encog.neural.pnn.PersistBasicPNN
getFileVersion() - Method in class org.encog.neural.rbf.PersistRBFNetwork
getFileVersion() - Method in class org.encog.neural.som.PersistSOM
getFileVersion() - Method in class org.encog.neural.thermal.PersistBoltzmann
getFileVersion() - Method in class org.encog.neural.thermal.PersistHopfield
getFileVersion() - Method in interface org.encog.persist.EncogPersistor
getFilteredRowCount() - Method in class org.encog.app.analyst.csv.filter.FilterCSV
getFinishNode() - Method in class org.encog.ml.schedule.ScheduleGraph
getFlat() - Method in class org.encog.neural.networks.BasicNetwork
getFlat() - Method in interface org.encog.neural.networks.ContainsFlat
getFlat() - Method in class org.encog.neural.networks.structure.NeuralStructure
getFlat() - Method in class org.encog.neural.rbf.RBFNetwork
getFold() - Method in class org.encog.ml.svm.training.SVMSearchTrain
getFold() - Method in class org.encog.ml.svm.training.SVMTrain
getFolded() - Method in class org.encog.neural.networks.training.cross.CrossTraining
getFolds() - Method in class org.encog.ml.data.cross.KFoldCrossvalidation
getForDefinition() - Method in class org.encog.ml.bayesian.bif.BIFDefinition
getFormat() - Method in class org.encog.app.analyst.csv.basic.BasicFile
getFormat() - Method in class org.encog.app.analyst.csv.process.ProcessExtension
getFormat() - Method in class org.encog.ml.data.specific.CSVNeuralDataSet
getFormat() - Method in class org.encog.ml.data.versatile.NormalizationHelper
getFormat() - Method in class org.encog.ml.prg.EncogProgramContext
getFormat() - Method in class org.encog.util.csv.ReadCSV
getForwardWindowSize() - Method in class org.encog.app.analyst.csv.process.ProcessExtension
getFrom() - Method in class org.encog.ml.graph.BasicEdge
getFrom() - Method in class org.encog.neural.networks.NeuralDataMapping
getFrom() - Method in class org.encog.util.time.TimeSpan
getFromNeuron() - Method in class org.encog.neural.neat.NEATLink
getFromNeuronID() - Method in class org.encog.neural.neat.training.NEATLinkGene
getFull() - Method in class org.encog.app.quant.util.BarBuffer
  Determine if the buffer is full.
getFunctions() - Method in class org.encog.ml.prg.EncogProgram
getFunctions() - Method in class org.encog.ml.prg.EncogProgramContext
getGamma() - Method in class org.encog.ml.svm.training.SVMTrain
getGammaBegin() - Method in class org.encog.ml.svm.training.SVMSearchTrain
getGammaEnd() - Method in class org.encog.ml.svm.training.SVMSearchTrain
getGammaStep() - Method in class org.encog.ml.svm.training.SVMSearchTrain
getGeneIDGenerate() - Method in class org.encog.neural.neat.NEATPopulation
getGenerator() - Method in class org.encog.ml.prg.opp.SubtreeMutation
getGenetic() - Method in class org.encog.ml.genetic.MLMethodGeneticAlgorithm
getGenomeFactory() - Method in class org.encog.ml.ea.population.BasicPopulation
getGenomeFactory() - Method in interface org.encog.ml.ea.population.Population
getGenomeFactory() - Method in class org.encog.neural.neat.NEATPopulation
getGensNoImprovement() - Method in class org.encog.ml.ea.species.BasicSpecies
getGensNoImprovement() - Method in interface org.encog.ml.ea.species.Species
getGivenDefinitions() - Method in class org.encog.ml.bayesian.bif.BIFDefinition
getGivenEvents() - Method in class org.encog.ml.bayesian.parse.ParsedProbability
getGl() - Method in class org.encog.ml.train.strategy.end.EarlyStoppingStrategy
getGoal() - Method in class org.encog.app.analyst.wizard.AnalystWizard
getGoal() - Method in class org.encog.ml.graph.search.AbstractGraphSearch
getGoal() - Method in interface org.encog.ml.graph.search.GraphSearch
getGoal() - Method in class org.encog.ml.world.learning.mdp.MarkovDecisionProcess
getGoalDestination() - Method in class org.encog.ml.graph.search.SimpleDestinationGoal
getGoals() - Method in class org.encog.ml.world.basic.BasicWorld
getGoals() - Method in interface org.encog.ml.world.World
getGradients() - Method in class org.encog.mathutil.matrices.hessian.BasicHessian
  The gradeints.
getGradients() - Method in class org.encog.mathutil.matrices.hessian.ChainRuleWorker
getGradients() - Method in interface org.encog.mathutil.matrices.hessian.ComputeHessian
  The gradeints.
getGraph() - Method in class org.encog.ml.graph.search.AbstractGraphSearch
getGraph() - Method in interface org.encog.ml.graph.search.GraphSearch
getGroup() - Method in class org.encog.util.normalize.output.OutputFieldGrouped
getGroupedFields() - Method in class org.encog.util.normalize.output.BasicOutputFieldGroup
getGroupedFields() - Method in interface org.encog.util.normalize.output.OutputFieldGroup
getGroups() - Method in class org.encog.util.normalize.DataNormalization
getH() - Method in class org.encog.mathutil.matrices.decomposition.QRDecomposition
  Return the Householder vectors
getHasContext() - Method in class org.encog.neural.flat.FlatNetwork
getHeader(int) - Method in class org.encog.app.analyst.util.CSVHeaders
  Get the specified header.
getHeaderBuffer() - Method in class org.encog.ml.data.buffer.EncogEGBFile
getHeaders() - Method in class org.encog.app.analyst.util.CSVHeaders
getHeadingMap() - Method in class org.encog.app.analyst.csv.TimeSeriesUtil
getHeight() - Method in class org.encog.platformspecific.j2se.data.image.ImageMLDataSet
getHeight() - Method in class org.encog.util.ImageSize
getHessian() - Method in class org.encog.mathutil.matrices.hessian.BasicHessian
getHessian() - Method in class org.encog.mathutil.matrices.hessian.ChainRuleWorker
getHessian() - Method in interface org.encog.mathutil.matrices.hessian.ComputeHessian
getHessian() - Method in class org.encog.neural.networks.training.lma.LevenbergMarquardtTraining
getHessianMatrix() - Method in class org.encog.mathutil.matrices.hessian.BasicHessian
getHessianMatrix() - Method in interface org.encog.mathutil.matrices.hessian.ComputeHessian
getHidden() - Method in class org.encog.neural.prune.PruneIncremental
getHidden1Size() - Method in class org.encog.neural.prune.PruneIncremental
getHidden2Size() - Method in class org.encog.neural.prune.PruneIncremental
getHiddenNodes() - Method in class org.encog.neural.hyperneat.substrate.Substrate
getHigh() - Method in class org.encog.engine.network.activation.ActivationRamp
getHigh() - Method in class org.encog.engine.network.activation.ActivationStep
getHigh() - Method in class org.encog.mathutil.IntRange
getHigh() - Method in class org.encog.mathutil.NumericRange
getHigh() - Method in class org.encog.ml.data.temporal.TemporalDataDescription
getHigh() - Method in class org.encog.ml.data.versatile.columns.ColumnDefinition
getHigh() - Method in class org.encog.neural.prune.PruneIncremental
getHigh() - Method in class org.encog.util.normalize.output.mapped.MappedRange
getHigh() - Method in class org.encog.util.normalize.output.nominal.NominalItem
getHigh() - Method in class org.encog.util.normalize.output.nominal.OutputEquilateral
getHigh() - Method in class org.encog.util.normalize.output.OutputFieldRangeMapped
getHigh() - Method in class org.encog.util.normalize.segregate.SegregationRange
getHighSequence() - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
getId() - Method in class org.encog.neural.hyperneat.substrate.SubstrateNode
getId() - Method in class org.encog.neural.neat.training.NEATBaseGene
getID() - Method in class org.encog.util.concurrency.TaskGroup
getIdAttribute() - Method in class org.encog.bot.browse.range.DocumentRange
getIdeal() - Method in class org.encog.ml.data.basic.BasicMLDataPair
getIdeal() - Method in class org.encog.ml.data.buffer.codec.ArrayDataCODEC
getIdeal() - Method in interface org.encog.ml.data.MLDataPair
getIdealArray() - Method in class org.encog.ml.data.basic.BasicMLDataPair
getIdealArray() - Method in interface org.encog.ml.data.MLDataPair
getIdealCount() - Method in class org.encog.ml.data.buffer.EncogEGBFile
getIdealSize() - Method in class org.encog.ensemble.data.EnsembleDataSet
getIdealSize() - Method in class org.encog.ml.data.auto.AutoFloatDataSet
getIdealSize() - Method in class org.encog.ml.data.basic.BasicMLDataSet
getIdealSize() - Method in class org.encog.ml.data.basic.BasicMLSequenceSet
getIdealSize() - Method in class org.encog.ml.data.buffer.BufferedMLDataSet
getIdealSize() - Method in class org.encog.ml.data.buffer.codec.ArrayDataCODEC
getIdealSize() - Method in class org.encog.ml.data.buffer.codec.CSVDataCODEC
getIdealSize() - Method in interface org.encog.ml.data.buffer.codec.DataSetCODEC
getIdealSize() - Method in class org.encog.ml.data.buffer.codec.ExcelCODEC
getIdealSize() - Method in class org.encog.ml.data.buffer.codec.NeuralDataSetCODEC
getIdealSize() - Method in class org.encog.ml.data.buffer.codec.SQLCODEC
getIdealSize() - Method in class org.encog.ml.data.folded.FoldedDataSet
getIdealSize() - Method in interface org.encog.ml.data.MLDataSet
getIdealSize() - Method in class org.encog.ml.data.versatile.MatrixMLDataSet
getImage() - Method in class org.encog.platformspecific.j2se.data.image.ImageMLData
getImageHeight() - Method in interface org.encog.util.downsample.Downsample
getImageHeight() - Method in class org.encog.util.downsample.RGBDownsample
getImagEigenvalues() - Method in class org.encog.mathutil.matrices.decomposition.EigenvalueDecomposition
  Return the imaginary parts of the eigenvalues.
getImageWidth() - Method in interface org.encog.util.downsample.Downsample
getImageWidth() - Method in class org.encog.util.downsample.RGBDownsample
getImaginary() - Method in class org.encog.mathutil.ComplexNumber
  Imaginary part of this Complex number (the y-coordinate in rectangular coordinates).
getImplementationType() - Method in class org.encog.ml.ea.train.basic.TrainEA
getImplementationType() - Method in class org.encog.ml.hmm.train.bw.BaseBaumWelch
getImplementationType() - Method in class org.encog.ml.hmm.train.kmeans.TrainKMeans
getImplementationType() - Method in class org.encog.ml.train.BasicTraining
getImplementationType() - Method in interface org.encog.ml.train.MLTrain
getImplementationType() - Method in class org.encog.neural.freeform.training.FreeformPropagationTraining
getIncludes() - Method in class org.encog.app.generate.generators.AbstractGenerator
getIncrement() - Method in class org.encog.mathutil.randomize.generate.LinearCongruentialRandom
getIndentLevel() - Method in class org.encog.app.generate.generators.AbstractTemplateGenerator
getIndex() - Method in class org.encog.app.analyst.csv.basic.FileData
getIndex() - Method in class org.encog.app.analyst.csv.sort.SortedField
getIndex() - Method in class org.encog.ml.data.temporal.TemporalDataDescription
getIndex() - Method in class org.encog.ml.data.versatile.columns.ColumnDefinition
getIndex() - Method in class org.encog.util.arrayutil.ClassItem
getInertiaWeight() - Method in class org.encog.neural.networks.training.pso.NeuralPSO
  Get the inertia weight (w)
getInitialConnectionDensity() - Method in class org.encog.neural.neat.NEATPopulation
getInitialUpdate() - Method in class org.encog.neural.networks.training.concurrent.jobs.RPROPJob
getInitNetwork() - Method in class org.encog.ml.bayesian.training.TrainBayesian
getInnovationId() - Method in class org.encog.neural.neat.training.NEATBaseGene
getInnovationID() - Method in class org.encog.neural.neat.training.NEATInnovation
getInnovationIDGenerate() - Method in class org.encog.neural.neat.NEATPopulation
getInnovations() - Method in class org.encog.neural.neat.NEATPopulation
getInnovations() - Method in class org.encog.neural.neat.training.NEATInnovationList
getInput() - Method in class org.encog.ml.data.basic.BasicMLDataPair
getInput() - Method in class org.encog.ml.data.buffer.codec.ArrayDataCODEC
getInput() - Method in interface org.encog.ml.data.MLDataPair
getInput() - Method in class org.encog.util.arrayutil.TemporalWindowField
getInputArray() - Method in class org.encog.ml.data.basic.BasicMLDataPair
getInputArray() - Method in interface org.encog.ml.data.MLDataPair
getInputColumns() - Method in class org.encog.ml.data.versatile.NormalizationHelper
getInputCount() - Method in class org.encog.ensemble.data.factories.EnsembleDataSetFactory
getInputCount() - Method in class org.encog.ensemble.GenericEnsembleML
getInputCount() - Method in class org.encog.ml.bayesian.BayesianNetwork
getInputCount() - Method in class org.encog.ml.data.buffer.EncogEGBFile
getInputCount() - Method in class org.encog.ml.fitting.gaussian.GaussianFitting
getInputCount() - Method in class org.encog.ml.fitting.linear.LinearRegression
getInputCount() - Method in interface org.encog.ml.MLInput
getInputCount() - Method in class org.encog.ml.prg.EncogProgram
getInputCount() - Method in class org.encog.ml.prg.train.PrgPopulation
getInputCount() - Method in class org.encog.ml.svm.SVM
getInputCount() - Method in class org.encog.neural.art.ART1
getInputCount() - Method in class org.encog.neural.cpn.CPN
getInputCount() - Method in class org.encog.neural.flat.FlatNetwork
getInputCount() - Method in class org.encog.neural.freeform.FreeformNetwork
getInputCount() - Method in class org.encog.neural.hyperneat.substrate.Substrate
getInputCount() - Method in class org.encog.neural.neat.NEATNetwork
getInputCount() - Method in class org.encog.neural.neat.NEATPopulation
getInputCount() - Method in class org.encog.neural.neat.training.NEATGenome
getInputCount() - Method in class org.encog.neural.networks.BasicNetwork
getInputCount() - Method in class org.encog.neural.pnn.AbstractPNN
getInputCount() - Method in class org.encog.neural.rbf.RBFNetwork
getInputCount() - Method in class org.encog.neural.som.SOM
getInputCount() - Method in class org.encog.neural.thermal.BoltzmannMachine
getInputCount() - Method in class org.encog.neural.thermal.HopfieldNetwork
getInputData() - Method in class org.encog.ensemble.data.factories.EnsembleDataSetFactory
getInputFeatures() - Method in class org.encog.ml.model.EncogModel
getInputField() - Method in class org.encog.util.normalize.output.nominal.NominalItem
getInputFields() - Method in class org.encog.util.normalize.DataNormalization
getInputFilename() - Method in class org.encog.app.analyst.csv.basic.BasicFile
getInputHeadings() - Method in class org.encog.app.analyst.csv.basic.BasicFile
getInputNeuronCount() - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
getInputNeuronCount() - Method in class org.encog.neural.som.training.basic.BasicTrainSOM
getInputNeurons() - Method in class org.encog.neural.pattern.PNNPattern
getInputNeurons() - Method in class org.encog.neural.pattern.SVMPattern
getInputNodes() - Method in class org.encog.neural.hyperneat.substrate.Substrate
getInputNormalizers() - Method in class org.encog.ml.data.versatile.normalizers.strategies.BasicNormalizationStrategy
getInputSize() - Method in class org.encog.app.analyst.csv.TimeSeriesUtil
getInputSize() - Method in class org.encog.ensemble.data.EnsembleDataSet
getInputSize() - Method in class org.encog.ml.data.auto.AutoFloatDataSet
getInputSize() - Method in class org.encog.ml.data.basic.BasicMLDataSet
getInputSize() - Method in class org.encog.ml.data.basic.BasicMLSequenceSet
getInputSize() - Method in class org.encog.ml.data.buffer.BufferedMLDataSet
getInputSize() - Method in class org.encog.ml.data.buffer.codec.ArrayDataCODEC
getInputSize() - Method in class org.encog.ml.data.buffer.codec.CSVDataCODEC
getInputSize() - Method in interface org.encog.ml.data.buffer.codec.DataSetCODEC
getInputSize() - Method in class org.encog.ml.data.buffer.codec.ExcelCODEC
getInputSize() - Method in class org.encog.ml.data.buffer.codec.NeuralDataSetCODEC
getInputSize() - Method in class org.encog.ml.data.buffer.codec.SQLCODEC
getInputSize() - Method in class org.encog.ml.data.folded.FoldedDataSet
getInputSize() - Method in interface org.encog.ml.data.MLDataSet
getInputSize() - Method in class org.encog.ml.data.versatile.MatrixMLDataSet
getInputSummation() - Method in class org.encog.neural.freeform.basic.BasicFreeformNeuron
getInputSummation() - Method in interface org.encog.neural.freeform.FreeformNeuron
getInputWindow() - Method in class org.encog.util.arrayutil.TemporalWindowArray
getInputWindowSize() - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
getInstance() - Static method in class org.encog.app.analyst.script.prop.PropertyConstraints
getInstance() - Static method in class org.encog.Encog
  Get the instance to the singleton.
getInstance() - Static method in class org.encog.neural.networks.training.concurrent.ConcurrentTrainingManager
getInstance() - Static method in class org.encog.persist.PersistorRegistry
getInstance() - Static method in class org.encog.util.concurrency.EngineConcurrency
getInstarCount() - Method in class org.encog.neural.cpn.CPN
getInt(int) - Method in class org.encog.util.csv.ReadCSV
  Obtain a column as an integer referenced by a string.
getInt(String, boolean, int) - Method in class org.encog.util.ParamsHolder
  Get a param as a integer.
getItems() - Method in class org.encog.bot.rss.RSS
getItems() - Method in class org.encog.ml.hmm.HiddenMarkovModel
getIteration() - Method in class org.encog.ml.ea.train.basic.BasicEA
getIteration() - Method in interface org.encog.ml.ea.train.EvolutionaryAlgorithm
getIteration() - Method in class org.encog.ml.hmm.train.bw.BaseBaumWelch
getIteration() - Method in class org.encog.ml.hmm.train.kmeans.TrainKMeans
getIteration() - Method in class org.encog.ml.train.BasicTraining
getIteration() - Method in interface org.encog.ml.train.MLTrain
getIteration() - Method in class org.encog.neural.freeform.training.FreeformPropagationTraining
getIterations() - Method in class org.encog.neural.prune.PruneIncremental
getIterator() - Method in class org.encog.util.normalize.input.MLDataFieldHolder
getJobUnit() - Method in class org.encog.util.concurrency.job.JobUnitContext
getK() - Method in class org.encog.ml.data.cross.KFoldCrossvalidation
getK() - Method in class org.encog.util.text.BagOfWords
getKernel() - Method in class org.encog.neural.pattern.PNNPattern
getKernel() - Method in class org.encog.neural.pnn.AbstractPNN
getKernelType() - Method in class org.encog.ml.svm.SVM
getKey() - Method in class org.encog.app.analyst.script.prop.PropertyEntry
getKfold() - Method in class org.encog.app.analyst.commands.Cmd
getL() - Method in class org.encog.mathutil.matrices.decomposition.CholeskyDecomposition
  Return triangular factor.
getL() - Method in class org.encog.mathutil.matrices.decomposition.LUDecomposition
  Return lower triangular factor
getL() - Method in class org.encog.neural.art.ART1
getL() - Method in class org.encog.neural.pattern.ART1Pattern
getLabel() - Method in class org.encog.ensemble.aggregator.Averaging
getLabel() - Method in class org.encog.ensemble.aggregator.MajorityVoting
getLabel() - Method in class org.encog.ensemble.aggregator.MetaClassifier
getLabel() - Method in interface org.encog.ensemble.EnsembleAggregator
getLabel() - Method in interface org.encog.ensemble.EnsembleML
getLabel() - Method in interface org.encog.ensemble.EnsembleMLMethodFactory
getLabel() - Method in interface org.encog.ensemble.EnsembleTrainFactory
getLabel() - Method in class org.encog.ensemble.GenericEnsembleML
getLabel() - Method in class org.encog.ensemble.ml.mlp.factory.MultiLayerPerceptronFactory
getLabel() - Method in class org.encog.ensemble.training.BackpropagationFactory
getLabel() - Method in class org.encog.ensemble.training.LevenbergMarquardtFactory
getLabel() - Method in class org.encog.ensemble.training.ManhattanPropagationFactory
getLabel() - Method in class org.encog.ensemble.training.ResilientPropagationFactory
getLabel() - Method in class org.encog.ensemble.training.ScaledConjugateGradientFactory
getLabel() - Method in class org.encog.mathutil.probability.vars.RandomVariable
getLabel() - Method in class org.encog.ml.bayesian.BayesianChoice
getLabel() - Method in class org.encog.ml.bayesian.BayesianEvent
getLabel() - Method in class org.encog.ml.bayesian.parse.ParsedChoice
getLabel() - Method in class org.encog.ml.bayesian.parse.ParsedEvent
getLabel() - Method in class org.encog.ml.graph.BasicNode
getLabel() - Method in interface org.encog.ml.world.Action
getLabel() - Method in class org.encog.ml.world.basic.BasicAction
getLagDepth() - Method in class org.encog.app.analyst.csv.TimeSeriesUtil
getLagDepth() - Method in class org.encog.app.analyst.EncogAnalyst
getLagWindowSize() - Method in class org.encog.app.analyst.wizard.AnalystWizard
getLagWindowSize() - Method in class org.encog.ml.data.versatile.MatrixMLDataSet
getLaplaceClasses() - Method in class org.encog.util.text.BagOfWords
getLargeArrays() - Method in class org.encog.persist.EncogFileSection
getLast() - Method in class org.encog.util.arrayutil.WindowDouble
  Get the last value from the window.
getLastDelta() - Method in class org.encog.neural.networks.training.propagation.back.Backpropagation
getLastDelta() - Method in class org.encog.neural.networks.training.propagation.quick.QuickPropagation
getLastGradient() - Method in class org.encog.neural.networks.training.propagation.Propagation
getLastValue() - Method in class org.encog.util.arrayutil.TemporalWindowField
getLatestStartTime() - Method in class org.encog.ml.schedule.ActionNode
getLayerBiasActivation(int) - Method in class org.encog.neural.networks.BasicNetwork
  Get the bias activation for the specified layer.
getLayerContextCount() - Method in class org.encog.neural.flat.FlatNetwork
getLayerCount() - Method in class org.encog.neural.networks.BasicNetwork
getLayerCounts() - Method in class org.encog.neural.flat.FlatNetwork
getLayerFeedCounts() - Method in class org.encog.neural.flat.FlatNetwork
getLayerIndex() - Method in class org.encog.neural.flat.FlatNetwork
getLayerNeuronCount(int) - Method in class org.encog.neural.networks.BasicNetwork
  Get the neuron count.
getLayerOutput() - Method in class org.encog.neural.flat.FlatNetwork
getLayerOutput(int, int) - Method in class org.encog.neural.networks.BasicNetwork
  Get the layer output for the specified neuron.
getLayers() - Method in class org.encog.neural.networks.structure.NeuralStructure
getLayerSums() - Method in class org.encog.neural.flat.FlatNetwork
getLayerTotalNeuronCount(int) - Method in class org.encog.neural.networks.BasicNetwork
  Get the total (including bias and context) neuron cont for a layer.
getLeadDepth() - Method in class org.encog.app.analyst.csv.TimeSeriesUtil
getLeadDepth() - Method in class org.encog.app.analyst.EncogAnalyst
getLeader() - Method in class org.encog.ml.ea.species.BasicSpecies
getLeader() - Method in interface org.encog.ml.ea.species.Species
getLeadWindowSize() - Method in class org.encog.app.analyst.wizard.AnalystWizard
getLeadWindowSize() - Method in class org.encog.ml.data.versatile.MatrixMLDataSet
getLearningRate() - Method in class org.encog.ensemble.training.ManhattanPropagationFactory
getLearningRate() - Method in class org.encog.neural.cpn.training.TrainInstar
getLearningRate() - Method in class org.encog.neural.cpn.training.TrainOutstar
getLearningRate() - Method in class org.encog.neural.networks.training.concurrent.jobs.BPROPJob
getLearningRate() - Method in interface org.encog.neural.networks.training.LearningRate
getLearningRate() - Method in class org.encog.neural.networks.training.propagation.back.Backpropagation
getLearningRate() - Method in class org.encog.neural.networks.training.propagation.manhattan.ManhattanPropagation
getLearningRate() - Method in class org.encog.neural.networks.training.propagation.quick.QuickPropagation
getLearningRate() - Method in class org.encog.neural.networks.training.simple.TrainAdaline
getLearningRate() - Method in class org.encog.neural.som.training.basic.BasicTrainSOM
getLen() - Method in class org.encog.ml.hmm.alog.KullbackLeiblerDistanceCalculator
getLength() - Method in class org.encog.util.normalize.output.multiplicative.MultiplicativeGroup
getLength() - Method in class org.encog.util.normalize.output.zaxis.ZAxisGroup
getLimit() - Method in class org.encog.ca.program.generic.Trans
getLine() - Method in class org.encog.util.SimpleParser
getLines() - Method in class org.encog.app.analyst.script.task.AnalystTask
getLines() - Method in class org.encog.ml.bayesian.table.BayesianTable
getLines() - Method in class org.encog.persist.EncogFileSection
getLinesAsString() - Method in class org.encog.persist.EncogFileSection
getLink() - Method in class org.encog.bot.rss.RSSItem
  Get the hyperlink.
getLinkCount() - Method in class org.encog.neural.hyperneat.substrate.Substrate
getLinks() - Method in class org.encog.neural.hyperneat.substrate.Substrate
getLinks() - Method in class org.encog.neural.neat.NEATNetwork
getLinksChromosome() - Method in class org.encog.neural.neat.training.NEATGenome
getLinkSelection() - Method in class org.encog.neural.neat.training.opp.NEATMutateWeights
getList() - Method in class org.encog.ml.bayesian.parse.ParsedEvent
getList() - Method in class org.encog.util.obj.ChooseObject
getListeners() - Method in class org.encog.app.analyst.EncogAnalyst
getLoader() - Method in class org.encog.ml.data.market.MarketMLDataSet
getLocation() - Method in class org.encog.neural.hyperneat.substrate.SubstrateNode
getLoggingPlugin() - Method in class org.encog.Encog
getLogLevel() - Method in interface org.encog.plugin.EncogPluginLogging1
getLogLevel() - Method in class org.encog.plugin.system.SystemLoggingPlugin
getLow() - Method in class org.encog.engine.network.activation.ActivationRamp
getLow() - Method in class org.encog.engine.network.activation.ActivationStep
getLow() - Method in class org.encog.mathutil.IntRange
getLow() - Method in class org.encog.mathutil.NumericRange
getLow() - Method in class org.encog.ml.data.temporal.TemporalDataDescription
getLow() - Method in class org.encog.ml.data.versatile.columns.ColumnDefinition
getLow() - Method in class org.encog.neural.prune.PruneIncremental
getLow() - Method in class org.encog.util.normalize.output.mapped.MappedRange
getLow() - Method in class org.encog.util.normalize.output.nominal.NominalItem
getLow() - Method in class org.encog.util.normalize.output.nominal.OutputEquilateral
getLow() - Method in class org.encog.util.normalize.output.OutputFieldRangeMapped
getLow() - Method in class org.encog.util.normalize.segregate.SegregationRange
getLower() - Method in class org.encog.mathutil.dimension.DimensionConstraint
getLower(int) - Method in class org.encog.mathutil.dimension.DimensionConstraint
  Get the lower bound for a specific dimension.
getLowSequence() - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
getManager() - Method in interface org.encog.neural.networks.training.concurrent.performers.ConcurrentTrainingPerformer
  Get the manager.
getManager() - Method in class org.encog.neural.networks.training.concurrent.performers.ConcurrentTrainingPerformerCPU
  Get the manager.
getMap() - Method in class org.encog.util.http.CookieUtility
  Allows access to the name/value pair list of cookies.
getMappings() - Method in class org.encog.util.normalize.input.InputFieldCSVText
getMask() - Method in class org.encog.ml.data.versatile.division.DataDivision
getMask() - Method in class org.encog.ml.data.versatile.MatrixMLDataSet
getMatrix(int, int, int, int) - Method in class org.encog.mathutil.matrices.Matrix
  Get a submatrix.
getMatrix(int, int, int[]) - Method in class org.encog.mathutil.matrices.Matrix
  Get a submatrix.
getMatrix(int[], int, int) - Method in class org.encog.mathutil.matrices.Matrix
  Get a submatrix.
getMatrix(int[], int[]) - Method in class org.encog.mathutil.matrices.Matrix
  Get a submatrix.
getMax() - Method in class org.encog.app.analyst.script.DataField
getMax() - Method in class org.encog.ca.universe.basic.BasicCellFactory
getMax() - Method in class org.encog.mathutil.randomize.RangeRandomizer
getMax() - Method in class org.encog.ml.bayesian.BayesianChoice
getMax() - Method in class org.encog.ml.bayesian.parse.ParsedChoice
getMax() - Method in class org.encog.neural.prune.HiddenLayerParams
getMax() - Method in class org.encog.util.normalize.input.BasicInputField
getMax() - Method in interface org.encog.util.normalize.input.InputField
getMaxConst() - Method in class org.encog.ml.prg.generator.AbstractPrgGenerator
getMaxDepth() - Method in class org.encog.ml.prg.generator.AbstractPrgGenerator
getMaxEnumType() - Method in class org.encog.ml.prg.EncogProgramContext
  Get the max enum type for all defined variables.
getMaxError() - Method in class org.encog.app.analyst.wizard.AnalystWizard
getMaxError() - Method in class org.encog.neural.networks.training.pnn.TrainBasicPNN
getMaxGenerationErrors() - Method in class org.encog.ml.prg.generator.AbstractPrgGenerator
getMaxGenerationErrors() - Method in interface org.encog.ml.prg.generator.PrgGenerator
getMaximumParents() - Method in class org.encog.ml.bayesian.training.TrainBayesian
getMaxIndividualSize() - Method in class org.encog.ml.ea.population.BasicPopulation
getMaxIndividualSize() - Method in interface org.encog.ml.ea.population.Population
getMaxIndividualSize() - Method in class org.encog.ml.ea.train.basic.BasicEA
getMaxIndividualSize() - Method in interface org.encog.ml.ea.train.EvolutionaryAlgorithm
getMaxIteration() - Method in class org.encog.app.analyst.EncogAnalyst
getMaxLines() - Method in class org.encog.ml.bayesian.table.BayesianTable
getMaxNumberOfSpecies() - Method in class org.encog.ml.ea.species.ThresholdSpeciation
getMaxOperationErrors() - Method in class org.encog.ml.ea.train.basic.BasicEA
getMaxPosition() - Method in class org.encog.neural.networks.training.pso.NeuralPSO
  Get the boundary of the search space (Xmax)
getMaxStep() - Method in class org.encog.neural.networks.training.concurrent.jobs.RPROPJob
getMaxTries() - Method in class org.encog.ml.ea.train.basic.BasicEA
getMaxTries() - Method in interface org.encog.ml.ea.train.EvolutionaryAlgorithm
getMaxVelocity() - Method in class org.encog.neural.networks.training.pso.NeuralPSO
  Get the maximum velocity (Vmax)
getMaxWeight() - Method in class org.encog.neural.hyperneat.HyperNEATCODEC
getMaxWinners() - Method in class org.encog.engine.network.activation.ActivationCompetitive
getMean() - Method in class org.encog.app.analyst.script.DataField
getMean() - Method in class org.encog.mathutil.NumericRange
getMean() - Method in class org.encog.ml.data.versatile.columns.ColumnDefinition
getMean() - Method in class org.encog.ml.hmm.distributions.ContinousDistribution
getMember(int) - Method in class org.encog.ensemble.bagging.Bagging
getMember(int) - Method in class org.encog.ensemble.Ensemble
  Extract a specific MLMethod
getMember(int) - Method in class org.encog.ensemble.stacking.Stacking
getMembers() - Method in class org.encog.ml.ea.species.BasicSpecies
getMembers() - Method in interface org.encog.ml.ea.species.Species
getMemoryScore() - Method in class org.encog.util.benchmark.EncogBenchmark
getMethod() - Method in class org.encog.app.analyst.EncogAnalyst
getMethod() - Method in class org.encog.bot.browse.range.Form
getMethod() - Method in class org.encog.ml.bayesian.training.TrainBayesian
  Get the current best machine learning method from the training.
getMethod() - Method in class org.encog.ml.data.cross.DataFold
getMethod() - Method in class org.encog.ml.ea.train.basic.TrainEA
getMethod() - Method in class org.encog.ml.fitting.gaussian.TrainGaussian
getMethod() - Method in class org.encog.ml.fitting.linear.TrainLinearRegression
getMethod() - Method in class org.encog.ml.genetic.MLMethodGeneticAlgorithm
  Get the current best machine learning method from the training.
getMethod() - Method in class org.encog.ml.hmm.train.bw.BaseBaumWelch
getMethod() - Method in class org.encog.ml.hmm.train.kmeans.TrainKMeans
getMethod() - Method in class org.encog.ml.svm.training.SVMSearchTrain
  Get the current best machine learning method from the training.
getMethod() - Method in class org.encog.ml.svm.training.SVMTrain
  Get the current best machine learning method from the training.
getMethod() - Method in interface org.encog.ml.train.MLTrain
  Get the current best machine learning method from the training.
getMethod() - Method in class org.encog.neural.cpn.training.TrainInstar
  Get the current best machine learning method from the training.
getMethod() - Method in class org.encog.neural.cpn.training.TrainOutstar
  Get the current best machine learning method from the training.
getMethod() - Method in class org.encog.neural.freeform.training.FreeformPropagationTraining
  Get the current best machine learning method from the training.
getMethod() - Method in class org.encog.neural.networks.training.anneal.NeuralSimulatedAnnealing
  Get the current best machine learning method from the training.
getMethod() - Method in class org.encog.neural.networks.training.cross.CrossTraining
  Get the current best machine learning method from the training.
getMethod() - Method in class org.encog.neural.networks.training.lma.LevenbergMarquardtTraining
getMethod() - Method in class org.encog.neural.networks.training.nm.NelderMeadTraining
  Get the current best machine learning method from the training.
getMethod() - Method in class org.encog.neural.networks.training.pnn.TrainBasicPNN
  Get the current best machine learning method from the training.
getMethod() - Method in class org.encog.neural.networks.training.propagation.Propagation
  Get the current best machine learning method from the training.
getMethod() - Method in class org.encog.neural.networks.training.pso.NeuralPSO
getMethod() - Method in class org.encog.neural.networks.training.simple.TrainAdaline
  Get the current best machine learning method from the training.
getMethod() - Method in class org.encog.neural.rbf.training.SVDTraining
  Get the current best machine learning method from the training.
getMethod() - Method in class org.encog.neural.som.training.basic.BasicTrainSOM
  Get the current best machine learning method from the training.
getMethod() - Method in class org.encog.neural.som.training.clustercopy.SOMClusterCopyTraining
  Get the current best machine learning method from the training.
getMethodConfigurations() - Method in class org.encog.ml.model.EncogModel
getMethodName() - Method in class org.encog.ml.model.config.FeedforwardConfig
getMethodName() - Method in interface org.encog.ml.model.config.MethodConfig
getMethodName() - Method in class org.encog.ml.model.config.NEATConfig
getMethodName() - Method in class org.encog.ml.model.config.PNNConfig
getMethodName() - Method in class org.encog.ml.model.config.RBFNetworkConfig
getMethodName() - Method in class org.encog.ml.model.config.SVMConfig
getMethodType() - Method in class org.encog.app.analyst.wizard.AnalystWizard
getMiddle(int) - Method in class org.encog.mathutil.dimension.DimensionConstraint
getMin() - Method in class org.encog.app.analyst.script.DataField
getMin() - Method in class org.encog.ca.universe.basic.BasicCellFactory
getMin() - Method in class org.encog.mathutil.randomize.RangeRandomizer
getMin() - Method in class org.encog.ml.bayesian.BayesianChoice
getMin() - Method in class org.encog.ml.bayesian.parse.ParsedChoice
getMin() - Method in class org.encog.neural.prune.HiddenLayerParams
getMin() - Method in class org.encog.util.normalize.input.BasicInputField
getMin() - Method in interface org.encog.util.normalize.input.InputField
getMinClassCount() - Method in class org.encog.app.analyst.script.DataField
  Determine the minimum class count.
getMinConst() - Method in class org.encog.ml.prg.generator.AbstractPrgGenerator
getMinDepth() - Method in class org.encog.ml.prg.generator.RampedHalfAndHalf
getMinEfficiency() - Method in class org.encog.ml.train.strategy.end.EarlyStoppingStrategy
getMinImprovement() - Method in class org.encog.neural.networks.training.pnn.TrainBasicPNN
getMinutePeriod(int, int) - Static method in class org.encog.util.time.NumericDateUtil
getMinutes() - Method in class org.encog.ml.train.strategy.end.EndMinutesStrategy
getMinutesLeft() - Method in class org.encog.ml.train.strategy.end.EndMinutesStrategy
getMinWeight() - Method in class org.encog.neural.hyperneat.HyperNEATCODEC
getMissing() - Method in class org.encog.app.analyst.wizard.AnalystWizard
getMissingValues() - Method in class org.encog.app.analyst.script.normalize.AnalystNormalize
getMl() - Method in interface org.encog.ensemble.EnsembleML
getMl() - Method in class org.encog.ensemble.GenericEnsembleML
getMode() - Static method in class org.encog.mathutil.error.ErrorCalculation
  get the error calculation mode, this is static and therefore global to all Enocg training.
getModel() - Method in class org.encog.ml.svm.SVM
getModulus() - Method in class org.encog.mathutil.randomize.generate.LinearCongruentialRandom
getMomentum() - Method in class org.encog.neural.networks.training.concurrent.jobs.BPROPJob
getMomentum() - Method in interface org.encog.neural.networks.training.Momentum
getMomentum() - Method in class org.encog.neural.networks.training.propagation.back.Backpropagation
getMonth(long) - Static method in class org.encog.util.time.NumericDateUtil
getMovements() - Method in class org.encog.ca.program.basic.BasicProgram
getMu() - Method in class org.encog.ml.fitting.gaussian.GaussianFitting
getMult() - Method in class org.encog.ca.program.generic.Trans
getMultiplier() - Method in class org.encog.mathutil.randomize.generate.LinearCongruentialRandom
getMultiplier() - Method in class org.encog.util.normalize.output.zaxis.ZAxisGroup
getName() - Method in class org.encog.app.analyst.commands.Cmd
getName() - Method in class org.encog.app.analyst.commands.CmdBalance
getName() - Method in class org.encog.app.analyst.commands.CmdCluster
getName() - Method in class org.encog.app.analyst.commands.CmdCode
getName() - Method in class org.encog.app.analyst.commands.CmdCreate
getName() - Method in class org.encog.app.analyst.commands.CmdEvaluate
getName() - Method in class org.encog.app.analyst.commands.CmdEvaluateRaw
getName() - Method in class org.encog.app.analyst.commands.CmdGenerate
getName() - Method in class org.encog.app.analyst.commands.CmdNormalize
getName() - Method in class org.encog.app.analyst.commands.CmdProcess
getName() - Method in class org.encog.app.analyst.commands.CmdRandomize
getName() - Method in class org.encog.app.analyst.commands.CmdReset
getName() - Method in class org.encog.app.analyst.commands.CmdSegregate
getName() - Method in class org.encog.app.analyst.commands.CmdSet
getName() - Method in class org.encog.app.analyst.commands.CmdTrain
getName() - Method in class org.encog.app.analyst.csv.basic.BaseCachedColumn
getName() - Method in class org.encog.app.analyst.script.AnalystClassItem
getName() - Method in class org.encog.app.analyst.script.DataField
getName() - Method in class org.encog.app.analyst.script.ml.ScriptOpcode
getName() - Method in class org.encog.app.analyst.script.normalize.AnalystField
getName() - Method in class org.encog.app.analyst.script.preprocess.FieldPreprocess
getName() - Method in class org.encog.app.analyst.script.process.ProcessField
getName() - Method in class org.encog.app.analyst.script.prop.PropertyEntry
getName() - Method in class org.encog.app.analyst.script.task.AnalystTask
getName() - Method in class org.encog.app.analyst.wizard.SourceElement
getName() - Method in class org.encog.app.generate.program.EncogProgramNode
getName() - Method in class org.encog.bot.browse.range.FormElement
getName() - Method in class org.encog.ml.bayesian.bif.BIFVariable
getName() - Method in class org.encog.ml.data.versatile.columns.ColumnDefinition
getName() - Method in class org.encog.ml.ea.population.BasicPopulation
getName() - Method in class org.encog.ml.factory.parse.ArchitectureLayer
getName() - Method in class org.encog.ml.prg.extension.BasicTemplate
getName() - Method in interface org.encog.ml.prg.extension.ProgramExtensionTemplate
getName() - Method in class org.encog.ml.prg.ProgramNode
getName() - Method in class org.encog.ml.prg.VariableMapping
getName() - Method in class org.encog.parse.tags.Tag
getName() - Method in class org.encog.util.arrayutil.ClassItem
getName() - Method in class org.encog.util.arrayutil.NormalizedField
getName() - Method in class org.encog.util.arrayutil.TemporalWindowField
getNeighborhood() - Method in class org.encog.neural.som.training.basic.BasicTrainSOM
getNetwork() - Method in class org.encog.mathutil.matrices.hessian.ChainRuleWorker
getNetwork() - Method in class org.encog.ml.bayesian.bif.BIFHandler
getNetwork() - Method in class org.encog.ml.bayesian.query.BasicQuery
getNetwork() - Method in interface org.encog.ml.bayesian.query.BayesianQuery
getNetwork() - Method in class org.encog.ml.bayesian.training.TrainBayesian
getNetwork() - Method in class org.encog.neural.networks.layers.BasicLayer
getNetwork() - Method in interface org.encog.neural.networks.layers.Layer
getNetwork() - Method in class org.encog.neural.networks.structure.NeuralStructure
getNetwork() - Method in class org.encog.neural.networks.training.concurrent.jobs.TrainingJob
getNetwork() - Method in class org.encog.neural.networks.training.propagation.GradientWorker
getNetwork() - Method in class org.encog.neural.prune.PruneSelective
getNetworkDepth() - Method in class org.encog.neural.neat.training.NEATGenome
getNetworkInputLayerSize() - Method in class org.encog.util.normalize.DataNormalization
getNetworkOutputLayerSize() - Method in class org.encog.util.normalize.DataNormalization
getNetworkState(int) - Method in class org.encog.neural.networks.training.pso.NeuralPSO
  Returns the state of a network in the swarm
getNeuralDataSet() - Method in class org.encog.util.normalize.input.InputFieldMLDataSet
getNeuronCount() - Method in class org.encog.neural.flat.FlatNetwork
getNeuronCount() - Method in class org.encog.neural.networks.layers.BasicLayer
getNeuronCount() - Method in interface org.encog.neural.networks.layers.Layer
getNeuronCount() - Method in class org.encog.neural.thermal.ThermalNetwork
getNeuronID() - Method in class org.encog.neural.neat.training.NEATInnovation
getNeurons() - Method in class org.encog.neural.freeform.basic.BasicFreeformLayer
getNeurons() - Method in interface org.encog.neural.freeform.FreeformLayer
getNeuronsChromosome() - Method in class org.encog.neural.neat.training.NEATGenome
getNeuronType() - Method in class org.encog.neural.neat.training.NEATNeuronGene
getNewDataSet() - Method in class org.encog.ensemble.data.factories.EnsembleDataSetFactory
getNewDataSet() - Method in class org.encog.ensemble.data.factories.ResamplingDataSetFactory
getNewDataSet() - Method in class org.encog.ensemble.data.factories.WeightedResamplingDataSetFactory
getNewDataSet() - Method in class org.encog.ensemble.data.factories.WrappingNonResamplingDataSetFactory
getNodeCount() - Method in class org.encog.ml.tree.traverse.tasks.TaskCountNodes
getNodeCount() - Method in class org.encog.neural.hyperneat.substrate.Substrate
getNodeFound() - Method in class org.encog.ml.prg.opp.LevelHolder
getNodes() - Method in class org.encog.ml.graph.BasicGraph
getNodes() - Method in class org.encog.ml.graph.BasicPath
getNodeType() - Method in class org.encog.ml.prg.extension.BasicTemplate
getNodeType() - Method in interface org.encog.ml.prg.extension.ProgramExtensionTemplate
getNormalization() - Method in class org.encog.util.normalize.segregate.index.IndexSegregator
getNormalization() - Method in class org.encog.util.normalize.segregate.IntegerBalanceSegregator
getNormalization() - Method in class org.encog.util.normalize.segregate.RangeSegregator
getNormalization() - Method in interface org.encog.util.normalize.segregate.Segregator
getNormalize() - Method in class org.encog.app.analyst.script.AnalystScript
getNormalized(int, float, float) - Method in class org.encog.ml.data.auto.AutoFloatColumn
getNormalizedFields() - Method in class org.encog.app.analyst.script.normalize.AnalystNormalize
getNormalizedHigh() - Method in class org.encog.app.analyst.script.normalize.AnalystField
getNormalizedHigh() - Method in class org.encog.util.arrayutil.NormalizeArray
getNormalizedHigh() - Method in class org.encog.util.arrayutil.NormalizedField
getNormalizedLow() - Method in class org.encog.app.analyst.script.normalize.AnalystField
getNormalizedLow() - Method in class org.encog.util.arrayutil.NormalizeArray
getNormalizedLow() - Method in class org.encog.util.arrayutil.NormalizedField
getNormalizedMax() - Method in class org.encog.ml.data.auto.AutoFloatDataSet
getNormalizedMin() - Method in class org.encog.ml.data.auto.AutoFloatDataSet
getNormHelper() - Method in class org.encog.ml.data.versatile.VersatileMLDataSet
getNormStrategy() - Method in class org.encog.ml.data.versatile.NormalizationHelper
getNoTasks() - Method in class org.encog.util.concurrency.TaskGroup
getNoWinner() - Method in class org.encog.neural.art.ART1
getNullArray() - Method in class org.encog.app.generate.generators.AbstractTemplateGenerator
getNullArray() - Method in class org.encog.app.generate.generators.mql4.GenerateMQL4
getNullArray() - Method in class org.encog.app.generate.generators.ninja.GenerateNinjaScript
getNumber() - Method in class org.encog.neural.networks.training.concurrent.performers.ConcurrentTrainingPerformerCPU
getNumberFormatter() - Method in class org.encog.util.csv.CSVFormat
getNumberOfRecords() - Method in class org.encog.ml.data.buffer.EncogEGBFile
getNumberRemaining() - Method in class org.encog.app.analyst.csv.segregate.SegregateTargetPercent
getNumFolds() - Method in class org.encog.ml.data.folded.FoldedDataSet
getNumGenes() - Method in class org.encog.neural.neat.training.NEATGenome
getNumGensAllowedNoImprovement() - Method in class org.encog.ml.ea.species.ThresholdSpeciation
getNumSigmas() - Method in class org.encog.neural.networks.training.pnn.TrainBasicPNN
getObj() - Method in class org.encog.util.obj.ObjectHolder
getOffset() - Method in class org.encog.util.normalize.input.InputFieldCSV
getOffset() - Method in class org.encog.util.normalize.input.InputFieldEncogCollection
getOffset() - Method in class org.encog.util.normalize.input.InputFieldMLDataSet
getOffspringCount() - Method in class org.encog.ml.ea.species.BasicSpecies
getOffspringCount() - Method in interface org.encog.ml.ea.species.Species
getOffspringShare() - Method in class org.encog.ml.ea.species.BasicSpecies
getOffspringShare() - Method in interface org.encog.ml.ea.species.Species
getOldBestGenome() - Method in class org.encog.ml.ea.train.basic.BasicEA
getOpCode(int) - Method in class org.encog.ml.prg.extension.FunctionFactory
  Get the specified opcode.
getOpcodes() - Method in class org.encog.app.analyst.script.AnalystScript
getOpCodes() - Method in class org.encog.ml.prg.extension.FunctionFactory
getOperators() - Method in class org.encog.ml.ea.train.basic.BasicEA
getOperators() - Method in interface org.encog.ml.ea.train.EvolutionaryAlgorithm
getOptions() - Method in class org.encog.ml.bayesian.bif.BIFVariable
getOriginal() - Method in class org.encog.bot.browse.Address
getOutcomeEvents() - Method in class org.encog.ml.bayesian.query.BasicQuery
getOutcomeEvents() - Method in interface org.encog.ml.bayesian.query.BayesianQuery
getOutmodel() - Method in class org.encog.neural.pattern.PNNPattern
getOutput() - Method in class org.encog.neural.networks.training.cross.NetworkFold
getOutputColumns() - Method in class org.encog.ml.data.versatile.NormalizationHelper
getOutputCount() - Method in class org.encog.ensemble.data.factories.EnsembleDataSetFactory
getOutputCount() - Method in class org.encog.ensemble.GenericEnsembleML
getOutputCount() - Method in class org.encog.ml.bayesian.BayesianNetwork
getOutputCount() - Method in class org.encog.ml.fitting.gaussian.GaussianFitting
getOutputCount() - Method in class org.encog.ml.fitting.linear.LinearRegression
getOutputCount() - Method in interface org.encog.ml.MLOutput
getOutputCount() - Method in class org.encog.ml.prg.EncogProgram
getOutputCount() - Method in class org.encog.ml.prg.train.PrgPopulation
getOutputCount() - Method in class org.encog.ml.svm.SVM
getOutputCount() - Method in class org.encog.neural.art.ART1
getOutputCount() - Method in class org.encog.neural.cpn.CPN
getOutputCount() - Method in class org.encog.neural.flat.FlatNetwork
getOutputCount() - Method in class org.encog.neural.freeform.FreeformNetwork
getOutputCount() - Method in class org.encog.neural.hyperneat.substrate.Substrate
getOutputCount() - Method in class org.encog.neural.neat.NEATNetwork
getOutputCount() - Method in class org.encog.neural.neat.NEATPopulation
getOutputCount() - Method in class org.encog.neural.neat.training.NEATGenome
getOutputCount() - Method in class org.encog.neural.networks.BasicNetwork
getOutputCount() - Method in class org.encog.neural.pnn.AbstractPNN
getOutputCount() - Method in class org.encog.neural.rbf.RBFNetwork
getOutputCount() - Method in class org.encog.neural.som.SOM
getOutputCount() - Method in class org.encog.neural.thermal.BoltzmannMachine
getOutputCount() - Method in class org.encog.neural.thermal.HopfieldNetwork
getOutputEpsilon() - Method in class org.encog.neural.networks.training.propagation.quick.QuickPropagation
getOutputFieldCount() - Method in class org.encog.util.normalize.DataNormalization
getOutputFields() - Method in class org.encog.util.normalize.DataNormalization
getOutputIndex() - Method in class org.encog.neural.neat.NEATNetwork
getOutputLayer() - Method in class org.encog.neural.freeform.FreeformNetwork
getOutputMode() - Method in class org.encog.neural.pnn.AbstractPNN
getOutputNeuron() - Method in class org.encog.mathutil.matrices.hessian.ChainRuleWorker
getOutputNeuronCount() - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
getOutputNeuronCount() - Method in class org.encog.neural.som.training.basic.BasicTrainSOM
getOutputNeurons() - Method in class org.encog.neural.pattern.PNNPattern
getOutputNeurons() - Method in class org.encog.neural.pattern.SVMPattern
getOutputNodes() - Method in class org.encog.neural.hyperneat.substrate.Substrate
getOutputNormalizers() - Method in class org.encog.ml.data.versatile.normalizers.strategies.BasicNormalizationStrategy
getOutputs() - Method in class org.encog.neural.freeform.basic.BasicFreeformNeuron
getOutputs() - Method in interface org.encog.neural.freeform.FreeformNeuron
getOutputSize() - Method in class org.encog.app.analyst.csv.TimeSeriesUtil
getOutstarCount() - Method in class org.encog.neural.cpn.CPN
getOwner() - Method in class org.encog.bot.browse.range.FormElement
getOwner() - Method in class org.encog.ml.data.buffer.BufferedMLDataSet
getOwner() - Method in class org.encog.ml.data.folded.FoldedDataSet
getOwner() - Method in class org.encog.ml.ea.opp.CompoundOperator
getOwner() - Method in class org.encog.ml.ea.species.ThresholdSpeciation
getOwner() - Method in class org.encog.ml.prg.ProgramNode
getOwner() - Method in class org.encog.ml.world.grid.GridState
getOwner() - Method in class org.encog.neural.neat.training.opp.NEATMutation
getOwner() - Method in class org.encog.util.concurrency.job.JobUnitContext
getPair() - Method in class org.encog.util.normalize.input.MLDataFieldHolder
getParamNames() - Method in class org.encog.engine.network.activation.ActivationBiPolar
getParamNames() - Method in class org.encog.engine.network.activation.ActivationBipolarSteepenedSigmoid
getParamNames() - Method in class org.encog.engine.network.activation.ActivationClippedLinear
getParamNames() - Method in class org.encog.engine.network.activation.ActivationCompetitive
getParamNames() - Method in class org.encog.engine.network.activation.ActivationElliott
getParamNames() - Method in class org.encog.engine.network.activation.ActivationElliottSymmetric
getParamNames() - Method in interface org.encog.engine.network.activation.ActivationFunction
getParamNames() - Method in class org.encog.engine.network.activation.ActivationGaussian
getParamNames() - Method in class org.encog.engine.network.activation.ActivationLinear
getParamNames() - Method in class org.encog.engine.network.activation.ActivationLOG
getParamNames() - Method in class org.encog.engine.network.activation.ActivationRamp
getParamNames() - Method in class org.encog.engine.network.activation.ActivationSigmoid
getParamNames() - Method in class org.encog.engine.network.activation.ActivationSIN
getParamNames() - Method in class org.encog.engine.network.activation.ActivationSoftMax
getParamNames() - Method in class org.encog.engine.network.activation.ActivationSteepenedSigmoid
getParamNames() - Method in class org.encog.engine.network.activation.ActivationStep
getParamNames() - Method in class org.encog.engine.network.activation.ActivationTANH
getParams() - Method in class org.encog.engine.network.activation.ActivationBiPolar
getParams() - Method in class org.encog.engine.network.activation.ActivationBipolarSteepenedSigmoid
getParams() - Method in class org.encog.engine.network.activation.ActivationClippedLinear
getParams() - Method in class org.encog.engine.network.activation.ActivationCompetitive
getParams() - Method in class org.encog.engine.network.activation.ActivationElliott
getParams() - Method in class org.encog.engine.network.activation.ActivationElliottSymmetric
getParams() - Method in interface org.encog.engine.network.activation.ActivationFunction
getParams() - Method in class org.encog.engine.network.activation.ActivationGaussian
getParams() - Method in class org.encog.engine.network.activation.ActivationLinear
getParams() - Method in class org.encog.engine.network.activation.ActivationLOG
getParams() - Method in class org.encog.engine.network.activation.ActivationRamp
getParams() - Method in class org.encog.engine.network.activation.ActivationSigmoid
getParams() - Method in class org.encog.engine.network.activation.ActivationSIN
getParams() - Method in class org.encog.engine.network.activation.ActivationSoftMax
getParams() - Method in class org.encog.engine.network.activation.ActivationSteepenedSigmoid
getParams() - Method in class org.encog.engine.network.activation.ActivationStep
getParams() - Method in class org.encog.engine.network.activation.ActivationTANH
getParams() - Method in class org.encog.ml.factory.parse.ArchitectureLayer
getParams() - Method in class org.encog.ml.prg.extension.BasicTemplate
getParams() - Method in interface org.encog.ml.prg.extension.ProgramExtensionTemplate
getParams() - Method in class org.encog.ml.svm.SVM
getParams() - Method in class org.encog.util.ParamsHolder
getParent() - Method in class org.encog.app.generate.program.EncogTreeNode
getParent() - Method in class org.encog.bot.browse.range.DocumentRange
getParent() - Method in class org.encog.persist.EncogDirectoryPersistence
getParents() - Method in class org.encog.ml.bayesian.BayesianEvent
getPattern() - Method in class org.encog.neural.prune.PruneIncremental
getPeak() - Method in class org.encog.mathutil.rbf.BasicRBF
  Get the center of this RBD.
getPeak() - Method in interface org.encog.mathutil.rbf.RadialBasisFunction
  Get the center of this RBD.
getPercent() - Method in class org.encog.app.analyst.csv.segregate.SegregateTargetPercent
getPercent() - Method in class org.encog.app.analyst.script.segregate.AnalystSegregateTarget
getPercent() - Method in class org.encog.ml.data.versatile.division.DataDivision
getPeriods() - Method in class org.encog.app.quant.indicators.Indicator
getPeriods() - Method in class org.encog.app.quant.indicators.MovingAverage
getPeriods() - Method in class org.encog.app.quant.indicators.predictive.BestClose
getPeriods() - Method in class org.encog.app.quant.indicators.predictive.BestReturn
getPersistClassString() - Method in class org.encog.ca.universe.basic.PersistBasicUniverse
getPersistClassString() - Method in class org.encog.ml.bayesian.PersistBayes
getPersistClassString() - Method in class org.encog.ml.hmm.PersistHMM
getPersistClassString() - Method in class org.encog.ml.prg.PersistPrgPopulation
getPersistClassString() - Method in class org.encog.ml.svm.PersistSVM
getPersistClassString() - Method in class org.encog.neural.art.PersistART1
getPersistClassString() - Method in class org.encog.neural.bam.PersistBAM
getPersistClassString() - Method in class org.encog.neural.cpn.PersistCPN
getPersistClassString() - Method in class org.encog.neural.neat.PersistNEATPopulation
getPersistClassString() - Method in class org.encog.neural.networks.PersistBasicNetwork
getPersistClassString() - Method in class org.encog.neural.networks.training.propagation.PersistTrainingContinuation
getPersistClassString() - Method in class org.encog.neural.pnn.PersistBasicPNN
getPersistClassString() - Method in class org.encog.neural.rbf.PersistRBFNetwork
getPersistClassString() - Method in class org.encog.neural.som.PersistSOM
getPersistClassString() - Method in class org.encog.neural.thermal.PersistBoltzmann
getPersistClassString() - Method in class org.encog.neural.thermal.PersistHopfield
getPersistClassString() - Method in interface org.encog.persist.EncogPersistor
getPersistor(Class<?>) - Method in class org.encog.persist.PersistorRegistry
  Get a persistor.
getPersistor(String) - Method in class org.encog.persist.PersistorRegistry
  Get the persistor by name.
getPhenotype() - Method in class org.encog.ml.genetic.MLMethodGenome
getPhysics() - Method in class org.encog.ca.runner.BasicCARunner
getPhysics() - Method in interface org.encog.ca.runner.CARunner
getPi(int) - Method in class org.encog.ml.hmm.HiddenMarkovModel
getPi() - Method in class org.encog.ml.hmm.HiddenMarkovModel
getPivot() - Method in class org.encog.mathutil.matrices.decomposition.LUDecomposition
  Return pivot permutation vector
getPixelMap() - Method in interface org.encog.util.downsample.Downsample
getPixelMap() - Method in class org.encog.util.downsample.RGBDownsample
getPluginDescription() - Method in interface org.encog.plugin.EncogPluginBase
getPluginDescription() - Method in class org.encog.plugin.system.SystemActivationPlugin
getPluginDescription() - Method in class org.encog.plugin.system.SystemLoggingPlugin
getPluginDescription() - Method in class org.encog.plugin.system.SystemMethodsPlugin
getPluginDescription() - Method in class org.encog.plugin.system.SystemTrainingPlugin
getPluginName() - Method in interface org.encog.plugin.EncogPluginBase
getPluginName() - Method in class org.encog.plugin.system.SystemActivationPlugin
getPluginName() - Method in class org.encog.plugin.system.SystemLoggingPlugin
getPluginName() - Method in class org.encog.plugin.system.SystemMethodsPlugin
getPluginName() - Method in class org.encog.plugin.system.SystemTrainingPlugin
getPlugins() - Method in class org.encog.Encog
  Get a list of the registered plugins.
getPluginServiceType() - Method in interface org.encog.plugin.EncogPluginBase
getPluginServiceType() - Method in class org.encog.plugin.system.SystemActivationPlugin
getPluginServiceType() - Method in class org.encog.plugin.system.SystemLoggingPlugin
getPluginServiceType() - Method in class org.encog.plugin.system.SystemMethodsPlugin
getPluginServiceType() - Method in class org.encog.plugin.system.SystemTrainingPlugin
getPluginType() - Method in interface org.encog.plugin.EncogPluginBase
getPluginType() - Method in class org.encog.plugin.system.SystemActivationPlugin
getPluginType() - Method in class org.encog.plugin.system.SystemLoggingPlugin
getPluginType() - Method in class org.encog.plugin.system.SystemMethodsPlugin
getPluginType() - Method in class org.encog.plugin.system.SystemTrainingPlugin
getPoints() - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
getPointsPerSide() - Method in class org.encog.mathutil.matrices.hessian.HessianFD
getPolicy() - Method in class org.encog.ml.world.basic.BasicAgent
getPolicy() - Method in interface org.encog.ml.world.WorldAgent
getPolicyValue() - Method in class org.encog.ml.world.basic.BasicState
getPolicyValue(State, Action) - Method in class org.encog.ml.world.basic.BasicWorld
getPolicyValue() - Method in interface org.encog.ml.world.State
getPolicyValue(State, Action) - Method in interface org.encog.ml.world.World
getPopulation() - Method in class org.encog.ml.ea.genome.BasicGenome
getPopulation() - Method in interface org.encog.ml.ea.genome.Genome
getPopulation() - Method in class org.encog.ml.ea.score.parallel.ParallelScore
getPopulation() - Method in class org.encog.ml.ea.species.BasicSpecies
getPopulation() - Method in interface org.encog.ml.ea.species.Species
getPopulation() - Method in class org.encog.ml.ea.train.basic.BasicEA
getPopulation() - Method in interface org.encog.ml.ea.train.EvolutionaryAlgorithm
getPopulationSize() - Method in class org.encog.ml.ea.population.BasicPopulation
getPopulationSize() - Method in interface org.encog.ml.ea.population.Population
getPopulationSize() - Method in class org.encog.neural.networks.training.pso.NeuralPSO
  Returns the swarm size.
getPossibleTypes() - Method in class org.encog.ml.prg.extension.ParamTemplate
getPostActivation() - Method in class org.encog.neural.neat.NEATNetwork
getPreActivation() - Method in class org.encog.neural.neat.NEATNetwork
getPrecedence() - Method in class org.encog.ml.prg.extension.BasicTemplate
getPrecedence() - Method in interface org.encog.ml.prg.extension.ProgramExtensionTemplate
getPrecision() - Method in class org.encog.app.analyst.csv.basic.BasicFile
getPrecision() - Method in class org.encog.app.analyst.script.AnalystScript
getPrecision() - Method in class org.encog.app.quant.loader.yahoo.YahooDownload
getPrecision() - Method in class org.encog.app.quant.ninja.NinjaStreamWriter
getPredict() - Method in class org.encog.util.arrayutil.TemporalWindowField
getPredictedFeatures() - Method in class org.encog.ml.model.EncogModel
getPredictWindow() - Method in class org.encog.util.arrayutil.TemporalWindowArray
getPredictWindowSize() - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
getPriors() - Method in class org.encog.neural.pnn.BasicPNN
getProbabilities() - Method in class org.encog.ml.hmm.distributions.DiscreteDistribution
getProbability() - Method in interface org.encog.ml.bayesian.query.BayesianQuery
getProbability() - Method in class org.encog.ml.bayesian.query.enumerate.EnumerationQuery
getProbability() - Method in class org.encog.ml.bayesian.query.sample.SamplingQuery
getProbability() - Method in class org.encog.ml.bayesian.table.TableLine
getProbability() - Method in class org.encog.ml.world.basic.BasicWorld
getProbability() - Method in class org.encog.ml.world.SuccessorState
getProbability() - Method in interface org.encog.ml.world.World
getProbability() - Method in class org.encog.util.obj.ObjectHolder
getProbabilityLeft() - Method in class org.encog.ml.world.grid.probability.GridStochasticProbability
getProbabilityReverse() - Method in class org.encog.ml.world.grid.probability.GridStochasticProbability
getProbabilityRight() - Method in class org.encog.ml.world.grid.probability.GridStochasticProbability
getProbabilitySame() - Method in class org.encog.ml.world.grid.probability.GridStochasticProbability
getProbabilitySuccess() - Method in class org.encog.ml.world.grid.probability.GridStochasticProbability
getProblem() - Method in class org.encog.ml.bayesian.query.BasicQuery
getProblem() - Method in interface org.encog.ml.bayesian.query.BayesianQuery
getProblem() - Method in class org.encog.ml.svm.training.SVMTrain
getProblemType() - Method in class org.encog.ensemble.adaboost.AdaBoost
getProblemType() - Method in class org.encog.ensemble.bagging.Bagging
getProblemType() - Method in class org.encog.ensemble.Ensemble
  Return what type of problem this Ensemble is solving
getProblemType() - Method in class org.encog.ensemble.stacking.Stacking
getProcess() - Method in class org.encog.app.analyst.script.AnalystScript
getProgram() - Method in class org.encog.app.generate.program.EncogTreeNode
getProp() - Method in class org.encog.app.analyst.commands.Cmd
getProperties() - Method in class org.encog.app.analyst.script.AnalystScript
getProperties() - Method in class org.encog.Encog
getProperties() - Method in class org.encog.ml.BasicML
getProperties() - Method in interface org.encog.ml.MLProperties
getProperty(String) - Method in class org.encog.app.analyst.script.prop.ScriptProperties
  Get a property as an object.
getProperty(String) - Method in class org.encog.ml.world.basic.BasicState
getProperty(String) - Method in interface org.encog.ml.world.State
getPropertyBoolean(String) - Method in class org.encog.app.analyst.script.prop.ScriptProperties
  Get a property as a boolean.
getPropertyCSVFormat(String) - Method in class org.encog.app.analyst.script.prop.ScriptProperties
  Get a property as a format.
getPropertyDouble(String) - Method in class org.encog.app.analyst.script.prop.ScriptProperties
  Get a property as a double.
getPropertyDouble(String) - Method in class org.encog.ml.BasicML
  Get the specified property as a double.
getPropertyDouble(String) - Method in interface org.encog.ml.MLProperties
  Get the specified property as a double.
getPropertyFile(String) - Method in class org.encog.app.analyst.script.prop.ScriptProperties
  Get a property as a file.
getPropertyFormat(String) - Method in class org.encog.app.analyst.script.prop.ScriptProperties
  Get a property as a format.
getPropertyInt(String) - Method in class org.encog.app.analyst.script.prop.ScriptProperties
  Get a property as a int.
getPropertyLong(String) - Method in class org.encog.ml.BasicML
  Get the specified property as a long.
getPropertyLong(String) - Method in interface org.encog.ml.MLProperties
  Get the specified property as a long.
getPropertyString(String) - Method in class org.encog.app.analyst.script.prop.ScriptProperties
  Get a property as a string.
getPropertyString(String) - Method in class org.encog.ml.BasicML
  Get the specified property as a string.
getPropertyString(String) - Method in interface org.encog.ml.MLProperties
  Get the specified property as a string.
getPropertyTargetLanguage(String) - Method in class org.encog.app.analyst.script.prop.ScriptProperties
  Get the property as a target language.
getPropertyURL(String) - Method in class org.encog.app.analyst.script.prop.ScriptProperties
  Get a property as a url.
getQ() - Method in class org.encog.mathutil.matrices.decomposition.QRDecomposition
  Generate and return the (economy-sized) orthogonal factor
getQuery() - Method in class org.encog.ml.bayesian.BayesianNetwork
getR() - Method in class org.encog.mathutil.matrices.decomposition.QRDecomposition
  Return the upper triangular factor
getRadius() - Method in class org.encog.neural.som.training.basic.neighborhood.NeighborhoodBubble
getRadius() - Method in interface org.encog.neural.som.training.basic.neighborhood.NeighborhoodFunction
getRadius() - Method in class org.encog.neural.som.training.basic.neighborhood.NeighborhoodRBF
getRadius() - Method in class org.encog.neural.som.training.basic.neighborhood.NeighborhoodRBF1D
getRadius() - Method in class org.encog.neural.som.training.basic.neighborhood.NeighborhoodSingle
  The radius for this neighborhood function is always 1.
getRaf() - Method in class org.encog.ml.data.buffer.EncogEGBFile
getRandom() - Method in class org.encog.mathutil.randomize.BasicRandomizer
getRandom() - Method in interface org.encog.mathutil.randomize.Randomizer
getRandom() - Method in class org.encog.ml.data.versatile.division.PerformDataDivision
getRandomFactory() - Method in class org.encog.Encog
getRandomFactory() - Method in class org.encog.ml.prg.generator.AbstractPrgGenerator
getRandomNumberFactory() - Method in class org.encog.ml.ea.train.basic.BasicEA
getRandomNumberFactory() - Method in class org.encog.neural.neat.NEATPopulation
getRange() - Method in class org.encog.app.analyst.wizard.AnalystWizard
getRange(int) - Method in class org.encog.mathutil.dimension.DimensionConstraint
  Get the range (between upper and lower bound) for the specified dimension.
getRatioX() - Method in interface org.encog.util.downsample.Downsample
getRatioX() - Method in class org.encog.util.downsample.RGBDownsample
getRatioY() - Method in interface org.encog.util.downsample.Downsample
getRatioY() - Method in class org.encog.util.downsample.RGBDownsample
getRBF() - Method in class org.encog.neural.flat.FlatNetworkRBF
getRBF() - Method in class org.encog.neural.rbf.RBFNetwork
  Get the RBF's.
getRBF() - Method in class org.encog.neural.som.training.basic.neighborhood.NeighborhoodRBF
getReal() - Method in class org.encog.mathutil.ComplexNumber
  Real part of this Complex number (the x-coordinate in rectangular coordinates).
getRealEigenvalues() - Method in class org.encog.mathutil.matrices.decomposition.EigenvalueDecomposition
  Return the real parts of the eigenvalues.
getRecord(long, MLDataPair) - Method in class org.encog.ensemble.data.EnsembleDataSet
getRecord(long, MLDataPair) - Method in class org.encog.ml.data.auto.AutoFloatDataSet
getRecord(long, MLDataPair) - Method in class org.encog.ml.data.basic.BasicMLDataSet
  Read an individual record, specified by index, in random order.
getRecord(long, MLDataPair) - Method in class org.encog.ml.data.basic.BasicMLSequenceSet
  Read an individual record, specified by index, in random order.
getRecord(long, MLDataPair) - Method in class org.encog.ml.data.buffer.BufferedMLDataSet
  Read an individual record.
getRecord(long, MLDataPair) - Method in class org.encog.ml.data.folded.FoldedDataSet
  Read an individual record, specified by index, in random order.
getRecord(long, MLDataPair) - Method in interface org.encog.ml.data.MLDataSet
  Read an individual record, specified by index, in random order.
getRecord(long, MLDataPair) - Method in class org.encog.ml.data.versatile.MatrixMLDataSet
  Read an individual record, specified by index, in random order.
getRecordBuffer() - Method in class org.encog.ml.data.buffer.EncogEGBFile
getRecordCount() - Method in class org.encog.app.analyst.csv.basic.BasicFile
getRecordCount() - Method in class org.encog.ensemble.data.EnsembleDataSet
getRecordCount() - Method in class org.encog.ml.data.auto.AutoFloatDataSet
getRecordCount() - Method in class org.encog.ml.data.basic.BasicMLDataSet
  Determine the total number of records in the set.
getRecordCount() - Method in class org.encog.ml.data.basic.BasicMLSequenceSet
  Determine the total number of records in the set.
getRecordCount() - Method in class org.encog.ml.data.buffer.BufferedMLDataSet
getRecordCount() - Method in class org.encog.ml.data.buffer.EncogEGBFile
getRecordCount() - Method in class org.encog.ml.data.folded.FoldedDataSet
  Determine the total number of records in the set.
getRecordCount() - Method in interface org.encog.ml.data.MLDataSet
  Determine the total number of records in the set.
getRecordCount() - Method in class org.encog.ml.data.versatile.MatrixMLDataSet
  Determine the total number of records in the set.
getRecordCount() - Method in class org.encog.util.normalize.DataNormalization
getRecordSize() - Method in class org.encog.ml.data.buffer.EncogEGBFile
getRelaxationThreshold() - Method in class org.encog.neural.neat.NEATNetwork
getReplaceThisNode() - Method in class org.encog.ml.tree.traverse.tasks.TaskReplaceNode
getReplaceWith() - Method in class org.encog.ml.tree.traverse.tasks.TaskReplaceNode
getReport() - Method in class org.encog.app.analyst.csv.basic.BasicFile
getReport() - Method in class org.encog.ml.model.EncogModel
getReport() - Method in class org.encog.util.normalize.DataNormalization
getReportInterval() - Method in class org.encog.app.analyst.csv.basic.BasicFile
getResourceName() - Method in class org.encog.util.normalize.input.InputFieldEncogCollection
getResourceName() - Method in class org.encog.util.normalize.target.NormalizationStorageEncogCollection
getResult() - Method in class org.encog.ml.bayesian.table.TableLine
getResult() - Method in class org.encog.ml.data.buffer.MemoryDataLoader
getResult() - Method in class org.encog.ml.prg.EncogProgramContext
getResult() - Method in class org.encog.ml.tree.traverse.tasks.TaskGetNodeIndex
getResults() - Method in class org.encog.neural.prune.PruneIncremental
getReturnType() - Method in class org.encog.ml.prg.EncogProgram
getReturnValue() - Method in class org.encog.ml.prg.extension.BasicTemplate
getReturnValue() - Method in interface org.encog.ml.prg.extension.ProgramExtensionTemplate
getRevertData() - Method in class org.encog.app.analyst.EncogAnalyst
getReward() - Method in class org.encog.ml.world.basic.BasicState
getReward() - Method in interface org.encog.ml.world.State
getRewriteRules() - Method in class org.encog.ml.ea.rules.BasicRuleHolder
getRewriteRules() - Method in interface org.encog.ml.ea.rules.RuleHolder
getRms() - Method in class org.encog.mathutil.NumericRange
getRnd() - Method in class org.encog.ml.data.cross.KFoldCrossvalidation
getRoot() - Method in class org.encog.ml.graph.BasicGraph
getRootNode() - Method in class org.encog.ml.prg.EncogProgram
getRounds() - Method in class org.encog.ml.ea.opp.selection.TournamentSelection
getRow(int) - Method in class org.encog.mathutil.matrices.Matrix
  Get the specified row as a sub-matrix.
getRow() - Method in class org.encog.ml.world.grid.GridState
getRowMovement() - Method in class org.encog.ca.program.basic.Movement
getRows() - Method in class org.encog.ca.universe.basic.BasicUniverse
getRows() - Method in interface org.encog.ca.universe.Universe
getRows() - Method in class org.encog.mathutil.matrices.Matrix
  Get the number of rows in the matrix.
getRows() - Method in class org.encog.ml.world.grid.GridWorld
getRPROPType() - Method in class org.encog.neural.networks.training.propagation.resilient.ResilientPropagation
getRules() - Method in class org.encog.ml.ea.train.basic.BasicEA
getRules() - Method in interface org.encog.ml.ea.train.EvolutionaryAlgorithm
getRunCycles() - Method in class org.encog.neural.pattern.BoltzmannPattern
getRunCycles() - Method in class org.encog.neural.thermal.BoltzmannMachine
getRunningCounts() - Method in class org.encog.util.normalize.segregate.IntegerBalanceSegregator
getS() - Method in class org.encog.mathutil.matrices.decomposition.SingularValueDecomposition
  Return the diagonal matrix of singular values
getSamples() - Method in class org.encog.mathutil.NumericRange
getSamples() - Method in class org.encog.neural.pnn.BasicPNN
getSampleSize() - Method in class org.encog.ml.bayesian.query.sample.SamplingQuery
getSampleSize() - Method in class org.encog.util.normalize.segregate.index.IndexSampleSegregator
getScore() - Method in class org.encog.ca.runner.BasicCARunner
getScore() - Method in interface org.encog.ca.runner.CARunner
getScore() - Method in class org.encog.ml.anneal.SimulatedAnnealing
getScore() - Method in class org.encog.ml.data.cross.DataFold
getScore() - Method in class org.encog.ml.ea.genome.BasicGenome
getScore() - Method in interface org.encog.ml.ea.genome.Genome
getScore() - Method in class org.encog.ml.fitness.FitnessObjective
getScore() - Method in class org.encog.ml.prg.generator.AbstractPrgGenerator
getScoreAdjusters() - Method in class org.encog.ml.ea.train.basic.BasicEA
getScoreAdjusters() - Method in interface org.encog.ml.ea.train.EvolutionaryAlgorithm
getScoreFunction() - Method in class org.encog.ml.ea.score.parallel.ParallelScore
getScoreFunction() - Method in class org.encog.ml.ea.train.basic.BasicEA
getScoreFunction() - Method in interface org.encog.ml.ea.train.EvolutionaryAlgorithm
getScript() - Method in class org.encog.app.analyst.commands.Cmd
getScript() - Method in class org.encog.app.analyst.csv.basic.BasicFile
getScript() - Method in class org.encog.app.analyst.EncogAnalyst
getScript() - Method in class org.encog.app.analyst.script.preprocess.AnalystPreprocess
getSd() - Method in class org.encog.ml.data.versatile.columns.ColumnDefinition
getSearch() - Method in class org.encog.ml.bayesian.training.TrainBayesian
getSection() - Method in class org.encog.app.analyst.script.prop.PropertyEntry
getSectionName() - Method in class org.encog.persist.EncogFileSection
getSeed() - Method in class org.encog.mathutil.randomize.generate.LinearCongruentialRandom
getSegregate() - Method in class org.encog.app.analyst.script.AnalystScript
getSegregateTargets() - Method in class org.encog.app.analyst.script.segregate.AnalystSegregate
getSegregators() - Method in class org.encog.util.normalize.DataNormalization
getSelection() - Method in class org.encog.ml.ea.train.basic.BasicEA
getSelection() - Method in interface org.encog.ml.ea.train.EvolutionaryAlgorithm
getSelectionComparator() - Method in class org.encog.ml.ea.train.basic.BasicEA
  Get the comparator that is used to choose the "best" genome for selection, as opposed to the "true best".
getSelectionComparator() - Method in interface org.encog.ml.ea.train.EvolutionaryAlgorithm
  Get the comparator that is used to choose the "best" genome for selection, as opposed to the "true best".
getSeparator() - Method in class org.encog.util.csv.CSVFormat
getSequence(int) - Method in class org.encog.ml.data.basic.BasicMLSequenceSet
getSequence(int) - Method in interface org.encog.ml.data.MLSequenceSet
  Get an individual sequence.
getSequence() - Method in class org.encog.ml.data.temporal.TemporalPoint
getSequenceCount() - Method in class org.encog.ml.data.basic.BasicMLSequenceSet
getSequenceCount() - Method in interface org.encog.ml.data.MLSequenceSet
getSequenceCount() - Method in class org.encog.ml.hmm.alog.KullbackLeiblerDistanceCalculator
getSequenceFromDate(Date) - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
  Create a sequence number from a time.
getSequenceGrandularity() - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
getSequences() - Method in class org.encog.ml.data.basic.BasicMLSequenceSet
getSequences() - Method in interface org.encog.ml.data.MLSequenceSet
getShouldIgnoreExceptions() - Method in class org.encog.ml.ea.train.basic.BasicEA
getShouldIgnoreExceptions() - Method in interface org.encog.ml.ea.train.EvolutionaryAlgorithm
getShouldStop() - Method in class org.encog.util.concurrency.job.ConcurrentJob
getShrink() - Method in class org.encog.neural.networks.training.propagation.quick.QuickPropagation
getSigma() - Method in class org.encog.ml.fitting.gaussian.GaussianFitting
getSigma() - Method in class org.encog.neural.pnn.BasicPNN
getSigmaHigh() - Method in class org.encog.neural.networks.training.pnn.TrainBasicPNN
getSigmaLow() - Method in class org.encog.neural.networks.training.pnn.TrainBasicPNN
getSignature() - Method in class org.encog.ml.prg.extension.BasicTemplate
getSignificance() - Method in class org.encog.ensemble.data.factories.EnsembleDataSetFactory
getSignificance() - Method in class org.encog.ml.data.basic.BasicMLDataPair
  Get the significance, 1.0 is neutral.
getSignificance() - Method in interface org.encog.ml.data.MLDataPair
  Get the significance, 1.0 is neutral.
getSingularValues() - Method in class org.encog.mathutil.matrices.decomposition.SingularValueDecomposition
  Return the one-dimensional array of singular values
getSlice(int) - Method in class org.encog.app.analyst.util.CSVHeaders
  Get the timeslice for the specified index.
getSolution() - Method in class org.encog.ml.graph.search.AbstractGraphSearch
getSolution() - Method in interface org.encog.ml.graph.search.GraphSearch
getSortGenomes() - Method in class org.encog.ml.ea.species.ThresholdSpeciation
getSortOrder() - Method in class org.encog.app.analyst.csv.sort.SortCSV
getSortType() - Method in class org.encog.app.analyst.csv.sort.SortedField
getSource() - Method in class org.encog.app.analyst.script.DataField
getSource() - Method in class org.encog.app.analyst.wizard.SourceElement
getSource() - Method in class org.encog.bot.browse.range.DocumentRange
getSource() - Method in class org.encog.neural.freeform.basic.BasicFreeformConnection
getSource() - Method in interface org.encog.neural.freeform.FreeformConnection
getSource() - Method in class org.encog.neural.hyperneat.substrate.SubstrateLink
getSourceColumns() - Method in class org.encog.ml.data.versatile.NormalizationHelper
getSourceField() - Method in class org.encog.util.normalize.output.mapped.OutputFieldEncode
getSourceField() - Method in class org.encog.util.normalize.output.OutputFieldGrouped
getSourceField() - Method in class org.encog.util.normalize.segregate.RangeSegregator
getSourceUniverse() - Method in interface org.encog.ca.program.CAProgram
getSourceUniverse() - Method in class org.encog.ca.program.conway.ConwayProgram
getSourceUniverse() - Method in class org.encog.ca.program.elementary.ElementaryCA
getSourceUniverse() - Method in class org.encog.ca.program.generic.GenericCA
getSpan(TimeUnit) - Method in class org.encog.util.time.TimeSpan
  Get the time span specified by the unit.
getSparseData() - Method in class org.encog.ml.data.sparse.SparseMLData
getSparseIndex() - Method in class org.encog.ml.data.sparse.SparseMLData
getSpeciation() - Method in class org.encog.ml.ea.train.basic.BasicEA
getSpeciation() - Method in interface org.encog.ml.ea.train.EvolutionaryAlgorithm
getSpecies() - Method in class org.encog.ml.ea.genome.BasicGenome
getSpecies() - Method in interface org.encog.ml.ea.genome.Genome
getSpecies() - Method in class org.encog.ml.ea.population.BasicPopulation
getSpecies() - Method in interface org.encog.ml.ea.population.Population
getSSE() - Method in class org.encog.mathutil.matrices.hessian.BasicHessian
getSSE() - Method in interface org.encog.mathutil.matrices.hessian.ComputeHessian
getStackTrace(Throwable) - Static method in class org.encog.plugin.system.SystemLoggingPlugin
  Create a stack trace.
getStandardDeviation() - Method in class org.encog.app.analyst.script.DataField
getStandardDeviation() - Method in class org.encog.mathutil.NumericRange
getStartingIndex() - Method in class org.encog.util.normalize.segregate.index.IndexRangeSegregator
getStartingIndex() - Method in class org.encog.util.normalize.segregate.index.IndexSampleSegregator
getStartingPoint() - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
getStartNode() - Method in class org.encog.ml.schedule.ScheduleGraph
getStartTemperature() - Method in class org.encog.ml.anneal.SimulatedAnnealing
getState(int, int) - Method in class org.encog.ml.world.grid.GridWorld
getState() - Method in class org.encog.ml.world.SuccessorState
getStateCount() - Method in class org.encog.ml.hmm.HiddenMarkovModel
getStateDistribution(int) - Method in class org.encog.ml.hmm.HiddenMarkovModel
getStates() - Method in class org.encog.ml.world.basic.BasicWorld
getStates() - Method in interface org.encog.ml.world.World
getStatesForSequence(MLDataSet) - Method in class org.encog.ml.hmm.HiddenMarkovModel
getStatesForSequence(MLDataSet) - Method in interface org.encog.ml.MLStateSequence
  Get the sates for the given sequence.
getStats() - Method in class org.encog.util.arrayutil.NormalizeArray
getStatus() - Method in class org.encog.ml.data.buffer.BinaryDataLoader
getStatus() - Method in class org.encog.ml.data.buffer.MemoryDataLoader
getStopTemperature() - Method in class org.encog.ml.anneal.SimulatedAnnealing
getStorage() - Method in class org.encog.util.normalize.DataNormalization
getStrategies() - Method in class org.encog.ml.ea.train.basic.TrainEA
getStrategies() - Method in class org.encog.ml.hmm.train.bw.BaseBaumWelch
getStrategies() - Method in class org.encog.ml.hmm.train.kmeans.TrainKMeans
getStrategies() - Method in class org.encog.ml.train.BasicTraining
getStrategies() - Method in interface org.encog.ml.train.MLTrain
getStrategies() - Method in class org.encog.neural.networks.training.concurrent.jobs.TrainingJob
getString(String, boolean, String) - Method in class org.encog.util.ParamsHolder
  Get a param as a string.
getStripEfficiency() - Method in class org.encog.ml.train.strategy.end.EarlyStoppingStrategy
getStripLength() - Method in class org.encog.ml.train.strategy.end.EarlyStoppingStrategy
getStripOpt() - Method in class org.encog.ml.train.strategy.end.EarlyStoppingStrategy
getStructure() - Method in class org.encog.neural.networks.BasicNetwork
getSubfieldCount() - Method in class org.encog.util.normalize.output.mapped.OutputFieldEncode
getSubfieldCount() - Method in class org.encog.util.normalize.output.multiplicative.OutputFieldMultiplicative
getSubfieldCount() - Method in class org.encog.util.normalize.output.nominal.OutputEquilateral
  This is the total number of nominal items minus 1.
getSubfieldCount() - Method in class org.encog.util.normalize.output.nominal.OutputOneOf
getSubfieldCount() - Method in interface org.encog.util.normalize.output.OutputField
getSubfieldCount() - Method in class org.encog.util.normalize.output.OutputFieldDirect
getSubfieldCount() - Method in class org.encog.util.normalize.output.OutputFieldRangeMapped
getSubfieldCount() - Method in class org.encog.util.normalize.output.zaxis.OutputFieldZAxis
getSubfieldCount() - Method in class org.encog.util.normalize.output.zaxis.OutputFieldZAxisSynthetic
getSubSectionName() - Method in class org.encog.persist.EncogFileSection
getSubstrate() - Method in class org.encog.neural.neat.NEATPopulation
getSum() - Method in class org.encog.neural.freeform.basic.BasicActivationSummation
getSum() - Method in class org.encog.neural.freeform.basic.BasicFreeformNeuron
getSum() - Method in interface org.encog.neural.freeform.FreeformNeuron
getSum() - Method in interface org.encog.neural.freeform.InputSummation
getSurvivalRate() - Method in class org.encog.neural.neat.NEATPopulation
getSVMType() - Method in class org.encog.ml.svm.SVM
getSymbol() - Method in class org.encog.ml.data.market.TickerSymbol
getTable() - Method in class org.encog.ml.bayesian.BayesianEvent
getTable() - Method in class org.encog.ml.bayesian.bif.BIFDefinition
getTag() - Method in class org.encog.bot.dataunit.TagDataUnit
getTag() - Method in class org.encog.parse.tags.read.ReadTags
  Return the last tag found, this is normally called just after the read function returns a zero.
getTarget() - Method in class org.encog.bot.browse.range.Link
getTarget() - Method in class org.encog.neural.freeform.basic.BasicFreeformConnection
getTarget() - Method in interface org.encog.neural.freeform.FreeformConnection
getTarget() - Method in class org.encog.neural.hyperneat.substrate.SubstrateLink
getTarget() - Method in class org.encog.util.normalize.segregate.IntegerBalanceSegregator
getTargetField() - Method in class org.encog.app.analyst.wizard.AnalystWizard
getTargetLanguage() - Method in class org.encog.app.generate.EncogCodeGeneration
getTargets() - Method in class org.encog.app.analyst.csv.segregate.SegregateCSV
getTargetUniverse() - Method in interface org.encog.ca.program.CAProgram
getTargetUniverse() - Method in class org.encog.ca.program.conway.ConwayProgram
getTargetUniverse() - Method in class org.encog.ca.program.elementary.ElementaryCA
getTargetUniverse() - Method in class org.encog.ca.program.generic.GenericCA
getTask(String) - Method in class org.encog.app.analyst.script.AnalystScript
  Get the specified task.
getTaskNumber() - Method in class org.encog.util.concurrency.job.JobUnitContext
getTasks() - Method in class org.encog.app.analyst.script.AnalystScript
getTemperature() - Method in class org.encog.ml.anneal.SimulatedAnnealing
getTemperature() - Method in class org.encog.neural.pattern.BoltzmannPattern
getTemperature() - Method in class org.encog.neural.thermal.BoltzmannMachine
getTemplate() - Method in class org.encog.ml.prg.ProgramNode
getTemplateMap() - Method in class org.encog.ml.prg.extension.FunctionFactory
getTemplatePath() - Method in class org.encog.app.generate.generators.AbstractTemplateGenerator
getTemplatePath() - Method in class org.encog.app.generate.generators.mql4.GenerateMQL4
getTemplatePath() - Method in class org.encog.app.generate.generators.ninja.GenerateNinjaScript
getTempTraining(int) - Method in class org.encog.neural.freeform.basic.BasicFreeformConnection
  Get the specified temp training.
getTempTraining(int) - Method in class org.encog.neural.freeform.basic.BasicFreeformNeuron
  Get the specified temp training.
getTempTraining(int) - Method in interface org.encog.neural.freeform.TempTrainingData
  Get the specified temp training.
getTestError() - Method in class org.encog.ml.train.strategy.end.EarlyStoppingStrategy
getText() - Method in class org.encog.bot.dataunit.TextDataUnit
getTextOnly() - Method in class org.encog.bot.browse.range.DocumentRange
  Get the text from this range.
getThreadCount() - Method in class org.encog.mathutil.matrices.hessian.HessianCR
getThreadCount() - Method in class org.encog.ml.ea.score.parallel.ParallelScore
getThreadCount() - Method in class org.encog.ml.ea.train.basic.BasicEA
getThreadCount() - Method in class org.encog.ml.genetic.MLMethodGeneticAlgorithm
getThreadCount() - Method in class org.encog.ml.prg.generator.AbstractPrgGenerator
getThreadCount() - Method in class org.encog.neural.networks.training.lma.LevenbergMarquardtTraining
getThreadCount() - Method in class org.encog.neural.networks.training.propagation.Propagation
getThreadCount() - Method in class org.encog.util.concurrency.DetermineWorkload
getThreadCount() - Method in class org.encog.util.concurrency.EngineConcurrency
getThreadCount() - Method in class org.encog.util.concurrency.job.ConcurrentJob
getThreadCount() - Method in interface org.encog.util.concurrency.MultiThreadable
getThreshold() - Method in class org.encog.neural.thermal.BoltzmannMachine
getThresholdHigh() - Method in class org.encog.engine.network.activation.ActivationRamp
getThresholdLow() - Method in class org.encog.engine.network.activation.ActivationRamp
getTicker() - Method in class org.encog.ml.data.market.loader.LoadedMarketData
getTicker() - Method in class org.encog.ml.data.market.MarketDataDescription
getTimeSlice() - Method in class org.encog.app.analyst.script.normalize.AnalystField
getTitle() - Method in class org.encog.bot.browse.WebPage
  Get the title for this document.
getTitle() - Method in class org.encog.bot.rss.RSSItem
  Get the item title.
getTo() - Method in class org.encog.ml.graph.BasicEdge
getTo() - Method in class org.encog.neural.networks.NeuralDataMapping
getTo() - Method in class org.encog.util.time.TimeSpan
getToNeuron() - Method in class org.encog.neural.neat.NEATLink
getToNeuronID() - Method in class org.encog.neural.neat.training.NEATLinkGene
getTopErrors() - Method in class org.encog.neural.prune.PruneIncremental
getTopNetworks() - Method in class org.encog.neural.prune.PruneIncremental
getTotalConnections() - Method in class org.encog.neural.networks.structure.AnalyzeNetwork
getTotalCount() - Method in class org.encog.neural.flat.FlatLayer
getTotalDepth() - Method in class org.encog.app.analyst.csv.TimeSeriesUtil
getTotalWindowSize() - Method in class org.encog.app.analyst.csv.process.ProcessExtension
getTotalWords() - Method in class org.encog.util.text.BagOfWords
getTrain() - Method in class org.encog.neural.networks.training.concurrent.jobs.TrainingJob
getTrainer() - Method in interface org.encog.ml.ea.opp.selection.SelectionOperator
getTrainer() - Method in class org.encog.ml.ea.opp.selection.TournamentSelection
getTrainer() - Method in class org.encog.ml.ea.opp.selection.TruncationSelection
getTrainer() - Method in interface org.encog.neural.neat.training.opp.links.MutateLinkWeight
getTrainer() - Method in class org.encog.neural.neat.training.opp.links.MutatePerturbLinkWeight
getTrainer() - Method in class org.encog.neural.neat.training.opp.links.MutateResetLinkWeight
getTrainer() - Method in class org.encog.neural.neat.training.opp.links.SelectFixed
getTrainer() - Method in interface org.encog.neural.neat.training.opp.links.SelectLinks
getTrainer() - Method in class org.encog.neural.neat.training.opp.links.SelectProportion
getTraining() - Method in interface org.encog.ensemble.EnsembleML
getTraining(MLMethod, MLDataSet) - Method in interface org.encog.ensemble.EnsembleTrainFactory
getTraining() - Method in class org.encog.ensemble.GenericEnsembleML
getTraining(MLMethod, MLDataSet) - Method in class org.encog.ensemble.training.BackpropagationFactory
getTraining(MLMethod, MLDataSet) - Method in class org.encog.ensemble.training.LevenbergMarquardtFactory
getTraining(MLMethod, MLDataSet) - Method in class org.encog.ensemble.training.ManhattanPropagationFactory
getTraining(MLMethod, MLDataSet) - Method in class org.encog.ensemble.training.ResilientPropagationFactory
getTraining(MLMethod, MLDataSet) - Method in class org.encog.ensemble.training.ScaledConjugateGradientFactory
getTraining() - Method in class org.encog.ml.data.cross.DataFold
getTraining() - Method in class org.encog.ml.ea.train.basic.TrainEA
  Returns null, does not use a training set, rather uses a score function.
getTraining() - Method in class org.encog.ml.fitting.gaussian.TrainGaussian
getTraining() - Method in class org.encog.ml.fitting.linear.TrainLinearRegression
getTraining() - Method in class org.encog.ml.hmm.train.bw.BaseBaumWelch
getTraining() - Method in class org.encog.ml.hmm.train.kmeans.TrainKMeans
getTraining() - Method in class org.encog.ml.train.BasicTraining
getTraining() - Method in interface org.encog.ml.train.MLTrain
getTraining() - Method in class org.encog.neural.freeform.training.FreeformPropagationTraining
getTraining() - Method in class org.encog.neural.networks.training.concurrent.jobs.TrainingJob
getTraining() - Method in class org.encog.neural.prune.PruneIncremental
getTrainingDataset() - Method in class org.encog.ml.model.EncogModel
getTrainingError() - Method in class org.encog.ml.train.strategy.end.EarlyStoppingStrategy
getTrainingError() - Method in class org.encog.ml.train.strategy.end.SimpleEarlyStoppingStrategy
getTrainingSet(int) - Method in class org.encog.ensemble.Ensemble
  Extract a specific training set from the Ensemble
getTrainingSet() - Method in interface org.encog.ensemble.EnsembleML
getTrainingSet() - Method in class org.encog.ensemble.GenericEnsembleML
getTrainingType() - Method in class org.encog.neural.networks.training.propagation.TrainingContinuation
getTransitionProbability(int, int) - Method in class org.encog.ml.hmm.HiddenMarkovModel
getTransitionProbability() - Method in class org.encog.ml.hmm.HiddenMarkovModel
getTrueValue() - Method in class org.encog.util.normalize.output.nominal.OutputOneOf
getType() - Method in class org.encog.app.generate.program.EncogProgramArg
getType() - Method in class org.encog.app.generate.program.EncogProgramNode
getType() - Method in class org.encog.bot.browse.range.Input
getType() - Method in class org.encog.ml.data.temporal.TemporalDataDescription
getType() - Method in class org.encog.parse.tags.Tag
getTypes() - Method in class org.encog.ml.prg.opp.LevelHolder
getU() - Method in class org.encog.mathutil.matrices.decomposition.LUDecomposition
  Return upper triangular factor
getU() - Method in class org.encog.mathutil.matrices.decomposition.SingularValueDecomposition
  Return the left singular vectors
getUnderlying() - Method in class org.encog.ml.data.folded.FoldedDataSet
getUniqueWords() - Method in class org.encog.util.text.BagOfWords
getUniverse() - Method in class org.encog.ca.runner.BasicCARunner
getUniverse() - Method in interface org.encog.ca.runner.CARunner
getUnknownValues() - Method in class org.encog.ml.data.versatile.NormalizationHelper
getUpdateValues() - Method in class org.encog.neural.networks.training.propagation.resilient.ResilientPropagation
getUpper() - Method in class org.encog.mathutil.dimension.DimensionConstraint
getUpper(int) - Method in class org.encog.mathutil.dimension.DimensionConstraint
  Get the upper bound for a specific dimension.
getUrl() - Method in class org.encog.bot.browse.Address
getUsedForNetworkInput() - Method in class org.encog.util.normalize.input.BasicInputField
getUsedForNetworkInput() - Method in interface org.encog.util.normalize.input.InputField
getUtility() - Method in class org.encog.app.analyst.EncogAnalyst
getV() - Method in class org.encog.mathutil.matrices.decomposition.EigenvalueDecomposition
  Return the eigenvector matrix.
getV() - Method in class org.encog.mathutil.matrices.decomposition.SingularValueDecomposition
  Return the right singular vectors
getValidation() - Method in class org.encog.ml.data.cross.DataFold
getValidationDataset() - Method in class org.encog.ml.model.EncogModel
getValidationError() - Method in class org.encog.ml.train.strategy.end.EarlyStoppingStrategy
getValidationError() - Method in class org.encog.ml.train.strategy.end.SimpleEarlyStoppingStrategy
getValue() - Method in class org.encog.app.generate.program.EncogProgramArg
getValue() - Method in class org.encog.bot.browse.range.FormElement
getValue() - Method in class org.encog.ml.bayesian.parse.ParsedEvent
getValue() - Method in class org.encog.ml.bayesian.query.sample.EventState
getValue(int) - Method in class org.encog.util.normalize.input.BasicInputField
  Not supported for this sort of class, may be implemented in subclasses.
getValue(int) - Method in interface org.encog.util.normalize.input.InputField
  Called for input field types that require an index to get the current value.
getValue(int) - Method in class org.encog.util.normalize.input.InputFieldArray1D
  Get the value from the specified index.
getValue(int) - Method in class org.encog.util.normalize.input.InputFieldArray2D
  Read a value from the specified index.
getValue() - Method in class org.encog.util.normalize.output.mapped.MappedRange
getVariable(int) - Method in class org.encog.ml.prg.EncogProgramVariables
  Get a variable value by index.
getVariable(String) - Method in class org.encog.ml.prg.EncogProgramVariables
  Get a variable value by name.
getVariableIndex(String) - Method in class org.encog.ml.prg.EncogProgramVariables
  Get a variable index by name.
getVariableName(int) - Method in class org.encog.ml.prg.EncogProgramVariables
  Get a variable name by index.
getVariables() - Method in class org.encog.ml.prg.EncogProgram
getVariableType() - Method in class org.encog.ml.prg.VariableMapping
getVigilance() - Method in class org.encog.neural.art.ART1
getVigilance() - Method in class org.encog.neural.pattern.ART1Pattern
getVisited() - Method in class org.encog.ml.world.basic.BasicState
getVisited() - Method in interface org.encog.ml.world.State
getWeight() - Method in class org.encog.ml.fitness.FitnessObjective
getWeight() - Method in class org.encog.neural.freeform.basic.BasicFreeformConnection
getWeight() - Method in interface org.encog.neural.freeform.FreeformConnection
getWeight() - Method in class org.encog.neural.neat.NEATLink
getWeight() - Method in class org.encog.neural.neat.training.NEATLinkGene
getWeight(int, int, int) - Method in class org.encog.neural.networks.BasicNetwork
  Get the weight between the two layers.
getWeight(int, int) - Method in class org.encog.neural.thermal.ThermalNetwork
  Get a weight.
getWeightIndex() - Method in class org.encog.neural.flat.FlatNetwork
getWeightMutation() - Method in class org.encog.neural.neat.training.opp.NEATMutateWeights
getWeightRange() - Method in class org.encog.neural.neat.NEATPopulation
getWeights() - Method in class org.encog.ml.fitting.gaussian.GaussianFitting
getWeights() - Method in class org.encog.ml.fitting.linear.LinearRegression
getWeights() - Method in class org.encog.neural.flat.FlatNetwork
getWeights() - Method in class org.encog.neural.networks.structure.AnalyzeNetwork
getWeights() - Method in class org.encog.neural.networks.training.cross.NetworkFold
getWeights() - Method in class org.encog.neural.networks.training.propagation.GradientWorker
getWeights() - Method in class org.encog.neural.som.SOM
getWeights() - Method in class org.encog.neural.thermal.ThermalNetwork
getWeightsAndBias() - Method in class org.encog.neural.networks.structure.AnalyzeNetwork
getWeightsF1toF2() - Method in class org.encog.neural.art.ART1
getWeightsF1toF2() - Method in class org.encog.neural.bam.BAM
getWeightsF2toF1() - Method in class org.encog.neural.art.ART1
getWeightsF2toF1() - Method in class org.encog.neural.bam.BAM
getWeightsInputToInstar() - Method in class org.encog.neural.cpn.CPN
getWeightsInstarToOutstar() - Method in class org.encog.neural.cpn.CPN
getWeightValues() - Method in class org.encog.neural.networks.structure.AnalyzeNetwork
getWhen() - Method in class org.encog.ml.data.market.loader.LoadedMarketData
getWhen() - Method in class org.encog.ml.data.market.MarketPoint
getWidth() - Method in class org.encog.mathutil.rbf.BasicRBF
getWidth() - Method in interface org.encog.mathutil.rbf.RadialBasisFunction
getWidth() - Method in class org.encog.platformspecific.j2se.data.image.ImageMLDataSet
getWidth() - Method in class org.encog.util.ImageSize
getWinner() - Method in class org.encog.neural.art.ART1
getWinnerCount() - Method in class org.encog.neural.cpn.CPN
getWords() - Method in class org.encog.util.text.BagOfWords
getWorld() - Method in interface org.encog.ml.world.AgentPolicy
getWorld() - Method in class org.encog.ml.world.basic.BasicAgent
getWorld() - Method in class org.encog.ml.world.grid.probability.GridAbstractProbability
getWorld() - Method in class org.encog.ml.world.learning.mdp.MarkovDecisionProcess
getWorld() - Method in interface org.encog.ml.world.WorldAgent
getWorstDistance() - Method in class org.encog.neural.som.training.basic.BestMatchingUnit
getX() - Method in class org.encog.mathutil.IntPair
getX1() - Method in class org.encog.neural.networks.training.pnn.GlobalMinimumSearch
getX2() - Method in class org.encog.neural.networks.training.pnn.GlobalMinimumSearch
getX3() - Method in class org.encog.neural.networks.training.pnn.GlobalMinimumSearch
getXMLText(Node) - Static method in class org.encog.bot.rss.RSS
  Simple utility method that obtains the text of an XML node.
getY() - Method in class org.encog.mathutil.IntPair
getY1() - Method in class org.encog.neural.networks.training.pnn.GlobalMinimumSearch
getY2() - Method in class org.encog.neural.networks.training.pnn.GlobalMinimumSearch
getY3() - Method in class org.encog.neural.networks.training.pnn.GlobalMinimumSearch
getYear(long) - Static method in class org.encog.util.time.NumericDateUtil
getZoom() - Method in class org.encog.ca.visualize.basic.BasicCAVisualizer
getZoom() - Method in interface org.encog.ca.visualize.CAVisualizer
GlobalMinimumSearch - Class in org.encog.neural.networks.training.pnn
  Search sigma's for a global minimum.
GlobalMinimumSearch() - Constructor for class org.encog.neural.networks.training.pnn.GlobalMinimumSearch
gradients - Variable in class org.encog.mathutil.matrices.hessian.BasicHessian
  The gradients of the Hessian.
gradients - Variable in class org.encog.neural.networks.training.propagation.Propagation
  The gradients.
GradientWorker - Class in org.encog.neural.networks.training.propagation
  Worker class for the mulithreaded training of flat networks.
GradientWorker(FlatNetwork, Propagation, MLDataSet, int, int, double[], ErrorFunction) - Constructor for class org.encog.neural.networks.training.propagation.GradientWorker
  Construct a gradient worker.
GraphSearch - Interface in org.encog.ml.graph.search
Greedy - Class in org.encog.ml.train.strategy
  A simple greedy strategy.
Greedy() - Constructor for class org.encog.ml.train.strategy.Greedy
GridAbstractProbability - Class in org.encog.ml.world.grid.probability
GridAbstractProbability(GridWorld) - Constructor for class org.encog.ml.world.grid.probability.GridAbstractProbability
GridDeterministicProbability - Class in org.encog.ml.world.grid.probability
GridDeterministicProbability(GridWorld) - Constructor for class org.encog.ml.world.grid.probability.GridDeterministicProbability
GridState - Class in org.encog.ml.world.grid
GridState(GridWorld, int, int, boolean) - Constructor for class org.encog.ml.world.grid.GridState
GridStochasticProbability - Class in org.encog.ml.world.grid.probability
GridStochasticProbability(GridWorld, double, double, double, double, double) - Constructor for class org.encog.ml.world.grid.probability.GridStochasticProbability
GridStochasticProbability(GridWorld) - Constructor for class org.encog.ml.world.grid.probability.GridStochasticProbability
GridWorld - Class in org.encog.ml.world.grid
GridWorld(int, int) - Constructor for class org.encog.ml.world.grid.GridWorld
GZIP - Static variable in class org.encog.util.text.Base64
  Specify that data should be gzip-compressed in second bit.

## H

h1(String) - Method in class org.encog.util.HTMLReport
h2(String) - Method in class org.encog.util.HTMLReport
h3(String) - Method in class org.encog.util.HTMLReport
handleMissing(EncogAnalyst, AnalystField) - Method in class org.encog.app.analyst.missing.DiscardMissing
handleMissing(EncogAnalyst, AnalystField) - Method in interface org.encog.app.analyst.missing.HandleMissingValues
handleMissing(EncogAnalyst, AnalystField) - Method in class org.encog.app.analyst.missing.MeanAndModeMissing
handleMissing(EncogAnalyst, AnalystField) - Method in class org.encog.app.analyst.missing.NegateMissing
HandleMissingValues - Interface in org.encog.app.analyst.missing
hasBias() - Method in class org.encog.neural.flat.FlatLayer
hasBias() - Method in class org.encog.neural.freeform.basic.BasicFreeformLayer
hasBias() - Method in interface org.encog.neural.freeform.FreeformLayer
hasBias() - Method in interface org.encog.neural.networks.layers.Layer
hasChildren() - Method in class org.encog.ml.bayesian.BayesianEvent
hasClasses() - Method in class org.encog.app.analyst.script.AnalystScript
hasDerivative() - Method in class org.encog.engine.network.activation.ActivationBiPolar
hasDerivative() - Method in class org.encog.engine.network.activation.ActivationBipolarSteepenedSigmoid
hasDerivative() - Method in class org.encog.engine.network.activation.ActivationClippedLinear
hasDerivative() - Method in class org.encog.engine.network.activation.ActivationCompetitive
hasDerivative() - Method in class org.encog.engine.network.activation.ActivationElliott
hasDerivative() - Method in class org.encog.engine.network.activation.ActivationElliottSymmetric
hasDerivative() - Method in interface org.encog.engine.network.activation.ActivationFunction
hasDerivative() - Method in class org.encog.engine.network.activation.ActivationGaussian
hasDerivative() - Method in class org.encog.engine.network.activation.ActivationLinear
hasDerivative() - Method in class org.encog.engine.network.activation.ActivationLOG
hasDerivative() - Method in class org.encog.engine.network.activation.ActivationRamp
hasDerivative() - Method in class org.encog.engine.network.activation.ActivationSigmoid
hasDerivative() - Method in class org.encog.engine.network.activation.ActivationSIN
hasDerivative() - Method in class org.encog.engine.network.activation.ActivationSoftMax
hasDerivative() - Method in class org.encog.engine.network.activation.ActivationSteepenedSigmoid
hasDerivative() - Method in class org.encog.engine.network.activation.ActivationStep
hasDerivative() - Method in class org.encog.engine.network.activation.ActivationTANH
hasEnum() - Method in class org.encog.ml.prg.EncogProgramContext
HasFixedLength - Interface in org.encog.util.normalize.input
  Is this input field of a fixed length, such as an array? Or is it read "iterator style" where we call "next" until there is no more data.
hasGiven(String) - Method in class org.encog.ml.bayesian.BayesianEvent
  Return true if the event has the specified given event.
hashCode() - Method in class org.encog.mathutil.matrices.Matrix
  Compute a hash code for this matrix.
hashCode() - Method in class org.encog.ml.data.market.TickerSymbol
hashCode() - Method in class org.encog.neural.networks.BasicNetwork
  Generate a hash code.
hasMissing() - Method in class org.encog.util.csv.ReadCSV
hasNext() - Method in class org.encog.ml.data.auto.AutoFloatDataSet.AutoFloatIterator
hasNext() - Method in class org.encog.ml.data.basic.BasicMLDataSet.BasicMLIterator
hasNext() - Method in class org.encog.ml.data.basic.BasicMLSequenceSet.BasicMLSeqIterator
hasNext() - Method in class org.encog.ml.data.buffer.BufferedDataSetIterator
hasNext() - Method in class org.encog.ml.data.folded.FoldedIterator
hasNext() - Method in class org.encog.ml.data.versatile.MatrixMLDataSet.MatrixMLDataSetIterator
hasParents() - Method in class org.encog.ml.bayesian.BayesianEvent
hasSameActivationFunction() - Method in class org.encog.neural.flat.FlatNetwork
  Neural networks with only one type of activation function offer certain optimization options.
hasSource() - Method in class org.encog.ensemble.data.factories.EnsembleDataSetFactory
hasValidClassificationTarget() - Method in class org.encog.ml.bayesian.BayesianNetwork
hasWinner() - Method in class org.encog.neural.art.ART1
haveSameDate(Date, Date) - Static method in class org.encog.util.time.NumericDateUtil
header(String) - Method in class org.encog.util.HTMLReport
header(String, int) - Method in class org.encog.util.HTMLReport
HEADER_DATASOURCE_RAW_FILE - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "HEADER:DATASOURCE_rawFile".
HEADER_DATASOURCE_SOURCE_FILE - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "HEADER:DATASOURCE_sourceFile".
HEADER_DATASOURCE_SOURCE_HEADERS - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "HEADER:DATASOURCE_sourceHeaders".
HEADER_SIZE - Static variable in class org.encog.ml.data.buffer.EncogEGBFile
  The size of the file header.
hessian - Variable in class org.encog.mathutil.matrices.hessian.BasicHessian
  The Hessian 2d array.
HessianCR - Class in org.encog.mathutil.matrices.hessian
  Calculate the Hessian matrix using the chain rule method.
HessianCR() - Constructor for class org.encog.mathutil.matrices.hessian.HessianCR
HessianFD - Class in org.encog.mathutil.matrices.hessian
  Calculate the Hessian matrix using the finite difference method.
HessianFD() - Constructor for class org.encog.mathutil.matrices.hessian.HessianFD
hessianMatrix - Variable in class org.encog.mathutil.matrices.hessian.BasicHessian
  The Hessian matrix.
HiddenLayerParams - Class in org.encog.neural.prune
  Specifies the minimum and maximum neuron counts for a layer.
HiddenLayerParams(int, int) - Constructor for class org.encog.neural.prune.HiddenLayerParams
  Construct a hidden layer param object with the specified min and max values.
HiddenMarkovModel - Class in org.encog.ml.hmm
  A Hidden Markov Model (HMM) is a Machine Learning Method that allows for predictions to be made about the hidden states and observations of a given system over time.
HiddenMarkovModel(int) - Constructor for class org.encog.ml.hmm.HiddenMarkovModel
  Construct a discrete HMM with the specified number of states.
HiddenMarkovModel(int, int) - Constructor for class org.encog.ml.hmm.HiddenMarkovModel
HiddenMarkovModel(int, int[]) - Constructor for class org.encog.ml.hmm.HiddenMarkovModel
HIGH - Static variable in class org.encog.app.analyst.csv.basic.FileData
  The high value.
holdBackValidation(double, boolean, int) - Method in class org.encog.ml.model.EncogModel
  Specify a validation set to hold back.
HopfieldNetwork - Class in org.encog.neural.thermal
  Implements a Hopfield network.
HopfieldNetwork() - Constructor for class org.encog.neural.thermal.HopfieldNetwork
  Default constructor.
HopfieldNetwork(int) - Constructor for class org.encog.neural.thermal.HopfieldNetwork
  Construct a Hopfield with the specified neuron count.
HopfieldPattern - Class in org.encog.neural.pattern
  Create a Hopfield pattern.
HopfieldPattern() - Constructor for class org.encog.neural.pattern.HopfieldPattern
HOUR_OFFSET - Static variable in class org.encog.util.time.NumericDateUtil
HOURS_DAY - Static variable in class org.encog.util.time.TimeSpan
  Hours in a day.
HTMLReport - Class in org.encog.util
HTMLReport() - Constructor for class org.encog.util.HTMLReport
HUNDRED_PERCENT - Static variable in class org.encog.util.Format
  One hundred percent.
HybridStrategy - Class in org.encog.ml.train.strategy
  A hybrid stragey allows a secondary training algorithm to be used.
HybridStrategy(MLTrain) - Constructor for class org.encog.ml.train.strategy.HybridStrategy
  Construct a hybrid strategy with the default minimum improvement and toleration cycles.
HybridStrategy(MLTrain, double, int, int) - Constructor for class org.encog.ml.train.strategy.HybridStrategy
  Create a hybrid strategy.
HyperNEATCODEC - Class in org.encog.neural.hyperneat
HyperNEATCODEC() - Constructor for class org.encog.neural.hyperneat.HyperNEATCODEC
HyperNEATGenome - Class in org.encog.neural.hyperneat
  A HyperNEAT genome.
HyperNEATGenome() - Constructor for class org.encog.neural.hyperneat.HyperNEATGenome
  Construct a HyperNEAT genome.
HyperNEATGenome(HyperNEATGenome) - Constructor for class org.encog.neural.hyperneat.HyperNEATGenome
HyperNEATGenome(List<NEATNeuronGene>, List<NEATLinkGene>, int, int) - Constructor for class org.encog.neural.hyperneat.HyperNEATGenome
  Construct a HyperNEAT genome from a list of neurons and links.
HyperNEATGenome(Random, NEATPopulation, int, int, double) - Constructor for class org.encog.neural.hyperneat.HyperNEATGenome
  Construct a random HyperNEAT genome.
hypot(double, double) - Static method in class org.encog.mathutil.EncogMath
  sqrt(a^2 + b^2) without under/overflow.

## I

IDATA - Static variable in class org.encog.persist.PersistConst
  idata.
identity(int) - Static method in class org.encog.mathutil.matrices.MatrixMath
  Return an identity matrix of the specified size.
ImageMLData - Class in org.encog.platformspecific.j2se.data.image
  An extension of the BasicNeuralData class that is designed to hold images for input into a neural network.
ImageMLData(Image) - Constructor for class org.encog.platformspecific.j2se.data.image.ImageMLData
  Construct an object based on an image.
ImageMLDataSet - Class in org.encog.platformspecific.j2se.data.image
  Store a collection of images for training with a neural network.
ImageMLDataSet(Downsample, boolean, double, double) - Constructor for class org.encog.platformspecific.j2se.data.image.ImageMLDataSet
  Construct this class with the specified downsampler.
ImageSize - Class in org.encog.util
  Simple class to determine the size of an image.
ImageSize(Image) - Constructor for class org.encog.util.ImageSize
  Determine the size of an image.
imageUpdate(Image, int, int, int, int, int) - Method in class org.encog.util.ImageSize
  The image has been updated.
increase(String) - Method in class org.encog.util.text.BagOfWords
increaseCount() - Method in class org.encog.app.analyst.script.AnalystClassItem
  Increase the count.
increaseVisited() - Method in class org.encog.ml.world.basic.BasicState
increaseVisited() - Method in interface org.encog.ml.world.State
INDENT_SPACES - Static variable in class org.encog.app.generate.generators.AbstractGenerator
  Default number of indent spaces.
indentIn() - Method in class org.encog.app.generate.generators.AbstractTemplateGenerator
  Indent to the right one.
indentLine(String) - Method in class org.encog.app.generate.generators.AbstractGenerator
  Indent a line.
indentOut() - Method in class org.encog.app.generate.generators.AbstractTemplateGenerator
  Indent to the left one.
index - Variable in class org.encog.mathutil.libsvm.svm_node
INDEX_DJIA - Static variable in class org.encog.app.quant.loader.yahoo.YahooDownload
  The Dow Jones Industrial Average.
INDEX_DOUBLE_CLOSE - Variable in class org.encog.ml.data.market.loader.LoadedMarketData
INDEX_DOUBLE_HIGH - Variable in class org.encog.ml.data.market.loader.LoadedMarketData
INDEX_DOUBLE_LOW - Variable in class org.encog.ml.data.market.loader.LoadedMarketData
INDEX_DOUBLE_OPEN - Variable in class org.encog.ml.data.market.loader.LoadedMarketData
INDEX_FILE - Static variable in class org.encog.util.http.URLUtility
  The name of the usual default document.
INDEX_NASDAQ - Static variable in class org.encog.app.quant.loader.yahoo.YahooDownload
  The NASDAQ.
INDEX_SP500 - Static variable in class org.encog.app.quant.loader.yahoo.YahooDownload
  The S&P 500.
IndexedNormalizer - Class in org.encog.ml.data.versatile.normalizers
  Normalize ordinal/nominal values to a single value that is simply the index of the class in the list.
IndexedNormalizer() - Constructor for class org.encog.ml.data.versatile.normalizers.IndexedNormalizer
indexOf(RandomVariable) - Method in class org.encog.mathutil.probability.vars.VariableList
indexOfLargest(double[]) - Static method in class org.encog.util.EngineArray
IndexRangeSegregator - Class in org.encog.util.normalize.segregate.index
  An index segregator is used to segregate the data according to its index.
IndexRangeSegregator() - Constructor for class org.encog.util.normalize.segregate.index.IndexRangeSegregator
  Default constructor for reflection.
IndexRangeSegregator(int, int) - Constructor for class org.encog.util.normalize.segregate.index.IndexRangeSegregator
  Construct an index range segregator.
IndexSampleSegregator - Class in org.encog.util.normalize.segregate.index
  An index segregator is used to segregate the data according to its index.
IndexSampleSegregator() - Constructor for class org.encog.util.normalize.segregate.index.IndexSampleSegregator
  The default constructor, for reflection.
IndexSampleSegregator(int, int, int) - Constructor for class org.encog.util.normalize.segregate.index.IndexSampleSegregator
  Construct an index sample segregator.
IndexSegregator - Class in org.encog.util.normalize.segregate.index
  The index segregator.
IndexSegregator() - Constructor for class org.encog.util.normalize.segregate.index.IndexSegregator
Indicator - Class in org.encog.app.quant.indicators
  An indicator, used by Encog.
Indicator(String, boolean, boolean) - Constructor for class org.encog.app.quant.indicators.Indicator
  Construct the indicator.
init(ReadCSV, int, int) - Method in class org.encog.app.analyst.csv.process.ProcessExtension
init() - Method in class org.encog.app.analyst.script.AnalystScript
  Init this script.
init() - Method in class org.encog.app.analyst.script.normalize.AnalystField
  Init any internal structures.
init(AnalystScript) - Method in class org.encog.app.analyst.script.normalize.AnalystNormalize
  Init the normalized fields.
init(Universe, CAProgram) - Method in class org.encog.ca.runner.BasicCARunner
init(Universe, CAProgram) - Method in interface org.encog.ca.runner.CARunner
init(BasicNetwork, MLDataSet) - Method in class org.encog.mathutil.matrices.hessian.BasicHessian
  Init the class.
init(BasicNetwork, MLDataSet) - Method in interface org.encog.mathutil.matrices.hessian.ComputeHessian
  Init the class.
init(BasicNetwork, MLDataSet) - Method in class org.encog.mathutil.matrices.hessian.HessianCR
  Init the class.
init(BasicNetwork, MLDataSet) - Method in class org.encog.mathutil.matrices.hessian.HessianFD
  Init the class.
init(TrainBayesian, BayesianNetwork, MLDataSet) - Method in interface org.encog.ml.bayesian.training.estimator.BayesEstimator
  Init the estimator.
init(TrainBayesian, BayesianNetwork, MLDataSet) - Method in class org.encog.ml.bayesian.training.estimator.EstimatorNone
  Init the estimator.
init(TrainBayesian, BayesianNetwork, MLDataSet) - Method in class org.encog.ml.bayesian.training.estimator.SimpleEstimator
  Init the estimator.
init(TrainBayesian, BayesianNetwork, MLDataSet) - Method in interface org.encog.ml.bayesian.training.search.k2.BayesSearch
  Init the search object.
init(TrainBayesian, BayesianNetwork, MLDataSet) - Method in class org.encog.ml.bayesian.training.search.k2.SearchK2
  Init the search object.
init(TrainBayesian, BayesianNetwork, MLDataSet) - Method in class org.encog.ml.bayesian.training.search.SearchNone
  Init the search object.
init(NormalizationHelper) - Method in class org.encog.ml.data.versatile.missing.MeanMissingHandler
  Called by the normalizer to setup this handler.
init(NormalizationHelper) - Method in interface org.encog.ml.data.versatile.missing.MissingHandler
  Called by the normalizer to setup this handler.
init(EvolutionaryAlgorithm) - Method in class org.encog.ml.ea.opp.CompoundOperator
  Called to setup the evolutionary operator.
init(EvolutionaryAlgorithm) - Method in interface org.encog.ml.ea.opp.EvolutionaryOperator
  Called to setup the evolutionary operator.
init(EvolutionaryAlgorithm) - Method in class org.encog.ml.ea.species.SingleSpeciation
  Setup the speciation strategy.
init(EvolutionaryAlgorithm) - Method in interface org.encog.ml.ea.species.Speciation
  Setup the speciation strategy.
init(EvolutionaryAlgorithm) - Method in class org.encog.ml.ea.species.ThresholdSpeciation
  Setup the speciation strategy.
init(EvolutionaryAlgorithm) - Method in class org.encog.ml.genetic.crossover.Splice
  Called to setup the evolutionary operator.
init(EvolutionaryAlgorithm) - Method in class org.encog.ml.genetic.crossover.SpliceNoRepeat
  Called to setup the evolutionary operator.
init(EvolutionaryAlgorithm) - Method in class org.encog.ml.genetic.mutate.MutatePerturb
  Called to setup the evolutionary operator.
init(EvolutionaryAlgorithm) - Method in class org.encog.ml.genetic.mutate.MutateShuffle
  Called to setup the evolutionary operator.
init(EvolutionaryAlgorithm) - Method in class org.encog.ml.prg.opp.ConstMutation
  Called to setup the evolutionary operator.
init(EvolutionaryAlgorithm) - Method in class org.encog.ml.prg.opp.SubtreeCrossover
  Called to setup the evolutionary operator.
init(EvolutionaryAlgorithm) - Method in class org.encog.ml.prg.opp.SubtreeMutation
  Called to setup the evolutionary operator.
init(MLTrain) - Method in class org.encog.ml.train.strategy.end.EarlyStoppingStrategy
  Initialize this strategy.
init(MLTrain) - Method in class org.encog.ml.train.strategy.end.EndIterationsStrategy
  Initialize this strategy.
init(MLTrain) - Method in class org.encog.ml.train.strategy.end.EndMaxErrorStrategy
  Initialize this strategy.
init(MLTrain) - Method in class org.encog.ml.train.strategy.end.EndMinutesStrategy
  Initialize this strategy.
init(MLTrain) - Method in class org.encog.ml.train.strategy.end.SimpleEarlyStoppingStrategy
  Initialize this strategy.
init(MLTrain) - Method in class org.encog.ml.train.strategy.Greedy
  Initialize this strategy.
init(MLTrain) - Method in class org.encog.ml.train.strategy.HybridStrategy
  Initialize this strategy.
init(MLTrain) - Method in class org.encog.ml.train.strategy.RequiredImprovementStrategy
  Initialize this strategy.
init(MLTrain) - Method in class org.encog.ml.train.strategy.ResetStrategy
  Initialize this strategy.
init(MLTrain) - Method in class org.encog.ml.train.strategy.StopTrainingStrategy
  Initialize this strategy.
init(MLTrain) - Method in interface org.encog.ml.train.strategy.Strategy
  Initialize this strategy.
init(FlatLayer[]) - Method in class org.encog.neural.flat.FlatNetwork
  Construct a flat network.
init(EvolutionaryAlgorithm) - Method in interface org.encog.neural.neat.training.opp.links.MutateLinkWeight
  Setup the link mutator.
init(EvolutionaryAlgorithm) - Method in class org.encog.neural.neat.training.opp.links.MutatePerturbLinkWeight
  Setup the link mutator.
init(EvolutionaryAlgorithm) - Method in class org.encog.neural.neat.training.opp.links.MutateResetLinkWeight
  Setup the link mutator.
init(EvolutionaryAlgorithm) - Method in class org.encog.neural.neat.training.opp.links.SelectFixed
  Setup the selector.
init(EvolutionaryAlgorithm) - Method in interface org.encog.neural.neat.training.opp.links.SelectLinks
  Setup the selector.
init(EvolutionaryAlgorithm) - Method in class org.encog.neural.neat.training.opp.links.SelectProportion
  Setup the selector.
init(EvolutionaryAlgorithm) - Method in class org.encog.neural.neat.training.opp.NEATCrossover
  Init this operator.
init(EvolutionaryAlgorithm) - Method in class org.encog.neural.neat.training.opp.NEATMutation
  Called to setup the evolutionary operator.
init(MLTrain) - Method in class org.encog.neural.networks.training.strategy.RegularizationStrategy
init(MLTrain) - Method in class org.encog.neural.networks.training.strategy.SmartLearningRate
  Initialize this strategy.
init(MLTrain) - Method in class org.encog.neural.networks.training.strategy.SmartMomentum
  Initialize this strategy.
init() - Method in class org.encog.neural.prune.PruneIncremental
  Init for prune.
init(int, double[], double[]) - Method in class org.encog.neural.thermal.ThermalNetwork
  Init the network.
init() - Method in class org.encog.util.arrayutil.NormalizedField
  Init any internal structures.
init() - Method in class org.encog.util.normalize.DataNormalization
init(DataNormalization) - Method in class org.encog.util.normalize.segregate.index.IndexSegregator
  Setup this class with the specified normalization object.
init(DataNormalization) - Method in class org.encog.util.normalize.segregate.IntegerBalanceSegregator
  Init the segregator with the owning normalization object.
init(DataNormalization) - Method in class org.encog.util.normalize.segregate.RangeSegregator
  Init the object.
init(DataNormalization) - Method in interface org.encog.util.normalize.segregate.Segregator
  Setup this object to use the specified normalization object.
initForOutput() - Method in class org.encog.util.normalize.DataNormalization
  Setup the row for output.
initForPass() - Method in class org.encog.util.normalize.DataNormalization
  Setup the row for output.
INITIAL_DEPTH - Static variable in class org.encog.parse.PeekableInputStream
  The depth to peek.
INITIAL_STEP - Variable in class org.encog.mathutil.matrices.hessian.HessianFD
  The initial step size for dStep.
initMembers() - Method in class org.encog.ensemble.adaboost.AdaBoost
initMembers() - Method in class org.encog.ensemble.bagging.Bagging
initMembers() - Method in class org.encog.ensemble.Ensemble
  Initialise ensemble components
initMembers() - Method in class org.encog.ensemble.stacking.Stacking
initMembersBySplits(int) - Method in class org.encog.ensemble.Ensemble
initOthers() - Method in class org.encog.neural.networks.training.propagation.back.Backpropagation
  Perform training method specific init.
initOthers() - Method in class org.encog.neural.networks.training.propagation.manhattan.ManhattanPropagation
  Perform training method specific init.
initOthers() - Method in class org.encog.neural.networks.training.propagation.Propagation
initOthers() - Method in class org.encog.neural.networks.training.propagation.quick.QuickPropagation
  Perform training method specific init.
initOthers() - Method in class org.encog.neural.networks.training.propagation.resilient.ResilientPropagation
  Perform training method specific init.
initOthers() - Method in class org.encog.neural.networks.training.propagation.scg.ScaledConjugateGradient
  Unused.
Input - Class in org.encog.bot.browse.range
  A form element that represents for input for text.
Input(WebPage) - Constructor for class org.encog.bot.browse.range.Input
  Construct this Input element.
INPUT_COUNT - Static variable in class org.encog.persist.PersistConst
  The input count.
InputField - Interface in org.encog.util.normalize.input
  A Normalization input field.
InputFieldArray1D - Class in org.encog.util.normalize.input
  An input field that comes from a 1D array.
InputFieldArray1D(boolean, double[]) - Constructor for class org.encog.util.normalize.input.InputFieldArray1D
  Construct the 1D array field.
InputFieldArray2D - Class in org.encog.util.normalize.input
  An input field that comes from a 2D array.
InputFieldArray2D(boolean, double[][], int) - Constructor for class org.encog.util.normalize.input.InputFieldArray2D
  Construct a 2D array input field.
InputFieldCSV - Class in org.encog.util.normalize.input
  An input field based on a CSV file.
InputFieldCSV() - Constructor for class org.encog.util.normalize.input.InputFieldCSV
  Construct an InputFieldCSV with the default constructor.
InputFieldCSV(boolean, File, int) - Constructor for class org.encog.util.normalize.input.InputFieldCSV
  Construct a input field for a CSV file.
InputFieldCSVText - Class in org.encog.util.normalize.input
  An input field based on a CSV file.
InputFieldCSVText() - Constructor for class org.encog.util.normalize.input.InputFieldCSVText
  Construct an InputFieldCSVText with the default constructor.
InputFieldCSVText(boolean, File, int) - Constructor for class org.encog.util.normalize.input.InputFieldCSVText
  Construct a input field for a CSV file.
InputFieldEncogCollection - Class in org.encog.util.normalize.input
InputFieldEncogCollection() - Constructor for class org.encog.util.normalize.input.InputFieldEncogCollection
InputFieldEncogCollection(String, int) - Constructor for class org.encog.util.normalize.input.InputFieldEncogCollection
InputFieldMLDataSet - Class in org.encog.util.normalize.input
  An input field based on an Encog NeuralDataSet.
InputFieldMLDataSet(boolean, NeuralDataSet, int) - Constructor for class org.encog.util.normalize.input.InputFieldMLDataSet
  Construct a input field based on a NeuralDataSet.
InputSummation - Interface in org.encog.neural.freeform
  Specifies how the inputs to a neuron are to be summed.
InputSummationFactory - Interface in org.encog.neural.freeform.factory
  Factory that creates input summations.
inRange(double) - Method in class org.encog.util.normalize.output.mapped.MappedRange
  Determine if the specified value is in the range.
inRange(double) - Method in class org.encog.util.normalize.segregate.SegregationRange
  Is this value within the range.
INSTAR - Static variable in class org.encog.persist.PersistConst
  Instar.
int2Time(Date, int) - Static method in class org.encog.util.time.NumericDateUtil
IntegerArrayGenome - Class in org.encog.ml.genetic.genome
  A genome that is an array of discrete integer values.
IntegerArrayGenome(int) - Constructor for class org.encog.ml.genetic.genome.IntegerArrayGenome
  Construct the genome.
IntegerArrayGenome(IntegerArrayGenome) - Constructor for class org.encog.ml.genetic.genome.IntegerArrayGenome
  Construct the genome by copying another.
IntegerArrayGenomeFactory - Class in org.encog.ml.genetic.genome
  A factory to create integer genomes of a specific size.
IntegerArrayGenomeFactory(int) - Constructor for class org.encog.ml.genetic.genome.IntegerArrayGenomeFactory
  Create the integer genome of a fixed size.
IntegerBalanceSegregator - Class in org.encog.util.normalize.segregate
  Balance based on an input value.
IntegerBalanceSegregator(InputField, int) - Constructor for class org.encog.util.normalize.segregate.IntegerBalanceSegregator
  Construct an integer balance segregator.
IntegerBalanceSegregator() - Constructor for class org.encog.util.normalize.segregate.IntegerBalanceSegregator
  Default constructor.
IntPair - Class in org.encog.mathutil
IntPair(int, int) - Constructor for class org.encog.mathutil.IntPair
IntRange - Class in org.encog.mathutil
  A range of integers.
IntRange(int, int) - Constructor for class org.encog.mathutil.IntRange
  Construct an integer range.
inverse() - Method in class org.encog.mathutil.matrices.decomposition.LUDecomposition
  Solves a set of equation systems of type A * X = B.
inverse() - Method in class org.encog.mathutil.matrices.Matrix
inverseCholesky() - Method in class org.encog.mathutil.matrices.decomposition.CholeskyDecomposition
InverseMultiquadricFunction - Class in org.encog.mathutil.rbf
  Multi-dimensional Inverse Multiquadric function.
InverseMultiquadricFunction(double, double, double) - Constructor for class org.encog.mathutil.rbf.InverseMultiquadricFunction
  Construct a single-dimension Inverse-Multiquadric function with the specified peak, centers and widths.
InverseMultiquadricFunction(double, double[], double) - Constructor for class org.encog.mathutil.rbf.InverseMultiquadricFunction
  Construct a multi-dimension Inverse-Multiquadric function with the specified peak, centers and widths.
InverseMultiquadricFunction(int) - Constructor for class org.encog.mathutil.rbf.InverseMultiquadricFunction
  Create centered at zero, width 0, and peak 0.
is(String, boolean) - Method in class org.encog.parse.tags.read.ReadTags
  Checks to see if the next tag is the tag specified.
isAnalyzed() - Method in class org.encog.app.analyst.csv.basic.BasicFile
isAscending() - Method in class org.encog.app.analyst.csv.sort.SortedField
isAutoSend() - Method in class org.encog.bot.browse.range.FormElement
isAutoSend() - Method in class org.encog.bot.browse.range.Input
isBetterThan(double, double) - Method in class org.encog.ml.ea.sort.AbstractGenomeComparator
  Determine if one score is better than the other.
isBetterThan(double, double) - Method in interface org.encog.ml.ea.sort.GenomeComparator
  Determine if one score is better than the other.
isBetterThan(Genome, Genome) - Method in interface org.encog.ml.ea.sort.GenomeComparator
  Determine if one genome is better than the other genome.
isBetterThan(Genome, Genome) - Method in class org.encog.ml.ea.sort.MaximizeAdjustedScoreComp
  Determine if one genome is better than the other genome.
isBetterThan(Genome, Genome) - Method in class org.encog.ml.ea.sort.MaximizeScoreComp
  Determine if one genome is better than the other genome.
isBetterThan(Genome, Genome) - Method in class org.encog.ml.ea.sort.MinimizeAdjustedScoreComp
  Determine if one genome is better than the other genome.
isBetterThan(Genome, Genome) - Method in class org.encog.ml.ea.sort.MinimizeScoreComp
  Determine if one genome is better than the other genome.
isBias() - Method in class org.encog.ml.factory.parse.ArchitectureLayer
isBias() - Method in class org.encog.neural.freeform.basic.BasicFreeformNeuron
isBias() - Method in interface org.encog.neural.freeform.FreeformNeuron
isBoolean() - Method in class org.encog.mathutil.probability.vars.RandomVariable
isBoolean() - Method in class org.encog.ml.bayesian.BayesianEvent
isBoolean() - Method in class org.encog.ml.prg.expvalue.ExpressionValue
isBreakSpaces() - Method in class org.encog.util.text.BagOfWords
isCalculated() - Method in class org.encog.ml.bayesian.query.sample.EventState
isClass() - Method in class org.encog.app.analyst.script.DataField
isClassify() - Method in class org.encog.app.analyst.script.normalize.AnalystField
isClassify() - Method in enum org.encog.util.arrayutil.NormalizationAction
isClassify() - Method in class org.encog.util.arrayutil.NormalizedField
isCodeEmbedData() - Method in class org.encog.app.analyst.wizard.AnalystWizard
isComplete() - Method in class org.encog.app.analyst.script.DataField
isCondIndependent(BayesianEvent, BayesianEvent, BayesianEvent...) - Method in class org.encog.ml.bayesian.BayesianNetwork
isConnected(int, int, int) - Method in class org.encog.neural.networks.BasicNetwork
  Determine if the specified connection is enabled.
isConnectionLimited() - Method in class org.encog.neural.networks.structure.NeuralStructure
isContinuous() - Method in class org.encog.ca.universe.basic.BasicCellFactory
isContinuous() - Method in class org.encog.ml.hmm.HiddenMarkovModel
isDataReady() - Method in class org.encog.app.analyst.csv.process.ProcessExtension
isDefined(String, int) - Method in class org.encog.ml.prg.extension.FunctionFactory
  Determine if an opcode is in the function factory.
isDescendant(BayesianEvent, BayesianEvent) - Method in class org.encog.ml.bayesian.BayesianNetwork
  Determine if one event is a descendant of another.
isDiscrete() - Method in class org.encog.ca.universe.basic.BasicCellFactory
isDiscrete() - Method in class org.encog.ml.hmm.HiddenMarkovModel
isDuplicateLink(NEATGenome, long, long) - Method in class org.encog.neural.neat.training.opp.NEATMutation
  Determine if this is a duplicate link.
isEmbedData() - Method in class org.encog.app.generate.EncogCodeGeneration
isEmpty() - Method in class org.encog.util.datastruct.StackInt
isEmpty() - Method in class org.encog.util.datastruct.StackObject
isEmpty() - Method in class org.encog.util.datastruct.StackString
isEnabled() - Method in class org.encog.neural.neat.training.NEATLinkGene
isEnum() - Method in class org.encog.ml.prg.expvalue.ExpressionValue
isExpectInputHeaders() - Method in class org.encog.app.analyst.csv.basic.BasicFile
isFixFlatSopt() - Method in class org.encog.neural.freeform.training.FreeformPropagationTraining
isFloat() - Method in class org.encog.ml.prg.expvalue.ExpressionValue
isForceWinner() - Method in class org.encog.neural.som.training.basic.BasicTrainSOM
isFull() - Method in class org.encog.util.arrayutil.WindowDouble
isFullRank() - Method in class org.encog.mathutil.matrices.decomposition.QRDecomposition
  Is the matrix full rank?
isGenerated(String) - Method in class org.encog.app.analyst.script.AnalystScript
  Determine if the specified file was generated.
isGoalMet(BasicPath) - Method in interface org.encog.ml.graph.search.SearchGoal
isGoalMet(BasicPath) - Method in class org.encog.ml.graph.search.SimpleDestinationGoal
isGoalState(State) - Method in class org.encog.ml.world.basic.BasicWorld
isGoalState(State) - Method in interface org.encog.ml.world.World
isHasEnum() - Method in class org.encog.ml.prg.generator.AbstractPrgGenerator
isHasRelaxed() - Method in class org.encog.neural.neat.NEATNetwork
isHigherPriority(BasicPath, BasicPath) - Method in class org.encog.ml.graph.search.AStarSearch
isHigherPriority(BasicPath, BasicPath) - Method in class org.encog.ml.graph.search.BreadthFirstSearch
isHigherPriority(BasicPath, BasicPath) - Method in class org.encog.ml.graph.search.DepthFirstSearch
isHigherPriority(BasicPath, BasicPath) - Method in interface org.encog.ml.graph.search.Prioritizer
isHyperNEAT() - Method in class org.encog.neural.neat.NEATPopulation
isIdeal() - Method in class org.encog.util.normalize.output.BasicOutputField
isIdeal() - Method in interface org.encog.util.normalize.output.OutputField
isIdentifier() - Method in class org.encog.util.SimpleParser
isIgnore() - Method in class org.encog.app.analyst.csv.basic.BaseCachedColumn
isIgnoreCase() - Method in class org.encog.util.text.BagOfWords
isIgnored() - Method in class org.encog.app.analyst.script.normalize.AnalystField
isIncluded() - Method in class org.encog.util.normalize.segregate.SegregationRange
isIncludeTargetField() - Method in class org.encog.app.analyst.wizard.AnalystWizard
isInCluster(MLDataPair, int) - Method in class org.encog.ml.hmm.train.kmeans.Clusters
isIndex() - Method in class org.encog.ml.bayesian.BayesianChoice
isIndex() - Method in class org.encog.ml.bayesian.parse.ParsedChoice
isInput() - Method in class org.encog.app.analyst.csv.basic.BaseCachedColumn
isInput() - Method in class org.encog.app.analyst.script.normalize.AnalystField
isInput() - Method in class org.encog.ml.data.temporal.TemporalDataDescription
isInputPresent(int) - Method in class org.encog.ml.bayesian.BayesianNetwork
  Determine if the specified input is present.
isInRange() - Method in class org.encog.util.normalize.output.nominal.NominalItem
isInstanceOf(Class<?>, Class<?>) - Static method in class org.encog.util.obj.ReflectionUtil
  Determine if one class is an instance of the other class.
isInt() - Method in class org.encog.ml.prg.expvalue.ExpressionValue
isInteger() - Method in class org.encog.app.analyst.script.DataField
isLayerBiased(int) - Method in class org.encog.neural.networks.BasicNetwork
  Determine if the specified layer is biased.
isLeaf() - Method in class org.encog.ml.tree.basic.BasicTreeNode
isLeaf() - Method in interface org.encog.ml.tree.TreeNode
isLimited() - Method in class org.encog.neural.flat.FlatNetwork
isLoadToMemory() - Method in class org.encog.neural.networks.training.concurrent.jobs.TrainingJob
isMultiThreaded() - Method in class org.encog.neural.networks.training.pso.NeuralPSO
  Get the multi-threaded mode.
isNaiveBayes() - Method in class org.encog.app.analyst.wizard.AnalystWizard
isNeededEvidence() - Method in class org.encog.ml.bayesian.query.BasicQuery
isNeuronNeeded(NEATGenome, long) - Method in class org.encog.neural.neat.training.opp.NEATMutation
  Determines if a neuron is still needed.
isNonsingular() - Method in class org.encog.mathutil.matrices.decomposition.LUDecomposition
  Is the matrix nonsingular?
isNormalizationEnabled() - Method in class org.encog.ml.data.auto.AutoFloatDataSet
isNumeric() - Method in class org.encog.ml.prg.expvalue.ExpressionValue
isOperator() - Method in enum org.encog.ml.prg.extension.NodeType
isOSX() - Static method in class org.encog.Encog
isOutput() - Method in class org.encog.app.analyst.csv.basic.BaseCachedColumn
isOutput() - Method in class org.encog.app.analyst.script.normalize.AnalystField
isPassThrough() - Method in class org.encog.ml.prg.extension.ParamTemplate
isPointInRange(TemporalPoint) - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
  Is the specified point within the range.
isPossible(World, State, Action) - Method in interface org.encog.ml.world.PerformAction
isPossibleReturnType(EncogProgramContext, ValueType) - Method in class org.encog.ml.prg.extension.BasicTemplate
  Determines if the specified return type is a possible return type.
isPossibleReturnType(EncogProgramContext, ValueType) - Method in interface org.encog.ml.prg.extension.ProgramExtensionTemplate
  Determines if the specified return type is a possible return type.
isPredict() - Method in class org.encog.ml.data.temporal.TemporalDataDescription
isPreprocess() - Method in class org.encog.app.analyst.wizard.AnalystWizard
isPrimitive(Object) - Static method in class org.encog.util.obj.ReflectionUtil
  Determine if the specified object is a primitive.
isProduceOutputHeaders() - Method in class org.encog.app.analyst.csv.basic.BasicFile
isReady() - Method in class org.encog.util.arrayutil.VectorWindow
isReal() - Method in class org.encog.app.analyst.script.DataField
isRecurrent() - Method in class org.encog.neural.freeform.basic.BasicFreeformConnection
isRecurrent() - Method in interface org.encog.neural.freeform.FreeformConnection
isRegression() - Method in class org.encog.neural.pattern.SVMPattern
isRunning() - Method in class org.encog.ca.runner.BasicCARunner
isRunning() - Method in interface org.encog.ca.runner.CARunner
isRunning() - Method in class org.encog.util.concurrency.job.ConcurrentJob
isSatisfied() - Method in class org.encog.ml.bayesian.query.sample.EventState
isSeparateClass() - Method in class org.encog.neural.pnn.AbstractPNN
isShouldMinimize() - Method in class org.encog.ml.anneal.SimulatedAnnealing
isShuffle() - Method in class org.encog.ml.data.versatile.division.PerformDataDivision
isSimple(Object) - Static method in class org.encog.util.obj.ReflectionUtil
  Determine if an object is "simple", that is it should be persisted just with a .tostring.
isSingleThreaded() - Method in class org.encog.neural.networks.training.concurrent.ConcurrentTrainingManager
isSPD() - Method in class org.encog.mathutil.matrices.decomposition.CholeskyDecomposition
  Is the matrix symmetric and positive definite?
isSquare() - Method in class org.encog.mathutil.matrices.Matrix
isStateBlocked(GridState) - Static method in class org.encog.ml.world.grid.GridWorld
isString() - Method in class org.encog.ml.prg.expvalue.ExpressionValue
isSupervised() - Method in class org.encog.ensemble.data.EnsembleDataSet
isSupervised() - Method in class org.encog.ml.data.auto.AutoFloatDataSet
isSupervised() - Method in class org.encog.ml.data.basic.BasicMLDataPair
isSupervised() - Method in class org.encog.ml.data.basic.BasicMLDataSet
isSupervised() - Method in class org.encog.ml.data.basic.BasicMLSequenceSet
isSupervised() - Method in class org.encog.ml.data.buffer.BufferedMLDataSet
isSupervised() - Method in class org.encog.ml.data.folded.FoldedDataSet
isSupervised() - Method in interface org.encog.ml.data.MLDataPair
isSupervised() - Method in interface org.encog.ml.data.MLDataSet
isSupervised() - Method in class org.encog.ml.data.versatile.MatrixMLDataSet
isSupported(MLMethod) - Static method in class org.encog.app.generate.EncogCodeGeneration
  Is the specified method supported for code generation?
isTaskBalance() - Method in class org.encog.app.analyst.wizard.AnalystWizard
isTaskCluster() - Method in class org.encog.app.analyst.wizard.AnalystWizard
isTaskNormalize() - Method in class org.encog.app.analyst.wizard.AnalystWizard
isTaskRandomize() - Method in class org.encog.app.analyst.wizard.AnalystWizard
isTaskSegregate() - Method in class org.encog.app.analyst.wizard.AnalystWizard
isTimeSeries() - Method in class org.encog.app.analyst.EncogAnalyst
isTrained() - Method in class org.encog.neural.pnn.AbstractPNN
isTrainingDone() - Method in class org.encog.ml.bayesian.training.TrainBayesian
isTrainingDone() - Method in class org.encog.ml.ea.train.basic.TrainEA
isTrainingDone() - Method in class org.encog.ml.hmm.train.bw.BaseBaumWelch
isTrainingDone() - Method in class org.encog.ml.hmm.train.kmeans.TrainKMeans
isTrainingDone() - Method in class org.encog.ml.svm.training.SVMSearchTrain
isTrainingDone() - Method in class org.encog.ml.svm.training.SVMTrain
isTrainingDone() - Method in class org.encog.ml.train.BasicTraining
isTrainingDone() - Method in interface org.encog.ml.train.MLTrain
isTrainingDone() - Method in class org.encog.neural.networks.training.nm.NelderMeadTraining
isTrainingDone() - Method in class org.encog.neural.som.training.clustercopy.SOMClusterCopyTraining
isUsedDefault() - Method in class org.encog.ml.factory.parse.ArchitectureLayer
isValid(int, int) - Method in class org.encog.ca.universe.basic.BasicUniverse
isValid(int, int) - Method in interface org.encog.ca.universe.Universe
isValid(Genome) - Method in class org.encog.ml.ea.rules.BasicRuleHolder
  Determine if the specified genome is valid according to the constraint rules.
isValid(Genome) - Method in interface org.encog.ml.ea.rules.ConstraintRule
  Is this genome valid?
isValid(Genome) - Method in interface org.encog.ml.ea.rules.RuleHolder
  Determine if the specified genome is valid according to the constraint rules.
isValid(String) - Method in class org.encog.util.csv.CSVFormat
  Determine if the string can be parsed.
isValidationMode() - Method in class org.encog.ml.ea.train.basic.BasicEA
isValidationMode() - Method in interface org.encog.ml.ea.train.EvolutionaryAlgorithm
isValidResume(TrainingContinuation) - Method in class org.encog.neural.networks.training.propagation.back.Backpropagation
  Determine if the specified continuation object is valid to resume with.
isValidResume(TrainingContinuation) - Method in class org.encog.neural.networks.training.propagation.quick.QuickPropagation
  Determine if the specified continuation object is valid to resume with.
isValidResume(TrainingContinuation) - Method in class org.encog.neural.networks.training.propagation.resilient.ResilientPropagation
  Determine if the specified continuation object is valid to resume with.
isVariable() - Method in class org.encog.ml.prg.extension.BasicTemplate
isVariable() - Method in interface org.encog.ml.prg.extension.ProgramExtensionTemplate
isVariable() - Method in class org.encog.ml.prg.ProgramNode
isVector() - Method in class org.encog.mathutil.matrices.Matrix
  Determine if the matrix is a vector.
isWhiteSpace() - Method in class org.encog.util.SimpleParser
isZero() - Method in class org.encog.mathutil.matrices.Matrix
  Return true if every value in the matrix is zero.
iteration() - Method in interface org.encog.ca.program.CAProgram
iteration() - Method in class org.encog.ca.program.conway.ConwayProgram
iteration() - Method in class org.encog.ca.program.elementary.ElementaryCA
iteration() - Method in class org.encog.ca.program.generic.GenericCA
iteration() - Method in class org.encog.ca.runner.BasicCARunner
iteration() - Method in interface org.encog.ca.runner.CARunner
iteration() - Method in class org.encog.ml.anneal.SimulatedAnnealing
  Called to perform one cycle of the annealing process.
iteration() - Method in interface org.encog.ml.bayesian.training.estimator.BayesEstimator
  Perform an iteration.
iteration() - Method in class org.encog.ml.bayesian.training.estimator.EstimatorNone
  Perform an iteration.
iteration() - Method in class org.encog.ml.bayesian.training.estimator.SimpleEstimator
  Perform an iteration.
iteration() - Method in interface org.encog.ml.bayesian.training.search.k2.BayesSearch
  Perform an iteration.
iteration() - Method in class org.encog.ml.bayesian.training.search.k2.SearchK2
  Perform an iteration.
iteration() - Method in class org.encog.ml.bayesian.training.search.SearchNone
  Perform an iteration.
iteration() - Method in class org.encog.ml.bayesian.training.TrainBayesian
  Perform one iteration of training.
iteration() - Method in class org.encog.ml.ea.train.basic.BasicEA
  Perform a training iteration.
iteration(int) - Method in class org.encog.ml.ea.train.basic.TrainEA
  Perform the specified number of training iterations.
iteration() - Method in class org.encog.ml.ea.train.basic.TrainEA
iteration() - Method in interface org.encog.ml.ea.train.EvolutionaryAlgorithm
  Perform a training iteration.
iteration() - Method in class org.encog.ml.fitting.gaussian.TrainGaussian
iteration() - Method in class org.encog.ml.fitting.linear.TrainLinearRegression
iteration() - Method in class org.encog.ml.genetic.MLMethodGeneticAlgorithm
  Perform one training iteration.
iteration() - Method in class org.encog.ml.graph.search.AbstractGraphSearch
iteration() - Method in interface org.encog.ml.graph.search.GraphSearch
iteration() - Method in class org.encog.ml.hmm.train.bw.BaseBaumWelch
iteration(int) - Method in class org.encog.ml.hmm.train.bw.BaseBaumWelch
iteration() - Method in class org.encog.ml.hmm.train.kmeans.TrainKMeans
iteration(int) - Method in class org.encog.ml.hmm.train.kmeans.TrainKMeans
iteration() - Method in class org.encog.ml.kmeans.KMeansClustering
  Perform a single training iteration.
iteration(int) - Method in class org.encog.ml.kmeans.KMeansClustering
  The number of iterations to perform.
iteration() - Method in interface org.encog.ml.MLClustering
  Perform the training iteration.
iteration(int) - Method in interface org.encog.ml.MLClustering
  Perform the specified number of training iterations.
iteration() - Method in class org.encog.ml.svm.training.SVMSearchTrain
  Perform one training iteration.
iteration() - Method in class org.encog.ml.svm.training.SVMTrain
  Perform either a train or a cross validation.
iteration(int) - Method in class org.encog.ml.train.BasicTraining
  Perform the specified number of training iterations.
iteration() - Method in interface org.encog.ml.train.MLTrain
  Perform one iteration of training.
iteration(int) - Method in interface org.encog.ml.train.MLTrain
  Perform a number of training iterations.
iteration() - Method in class org.encog.ml.world.learning.mdp.ValueIteration
iteration() - Method in class org.encog.neural.cpn.training.TrainInstar
  Perform one iteration of training.
iteration() - Method in class org.encog.neural.cpn.training.TrainOutstar
  Perform one iteration of training.
iteration() - Method in class org.encog.neural.freeform.training.FreeformPropagationTraining
  Perform one iteration of training.
iteration(int) - Method in class org.encog.neural.freeform.training.FreeformPropagationTraining
  Perform the specified number of training iterations.
iteration() - Method in class org.encog.neural.networks.training.anneal.NeuralSimulatedAnnealing
  Perform one iteration of simulated annealing.
iteration() - Method in class org.encog.neural.networks.training.cross.CrossValidationKFold
  Perform one iteration.
iteration() - Method in class org.encog.neural.networks.training.lma.LevenbergMarquardtTraining
  Perform one iteration.
iteration() - Method in class org.encog.neural.networks.training.nm.NelderMeadTraining
  Perform one iteration of training.
iteration() - Method in class org.encog.neural.networks.training.pnn.TrainBasicPNN
  Perform one iteration of training.
iteration() - Method in class org.encog.neural.networks.training.propagation.Propagation
  Perform one training iteration.
iteration(int) - Method in class org.encog.neural.networks.training.propagation.Propagation
  Perform the specified number of training iterations.
iteration() - Method in class org.encog.neural.networks.training.propagation.scg.ScaledConjugateGradient
  Perform one iteration.
iteration() - Method in class org.encog.neural.networks.training.pso.NeuralPSO
  Runs one PSO iteration over the whole population of networks.
iteration() - Method in class org.encog.neural.networks.training.simple.TrainAdaline
  Perform one iteration of training.
iteration() - Method in class org.encog.neural.rbf.training.SVDTraining
  Perform one iteration.
iteration() - Method in class org.encog.neural.som.training.basic.BasicTrainSOM
  Perform one training iteration.
iteration() - Method in class org.encog.neural.som.training.clustercopy.SOMClusterCopyTraining
  Perform one iteration of training.
iterationComplete() - Method in interface org.encog.ca.universe.UniverseListener
iterationPSO(boolean) - Method in class org.encog.neural.networks.training.pso.NeuralPSO
  Internal method for the iteration of the swarm.
iterator() - Method in class org.encog.ensemble.data.EnsembleDataSet
iterator() - Method in class org.encog.ml.data.auto.AutoFloatDataSet
iterator() - Method in class org.encog.ml.data.basic.BasicMLDataSet
iterator() - Method in class org.encog.ml.data.basic.BasicMLSequenceSet
iterator() - Method in class org.encog.ml.data.buffer.BufferedMLDataSet
iterator() - Method in class org.encog.ml.data.folded.FoldedDataSet
iterator() - Method in class org.encog.ml.data.versatile.MatrixMLDataSet

## J

jobDone(long, ConcurrentTrainingPerformerCPU) - Method in class org.encog.neural.networks.training.concurrent.ConcurrentTrainingManager
  Wait for job to finish.
JobUnitContext - Class in org.encog.util.concurrency.job
  The job unit context contains context information to be passed to a job unit.
JobUnitContext() - Constructor for class org.encog.util.concurrency.job.JobUnitContext
JobUnitWorker - Class in org.encog.util.concurrency.job
  An individual worker, that will be submitted to the thread pool.
JobUnitWorker(JobUnitContext) - Constructor for class org.encog.util.concurrency.job.JobUnitWorker
  Construct a job unit.
join() - Method in class org.encog.neural.networks.training.concurrent.ConcurrentTrainingManager
  Wait for all tasks to finish.
JordanPattern - Class in org.encog.neural.pattern
  This class is used to generate an Jordan style recurrent neural network.
JordanPattern() - Constructor for class org.encog.neural.pattern.JordanPattern
  Construct an object to create a Jordan type neural network.

## K

KERNEL - Static variable in class org.encog.persist.PersistConst
  Kernel.
kernel_type - Variable in class org.encog.mathutil.libsvm.svm_parameter
kernelToString(PNNKernelType) - Static method in class org.encog.neural.pnn.PersistBasicPNN
  Convert a kernel type to a string.
KernelType - Enum in org.encog.ml.svm
  The type of SVM kernel in use.
KFoldCrossvalidation - Class in org.encog.ml.data.cross
KFoldCrossvalidation(MatrixMLDataSet, int) - Constructor for class org.encog.ml.data.cross.KFoldCrossvalidation
KMeansClustering - Class in org.encog.ml.kmeans
  This class performs a basic K-Means clustering.
KMeansClustering(int, MLDataSet) - Constructor for class org.encog.ml.kmeans.KMeansClustering
  Construct the K-Means object.
KMeansUtil<K extends CentroidFactory<? super K>> - Class in org.encog.util.kmeans
  Generic KMeans clustering object.
KMeansUtil(int, List<? extends K>) - Constructor for class org.encog.util.kmeans.KMeansUtil
  Construct the clusters.
KullbackLeiblerDistanceCalculator - Class in org.encog.ml.hmm.alog
  This class produces a Kullback-Leibler estimation of the distance between two HMMs.
KullbackLeiblerDistanceCalculator() - Constructor for class org.encog.ml.hmm.alog.KullbackLeiblerDistanceCalculator

## L

l - Variable in class org.encog.mathutil.libsvm.svm_model
l - Variable in class org.encog.mathutil.libsvm.svm_problem
label - Variable in class org.encog.mathutil.libsvm.svm_model
LAMBDA_MAX - Static variable in class org.encog.neural.networks.training.lma.LevenbergMarquardtTraining
  The max amount for the LAMBDA.
LanguageSpecificGenerator - Interface in org.encog.app.generate.generators
  This interface defines a language specific generator.
LAST_DELTA - Static variable in class org.encog.neural.networks.training.propagation.back.Backpropagation
  The resume key for backpropagation.
LAST_GRADIENTS - Static variable in class org.encog.neural.networks.training.propagation.quick.QuickPropagation
  Continuation tag for the last gradients.
LAST_GRADIENTS - Static variable in class org.encog.neural.networks.training.propagation.resilient.ResilientPropagation
  Continuation tag for the last gradients.
Layer - Interface in org.encog.neural.networks.layers
  This interface defines all necessary methods for a neural network layer.
learn(State, Action, State, Action) - Method in class org.encog.ml.world.learning.q.QLearning
learn() - Method in class org.encog.neural.freeform.training.FreeformPropagationTraining
  Learn for the entire network.
learn() - Method in class org.encog.neural.networks.training.propagation.Propagation
  Apply and learn.
learnConnection(FreeformConnection) - Method in class org.encog.neural.freeform.training.FreeformBackPropagation
  Learn for a single connection.
learnConnection(FreeformConnection) - Method in class org.encog.neural.freeform.training.FreeformPropagationTraining
  Learn for a single connection.
learnConnection(FreeformConnection) - Method in class org.encog.neural.freeform.training.FreeformResilientPropagation
  Learn for a single connection.
LEARNING_DECAY - Static variable in class org.encog.neural.networks.training.strategy.SmartLearningRate
  Learning decay rate.
LearningRate - Interface in org.encog.neural.networks.training
  Specifies that a training algorithm has the concept of a learning rate.
learnLimited() - Method in class org.encog.neural.networks.training.propagation.Propagation
  Apply and learn.
leftOfAction(Action) - Static method in class org.encog.ml.world.grid.GridWorld
length() - Method in interface org.encog.util.normalize.input.HasFixedLength
length() - Method in class org.encog.util.normalize.input.InputFieldArray1D
length() - Method in class org.encog.util.normalize.input.InputFieldArray2D
LEVEL_CRITICAL - Static variable in class org.encog.util.logging.EncogLogging
  Critical logging logs errors that cannot be recovered from.
LEVEL_DEBUG - Static variable in class org.encog.util.logging.EncogLogging
  The lowest level log type.
LEVEL_DISABLE - Static variable in class org.encog.util.logging.EncogLogging
  Logging is disabled at this level.
LEVEL_ERROR - Static variable in class org.encog.util.logging.EncogLogging
  Error level tells you about errors, less important to critical.
LEVEL_INFO - Static variable in class org.encog.util.logging.EncogLogging
  Info logging tells you when major processes start and stop.
LevelHolder - Class in org.encog.ml.prg.opp
  The level holder class is passed down as a tree is mutated.
LevelHolder(int) - Constructor for class org.encog.ml.prg.opp.LevelHolder
  Construct the level holder.
LevenbergMarquardtFactory - Class in org.encog.ensemble.training
LevenbergMarquardtFactory() - Constructor for class org.encog.ensemble.training.LevenbergMarquardtFactory
LevenbergMarquardtTraining - Class in org.encog.neural.networks.training.lma
  Trains a neural network using a Levenberg Marquardt algorithm (LMA).
LevenbergMarquardtTraining(BasicNetwork, MLDataSet) - Constructor for class org.encog.neural.networks.training.lma.LevenbergMarquardtTraining
  Construct the LMA object.
LevenbergMarquardtTraining(BasicNetwork, MLDataSet, ComputeHessian) - Constructor for class org.encog.neural.networks.training.lma.LevenbergMarquardtTraining
  Construct the LMA object.
LevenshteinDistance - Class in org.encog.util.text
  http://en.wikipedia.org/wiki/Levenshtein_distance
LevenshteinDistance() - Constructor for class org.encog.util.text.LevenshteinDistance
LIBSVM_VERSION - Static variable in class org.encog.mathutil.libsvm.svm
LICENSE - Static variable in class org.encog.Encog
  The current engog version, this should be read from the properties.
LINEAR - Static variable in class org.encog.mathutil.libsvm.svm_parameter
LinearCongruentialRandom - Class in org.encog.mathutil.randomize.generate
  A Linear Congruential random number generator.
LinearCongruentialRandom(long) - Constructor for class org.encog.mathutil.randomize.generate.LinearCongruentialRandom
  Construct the default LCG.
LinearCongruentialRandom() - Constructor for class org.encog.mathutil.randomize.generate.LinearCongruentialRandom
  Constructor to use a seed equal to system time.
LinearCongruentialRandom(long, long, long, long) - Constructor for class org.encog.mathutil.randomize.generate.LinearCongruentialRandom
  Create a LCG with the specified modulus, multiplier and increment.
LinearErrorFunction - Class in org.encog.neural.error
  The standard linear error function, simply returns the difference between the actual and ideal.
LinearErrorFunction() - Constructor for class org.encog.neural.error.LinearErrorFunction
LinearRegression - Class in org.encog.ml.fitting.linear
LinearRegression(int) - Constructor for class org.encog.ml.fitting.linear.LinearRegression
Link - Class in org.encog.bot.browse.range
  A document range that represents a hyperlink, and any embedded tags and text.
Link(WebPage) - Constructor for class org.encog.bot.browse.range.Link
  Construct a link from the specified web page.
LINKS - Static variable in class org.encog.persist.PersistConst
  Links.
list() - Method in class org.encog.neural.freeform.basic.BasicActivationSummation
list() - Method in interface org.encog.neural.freeform.InputSummation
LIST - Static variable in class org.encog.persist.PersistConst
  List.
listItem(String) - Method in class org.encog.util.HTMLReport
listToDouble(Collection<?>) - Static method in class org.encog.util.EngineArray
  Convert the collection to an array list of doubles.
LMAFactory - Class in org.encog.ml.factory.train
  This class is a factory to create the LMA training method.
LMAFactory() - Constructor for class org.encog.ml.factory.train.LMAFactory
lnProbability() - Method in class org.encog.ml.hmm.alog.ForwardBackwardScaledCalculator
lnProbability() - Method in class org.encog.ml.hmm.alog.ViterbiCalculator
lnProbability(MLDataSet) - Method in class org.encog.ml.hmm.HiddenMarkovModel
load(File) - Method in class org.encog.app.analyst.EncogAnalyst
  Load the specified script file.
load(InputStream) - Method in class org.encog.app.analyst.EncogAnalyst
  Load from an input stream.
load(String) - Method in class org.encog.app.analyst.EncogAnalyst
  Load from the specified filename.
load(InputStream) - Method in class org.encog.app.analyst.script.AnalystScript
  Load the script.
load(InputStream) - Method in class org.encog.app.analyst.script.ScriptLoad
  Load an Encog script.
load(InputStream) - Method in class org.encog.bot.browse.LoadWebPage
  Load a web page from the specified stream.
load(String) - Method in class org.encog.bot.browse.LoadWebPage
  Load the web page from a string that contains HTML.
load(URL) - Method in class org.encog.bot.rss.RSS
  Load all RSS data from the specified URL.
load(URL, int) - Method in class org.encog.bot.rss.RSS
  Load all RSS data from the specified URL.
load(Node) - Method in class org.encog.bot.rss.RSSItem
  Load an item from the specified node.
load(File, CARunner) - Static method in class org.encog.ca.program.generic.GenericIO
load(MLDataSet) - Method in class org.encog.ml.data.buffer.BufferedMLDataSet
  Load the specified training set.
load(TickerSymbol, Set<MarketDataType>, Date, Date) - Method in interface org.encog.ml.data.market.loader.MarketLoader
  Load the specified ticker symbol for the specified date.
load(TickerSymbol, Set<MarketDataType>, Date, Date) - Method in class org.encog.ml.data.market.loader.YahooFinanceLoader
  Load the specified financial data.
load(Date, Date) - Method in class org.encog.ml.data.market.MarketMLDataSet
  Load data from the loader.
load(File) - Static method in class org.encog.util.obj.SerializeObject
  Load an object.
loadAllData(String, File, CSVFormat, Date, Date) - Method in class org.encog.app.quant.loader.yahoo.YahooDownload
  Load all data.
loadAllFunctions() - Method in class org.encog.ml.prg.EncogProgramContext
  Load all known functions as opcodes.
loadClassmap() - Static method in class org.encog.util.obj.ReflectionUtil
  Load the classmap file.
loadContents() - Method in class org.encog.bot.browse.LoadWebPage
  Using the data units, which should have already been loaded by this time, load the contents of the web page.
loadCookies(URLConnection) - Method in class org.encog.util.http.CookieUtility
  Load any cookies from the specified URLConnection object.
loadCSV(File) - Method in class org.encog.app.analyst.util.AnalystUtility
  Load a CSV file into an MLDataSet.
loadCSV(String) - Method in class org.encog.app.analyst.util.AnalystUtility
  Load a CSV file into an MLDataSet.
loadCSV(String, boolean, CSVFormat, int[], int[]) - Method in class org.encog.ml.data.auto.AutoFloatDataSet
loadCSV2Memory(String, int, int, boolean, CSVFormat, boolean) - Static method in class org.encog.util.simple.EncogUtility
  Load CSV to memory.
loadCSVTOMemory(CSVFormat, String, boolean, int, int) - Static method in class org.encog.util.simple.TrainingSetUtil
  Load a CSV file into a memory dataset.
loadDataUnits(InputStream) - Method in class org.encog.bot.browse.LoadWebPage
  Load the data units.
LoadedMarketData - Class in org.encog.ml.data.market.loader
  This class contains market data that was loaded for a specific ticker symbol and a specific date.
LoadedMarketData(Date, TickerSymbol) - Constructor for class org.encog.ml.data.market.loader.LoadedMarketData
  Construct one sample of market data.
LoadedRow - Class in org.encog.app.analyst.csv.basic
  A row of a CSV file loaded to memory.
LoadedRow(ReadCSV) - Constructor for class org.encog.app.analyst.csv.basic.LoadedRow
  Load a row from the specified CSV file.
LoadedRow(ReadCSV, int) - Constructor for class org.encog.app.analyst.csv.basic.LoadedRow
  Construct a loaded row.
LoadedRow(CSVFormat, double[], int) - Constructor for class org.encog.app.analyst.csv.basic.LoadedRow
loadEGB2Memory(File) - Static method in class org.encog.util.simple.EncogUtility
LoaderError - Exception in org.encog.app.quant.loader
  Used to represent any error that occurs in the loader part of Encog.
LoaderError(String) - Constructor for exception org.encog.app.quant.loader.LoaderError
  Construct a message exception.
LoaderError(Throwable) - Constructor for exception org.encog.app.quant.loader.LoaderError
  Construct an exception that holds another exception.
LoaderError - Exception in org.encog.ml.data.market.loader
  An error that occurs when financial data is being loaded.
LoaderError(String) - Constructor for exception org.encog.ml.data.market.loader.LoaderError
  Construct a message exception.
LoaderError(Throwable) - Constructor for exception org.encog.ml.data.market.loader.LoaderError
  Construct an exception that holds another exception.
loadForm(int, Tag) - Method in class org.encog.bot.browse.LoadWebPage
  Called by loadContents to load a form on the page.
loadFromDirectory(String) - Method in class org.encog.persist.EncogDirectoryPersistence
  Load a file from the directory that this object refers to.
loadInput(int, Tag) - Method in class org.encog.bot.browse.LoadWebPage
  Called by loadContents to load an input tag on the form.
loadLink(int, Tag) - Method in class org.encog.bot.browse.LoadWebPage
  Called by loadContents to load a link on the page.
loadObject(File) - Static method in class org.encog.persist.EncogDirectoryPersistence
  Load the specified object.
loadObject(InputStream) - Static method in class org.encog.persist.EncogDirectoryPersistence
  Load an object from an input stream.
loadPage(InputStream) - Static method in class org.encog.bot.BotUtil
  Load load from the specified input stream.
loadPage(URL) - Static method in class org.encog.bot.BotUtil
  Load the specified web page into a string.
loadResourceObject(String) - Static method in class org.encog.persist.EncogDirectoryPersistence
  Load an EG object as a reousrce.
loadRow(LoadedRow) - Method in class org.encog.app.analyst.csv.process.ProcessExtension
loadStandardClassmap() - Static method in class org.encog.util.obj.ReflectionUtil
  Load the classmap file.
loadString(String) - Static method in class org.encog.util.ResourceLoader
  Load the resource as a string.
loadTitle(int, Tag) - Method in class org.encog.bot.browse.LoadWebPage
  Called by loadContents to load the title of the page.
loadToMemory() - Method in class org.encog.ml.data.buffer.BufferedMLDataSet
  Load the binary dataset to memory.
LoadWebPage - Class in org.encog.bot.browse
  Called to actually load a web page.
LoadWebPage(URL) - Constructor for class org.encog.bot.browse.LoadWebPage
  Construct a web page loader with the specified base URL.
loadWorkload() - Method in class org.encog.neural.prune.PruneIncremental
  Get the next workload.
loadWorkload() - Method in class org.encog.util.concurrency.job.ConcurrentJob
  Load the subtasks.
locateEventTypes() - Method in class org.encog.ml.bayesian.query.BasicQuery
  Called to locate the evidence and outcome events.
locateEventTypes() - Method in interface org.encog.ml.bayesian.query.BayesianQuery
  Called to locate the evidence and outcome events.
log(double) - Static method in class org.encog.mathutil.BoundMath
  Calculate the log.
log() - Method in class org.encog.mathutil.ComplexNumber
  Principal branch of the Complex logarithm of this Complex number.
log(int, String) - Method in interface org.encog.plugin.EncogPluginLogging1
  Log a message at the specified level.
log(int, Throwable) - Method in interface org.encog.plugin.EncogPluginLogging1
  Log a throwable at the specified level.
log(int, String) - Method in class org.encog.plugin.system.SystemLoggingPlugin
  Log the message.
log(int, Throwable) - Method in class org.encog.plugin.system.SystemLoggingPlugin
  Log a throwable at the specified level.
log(int, String) - Static method in class org.encog.util.logging.EncogLogging
  Log the message.
log(int, Throwable) - Static method in class org.encog.util.logging.EncogLogging
  Log the error.
log(Throwable) - Static method in class org.encog.util.logging.EncogLogging
  Log the error at ERROR level.
long2Date(long) - Static method in class org.encog.util.time.NumericDateUtil
lookAhead(String, boolean) - Method in class org.encog.util.SimpleParser
lookAhead(String) - Method in class org.encog.util.SimpleParser
lookup(String) - Method in class org.encog.app.analyst.script.normalize.AnalystField
  Lookup the specified field.
lookup(String) - Method in class org.encog.util.arrayutil.NormalizedField
  Lookup the specified field.
LOW - Static variable in class org.encog.app.analyst.csv.basic.FileData
  The low value.
LUDecomposition - Class in org.encog.mathutil.matrices.decomposition
  LU Decomposition.
LUDecomposition(Matrix) - Constructor for class org.encog.mathutil.matrices.decomposition.LUDecomposition
  LU Decomposition Structure to access L, U and piv.

## M

m_bestErrors - Variable in class org.encog.neural.networks.training.pso.NeuralPSO
m_bestVectorIndex - Variable in class org.encog.neural.networks.training.pso.NeuralPSO
m_bestVectors - Variable in class org.encog.neural.networks.training.pso.NeuralPSO
m_c1 - Variable in class org.encog.neural.networks.training.pso.NeuralPSO
m_c2 - Variable in class org.encog.neural.networks.training.pso.NeuralPSO
m_calculateScore - Variable in class org.encog.neural.networks.training.pso.NeuralPSO
m_inertiaWeight - Variable in class org.encog.neural.networks.training.pso.NeuralPSO
m_maxPosition - Variable in class org.encog.neural.networks.training.pso.NeuralPSO
m_maxVelocity - Variable in class org.encog.neural.networks.training.pso.NeuralPSO
m_multiThreaded - Variable in class org.encog.neural.networks.training.pso.NeuralPSO
m_networks - Variable in class org.encog.neural.networks.training.pso.NeuralPSO
m_populationSize - Variable in class org.encog.neural.networks.training.pso.NeuralPSO
m_randomizer - Variable in class org.encog.neural.networks.training.pso.NeuralPSO
m_va - Variable in class org.encog.neural.networks.training.pso.NeuralPSO
m_velocities - Variable in class org.encog.neural.networks.training.pso.NeuralPSO
magnitude(BiPolarNeuralData) - Method in class org.encog.neural.art.ART1
  Get the magnitude of the specified input.
main(String[]) - Static method in class org.encog.Test
main(String[]) - Static method in class org.encog.util.text.DoubleString
MajorityVoting - Class in org.encog.ensemble.aggregator
MajorityVoting() - Constructor for class org.encog.ensemble.aggregator.MajorityVoting
makeClass(NormalizationAction, int, int, int, int) - Method in class org.encog.app.analyst.script.normalize.AnalystField
  Make the classes based on numbers.
makeClass(NormalizationAction, String[], double, double) - Method in class org.encog.app.analyst.script.normalize.AnalystField
  Make the classes using names.
makeClass(NormalizationAction, int, int, int, int) - Method in class org.encog.util.arrayutil.NormalizedField
  Make a field to hold a class.
makeClass(NormalizationAction, String[], double, double) - Method in class org.encog.util.arrayutil.NormalizedField
  Create a field that will be used to hold a class.
makePassThrough() - Method in class org.encog.app.analyst.script.normalize.AnalystField
  Make this a pass-through field.
makePassThrough() - Method in class org.encog.util.arrayutil.NormalizedField
  Make this a pass-through field.
makeSparse(MLData) - Method in class org.encog.ml.svm.SVM
  Convert regular Encog MLData into the "sparse" data needed by an SVM.
ManhattanFactory - Class in org.encog.ml.factory.train
  A factory for Manhattan training.
ManhattanFactory() - Constructor for class org.encog.ml.factory.train.ManhattanFactory
ManhattanPropagation - Class in org.encog.neural.networks.training.propagation.manhattan
  One problem that the backpropagation technique has is that the magnitude of the partial derivative may be calculated too large or too small.
ManhattanPropagation(ContainsFlat, MLDataSet, double) - Constructor for class org.encog.neural.networks.training.propagation.manhattan.ManhattanPropagation
  Construct a Manhattan propagation training object.
ManhattanPropagationFactory - Class in org.encog.ensemble.training
ManhattanPropagationFactory() - Constructor for class org.encog.ensemble.training.ManhattanPropagationFactory
MappedRange - Class in org.encog.util.normalize.output.mapped
  Simple class that is used internally to hold a range mapping.
MappedRange(double, double, double) - Constructor for class org.encog.util.normalize.output.mapped.MappedRange
  Construct the range mapping.
mark() - Method in class org.encog.util.SimpleParser
MarketDataDescription - Class in org.encog.ml.data.market
  This class is used to describe the type of financial data that is needed.
MarketDataDescription(TickerSymbol, MarketDataType, TemporalDataDescription.Type, ActivationFunction, boolean, boolean) - Constructor for class org.encog.ml.data.market.MarketDataDescription
  Construct a MarketDataDescription item.
MarketDataDescription(TickerSymbol, MarketDataType, TemporalDataDescription.Type, boolean, boolean) - Constructor for class org.encog.ml.data.market.MarketDataDescription
  Construct a MarketDataDescription item.
MarketDataDescription(TickerSymbol, MarketDataType, boolean, boolean) - Constructor for class org.encog.ml.data.market.MarketDataDescription
  Construct a MarketDataDescription item.
MarketDataType - Enum in org.encog.ml.data.market
  The types of market data that can be used.
MarketError - Exception in org.encog.ml.data.market
  Thrown when an error occurs processing market data.
MarketError(String) - Constructor for exception org.encog.ml.data.market.MarketError
  Construct a message exception.
MarketError(Throwable) - Constructor for exception org.encog.ml.data.market.MarketError
  Construct an exception that holds another exception.
MarketLoader - Interface in org.encog.app.quant.loader
  Common interface for market loaders.
MarketLoader - Interface in org.encog.ml.data.market.loader
  This interface defines a class that can be used to load external financial data.
MarketMLDataSet - Class in org.encog.ml.data.market
  A data set that is designed to hold market data.
MarketMLDataSet(MarketLoader, int, int) - Constructor for class org.encog.ml.data.market.MarketMLDataSet
  Construct a market data set object.
MarketPoint - Class in org.encog.ml.data.market
  Hold one market datapoint.
MarketPoint(Date, int) - Constructor for class org.encog.ml.data.market.MarketPoint
  Construct a MarketPoint with the specified date and size.
markGenerated(String) - Method in class org.encog.app.analyst.script.AnalystScript
  Mark the sepcified filename as generated.
MarkovDecisionProcess - Class in org.encog.ml.world.learning.mdp
MarkovDecisionProcess(World) - Constructor for class org.encog.ml.world.learning.mdp.MarkovDecisionProcess
MarkovGenerator - Class in org.encog.ml.hmm.alog
  This class is used to generate random sequences based on a Hidden Markov Model.
MarkovGenerator(HiddenMarkovModel) - Constructor for class org.encog.ml.hmm.alog.MarkovGenerator
matchChoiceToRange(double) - Method in class org.encog.ml.bayesian.BayesianEvent
  Match a continuous value to a discrete range.
MathConst - Class in org.encog.mathutil
  Math constants needed by Encog.
Matrix - Class in org.encog.mathutil.matrices
  This class implements a mathematical matrix.
Matrix(boolean[][]) - Constructor for class org.encog.mathutil.matrices.Matrix
  Construct a bipolar matrix from an array of booleans.
Matrix(double[][]) - Constructor for class org.encog.mathutil.matrices.Matrix
  Create a matrix from an array of doubles.
Matrix(int, int) - Constructor for class org.encog.mathutil.matrices.Matrix
  Create a blank array with the specified number of rows and columns.
MATRIX - Static variable in class org.encog.persist.PersistConst
  matrix.
MatrixError - Exception in org.encog.mathutil.matrices
  Used by the matrix classes to indicate an error.
MatrixError(String) - Constructor for exception org.encog.mathutil.matrices.MatrixError
  Construct this exception with a message.
MatrixError(Throwable) - Constructor for exception org.encog.mathutil.matrices.MatrixError
  Construct this exception with another exception.
MatrixMath - Class in org.encog.mathutil.matrices
  This class can perform many different mathematical operations on matrixes.
MatrixMLDataSet - Class in org.encog.ml.data.versatile
  The MatrixMLDataSet can use a large 2D matrix of doubles to internally hold data.
MatrixMLDataSet() - Constructor for class org.encog.ml.data.versatile.MatrixMLDataSet
  The default constructor.
MatrixMLDataSet(double[][], int, int) - Constructor for class org.encog.ml.data.versatile.MatrixMLDataSet
  Construct the dataset with no mask.
MatrixMLDataSet(double[][], int, int, int[]) - Constructor for class org.encog.ml.data.versatile.MatrixMLDataSet
  Construct the dataset from a 2D double array..
MatrixMLDataSet(MatrixMLDataSet, int[]) - Constructor for class org.encog.ml.data.versatile.MatrixMLDataSet
  Construct the dataset from another matrix dataset.
MatrixMLDataSet.MatrixMLDataSetIterator - Class in org.encog.ml.data.versatile
  An iterator to be used with the MatrixMLDataSet.
MatrixMLDataSet.MatrixMLDataSetIterator() - Constructor for class org.encog.ml.data.versatile.MatrixMLDataSet.MatrixMLDataSetIterator
matrixToFlat(double[][], double[], int) - Method in class org.encog.neural.rbf.training.SVDTraining
  Convert the matrix to flat.
max(int) - Method in class org.encog.app.quant.util.BarBuffer
  Get the max for the specified index.
MAX(double, double) - Static method in class org.encog.neural.rbf.training.SVD
MAX - Static variable in class org.encog.persist.PersistConst
max(int) - Method in class org.encog.util.datastruct.StackInt
max(double[]) - Static method in class org.encog.util.EngineArray
max(int[]) - Static method in class org.encog.util.EngineArray
MAX_LAYERS - Static variable in class org.encog.ml.factory.method.PNNFactory
  The max layer count.
MAX_LAYERS - Static variable in class org.encog.ml.factory.method.RBFNetworkFactory
  The max layer count.
MAX_LAYERS - Static variable in class org.encog.ml.factory.method.SRNFactory
  The max layer count.
MAX_LAYERS - Static variable in class org.encog.ml.factory.method.SVMFactory
  The max layer count.
MAX_LENGTH - Static variable in class org.encog.parse.tags.read.ReadTags
  Maximum length string to read.
MAX_MOMENTUM - Static variable in class org.encog.neural.networks.training.strategy.SmartMomentum
  The maximum value that momentum can go to.
MAX_PRECIS - Static variable in class org.encog.util.logging.DumpMatrix
  Maximum precision.
MAX_RAND - Static variable in class org.encog.mathutil.randomize.generate.LinearCongruentialRandom
  The maximum rand number that the standard GCC based LCG will generate.
MaximizeAdjustedScoreComp - Class in org.encog.ml.ea.sort
  Use this comparator to maximize the adjusted score.
MaximizeAdjustedScoreComp() - Constructor for class org.encog.ml.ea.sort.MaximizeAdjustedScoreComp
MaximizeScoreComp - Class in org.encog.ml.ea.sort
  Use this comparator to maximize the score.
MaximizeScoreComp() - Constructor for class org.encog.ml.ea.sort.MaximizeScoreComp
maxIndex(double[]) - Static method in class org.encog.mathutil.EncogMath
  Get the index to the greatest number in a double array.
maxIndex(double[]) - Static method in class org.encog.util.EngineArray
maxIndex(int[]) - Static method in class org.encog.util.EngineArray
maxOffspring() - Method in class org.encog.ml.ea.opp.OperationList
  Determine the maximum number of offspring that might be produced by any of the operators in this list.
maxParents() - Method in class org.encog.ml.ea.opp.OperationList
  Determine the maximum number of parents required by any of the operators in the list.
mean(int[]) - Static method in class org.encog.util.EngineArray
mean(double[]) - Static method in class org.encog.util.EngineArray
MeanAndModeMissing - Class in org.encog.app.analyst.missing
MeanAndModeMissing() - Constructor for class org.encog.app.analyst.missing.MeanAndModeMissing
MeanMissingHandler - Class in org.encog.ml.data.versatile.missing
  Handle missing data by using the mean value of that column.
MeanMissingHandler() - Constructor for class org.encog.ml.data.versatile.missing.MeanMissingHandler
members - Variable in class org.encog.ensemble.Ensemble
MEMORY_GIG - Static variable in class org.encog.util.Format
  Bytes in a GB.
MEMORY_K - Static variable in class org.encog.util.Format
  Bytes in a KB.
MEMORY_MEG - Static variable in class org.encog.util.Format
  Bytes in a MB.
MEMORY_TERA - Static variable in class org.encog.util.Format
  Bytes in a TB.
MemoryDataLoader - Class in org.encog.ml.data.buffer
  This class is used, together with a CODEC, load training data from some external file into an Encog memory-based training set.
MemoryDataLoader(DataSetCODEC) - Constructor for class org.encog.ml.data.buffer.MemoryDataLoader
  Construct a loader with the specified CODEC.
MersenneTwisterGenerateRandom - Class in org.encog.mathutil.randomize.generate
  The Mersenne twister is a pseudo random number generator developed in 1997 by Makoto Matsumoto and Takuji Nishimura that is based on a matrix linear recurrence over a finite binary field F2.
MersenneTwisterGenerateRandom() - Constructor for class org.encog.mathutil.randomize.generate.MersenneTwisterGenerateRandom
MersenneTwisterGenerateRandom(long) - Constructor for class org.encog.mathutil.randomize.generate.MersenneTwisterGenerateRandom
MersenneTwisterGenerateRandom(int[]) - Constructor for class org.encog.mathutil.randomize.generate.MersenneTwisterGenerateRandom
MetaClassifier - Class in org.encog.ensemble.aggregator
MetaClassifier(double, EnsembleMLMethodFactory, EnsembleTrainFactory) - Constructor for class org.encog.ensemble.aggregator.MetaClassifier
MethodConfig - Interface in org.encog.ml.model.config
  Define normalization for a specific method.
MethodFactory - Interface in org.encog.ml
  Factor MLMethods.
MexicanHatFunction - Class in org.encog.mathutil.rbf
  Multi-dimensional Mexican Hat, or Ricker wavelet, function.
MexicanHatFunction(double, double, double) - Constructor for class org.encog.mathutil.rbf.MexicanHatFunction
  Construct a single-dimension Mexican hat function with the specified peak, centers and widths.
MexicanHatFunction(double, double[], double) - Constructor for class org.encog.mathutil.rbf.MexicanHatFunction
  Construct a multi-dimension Mexican hat function with the specified peak, centers and widths.
MexicanHatFunction(int) - Constructor for class org.encog.mathutil.rbf.MexicanHatFunction
  Create centered at zero, width 0, and peak 0.
MILI_IN_SEC - Static variable in class org.encog.util.Format
  How many miliseconds in a second.
MILIS - Static variable in class org.encog.util.benchmark.Evaluate
  Mili-seconds in a second.
min(int) - Method in class org.encog.app.quant.util.BarBuffer
  Get the min for the specified index.
MIN(int, int) - Static method in class org.encog.neural.rbf.training.SVD
MIN - Static variable in class org.encog.persist.PersistConst
min(int) - Method in class org.encog.util.datastruct.StackInt
min(double[]) - Static method in class org.encog.util.EngineArray
min(int[]) - Static method in class org.encog.util.EngineArray
MIN_EQ - Static variable in class org.encog.mathutil.Equilateral
  The minimum number of fields to use equilateral encoding.
MIN_EQ_CLASSES - Static variable in class org.encog.app.analyst.script.normalize.AnalystField
  Minimum classes for encode using equilateral.
MIN_IMPROVEMENT - Static variable in class org.encog.neural.networks.training.strategy.SmartMomentum
  The minimum improvement to adjust momentum.
MIN_LINK - Static variable in class org.encog.neural.neat.training.opp.NEATMutateRemoveLink
  Do not remove from genomes that have fewer than this number of links.
MIN_WORTHWHILE - Static variable in class org.encog.util.concurrency.DetermineWorkload
  What is the minimum number of workload entries for a thread to be worthwhile.
MinimizeAdjustedScoreComp - Class in org.encog.ml.ea.sort
  Use this comparator to minimize the adjusted score.
MinimizeAdjustedScoreComp() - Constructor for class org.encog.ml.ea.sort.MinimizeAdjustedScoreComp
MinimizeScoreComp - Class in org.encog.ml.ea.sort
  Use this comparator to minimize the score.
MinimizeScoreComp() - Constructor for class org.encog.ml.ea.sort.MinimizeScoreComp
minIndex(double[]) - Static method in class org.encog.mathutil.EncogMath
  Get the index to the smallest number in a double array.
minus(ComplexNumber) - Method in class org.encog.mathutil.ComplexNumber
  Subtraction of Complex numbers (doesn't change this Complex number).
minus(MLData) - Method in class org.encog.ml.data.basic.BasicMLData
  Subtract one data element from another.
MINUTE_OFFSET - Static variable in class org.encog.util.time.NumericDateUtil
MINUTES_HOUR - Static variable in class org.encog.util.time.TimeSpan
  Minutes in an hour.
MissingHandler - Interface in org.encog.ml.data.versatile.missing
  Specifies how to handle missing data.
ML_CONFIG_ARCHITECTURE - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "ML:CONFIG_architecture".
ML_CONFIG_EVAL_FILE - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "ML:CONFIG_evalFile".
ML_CONFIG_MACHINE_LEARNING_FILE - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "ML:CONFIG_machineLearningFile".
ML_CONFIG_OUTPUT_FILE - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "ML:CONFIG_outputFile".
ML_CONFIG_QUERY - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for "ML:CONFIG_query"
ML_CONFIG_TRAINING_FILE - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "ML:CONFIG_trainingFile".
ML_CONFIG_TYPE - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: = ML:CONFIG_type".
ML_TRAIN_ARGUMENTS - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "ML:TRAIN_arguments".
ML_TRAIN_CROSS - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "ML:TRAIN_cross".
ML_TRAIN_TARGET_ERROR - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "ML:TRAIN_targetError".
ML_TRAIN_TYPE - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "ML:TRAIN_type".
MLActivationFactory - Class in org.encog.ml.factory
MLActivationFactory() - Constructor for class org.encog.ml.factory.MLActivationFactory
MLAutoAssocation - Interface in org.encog.ml
  Defines a MLMethod that can handle autoassocation.
MLClassification - Interface in org.encog.ml
  This interface defines a MLMethod that is used for classification.
MLCluster - Interface in org.encog.ml
  Defines a cluster.
MLClustering - Interface in org.encog.ml
  A machine learning method that is used to break data into clusters.
MLComplexData - Interface in org.encog.ml.data
  This class implements a data object that can hold complex numbers.
MLContext - Interface in org.encog.ml
  Defines a MLMethod that can hold context.
MLData - Interface in org.encog.ml.data
  Defines an array of data.
MLDataError - Exception in org.encog.ml.data
  Used by the machine learning methods classes to indicate a data error.
MLDataError(String) - Constructor for exception org.encog.ml.data.MLDataError
  Construct a message exception.
MLDataError(Throwable) - Constructor for exception org.encog.ml.data.MLDataError
  Construct an exception that holds another exception.
MLDataFieldHolder - Class in org.encog.util.normalize.input
  Simple holder class used internally for Encog.
MLDataFieldHolder(Iterator<MLDataPair>, InputFieldMLDataSet) - Constructor for class org.encog.util.normalize.input.MLDataFieldHolder
  Construct the class.
MLDataPair - Interface in org.encog.ml.data
  Training data is stored in two ways, depending on if the data is for supervised, or unsupervised training.
MLDataSet - Interface in org.encog.ml.data
  An interface designed to abstract classes that store machine learning data.
MLEncodable - Interface in org.encog.ml
  Defines a Machine Learning Method that can be encoded to a double array.
MLEncodableCODEC - Class in org.encog.ml.genetic
  A CODEC for IMLEncodable classes.
MLEncodableCODEC() - Constructor for class org.encog.ml.genetic.MLEncodableCODEC
MLError - Interface in org.encog.ml
  Defines Machine Learning Method that can calculate an error based on a data set.
mlFactory - Variable in class org.encog.ensemble.Ensemble
MLFactory - Interface in org.encog.ml
  This interface defines the fact that a class, or object, is having the ability to generate an Encog factory code from the objects instanciated state.
MLInput - Interface in org.encog.ml
  Defines a MLMethod that accepts input.
MLInputOutput - Interface in org.encog.ml
  This is a convenience interface that combines MLInput and MLOutput.
MLMethod - Interface in org.encog.ml
  This interface is the base for all Encog Machine Learning methods.
MLMethodFactory - Class in org.encog.ml.factory
  This factory is used to create machine learning methods.
MLMethodFactory() - Constructor for class org.encog.ml.factory.MLMethodFactory
MLMethodGeneticAlgorithm - Class in org.encog.ml.genetic
  Implements a genetic algorithm that allows an MLMethod that is encodable (MLEncodable) to be trained.
MLMethodGeneticAlgorithm(MethodFactory, CalculateScore, int) - Constructor for class org.encog.ml.genetic.MLMethodGeneticAlgorithm
  Construct a method genetic algorithm.
MLMethodGeneticAlgorithm.MLMethodGeneticAlgorithmHelper - Class in org.encog.ml.genetic
  Very simple class that implements a genetic algorithm.
MLMethodGeneticAlgorithm.MLMethodGeneticAlgorithmHelper(Population, CalculateScore) - Constructor for class org.encog.ml.genetic.MLMethodGeneticAlgorithm.MLMethodGeneticAlgorithmHelper
  Construct the helper.
MLMethodGenome - Class in org.encog.ml.genetic
  Implements a genome that allows a feedforward neural network to be trained using a genetic algorithm.
MLMethodGenome(MLEncodable) - Constructor for class org.encog.ml.genetic.MLMethodGenome
  Construct a neural genome.
MLMethodGenomeFactory - Class in org.encog.ml.genetic
  A factory to create MLMethod based genomes.
MLMethodGenomeFactory(MethodFactory, Population) - Constructor for class org.encog.ml.genetic.MLMethodGenomeFactory
  Construct the genome factory.
MLOutput - Interface in org.encog.ml
  Defines a MLMethod that produces output.
MLProperties - Interface in org.encog.ml
  Defines a Machine Learning Method that holds properties.
MLRegression - Interface in org.encog.ml
  Defines a Machine Learning Method that supports regression.
MLResettable - Interface in org.encog.ml
  Defines a Machine Learning Method that can be reset to an untrained starting point.
MLSequenceSet - Interface in org.encog.ml.data
  A sequence set is a collection of data sets.
MLStateSequence - Interface in org.encog.ml
  A state sequence ML method, for example a Hidden Markov Model.
MLTrain - Interface in org.encog.ml.train
  Defines a training method for a machine learning method.
MLTrainFactory - Class in org.encog.ml.factory
  This factory is used to create trainers for machine learning methods.
MLTrainFactory() - Constructor for class org.encog.ml.factory.MLTrainFactory
mod() - Method in class org.encog.mathutil.ComplexNumber
  Modulus of this Complex number (the distance from the origin in polar coordinates).
Momentum - Interface in org.encog.neural.networks.training
  Specifies that a training algorithm has the concept of a momentum.
MOMENTUM_CYCLES - Static variable in class org.encog.neural.networks.training.strategy.SmartMomentum
  How many cycles to accept before adjusting momentum.
MOMENTUM_INCREASE - Static variable in class org.encog.neural.networks.training.strategy.SmartMomentum
  How much to increase momentum by.
MONTH_OFFSET - Static variable in class org.encog.util.time.NumericDateUtil
MONTHS_YEAR - Static variable in class org.encog.util.time.TimeSpan
  Months in a year.
MOVE_2WAY - Static variable in class org.encog.ca.program.basic.Movement
MOVE_4WAY - Static variable in class org.encog.ca.program.basic.Movement
MOVE_8WAY - Static variable in class org.encog.ca.program.basic.Movement
Movement - Class in org.encog.ca.program.basic
Movement(int, int) - Constructor for class org.encog.ca.program.basic.Movement
MovingAverage - Class in org.encog.app.quant.indicators
  A simple moving average.
MovingAverage(int, boolean) - Constructor for class org.encog.app.quant.indicators.MovingAverage
  Construct this object.
MSG - Static variable in class org.encog.mathutil.randomize.NguyenWidrowRandomizer
MU - Static variable in class org.encog.mathutil.randomize.generate.AbstractBoxMuller
  The mean.
mul(double[], double) - Method in class org.encog.mathutil.VectorAlgebra
  v = k * v The components of the vector are multiplied by k.
mul(ExpressionValue, ExpressionValue) - Static method in class org.encog.ml.prg.expvalue.EvaluateExpr
  Perform a multiply on two expression values.
mul() - Method in class org.encog.util.datastruct.StackInt
mulRand(double[], double) - Method in class org.encog.mathutil.VectorAlgebra
  v = k * U(0,1) * v The components of the vector are multiplied by k and a random number.
MULT - Static variable in class org.encog.util.text.DoubleString
MultiDimension - Class in org.encog.mathutil.dimension
  Handle multi-dimensional integer-based dimensions.
MultiDimension(int) - Constructor for class org.encog.mathutil.dimension.MultiDimension
  Allocate a MultiDimension.
MultiDimension(MultiDimension) - Constructor for class org.encog.mathutil.dimension.MultiDimension
MultiLayerPerceptronFactory - Class in org.encog.ensemble.ml.mlp.factory
MultiLayerPerceptronFactory() - Constructor for class org.encog.ensemble.ml.mlp.factory.MultiLayerPerceptronFactory
MultiObjectiveFitness - Class in org.encog.ml.fitness
  A multi-objective fitness function.
MultiObjectiveFitness() - Constructor for class org.encog.ml.fitness.MultiObjectiveFitness
MultiplicativeGroup - Class in org.encog.util.normalize.output.multiplicative
  Used to group multiplicative fields together.
MultiplicativeGroup() - Constructor for class org.encog.util.normalize.output.multiplicative.MultiplicativeGroup
multiply(UniverseCell) - Method in class org.encog.ca.universe.basic.BasicContinuousCell
multiply(UniverseCell) - Method in interface org.encog.ca.universe.ContinuousCell
multiply(double) - Method in class org.encog.mathutil.matrices.Matrix
  Multiply every value in the matrix by the specified value.
multiply(double[], double[]) - Method in class org.encog.mathutil.matrices.Matrix
  Multiply every row by the specified vector.
multiply(Matrix, double) - Static method in class org.encog.mathutil.matrices.MatrixMath
  Return the result of multiplying every cell in the matrix by the specified value.
multiply(Matrix, Matrix) - Static method in class org.encog.mathutil.matrices.MatrixMath
  Return the product of the first and second matrix.
multiply(Matrix, double[]) - Static method in class org.encog.mathutil.matrices.MatrixMath
MultiplyWithCarryGenerateRandom - Class in org.encog.mathutil.randomize.generate
  In Multiply with Carry (MWC) is a pseudo random number generator computer science, multiply-with-carry (MWC) is a method invented by George Marsaglia for generating sequences of random integers based on an initial set from two to many thousands of randomly chosen seed values.
MultiplyWithCarryGenerateRandom(long) - Constructor for class org.encog.mathutil.randomize.generate.MultiplyWithCarryGenerateRandom
MultiplyWithCarryGenerateRandom() - Constructor for class org.encog.mathutil.randomize.generate.MultiplyWithCarryGenerateRandom
MultiplyWithCarryGenerateRandom(long[], long, int, long) - Constructor for class org.encog.mathutil.randomize.generate.MultiplyWithCarryGenerateRandom
MultiquadricFunction - Class in org.encog.mathutil.rbf
  Multi-dimensional Multiquadric function.
MultiquadricFunction(double, double, double) - Constructor for class org.encog.mathutil.rbf.MultiquadricFunction
  Construct a single-dimension Multiquadric function with the specified peak, centers and widths.
MultiquadricFunction(double, double[], double) - Constructor for class org.encog.mathutil.rbf.MultiquadricFunction
  Construct a multi-dimension Multiquadric function with the specified peak, centers and widths.
MultiquadricFunction(int) - Constructor for class org.encog.mathutil.rbf.MultiquadricFunction
  Create centered at zero, width 0, and peak 0.
MultiThreadable - Interface in org.encog.util.concurrency
  Defines that a class is multi-threadable.
MUST_USE_IMAGE - Static variable in class org.encog.platformspecific.j2se.data.image.ImageMLDataSet
  Error message to inform the caller that only ImageNeuralData objects can be used with this collection.
MutateLinkWeight - Interface in org.encog.neural.neat.training.opp.links
  This interface defines various ways that a NEAT network can have its link weights mutated.
MutatePerturb - Class in org.encog.ml.genetic.mutate
  A simple mutation based on random numbers.
MutatePerturb(double) - Constructor for class org.encog.ml.genetic.mutate.MutatePerturb
  Construct a perturb mutation.
MutatePerturbLinkWeight - Class in org.encog.neural.neat.training.opp.links
  Mutate weight links by perturbing their weights.
MutatePerturbLinkWeight(double) - Constructor for class org.encog.neural.neat.training.opp.links.MutatePerturbLinkWeight
  Construct the perturbing mutator.
MutateResetLinkWeight - Class in org.encog.neural.neat.training.opp.links
  Mutate weight links by reseting the weight to an entirely new value.
MutateResetLinkWeight() - Constructor for class org.encog.neural.neat.training.opp.links.MutateResetLinkWeight
MutateShuffle - Class in org.encog.ml.genetic.mutate
  A simple mutation where genes are shuffled.
MutateShuffle() - Constructor for class org.encog.ml.genetic.mutate.MutateShuffle
mutateWeight(Random, NEATLinkGene, double) - Method in interface org.encog.neural.neat.training.opp.links.MutateLinkWeight
  Perform the weight mutation on the specified link.
mutateWeight(Random, NEATLinkGene, double) - Method in class org.encog.neural.neat.training.opp.links.MutatePerturbLinkWeight
  Perform the weight mutation on the specified link.
mutateWeight(Random, NEATLinkGene, double) - Method in class org.encog.neural.neat.training.opp.links.MutateResetLinkWeight
  Perform the weight mutation on the specified link.

## N

N - Static variable in class org.encog.engine.network.activation.ActivationLinear
  Default empty parameters.
NAME - Static variable in class org.encog.app.quant.indicators.MovingAverage
  The name of this indicator.
NAME - Static variable in class org.encog.app.quant.indicators.predictive.BestClose
  The name of this indicator.
NAME - Static variable in class org.encog.app.quant.indicators.predictive.BestReturn
  The name of this indicator.
NAME - Static variable in class org.encog.persist.PersistConst
  A name.
NATIVE - Static variable in class org.encog.persist.PersistConst
  Native.
navigate(Form) - Method in class org.encog.bot.browse.Browser
  Navigate to the specified form by performing a submit of that form.
navigate(Form, Input) - Method in class org.encog.bot.browse.Browser
  Navigate based on a form.
navigate(Link) - Method in class org.encog.bot.browse.Browser
  Navigate to a new page based on a link.
navigate(String) - Method in class org.encog.bot.browse.Browser
  Navigate based on a string URL.
navigate(URL) - Method in class org.encog.bot.browse.Browser
  Navigate to a page based on a URL object.
navigate(URL, InputStream) - Method in class org.encog.bot.browse.Browser
  Navigate to a page and post the specified data.
NEATBaseGene - Class in org.encog.neural.neat.training
  Defines a base class for NEAT genes.
NEATBaseGene() - Constructor for class org.encog.neural.neat.training.NEATBaseGene
NEATCODEC - Class in org.encog.neural.neat
  This CODEC is used to create phenomes (NEATNetwork) objects using a genome (NEATGenome).
NEATCODEC() - Constructor for class org.encog.neural.neat.NEATCODEC
NEATConfig - Class in org.encog.ml.model.config
  Config class for EncogModel to use a NEAT neural network.
NEATConfig() - Constructor for class org.encog.ml.model.config.NEATConfig
NEATCrossover - Class in org.encog.neural.neat.training.opp
  Crossover is performed by mixing the link genes between the parents to produce an offspring.
NEATCrossover() - Constructor for class org.encog.neural.neat.training.opp.NEATCrossover
NEATFactory - Class in org.encog.ml.factory.method
  A factor to create feedforward networks.
NEATFactory() - Constructor for class org.encog.ml.factory.method.NEATFactory
NEATGAFactory - Class in org.encog.ml.factory.train
  A factory to create genetic algorithm trainers.
NEATGAFactory() - Constructor for class org.encog.ml.factory.train.NEATGAFactory
NEATGenome - Class in org.encog.neural.neat.training
  Implements a NEAT genome.
NEATGenome(NEATGenome) - Constructor for class org.encog.neural.neat.training.NEATGenome
  Construct a genome by copying another.
NEATGenome(List<NEATNeuronGene>, List<NEATLinkGene>, int, int) - Constructor for class org.encog.neural.neat.training.NEATGenome
  Create a NEAT gnome.
NEATGenome(Random, NEATPopulation, int, int, double) - Constructor for class org.encog.neural.neat.training.NEATGenome
  Create a new genome with the specified connection density.
NEATGenome() - Constructor for class org.encog.neural.neat.training.NEATGenome
  Empty constructor for persistence.
NEATGenomeFactory - Interface in org.encog.neural.neat
  This interface defines additional methods defined to create NEAT genomes.
NEATInnovation - Class in org.encog.neural.neat.training
  Implements a NEAT innovation.
NEATInnovation() - Constructor for class org.encog.neural.neat.training.NEATInnovation
  Default constructor, used mainly for persistence.
NEATInnovationList - Class in org.encog.neural.neat.training
  Implements a NEAT innovation list.
NEATInnovationList() - Constructor for class org.encog.neural.neat.training.NEATInnovationList
  The default constructor, used mainly for persistance.
NEATInnovationList(NEATPopulation) - Constructor for class org.encog.neural.neat.training.NEATInnovationList
  Construct an innovation list, that includes the initial innovations.
NEATInnovationType - Enum in org.encog.neural.neat.training
  The type of NEAT innovation.
NEATLink - Class in org.encog.neural.neat
  Implements a link between two NEAT neurons.
NEATLink(int, int, double) - Constructor for class org.encog.neural.neat.NEATLink
  Construct a NEAT link.
NEATLinkGene - Class in org.encog.neural.neat.training
  Implements a NEAT link gene.
NEATLinkGene() - Constructor for class org.encog.neural.neat.training.NEATLinkGene
  Default constructor, used mainly for persistence.
NEATLinkGene(long, long, boolean, long, double) - Constructor for class org.encog.neural.neat.training.NEATLinkGene
  Construct a NEAT link gene.
NEATLinkGene(NEATLinkGene) - Constructor for class org.encog.neural.neat.training.NEATLinkGene
NEATMutateAddLink - Class in org.encog.neural.neat.training.opp
  Mutates a NEAT genome by adding a link.
NEATMutateAddLink() - Constructor for class org.encog.neural.neat.training.opp.NEATMutateAddLink
NEATMutateAddNode - Class in org.encog.neural.neat.training.opp
  Mutate a genome by adding a new node.
NEATMutateAddNode() - Constructor for class org.encog.neural.neat.training.opp.NEATMutateAddNode
NEATMutateRemoveLink - Class in org.encog.neural.neat.training.opp
  Mutate a genome by removing a random link.
NEATMutateRemoveLink() - Constructor for class org.encog.neural.neat.training.opp.NEATMutateRemoveLink
NEATMutateWeights - Class in org.encog.neural.neat.training.opp
  Mutate the weights of a genome.
NEATMutateWeights(SelectLinks, MutateLinkWeight) - Constructor for class org.encog.neural.neat.training.opp.NEATMutateWeights
  Construct a weight mutation operator.
NEATMutation - Class in org.encog.neural.neat.training.opp
  This class represents a NEAT mutation.
NEATMutation() - Constructor for class org.encog.neural.neat.training.opp.NEATMutation
NEATNetwork - Class in org.encog.neural.neat
  NEAT networks relieve the programmer of the need to define the hidden layer structure of the neural network.
NEATNetwork(int, int, List<NEATLink>, ActivationFunction[]) - Constructor for class org.encog.neural.neat.NEATNetwork
  Construct a NEAT network.
NEATNeuronGene - Class in org.encog.neural.neat.training
  Implements a NEAT neuron gene.
NEATNeuronGene() - Constructor for class org.encog.neural.neat.training.NEATNeuronGene
  The default constructor.
NEATNeuronGene(NEATNeuronType, ActivationFunction, long, long) - Constructor for class org.encog.neural.neat.training.NEATNeuronGene
  Construct a neuron gene.
NEATNeuronGene(NEATNeuronGene) - Constructor for class org.encog.neural.neat.training.NEATNeuronGene
  Construct this gene by comping another.
NEATNeuronType - Enum in org.encog.neural.neat
  The types of neurons supported by NEAT.
NEATPopulation - Class in org.encog.neural.neat
  A population for a NEAT or HyperNEAT system.
NEATPopulation() - Constructor for class org.encog.neural.neat.NEATPopulation
  An empty constructor for serialization.
NEATPopulation(int, int, int) - Constructor for class org.encog.neural.neat.NEATPopulation
  Construct a starting NEAT population.
NEATPopulation(Substrate, int) - Constructor for class org.encog.neural.neat.NEATPopulation
  Construct a starting HyperNEAT population.
NEATUtil - Class in org.encog.neural.neat
  NEAT does not make use of a special trainer.
NEATUtil() - Constructor for class org.encog.neural.neat.NEATUtil
needsTraining() - Method in class org.encog.ensemble.aggregator.Averaging
needsTraining() - Method in class org.encog.ensemble.aggregator.MajorityVoting
needsTraining() - Method in class org.encog.ensemble.aggregator.MetaClassifier
needsTraining() - Method in interface org.encog.ensemble.EnsembleAggregator
neg(double[]) - Method in class org.encog.mathutil.VectorAlgebra
  v = -v
NegateMissing - Class in org.encog.app.analyst.missing
NegateMissing() - Constructor for class org.encog.app.analyst.missing.NegateMissing
NEGATIVE_ETA - Static variable in class org.encog.neural.networks.training.propagation.resilient.RPROPConst
  The NEGATIVE ETA value.
NeighborhoodBubble - Class in org.encog.neural.som.training.basic.neighborhood
  A neighborhood function that uses a simple bubble.
NeighborhoodBubble(int) - Constructor for class org.encog.neural.som.training.basic.neighborhood.NeighborhoodBubble
  Create a bubble neighborhood function that will return 1.0 (full update) for any neuron that is plus or minus the width distance from the winning neuron.
NeighborhoodFunction - Interface in org.encog.neural.som.training.basic.neighborhood
  Defines how a neighborhood function should work in competitive training.
NeighborhoodRBF - Class in org.encog.neural.som.training.basic.neighborhood
  Implements a multi-dimensional RBF neighborhood function.
NeighborhoodRBF(RBFEnum, int, int) - Constructor for class org.encog.neural.som.training.basic.neighborhood.NeighborhoodRBF
  Construct a 2d neighborhood function based on the sizes for the x and y dimensions.
NeighborhoodRBF(int[], RBFEnum) - Constructor for class org.encog.neural.som.training.basic.neighborhood.NeighborhoodRBF
  Construct a multi-dimensional neighborhood function.
NeighborhoodRBF1D - Class in org.encog.neural.som.training.basic.neighborhood
  A neighborhood function based on an RBF function.
NeighborhoodRBF1D(RadialBasisFunction) - Constructor for class org.encog.neural.som.training.basic.neighborhood.NeighborhoodRBF1D
  Construct the neighborhood function with the specified radial function.
NeighborhoodRBF1D(RBFEnum) - Constructor for class org.encog.neural.som.training.basic.neighborhood.NeighborhoodRBF1D
  Construct a 1d neighborhood function.
NeighborhoodSingle - Class in org.encog.neural.som.training.basic.neighborhood
  A very simple neighborhood function that will return 1.0 (full effect) for the winning neuron, and 0.0 (no change) for everything else.
NeighborhoodSingle() - Constructor for class org.encog.neural.som.training.basic.neighborhood.NeighborhoodSingle
NeighborhoodSOMFactory - Class in org.encog.ml.factory.train
  Train an SOM network with a neighborhood method.
NeighborhoodSOMFactory() - Constructor for class org.encog.ml.factory.train.NeighborhoodSOMFactory
NelderMeadFactory - Class in org.encog.ml.factory.train
NelderMeadFactory() - Constructor for class org.encog.ml.factory.train.NelderMeadFactory
NelderMeadTraining - Class in org.encog.neural.networks.training.nm
  The Nelder-Mead method is a commonly used parameter optimization method that can be used for neural network training.
NelderMeadTraining(BasicNetwork, MLDataSet) - Constructor for class org.encog.neural.networks.training.nm.NelderMeadTraining
  Construct a Nelder Mead trainer with a step size of 100.
NelderMeadTraining(BasicNetwork, MLDataSet, double) - Constructor for class org.encog.neural.networks.training.nm.NelderMeadTraining
  Construct a Nelder Mead trainer with a definable step.
network - Variable in class org.encog.mathutil.matrices.hessian.BasicHessian
  The neural network that we would like to train.
network - Variable in class org.encog.neural.networks.training.propagation.Propagation
  The network to train.
NetworkCODEC - Class in org.encog.neural.networks.structure
  This class will extract the "long term memory" of a neural network, that is the weights and bias values into an array.
NetworkFold - Class in org.encog.neural.networks.training.cross
  The network for one fold of a cross validation.
NetworkFold(FlatNetwork) - Constructor for class org.encog.neural.networks.training.cross.NetworkFold
  Construct a fold from the specified flat network.
NetworkPattern - Enum in org.encog.neural.prune
  Specify which network pattern to use.
networkSize(MLMethod) - Static method in class org.encog.neural.networks.structure.NetworkCODEC
  Determine the network size.
networkToArray(MLMethod) - Static method in class org.encog.neural.networks.structure.NetworkCODEC
  Convert to an array.
networkToString(BasicNetwork) - Static method in class org.encog.neural.prune.PruneIncremental
  Format the network as a human readable string that lists the hidden layers.
NeuralData - Interface in org.encog.neural.data
  This is an alias class for Encog 2.5 compatibility.
NeuralDataMapping - Class in org.encog.neural.networks
  Used to map one neural data object to another.
NeuralDataMapping() - Constructor for class org.encog.neural.networks.NeuralDataMapping
  Construct the neural data mapping class, with null values.
NeuralDataMapping(MLData, MLData) - Constructor for class org.encog.neural.networks.NeuralDataMapping
  Construct the neural data mapping class with the specified values.
NeuralDataPair - Interface in org.encog.neural.data
  This is an alias class for Encog 2.5 compatibility.
NeuralDataSet - Interface in org.encog.neural.data
  This is an alias class for Encog 2.5 compatibility.
NeuralDataSetCODEC - Class in org.encog.ml.data.buffer.codec
  A CODEC that works with the NeuralDataSet class.
NeuralDataSetCODEC(MLDataSet) - Constructor for class org.encog.ml.data.buffer.codec.NeuralDataSetCODEC
  Construct a CODEC.
NeuralNetworkError - Exception in org.encog.neural
  Used by the neural network classes to indicate an error.
NeuralNetworkError(String) - Constructor for exception org.encog.neural.NeuralNetworkError
  Construct a message exception.
NeuralNetworkError(Throwable) - Constructor for exception org.encog.neural.NeuralNetworkError
  Construct an exception that holds another exception.
NeuralNetworkError(String, Throwable) - Constructor for exception org.encog.neural.NeuralNetworkError
  Construct an exception that holds another exception.
NeuralNetworkPattern - Interface in org.encog.neural.pattern
  Patterns are used to create common sorts of neural networks.
NeuralPSO - Class in org.encog.neural.networks.training.pso
  Iteratively trains a population of neural networks by applying particle swarm optimisation (PSO).
NeuralPSO(BasicNetwork, Randomizer, CalculateScore, int) - Constructor for class org.encog.neural.networks.training.pso.NeuralPSO
  Constructor.
NeuralPSO(BasicNetwork, MLDataSet) - Constructor for class org.encog.neural.networks.training.pso.NeuralPSO
  Construct a PSO using a training set score function, 20 particles and the NguyenWidrowRandomizer randomizer.
NeuralPSOWorker - Class in org.encog.neural.networks.training.pso
  PSO multi-treaded worker.
NeuralPSOWorker(NeuralPSO, int, boolean) - Constructor for class org.encog.neural.networks.training.pso.NeuralPSOWorker
  Constructor.
NeuralSimulatedAnnealing - Class in org.encog.neural.networks.training.anneal
  This class implements a simulated annealing training algorithm for neural networks.
NeuralSimulatedAnnealing(MLEncodable, CalculateScore, double, double, int) - Constructor for class org.encog.neural.networks.training.anneal.NeuralSimulatedAnnealing
  Construct a simulated annleaing trainer for a encodable MLMethod.
NeuralSimulatedAnnealingHelper - Class in org.encog.neural.networks.training.anneal
  Simple class used by the neural simulated annealing.
NeuralSimulatedAnnealingHelper(NeuralSimulatedAnnealing) - Constructor for class org.encog.neural.networks.training.anneal.NeuralSimulatedAnnealingHelper
  Constructs this object.
NeuralStructure - Class in org.encog.neural.networks.structure
  Holds "cached" information about the structure of the neural network.
NeuralStructure(BasicNetwork) - Constructor for class org.encog.neural.networks.structure.NeuralStructure
  Construct a structure object for the specified network.
NEURON_COUNT - Static variable in class org.encog.persist.PersistConst
  Neurons.
NEURONS - Static variable in class org.encog.persist.PersistConst
  Neuron count.
NeuronTask - Interface in org.encog.neural.freeform.task
  Defines a task that is carried out for every neuron.
neuronTypeToString(NEATNeuronType) - Static method in class org.encog.neural.neat.PersistNEATPopulation
  Convert a NEATNeuronType enum to a string.
newSequence() - Method in class org.encog.ml.hmm.alog.MarkovGenerator
next(int) - Method in class org.encog.mathutil.randomize.generate.MersenneTwisterGenerateRandom
next() - Method in class org.encog.ml.data.auto.AutoFloatDataSet.AutoFloatIterator
next() - Method in class org.encog.ml.data.basic.BasicMLDataSet.BasicMLIterator
next() - Method in class org.encog.ml.data.basic.BasicMLSequenceSet.BasicMLSeqIterator
next() - Method in class org.encog.ml.data.buffer.BufferedDataSetIterator
next() - Method in class org.encog.ml.data.folded.FoldedIterator
next() - Method in class org.encog.ml.data.versatile.MatrixMLDataSet.MatrixMLDataSetIterator
next() - Method in class org.encog.util.csv.ReadCSV
  Read the next line.
nextBoolean() - Method in class org.encog.mathutil.randomize.generate.BasicGenerateRandom
nextBoolean() - Method in interface org.encog.mathutil.randomize.generate.GenerateRandom
nextBoolean() - Method in class org.encog.mathutil.randomize.generate.LinearCongruentialRandom
nextBoolean() - Method in class org.encog.mathutil.randomize.generate.MersenneTwisterGenerateRandom
nextBoolean() - Method in class org.encog.mathutil.randomize.generate.MultiplyWithCarryGenerateRandom
nextBoolean() - Method in class org.encog.mathutil.randomize.generate.SecureGenerateRandom
nextDouble() - Method in class org.encog.mathutil.randomize.BasicRandomizer
nextDouble(double, double) - Method in class org.encog.mathutil.randomize.BasicRandomizer
  Generate a random number in the specified range.
nextDouble(double) - Method in class org.encog.mathutil.randomize.generate.AbstractGenerateRandom
  The next random double up to a non-inclusive range.
nextDouble(double, double) - Method in class org.encog.mathutil.randomize.generate.AbstractGenerateRandom
  The next double between low (inclusive) and high (exclusive).
nextDouble() - Method in class org.encog.mathutil.randomize.generate.BasicGenerateRandom
nextDouble() - Method in interface org.encog.mathutil.randomize.generate.GenerateRandom
nextDouble(double) - Method in interface org.encog.mathutil.randomize.generate.GenerateRandom
  The next random double up to a non-inclusive range.
nextDouble(double, double) - Method in interface org.encog.mathutil.randomize.generate.GenerateRandom
  The next double between low (inclusive) and high (exclusive).
nextDouble() - Method in class org.encog.mathutil.randomize.generate.LinearCongruentialRandom
nextDouble() - Method in class org.encog.mathutil.randomize.generate.MersenneTwisterGenerateRandom
nextDouble() - Method in class org.encog.mathutil.randomize.generate.MultiplyWithCarryGenerateRandom
nextDouble() - Method in class org.encog.mathutil.randomize.generate.SecureGenerateRandom
nextFloat() - Method in class org.encog.mathutil.randomize.generate.BasicGenerateRandom
nextFloat() - Method in interface org.encog.mathutil.randomize.generate.GenerateRandom
nextFloat() - Method in class org.encog.mathutil.randomize.generate.LinearCongruentialRandom
nextFloat() - Method in class org.encog.mathutil.randomize.generate.MersenneTwisterGenerateRandom
nextFloat() - Method in class org.encog.mathutil.randomize.generate.MultiplyWithCarryGenerateRandom
nextFloat() - Method in class org.encog.mathutil.randomize.generate.SecureGenerateRandom
nextGaussian() - Method in class org.encog.mathutil.randomize.generate.AbstractBoxMuller
nextGaussian() - Method in class org.encog.mathutil.randomize.generate.BasicGenerateRandom
nextGaussian() - Method in interface org.encog.mathutil.randomize.generate.GenerateRandom
nextGaussian() - Method in class org.encog.mathutil.randomize.generate.SecureGenerateRandom
nextInt(int, int) - Method in class org.encog.mathutil.randomize.generate.AbstractGenerateRandom
  The next int between low (inclusive) and high (exclusive).
nextInt(int) - Method in class org.encog.mathutil.randomize.generate.AbstractGenerateRandom
  The next random int up to a non-inclusive range.
nextInt() - Method in class org.encog.mathutil.randomize.generate.BasicGenerateRandom
nextInt() - Method in interface org.encog.mathutil.randomize.generate.GenerateRandom
nextInt(int) - Method in interface org.encog.mathutil.randomize.generate.GenerateRandom
  The next random int up to a non-inclusive range.
nextInt(int, int) - Method in interface org.encog.mathutil.randomize.generate.GenerateRandom
  The next int between low (inclusive) and high (exclusive).
nextInt() - Method in class org.encog.mathutil.randomize.generate.LinearCongruentialRandom
nextInt() - Method in class org.encog.mathutil.randomize.generate.MersenneTwisterGenerateRandom
nextInt() - Method in class org.encog.mathutil.randomize.generate.MultiplyWithCarryGenerateRandom
nextInt() - Method in class org.encog.mathutil.randomize.generate.SecureGenerateRandom
nextLong() - Method in class org.encog.mathutil.randomize.generate.BasicGenerateRandom
nextLong() - Method in interface org.encog.mathutil.randomize.generate.GenerateRandom
nextLong() - Method in class org.encog.mathutil.randomize.generate.LinearCongruentialRandom
nextLong() - Method in class org.encog.mathutil.randomize.generate.MersenneTwisterGenerateRandom
nextLong() - Method in class org.encog.mathutil.randomize.generate.MultiplyWithCarryGenerateRandom
nextLong() - Method in class org.encog.mathutil.randomize.generate.SecureGenerateRandom
NguyenWidrowRandomizer - Class in org.encog.mathutil.randomize
  Implementation of Nguyen-Widrow weight initialization.
NguyenWidrowRandomizer() - Constructor for class org.encog.mathutil.randomize.NguyenWidrowRandomizer
NinjaFileConvert - Class in org.encog.app.quant.ninja
  A simple class that shows how to convert financial data into the form that NinjaTrader can recognize.
NinjaFileConvert() - Constructor for class org.encog.app.quant.ninja.NinjaFileConvert
NinjaStreamWriter - Class in org.encog.app.quant.ninja
  Can be used from within NinjaTrader to export data.
NinjaStreamWriter() - Constructor for class org.encog.app.quant.ninja.NinjaStreamWriter
  Construct the object, and set the defaults.
NO_BIAS_ACTIVATION - Static variable in class org.encog.neural.flat.FlatNetwork
  The value that indicates that there is no bias activation.
NO_OPTIONS - Static variable in class org.encog.util.text.Base64
  No options specified.
NO_PREC - Static variable in interface org.encog.ml.prg.extension.ProgramExtensionTemplate
  Defines a very low precidence.
NodeType - Enum in org.encog.app.generate.program
  The type of node.
NodeType - Enum in org.encog.ml.prg.extension
  The node type.
NominalItem - Class in org.encog.util.normalize.output.nominal
  A nominal item.
NominalItem() - Constructor for class org.encog.util.normalize.output.nominal.NominalItem
  Construct a empty range item.
NominalItem(InputField, double, double) - Constructor for class org.encog.util.normalize.output.nominal.NominalItem
  Create a nominal item.
norm2() - Method in class org.encog.mathutil.matrices.decomposition.SingularValueDecomposition
  Two norm
NormalizationAction - Enum in org.encog.util.arrayutil
  Normalization actions desired.
NormalizationError - Exception in org.encog.util.normalize
  Used for normalization errors.
NormalizationError(String) - Constructor for exception org.encog.util.normalize.NormalizationError
  Construct a message exception.
NormalizationError(Throwable) - Constructor for exception org.encog.util.normalize.NormalizationError
  Construct an exception that holds another exception.
NormalizationHelper - Class in org.encog.ml.data.versatile
  This class is used to perform normalizations for methods trained with the versatile dataset.
NormalizationHelper() - Constructor for class org.encog.ml.data.versatile.NormalizationHelper
NormalizationStorage - Interface in org.encog.util.normalize.target
  Defines a means by which normalized data can be stored.
NormalizationStorageArray1D - Class in org.encog.util.normalize.target
  Output the normalized data to a 1D array.
NormalizationStorageArray1D() - Constructor for class org.encog.util.normalize.target.NormalizationStorageArray1D
NormalizationStorageArray1D(double[]) - Constructor for class org.encog.util.normalize.target.NormalizationStorageArray1D
  Construct an object to store to a 2D array.
NormalizationStorageArray2D - Class in org.encog.util.normalize.target
  Output the normalized data to a 2D array.
NormalizationStorageArray2D(double[][]) - Constructor for class org.encog.util.normalize.target.NormalizationStorageArray2D
  Construct an object to store to a 2D array.
NormalizationStorageArray2D() - Constructor for class org.encog.util.normalize.target.NormalizationStorageArray2D
NormalizationStorageCSV - Class in org.encog.util.normalize.target
  Store normalized data to a CSV file.
NormalizationStorageCSV(CSVFormat, File) - Constructor for class org.encog.util.normalize.target.NormalizationStorageCSV
  Construct a CSV storage object from the specified file.
NormalizationStorageCSV() - Constructor for class org.encog.util.normalize.target.NormalizationStorageCSV
NormalizationStorageCSV(File) - Constructor for class org.encog.util.normalize.target.NormalizationStorageCSV
  Construct a CSV storage object from the specified file.
NormalizationStorageEncogCollection - Class in org.encog.util.normalize.target
NormalizationStorageEncogCollection() - Constructor for class org.encog.util.normalize.target.NormalizationStorageEncogCollection
NormalizationStorageNeuralDataSet - Class in org.encog.util.normalize.target
  Store the normalized data to a neural data set.
NormalizationStorageNeuralDataSet() - Constructor for class org.encog.util.normalize.target.NormalizationStorageNeuralDataSet
NormalizationStorageNeuralDataSet(int, int) - Constructor for class org.encog.util.normalize.target.NormalizationStorageNeuralDataSet
  Construct a new NeuralDataSet based on the parameters specified.
NormalizationStorageNeuralDataSet(MLDataSet) - Constructor for class org.encog.util.normalize.target.NormalizationStorageNeuralDataSet
  Construct a normalized neural storage class to hold data.
NormalizationStrategy - Interface in org.encog.ml.data.versatile.normalizers.strategies
  Defines the interface to a normalization strategy.
normalize(File) - Method in class org.encog.app.analyst.csv.normalize.AnalystNormalizeCSV
  Normalize the input file.
normalize(File) - Method in class org.encog.app.analyst.csv.normalize.AnalystNormalizeToEGB
  Normalize the input file.
normalize(double) - Method in class org.encog.app.analyst.script.normalize.AnalystField
  Normalize the specified value.
normalize() - Method in class org.encog.ml.data.versatile.VersatileMLDataSet
  Normalize the data set, and allocate memory to hold it.
normalize(double) - Method in class org.encog.util.arrayutil.NormalizedField
  Normalize the specified value.
NORMALIZE_CONFIG_SOURCE_FILE - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "NORMALIZE:CONFIG_sourceFile".
NORMALIZE_CONFIG_TARGET_FILE - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "NORMALIZE:CONFIG_targetFile".
NORMALIZE_MISSING_VALUES - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "NORMALIZE:CONFIG_missingValues".
NormalizeArray - Class in org.encog.util.arrayutil
  Normalization is the process where data is adjusted to be inside a range.
NormalizeArray() - Constructor for class org.encog.util.arrayutil.NormalizeArray
  Construct the object, default NormalizedHigh and NormalizedLow to 1 and -1.
normalizeBinary(double) - Static method in class org.encog.mathutil.matrices.BiPolarUtil
  Normalize a binary number.
normalizeColumn(ColumnDefinition, String, double[], int) - Method in class org.encog.ml.data.versatile.normalizers.IndexedNormalizer
  Normalize a column from a string.
normalizeColumn(ColumnDefinition, double, double[], int) - Method in class org.encog.ml.data.versatile.normalizers.IndexedNormalizer
  Normalize a column from a double.
normalizeColumn(ColumnDefinition, String, double[], int) - Method in interface org.encog.ml.data.versatile.normalizers.Normalizer
  Normalize a column from a string.
normalizeColumn(ColumnDefinition, double, double[], int) - Method in interface org.encog.ml.data.versatile.normalizers.Normalizer
  Normalize a column from a double.
normalizeColumn(ColumnDefinition, String, double[], int) - Method in class org.encog.ml.data.versatile.normalizers.OneOfNNormalizer
  Normalize a column from a string.
normalizeColumn(ColumnDefinition, double, double[], int) - Method in class org.encog.ml.data.versatile.normalizers.OneOfNNormalizer
  Normalize a column from a double.
normalizeColumn(ColumnDefinition, String, double[], int) - Method in class org.encog.ml.data.versatile.normalizers.PassThroughNormalizer
  Normalize a column from a string.
normalizeColumn(ColumnDefinition, double, double[], int) - Method in class org.encog.ml.data.versatile.normalizers.PassThroughNormalizer
normalizeColumn(ColumnDefinition, String, double[], int) - Method in class org.encog.ml.data.versatile.normalizers.RangeNormalizer
  Normalize a column from a string.
normalizeColumn(ColumnDefinition, double, double[], int) - Method in class org.encog.ml.data.versatile.normalizers.RangeNormalizer
  Normalize a column from a double.
normalizeColumn(ColumnDefinition, String, double[], int) - Method in class org.encog.ml.data.versatile.normalizers.RangeOrdinal
  Normalize a column from a string.
normalizeColumn(ColumnDefinition, double, double[], int) - Method in class org.encog.ml.data.versatile.normalizers.RangeOrdinal
  Normalize a column from a double.
normalizeColumn(ColumnDefinition, boolean, String, double[], int) - Method in class org.encog.ml.data.versatile.normalizers.strategies.BasicNormalizationStrategy
  Normalize a column, with a string input.
normalizeColumn(ColumnDefinition, boolean, double, double[], int) - Method in class org.encog.ml.data.versatile.normalizers.strategies.BasicNormalizationStrategy
  Normalize a column, with a double value.
normalizeColumn(ColumnDefinition, boolean, String, double[], int) - Method in interface org.encog.ml.data.versatile.normalizers.strategies.NormalizationStrategy
  Normalize a column, with a string input.
normalizeColumn(ColumnDefinition, boolean, double, double[], int) - Method in interface org.encog.ml.data.versatile.normalizers.strategies.NormalizationStrategy
  Normalize a column, with a double value.
NormalizedField - Class in org.encog.util.arrayutil
  This object holds the normalization stats for a column.
NormalizedField() - Constructor for class org.encog.util.arrayutil.NormalizedField
  Construct the object with a range of 1 and -1.
NormalizedField(double, double) - Constructor for class org.encog.util.arrayutil.NormalizedField
  Construct the object.
NormalizedField(NormalizationAction, String) - Constructor for class org.encog.util.arrayutil.NormalizedField
  Construct an object.
NormalizedField(NormalizationAction, String, double, double, double, double) - Constructor for class org.encog.util.arrayutil.NormalizedField
  Construct the field, with no defaults.
NormalizedField(String, NormalizationAction, double, double) - Constructor for class org.encog.util.arrayutil.NormalizedField
  Construct the object.
normalizedSize(ColumnDefinition, boolean) - Method in class org.encog.ml.data.versatile.normalizers.strategies.BasicNormalizationStrategy
  Calculate how many elements a column will normalize into.
normalizedSize(ColumnDefinition, boolean) - Method in interface org.encog.ml.data.versatile.normalizers.strategies.NormalizationStrategy
  Calculate how many elements a column will normalize into.
normalizeInputColumn(int, String) - Method in class org.encog.ml.data.versatile.NormalizationHelper
  Normalize a single input column.
normalizeInputVector(String[], double[], boolean) - Method in class org.encog.ml.data.versatile.NormalizationHelper
  Normalize a string array to an input vector.
normalizeOutputColumn(int, String) - Method in class org.encog.ml.data.versatile.NormalizationHelper
  Normalize a single output column.
Normalizer - Interface in org.encog.ml.data.versatile.normalizers
  The normalizer interface defines how to normalize a column.
NormalizeRange - Enum in org.encog.app.analyst.wizard
  The normalization range that the Encog Analyst Wizard should use.
normalizeToVector(ColumnDefinition, int, double[], boolean, String) - Method in class org.encog.ml.data.versatile.NormalizationHelper
  Normalize a single column to the input vector.
notequ(ExpressionValue, ExpressionValue) - Static method in class org.encog.ml.prg.expvalue.EvaluateExpr
  Perform a non-equal on two expressions.
nr_class - Variable in class org.encog.mathutil.libsvm.svm_model
nr_weight - Variable in class org.encog.mathutil.libsvm.svm_parameter
nSV - Variable in class org.encog.mathutil.libsvm.svm_model
nu - Variable in class org.encog.mathutil.libsvm.svm_parameter
NU_SVC - Static variable in class org.encog.mathutil.libsvm.svm_parameter
NU_SVR - Static variable in class org.encog.mathutil.libsvm.svm_parameter
NullStatusReportable - Class in org.encog
  A report object that does nothing.
NullStatusReportable() - Constructor for class org.encog.NullStatusReportable
NumberList - Class in org.encog.util.csv
  Class used to handle lists of numbers.
numClusters() - Method in class org.encog.ml.kmeans.KMeansClustering
numClusters() - Method in interface org.encog.ml.MLClustering
NumericDateUtil - Class in org.encog.util.time
NumericDateUtil() - Constructor for class org.encog.util.time.NumericDateUtil
NumericRange - Class in org.encog.mathutil
  A numeric range has a high, low, mean, root-mean-square, standard deviation, and the count of how many samples it contains.
NumericRange(List<Double>) - Constructor for class org.encog.mathutil.NumericRange
  Create a numeric range from a list of values.

## O

ObjectCloner - Class in org.encog.util.obj
  A simple Object cloner that uses serialization.
ObjectHolder<T> - Class in org.encog.util.obj
  Holds an object of the specified type.
ObjectHolder(T, double) - Constructor for class org.encog.util.obj.ObjectHolder
ObjectPair<A,B> - Class in org.encog.util
  A pair of objects.
ObjectPair(A, B) - Constructor for class org.encog.util.ObjectPair
  Construct an object pair.
objectToDouble(Double[]) - Static method in class org.encog.util.EngineArray
  Convert an array of Double objects to double primitives.
observation() - Method in class org.encog.ml.hmm.alog.MarkovGenerator
observationSequence(int) - Method in class org.encog.ml.hmm.alog.MarkovGenerator
obtainCross() - Method in class org.encog.app.analyst.commands.Cmd
  Obtain the number of folds for cross validation.
obtainGenome(Genome[], int, Genome[], int) - Method in class org.encog.neural.neat.training.opp.NEATMutation
  Obtain the NEATGenome that we will mutate.
obtainMethod() - Method in class org.encog.app.analyst.commands.Cmd
  Obtain the ML method.
obtainPair() - Method in class org.encog.util.normalize.input.MLDataFieldHolder
  Obtain the next pair.
obtainTrainingSet() - Method in class org.encog.app.analyst.commands.Cmd
  Obtain the training set.
offspringProduced() - Method in class org.encog.ml.ea.opp.CompoundOperator
offspringProduced() - Method in interface org.encog.ml.ea.opp.EvolutionaryOperator
offspringProduced() - Method in class org.encog.ml.genetic.crossover.Splice
offspringProduced() - Method in class org.encog.ml.genetic.crossover.SpliceNoRepeat
offspringProduced() - Method in class org.encog.ml.genetic.mutate.MutatePerturb
offspringProduced() - Method in class org.encog.ml.genetic.mutate.MutateShuffle
offspringProduced() - Method in class org.encog.ml.prg.opp.ConstMutation
offspringProduced() - Method in class org.encog.ml.prg.opp.SubtreeCrossover
offspringProduced() - Method in class org.encog.ml.prg.opp.SubtreeMutation
offspringProduced() - Method in class org.encog.neural.neat.training.opp.NEATCrossover
offspringProduced() - Method in class org.encog.neural.neat.training.opp.NEATMutation
ONE_CLASS - Static variable in class org.encog.mathutil.libsvm.svm_parameter
OneOfNNormalizer - Class in org.encog.ml.data.versatile.normalizers
  Normalize to one-of-n for nominal values.
OneOfNNormalizer(double, double) - Constructor for class org.encog.ml.data.versatile.normalizers.OneOfNNormalizer
  Construct the normalizer.
OPCODE_FIELD - Static variable in class org.encog.app.analyst.csv.process.ProcessExtension
OPCODE_FIELDMAX - Static variable in class org.encog.app.analyst.csv.process.ProcessExtension
OPCODE_FIELDMAXPIP - Static variable in class org.encog.app.analyst.csv.process.ProcessExtension
OPEN - Static variable in class org.encog.app.analyst.csv.basic.FileData
  The open value.
open(String, boolean, CSVFormat) - Method in class org.encog.app.quant.ninja.NinjaStreamWriter
  Open the file for output.
open() - Method in class org.encog.ml.data.buffer.BufferedMLDataSet
  Open the binary file for reading.
open() - Method in class org.encog.ml.data.buffer.EncogEGBFile
  OPen an existing EGB file.
open(DataNormalization) - Method in interface org.encog.util.normalize.target.NormalizationStorage
  Close the storage.
open(DataNormalization) - Method in class org.encog.util.normalize.target.NormalizationStorageArray1D
  Not needed for this storage type.
open(DataNormalization) - Method in class org.encog.util.normalize.target.NormalizationStorageArray2D
  Not needed for this storage type.
open(DataNormalization) - Method in class org.encog.util.normalize.target.NormalizationStorageCSV
  Open the CSV file.
open(DataNormalization) - Method in class org.encog.util.normalize.target.NormalizationStorageEncogCollection
open(DataNormalization) - Method in class org.encog.util.normalize.target.NormalizationStorageNeuralDataSet
  Not needed for this storage type.
openAdditional() - Method in class org.encog.ensemble.data.EnsembleDataSet
openAdditional() - Method in class org.encog.ml.data.auto.AutoFloatDataSet
openAdditional() - Method in class org.encog.ml.data.basic.BasicMLDataSet
  Opens an additional instance of this dataset.
openAdditional() - Method in class org.encog.ml.data.basic.BasicMLSequenceSet
  Opens an additional instance of this dataset.
openAdditional() - Method in class org.encog.ml.data.buffer.BufferedMLDataSet
openAdditional() - Method in class org.encog.ml.data.folded.FoldedDataSet
  Opens an additional instance of this dataset.
openAdditional() - Method in interface org.encog.ml.data.MLDataSet
  Opens an additional instance of this dataset.
openAdditional() - Method in class org.encog.ml.data.versatile.MatrixMLDataSet
  Opens an additional instance of this dataset.
openResourceInputStream(String) - Static method in class org.encog.util.file.ResourceInputStream
  Construct a location to read from the specified resource.
OperationList - Class in org.encog.ml.ea.opp
  This class holds a list of evolutionary operators.
OperationList() - Constructor for class org.encog.ml.ea.opp.OperationList
ORDERED - Static variable in class org.encog.util.text.Base64
  Encode using the special "ordered" dialect of Base64 described here: http://www.faqs.org/qa/rfcc-1940.html.
org.encog - package org.encog
org.encog.app.analyst - package org.encog.app.analyst
org.encog.app.analyst.analyze - package org.encog.app.analyst.analyze
org.encog.app.analyst.commands - package org.encog.app.analyst.commands
org.encog.app.analyst.csv - package org.encog.app.analyst.csv
org.encog.app.analyst.csv.balance - package org.encog.app.analyst.csv.balance
org.encog.app.analyst.csv.basic - package org.encog.app.analyst.csv.basic
org.encog.app.analyst.csv.filter - package org.encog.app.analyst.csv.filter
org.encog.app.analyst.csv.normalize - package org.encog.app.analyst.csv.normalize
org.encog.app.analyst.csv.process - package org.encog.app.analyst.csv.process
org.encog.app.analyst.csv.segregate - package org.encog.app.analyst.csv.segregate
org.encog.app.analyst.csv.shuffle - package org.encog.app.analyst.csv.shuffle
org.encog.app.analyst.csv.sort - package org.encog.app.analyst.csv.sort
org.encog.app.analyst.missing - package org.encog.app.analyst.missing
org.encog.app.analyst.report - package org.encog.app.analyst.report
org.encog.app.analyst.script - package org.encog.app.analyst.script
org.encog.app.analyst.script.ml - package org.encog.app.analyst.script.ml
org.encog.app.analyst.script.normalize - package org.encog.app.analyst.script.normalize
org.encog.app.analyst.script.preprocess - package org.encog.app.analyst.script.preprocess
org.encog.app.analyst.script.process - package org.encog.app.analyst.script.process
org.encog.app.analyst.script.prop - package org.encog.app.analyst.script.prop
org.encog.app.analyst.script.segregate - package org.encog.app.analyst.script.segregate
org.encog.app.analyst.script.task - package org.encog.app.analyst.script.task
org.encog.app.analyst.util - package org.encog.app.analyst.util
org.encog.app.analyst.wizard - package org.encog.app.analyst.wizard
org.encog.app.generate - package org.encog.app.generate
org.encog.app.generate.generators - package org.encog.app.generate.generators
org.encog.app.generate.generators.cs - package org.encog.app.generate.generators.cs
org.encog.app.generate.generators.java - package org.encog.app.generate.generators.java
org.encog.app.generate.generators.js - package org.encog.app.generate.generators.js
org.encog.app.generate.generators.mql4 - package org.encog.app.generate.generators.mql4
org.encog.app.generate.generators.ninja - package org.encog.app.generate.generators.ninja
org.encog.app.generate.program - package org.encog.app.generate.program
org.encog.app.quant - package org.encog.app.quant
org.encog.app.quant.indicators - package org.encog.app.quant.indicators
org.encog.app.quant.indicators.predictive - package org.encog.app.quant.indicators.predictive
org.encog.app.quant.loader - package org.encog.app.quant.loader
org.encog.app.quant.loader.yahoo - package org.encog.app.quant.loader.yahoo
org.encog.app.quant.ninja - package org.encog.app.quant.ninja
org.encog.app.quant.util - package org.encog.app.quant.util
org.encog.bot - package org.encog.bot
org.encog.bot.browse - package org.encog.bot.browse
org.encog.bot.browse.range - package org.encog.bot.browse.range
org.encog.bot.dataunit - package org.encog.bot.dataunit
org.encog.bot.rss - package org.encog.bot.rss
org.encog.ca - package org.encog.ca
org.encog.ca.program - package org.encog.ca.program
org.encog.ca.program.basic - package org.encog.ca.program.basic
org.encog.ca.program.conway - package org.encog.ca.program.conway
org.encog.ca.program.elementary - package org.encog.ca.program.elementary
org.encog.ca.program.generic - package org.encog.ca.program.generic
org.encog.ca.runner - package org.encog.ca.runner
org.encog.ca.universe - package org.encog.ca.universe
org.encog.ca.universe.basic - package org.encog.ca.universe.basic
org.encog.ca.visualize - package org.encog.ca.visualize
org.encog.ca.visualize.basic - package org.encog.ca.visualize.basic
org.encog.engine.network.activation - package org.encog.engine.network.activation
org.encog.ensemble - package org.encog.ensemble
org.encog.ensemble.adaboost - package org.encog.ensemble.adaboost
org.encog.ensemble.aggregator - package org.encog.ensemble.aggregator
org.encog.ensemble.bagging - package org.encog.ensemble.bagging
org.encog.ensemble.data - package org.encog.ensemble.data
org.encog.ensemble.data.factories - package org.encog.ensemble.data.factories
org.encog.ensemble.ml.mlp.factory - package org.encog.ensemble.ml.mlp.factory
org.encog.ensemble.stacking - package org.encog.ensemble.stacking
org.encog.ensemble.training - package org.encog.ensemble.training
org.encog.mathutil - package org.encog.mathutil
org.encog.mathutil.dimension - package org.encog.mathutil.dimension
org.encog.mathutil.error - package org.encog.mathutil.error
org.encog.mathutil.libsvm - package org.encog.mathutil.libsvm
org.encog.mathutil.matrices - package org.encog.mathutil.matrices
org.encog.mathutil.matrices.decomposition - package org.encog.mathutil.matrices.decomposition
org.encog.mathutil.matrices.hessian - package org.encog.mathutil.matrices.hessian
org.encog.mathutil.probability - package org.encog.mathutil.probability
org.encog.mathutil.probability.vars - package org.encog.mathutil.probability.vars
org.encog.mathutil.randomize - package org.encog.mathutil.randomize
org.encog.mathutil.randomize.factory - package org.encog.mathutil.randomize.factory
org.encog.mathutil.randomize.generate - package org.encog.mathutil.randomize.generate
org.encog.mathutil.rbf - package org.encog.mathutil.rbf
org.encog.ml - package org.encog.ml
org.encog.ml.anneal - package org.encog.ml.anneal
org.encog.ml.bayesian - package org.encog.ml.bayesian
org.encog.ml.bayesian.bif - package org.encog.ml.bayesian.bif
org.encog.ml.bayesian.parse - package org.encog.ml.bayesian.parse
org.encog.ml.bayesian.query - package org.encog.ml.bayesian.query
org.encog.ml.bayesian.query.enumerate - package org.encog.ml.bayesian.query.enumerate
org.encog.ml.bayesian.query.sample - package org.encog.ml.bayesian.query.sample
org.encog.ml.bayesian.table - package org.encog.ml.bayesian.table
org.encog.ml.bayesian.training - package org.encog.ml.bayesian.training
org.encog.ml.bayesian.training.estimator - package org.encog.ml.bayesian.training.estimator
org.encog.ml.bayesian.training.search - package org.encog.ml.bayesian.training.search
org.encog.ml.bayesian.training.search.k2 - package org.encog.ml.bayesian.training.search.k2
org.encog.ml.data - package org.encog.ml.data
org.encog.ml.data.auto - package org.encog.ml.data.auto
org.encog.ml.data.basic - package org.encog.ml.data.basic
org.encog.ml.data.buffer - package org.encog.ml.data.buffer
org.encog.ml.data.buffer.codec - package org.encog.ml.data.buffer.codec
org.encog.ml.data.cross - package org.encog.ml.data.cross
org.encog.ml.data.folded - package org.encog.ml.data.folded
org.encog.ml.data.market - package org.encog.ml.data.market
org.encog.ml.data.market.loader - package org.encog.ml.data.market.loader
org.encog.ml.data.sparse - package org.encog.ml.data.sparse
org.encog.ml.data.specific - package org.encog.ml.data.specific
org.encog.ml.data.temporal - package org.encog.ml.data.temporal
org.encog.ml.data.versatile - package org.encog.ml.data.versatile
org.encog.ml.data.versatile.columns - package org.encog.ml.data.versatile.columns
org.encog.ml.data.versatile.division - package org.encog.ml.data.versatile.division
org.encog.ml.data.versatile.missing - package org.encog.ml.data.versatile.missing
org.encog.ml.data.versatile.normalizers - package org.encog.ml.data.versatile.normalizers
org.encog.ml.data.versatile.normalizers.strategies - package org.encog.ml.data.versatile.normalizers.strategies
org.encog.ml.data.versatile.sources - package org.encog.ml.data.versatile.sources
org.encog.ml.ea.codec - package org.encog.ml.ea.codec
org.encog.ml.ea.exception - package org.encog.ml.ea.exception
org.encog.ml.ea.genome - package org.encog.ml.ea.genome
org.encog.ml.ea.opp - package org.encog.ml.ea.opp
org.encog.ml.ea.opp.selection - package org.encog.ml.ea.opp.selection
org.encog.ml.ea.population - package org.encog.ml.ea.population
org.encog.ml.ea.rules - package org.encog.ml.ea.rules
org.encog.ml.ea.score - package org.encog.ml.ea.score
org.encog.ml.ea.score.adjust - package org.encog.ml.ea.score.adjust
org.encog.ml.ea.score.parallel - package org.encog.ml.ea.score.parallel
org.encog.ml.ea.sort - package org.encog.ml.ea.sort
org.encog.ml.ea.species - package org.encog.ml.ea.species
org.encog.ml.ea.train - package org.encog.ml.ea.train
org.encog.ml.ea.train.basic - package org.encog.ml.ea.train.basic
org.encog.ml.factory - package org.encog.ml.factory
org.encog.ml.factory.method - package org.encog.ml.factory.method
org.encog.ml.factory.parse - package org.encog.ml.factory.parse
org.encog.ml.factory.train - package org.encog.ml.factory.train
org.encog.ml.fitness - package org.encog.ml.fitness
org.encog.ml.fitting.gaussian - package org.encog.ml.fitting.gaussian
org.encog.ml.fitting.linear - package org.encog.ml.fitting.linear
org.encog.ml.genetic - package org.encog.ml.genetic
org.encog.ml.genetic.crossover - package org.encog.ml.genetic.crossover
org.encog.ml.genetic.genome - package org.encog.ml.genetic.genome
org.encog.ml.genetic.mutate - package org.encog.ml.genetic.mutate
org.encog.ml.graph - package org.encog.ml.graph
org.encog.ml.graph.search - package org.encog.ml.graph.search
org.encog.ml.hmm - package org.encog.ml.hmm
org.encog.ml.hmm.alog - package org.encog.ml.hmm.alog
org.encog.ml.hmm.distributions - package org.encog.ml.hmm.distributions
org.encog.ml.hmm.train.bw - package org.encog.ml.hmm.train.bw
org.encog.ml.hmm.train.kmeans - package org.encog.ml.hmm.train.kmeans
org.encog.ml.kmeans - package org.encog.ml.kmeans
org.encog.ml.model - package org.encog.ml.model
org.encog.ml.model.config - package org.encog.ml.model.config
org.encog.ml.prg - package org.encog.ml.prg
org.encog.ml.prg.expvalue - package org.encog.ml.prg.expvalue
org.encog.ml.prg.extension - package org.encog.ml.prg.extension
org.encog.ml.prg.generator - package org.encog.ml.prg.generator
org.encog.ml.prg.opp - package org.encog.ml.prg.opp
org.encog.ml.prg.species - package org.encog.ml.prg.species
org.encog.ml.prg.train - package org.encog.ml.prg.train
org.encog.ml.prg.train.rewrite - package org.encog.ml.prg.train.rewrite
org.encog.ml.schedule - package org.encog.ml.schedule
org.encog.ml.svm - package org.encog.ml.svm
org.encog.ml.svm.training - package org.encog.ml.svm.training
org.encog.ml.train - package org.encog.ml.train
org.encog.ml.train.strategy - package org.encog.ml.train.strategy
org.encog.ml.train.strategy.end - package org.encog.ml.train.strategy.end
org.encog.ml.tree - package org.encog.ml.tree
org.encog.ml.tree.basic - package org.encog.ml.tree.basic
org.encog.ml.tree.traverse - package org.encog.ml.tree.traverse
org.encog.ml.tree.traverse.tasks - package org.encog.ml.tree.traverse.tasks
org.encog.ml.world - package org.encog.ml.world
org.encog.ml.world.basic - package org.encog.ml.world.basic
org.encog.ml.world.grid - package org.encog.ml.world.grid
org.encog.ml.world.grid.probability - package org.encog.ml.world.grid.probability
org.encog.ml.world.learning.mdp - package org.encog.ml.world.learning.mdp
org.encog.ml.world.learning.q - package org.encog.ml.world.learning.q
org.encog.neural - package org.encog.neural
org.encog.neural.art - package org.encog.neural.art
org.encog.neural.bam - package org.encog.neural.bam
org.encog.neural.cpn - package org.encog.neural.cpn
org.encog.neural.cpn.training - package org.encog.neural.cpn.training
org.encog.neural.data - package org.encog.neural.data
org.encog.neural.data.basic - package org.encog.neural.data.basic
org.encog.neural.error - package org.encog.neural.error
org.encog.neural.flat - package org.encog.neural.flat
org.encog.neural.freeform - package org.encog.neural.freeform
org.encog.neural.freeform.basic - package org.encog.neural.freeform.basic
org.encog.neural.freeform.factory - package org.encog.neural.freeform.factory
org.encog.neural.freeform.task - package org.encog.neural.freeform.task
org.encog.neural.freeform.training - package org.encog.neural.freeform.training
org.encog.neural.hyperneat - package org.encog.neural.hyperneat
org.encog.neural.hyperneat.substrate - package org.encog.neural.hyperneat.substrate
org.encog.neural.neat - package org.encog.neural.neat
org.encog.neural.neat.training - package org.encog.neural.neat.training
org.encog.neural.neat.training.opp - package org.encog.neural.neat.training.opp
org.encog.neural.neat.training.opp.links - package org.encog.neural.neat.training.opp.links
org.encog.neural.neat.training.species - package org.encog.neural.neat.training.species
org.encog.neural.networks - package org.encog.neural.networks
org.encog.neural.networks.layers - package org.encog.neural.networks.layers
org.encog.neural.networks.structure - package org.encog.neural.networks.structure
org.encog.neural.networks.training - package org.encog.neural.networks.training
org.encog.neural.networks.training.anneal - package org.encog.neural.networks.training.anneal
org.encog.neural.networks.training.concurrent - package org.encog.neural.networks.training.concurrent
org.encog.neural.networks.training.concurrent.jobs - package org.encog.neural.networks.training.concurrent.jobs
org.encog.neural.networks.training.concurrent.performers - package org.encog.neural.networks.training.concurrent.performers
org.encog.neural.networks.training.cross - package org.encog.neural.networks.training.cross
org.encog.neural.networks.training.lma - package org.encog.neural.networks.training.lma
org.encog.neural.networks.training.nm - package org.encog.neural.networks.training.nm
org.encog.neural.networks.training.pnn - package org.encog.neural.networks.training.pnn
org.encog.neural.networks.training.propagation - package org.encog.neural.networks.training.propagation
org.encog.neural.networks.training.propagation.back - package org.encog.neural.networks.training.propagation.back
org.encog.neural.networks.training.propagation.manhattan - package org.encog.neural.networks.training.propagation.manhattan
org.encog.neural.networks.training.propagation.quick - package org.encog.neural.networks.training.propagation.quick
org.encog.neural.networks.training.propagation.resilient - package org.encog.neural.networks.training.propagation.resilient
org.encog.neural.networks.training.propagation.scg - package org.encog.neural.networks.training.propagation.scg
org.encog.neural.networks.training.pso - package org.encog.neural.networks.training.pso
org.encog.neural.networks.training.simple - package org.encog.neural.networks.training.simple
org.encog.neural.networks.training.strategy - package org.encog.neural.networks.training.strategy
org.encog.neural.pattern - package org.encog.neural.pattern
org.encog.neural.pnn - package org.encog.neural.pnn
org.encog.neural.prune - package org.encog.neural.prune
org.encog.neural.rbf - package org.encog.neural.rbf
org.encog.neural.rbf.training - package org.encog.neural.rbf.training
org.encog.neural.som - package org.encog.neural.som
org.encog.neural.som.training - package org.encog.neural.som.training
org.encog.neural.som.training.basic - package org.encog.neural.som.training.basic
org.encog.neural.som.training.basic.neighborhood - package org.encog.neural.som.training.basic.neighborhood
org.encog.neural.som.training.clustercopy - package org.encog.neural.som.training.clustercopy
org.encog.neural.thermal - package org.encog.neural.thermal
org.encog.parse - package org.encog.parse
org.encog.parse.expression - package org.encog.parse.expression
org.encog.parse.expression.common - package org.encog.parse.expression.common
org.encog.parse.expression.epl - package org.encog.parse.expression.epl
org.encog.parse.expression.latex - package org.encog.parse.expression.latex
org.encog.parse.expression.rpn - package org.encog.parse.expression.rpn
org.encog.parse.tags - package org.encog.parse.tags
org.encog.parse.tags.read - package org.encog.parse.tags.read
org.encog.parse.tags.write - package org.encog.parse.tags.write
org.encog.persist - package org.encog.persist
org.encog.platformspecific.j2se - package org.encog.platformspecific.j2se
org.encog.platformspecific.j2se.data - package org.encog.platformspecific.j2se.data
org.encog.platformspecific.j2se.data.image - package org.encog.platformspecific.j2se.data.image
org.encog.plugin - package org.encog.plugin
org.encog.plugin.system - package org.encog.plugin.system
org.encog.util - package org.encog.util
org.encog.util.arrayutil - package org.encog.util.arrayutil
org.encog.util.benchmark - package org.encog.util.benchmark
org.encog.util.concurrency - package org.encog.util.concurrency
org.encog.util.concurrency.job - package org.encog.util.concurrency.job
org.encog.util.csv - package org.encog.util.csv
org.encog.util.data - package org.encog.util.data
org.encog.util.datastruct - package org.encog.util.datastruct
org.encog.util.downsample - package org.encog.util.downsample
org.encog.util.error - package org.encog.util.error
org.encog.util.file - package org.encog.util.file
org.encog.util.http - package org.encog.util.http
org.encog.util.identity - package org.encog.util.identity
org.encog.util.kmeans - package org.encog.util.kmeans
org.encog.util.logging - package org.encog.util.logging
org.encog.util.normalize - package org.encog.util.normalize
org.encog.util.normalize.input - package org.encog.util.normalize.input
org.encog.util.normalize.output - package org.encog.util.normalize.output
org.encog.util.normalize.output.mapped - package org.encog.util.normalize.output.mapped
org.encog.util.normalize.output.multiplicative - package org.encog.util.normalize.output.multiplicative
org.encog.util.normalize.output.nominal - package org.encog.util.normalize.output.nominal
org.encog.util.normalize.output.zaxis - package org.encog.util.normalize.output.zaxis
org.encog.util.normalize.segregate - package org.encog.util.normalize.segregate
org.encog.util.normalize.segregate.index - package org.encog.util.normalize.segregate.index
org.encog.util.normalize.target - package org.encog.util.normalize.target
org.encog.util.obj - package org.encog.util.obj
org.encog.util.simple - package org.encog.util.simple
org.encog.util.text - package org.encog.util.text
org.encog.util.time - package org.encog.util.time
org.encog.util.validate - package org.encog.util.validate
OriginalNEATSpeciation - Class in org.encog.neural.neat.training.species
  The original NEAT Speciation Strategy.
OriginalNEATSpeciation() - Constructor for class org.encog.neural.neat.training.species.OriginalNEATSpeciation
OUTPUT - Static variable in class org.encog.persist.PersistConst
  Output.
OUTPUT_COUNT - Static variable in class org.encog.persist.PersistConst
  The output count.
OutputEquilateral - Class in org.encog.util.normalize.output.nominal
  Allows nominal items to be encoded using the equilateral method.
OutputEquilateral() - Constructor for class org.encog.util.normalize.output.nominal.OutputEquilateral
  Prodvide a default constructor for reflection.
OutputEquilateral(double, double) - Constructor for class org.encog.util.normalize.output.nominal.OutputEquilateral
  Create an equilateral output field with the specified high and low output values.
OutputErrorFunction - Class in org.encog.neural.error
OutputErrorFunction() - Constructor for class org.encog.neural.error.OutputErrorFunction
OutputField - Interface in org.encog.util.normalize.output
  An output field, this represents the actual output from the normalization.
OutputFieldDirect - Class in org.encog.util.normalize.output
  A direct output field, will simply pass the input value to the output.
OutputFieldDirect(InputField) - Constructor for class org.encog.util.normalize.output.OutputFieldDirect
  Construct a direct output field.
OutputFieldDirect() - Constructor for class org.encog.util.normalize.output.OutputFieldDirect
  Default constructor, used for reflection.
OutputFieldEncode - Class in org.encog.util.normalize.output.mapped
  An encoded output field.
OutputFieldEncode(InputField) - Constructor for class org.encog.util.normalize.output.mapped.OutputFieldEncode
  Construct an encoded field.
OutputFieldGroup - Interface in org.encog.util.normalize.output
  Output fields can be grouped together if they are calculated together.
OutputFieldGrouped - Class in org.encog.util.normalize.output
  Defines an output field that can be grouped.
OutputFieldGrouped() - Constructor for class org.encog.util.normalize.output.OutputFieldGrouped
  Default constructor, used mainly for reflection.
OutputFieldGrouped(OutputFieldGroup, InputField) - Constructor for class org.encog.util.normalize.output.OutputFieldGrouped
  Construct a grouped output field.
OutputFieldMultiplicative - Class in org.encog.util.normalize.output.multiplicative
  Both the multiplicative and z-axis normalization types allow a group of outputs to be adjusted so that the "vector length" is 1.
OutputFieldMultiplicative() - Constructor for class org.encog.util.normalize.output.multiplicative.OutputFieldMultiplicative
  The default constructor.
OutputFieldMultiplicative(OutputFieldGroup, InputField) - Constructor for class org.encog.util.normalize.output.multiplicative.OutputFieldMultiplicative
  Construct a multiplicative output field.
OutputFieldRangeMapped - Class in org.encog.util.normalize.output
  A ranged mapped output field.
OutputFieldRangeMapped() - Constructor for class org.encog.util.normalize.output.OutputFieldRangeMapped
  Default constructor, used mainly for reflection.
OutputFieldRangeMapped(InputField, double, double) - Constructor for class org.encog.util.normalize.output.OutputFieldRangeMapped
  Construct a range mapped output field.
OutputFieldRangeMapped(InputField) - Constructor for class org.encog.util.normalize.output.OutputFieldRangeMapped
  Create a range field with -1 and 1 as low/high.
OutputFieldZAxis - Class in org.encog.util.normalize.output.zaxis
  Both the multiplicative and z-axis normalization types allow a group of outputs to be adjusted so that the "vector length" is 1.
OutputFieldZAxis(OutputFieldGroup, InputField) - Constructor for class org.encog.util.normalize.output.zaxis.OutputFieldZAxis
  Construct a ZAxis output field.
OutputFieldZAxisSynthetic - Class in org.encog.util.normalize.output.zaxis
  This field represents the synthetic value used in Z-Axis normalization.
OutputFieldZAxisSynthetic(OutputFieldGroup) - Constructor for class org.encog.util.normalize.output.zaxis.OutputFieldZAxisSynthetic
  Construct a synthetic output field for Z-Axis.
outputModeToString(PNNOutputMode) - Static method in class org.encog.neural.pnn.PersistBasicPNN
  Convert output mode to string.
OutputOneOf - Class in org.encog.util.normalize.output.nominal
  An output field that uses the "on of" technique to represent input data.
OutputOneOf() - Constructor for class org.encog.util.normalize.output.nominal.OutputOneOf
  Default constructor for reflection.
OutputOneOf(double, double) - Constructor for class org.encog.util.normalize.output.nominal.OutputOneOf
  Construct a one-of field and specify the true and false value.
OutputOneOf(InputFieldCSVText, double, double) - Constructor for class org.encog.util.normalize.output.nominal.OutputOneOf
  Base the field on a csv text field.
outputSize(ColumnDefinition) - Method in class org.encog.ml.data.versatile.normalizers.IndexedNormalizer
  Determine the normalized size of the specified column.
outputSize(ColumnDefinition) - Method in interface org.encog.ml.data.versatile.normalizers.Normalizer
  Determine the normalized size of the specified column.
outputSize(ColumnDefinition) - Method in class org.encog.ml.data.versatile.normalizers.OneOfNNormalizer
  Determine the normalized size of the specified column.
outputSize(ColumnDefinition) - Method in class org.encog.ml.data.versatile.normalizers.PassThroughNormalizer
  Determine the normalized size of the specified column.
outputSize(ColumnDefinition) - Method in class org.encog.ml.data.versatile.normalizers.RangeNormalizer
  Determine the normalized size of the specified column.
outputSize(ColumnDefinition) - Method in class org.encog.ml.data.versatile.normalizers.RangeOrdinal
  Determine the normalized size of the specified column.

## P

P - Static variable in class org.encog.engine.network.activation.ActivationLinear
  Default empty parameters.
p - Variable in class org.encog.mathutil.libsvm.svm_parameter
para(String) - Method in class org.encog.util.HTMLReport
ParallelScore - Class in org.encog.ml.ea.score.parallel
  This class is used to calculate the scores for an entire population.
ParallelScore(Population, GeneticCODEC, List<AdjustScore>, CalculateScore, int) - Constructor for class org.encog.ml.ea.score.parallel.ParallelScore
  Construct the parallel score calculation object.
ParallelScoreTask - Class in org.encog.ml.ea.score.parallel
  An individual threadable task for the parallel score calculation.
ParallelScoreTask(Genome, ParallelScore) - Constructor for class org.encog.ml.ea.score.parallel.ParallelScoreTask
  Construct the parallel task.
param - Variable in class org.encog.mathutil.libsvm.svm_model
PARAM_C - Static variable in class org.encog.ml.svm.PersistSVM
  The parameter to hold the const C.
PARAM_CACHE_SIZE - Static variable in class org.encog.ml.svm.PersistSVM
  The parameter to hold the cache size.
PARAM_COEF0 - Static variable in class org.encog.ml.svm.PersistSVM
  The parameter to hold the coef0.
PARAM_COMPETITIVE_MAX_WINNERS - Static variable in class org.encog.engine.network.activation.ActivationCompetitive
  The offset to the parameter that holds the max winners.
PARAM_DEGREE - Static variable in class org.encog.ml.svm.PersistSVM
  The parameter to hold the degree.
PARAM_EPS - Static variable in class org.encog.ml.svm.PersistSVM
  The parameter to hold the eps.
PARAM_GAMMA - Static variable in class org.encog.ml.svm.PersistSVM
  The parameter to hold the gamma.
PARAM_KERNEL_TYPE - Static variable in class org.encog.ml.svm.PersistSVM
  The parameter to hold the kernel type.
PARAM_NU - Static variable in class org.encog.ml.svm.PersistSVM
  The parameter to hold the nu.
PARAM_NUM_WEIGHT - Static variable in class org.encog.ml.svm.PersistSVM
  The parameter to hold the number of weights.
PARAM_P - Static variable in class org.encog.ml.svm.PersistSVM
  The parameter to hold the p.
PARAM_PROBABILITY - Static variable in class org.encog.ml.svm.PersistSVM
  The parameter to hold the probability.
PARAM_RAMP_HIGH - Static variable in class org.encog.engine.network.activation.ActivationRamp
  The ramp high parameter.
PARAM_RAMP_HIGH_THRESHOLD - Static variable in class org.encog.engine.network.activation.ActivationRamp
  The ramp high threshold parameter.
PARAM_RAMP_LOW - Static variable in class org.encog.engine.network.activation.ActivationRamp
  The ramp low parameter.
PARAM_RAMP_LOW_THRESHOLD - Static variable in class org.encog.engine.network.activation.ActivationRamp
  The ramp low threshold parameter.
PARAM_SHRINKING - Static variable in class org.encog.ml.svm.PersistSVM
  The parameter to hold the shrinking.
PARAM_STEP_CENTER - Static variable in class org.encog.engine.network.activation.ActivationStep
  The step center parameter.
PARAM_STEP_HIGH - Static variable in class org.encog.engine.network.activation.ActivationStep
  The step high parameter.
PARAM_STEP_LOW - Static variable in class org.encog.engine.network.activation.ActivationStep
  The step low parameter.
PARAM_SVM_TYPE - Static variable in class org.encog.ml.svm.PersistSVM
  The parameter to hold the SVM type.
PARAM_WEIGHT - Static variable in class org.encog.ml.svm.PersistSVM
  The paramater to hold the weight.
PARAM_WEIGHT_LABEL - Static variable in class org.encog.ml.svm.PersistSVM
  The parameter to hold the weight label.
ParamsHolder - Class in org.encog.util
  A class that can be used to parse parameters stored in a map.
ParamsHolder(Map<String, String>, CSVFormat) - Constructor for class org.encog.util.ParamsHolder
  Construct the object.
ParamsHolder(Map<String, String>) - Constructor for class org.encog.util.ParamsHolder
  Construct the object.
ParamTemplate - Class in org.encog.ml.prg.extension
  Provides a template for parameters to the opcodes.
ParamTemplate() - Constructor for class org.encog.ml.prg.extension.ParamTemplate
  Default constructor.
parentsNeeded() - Method in class org.encog.ml.ea.opp.CompoundOperator
parentsNeeded() - Method in interface org.encog.ml.ea.opp.EvolutionaryOperator
parentsNeeded() - Method in class org.encog.ml.genetic.crossover.Splice
parentsNeeded() - Method in class org.encog.ml.genetic.crossover.SpliceNoRepeat
parentsNeeded() - Method in class org.encog.ml.genetic.mutate.MutatePerturb
parentsNeeded() - Method in class org.encog.ml.genetic.mutate.MutateShuffle
parentsNeeded() - Method in class org.encog.ml.prg.opp.ConstMutation
parentsNeeded() - Method in class org.encog.ml.prg.opp.SubtreeCrossover
parentsNeeded() - Method in class org.encog.ml.prg.opp.SubtreeMutation
parentsNeeded() - Method in class org.encog.neural.neat.training.opp.NEATCrossover
parentsNeeded() - Method in class org.encog.neural.neat.training.opp.NEATMutation
parse(String) - Method in class org.encog.ml.bayesian.parse.ParseProbability
  Parse the given line.
parse(String) - Method in class org.encog.parse.expression.common.ParseCommonExpression
parse(String) - Method in class org.encog.parse.expression.epl.ParseEPL
parse(String) - Method in class org.encog.util.csv.CSVFormat
  Parse the specified string to a double.
parse(String) - Method in class org.encog.util.csv.ParseCSVLine
parse(String) - Static method in class org.encog.util.http.FormUtility
  Parse a URL query string.
parseActivationFunction(String) - Static method in class org.encog.persist.EncogFileSection
  Parse an activation function from a value.
parseActivationFunction(Map<String, String>, String) - Static method in class org.encog.persist.EncogFileSection
  Parse an activation function from a string.
parseAttributeName() - Method in class org.encog.parse.tags.read.ReadHTML
  Parse the attribute name.
parseAttributeName() - Method in class org.encog.parse.tags.read.ReadTags
  Parse an attribute name, if one is present.
parseBoolean(String) - Static method in class org.encog.ml.prg.EncogProgram
  Parse the specified program, or expression, and return the result.
parseBoolean(Map<String, String>, String) - Static method in class org.encog.persist.EncogFileSection
  Parse a boolean from a name-value collection of params.
ParseCommonExpression - Class in org.encog.parse.expression.common
  This class is used to process a common format equation (in-fix) into the tree format that Encog uses.
ParseCommonExpression(EncogProgram) - Constructor for class org.encog.parse.expression.common.ParseCommonExpression
ParseCSVLine - Class in org.encog.util.csv
ParseCSVLine(CSVFormat) - Constructor for class org.encog.util.csv.ParseCSVLine
parseDate(String) - Static method in class org.encog.bot.rss.RSS
  Simple utility function that converts a RSS formatted date into a Java date.
parseDate(String) - Static method in class org.encog.util.csv.ReadCSV
  Parse a date.
ParsedChoice - Class in org.encog.ml.bayesian.parse
  A parsed choice.
ParsedChoice(String, double, double) - Constructor for class org.encog.ml.bayesian.parse.ParsedChoice
  Construct a continuous choice, with a min and max.
ParsedChoice(String, int) - Constructor for class org.encog.ml.bayesian.parse.ParsedChoice
  Construct a discrete value for this choice.
ParsedEvent - Class in org.encog.ml.bayesian.parse
  A parsed event.
ParsedEvent(String) - Constructor for class org.encog.ml.bayesian.parse.ParsedEvent
  Construct a parsed even with the specified label.
parseDouble(String) - Method in class org.encog.ml.data.versatile.NormalizationHelper
  Parse a double, using the correct formatter.
parseDouble(Map<String, String>, String) - Static method in class org.encog.persist.EncogFileSection
  Parse a double from a name-value collection of params.
parseDoubleArray(Map<String, String>, String) - Method in class org.encog.persist.EncogFileSection
  Parse a double array from a name-value collection of params.
ParsedProbability - Class in org.encog.ml.bayesian.parse
  A probability that has been parsed.
ParsedProbability() - Constructor for class org.encog.ml.bayesian.parse.ParsedProbability
ParseEPL - Class in org.encog.parse.expression.epl
  Parse an EPL string.
ParseEPL(EncogProgram) - Constructor for class org.encog.parse.expression.epl.ParseEPL
ParseError - Exception in org.encog.parse
  Indicates an error has occured in one of the parsers.
ParseError(String) - Constructor for exception org.encog.parse.ParseError
  Construct a message exception.
ParseError(Throwable) - Constructor for exception org.encog.parse.ParseError
  Construct an exception that holds another exception.
parseExpression(String) - Static method in class org.encog.ml.prg.EncogProgram
  Parse the specified program, or expression, and return the result.
parseFloat(String) - Static method in class org.encog.ml.prg.EncogProgram
  Parse the specified program, or expression, and return the result.
parseInt(Map<String, String>, String) - Static method in class org.encog.persist.EncogFileSection
  Parse an int from a name-value collection of params.
parseIntArray(Map<String, String>, String) - Static method in class org.encog.persist.EncogFileSection
  Parse an int array from a name-value collection of params.
parseLayer(String, int) - Static method in class org.encog.ml.factory.parse.ArchitectureParse
  parse a layer.
parseLayers(String) - Static method in class org.encog.ml.factory.parse.ArchitectureParse
  Parse all layers from a line of text.
parseMatrix(Map<String, String>, String) - Static method in class org.encog.persist.EncogFileSection
  Parse a matrix from a name-value collection of params.
parseParams(String) - Static method in class org.encog.ml.factory.parse.ArchitectureParse
  Parse parameters.
parseParams() - Method in class org.encog.persist.EncogFileSection
ParseProbability - Class in org.encog.ml.bayesian.parse
  Used to parse probability strings for the Bayes networks.
ParseProbability(BayesianNetwork) - Constructor for class org.encog.ml.bayesian.parse.ParseProbability
  Parse the probability for the specified network.
parseProbabilityList(BayesianNetwork, String) - Static method in class org.encog.ml.bayesian.parse.ParseProbability
  Parse a probability list.
parseString(String) - Static method in class org.encog.ml.prg.EncogProgram
  Parse the specified program, or expression, and return the result.
parseString() - Method in class org.encog.parse.tags.read.ReadTags
  Called to parse a double or single quote string.
parseTag() - Method in class org.encog.parse.tags.read.ReadTags
  Called when a tag is detected.
parseThroughComma() - Method in class org.encog.util.SimpleParser
parseTimeSlice(String) - Static method in class org.encog.app.analyst.util.CSVHeaders
  Parse a timeslice from a header such as (t-1).
passInit() - Method in class org.encog.util.normalize.segregate.index.IndexSegregator
  Reset the counter to zero.
passInit() - Method in class org.encog.util.normalize.segregate.IntegerBalanceSegregator
  Init for a new pass.
passInit() - Method in class org.encog.util.normalize.segregate.RangeSegregator
  Nothing needs to be done to setup for a pass.
passInit() - Method in interface org.encog.util.normalize.segregate.Segregator
  Init for a pass.
PassThroughNormalizer - Class in org.encog.ml.data.versatile.normalizers
  A normalizer that simply passes the value through unnormalized.
PassThroughNormalizer() - Constructor for class org.encog.ml.data.versatile.normalizers.PassThroughNormalizer
PatternError - Exception in org.encog.neural.pattern
  This class is thrown when an error occurs while using one of the neural network pattern classes.
PatternError(String) - Constructor for exception org.encog.neural.pattern.PatternError
  Construct a message exception.
PatternError(Throwable) - Constructor for exception org.encog.neural.pattern.PatternError
  Construct an exception that holds another exception.
pause() - Method in class org.encog.ml.bayesian.training.TrainBayesian
  Pause the training to continue later.
pause() - Method in class org.encog.ml.ea.train.basic.TrainEA
  Pause the training to continue later.
pause() - Method in class org.encog.ml.fitting.gaussian.TrainGaussian
pause() - Method in class org.encog.ml.fitting.linear.TrainLinearRegression
pause() - Method in class org.encog.ml.genetic.MLMethodGeneticAlgorithm
  Pause the training to continue later.
pause() - Method in class org.encog.ml.hmm.train.bw.BaseBaumWelch
pause() - Method in class org.encog.ml.hmm.train.kmeans.TrainKMeans
pause() - Method in class org.encog.ml.svm.training.SVMSearchTrain
  Pause the training to continue later.
pause() - Method in class org.encog.ml.svm.training.SVMTrain
  Pause the training to continue later.
pause() - Method in interface org.encog.ml.train.MLTrain
  Pause the training to continue later.
pause() - Method in class org.encog.neural.cpn.training.TrainInstar
  Pause the training to continue later.
pause() - Method in class org.encog.neural.cpn.training.TrainOutstar
  Pause the training to continue later.
pause() - Method in class org.encog.neural.freeform.training.FreeformBackPropagation
  Pause the training to continue later.
pause() - Method in class org.encog.neural.freeform.training.FreeformResilientPropagation
  Pause the training to continue later.
pause() - Method in class org.encog.neural.networks.training.anneal.NeuralSimulatedAnnealing
pause() - Method in class org.encog.neural.networks.training.cross.CrossValidationKFold
  Pause the training to continue later.
pause() - Method in class org.encog.neural.networks.training.lma.LevenbergMarquardtTraining
  Pause the training to continue later.
pause() - Method in class org.encog.neural.networks.training.nm.NelderMeadTraining
  Pause the training to continue later.
pause() - Method in class org.encog.neural.networks.training.pnn.TrainBasicPNN
  Pause the training to continue later.
pause() - Method in class org.encog.neural.networks.training.propagation.back.Backpropagation
  Pause the training.
pause() - Method in class org.encog.neural.networks.training.propagation.manhattan.ManhattanPropagation
  This training type does not support training continue.
pause() - Method in class org.encog.neural.networks.training.propagation.quick.QuickPropagation
  Pause the training.
pause() - Method in class org.encog.neural.networks.training.propagation.resilient.ResilientPropagation
  Pause the training.
pause() - Method in class org.encog.neural.networks.training.propagation.scg.ScaledConjugateGradient
  This training type does not support training continue.
pause() - Method in class org.encog.neural.networks.training.pso.NeuralPSO
pause() - Method in class org.encog.neural.networks.training.simple.TrainAdaline
  Pause the training to continue later.
pause() - Method in class org.encog.neural.rbf.training.SVDTraining
  Pause the training to continue later.
pause() - Method in class org.encog.neural.som.training.basic.BasicTrainSOM
  Pause the training to continue later.
pause() - Method in class org.encog.neural.som.training.clustercopy.SOMClusterCopyTraining
  Pause the training to continue later.
peek() - Method in class org.encog.parse.PeekableInputStream
  Peek at the next character from the stream.
peek(int) - Method in class org.encog.parse.PeekableInputStream
  Peek at a specified depth.
peek(String) - Method in class org.encog.parse.PeekableInputStream
  Peek ahead and see if the specified string is present.
peek() - Method in class org.encog.util.datastruct.StackObject
peek() - Method in class org.encog.util.SimpleParser
PeekableInputStream - Class in org.encog.parse
  This is a special input stream that allows the program to peek one or more characters ahead in the file.
PeekableInputStream(InputStream) - Constructor for class org.encog.parse.PeekableInputStream
  The constructor accepts an InputStream to setup the object.
perform(List<DataDivision>, VersatileMLDataSet, int, int) - Method in class org.encog.ml.data.versatile.division.PerformDataDivision
  Perform the split.
perform(World, State, Action) - Method in interface org.encog.ml.world.PerformAction
perform(TrainingJob) - Method in interface org.encog.neural.networks.training.concurrent.performers.ConcurrentTrainingPerformer
  Perform the specified job.
perform(TrainingJob) - Method in class org.encog.neural.networks.training.concurrent.performers.ConcurrentTrainingPerformerCPU
  Perform the specified job.
PerformAction - Interface in org.encog.ml.world
PerformAnalysis - Class in org.encog.app.analyst.analyze
  This class is used to perform an analysis of a CSV file.
PerformAnalysis(AnalystScript, String, boolean, AnalystFileFormat) - Constructor for class org.encog.app.analyst.analyze.PerformAnalysis
  Construct the analysis object.
performAntiSelection(Random, Species) - Method in interface org.encog.ml.ea.opp.selection.SelectionOperator
  Selects an unfit genome.
performAntiSelection(Random, Species) - Method in class org.encog.ml.ea.opp.selection.TournamentSelection
  Selects an unfit genome.
performAntiSelection(Random, Species) - Method in class org.encog.ml.ea.opp.selection.TruncationSelection
  Selects an unfit genome.
performBasicCounts() - Method in class org.encog.app.analyst.csv.basic.BasicFile
  Perform a basic analyze of the file.
performCalculation() - Method in class org.encog.neural.freeform.basic.BasicFreeformNeuron
  Perform the internal calculation for this neuron.
performCalculation() - Method in interface org.encog.neural.freeform.FreeformNeuron
  Perform the internal calculation for this neuron.
performConnectionTask(ConnectionTask) - Method in class org.encog.neural.freeform.FreeformNetwork
  Perform the specified connection task.
PerformDataDivision - Class in org.encog.ml.data.versatile.division
  Perform a data division.
PerformDataDivision(boolean, GenerateRandom) - Constructor for class org.encog.ml.data.versatile.division.PerformDataDivision
  Construct the data division processor.
PerformerTask - Class in org.encog.neural.networks.training.concurrent.performers
  A task to be performed.
PerformerTask(ConcurrentTrainingPerformer) - Constructor for class org.encog.neural.networks.training.concurrent.performers.PerformerTask
  Construct the object.
performJobUnit(JobUnitContext) - Method in class org.encog.neural.prune.PruneIncremental
  Perform an individual job unit, which is a single network to train and evaluate.
performJobUnit(JobUnitContext) - Method in class org.encog.util.concurrency.job.ConcurrentJob
  Perform one job unit.
performNeuronTask(NeuronTask) - Method in class org.encog.neural.freeform.FreeformNetwork
  Perform the specified neuron task.
performOperation(Random, Genome[], int, Genome[], int) - Method in class org.encog.ml.ea.opp.CompoundOperator
  Perform the evolutionary operation.
performOperation(Random, Genome[], int, Genome[], int) - Method in interface org.encog.ml.ea.opp.EvolutionaryOperator
  Perform the evolutionary operation.
performOperation(Random, Genome[], int, Genome[], int) - Method in class org.encog.ml.genetic.crossover.Splice
  Perform the evolutionary operation.
performOperation(Random, Genome[], int, Genome[], int) - Method in class org.encog.ml.genetic.crossover.SpliceNoRepeat
  Perform the evolutionary operation.
performOperation(Random, Genome[], int, Genome[], int) - Method in class org.encog.ml.genetic.mutate.MutatePerturb
  Perform the evolutionary operation.
performOperation(Random, Genome[], int, Genome[], int) - Method in class org.encog.ml.genetic.mutate.MutateShuffle
  Perform the evolutionary operation.
performOperation(Random, Genome[], int, Genome[], int) - Method in class org.encog.ml.prg.opp.ConstMutation
  Perform the evolutionary operation.
performOperation(Random, Genome[], int, Genome[], int) - Method in class org.encog.ml.prg.opp.SubtreeCrossover
  Perform the evolutionary operation.
performOperation(Random, Genome[], int, Genome[], int) - Method in class org.encog.ml.prg.opp.SubtreeMutation
  Perform the evolutionary operation.
performOperation(Random, Genome[], int, Genome[], int) - Method in class org.encog.neural.neat.training.opp.NEATCrossover
  Perform the evolutionary operation.
performOperation(Random, Genome[], int, Genome[], int) - Method in class org.encog.neural.neat.training.opp.NEATMutateAddLink
  Perform the evolutionary operation.
performOperation(Random, Genome[], int, Genome[], int) - Method in class org.encog.neural.neat.training.opp.NEATMutateAddNode
  Perform the evolutionary operation.
performOperation(Random, Genome[], int, Genome[], int) - Method in class org.encog.neural.neat.training.opp.NEATMutateRemoveLink
  Perform the evolutionary operation.
performOperation(Random, Genome[], int, Genome[], int) - Method in class org.encog.neural.neat.training.opp.NEATMutateWeights
  Perform the evolutionary operation.
performQuery(String) - Method in class org.encog.ml.bayesian.BayesianNetwork
  Perform a query.
performRevert(Map<String, String>) - Method in class org.encog.app.analyst.script.prop.ScriptProperties
  Perform a revert.
performSelection(Random, Species) - Method in interface org.encog.ml.ea.opp.selection.SelectionOperator
  Selects an fit genome.
performSelection(Random, Species) - Method in class org.encog.ml.ea.opp.selection.TournamentSelection
  Selects an fit genome.
performSelection(Random, Species) - Method in class org.encog.ml.ea.opp.selection.TruncationSelection
  Selects an fit genome.
performShutdownTask() - Method in interface org.encog.EncogShutdownTask
performShutdownTask() - Method in class org.encog.ml.ea.train.basic.BasicEA
performSpeciation(List<Genome>) - Method in class org.encog.ml.ea.species.SingleSpeciation
  Perform the speciation.
performSpeciation(List<Genome>) - Method in interface org.encog.ml.ea.species.Speciation
  Perform the speciation.
performSpeciation(List<Genome>) - Method in class org.encog.ml.ea.species.ThresholdSpeciation
  Perform the speciation.
PersistART1 - Class in org.encog.neural.art
  Persist an ART1 network.
PersistART1() - Constructor for class org.encog.neural.art.PersistART1
PersistBAM - Class in org.encog.neural.bam
  Persist the BAM network.
PersistBAM() - Constructor for class org.encog.neural.bam.PersistBAM
PersistBasicNetwork - Class in org.encog.neural.networks
  Persist a basic network.
PersistBasicNetwork() - Constructor for class org.encog.neural.networks.PersistBasicNetwork
PersistBasicPNN - Class in org.encog.neural.pnn
  Persist a PNN.
PersistBasicPNN() - Constructor for class org.encog.neural.pnn.PersistBasicPNN
PersistBasicUniverse - Class in org.encog.ca.universe.basic
PersistBasicUniverse() - Constructor for class org.encog.ca.universe.basic.PersistBasicUniverse
PersistBayes - Class in org.encog.ml.bayesian
  Persist a Bayesian network.
PersistBayes() - Constructor for class org.encog.ml.bayesian.PersistBayes
PersistBoltzmann - Class in org.encog.neural.thermal
  Persist the Boltzmann machine.
PersistBoltzmann() - Constructor for class org.encog.neural.thermal.PersistBoltzmann
PersistConst - Class in org.encog.persist
  Some common persistance constants.
PersistCPN - Class in org.encog.neural.cpn
  Persist a CPN network.
PersistCPN() - Constructor for class org.encog.neural.cpn.PersistCPN
PersistError - Exception in org.encog.persist
  General error class for Encog persistence.
PersistError(String) - Constructor for exception org.encog.persist.PersistError
  Construct a message exception.
PersistError(String, Throwable) - Constructor for exception org.encog.persist.PersistError
  Construct an exception that holds another exception.
PersistError(Throwable) - Constructor for exception org.encog.persist.PersistError
  Construct an exception that holds another exception.
PersistHMM - Class in org.encog.ml.hmm
  Persist a HMM.
PersistHMM() - Constructor for class org.encog.ml.hmm.PersistHMM
PersistHopfield - Class in org.encog.neural.thermal
  Persist the Hopfield network.
PersistHopfield() - Constructor for class org.encog.neural.thermal.PersistHopfield
PersistNEATPopulation - Class in org.encog.neural.neat
  Persist a NEAT or HyperNEAT network.
PersistNEATPopulation() - Constructor for class org.encog.neural.neat.PersistNEATPopulation
PersistorRegistry - Class in org.encog.persist
  Registry to hold persistors.
PersistPrgPopulation - Class in org.encog.ml.prg
  Persist the Encog population.
PersistPrgPopulation() - Constructor for class org.encog.ml.prg.PersistPrgPopulation
PersistRBFNetwork - Class in org.encog.neural.rbf
  Persist a RBF network.
PersistRBFNetwork() - Constructor for class org.encog.neural.rbf.PersistRBFNetwork
PersistSOM - Class in org.encog.neural.som
  Persist the SOM.
PersistSOM() - Constructor for class org.encog.neural.som.PersistSOM
PersistSVM - Class in org.encog.ml.svm
  Persist a SVM.
PersistSVM() - Constructor for class org.encog.ml.svm.PersistSVM
PersistTrainingContinuation - Class in org.encog.neural.networks.training.propagation
  Persist the training continuation.
PersistTrainingContinuation() - Constructor for class org.encog.neural.networks.training.propagation.PersistTrainingContinuation
pick(Random) - Method in class org.encog.util.obj.ChooseObject
  Choose a random object.
pickFirst() - Method in class org.encog.util.obj.ChooseObject
pickMaxParents(Random, int) - Method in class org.encog.ml.ea.opp.OperationList
  Pick a operator based on the number of parents available.
plural(TimeUnit) - Method in class org.encog.util.time.EnglishTimeUnitNames
  Get the plural form for a TimeUnit.
plural(TimeUnit) - Method in interface org.encog.util.time.TimeUnitNames
  Get the plural name for the specified time unit.
plus(ComplexNumber) - Method in class org.encog.mathutil.ComplexNumber
  Addition of Complex numbers (doesn't change this Complex number).
plus(MLData) - Method in class org.encog.ml.data.basic.BasicMLData
  Add one data element to another.
PNNConfig - Class in org.encog.ml.model.config
  Config class for EncogModel to use a PNN neural network.
PNNConfig() - Constructor for class org.encog.ml.model.config.PNNConfig
PNNFactory - Class in org.encog.ml.factory.method
  A factory to create PNN networks.
PNNFactory() - Constructor for class org.encog.ml.factory.method.PNNFactory
PNNKernelType - Enum in org.encog.neural.pnn
  Specifies the kernel type for the PNN.
PNNOutputMode - Enum in org.encog.neural.pnn
  The output mode that will be used by the PNN.
PNNPattern - Class in org.encog.neural.pattern
  Pattern to create a PNN.
PNNPattern() - Constructor for class org.encog.neural.pattern.PNNPattern
PNNTrainFactory - Class in org.encog.ml.factory.train
  A factory used to create PNN trainers.
PNNTrainFactory() - Constructor for class org.encog.ml.factory.train.PNNTrainFactory
POLY - Static variable in class org.encog.mathutil.libsvm.svm_parameter
PoolItem - Class in org.encog.util.concurrency
  An Encog task being executed by the Java thread pool.
PoolItem(EngineTask, TaskGroup) - Constructor for class org.encog.util.concurrency.PoolItem
  Create a pool item.
pop() - Method in class org.encog.app.quant.util.BarBuffer
  Pop (and remove) the oldest bar in the buffer.
pop() - Method in class org.encog.ml.graph.search.FrontierHolder
pop() - Method in class org.encog.util.datastruct.StackInt
pop() - Method in class org.encog.util.datastruct.StackObject
pop() - Method in class org.encog.util.datastruct.StackString
Population - Interface in org.encog.ml.ea.population
  Defines a population of genomes.
PopulationGenerator - Interface in org.encog.ml.ea.population
  Generate a random population.
POSITIVE_ETA - Static variable in class org.encog.neural.networks.training.propagation.resilient.RPROPConst
  The POSITIVE ETA value.
postIteration() - Method in class org.encog.ml.ea.train.basic.TrainEA
  Call the strategies after an iteration.
postIteration() - Method in class org.encog.ml.train.BasicTraining
  Call the strategies after an iteration.
postIteration() - Method in class org.encog.ml.train.strategy.end.EarlyStoppingStrategy
  Called just after a training iteration.
postIteration() - Method in class org.encog.ml.train.strategy.end.EndIterationsStrategy
  Called just after a training iteration.
postIteration() - Method in class org.encog.ml.train.strategy.end.EndMaxErrorStrategy
  Called just after a training iteration.
postIteration() - Method in class org.encog.ml.train.strategy.end.EndMinutesStrategy
  Called just after a training iteration.
postIteration() - Method in class org.encog.ml.train.strategy.end.SimpleEarlyStoppingStrategy
  Called just after a training iteration.
postIteration() - Method in class org.encog.ml.train.strategy.Greedy
  Called just after a training iteration.
postIteration() - Method in class org.encog.ml.train.strategy.HybridStrategy
  Called just after a training iteration.
postIteration() - Method in class org.encog.ml.train.strategy.RequiredImprovementStrategy
  Called just after a training iteration.
postIteration() - Method in class org.encog.ml.train.strategy.ResetStrategy
  Called just after a training iteration.
postIteration() - Method in class org.encog.ml.train.strategy.StopTrainingStrategy
  Called just after a training iteration.
postIteration() - Method in interface org.encog.ml.train.strategy.Strategy
  Called just after a training iteration.
postIteration() - Method in class org.encog.neural.networks.training.propagation.resilient.ResilientPropagation
  Call the strategies after an iteration.
postIteration() - Method in class org.encog.neural.networks.training.strategy.RegularizationStrategy
postIteration() - Method in class org.encog.neural.networks.training.strategy.SmartLearningRate
  Called just after a training iteration.
postIteration() - Method in class org.encog.neural.networks.training.strategy.SmartMomentum
  Called just after a training iteration.
pow(double, double) - Static method in class org.encog.mathutil.BoundMath
  Calculate the power of a number.
pow(ExpressionValue, ExpressionValue) - Static method in class org.encog.ml.prg.expvalue.EvaluateExpr
  Perform a protected div on two expression values.
PRECOMPUTED - Static variable in class org.encog.mathutil.libsvm.svm_parameter
PredictionType - Enum in org.encog.app.analyst.wizard
preIteration() - Method in class org.encog.ml.ea.train.basic.TrainEA
  Call the strategies before an iteration.
preIteration() - Method in class org.encog.ml.train.BasicTraining
  Call the strategies before an iteration.
preIteration() - Method in class org.encog.ml.train.strategy.end.EarlyStoppingStrategy
  Called just before a training iteration.
preIteration() - Method in class org.encog.ml.train.strategy.end.EndIterationsStrategy
  Called just before a training iteration.
preIteration() - Method in class org.encog.ml.train.strategy.end.EndMaxErrorStrategy
  Called just before a training iteration.
preIteration() - Method in class org.encog.ml.train.strategy.end.EndMinutesStrategy
  Called just before a training iteration.
preIteration() - Method in class org.encog.ml.train.strategy.end.SimpleEarlyStoppingStrategy
  Called just before a training iteration.
preIteration() - Method in class org.encog.ml.train.strategy.Greedy
  Called just before a training iteration.
preIteration() - Method in class org.encog.ml.train.strategy.HybridStrategy
  Called just before a training iteration.
preIteration() - Method in class org.encog.ml.train.strategy.RequiredImprovementStrategy
  Called just before a training iteration.
preIteration() - Method in class org.encog.ml.train.strategy.ResetStrategy
  Called just before a training iteration.
preIteration() - Method in class org.encog.ml.train.strategy.StopTrainingStrategy
  Called just before a training iteration.
preIteration() - Method in interface org.encog.ml.train.strategy.Strategy
  Called just before a training iteration.
preIteration() - Method in class org.encog.neural.networks.training.strategy.RegularizationStrategy
preIteration() - Method in class org.encog.neural.networks.training.strategy.SmartLearningRate
  Called just before a training iteration.
preIteration() - Method in class org.encog.neural.networks.training.strategy.SmartMomentum
  Called just before a training iteration.
prepareOutputFile(File) - Method in class org.encog.app.analyst.csv.basic.BasicFile
  Prepare the output file, write headers if needed.
prepareOutputFile(File) - Method in class org.encog.app.analyst.csv.process.AnalystProcess
  Prepare the output file, write headers if needed.
prepareRead() - Method in class org.encog.ml.data.buffer.codec.ArrayDataCODEC
  Prepare to read from an external data source.
prepareRead() - Method in class org.encog.ml.data.buffer.codec.CSVDataCODEC
  Prepare to read from the CSV file.
prepareRead() - Method in interface org.encog.ml.data.buffer.codec.DataSetCODEC
  Prepare to read from an external data source.
prepareRead() - Method in class org.encog.ml.data.buffer.codec.ExcelCODEC
  Prepare to read from an external data source.
prepareRead() - Method in class org.encog.ml.data.buffer.codec.NeuralDataSetCODEC
  Prepare to read from an external data source.
prepareRead() - Method in class org.encog.ml.data.buffer.codec.SQLCODEC
  Prepare to read from an external data source.
prepareRevert() - Method in class org.encog.app.analyst.script.prop.ScriptProperties
  Prepare a revert.
prepareWrite(int, int, int) - Method in class org.encog.ml.data.buffer.codec.ArrayDataCODEC
  Prepare to write to an external data destination.
prepareWrite(int, int, int) - Method in class org.encog.ml.data.buffer.codec.CSVDataCODEC
  Prepare to write to a CSV file.
prepareWrite(int, int, int) - Method in interface org.encog.ml.data.buffer.codec.DataSetCODEC
  Prepare to write to an external data destination.
prepareWrite(int, int, int) - Method in class org.encog.ml.data.buffer.codec.ExcelCODEC
  Prepare to write to an external data destination.
prepareWrite(int, int, int) - Method in class org.encog.ml.data.buffer.codec.NeuralDataSetCODEC
  Prepare to write to an external data destination.
prepareWrite(int, int, int) - Method in class org.encog.ml.data.buffer.codec.SQLCODEC
  Prepare to write to an external data destination.
PreprocessAction - Enum in org.encog.app.analyst.script.preprocess
PrgCODEC - Class in org.encog.ml.prg
  Encode and decode an Encog program between genome and phenotypes.
PrgCODEC() - Constructor for class org.encog.ml.prg.PrgCODEC
PrgFullGenerator - Class in org.encog.ml.prg.generator
  The full generator works by creating program trees that do not stop prematurely.
PrgFullGenerator(EncogProgramContext, int) - Constructor for class org.encog.ml.prg.generator.PrgFullGenerator
  Construct the full generator.
PrgGenerator - Interface in org.encog.ml.prg.generator
  Generate a random Encog Program.
PrgGenomeFactory - Class in org.encog.ml.prg.train
  A GenomeFactory that creates EncogProgram genomes.
PrgGenomeFactory(EncogProgramContext) - Constructor for class org.encog.ml.prg.train.PrgGenomeFactory
  Construct a factory.
PrgGrowGenerator - Class in org.encog.ml.prg.generator
  The grow generator creates a random program by choosing a random node from both the "function and terminal" sets until the maximum depth is reached.
PrgGrowGenerator(EncogProgramContext, int) - Constructor for class org.encog.ml.prg.generator.PrgGrowGenerator
  Construct the grow generator.
PrgPopulation - Class in org.encog.ml.prg.train
  A population that contains EncogProgram's.
PrgPopulation(EncogProgramContext, int) - Constructor for class org.encog.ml.prg.train.PrgPopulation
  Construct the population.
PrgSpeciation - Class in org.encog.ml.prg.species
  Perform speciation for two Encog programs.
PrgSpeciation() - Constructor for class org.encog.ml.prg.species.PrgSpeciation
print(String) - Method in interface org.encog.mathutil.libsvm.svm_print_interface
Prioritizer - Interface in org.encog.ml.graph.search
probA - Variable in class org.encog.mathutil.libsvm.svm_model
probability - Variable in class org.encog.mathutil.libsvm.svm_parameter
probability - Variable in class org.encog.ml.hmm.alog.ForwardBackwardCalculator
  Probability.
probability() - Method in class org.encog.ml.hmm.alog.ForwardBackwardCalculator
probability(MLDataPair) - Method in class org.encog.ml.hmm.distributions.ContinousDistribution
  Determine the probability of the specified data pair.
probability(MLDataPair) - Method in class org.encog.ml.hmm.distributions.DiscreteDistribution
  Determine the probability of the specified data pair.
probability(MLDataPair) - Method in interface org.encog.ml.hmm.distributions.StateDistribution
  Determine the probability of the specified data pair.
probability(MLDataSet) - Method in class org.encog.ml.hmm.HiddenMarkovModel
probability(MLDataSet, int[]) - Method in class org.encog.ml.hmm.HiddenMarkovModel
probability(MLDataSet) - Method in interface org.encog.ml.MLStateSequence
  Determine the probability of the specified sequence.
probability(MLDataSet, int[]) - Method in interface org.encog.ml.MLStateSequence
  Determine the probability for the specified sequence and states.
probability(String) - Method in class org.encog.util.text.BagOfWords
probB - Variable in class org.encog.mathutil.libsvm.svm_model
process(EncogAnalyst) - Method in class org.encog.app.analyst.analyze.PerformAnalysis
  Perform the analysis.
process(File, int, EncogAnalyst, int) - Method in class org.encog.app.analyst.csv.AnalystClusterCSV
  Process the file and cluster.
process(File, MLMethod) - Method in class org.encog.app.analyst.csv.AnalystEvaluateCSV
  Process the file.
process(File, MLRegression) - Method in class org.encog.app.analyst.csv.AnalystEvaluateRawCSV
  Process the file.
process(File, int, int) - Method in class org.encog.app.analyst.csv.balance.BalanceCSV
  Process and balance the data.
process(File) - Method in class org.encog.app.analyst.csv.filter.FilterCSV
  Process the input file.
process(File) - Method in class org.encog.app.analyst.csv.process.AnalystProcess
  Process, and generate the output file.
process() - Method in class org.encog.app.analyst.csv.segregate.SegregateCSV
  Process the input file and segregate into the output files.
process(File) - Method in class org.encog.app.analyst.csv.shuffle.ShuffleCSV
  Process, and generate the output file.
process(File, File, boolean, CSVFormat) - Method in class org.encog.app.analyst.csv.sort.SortCSV
  Process, and sort the files.
process(double[]) - Method in class org.encog.app.analyst.csv.TimeSeriesUtil
  Process a row.
process(File) - Method in class org.encog.app.quant.indicators.ProcessIndicators
  Process and write the specified output file.
process(File) - Method in class org.encog.app.quant.ninja.NinjaFileConvert
  Process the file and output to the target file.
process(boolean) - Method in class org.encog.ml.data.cross.KFoldCrossvalidation
process() - Method in class org.encog.ml.ea.score.parallel.ParallelScore
  Calculate the scores.
process(TreeNode) - Static method in class org.encog.ml.tree.traverse.tasks.TaskCountNodes
  Count the nodes from this tree node.
process(int, TreeNode) - Static method in class org.encog.ml.tree.traverse.tasks.TaskGetNodeIndex
  Obtain the specified tree node for the specified index.
process(TreeNode, TreeNode, TreeNode) - Static method in class org.encog.ml.tree.traverse.tasks.TaskReplaceNode
  Replace one node with another.
process() - Method in class org.encog.neural.prune.PruneIncremental
  Begin the prune process.
process(double[]) - Method in class org.encog.util.arrayutil.NormalizeArray
  Normalize the array.
process(double[]) - Method in class org.encog.util.arrayutil.TemporalWindowArray
  Process the array.
process(double[][]) - Method in class org.encog.util.arrayutil.TemporalWindowArray
  Processes the specified data array in an IMLDataset.
process() - Method in class org.encog.util.benchmark.EncogBenchmark
  Perform the benchmark.
process() - Method in class org.encog.util.concurrency.job.ConcurrentJob
  Process the job.
process() - Method in class org.encog.util.kmeans.KMeansUtil
  Perform the cluster.
process() - Method in class org.encog.util.normalize.DataNormalization
  Call this method to begin the normalization process.
process(String) - Method in class org.encog.util.text.BagOfWords
PROCESS_CONFIG_BACKWARD_SIZE - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "PROCESS:CONFIG,backwardSize".
PROCESS_CONFIG_FORWARD_SIZE - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "PROCESS:CONFIG,forwardSize".
PROCESS_CONFIG_SOURCE_FILE - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "PROCESS:CONFIG,sourceFile".
PROCESS_CONFIG_TARGET_FILE - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "PROCESS:CONFIG,targetFile".
processBackground() - Method in class org.encog.util.concurrency.job.ConcurrentJob
processBatches() - Method in class org.encog.neural.freeform.training.FreeformPropagationTraining
  Process training batches.
processCell(int, int) - Method in class org.encog.ca.program.conway.ConwayProgram
processCell(int, int) - Method in class org.encog.ca.program.generic.GenericCA
processDouble(ColumnDefinition) - Method in class org.encog.ml.data.versatile.missing.MeanMissingHandler
processDouble(ColumnDefinition) - Method in interface org.encog.ml.data.versatile.missing.MissingHandler
ProcessExtension - Class in org.encog.app.analyst.csv.process
ProcessExtension(CSVFormat) - Constructor for class org.encog.app.analyst.csv.process.ProcessExtension
ProcessField - Class in org.encog.app.analyst.script.process
  Holds one field for Encog analyst preprocess.
ProcessField(String, String) - Constructor for class org.encog.app.analyst.script.process.ProcessField
  Construct this field.
processImage(Image) - Method in interface org.encog.util.downsample.Downsample
  Process the specified image.
processImage(Image) - Method in class org.encog.util.downsample.RGBDownsample
  Process the image and prepare it to be downsampled.
ProcessIndicators - Class in org.encog.app.quant.indicators
  Process indicators and generate output.
ProcessIndicators() - Constructor for class org.encog.app.quant.indicators.ProcessIndicators
processPureBatch() - Method in class org.encog.neural.freeform.training.FreeformPropagationTraining
  Process training for pure batch mode (one single batch).
processString(ColumnDefinition) - Method in class org.encog.ml.data.versatile.missing.MeanMissingHandler
  Process a column's missing data.
processString(ColumnDefinition) - Method in interface org.encog.ml.data.versatile.missing.MissingHandler
  Process a column's missing data.
processTask(EngineTask) - Method in class org.encog.util.concurrency.EngineConcurrency
  Process the specified task.
processTask(EngineTask, TaskGroup) - Method in class org.encog.util.concurrency.EngineConcurrency
  Process the specified task.
processToken(String) - Method in class org.encog.app.generate.generators.AbstractTemplateGenerator
  Process the specified token.
processToken(String) - Method in class org.encog.app.generate.generators.mql4.GenerateMQL4
processToken(String) - Method in class org.encog.app.generate.generators.ninja.GenerateNinjaScript
processToPair(double[]) - Method in class org.encog.util.arrayutil.TemporalWindowArray
  Process the data array and returns an MLdatapair.
produceKeyLink(long, long) - Static method in class org.encog.neural.neat.training.NEATInnovationList
  Produce a key for a link.
produceKeyNeuron(long) - Static method in class org.encog.neural.neat.training.NEATInnovationList
  Produce an innovation key for a neuron.
produceKeyNeuronSplit(long, long) - Static method in class org.encog.neural.neat.training.NEATInnovationList
  Produce a key for a split neuron.
produceReport() - Method in class org.encog.app.analyst.report.AnalystReport
  Produce the report.
produceReport(File) - Method in class org.encog.app.analyst.report.AnalystReport
  Produce a report for a filename.
ProgramExtensionTemplate - Interface in org.encog.ml.prg.extension
  Defines an opcode.
ProgramGenerator - Interface in org.encog.app.generate.generators
  This interface defines a generator that works from program blocks, rather than a template.
ProgramNode - Class in org.encog.ml.prg
  Represents a program node in an EPL program.
ProgramNode(EncogProgram, ProgramExtensionTemplate, ProgramNode[]) - Constructor for class org.encog.ml.prg.ProgramNode
  Construct the program node.
Propagation - Class in org.encog.neural.networks.training.propagation
  Implements basic functionality that is needed by each of the propagation methods.
Propagation(ContainsFlat, MLDataSet) - Constructor for class org.encog.neural.networks.training.propagation.Propagation
  Construct a propagation object.
PROPERTIES - Static variable in class org.encog.persist.PersistConst
  Properties.
PROPERTY_A1 - Static variable in class org.encog.neural.art.ART
  Neural network property, the A1 parameter.
PROPERTY_AF - Static variable in class org.encog.ml.factory.MLMethodFactory
PROPERTY_B1 - Static variable in class org.encog.neural.art.ART
  Neural network property, the B1 parameter.
PROPERTY_BAYESIAN_REGULARIZATION - Static variable in class org.encog.ml.factory.MLTrainFactory
  Property for bayes reg.
PROPERTY_C - Static variable in class org.encog.ml.factory.MLTrainFactory
  Property for constant.
PROPERTY_C1 - Static variable in class org.encog.ml.factory.train.SVMSearchFactory
  Property for constant.
PROPERTY_C1 - Static variable in class org.encog.neural.art.ART
  Neural network property, the C1 parameter.
PROPERTY_C2 - Static variable in class org.encog.ml.factory.train.SVMSearchFactory
  Property for constant.
PROPERTY_C_STEP - Static variable in class org.encog.ml.factory.train.SVMSearchFactory
  Property for constant.
PROPERTY_CYCLES - Static variable in class org.encog.ml.factory.MLMethodFactory
PROPERTY_CYCLES - Static variable in class org.encog.neural.neat.NEATPopulation
  Property to hold the number of cycles.
PROPERTY_D1 - Static variable in class org.encog.neural.art.ART
  Neural network property, the D1 parameter.
PROPERTY_DIMENSIONS - Static variable in class org.encog.ml.factory.MLTrainFactory
  Property for dimensions.
PROPERTY_END_LEARNING_RATE - Static variable in class org.encog.ml.factory.MLTrainFactory
  Property for ending learning rate.
PROPERTY_END_RADIUS - Static variable in class org.encog.ml.factory.MLTrainFactory
  Property for ending radius.
PROPERTY_F1_COUNT - Static variable in class org.encog.persist.PersistConst
  The F1 count.
PROPERTY_F2_COUNT - Static variable in class org.encog.persist.PersistConst
  The F2 count.
PROPERTY_GAMMA - Static variable in class org.encog.ml.factory.MLTrainFactory
  Property for gamma.
PROPERTY_GAMMA1 - Static variable in class org.encog.ml.factory.train.SVMSearchFactory
  Property for gamma.
PROPERTY_GAMMA2 - Static variable in class org.encog.ml.factory.train.SVMSearchFactory
  Property for gamma.
PROPERTY_GAMMA_STEP - Static variable in class org.encog.ml.factory.train.SVMSearchFactory
  Property for gamma.
PROPERTY_ID - Static variable in class org.encog.persist.PersistConst
  Property id.
PROPERTY_INITIAL_UPDATE - Static variable in class org.encog.ml.factory.MLTrainFactory
  Property for init update.
PROPERTY_ITERATIONS - Static variable in class org.encog.ml.factory.MLTrainFactory
  Property for iterations.
PROPERTY_L - Static variable in class org.encog.neural.art.ART
  Neural network property, the L parameter.
PROPERTY_LEARNING_MOMENTUM - Static variable in class org.encog.ml.factory.MLTrainFactory
  Property for momentum.
PROPERTY_LEARNING_RATE - Static variable in class org.encog.ml.factory.MLTrainFactory
  Property for learning rate.
PROPERTY_MAX_PARENTS - Static variable in class org.encog.ml.factory.MLTrainFactory
PROPERTY_MAX_STEP - Static variable in class org.encog.ml.factory.MLTrainFactory
  Property for max step.
PROPERTY_NEAT_ACTIVATION - Static variable in class org.encog.neural.neat.NEATPopulation
  The activation function to use.
PROPERTY_NEIGHBORHOOD - Static variable in class org.encog.ml.factory.MLTrainFactory
  Property for neighborhood.
PROPERTY_NO_WINNER - Static variable in class org.encog.neural.art.ART
  Neural network property for no winner.
PROPERTY_outputMode - Static variable in class org.encog.neural.pnn.PersistBasicPNN
  The output mode property.
PROPERTY_PARTICLES - Static variable in class org.encog.ml.factory.MLTrainFactory
PROPERTY_POPULATION_SIZE - Static variable in class org.encog.ml.factory.MLMethodFactory
  Population size.
PROPERTY_POPULATION_SIZE - Static variable in class org.encog.ml.factory.MLTrainFactory
  Population size.
PROPERTY_POPULATION_SIZE - Static variable in class org.encog.neural.neat.NEATPopulation
  Property tag for the population size.
PROPERTY_PROPERTY_NEIGHBORHOOD - Static variable in class org.encog.ml.factory.MLTrainFactory
  Property for neighborhood.
PROPERTY_RBF_TYPE - Static variable in class org.encog.ml.factory.MLTrainFactory
  Property for rbf type.
PROPERTY_START_LEARNING_RATE - Static variable in class org.encog.ml.factory.MLTrainFactory
  Property for starting learning rate.
PROPERTY_START_RADIUS - Static variable in class org.encog.ml.factory.MLTrainFactory
  Property for starting radius.
PROPERTY_SURVIVAL_RATE - Static variable in class org.encog.neural.neat.NEATPopulation
  Property tag for the survival rate.
PROPERTY_TEMPERATURE_START - Static variable in class org.encog.ml.factory.MLTrainFactory
  The starting temperature.
PROPERTY_TEMPERATURE_STOP - Static variable in class org.encog.ml.factory.MLTrainFactory
  The ending temperature.
PROPERTY_VIGILANCE - Static variable in class org.encog.neural.art.ART
  Neural network property, the vigilance parameter.
PROPERTY_WEIGHTS_F1_F2 - Static variable in class org.encog.persist.PersistConst
  The weights from F1 to F2.
PROPERTY_WEIGHTS_F2_F1 - Static variable in class org.encog.persist.PersistConst
  The weights from F2 to F1.
PropertyConstraints - Class in org.encog.app.analyst.script.prop
  Holds constant type information for each of the properties that the script might have.
PropertyEntry - Class in org.encog.app.analyst.script.prop
  A property entry for the Encog Analyst.
PropertyEntry(PropertyType, String, String) - Constructor for class org.encog.app.analyst.script.prop.PropertyEntry
  Construct a property entry.
PropertyType - Enum in org.encog.app.analyst.script.prop
  The property types supported for Encog Analyst.
protectedDiv(ExpressionValue, ExpressionValue) - Static method in class org.encog.ml.prg.expvalue.EvaluateExpr
  Perform a protected div on two expression values.
prune(int, int) - Method in class org.encog.neural.prune.PruneSelective
  Prune one of the neurons from this layer.
PruneIncremental - Class in org.encog.neural.prune
  This class is used to help determine the optimal configuration for the hidden layers of a neural network.
PruneIncremental(MLDataSet, NeuralNetworkPattern, int, int, int, StatusReportable) - Constructor for class org.encog.neural.prune.PruneIncremental
  Construct an object to determine the optimal number of hidden layers and neurons for the specified training data and pattern.
PruneSelective - Class in org.encog.neural.prune
  Prune a neural network selectively.
PruneSelective(BasicNetwork) - Constructor for class org.encog.neural.prune.PruneSelective
  Construct an object prune the neural network.
PSOFactory - Class in org.encog.ml.factory.train
  A factory for quick propagation training.
PSOFactory() - Constructor for class org.encog.ml.factory.train.PSOFactory
purge() - Method in class org.encog.ml.ea.species.BasicSpecies
  Purge all members, increase age by one and count the number of generations with no improvement.
purgeInvalidGenomes() - Method in class org.encog.ml.ea.population.BasicPopulation
  Purge any invalid genomes.
purgeInvalidGenomes() - Method in interface org.encog.ml.ea.population.Population
  Purge any invalid genomes.
push(int) - Method in class org.encog.util.datastruct.StackInt
  Push an int onto the stack.
push(T) - Method in class org.encog.util.datastruct.StackObject
push(String) - Method in class org.encog.util.datastruct.StackString
put(MLDataPair, int) - Method in class org.encog.ml.hmm.train.kmeans.Clusters
put(String, double[]) - Method in class org.encog.neural.networks.training.propagation.TrainingContinuation
  Save a list of doubles.
putArray(UNIT_TYPE[]) - Method in class org.encog.ml.anneal.SimulatedAnnealing
  Store the array.
putArray(double[]) - Method in class org.encog.neural.networks.training.anneal.NeuralSimulatedAnnealing
  Convert an array of doubles to the current best network.
putArray(Double[]) - Method in class org.encog.neural.networks.training.anneal.NeuralSimulatedAnnealingHelper
  Used to pass the putArray call on to the parent object.
pythag(double, double) - Static method in class org.encog.neural.rbf.training.SVD

## Q

QLearning - Class in org.encog.ml.world.learning.q
QLearning(World, double, double) - Constructor for class org.encog.ml.world.learning.q.QLearning
QRDecomposition - Class in org.encog.mathutil.matrices.decomposition
  QR Decomposition.
QRDecomposition(Matrix) - Constructor for class org.encog.mathutil.matrices.decomposition.QRDecomposition
  QR Decomposition, computed by Householder reflections.
QuantError - Exception in org.encog.app.quant
  Used to represent any error that occurs in the quant part of Encog.
QuantError(String) - Constructor for exception org.encog.app.quant.QuantError
  Construct a message exception.
QuantError(Throwable) - Constructor for exception org.encog.app.quant.QuantError
  Construct an exception that holds another exception.
QuantTask - Interface in org.encog.app.quant
  Defines an interface for Encog quant tasks.
QuickPropagation - Class in org.encog.neural.networks.training.propagation.quick
  QPROP is an efficient training method that is based on Newton's Method.
QuickPropagation(ContainsFlat, MLDataSet) - Constructor for class org.encog.neural.networks.training.propagation.quick.QuickPropagation
  Construct a QPROP trainer for flat networks.
QuickPropagation(ContainsFlat, MLDataSet, double) - Constructor for class org.encog.neural.networks.training.propagation.quick.QuickPropagation
  Construct a QPROP trainer for flat networks.
QuickPropFactory - Class in org.encog.ml.factory.train
  A factory for quick propagation training.
QuickPropFactory() - Constructor for class org.encog.ml.factory.train.QuickPropFactory
QUOTE - Static variable in class org.encog.persist.EncogWriteHelper
  A quote char.

## R

rad2deg(double) - Static method in class org.encog.mathutil.EncogMath
  Convert radians to degrees.
RadialBasisFunction - Interface in org.encog.mathutil.rbf
  A multi-dimension RBF.
RadialBasisPattern - Class in org.encog.neural.pattern
  A radial basis function (RBF) network uses several radial basis functions to provide a more dynamic hidden layer activation function than many other types of neural network.
RadialBasisPattern() - Constructor for class org.encog.neural.pattern.RadialBasisPattern
RampedHalfAndHalf - Class in org.encog.ml.prg.generator
  Because neither the grow or full method provide a very wide array of sizes or shapes on their own, Koza (1992) proposed a combination called ramped half-and-half.
RampedHalfAndHalf(EncogProgramContext, int, int) - Constructor for class org.encog.ml.prg.generator.RampedHalfAndHalf
  Construct the ramped half-and-half generator.
rand - Static variable in class org.encog.mathutil.libsvm.svm
RANDOM_LENGTH - Static variable in class org.encog.util.http.FormUtility
  The length of random string to create for multipart.
RandomChoice - Class in org.encog.mathutil.randomize
  Generate random choices unevenly.
RandomChoice(double[]) - Constructor for class org.encog.mathutil.randomize.RandomChoice
  Construct a list of probabilities.
RandomFactory - Interface in org.encog.mathutil.randomize.factory
randomInt(int, int) - Static method in class org.encog.mathutil.randomize.RangeRandomizer
  Returns a random number in the range between min and max.
randomise(double[]) - Method in class org.encog.mathutil.VectorAlgebra
  v = U(0, 0.1)
randomise(double[], double) - Method in class org.encog.mathutil.VectorAlgebra
  v = U(-1, 1) * maxValue Randomise each component of a vector to [-maxValue, maxValue].
randomize() - Method in interface org.encog.ca.program.CAProgram
randomize() - Method in class org.encog.ca.program.conway.ConwayProgram
randomize() - Method in class org.encog.ca.program.elementary.ElementaryCA
randomize() - Method in class org.encog.ca.program.generic.GenericCA
randomize() - Method in class org.encog.ca.universe.basic.BasicContinuousCell
randomize() - Method in class org.encog.ca.universe.basic.BasicDiscreteCell
randomize() - Method in class org.encog.ca.universe.basic.BasicUniverse
randomize() - Method in interface org.encog.ca.universe.Universe
randomize() - Method in interface org.encog.ca.universe.UniverseCell
randomize(double, double) - Method in class org.encog.mathutil.matrices.Matrix
  Randomize the matrix.
randomize(BasicNetwork, int) - Method in class org.encog.mathutil.randomize.BasicRandomizer
  Randomize one level of a neural network.
randomize(double[]) - Method in class org.encog.mathutil.randomize.BasicRandomizer
  Randomize the array based on an array, modify the array.
randomize(double[], int, int) - Method in class org.encog.mathutil.randomize.BasicRandomizer
  Randomize the array based on an array, modify the array.
randomize(double[][]) - Method in class org.encog.mathutil.randomize.BasicRandomizer
  Randomize the 2d array based on an array, modify the array.
randomize(Matrix) - Method in class org.encog.mathutil.randomize.BasicRandomizer
  Randomize the matrix based on an array, modify the array.
randomize(MLMethod) - Method in class org.encog.mathutil.randomize.BasicRandomizer
  Randomize the synapses and biases in the basic network based on an array, modify the array.
randomize(double) - Method in class org.encog.mathutil.randomize.ConsistentRandomizer
  Generate a random number based on the range specified in the constructor.
randomize(BasicNetwork) - Method in class org.encog.mathutil.randomize.ConsistentRandomizer
  Randomize the network.
randomize(double) - Method in class org.encog.mathutil.randomize.ConstRandomizer
  Generate a random number based on the range specified in the constructor.
randomize(double) - Method in class org.encog.mathutil.randomize.Distort
  Distort the random number by the factor that was specified in the constructor.
randomize(double) - Method in class org.encog.mathutil.randomize.FanInRandomizer
  Starting with the specified number, randomize it to the degree specified by this randomizer.
randomize(double[]) - Method in class org.encog.mathutil.randomize.FanInRandomizer
  Randomize the array based on an array, modify the array.
randomize(double[][]) - Method in class org.encog.mathutil.randomize.FanInRandomizer
  Randomize the 2d array based on an array, modify the array.
randomize(Matrix) - Method in class org.encog.mathutil.randomize.FanInRandomizer
  Randomize the matrix based on an array, modify the array.
randomize(BasicNetwork, int) - Method in class org.encog.mathutil.randomize.FanInRandomizer
  Randomize one level of a neural network.
randomize(double) - Method in class org.encog.mathutil.randomize.GaussianRandomizer
  Generate a random number.
randomize(MLMethod) - Method in class org.encog.mathutil.randomize.NguyenWidrowRandomizer
randomize(double) - Method in class org.encog.mathutil.randomize.NguyenWidrowRandomizer
randomize(double[]) - Method in class org.encog.mathutil.randomize.NguyenWidrowRandomizer
randomize(double[][]) - Method in class org.encog.mathutil.randomize.NguyenWidrowRandomizer
randomize(Matrix) - Method in class org.encog.mathutil.randomize.NguyenWidrowRandomizer
randomize(double[], int, int) - Method in class org.encog.mathutil.randomize.NguyenWidrowRandomizer
randomize(MLMethod) - Method in interface org.encog.mathutil.randomize.Randomizer
  Randomize the synapses and bias values in the basic network based on an array, modify the array.
randomize(double) - Method in interface org.encog.mathutil.randomize.Randomizer
  Starting with the specified number, randomize it to the degree specified by this randomizer.
randomize(double[]) - Method in interface org.encog.mathutil.randomize.Randomizer
  Randomize the array based on an array, modify the array.
randomize(double[][]) - Method in interface org.encog.mathutil.randomize.Randomizer
  Randomize the 2d array based on an array, modify the array.
randomize(Matrix) - Method in interface org.encog.mathutil.randomize.Randomizer
  Randomize the matrix based on an array, modify the array.
randomize(double[], int, int) - Method in interface org.encog.mathutil.randomize.Randomizer
  Randomize an array.
randomize(double, double) - Static method in class org.encog.mathutil.randomize.RangeRandomizer
  Generate a random number in the specified range.
randomize(Random, double, double) - Static method in class org.encog.mathutil.randomize.RangeRandomizer
randomize(double) - Method in class org.encog.mathutil.randomize.RangeRandomizer
  Generate a random number based on the range specified in the constructor.
randomize() - Method in class org.encog.ml.anneal.SimulatedAnnealing
  Randomize the weight matrix.
randomize(int...) - Method in class org.encog.ml.bayesian.query.sample.EventState
randomize(Random, List<ValueType>, ProgramNode, double, double) - Method in class org.encog.ml.prg.extension.BasicTemplate
  Randomize this actual tree node.
randomize(Random, List<ValueType>, ProgramNode, double, double) - Method in interface org.encog.ml.prg.extension.ProgramExtensionTemplate
  Randomize this actual tree node.
randomize() - Method in class org.encog.neural.flat.FlatNetwork
  Perform a simple randomization of the weights of the neural network between -1 and 1.
randomize(double, double) - Method in class org.encog.neural.flat.FlatNetwork
  Perform a simple randomization of the weights of the neural network between the specified hi and lo.
randomize() - Method in class org.encog.neural.networks.training.anneal.NeuralSimulatedAnnealing
  Randomize the weights and bias values.
randomize() - Method in class org.encog.neural.networks.training.anneal.NeuralSimulatedAnnealingHelper
  Call the owner's randomize method.
RANDOMIZE_CONFIG_SOURCE_FILE - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "RANDOMIZE:CONFIG_sourceFile".
RANDOMIZE_CONFIG_TARGET_FILE - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "RANDOMIZE:CONFIG_targetFile".
randomizeNeuron(double, double, int, int) - Method in class org.encog.neural.prune.PruneSelective
randomizeNeuron(int, int) - Method in class org.encog.neural.prune.PruneSelective
  Assign random values to the network.
Randomizer - Interface in org.encog.mathutil.randomize
  Defines the interface for a class that is capable of randomizing the weights and bias values of a neural network.
randomizeRBFCentersAndWidths(double, double, RBFEnum) - Method in class org.encog.neural.rbf.RBFNetwork
  Set the RBF components to random values.
randomString() - Static method in class org.encog.util.http.FormUtility
  Generate a random string, of a specified length.
RandomTrainingFactory - Class in org.encog.util.benchmark
  Class used to generate random training sets.
RandomVariable - Class in org.encog.mathutil.probability.vars
RandomVariable(String, String[]) - Constructor for class org.encog.mathutil.probability.vars.RandomVariable
RandomVariable(String) - Constructor for class org.encog.mathutil.probability.vars.RandomVariable
RangeNormalizer - Class in org.encog.ml.data.versatile.normalizers
  A a range normalizer forces a value to fall in a specific range.
RangeNormalizer(double, double) - Constructor for class org.encog.ml.data.versatile.normalizers.RangeNormalizer
  Construct the range normalizer.
RangeOrdinal - Class in org.encog.ml.data.versatile.normalizers
  Normalize an ordinal into a specific range.
RangeOrdinal(double, double) - Constructor for class org.encog.ml.data.versatile.normalizers.RangeOrdinal
RangeRandomizer - Class in org.encog.mathutil.randomize
  A randomizer that will create random weight and bias values that are between a specified range.
RangeRandomizer(double, double) - Constructor for class org.encog.mathutil.randomize.RangeRandomizer
  Construct a range randomizer.
RangeSegregator - Class in org.encog.util.normalize.segregate
  Range segregators are used to segregate data and include or exclude if it is within a certain range.
RangeSegregator() - Constructor for class org.encog.util.normalize.segregate.RangeSegregator
  Default constructor for reflection.
RangeSegregator(InputField, boolean) - Constructor for class org.encog.util.normalize.segregate.RangeSegregator
  Construct a range segregator.
rank() - Method in class org.encog.mathutil.matrices.decomposition.SingularValueDecomposition
  Effective numerical matrix rank
RBF - Static variable in class org.encog.mathutil.libsvm.svm_parameter
RBFEnum - Enum in org.encog.mathutil.rbf
  The implemented function types of the RBFs.
RBFNetwork - Class in org.encog.neural.rbf
  RBF neural network.
RBFNetwork() - Constructor for class org.encog.neural.rbf.RBFNetwork
  Construct RBF network.
RBFNetwork(int, int, int, RBFEnum) - Constructor for class org.encog.neural.rbf.RBFNetwork
  Construct RBF network.
RBFNetwork(int, int, RadialBasisFunction[]) - Constructor for class org.encog.neural.rbf.RBFNetwork
  Construct RBF network.
RBFNetworkConfig - Class in org.encog.ml.model.config
  Config class for EncogModel to use a RBF neural network.
RBFNetworkConfig() - Constructor for class org.encog.ml.model.config.RBFNetworkConfig
RBFNetworkFactory - Class in org.encog.ml.factory.method
  A factory to create RBF networks.
RBFNetworkFactory() - Constructor for class org.encog.ml.factory.method.RBFNetworkFactory
RBFSVDFactory - Class in org.encog.ml.factory.train
  This factory is used to create a SVD trainer for an RBF network.
RBFSVDFactory() - Constructor for class org.encog.ml.factory.train.RBFSVDFactory
read(InputStream) - Method in class org.encog.ca.universe.basic.PersistBasicUniverse
read(InputStream) - Method in class org.encog.ml.bayesian.PersistBayes
  Read the object from an input stream.
read(double[], double[], double[]) - Method in class org.encog.ml.data.buffer.codec.ArrayDataCODEC
  Read one record of data from an external source.
read(double[], double[], double[]) - Method in class org.encog.ml.data.buffer.codec.CSVDataCODEC
  Read one record of data from a CSV file.
read(double[], double[], double[]) - Method in interface org.encog.ml.data.buffer.codec.DataSetCODEC
  Read one record of data from an external source.
read(double[], double[], double[]) - Method in class org.encog.ml.data.buffer.codec.ExcelCODEC
  Read one record of data from an external source.
read(double[], double[], double[]) - Method in class org.encog.ml.data.buffer.codec.NeuralDataSetCODEC
  Read one record of data from an external source.
read(double[], double[], double[]) - Method in class org.encog.ml.data.buffer.codec.SQLCODEC
  Read one record of data from an external source.
read() - Method in class org.encog.ml.data.buffer.EncogEGBFile
  Read a single double.
read(double[]) - Method in class org.encog.ml.data.buffer.EncogEGBFile
  Read an array of doubles.
read(int, double[]) - Method in class org.encog.ml.data.buffer.EncogEGBFile
  Read a double array at the specified record.
read(int, int) - Method in class org.encog.ml.data.buffer.EncogEGBFile
  Read a row and column.
read(InputStream) - Method in class org.encog.ml.hmm.PersistHMM
  Read the object from an input stream.
read(InputStream) - Method in class org.encog.ml.prg.PersistPrgPopulation
  Read the object from an input stream.
read(InputStream) - Method in class org.encog.ml.svm.PersistSVM
  Read the object from an input stream.
read(InputStream) - Method in class org.encog.neural.art.PersistART1
  Read the object from an input stream.
read(InputStream) - Method in class org.encog.neural.bam.PersistBAM
  Read the object from an input stream.
read(InputStream) - Method in class org.encog.neural.cpn.PersistCPN
  Read the object from an input stream.
read(InputStream) - Method in class org.encog.neural.neat.PersistNEATPopulation
read(InputStream) - Method in class org.encog.neural.networks.PersistBasicNetwork
  Read the object from an input stream.
read(InputStream) - Method in class org.encog.neural.networks.training.propagation.PersistTrainingContinuation
  Read the object from an input stream.
read(InputStream) - Method in class org.encog.neural.pnn.PersistBasicPNN
  Read the object from an input stream.
read(InputStream) - Method in class org.encog.neural.rbf.PersistRBFNetwork
  Read the object from an input stream.
read(InputStream) - Method in class org.encog.neural.som.PersistSOM
  Read the object from an input stream.
read(InputStream) - Method in class org.encog.neural.thermal.PersistBoltzmann
  Read the object from an input stream.
read(InputStream) - Method in class org.encog.neural.thermal.PersistHopfield
  Read the object from an input stream.
read() - Method in class org.encog.parse.PeekableInputStream
  Read a single byte from the stream.
read() - Method in class org.encog.parse.tags.read.ReadTags
  Read a single character from the HTML source, if this function returns zero(0) then you should call getTag to see what tag was found.
read(InputStream) - Method in interface org.encog.persist.EncogPersistor
  Read the object from an input stream.
read() - Method in class org.encog.util.text.Base64.InputStream
  Reads enough of the input stream to convert to/from Base64 and returns the next byte.
read(byte[], int, int) - Method in class org.encog.util.text.Base64.InputStream
  Calls `Base64.InputStream.read()` repeatedly until the end of stream is reached or len bytes are read.
readBIF(String) - Static method in class org.encog.ml.bayesian.bif.BIFUtil
  Read a BIF file.
readBIF(File) - Static method in class org.encog.ml.bayesian.bif.BIFUtil
readBIF(InputStream) - Static method in class org.encog.ml.bayesian.bif.BIFUtil
  Read a BIF file from a stream.
readChar() - Method in class org.encog.util.SimpleParser
ReadCSV - Class in org.encog.util.csv
  Read and parse CSV format files.
ReadCSV(InputStream, boolean, char) - Constructor for class org.encog.util.csv.ReadCSV
  Construct a CSV reader from an input stream.
ReadCSV(InputStream, boolean, CSVFormat) - Constructor for class org.encog.util.csv.ReadCSV
  Construct a CSV reader from an input stream.
ReadCSV(File, boolean, char) - Constructor for class org.encog.util.csv.ReadCSV
  Construct a CSV reader from a filename.
ReadCSV(String, boolean, char) - Constructor for class org.encog.util.csv.ReadCSV
ReadCSV(String, boolean, CSVFormat) - Constructor for class org.encog.util.csv.ReadCSV
ReadCSV(File, boolean, CSVFormat) - Constructor for class org.encog.util.csv.ReadCSV
  Construct a CSV reader from a filename.
readFileAsString(File) - Static method in class org.encog.util.file.FileUtil
readHeaders(ReadCSV) - Method in class org.encog.app.analyst.csv.basic.BasicFile
  Read the headers from a CSV file.
ReadHTML - Class in org.encog.parse.tags.read
  This class is designed to parse HTML documents.
ReadHTML(InputStream) - Constructor for class org.encog.parse.tags.read.ReadHTML
  Construct a HTML reader.
readIntToTag() - Method in class org.encog.parse.tags.read.ReadXML
  Read an integer that is contained between the current position, and the next tag.
readLine() - Method in class org.encog.ml.data.versatile.sources.CSVDataSource
  Read a line from the source.
readLine() - Method in interface org.encog.ml.data.versatile.sources.VersatileDataSource
  Read a line from the source.
readNextSection() - Method in class org.encog.persist.EncogReadHelper
  Read the next section.
readPropertyBlock() - Method in class org.encog.parse.tags.read.ReadXML
  Read all property data until an end tag, which corrisponds to the current tag, is found.
readQuotedString() - Method in class org.encog.util.SimpleParser
readResourceAsString(String) - Static method in class org.encog.util.file.ResourceInputStream
readStream(InputStream) - Static method in class org.encog.util.file.Directory
  Read the entire contents of a stream into a string.
readStreamAsString(InputStream) - Static method in class org.encog.util.file.FileUtil
ReadTags - Class in org.encog.parse.tags.read
  Base class used to read tags.
ReadTags(InputStream) - Constructor for class org.encog.parse.tags.read.ReadTags
  The constructor should be passed an InputStream that we will parse from.
readTextFile(String) - Static method in class org.encog.util.file.Directory
  Read the entire contents of a stream into a string.
readTextToTag() - Method in class org.encog.parse.tags.read.ReadXML
  Read all text between the current position and the next tag.
readToChars(String) - Method in class org.encog.util.SimpleParser
readToTag() - Method in class org.encog.parse.tags.read.ReadTags
  Read until we reach the next tag.
readToWhiteSpace() - Method in class org.encog.util.SimpleParser
ReadXML - Class in org.encog.parse.tags.read
  This class is designed to read XML.
ReadXML(InputStream) - Constructor for class org.encog.parse.tags.read.ReadXML
  Construct an XML reader.
ready() - Method in interface org.encog.neural.networks.training.concurrent.performers.ConcurrentTrainingPerformer
ready() - Method in class org.encog.neural.networks.training.concurrent.performers.ConcurrentTrainingPerformerCPU
reanalyze(File, boolean, AnalystFileFormat) - Method in class org.encog.app.analyst.EncogAnalyst
  Analyze the specified file.
reanalyze() - Method in class org.encog.app.analyst.wizard.AnalystWizard
  Reanalyze column ranges.
RECURRENT - Static variable in class org.encog.persist.PersistConst
  Recurrent.
ReflectionUtil - Class in org.encog.util.obj
  This class includes some utilities to be used with reflection.
register(FunctionFactory) - Method in class org.encog.app.analyst.csv.process.ProcessExtension
registerError(Throwable) - Method in class org.encog.util.concurrency.EngineConcurrency
  Allows threads to register errors, these errors will be thrown by the main thread.
registerPlugin(EncogPluginBase) - Method in class org.encog.Encog
  Register a plugin.
RegularizationStrategy - Class in org.encog.neural.networks.training.strategy
RegularizationStrategy(double) - Constructor for class org.encog.neural.networks.training.strategy.RegularizationStrategy
reInit(MLMethod) - Method in interface org.encog.ensemble.EnsembleMLMethodFactory
reInit(MLMethod) - Method in class org.encog.ensemble.ml.mlp.factory.MultiLayerPerceptronFactory
remaining() - Method in class org.encog.util.SimpleParser
remove() - Method in class org.encog.ml.data.auto.AutoFloatDataSet.AutoFloatIterator
remove(MLData) - Method in class org.encog.ml.data.basic.BasicMLDataCentroid
  Remove an element from the centroid.
remove(MLDataPair) - Method in class org.encog.ml.data.basic.BasicMLDataPairCentroid
  Remove an element from the centroid.
remove() - Method in class org.encog.ml.data.basic.BasicMLDataSet.BasicMLIterator
remove() - Method in class org.encog.ml.data.basic.BasicMLSequenceSet.BasicMLSeqIterator
remove() - Method in class org.encog.ml.data.buffer.BufferedDataSetIterator
  Not supported.
remove() - Method in class org.encog.ml.data.folded.FoldedIterator
remove() - Method in class org.encog.ml.data.versatile.MatrixMLDataSet.MatrixMLDataSetIterator
remove(MLDataPair, int) - Method in class org.encog.ml.hmm.train.kmeans.Clusters
remove(MLData) - Method in class org.encog.ml.kmeans.BasicCluster
  Remove the specified item.
remove(MLData) - Method in interface org.encog.ml.MLCluster
  Remove the specified item.
remove(O) - Method in interface org.encog.util.kmeans.Centroid
  Remove an element from the centroid.
remove(int) - Method in class org.encog.util.kmeans.Cluster
  Remove the specified index from the cluster.
removeAdditional(BufferedMLDataSet) - Method in class org.encog.ml.data.buffer.BufferedMLDataSet
  Remove an additional dataset that was created.
removeAgent(WorldAgent) - Method in class org.encog.ml.world.basic.BasicWorld
removeAgent(WorldAgent) - Method in interface org.encog.ml.world.World
removeAllRelations() - Method in class org.encog.ml.bayesian.BayesianEvent
  Remove all relations.
removeAllRelations() - Method in class org.encog.ml.bayesian.BayesianNetwork
  Remove all relations between nodes.
removeAnalystListener(AnalystListener) - Method in class org.encog.app.analyst.EncogAnalyst
  Remove a listener.
removeGoal(State) - Method in class org.encog.ml.world.basic.BasicWorld
removeGoal(State) - Method in interface org.encog.ml.world.World
removeNeuron(NEATGenome, long) - Method in class org.encog.neural.neat.training.opp.NEATMutation
  Remove the specified neuron.
removeRewardBelow(List<GridState>, double) - Static method in class org.encog.ml.world.basic.BasicWorld
removeShutdownTask(EncogShutdownTask) - Method in class org.encog.Encog
  Remove a shutdown task.
removeSpecies(Species) - Method in class org.encog.ml.ea.species.ThresholdSpeciation
  Attempt to remove a removable species.
renameColumn(int, String) - Method in class org.encog.app.quant.indicators.ProcessIndicators
  Rename a column.
render(EncogProgram) - Method in class org.encog.parse.expression.common.RenderCommonExpression
render(EncogProgram) - Method in class org.encog.parse.expression.epl.RenderEPL
render(EncogProgram) - Method in class org.encog.parse.expression.latex.RenderLatexExpression
render(EncogProgram) - Method in class org.encog.parse.expression.rpn.RenderRPN
RenderCommonExpression - Class in org.encog.parse.expression.common
  Render a common expression.
RenderCommonExpression() - Constructor for class org.encog.parse.expression.common.RenderCommonExpression
RenderEPL - Class in org.encog.parse.expression.epl
RenderEPL() - Constructor for class org.encog.parse.expression.epl.RenderEPL
RenderLatexExpression - Class in org.encog.parse.expression.latex
RenderLatexExpression() - Constructor for class org.encog.parse.expression.latex.RenderLatexExpression
RenderRPN - Class in org.encog.parse.expression.rpn
RenderRPN() - Constructor for class org.encog.parse.expression.rpn.RenderRPN
replace(String, String, String) - Static method in class org.encog.util.EngineArray
replaceNode(ProgramNode, ProgramNode) - Method in class org.encog.ml.prg.EncogProgram
  Replace the specified node with another.
report(int, int, String) - Method in interface org.encog.app.analyst.AnalystListener
  Report progress on a task.
report(int, int, String) - Method in class org.encog.app.analyst.ConsoleAnalystListener
  Report progress on a task.
report(int, int, String) - Method in class org.encog.app.analyst.util.AnalystReportBridge
  Report on current status.
report(int, int, String) - Method in class org.encog.ConsoleStatusReportable
  Simply display any status reports.
report(double[], double, Throwable) - Method in class org.encog.neural.networks.training.propagation.Propagation
  Called by the worker threads to report the progress at each step.
report(int, int, String) - Method in class org.encog.NullStatusReportable
  Simply ignore any status reports.
report(int, int, String) - Method in interface org.encog.StatusReportable
  Report on current status.
REPORT_INTERVAL - Static variable in class org.encog.app.analyst.csv.basic.BasicFile
  The default report interval.
reportCommandBegin(int, int, String) - Method in interface org.encog.app.analyst.AnalystListener
  Report that a command has begun.
reportCommandBegin(int, int, String) - Method in class org.encog.app.analyst.ConsoleAnalystListener
  Report that a command has begun.
reportCommandEnd(boolean) - Method in interface org.encog.app.analyst.AnalystListener
  Report that a command has ended.
reportCommandEnd(boolean) - Method in class org.encog.app.analyst.ConsoleAnalystListener
  Report that a command has ended.
reportDone(boolean) - Method in class org.encog.app.analyst.csv.basic.BasicFile
  Report that we are done.
reportDone(String) - Method in class org.encog.app.analyst.csv.basic.BasicFile
  Report that we are done.
reportError(Throwable) - Method in class org.encog.ml.ea.train.basic.BasicEA
  Called by a thread to report an error.
reportStatus(JobUnitContext, String) - Method in class org.encog.util.concurrency.job.ConcurrentJob
  Report the status for this job.
reportTraining(MLTrain) - Method in interface org.encog.app.analyst.AnalystListener
  Report progress on training.
reportTraining(MLTrain) - Method in class org.encog.app.analyst.ConsoleAnalystListener
  Report progress on training.
reportTraining(MLTrain) - Method in class org.encog.app.analyst.EncogAnalyst
  Report training.
reportTrainingBegin() - Method in interface org.encog.app.analyst.AnalystListener
  Report that training has begun.
reportTrainingBegin() - Method in class org.encog.app.analyst.ConsoleAnalystListener
  Report that training has begun.
reportTrainingBegin() - Method in class org.encog.app.analyst.EncogAnalyst
  Report that training has begun.
reportTrainingEnd() - Method in interface org.encog.app.analyst.AnalystListener
  Report that training has ended.
reportTrainingEnd() - Method in class org.encog.app.analyst.ConsoleAnalystListener
  Report that training has ended.
reportTrainingEnd() - Method in class org.encog.app.analyst.EncogAnalyst
  Report that training has ended.
requestCancelCommand() - Method in interface org.encog.app.analyst.AnalystListener
  Request to cancel current command.
requestCancelCommand() - Method in class org.encog.app.analyst.ConsoleAnalystListener
  Request to cancel current command.
requestNextTask() - Method in class org.encog.neural.prune.PruneIncremental
  Request the next task.
requestNextTask() - Method in class org.encog.util.concurrency.job.ConcurrentJob
  Request the next task to be processed.
requestShutdown() - Method in interface org.encog.app.analyst.AnalystListener
  Request stop the entire process.
requestShutdown() - Method in class org.encog.app.analyst.ConsoleAnalystListener
  Request stop the entire process.
requestStop() - Method in class org.encog.app.analyst.csv.basic.BasicFile
  Request a stop.
requestStop() - Method in class org.encog.app.quant.loader.yahoo.YahooDownload
  Request to stop.
requestStop() - Method in interface org.encog.app.quant.QuantTask
  Request to stop.
require(Map<String, BaseCachedColumn>, String) - Method in class org.encog.app.quant.indicators.Indicator
  Require a specific type of underlying data.
RequiredImprovementStrategy - Class in org.encog.ml.train.strategy
  The reset strategy will reset the weights if the neural network fails to improve by the specified amount over a number of cycles.
RequiredImprovementStrategy(double, int) - Constructor for class org.encog.ml.train.strategy.RequiredImprovementStrategy
  Construct a reset strategy.
RequiredImprovementStrategy(double, double, int) - Constructor for class org.encog.ml.train.strategy.RequiredImprovementStrategy
  Construct a reset strategy.
RequiredImprovementStrategy(int) - Constructor for class org.encog.ml.train.strategy.RequiredImprovementStrategy
  Reset if there is not at least a 1% improvement for 5 cycles.
requireEvent(String) - Method in class org.encog.mathutil.probability.vars.VariableList
requireEvent(String) - Method in class org.encog.ml.bayesian.BayesianNetwork
  Require the specified event, thrown an error if it does not exist.
requireFlat() - Method in class org.encog.neural.networks.structure.NeuralStructure
  Throw an error if there is no flat network.
requireSingleThreaded() - Method in interface org.encog.ml.CalculateScore
requireSingleThreaded() - Method in class org.encog.ml.ea.score.EmptyScoreFunction
requireSingleThreaded() - Method in class org.encog.ml.fitness.MultiObjectiveFitness
requireSingleThreaded() - Method in class org.encog.ml.prg.train.ZeroEvalScoreFunction
requireSingleThreaded() - Method in class org.encog.neural.networks.training.TrainingSetScore
RequireTwoPass - Interface in org.encog.util.normalize.output
  Interface flag that indicates that a field type requires two passes.
ResamplingDataSetFactory - Class in org.encog.ensemble.data.factories
ResamplingDataSetFactory(int) - Constructor for class org.encog.ensemble.data.factories.ResamplingDataSetFactory
reset() - Method in class org.encog.ca.runner.BasicCARunner
reset() - Method in interface org.encog.ca.runner.CARunner
reset() - Method in class org.encog.mathutil.error.ErrorCalculation
  Reset the error accumulation to zero.
reset() - Method in class org.encog.ml.bayesian.BayesianEvent
  Reset the logic table.
reset() - Method in class org.encog.ml.bayesian.BayesianNetwork
  Reset the weights.
reset(int) - Method in class org.encog.ml.bayesian.BayesianNetwork
  Reset the weights with a seed.
reset() - Method in class org.encog.ml.bayesian.query.BasicQuery
  Reset all event types back to hidden.
reset() - Method in interface org.encog.ml.bayesian.query.BayesianQuery
  Reset all event types back to hidden.
reset() - Method in class org.encog.ml.bayesian.table.BayesianTable
  Reset the truth table to zero.
reset() - Method in interface org.encog.ml.MLResettable
  Reset the weights.
reset(int) - Method in interface org.encog.ml.MLResettable
  Reset the weights with a seed.
reset() - Method in class org.encog.neural.art.ART1
  Reset the weight matrix back to starting values.
reset(int) - Method in class org.encog.neural.art.ART1
  Reset with a specic seed.
reset() - Method in class org.encog.neural.cpn.CPN
  Reset the weights.
reset(int) - Method in class org.encog.neural.cpn.CPN
  Reset the weights with a seed.
reset() - Method in class org.encog.neural.freeform.FreeformNetwork
  Reset the weights.
reset(int) - Method in class org.encog.neural.freeform.FreeformNetwork
  Reset the weights with a seed.
reset() - Method in class org.encog.neural.neat.NEATPopulation
  Create an initial random population.
reset() - Method in class org.encog.neural.networks.BasicNetwork
  Reset the weight matrix and the bias values.
reset(int) - Method in class org.encog.neural.networks.BasicNetwork
  Reset the weight matrix and the bias values.
reset() - Method in class org.encog.neural.rbf.RBFNetwork
  Reset the weights.
reset(int) - Method in class org.encog.neural.rbf.RBFNetwork
  Reset the weights with a seed.
reset() - Method in class org.encog.neural.som.SOM
  Reset the weights.
reset(int) - Method in class org.encog.neural.som.SOM
  Reset the weights with a seed.
reset() - Method in class org.encog.neural.som.training.basic.BestMatchingUnit
  Reset the "worst distance" back to a minimum value.
reset() - Method in class org.encog.neural.thermal.ThermalNetwork
  Reset the weights.
reset(int) - Method in class org.encog.neural.thermal.ThermalNetwork
  Reset the weights with a seed.
reset() - Method in class org.encog.util.SimpleParser
reset() - Method in class org.encog.util.Stopwatch
  Reset the stop watch.
resetConfusion() - Method in class org.encog.neural.pnn.AbstractPNN
  Reset the confusion.
resetEnumeration(boolean, boolean) - Method in class org.encog.ml.bayesian.query.enumerate.EnumerationQuery
  Reset the enumeration events.
resetStatus() - Method in class org.encog.app.analyst.csv.basic.BasicFile
  Reset the reporting stats.
ResetStrategy - Class in org.encog.ml.train.strategy
  The reset strategy will reset the weights if the neural network fails to fall below a specified error by a specified number of cycles.
ResetStrategy(double, int) - Constructor for class org.encog.ml.train.strategy.ResetStrategy
  Construct a reset strategy.
ResilientPropagation - Class in org.encog.neural.networks.training.propagation.resilient
  One problem with the backpropagation algorithm is that the magnitude of the partial derivative is usually too large or too small.
ResilientPropagation(ContainsFlat, MLDataSet) - Constructor for class org.encog.neural.networks.training.propagation.resilient.ResilientPropagation
  Construct an RPROP trainer, allows an OpenCL device to be specified.
ResilientPropagation(ContainsFlat, MLDataSet, double, double) - Constructor for class org.encog.neural.networks.training.propagation.resilient.ResilientPropagation
  Construct a resilient training object, allow the training parameters to be specified.
ResilientPropagationFactory - Class in org.encog.ensemble.training
ResilientPropagationFactory() - Constructor for class org.encog.ensemble.training.ResilientPropagationFactory
resolveEncogClass(String) - Static method in class org.encog.util.obj.ReflectionUtil
  Resolve an encog class using its simple name.
resolveEnum(Field, String) - Static method in class org.encog.util.obj.ReflectionUtil
  Resolve an enumeration.
resolveFilename(String) - Method in class org.encog.app.analyst.script.AnalystScript
  Resolve the specified filename.
resolveValue(BayesianEvent) - Method in class org.encog.ml.bayesian.parse.ParsedEvent
  Resolve the event to an actual value.
ResourceInputStream - Class in org.encog.util.file
ResourceInputStream() - Constructor for class org.encog.util.file.ResourceInputStream
ResourceLoader - Class in org.encog.util
  Used to load resources from the JAR file.
resume(TrainingContinuation) - Method in class org.encog.ml.bayesian.training.TrainBayesian
  Resume training.
resume(TrainingContinuation) - Method in class org.encog.ml.ea.train.basic.TrainEA
  Resume training.
resume(TrainingContinuation) - Method in class org.encog.ml.fitting.gaussian.TrainGaussian
resume(TrainingContinuation) - Method in class org.encog.ml.fitting.linear.TrainLinearRegression
resume(TrainingContinuation) - Method in class org.encog.ml.genetic.MLMethodGeneticAlgorithm
  Resume training.
resume(TrainingContinuation) - Method in class org.encog.ml.hmm.train.bw.BaseBaumWelch
resume(TrainingContinuation) - Method in class org.encog.ml.hmm.train.kmeans.TrainKMeans
resume(TrainingContinuation) - Method in class org.encog.ml.svm.training.SVMSearchTrain
  Resume training.
resume(TrainingContinuation) - Method in class org.encog.ml.svm.training.SVMTrain
  Resume training.
resume(TrainingContinuation) - Method in interface org.encog.ml.train.MLTrain
  Resume training.
resume(TrainingContinuation) - Method in class org.encog.neural.cpn.training.TrainInstar
  Resume training.
resume(TrainingContinuation) - Method in class org.encog.neural.cpn.training.TrainOutstar
  Resume training.
resume(TrainingContinuation) - Method in class org.encog.neural.freeform.training.FreeformBackPropagation
  Resume training.
resume(TrainingContinuation) - Method in class org.encog.neural.freeform.training.FreeformResilientPropagation
  Resume training.
resume(TrainingContinuation) - Method in class org.encog.neural.networks.training.anneal.NeuralSimulatedAnnealing
  Resume training.
resume(TrainingContinuation) - Method in class org.encog.neural.networks.training.cross.CrossValidationKFold
  Resume training.
resume(TrainingContinuation) - Method in class org.encog.neural.networks.training.lma.LevenbergMarquardtTraining
  Resume training.
resume(TrainingContinuation) - Method in class org.encog.neural.networks.training.nm.NelderMeadTraining
  Resume training.
resume(TrainingContinuation) - Method in class org.encog.neural.networks.training.pnn.TrainBasicPNN
  Resume training.
resume(TrainingContinuation) - Method in class org.encog.neural.networks.training.propagation.back.Backpropagation
  Resume training.
resume(TrainingContinuation) - Method in class org.encog.neural.networks.training.propagation.manhattan.ManhattanPropagation
  This training type does not support training continue.
resume(TrainingContinuation) - Method in class org.encog.neural.networks.training.propagation.quick.QuickPropagation
  Resume training.
resume(TrainingContinuation) - Method in class org.encog.neural.networks.training.propagation.resilient.ResilientPropagation
  Resume training.
resume(TrainingContinuation) - Method in class org.encog.neural.networks.training.propagation.scg.ScaledConjugateGradient
  This training type does not support training continue.
resume(TrainingContinuation) - Method in class org.encog.neural.networks.training.pso.NeuralPSO
resume(TrainingContinuation) - Method in class org.encog.neural.networks.training.simple.TrainAdaline
  Resume training.
resume(TrainingContinuation) - Method in class org.encog.neural.rbf.training.SVDTraining
  Resume training.
resume(TrainingContinuation) - Method in class org.encog.neural.som.training.basic.BasicTrainSOM
  Resume training.
resume(TrainingContinuation) - Method in class org.encog.neural.som.training.clustercopy.SOMClusterCopyTraining
  Resume training.
resumeEncoding() - Method in class org.encog.util.text.Base64.OutputStream
  Resumes encoding of the stream.
reverseOfAction(Action) - Static method in class org.encog.ml.world.grid.GridWorld
rewind() - Method in class org.encog.ml.data.versatile.sources.CSVDataSource
  Rewind the source back to the beginning.
rewind() - Method in interface org.encog.ml.data.versatile.sources.VersatileDataSource
  Rewind the source back to the beginning.
rewrite(Genome) - Method in class org.encog.ml.ea.rules.BasicRuleHolder
  Rewrite the specified genome.
rewrite(Genome) - Method in interface org.encog.ml.ea.rules.RewriteRule
  Rewrite the specified genome.
rewrite(Genome) - Method in interface org.encog.ml.ea.rules.RuleHolder
  Rewrite the specified genome.
rewrite(Genome) - Method in class org.encog.ml.prg.train.rewrite.RewriteAlgebraic
  Rewrite the specified genome.
rewrite(Genome) - Method in class org.encog.ml.prg.train.rewrite.RewriteBoolean
  Rewrite the specified genome.
rewrite(Genome) - Method in class org.encog.ml.prg.train.rewrite.RewriteConstants
  Rewrite the specified genome.
RewriteAlgebraic - Class in org.encog.ml.prg.train.rewrite
  This class is used to rewrite algebraic expressions into more simple forms.
RewriteAlgebraic() - Constructor for class org.encog.ml.prg.train.rewrite.RewriteAlgebraic
RewriteBoolean - Class in org.encog.ml.prg.train.rewrite
  Basic rewrite rules for boolean expressions.
RewriteBoolean() - Constructor for class org.encog.ml.prg.train.rewrite.RewriteBoolean
RewriteConstants - Class in org.encog.ml.prg.train.rewrite
  Rewrite any parts of the tree that are constant with a simple constant value.
RewriteConstants() - Constructor for class org.encog.ml.prg.train.rewrite.RewriteConstants
RewriteRule - Interface in org.encog.ml.ea.rules
  Defines a rewrite rule.
RGBDownsample - Class in org.encog.util.downsample
  Downsample an image keeping the RGB colors.
RGBDownsample() - Constructor for class org.encog.util.downsample.RGBDownsample
rho - Variable in class org.encog.mathutil.libsvm.svm_model
rightOfAction(Action) - Static method in class org.encog.ml.world.grid.GridWorld
roll(List<BayesianEvent>, int[]) - Static method in class org.encog.ml.bayesian.query.enumerate.EnumerationQuery
  Roll the enumeration events forward by one.
rollArgs(double[]) - Method in class org.encog.ml.bayesian.BayesianEvent
  Roll the specified arguments through all of the possible values, return false if we are at the final iteration.
rollArgs(BayesianEvent, int[]) - Static method in class org.encog.ml.bayesian.bif.BIFUtil
  Iterate through the event arguments in the BIF way, which is different than Encog's method.
rollIndex() - Method in class org.encog.util.normalize.segregate.index.IndexSegregator
  Used to increase the current index as data is processed.
rollIteration() - Method in class org.encog.neural.networks.training.propagation.Propagation
  Increase the iteration by one.
RowComparator - Class in org.encog.app.analyst.csv.sort
  Used to compare two LoadedRow objects.
RowComparator(SortCSV) - Constructor for class org.encog.app.analyst.csv.sort.RowComparator
  Construct the object.
rowInit() - Method in class org.encog.util.normalize.output.mapped.OutputFieldEncode
  Not needed for this sort of output field.
rowInit() - Method in class org.encog.util.normalize.output.multiplicative.MultiplicativeGroup
  Called to init this group for a new field.
rowInit() - Method in class org.encog.util.normalize.output.multiplicative.OutputFieldMultiplicative
  Not needed for this sort of output field.
rowInit() - Method in class org.encog.util.normalize.output.nominal.OutputEquilateral
  Determine which item's index is the value.
rowInit() - Method in class org.encog.util.normalize.output.nominal.OutputOneOf
  Not needed for this sort of output field.
rowInit() - Method in interface org.encog.util.normalize.output.OutputField
  Init this field for a new row.
rowInit() - Method in class org.encog.util.normalize.output.OutputFieldDirect
  Not needed for this sort of output field.
rowInit() - Method in interface org.encog.util.normalize.output.OutputFieldGroup
  Init the group for a new row.
rowInit() - Method in class org.encog.util.normalize.output.OutputFieldRangeMapped
  Not needed for this sort of output field.
rowInit() - Method in class org.encog.util.normalize.output.zaxis.OutputFieldZAxis
  Not needed for this sort of output field.
rowInit() - Method in class org.encog.util.normalize.output.zaxis.OutputFieldZAxisSynthetic
  Not needed for this sort of output field.
rowInit() - Method in class org.encog.util.normalize.output.zaxis.ZAxisGroup
  Initialize this group for a new row.
ROWS - Static variable in class org.encog.persist.PersistConst
RPROPConst - Class in org.encog.neural.networks.training.propagation.resilient
  Constants used for Resilient Propagation (RPROP) training.
RPROPFactory - Class in org.encog.ml.factory.train
  A factory that creates RPROP trainers.
RPROPFactory() - Constructor for class org.encog.ml.factory.train.RPROPFactory
RPROPJob - Class in org.encog.neural.networks.training.concurrent.jobs
  A training definition for RPROP training.
RPROPJob(BasicNetwork, MLDataSet, boolean) - Constructor for class org.encog.neural.networks.training.concurrent.jobs.RPROPJob
  Construct an RPROP job.
RPROPType - Enum in org.encog.neural.networks.training.propagation.resilient
  Allows the type of RPROP to be defined.
RSS - Class in org.encog.bot.rss
  This is the class that actually parses the RSS and builds a collection of RSSItems.
RSS() - Constructor for class org.encog.bot.rss.RSS
RSSItem - Class in org.encog.bot.rss
  This is the class that holds individual RSS items, or stories, for the RSS class.
RSSItem() - Constructor for class org.encog.bot.rss.RSSItem
RuleHolder - Interface in org.encog.ml.ea.rules
  Holds a set of rules for an EA.
run() - Method in class org.encog.ca.runner.BasicCARunner
run() - Method in class org.encog.mathutil.matrices.hessian.ChainRuleWorker
  The task to perform.
run() - Method in class org.encog.ml.ea.score.parallel.ParallelScoreTask
  Perform the task.
run() - Method in class org.encog.ml.prg.generator.GenerateWorker
run() - Method in class org.encog.neural.networks.training.concurrent.ConcurrentTrainingManager
  Perform the training.
run() - Method in class org.encog.neural.networks.training.concurrent.performers.ConcurrentTrainingPerformerCPU
run() - Method in class org.encog.neural.networks.training.concurrent.performers.PerformerTask
  Run the task.
run() - Method in class org.encog.neural.networks.training.propagation.GradientWorker
  Perform the gradient calculation for the specified index range.
run(int) - Method in class org.encog.neural.networks.training.propagation.GradientWorker
run() - Method in class org.encog.neural.networks.training.pso.NeuralPSOWorker
  Update the particle velocity, position and personal best.
run() - Method in class org.encog.neural.thermal.BoltzmannMachine
  Run the network for all neurons present.
run(int) - Method in class org.encog.neural.thermal.BoltzmannMachine
  Run the network for the specified neuron.
run() - Method in class org.encog.neural.thermal.HopfieldNetwork
  Perform one Hopfield iteration.
run() - Method in interface org.encog.util.concurrency.EngineTask
  The task to perform.
run() - Method in class org.encog.util.concurrency.job.ConcurrentJob
run() - Method in class org.encog.util.concurrency.job.JobUnitWorker
  Run this job unit.
run() - Method in class org.encog.util.concurrency.PoolItem
  Run the task.
RUN_CYCLES - Static variable in class org.encog.neural.thermal.BoltzmannMachine
  The property for run cycles.
runToConverge(int) - Method in class org.encog.ca.runner.BasicCARunner
runToConverge(int, double) - Method in class org.encog.ca.runner.BasicCARunner
runToConverge(int, double) - Method in interface org.encog.ca.runner.CARunner
runToGoal(WorldAgent) - Method in class org.encog.ml.world.basic.BasicWorld
runToGoal(WorldAgent) - Method in interface org.encog.ml.world.World
runUntilStable(int) - Method in class org.encog.neural.thermal.HopfieldNetwork
  Run the network until it becomes stable and does not change from more runs.

## S

safeHashCode(T) - Static method in class org.encog.util.obj.ReflectionUtil
  Generate a hash code for an object.
SamplingQuery - Class in org.encog.ml.bayesian.query.sample
  A sampling query allows probabilistic queries on a Bayesian network.
SamplingQuery(BayesianNetwork) - Constructor for class org.encog.ml.bayesian.query.sample.SamplingQuery
  Construct a sampling query.
satisfiesDesiredOutcome() - Method in class org.encog.ml.bayesian.query.BasicQuery
save(File) - Method in class org.encog.app.analyst.EncogAnalyst
  Save the script to a file.
save(OutputStream) - Method in class org.encog.app.analyst.EncogAnalyst
  Save the script to a stream.
save(String) - Method in class org.encog.app.analyst.EncogAnalyst
  Save the script to a filename.
save(OutputStream) - Method in class org.encog.app.analyst.script.AnalystScript
  Save to the specified output stream.
save(OutputStream) - Method in class org.encog.app.analyst.script.ScriptSave
  Save the script to a stream.
save() - Method in class org.encog.app.generate.EncogCodeGeneration
  Save the contents to a string.
save(File) - Method in class org.encog.app.generate.EncogCodeGeneration
  Save the contents to the specified file.
save(CARunner, File) - Static method in class org.encog.ca.program.generic.GenericIO
save(OutputStream, Object) - Method in class org.encog.ca.universe.basic.PersistBasicUniverse
save(OutputStream, Object) - Method in class org.encog.ml.bayesian.PersistBayes
  Save the object.
save(OutputStream, Object) - Method in class org.encog.ml.hmm.PersistHMM
  Save the object.
save(OutputStream, Object) - Method in class org.encog.ml.prg.PersistPrgPopulation
  Save the object.
save(OutputStream, Object) - Method in class org.encog.ml.svm.PersistSVM
  Save the object.
save(OutputStream, Object) - Method in class org.encog.neural.art.PersistART1
  Save the object.
save(OutputStream, Object) - Method in class org.encog.neural.bam.PersistBAM
  Save the object.
save(OutputStream, Object) - Method in class org.encog.neural.cpn.PersistCPN
  Save the object.
save(OutputStream, Object) - Method in class org.encog.neural.neat.PersistNEATPopulation
save(OutputStream, Object) - Method in class org.encog.neural.networks.PersistBasicNetwork
  Save the object.
save(OutputStream, Object) - Method in class org.encog.neural.networks.training.propagation.PersistTrainingContinuation
  Save the object.
save(OutputStream, Object) - Method in class org.encog.neural.pnn.PersistBasicPNN
  Save the object.
save(OutputStream, Object) - Method in class org.encog.neural.rbf.PersistRBFNetwork
  Save the object.
save(OutputStream, Object) - Method in class org.encog.neural.som.PersistSOM
  Save the object.
save(OutputStream, Object) - Method in class org.encog.neural.thermal.PersistBoltzmann
  Save the object.
save(OutputStream, Object) - Method in class org.encog.neural.thermal.PersistHopfield
  Save the object.
save(OutputStream, Object) - Method in interface org.encog.persist.EncogPersistor
  Save the object.
save(File, Serializable) - Static method in class org.encog.util.obj.SerializeObject
  Save the specified object.
saveCookies(URLConnection) - Method in class org.encog.util.http.CookieUtility
  Once you have loaded cookies with loadCookies, you can call saveCookies to copy these cookies to a new HTTP request.
saveCSV(File, CSVFormat, MLDataSet) - Static method in class org.encog.util.simple.EncogUtility
saveEGB(File, MLDataSet) - Static method in class org.encog.util.simple.EncogUtility
  Save a training set to an EGB file.
saveObject(File, Object) - Static method in class org.encog.persist.EncogDirectoryPersistence
  Save the specified object.
saveObject(OutputStream, Object) - Static method in class org.encog.persist.EncogDirectoryPersistence
  Save the specified object.
saveToDirectory(String, Object) - Method in class org.encog.persist.EncogDirectoryPersistence
  Save a file to the directory that this object refers to.
SCALE_LAMBDA - Static variable in class org.encog.neural.networks.training.lma.LevenbergMarquardtTraining
  The amount to scale the lambda by.
ScaledConjugateGradient - Class in org.encog.neural.networks.training.propagation.scg
  This is a training class that makes use of scaled conjugate gradient methods.
ScaledConjugateGradient(ContainsFlat, MLDataSet) - Constructor for class org.encog.neural.networks.training.propagation.scg.ScaledConjugateGradient
  Construct a training class.
ScaledConjugateGradientFactory - Class in org.encog.ensemble.training
ScaledConjugateGradientFactory() - Constructor for class org.encog.ensemble.training.ScaledConjugateGradientFactory
SCGFactory - Class in org.encog.ml.factory.train
  A factory used to create SCG trainers.
SCGFactory() - Constructor for class org.encog.ml.factory.train.SCGFactory
ScheduleGraph - Class in org.encog.ml.schedule
ScheduleGraph() - Constructor for class org.encog.ml.schedule.ScheduleGraph
ScriptLoad - Class in org.encog.app.analyst.script
  Used to load an Encog Analyst script.
ScriptLoad(AnalystScript) - Constructor for class org.encog.app.analyst.script.ScriptLoad
  Construct a script loader.
ScriptOpcode - Class in org.encog.app.analyst.script.ml
  An opcode, stored in the script.
ScriptOpcode(ProgramExtensionTemplate) - Constructor for class org.encog.app.analyst.script.ml.ScriptOpcode
ScriptOpcode(String, int) - Constructor for class org.encog.app.analyst.script.ml.ScriptOpcode
  Construct the opcode.
ScriptProperties - Class in org.encog.app.analyst.script.prop
  Holds all of the properties for a script.
ScriptProperties() - Constructor for class org.encog.app.analyst.script.prop.ScriptProperties
ScriptSave - Class in org.encog.app.analyst.script
  Used to save an Encog Analyst script.
ScriptSave(AnalystScript) - Constructor for class org.encog.app.analyst.script.ScriptSave
  Construct the script.
sdev(int[]) - Static method in class org.encog.util.EngineArray
search(String) - Method in class org.encog.util.YahooSearch
  Called to extract a list from the specified URL.
SearchGoal - Interface in org.encog.ml.graph.search
SearchK2 - Class in org.encog.ml.bayesian.training.search.k2
  Search for optimal Bayes structure with K2.
SearchK2() - Constructor for class org.encog.ml.bayesian.training.search.k2.SearchK2
SearchNone - Class in org.encog.ml.bayesian.training.search
  Simple class to perform no search for optimal network structure.
SearchNone() - Constructor for class org.encog.ml.bayesian.training.search.SearchNone
SECONDS_INA_DAY - Static variable in class org.encog.util.Format
  Seconds in a day.
SECONDS_INA_HOUR - Static variable in class org.encog.util.Format
  Seconds in an hour.
SECONDS_INA_MINUTE - Static variable in class org.encog.util.Format
  Seconds in a minute.
SECONDS_MINUTE - Static variable in class org.encog.util.time.TimeSpan
  Seconds in a minute.
SecureGenerateRandom - Class in org.encog.mathutil.randomize.generate
  A wrapper over Java's crypto secure random number generator.
SecureGenerateRandom(long) - Constructor for class org.encog.mathutil.randomize.generate.SecureGenerateRandom
  Construct the random number generator.
SecureGenerateRandom() - Constructor for class org.encog.mathutil.randomize.generate.SecureGenerateRandom
  Construct with a time-based seed.
SEGREGATE_CONFIG_SOURCE_FILE - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "SEGREGATE:CONFIG_sourceFile".
SegregateCSV - Class in org.encog.app.analyst.csv.segregate
  This class is used to segregate a CSV file into several sub-files.
SegregateCSV() - Constructor for class org.encog.app.analyst.csv.segregate.SegregateCSV
SegregateTargetPercent - Class in org.encog.app.analyst.csv.segregate
  Specifies a segregation target, and what percent that target should need.
SegregateTargetPercent(File, int) - Constructor for class org.encog.app.analyst.csv.segregate.SegregateTargetPercent
  Construct the object.
SegregationRange - Class in org.encog.util.normalize.segregate
  Specifies a range that might be included or excluded.
SegregationRange() - Constructor for class org.encog.util.normalize.segregate.SegregationRange
  Default constructor for reflection.
SegregationRange(double, double, boolean) - Constructor for class org.encog.util.normalize.segregate.SegregationRange
  Construct a segregation range.
Segregator - Interface in org.encog.util.normalize.segregate
  Segregators are used to exclude certain rows.
SelectFixed - Class in org.encog.neural.neat.training.opp.links
  Select a fixed number of link genes.
SelectFixed(int) - Constructor for class org.encog.neural.neat.training.opp.links.SelectFixed
  Construct a fixed count link selector.
SelectionOperator - Interface in org.encog.ml.ea.opp.selection
  Provides the interface to a selection operator.
selectLinks(Random, NEATGenome) - Method in class org.encog.neural.neat.training.opp.links.SelectFixed
  Select links from the specified genome.
SelectLinks - Interface in org.encog.neural.neat.training.opp.links
  This interface defines ways that NEAT links can be chosen for mutation.
selectLinks(Random, NEATGenome) - Method in interface org.encog.neural.neat.training.opp.links.SelectLinks
  Select links from the specified genome.
selectLinks(Random, NEATGenome) - Method in class org.encog.neural.neat.training.opp.links.SelectProportion
  Select links from the specified genome.
selectMethod(VersatileMLDataSet, String, String, String, String) - Method in class org.encog.ml.model.EncogModel
  Select the method to use.
selectMethod(VersatileMLDataSet, String) - Method in class org.encog.ml.model.EncogModel
  Select the method to create.
SelectProportion - Class in org.encog.neural.neat.training.opp.links
  Select a random proportion of links to mutate.
SelectProportion(double) - Constructor for class org.encog.neural.neat.training.opp.links.SelectProportion
  Select based on proportion.
selectRandomVariable(Random, List<ValueType>) - Method in class org.encog.ml.prg.EncogProgram
  Select a random variable from the defined variables.
selectTraining(VersatileMLDataSet, String, String) - Method in class org.encog.ml.model.EncogModel
  Select the training to use.
selectTrainingType(VersatileMLDataSet) - Method in class org.encog.ml.model.EncogModel
  Select the training type.
SerializeObject - Class in org.encog.util.obj
  Load or save an object using Java serialization.
set(int, double) - Method in class org.encog.ca.universe.basic.BasicContinuousCell
set(int, double[]) - Method in class org.encog.ca.universe.basic.BasicContinuousCell
set(int, double) - Method in class org.encog.ca.universe.basic.BasicDiscreteCell
set(int, double[]) - Method in class org.encog.ca.universe.basic.BasicDiscreteCell
set(int, double[]) - Method in interface org.encog.ca.universe.ContinuousCell
set(int, double) - Method in interface org.encog.ca.universe.UniverseCell
set(int, double[]) - Method in interface org.encog.ca.universe.UniverseCell
set(double) - Method in class org.encog.mathutil.matrices.Matrix
  Set every value in the matrix to the specified value.
set(int, int, double) - Method in class org.encog.mathutil.matrices.Matrix
  Set an individual cell in the matrix to the specified value.
set(Matrix) - Method in class org.encog.mathutil.matrices.Matrix
  Set this matrix's values to that of another matrix.
set(String, Object) - Method in class org.encog.neural.networks.training.propagation.TrainingContinuation
  Set a value to a string.
setA1(double) - Method in class org.encog.neural.art.ART1
  Set the A1 parameter.
setA1(double) - Method in class org.encog.neural.pattern.ART1Pattern
  Set the A1 parameter.
setAction(NormalizationAction) - Method in class org.encog.app.analyst.script.normalize.AnalystField
  Set the theAction for the field.
setAction(Address) - Method in class org.encog.bot.browse.range.Form
  Set the action for the form.
setAction(NormalizationAction) - Method in class org.encog.util.arrayutil.NormalizedField
  Set the action for the field.
setAction(TemporalType) - Method in class org.encog.util.arrayutil.TemporalWindowField
setActivation(ActivationFunction) - Method in class org.encog.neural.flat.FlatLayer
setActivation(int, double) - Method in class org.encog.neural.freeform.basic.BasicFreeformLayer
  Set the activation for the specified index.
setActivation(double) - Method in class org.encog.neural.freeform.basic.BasicFreeformNeuron
  Set the activation, or final output for this neuron.
setActivation(int, double) - Method in interface org.encog.neural.freeform.FreeformLayer
  Set the activation for the specified index.
setActivation(double) - Method in interface org.encog.neural.freeform.FreeformNeuron
  Set the activation, or final output for this neuron.
setActivation(ActivationFunction) - Method in interface org.encog.neural.networks.layers.Layer
  Set the activation function.
setActivationCycles(int) - Method in class org.encog.neural.hyperneat.substrate.Substrate
setActivationCycles(int) - Method in class org.encog.neural.neat.NEATNetwork
  Set the number of activation cycles to use.
setActivationCycles(int) - Method in class org.encog.neural.neat.NEATPopulation
  Set the number of activation cycles to use.
setActivationFunction(ActivationFunction) - Method in class org.encog.neural.freeform.basic.BasicActivationSummation
  Set the activation function.
setActivationFunction(ActivationFunction) - Method in class org.encog.neural.neat.training.NEATNeuronGene
setActivationFunction(ActivationFunction) - Method in class org.encog.neural.pattern.ADALINEPattern
  Not used, ADALINE does not use custom activation functions.
setActivationFunction(ActivationFunction) - Method in class org.encog.neural.pattern.ART1Pattern
  This method will throw an error, you can't set the activation function for an ART1.
setActivationFunction(ActivationFunction) - Method in class org.encog.neural.pattern.BAMPattern
  Not used, the BAM uses a bipoloar activation function.
setActivationFunction(ActivationFunction) - Method in class org.encog.neural.pattern.BoltzmannPattern
  Not used, will throw an exception.
setActivationFunction(ActivationFunction) - Method in class org.encog.neural.pattern.CPNPattern
  This method will throw an error.
setActivationFunction(ActivationFunction) - Method in class org.encog.neural.pattern.ElmanPattern
  Set the activation function to use on each of the layers.
setActivationFunction(ActivationFunction) - Method in class org.encog.neural.pattern.FeedForwardPattern
  Set the activation function to use on each of the layers.
setActivationFunction(ActivationFunction) - Method in class org.encog.neural.pattern.HopfieldPattern
  Set the activation function to use.
setActivationFunction(ActivationFunction) - Method in class org.encog.neural.pattern.JordanPattern
  Set the activation function to use on each of the layers.
setActivationFunction(ActivationFunction) - Method in interface org.encog.neural.pattern.NeuralNetworkPattern
  Set the activation function to be used for all created layers that allow an activation function to be specified.
setActivationFunction(ActivationFunction) - Method in class org.encog.neural.pattern.PNNPattern
  Set the activation function.
setActivationFunction(ActivationFunction) - Method in class org.encog.neural.pattern.RadialBasisPattern
  Set the activation function, this is an error.
setActivationFunction(ActivationFunction) - Method in class org.encog.neural.pattern.SOMPattern
  Set the activation function.
setActivationFunction(ActivationFunction) - Method in class org.encog.neural.pattern.SVMPattern
  Not used, the BAM uses a bipoloar activation function.
setActivationFunctions(ActivationFunction[]) - Method in class org.encog.neural.flat.FlatNetwork
  Set the activation functions.
setActivationOutput(ActivationFunction) - Method in class org.encog.neural.pattern.FeedForwardPattern
setActualHigh(double) - Method in class org.encog.app.analyst.script.normalize.AnalystField
  Set the actual high for the field.
setActualHigh(double) - Method in class org.encog.util.arrayutil.NormalizedField
  Set the actual high for the field.
setActualLow(double) - Method in class org.encog.app.analyst.script.normalize.AnalystField
  Set the actual low for the field.
setActualLow(double) - Method in class org.encog.util.arrayutil.NormalizedField
  Set the actual low for the field.
setAdjustedScore(double) - Method in class org.encog.ml.ea.genome.BasicGenome
  Set the adjusted score.
setAdjustedScore(double) - Method in interface org.encog.ml.ea.genome.Genome
  Set the adjusted score.
setAge(int) - Method in class org.encog.ml.ea.species.BasicSpecies
  Set the age of this species.
setAge(int) - Method in interface org.encog.ml.ea.species.Species
  Set the age of this species.
setAgentPolicy(AgentPolicy) - Method in class org.encog.ml.world.basic.BasicAgent
setAgentPolicy(AgentPolicy) - Method in interface org.encog.ml.world.WorldAgent
setAggregator(EnsembleAggregator) - Method in class org.encog.ensemble.Ensemble
  Sets the ensemble aggregation method
setAllPolicyValues(double) - Method in class org.encog.ml.world.basic.BasicState
setAllPolicyValues(double) - Method in interface org.encog.ml.world.State
setAllRewards(double) - Method in class org.encog.ml.world.basic.BasicWorld
setAllRewards(double) - Method in interface org.encog.ml.world.World
setAnalyzed(boolean) - Method in class org.encog.app.analyst.csv.basic.BasicFile
  Set to true, if the file has been analyzed.
setAnnealCycles(int) - Method in class org.encog.neural.pattern.BoltzmannPattern
  Set the number of annealing cycles per run.
setAnnealCycles(int) - Method in class org.encog.neural.thermal.BoltzmannMachine
setAscending(boolean) - Method in class org.encog.app.analyst.csv.sort.SortedField
setAttribute(String, String) - Method in class org.encog.parse.tags.Tag
  Set a HTML attribute.
setAutoDecay(int, double, double, double, double) - Method in class org.encog.neural.som.training.basic.BasicTrainSOM
  Setup autodecay.
setB1(double) - Method in class org.encog.neural.art.ART1
  Set the B1 parameter.
setB1(double) - Method in class org.encog.neural.pattern.ART1Pattern
  Set the B1 parameter.
setBasePath(String) - Method in class org.encog.app.analyst.script.AnalystScript
  Set the base path.
setBatchSize(int) - Method in class org.encog.neural.freeform.training.FreeformPropagationTraining
  Set the batch size.
setBatchSize(int) - Method in interface org.encog.neural.networks.training.BatchSize
  Set the batch size.
setBatchSize(int) - Method in class org.encog.neural.networks.training.propagation.manhattan.ManhattanPropagation
  Do not allow batch sizes other than 0, not supported.
setBatchSize(int) - Method in class org.encog.neural.networks.training.propagation.Propagation
  Set the batch size.
setBatchSize(int) - Method in class org.encog.neural.networks.training.propagation.quick.QuickPropagation
  Do not allow batch sizes other than 0, not supported.
setBegin(int) - Method in class org.encog.bot.browse.range.DocumentRange
  Set the beginning index.
setBeginningIndex(int) - Method in class org.encog.app.quant.indicators.Indicator
setBeginTraining(int) - Method in class org.encog.neural.flat.FlatNetwork
setBestComparator(GenomeComparator) - Method in class org.encog.ml.ea.train.basic.BasicEA
  Set the comparator.
setBestComparator(GenomeComparator) - Method in interface org.encog.ml.ea.train.EvolutionaryAlgorithm
  Set the comparator that is used to choose the "true best" genome.
setBestConst(double) - Method in class org.encog.ml.svm.training.SVMSearchTrain
setBestGamma(double) - Method in class org.encog.ml.svm.training.SVMSearchTrain
setBestGenome(Genome) - Method in class org.encog.ml.ea.population.BasicPopulation
  Set the best genome.
setBestGenome(Genome) - Method in interface org.encog.ml.ea.population.Population
  Set the best genome.
setBestScore(double) - Method in class org.encog.ml.ea.species.BasicSpecies
  Set the best score for this species.
setBestScore(double) - Method in interface org.encog.ml.ea.species.Species
  Set the best score for this species.
setBias(boolean) - Method in class org.encog.ml.factory.parse.ArchitectureLayer
setBias(boolean) - Method in class org.encog.neural.freeform.basic.BasicFreeformNeuron
  Determine if this neuron is a bias neuron.
setBias(boolean) - Method in interface org.encog.neural.freeform.FreeformNeuron
  Determine if this neuron is a bias neuron.
setBiasActivation(double) - Method in class org.encog.neural.flat.FlatLayer
  Set the bias activation.
setBiasActivation(double[]) - Method in class org.encog.neural.flat.FlatNetwork
  Set the bias activation.
setBiasActivation(double) - Method in class org.encog.neural.networks.BasicNetwork
  Sets the bias activation for every layer that supports bias.
setBiasActivation(double) - Method in interface org.encog.neural.networks.layers.Layer
  Most layer types will default this value to one.
setBirthGeneration(int) - Method in class org.encog.ml.ea.genome.BasicGenome
setBirthGeneration(int) - Method in interface org.encog.ml.ea.genome.Genome
  Set the birth genertion (or iteration).
setBlocked(int, int) - Method in class org.encog.ml.world.grid.GridWorld
setBreakSpaces(boolean) - Method in class org.encog.util.text.BagOfWords
setBufferSize(int) - Method in class org.encog.app.analyst.csv.shuffle.ShuffleCSV
  Set the buffer size.
setC(double) - Method in class org.encog.ml.svm.training.SVMTrain
  Set the constant C.
setC1(double) - Method in class org.encog.neural.art.ART1
  Set the C1 parameter.
setC1(double) - Method in class org.encog.neural.networks.training.pso.NeuralPSO
  Sets the cognition coefficient (c1).
setC1(double) - Method in class org.encog.neural.pattern.ART1Pattern
  Set the C1 parameter.
setC2(double) - Method in class org.encog.neural.networks.training.pso.NeuralPSO
  Set the social coefficient (c2).
setCalculated(boolean) - Method in class org.encog.ml.bayesian.query.sample.EventState
setCalculatedIdealSize(int) - Method in class org.encog.ml.data.versatile.MatrixMLDataSet
setCalculatedInputSize(int) - Method in class org.encog.ml.data.versatile.MatrixMLDataSet
setCatchAll(double) - Method in class org.encog.util.normalize.output.mapped.OutputFieldEncode
  Set the catch all value.
setCenter(double) - Method in class org.encog.engine.network.activation.ActivationStep
  Set the center of this function.
setCenters(double[]) - Method in class org.encog.mathutil.rbf.BasicRBF
  Set the centers.
setCenters(double[]) - Method in interface org.encog.mathutil.rbf.RadialBasisFunction
  Set the centers.
setCentroid(BasicMLDataPairCentroid) - Method in class org.encog.ml.kmeans.BasicCluster
  Set the centroid.
setChampMutation(EvolutionaryOperator) - Method in class org.encog.ml.ea.train.basic.BasicEA
setClass(boolean) - Method in class org.encog.app.analyst.script.DataField
setClassAttribute(String) - Method in class org.encog.bot.browse.range.DocumentRange
setCode(String) - Method in class org.encog.app.analyst.script.AnalystClassItem
setCode(String) - Method in class org.encog.bot.dataunit.CodeDataUnit
  Set the code to the specified string.
setCODEC(GeneticCODEC) - Method in class org.encog.ml.ea.train.basic.BasicEA
  Set the CODEC to use.
setCODEC(GeneticCODEC) - Method in class org.encog.neural.neat.NEATPopulation
setCodeEmbedData(boolean) - Method in class org.encog.app.analyst.wizard.AnalystWizard
setCodeTargetLanguage(TargetLanguage) - Method in class org.encog.app.analyst.wizard.AnalystWizard
setColumnCount(int) - Method in class org.encog.app.analyst.csv.basic.BasicFile
  Set the column count.
setCompareValue(int) - Method in class org.encog.ml.bayesian.query.sample.EventState
setCompatibilityThreshold(double) - Method in class org.encog.ml.ea.species.ThresholdSpeciation
setComplete(boolean) - Method in class org.encog.app.analyst.script.DataField
setComplexityFullPenalty(double) - Method in class org.encog.ml.ea.score.adjust.ComplexityAdjustedScore
setComplexityPenalty(double) - Method in class org.encog.ml.ea.score.adjust.ComplexityAdjustedScore
setComplexityPenaltyThreshold(int) - Method in class org.encog.ml.ea.score.adjust.ComplexityAdjustedScore
setComplexityPentaltyFullThreshold(int) - Method in class org.encog.ml.ea.score.adjust.ComplexityAdjustedScore
setConnectionLimit(double) - Method in class org.encog.neural.flat.FlatNetwork
setConstBegin(double) - Method in class org.encog.ml.svm.training.SVMSearchTrain
setConstDisjoint(double) - Method in class org.encog.neural.neat.training.species.OriginalNEATSpeciation
setConstEnd(double) - Method in class org.encog.ml.svm.training.SVMSearchTrain
setConstExcess(double) - Method in class org.encog.neural.neat.training.species.OriginalNEATSpeciation
setConstMatched(double) - Method in class org.encog.neural.neat.training.species.OriginalNEATSpeciation
setConstStep(double) - Method in class org.encog.ml.svm.training.SVMSearchTrain
setContents(String) - Method in class org.encog.ml.bayesian.BayesianNetwork
  Define the structure of the Bayesian network as a string.
setContextFedBy(FlatLayer) - Method in class org.encog.neural.flat.FlatLayer
  Set the layer that this layer's context is fed by.
setContextSource(FreeformNeuron) - Method in class org.encog.neural.freeform.FreeformContextNeuron
setContextTargetOffset(int[]) - Method in class org.encog.neural.flat.FlatNetwork
  Set the context target offset.
setContextTargetSize(int[]) - Method in class org.encog.neural.flat.FlatNetwork
  Set the context target size.
setCount(int) - Method in class org.encog.ml.data.versatile.columns.ColumnDefinition
setCount(int) - Method in class org.encog.ml.data.versatile.division.DataDivision
setCount(int) - Method in class org.encog.ml.factory.parse.ArchitectureLayer
setCSVFormat(CSVFormat) - Method in class org.encog.util.normalize.DataNormalization
  Set the CSV format to use.
setCurrentBlue(int) - Method in class org.encog.util.downsample.RGBDownsample
  Set the current blue average.
setCurrentFold(int) - Method in class org.encog.ml.data.folded.FoldedDataSet
  Set the current fold.
setCurrentGreen(int) - Method in class org.encog.util.downsample.RGBDownsample
  Set the current green average.
setCurrentID(long) - Method in class org.encog.util.identity.BasicGenerateID
setCurrentID(long) - Method in interface org.encog.util.identity.GenerateID
setCurrentLevel(int) - Method in class org.encog.ml.prg.opp.LevelHolder
setCurrentPage(WebPage) - Method in class org.encog.bot.browse.Browser
  Set the current page.
setCurrentQuantTask(QuantTask) - Method in class org.encog.app.analyst.EncogAnalyst
  Set the current task.
setCurrentRed(int) - Method in class org.encog.util.downsample.RGBDownsample
  Set the current red average.
setCurrentState(State) - Method in class org.encog.ml.world.basic.BasicAgent
setCurrentState(State) - Method in interface org.encog.ml.world.WorldAgent
setCurrentState(BiPolarNeuralData) - Method in class org.encog.neural.thermal.ThermalNetwork
setCurrentState(double[]) - Method in class org.encog.neural.thermal.ThermalNetwork
  Set the current state.
setCurrentValue(double) - Method in class org.encog.util.normalize.input.BasicInputField
  Set the current value of this field.
setCurrentValue(double) - Method in interface org.encog.util.normalize.input.InputField
  Set the current value of this field.
setCycles(int) - Method in class org.encog.ml.anneal.SimulatedAnnealing
setD1(double) - Method in class org.encog.neural.art.ART1
  Set the D1 parameter.
setD1(double) - Method in class org.encog.neural.pattern.ART1Pattern
  Set the D1 parameter.
setData(double[]) - Method in class org.encog.ml.data.basic.BasicMLComplexData
  Set all of the data as an array of doubles.
setData(ComplexNumber[]) - Method in class org.encog.ml.data.basic.BasicMLComplexData
setData(int, double) - Method in class org.encog.ml.data.basic.BasicMLComplexData
  Set the data at the specified index.
setData(int, ComplexNumber) - Method in class org.encog.ml.data.basic.BasicMLComplexData
  Set a data element to a complex number.
setData(double[]) - Method in class org.encog.ml.data.basic.BasicMLData
  Set all of the data as an array of doubles.
setData(int, double) - Method in class org.encog.ml.data.basic.BasicMLData
  Set the specified element.
setData(List<MLDataPair>) - Method in class org.encog.ml.data.basic.BasicMLDataSet
setData(MarketDataType, double) - Method in class org.encog.ml.data.market.loader.LoadedMarketData
  Set financial data for this date.
setData(ComplexNumber[]) - Method in interface org.encog.ml.data.MLComplexData
setData(int, ComplexNumber) - Method in interface org.encog.ml.data.MLComplexData
  Set a data element to a complex number.
setData(double[]) - Method in interface org.encog.ml.data.MLData
  Set all of the data as an array of doubles.
setData(int, double) - Method in interface org.encog.ml.data.MLData
  Set the specified element.
setData(double[]) - Method in class org.encog.ml.data.sparse.SparseMLData
  Set all of the data as an array of doubles.
setData(int, double) - Method in class org.encog.ml.data.sparse.SparseMLData
  Set the specified element.
setData(double[]) - Method in class org.encog.ml.data.specific.BiPolarNeuralData
  Store the array.
setData(int, boolean) - Method in class org.encog.ml.data.specific.BiPolarNeuralData
  Set the specified index of this object as a boolean.
setData(int, double) - Method in class org.encog.ml.data.specific.BiPolarNeuralData
  Set the specified index of this object as a double.
setData(double[]) - Method in class org.encog.ml.data.temporal.TemporalPoint
setData(int, double) - Method in class org.encog.ml.data.temporal.TemporalPoint
  Set the data at the specified index.
setData(double[][]) - Method in class org.encog.ml.data.versatile.MatrixMLDataSet
setDataset(MatrixMLDataSet) - Method in class org.encog.ml.data.versatile.division.DataDivision
setDataSetSize(int) - Method in class org.encog.ensemble.data.factories.EnsembleDataSetFactory
setDataType(ColumnType) - Method in class org.encog.ml.data.versatile.columns.ColumnDefinition
setDate(Date) - Method in class org.encog.bot.rss.RSSItem
  Set the publication date.
setDefaultNormalizedRange(double, double) - Method in class org.encog.app.analyst.script.AnalystScript
setDescription(String) - Method in class org.encog.bot.rss.RSSItem
  Get the description.
setDesiredSetSize(int) - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
setDimension(int, int) - Method in class org.encog.mathutil.dimension.MultiDimension
  Set a single dimension.
setDuration(double) - Method in class org.encog.ml.schedule.ActionNode
setEarliestStartTime(double) - Method in class org.encog.ml.schedule.ActionNode
setEliteRate(double) - Method in class org.encog.ml.ea.train.basic.BasicEA
setEmbedData(boolean) - Method in class org.encog.app.generate.EncogCodeGeneration
  Set if data should be embeded.
setEnabled(boolean) - Method in class org.encog.neural.neat.training.NEATLinkGene
setEnd(int) - Method in class org.encog.bot.browse.range.DocumentRange
  Set the ending index.
setEndingIndex(int) - Method in class org.encog.app.quant.indicators.Indicator
setEndTraining(int) - Method in class org.encog.neural.flat.FlatNetwork
setError(double) - Method in class org.encog.ml.ea.train.basic.TrainEA
  Not used.
setError(double) - Method in class org.encog.ml.hmm.train.bw.BaseBaumWelch
setError(double) - Method in class org.encog.ml.hmm.train.kmeans.TrainKMeans
setError(double) - Method in class org.encog.ml.train.BasicTraining
setError(double) - Method in interface org.encog.ml.train.MLTrain
setError(double) - Method in class org.encog.neural.freeform.training.FreeformPropagationTraining
setError(Throwable) - Method in class org.encog.neural.networks.training.concurrent.jobs.TrainingJob
setError(double) - Method in class org.encog.neural.pnn.AbstractPNN
setError(double) - Method in class org.encog.platformspecific.j2se.TrainingDialog
  Set the current error.
setErrorFunction(ErrorFunction) - Method in class org.encog.neural.networks.training.propagation.Propagation
setEventType(EventType) - Method in class org.encog.ml.bayesian.query.sample.EventState
setEventValue(BayesianEvent, boolean) - Method in class org.encog.ml.bayesian.query.BasicQuery
  Set the event value to a boolean.
setEventValue(BayesianEvent, int) - Method in class org.encog.ml.bayesian.query.BasicQuery
  Set the event value as a class item.
setEventValue(BayesianEvent, boolean) - Method in interface org.encog.ml.bayesian.query.BayesianQuery
  Set the event value to a boolean.
setEventValue(BayesianEvent, int) - Method in interface org.encog.ml.bayesian.query.BayesianQuery
  Set the event value as a class item.
setEvidenceSegements(int) - Method in class org.encog.app.analyst.wizard.AnalystWizard
setExclude(int) - Method in class org.encog.neural.pnn.AbstractPNN
setExpectInputHeaders(boolean) - Method in class org.encog.app.analyst.csv.basic.BasicFile
  Set the flag to determine if we are expecting input headers.
setExtraData(String, Object) - Method in class org.encog.ml.prg.EncogProgram
  Set extra data that might be needed by extensions.
setF1Count(int) - Method in class org.encog.neural.art.ART1
  Set the F1 count.
setF1Count(int) - Method in class org.encog.neural.bam.BAM
  Set the F1 neuron count.
setF1Neurons(int) - Method in class org.encog.neural.pattern.BAMPattern
  Set the F1 neurons.
setF2Count(int) - Method in class org.encog.neural.art.ART1
  Set the F2 count.
setF2Count(int) - Method in class org.encog.neural.bam.BAM
  Set the F2 neuron count.
setF2Neurons(int) - Method in class org.encog.neural.pattern.BAMPattern
  Set the output neurons.
setFetchSize(int) - Method in class org.encog.ml.data.buffer.codec.SQLCODEC
setFieldNumber(int) - Method in class org.encog.app.analyst.csv.filter.ExcludedField
setFields(DataField[]) - Method in class org.encog.app.analyst.script.AnalystScript
setFieldValue(String) - Method in class org.encog.app.analyst.csv.filter.ExcludedField
setFile(String) - Method in class org.encog.app.analyst.script.segregate.AnalystSegregateTarget
setFilename(File) - Method in class org.encog.app.analyst.csv.segregate.SegregateTargetPercent
setFilename(String, String) - Method in class org.encog.app.analyst.script.prop.ScriptProperties
  Set a filename.
setFixFlatSopt(boolean) - Method in class org.encog.neural.freeform.training.FreeformPropagationTraining
  Set if we should fix the flat spot problem.
setFlat(FlatNetwork) - Method in class org.encog.neural.networks.structure.NeuralStructure
  Set the flat network.
setFold(int) - Method in class org.encog.ml.svm.training.SVMSearchTrain
setFold(int) - Method in class org.encog.ml.svm.training.SVMTrain
  Set the number of folds.
setForceWinner(boolean) - Method in class org.encog.neural.som.training.basic.BasicTrainSOM
  Determine if a winner is to be forced.
setForDefinition(String) - Method in class org.encog.ml.bayesian.bif.BIFDefinition
setFormat(CSVFormat) - Method in class org.encog.ml.data.versatile.NormalizationHelper
setFrom(MLData) - Method in class org.encog.neural.networks.NeuralDataMapping
  Set the from data.
setFromNeuron(int) - Method in class org.encog.neural.neat.NEATLink
  Set the from neuron.
setFromNeuronID(int) - Method in class org.encog.neural.neat.training.NEATLinkGene
  Set the from neuron id.
setGamma(double) - Method in class org.encog.ml.svm.training.SVMTrain
  Set the gamma.
setGammaBegin(double) - Method in class org.encog.ml.svm.training.SVMSearchTrain
setGammaEnd(double) - Method in class org.encog.ml.svm.training.SVMSearchTrain
setGammaStep(double) - Method in class org.encog.ml.svm.training.SVMSearchTrain
setGenerator(PrgGenerator) - Method in class org.encog.ml.prg.opp.SubtreeMutation
  Set the random tree generator to use.
setGenetic(MLMethodGeneticAlgorithm.MLMethodGeneticAlgorithmHelper) - Method in class org.encog.ml.genetic.MLMethodGeneticAlgorithm
  Set the genetic helper class.
setGenomeFactory(GenomeFactory) - Method in class org.encog.ml.ea.population.BasicPopulation
  Set the gnome factory.
setGenomeFactory(GenomeFactory) - Method in interface org.encog.ml.ea.population.Population
  Set the gnome factory.
setGensNoImprovement(int) - Method in class org.encog.ml.ea.species.BasicSpecies
  Set the number of generations with no improvement.
setGensNoImprovement(int) - Method in interface org.encog.ml.ea.species.Species
  Set the number of generations with no improvement.
setGoal(AnalystGoal) - Method in class org.encog.app.analyst.wizard.AnalystWizard
  Set the goal.
setHasContext(boolean) - Method in class org.encog.neural.flat.FlatNetwork
  Set the hasContext property.
setHasRelaxed(boolean) - Method in class org.encog.neural.neat.NEATNetwork
  Set true, if the network has relaxed and values no longer changing.
setHigh(double) - Method in class org.encog.engine.network.activation.ActivationRamp
  Set the high value.
setHigh(double) - Method in class org.encog.engine.network.activation.ActivationStep
  Set the high of this function.
setHigh(int) - Method in class org.encog.mathutil.IntRange
  Set the high end of the range.
setHigh(double) - Method in class org.encog.ml.data.versatile.columns.ColumnDefinition
setHighSequence(int) - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
setId(long) - Method in class org.encog.neural.neat.training.NEATBaseGene
  Set the id for this gene.
setIdAttribute(String) - Method in class org.encog.bot.browse.range.DocumentRange
setIdeal(boolean) - Method in class org.encog.util.normalize.output.BasicOutputField
  Set if this is an ideal field.
setIdeal(boolean) - Method in interface org.encog.util.normalize.output.OutputField
  Set whether this field is part of the ideal output for a network.
setIdealArray(double[]) - Method in class org.encog.ml.data.basic.BasicMLDataPair
  Set the ideal data, the desired output.
setIdealArray(double[]) - Method in interface org.encog.ml.data.MLDataPair
  Set the ideal data, the desired output.
setIgnore(boolean) - Method in class org.encog.app.analyst.csv.basic.BaseCachedColumn
  Set if this column is to be ignored?
setIgnoreCase(boolean) - Method in class org.encog.util.text.BagOfWords
setImage(Image) - Method in class org.encog.platformspecific.j2se.data.image.ImageMLData
setIncludeTargetField(boolean) - Method in class org.encog.app.analyst.wizard.AnalystWizard
setIndentLevel(int) - Method in class org.encog.app.generate.generators.AbstractTemplateGenerator
setIndex(int) - Method in class org.encog.app.analyst.csv.basic.FileData
  Set the index of this field.
setIndex(int) - Method in class org.encog.app.analyst.csv.sort.SortedField
setIndex(int) - Method in class org.encog.ml.data.temporal.TemporalDataDescription
setIndex(int) - Method in class org.encog.ml.data.versatile.columns.ColumnDefinition
setIndex(int) - Method in class org.encog.util.arrayutil.ClassItem
  Set the index of the class.
setInertiaWeight(double) - Method in class org.encog.neural.networks.training.pso.NeuralPSO
  Set the inertia weight (w)
setInitialConnectionDensity(double) - Method in class org.encog.neural.neat.NEATPopulation
setInitialPopulation(BasicNetwork[]) - Method in class org.encog.neural.networks.training.pso.NeuralPSO
  Keep a reference to the passed population of networks.
setInitialUpdate(double) - Method in class org.encog.neural.networks.training.concurrent.jobs.RPROPJob
setInitNetwork(BayesianInit) - Method in class org.encog.ml.bayesian.training.TrainBayesian
  Set the network init method.
setInnovationId(long) - Method in class org.encog.neural.neat.training.NEATBaseGene
  Set the innovation id for this gene.
setInnovationID(long) - Method in class org.encog.neural.neat.training.NEATInnovation
  Set the innovation id.
setInnovations(NEATInnovationList) - Method in class org.encog.neural.neat.NEATPopulation
  Set the innovation list to use.
setInput(boolean) - Method in class org.encog.app.analyst.csv.basic.BaseCachedColumn
  Set if this column is used for input.
setInputArray(double[]) - Method in class org.encog.ml.data.basic.BasicMLDataPair
  Set the input.
setInputArray(double[]) - Method in interface org.encog.ml.data.MLDataPair
  Set the input.
setInputColumns(List<ColumnDefinition>) - Method in class org.encog.ml.data.versatile.NormalizationHelper
setInputCount(int) - Method in class org.encog.ml.svm.SVM
  Set the input count.
setInputCount(int) - Method in class org.encog.neural.flat.FlatNetwork
  Set the input count.
setInputCount(int) - Method in class org.encog.neural.neat.NEATPopulation
setInputCount(int) - Method in class org.encog.neural.neat.training.NEATGenome
setInputData(MLDataSet) - Method in class org.encog.ensemble.data.factories.EnsembleDataSetFactory
setInputFilename(File) - Method in class org.encog.app.analyst.csv.basic.BasicFile
  Set the input filename.
setInputFormat(CSVFormat) - Method in class org.encog.app.analyst.csv.basic.BasicFile
  Set the input format.
setInputHeadings(String[]) - Method in class org.encog.app.analyst.csv.basic.BasicFile
  Set the input headings.
setInputNeurons(int) - Method in class org.encog.neural.pattern.ADALINEPattern
  Set the input neurons.
setInputNeurons(int) - Method in class org.encog.neural.pattern.ART1Pattern
  Set the input neuron (F1 layer) count.
setInputNeurons(int) - Method in class org.encog.neural.pattern.BAMPattern
  Set the number of input neurons.
setInputNeurons(int) - Method in class org.encog.neural.pattern.BoltzmannPattern
  Set the number of input neurons.
setInputNeurons(int) - Method in class org.encog.neural.pattern.CPNPattern
  Set the number of input neurons.
setInputNeurons(int) - Method in class org.encog.neural.pattern.ElmanPattern
  Set the number of input neurons.
setInputNeurons(int) - Method in class org.encog.neural.pattern.FeedForwardPattern
  Set the number of input neurons.
setInputNeurons(int) - Method in class org.encog.neural.pattern.HopfieldPattern
  Set the number of input neurons, this must match the output neurons.
setInputNeurons(int) - Method in class org.encog.neural.pattern.JordanPattern
  Set the number of input neurons.
setInputNeurons(int) - Method in interface org.encog.neural.pattern.NeuralNetworkPattern
  Set the number of input neurons.
setInputNeurons(int) - Method in class org.encog.neural.pattern.PNNPattern
  Set the input neuron count.
setInputNeurons(int) - Method in class org.encog.neural.pattern.RadialBasisPattern
  Set the number of input neurons.
setInputNeurons(int) - Method in class org.encog.neural.pattern.SOMPattern
  Set the input neuron count.
setInputNeurons(int) - Method in class org.encog.neural.pattern.SVMPattern
  Set the number of input neurons.
setInputSummation(InputSummation) - Method in class org.encog.neural.freeform.basic.BasicFreeformNeuron
  Set the input summation method.
setInputSummation(InputSummation) - Method in interface org.encog.neural.freeform.FreeformNeuron
  Set the input summation method.
setInputWindow(int) - Method in class org.encog.util.arrayutil.TemporalWindowArray
setInputWindowSize(int) - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
setInstarCount(int) - Method in class org.encog.neural.pattern.CPNPattern
  Set the number of neurons in the instar layer.
setInteger(boolean) - Method in class org.encog.app.analyst.script.DataField
setIteration(int) - Method in class org.encog.ml.ea.train.basic.BasicEA
  Set the current iteration number.
setIteration(int) - Method in class org.encog.ml.hmm.train.bw.BaseBaumWelch
setIteration(int) - Method in class org.encog.ml.hmm.train.kmeans.TrainKMeans
setIteration(int) - Method in class org.encog.ml.train.BasicTraining
setIteration(int) - Method in interface org.encog.ml.train.MLTrain
  Set the current training iteration.
setIteration(int) - Method in class org.encog.neural.freeform.training.FreeformPropagationTraining
  Set the current training iteration.
setIterations(int) - Method in class org.encog.platformspecific.j2se.TrainingDialog
  Set the number of iterations.
setJobUnit(Object) - Method in class org.encog.util.concurrency.job.JobUnitContext
  Set the job unit.
setKernel(PNNKernelType) - Method in class org.encog.neural.pattern.PNNPattern
  Set the kernel type.
setKernelType(KernelType) - Method in class org.encog.neural.pattern.SVMPattern
  Set the kernel type.
setKfold(int) - Method in class org.encog.app.analyst.commands.Cmd
setL(double) - Method in class org.encog.neural.art.ART1
  Set the L parameter.
setL(double) - Method in class org.encog.neural.pattern.ART1Pattern
  Set the L parameter.
setLagWindowSize(int) - Method in class org.encog.app.analyst.wizard.AnalystWizard
setLagWindowSize(int) - Method in class org.encog.ml.data.versatile.MatrixMLDataSet
setLaplaceClasses(int) - Method in class org.encog.util.text.BagOfWords
setLargeArrays(List<double[]>) - Method in class org.encog.persist.EncogFileSection
setLastValue(String) - Method in class org.encog.util.arrayutil.TemporalWindowField
setLatestStartTime(double) - Method in class org.encog.ml.schedule.ActionNode
setLayerBiasActivation(int, double) - Method in class org.encog.neural.networks.BasicNetwork
  Set the bias activation for the specified layer.
setLayerContextCount(int[]) - Method in class org.encog.neural.flat.FlatNetwork
  Set the layer context count.
setLayerCounts(int[]) - Method in class org.encog.neural.flat.FlatNetwork
  Set the layer counts.
setLayerFeedCounts(int[]) - Method in class org.encog.neural.flat.FlatNetwork
setLayerIndex(int[]) - Method in class org.encog.neural.flat.FlatNetwork
  Set the layer index.
setLayerOutput(double[]) - Method in class org.encog.neural.flat.FlatNetwork
  Set the layer output.
setLayerSums(double[]) - Method in class org.encog.neural.flat.FlatNetwork
  Set the layer sums.
setLeader(Genome) - Method in class org.encog.ml.ea.species.BasicSpecies
  Set the leader of this species.
setLeader(Genome) - Method in interface org.encog.ml.ea.species.Species
  Set the leader of this species.
setLeadWindowSize(int) - Method in class org.encog.app.analyst.wizard.AnalystWizard
setLeadWindowSize(int) - Method in class org.encog.ml.data.versatile.MatrixMLDataSet
setLearningRate(double) - Method in class org.encog.ensemble.training.ManhattanPropagationFactory
setLearningRate(double) - Method in class org.encog.neural.cpn.training.TrainInstar
  Set the learning rate.
setLearningRate(double) - Method in class org.encog.neural.cpn.training.TrainOutstar
  Set the learning rate.
setLearningRate(double) - Method in class org.encog.neural.networks.training.concurrent.jobs.BPROPJob
setLearningRate(double) - Method in interface org.encog.neural.networks.training.LearningRate
  Set the learning rate.
setLearningRate(double) - Method in class org.encog.neural.networks.training.propagation.back.Backpropagation
  Set the learning rate, this is value is essentially a percent.
setLearningRate(double) - Method in class org.encog.neural.networks.training.propagation.manhattan.ManhattanPropagation
  Set the learning rate.
setLearningRate(double) - Method in class org.encog.neural.networks.training.propagation.quick.QuickPropagation
  Set the learning rate, this is value is essentially a percent.
setLearningRate(double) - Method in class org.encog.neural.networks.training.simple.TrainAdaline
  Set the learning rate.
setLearningRate(double) - Method in class org.encog.neural.som.training.basic.BasicTrainSOM
  Set the learning rate.
setLen(int) - Method in class org.encog.ml.hmm.alog.KullbackLeiblerDistanceCalculator
setLink(String) - Method in class org.encog.bot.rss.RSSItem
  Set the hyperlink.
setLoadToMemory(boolean) - Method in class org.encog.neural.networks.training.concurrent.jobs.TrainingJob
setLocation(int) - Method in class org.encog.ml.data.buffer.EncogEGBFile
  Set the current location to the specified row.
setLogLevel(int) - Method in class org.encog.plugin.system.SystemLoggingPlugin
  Set the logging level.
setLow(double) - Method in class org.encog.engine.network.activation.ActivationRamp
  Set the low value.
setLow(double) - Method in class org.encog.engine.network.activation.ActivationStep
  Set the low of this function.
setLow(int) - Method in class org.encog.mathutil.IntRange
  Set the low end of the range.
setLow(double) - Method in class org.encog.ml.data.versatile.columns.ColumnDefinition
setLowSequence(int) - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
setManager(ConcurrentTrainingManager) - Method in interface org.encog.neural.networks.training.concurrent.performers.ConcurrentTrainingPerformer
  Set the manager.
setManager(ConcurrentTrainingManager) - Method in class org.encog.neural.networks.training.concurrent.performers.ConcurrentTrainingPerformerCPU
  Set the manager.
setMatrix(int, int, int, int, Matrix) - Method in class org.encog.mathutil.matrices.Matrix
  Set a submatrix.
setMatrix(int, int, int[], Matrix) - Method in class org.encog.mathutil.matrices.Matrix
  Set a submatrix.
setMatrix(int[], int, int, Matrix) - Method in class org.encog.mathutil.matrices.Matrix
  Set a submatrix.
setMatrix(int[], int[], Matrix) - Method in class org.encog.mathutil.matrices.Matrix
  Set a submatrix.
setMax(double) - Method in class org.encog.app.analyst.script.DataField
setMax(double) - Method in class org.encog.util.normalize.input.BasicInputField
  Set the current max value.
setMax(double) - Method in interface org.encog.util.normalize.input.InputField
  Set the current max value.
setMaxConst(double) - Method in class org.encog.ml.prg.generator.AbstractPrgGenerator
setMaxError(double) - Method in class org.encog.app.analyst.wizard.AnalystWizard
setMaxError(double) - Method in class org.encog.neural.networks.training.pnn.TrainBasicPNN
setMaxGenerationErrors(int) - Method in class org.encog.ml.prg.generator.AbstractPrgGenerator
setMaxGenerationErrors(int) - Method in interface org.encog.ml.prg.generator.PrgGenerator
  Set the maximum errors to allow during generation.
setMaxIteration(int) - Method in class org.encog.app.analyst.EncogAnalyst
  Set the max iterations.
setMaxNumberOfSpecies(int) - Method in class org.encog.ml.ea.species.ThresholdSpeciation
setMaxOperationErrors(int) - Method in class org.encog.ml.ea.train.basic.BasicEA
setMaxPosition(double) - Method in class org.encog.neural.networks.training.pso.NeuralPSO
  Set the boundary of the search space (Xmax)
setMaxStep(double) - Method in class org.encog.neural.networks.training.concurrent.jobs.RPROPJob
setMaxTries(int) - Method in class org.encog.ml.ea.train.basic.BasicEA
setMaxVelocity(double) - Method in class org.encog.neural.networks.training.pso.NeuralPSO
  Sets the maximum velocity.
setMaxWeight(double) - Method in class org.encog.neural.hyperneat.HyperNEATCODEC
setMean(double) - Method in class org.encog.app.analyst.script.DataField
setMean(double) - Method in class org.encog.ml.data.versatile.columns.ColumnDefinition
setMethod(MLMethod) - Method in class org.encog.app.analyst.EncogAnalyst
setMethod(Form.Method) - Method in class org.encog.bot.browse.range.Form
  Set the method to send the form.
setMethod(MLMethod) - Method in class org.encog.ml.data.cross.DataFold
setMethodType(WizardMethodType) - Method in class org.encog.app.analyst.wizard.AnalystWizard
setMin(double) - Method in class org.encog.app.analyst.script.DataField
setMin(double) - Method in class org.encog.util.normalize.input.BasicInputField
  Set the current min value.
setMin(double) - Method in interface org.encog.util.normalize.input.InputField
  Set the current min value.
setMinConst(double) - Method in class org.encog.ml.prg.generator.AbstractPrgGenerator
setMinImprovement(double) - Method in class org.encog.neural.networks.training.pnn.TrainBasicPNN
setMinWeight(double) - Method in class org.encog.neural.hyperneat.HyperNEATCODEC
setMissing(HandleMissingValues) - Method in class org.encog.app.analyst.wizard.AnalystWizard
setMissingValues(HandleMissingValues) - Method in class org.encog.app.analyst.script.normalize.AnalystNormalize
setMl(MLMethod) - Method in interface org.encog.ensemble.EnsembleML
  Set the MLMethod to run
setMl(MLMethod) - Method in class org.encog.ensemble.GenericEnsembleML
setMode(ErrorCalculationMode) - Static method in class org.encog.mathutil.error.ErrorCalculation
  Set the error calculation mode, this is static and therefore global to all Enocg training.
setModel(svm_model) - Method in class org.encog.ml.svm.SVM
  Set the model.
setMomentum(double) - Method in class org.encog.neural.networks.training.concurrent.jobs.BPROPJob
setMomentum(double) - Method in interface org.encog.neural.networks.training.Momentum
  Set the momentum.
setMomentum(double) - Method in class org.encog.neural.networks.training.propagation.back.Backpropagation
  Set the momentum for training.
setNaiveBayes(boolean) - Method in class org.encog.app.analyst.wizard.AnalystWizard
setName(String) - Method in class org.encog.app.analyst.csv.basic.BaseCachedColumn
  Set the name of this column.
setName(String) - Method in class org.encog.app.analyst.script.AnalystClassItem
setName(String) - Method in class org.encog.app.analyst.script.DataField
setName(String) - Method in class org.encog.app.analyst.script.normalize.AnalystField
  Set the name of the field.
setName(String) - Method in class org.encog.app.analyst.script.task.AnalystTask
setName(String) - Method in class org.encog.bot.browse.range.FormElement
  Set the name of this form element.
setName(String) - Method in class org.encog.ml.bayesian.bif.BIFVariable
setName(String) - Method in class org.encog.ml.data.versatile.columns.ColumnDefinition
setName(String) - Method in class org.encog.ml.ea.population.BasicPopulation
  Set the name.
setName(String) - Method in class org.encog.ml.factory.parse.ArchitectureLayer
setName(String) - Method in class org.encog.parse.tags.Tag
  Set the tag name.
setName(String) - Method in class org.encog.util.arrayutil.ClassItem
  Set the name of the class.
setName(String) - Method in class org.encog.util.arrayutil.NormalizedField
  Set the name of the field.
setName(String) - Method in class org.encog.util.arrayutil.TemporalWindowField
setNEATActivationFunction(ActivationFunction) - Method in class org.encog.neural.neat.NEATPopulation
  Specify to use a single activation function.
setNetwork(BasicNetwork) - Method in class org.encog.neural.networks.layers.BasicLayer
  Set the network for this layer.
setNetwork(BasicNetwork) - Method in interface org.encog.neural.networks.layers.Layer
  Set the network that this layer belongs to.
setNetwork(BasicNetwork) - Method in class org.encog.neural.networks.training.concurrent.jobs.TrainingJob
setNetworkDepth(int) - Method in class org.encog.neural.neat.training.NEATGenome
setNetworkState(int, double[]) - Method in class org.encog.neural.networks.training.pso.NeuralPSO
  Sets the state of the networks in the swarm
setNeuronCount(int) - Method in class org.encog.neural.thermal.ThermalNetwork
  Set the neuron count.
setNeuronID(long) - Method in class org.encog.neural.neat.training.NEATInnovation
  Set the neuron id.
setNeuronType(NEATNeuronType) - Method in class org.encog.neural.neat.training.NEATNeuronGene
  Set the neuron type.
setNodeCount(int) - Method in class org.encog.ml.tree.traverse.tasks.TaskCountNodes
  Set the current node count.
setNodeFound(ProgramNode) - Method in class org.encog.ml.prg.opp.LevelHolder
setNormalizationEnabled(boolean) - Method in class org.encog.ml.data.auto.AutoFloatDataSet
setNormalizedHigh(double) - Method in class org.encog.app.analyst.script.normalize.AnalystField
  Set the normalized high for the field.
setNormalizedHigh(double) - Method in class org.encog.util.arrayutil.NormalizeArray
  Set the high value to normalize to.
setNormalizedHigh(double) - Method in class org.encog.util.arrayutil.NormalizedField
  Set the normalized high for the field.
setNormalizedLow(double) - Method in class org.encog.app.analyst.script.normalize.AnalystField
  Set the normalized low for the field.
setNormalizedLow(double) - Method in class org.encog.util.arrayutil.NormalizeArray
  Set the low value to normalize to.
setNormalizedLow(double) - Method in class org.encog.util.arrayutil.NormalizedField
  Set the normalized low for the field.
setNormalizedMax(float) - Method in class org.encog.ml.data.auto.AutoFloatDataSet
setNormalizedMin(float) - Method in class org.encog.ml.data.auto.AutoFloatDataSet
setNormHelper(NormalizationHelper) - Method in class org.encog.ml.data.versatile.VersatileMLDataSet
setNormStrategy(NormalizationStrategy) - Method in class org.encog.ml.data.versatile.NormalizationHelper
setNoWinner(int) - Method in class org.encog.neural.art.ART1
  Set the i parameter.
setNumberRemaining(int) - Method in class org.encog.app.analyst.csv.segregate.SegregateTargetPercent
setNumGensAllowedNoImprovement(int) - Method in class org.encog.ml.ea.species.ThresholdSpeciation
setNumSigmas(int) - Method in class org.encog.neural.networks.training.pnn.TrainBasicPNN
setOffset(int) - Method in class org.encog.util.normalize.input.InputFieldEncogCollection
setOffspringCount(int) - Method in class org.encog.ml.ea.species.BasicSpecies
  Set the offspring count.
setOffspringCount(int) - Method in interface org.encog.ml.ea.species.Species
  Set the offspring count.
setOptions(List<String>) - Method in class org.encog.ml.bayesian.bif.BIFVariable
setOutmodel(PNNOutputMode) - Method in class org.encog.neural.pattern.PNNPattern
  Set the output model.
setOutput(boolean) - Method in class org.encog.app.analyst.csv.basic.BaseCachedColumn
  Set if this column is used for output.
setOutput(boolean) - Method in class org.encog.app.analyst.script.normalize.AnalystField
  Set if this is an output field.
setOutputColumns(List<ColumnDefinition>) - Method in class org.encog.ml.data.versatile.NormalizationHelper
setOutputCount(int) - Method in class org.encog.neural.flat.FlatNetwork
  Set the output count.
setOutputCount(int) - Method in class org.encog.neural.neat.NEATPopulation
setOutputCount(int) - Method in class org.encog.neural.neat.training.NEATGenome
setOutputEpsilon(double) - Method in class org.encog.neural.networks.training.propagation.quick.QuickPropagation
setOutputNeuron(int) - Method in class org.encog.mathutil.matrices.hessian.ChainRuleWorker
setOutputNeurons(int) - Method in class org.encog.neural.pattern.ADALINEPattern
  Set the output neurons.
setOutputNeurons(int) - Method in class org.encog.neural.pattern.ART1Pattern
  Set the output neuron (F2 layer) count.
setOutputNeurons(int) - Method in class org.encog.neural.pattern.BAMPattern
  Set the number of output neurons.
setOutputNeurons(int) - Method in class org.encog.neural.pattern.BoltzmannPattern
  Set the number of output neurons.
setOutputNeurons(int) - Method in class org.encog.neural.pattern.CPNPattern
  Set the number of output neurons.
setOutputNeurons(int) - Method in class org.encog.neural.pattern.ElmanPattern
  Set the number of output neurons.
setOutputNeurons(int) - Method in class org.encog.neural.pattern.FeedForwardPattern
  Set the number of output neurons.
setOutputNeurons(int) - Method in class org.encog.neural.pattern.HopfieldPattern
  Set the number of output neurons, should not be used with a hopfield neural network, because the number of input neurons defines the number of output neurons.
setOutputNeurons(int) - Method in class org.encog.neural.pattern.JordanPattern
  Set the number of output neurons.
setOutputNeurons(int) - Method in interface org.encog.neural.pattern.NeuralNetworkPattern
  Set the number of output neurons.
setOutputNeurons(int) - Method in class org.encog.neural.pattern.PNNPattern
  Set the output neuron count.
setOutputNeurons(int) - Method in class org.encog.neural.pattern.RadialBasisPattern
  Set the number of output neurons.
setOutputNeurons(int) - Method in class org.encog.neural.pattern.SOMPattern
  Set the output neuron count.
setOutputNeurons(int) - Method in class org.encog.neural.pattern.SVMPattern
  Set the number of output neurons.
setOutstarCount(int) - Method in class org.encog.neural.pattern.CPNPattern
  Set the number of neurons in the outstar level, this level is mapped to the "output" level.
setOwner(Form) - Method in class org.encog.bot.browse.range.FormElement
  Set the owner of this form element.
setOwner(BufferedMLDataSet) - Method in class org.encog.ml.data.buffer.BufferedMLDataSet
  Set the owner of this dataset.
setOwner(FoldedDataSet) - Method in class org.encog.ml.data.folded.FoldedDataSet
setOwner(NormalizationHelper) - Method in class org.encog.ml.data.versatile.columns.ColumnDefinition
  Set the owner of this class.
setOwner(ConcurrentJob) - Method in class org.encog.util.concurrency.job.JobUnitContext
  Set the job owner.
setPair(MLDataPair) - Method in class org.encog.util.normalize.input.MLDataFieldHolder
  Set the pair.
setParam(int, double) - Method in class org.encog.engine.network.activation.ActivationBiPolar
  Set one of the params for this activation function.
setParam(int, double) - Method in class org.encog.engine.network.activation.ActivationBipolarSteepenedSigmoid
  Set one of the params for this activation function.
setParam(int, double) - Method in class org.encog.engine.network.activation.ActivationClippedLinear
  Set one of the params for this activation function.
setParam(int, double) - Method in class org.encog.engine.network.activation.ActivationCompetitive
  Set one of the params for this activation function.
setParam(int, double) - Method in class org.encog.engine.network.activation.ActivationElliott
  Set one of the params for this activation function.
setParam(int, double) - Method in class org.encog.engine.network.activation.ActivationElliottSymmetric
  Set one of the params for this activation function.
setParam(int, double) - Method in interface org.encog.engine.network.activation.ActivationFunction
  Set one of the params for this activation function.
setParam(int, double) - Method in class org.encog.engine.network.activation.ActivationGaussian
  Set one of the params for this activation function.
setParam(int, double) - Method in class org.encog.engine.network.activation.ActivationLinear
  Set one of the params for this activation function.
setParam(int, double) - Method in class org.encog.engine.network.activation.ActivationLOG
  Set one of the params for this activation function.
setParam(int, double) - Method in class org.encog.engine.network.activation.ActivationRamp
  Set one of the params for this activation function.
setParam(int, double) - Method in class org.encog.engine.network.activation.ActivationSigmoid
  Set one of the params for this activation function.
setParam(int, double) - Method in class org.encog.engine.network.activation.ActivationSIN
  Set one of the params for this activation function.
setParam(int, double) - Method in class org.encog.engine.network.activation.ActivationSoftMax
  Set one of the params for this activation function.
setParam(int, double) - Method in class org.encog.engine.network.activation.ActivationSteepenedSigmoid
  Set one of the params for this activation function.
setParam(int, double) - Method in class org.encog.engine.network.activation.ActivationStep
  Set one of the params for this activation function.
setParam(int, double) - Method in class org.encog.engine.network.activation.ActivationTANH
  Set one of the params for this activation function.
setParameters(Collection<Integer>, ActivationFunction) - Method in class org.encog.ensemble.ml.mlp.factory.MultiLayerPerceptronFactory
setParams(double, double) - Method in class org.encog.neural.som.training.basic.BasicTrainSOM
  Set the learning rate and radius.
setParent(DocumentRange) - Method in class org.encog.bot.browse.range.DocumentRange
  Set the parent.
setPassThrough(boolean) - Method in class org.encog.ml.prg.extension.ParamTemplate
setPeak(double) - Method in class org.encog.mathutil.rbf.BasicRBF
  Set the peak.
setPeak(double) - Method in interface org.encog.mathutil.rbf.RadialBasisFunction
  Set the peak.
setPercent(int) - Method in class org.encog.app.analyst.csv.segregate.SegregateTargetPercent
setPercent(int) - Method in class org.encog.app.analyst.script.segregate.AnalystSegregateTarget
setPercision(int) - Method in class org.encog.app.quant.loader.yahoo.YahooDownload
setPercision(int) - Method in class org.encog.app.quant.ninja.NinjaStreamWriter
  Set the percision to use.
setPhenotype(MLEncodable) - Method in class org.encog.ml.genetic.MLMethodGenome
setPhysics(double[]) - Method in class org.encog.ca.program.generic.GenericCA
setPi(int, double) - Method in class org.encog.ml.hmm.HiddenMarkovModel
setPi(double[]) - Method in class org.encog.ml.hmm.HiddenMarkovModel
setPixelMap(int[]) - Method in class org.encog.util.downsample.RGBDownsample
  Set the pixel map.
setPointsPerSide(int) - Method in class org.encog.mathutil.matrices.hessian.HessianFD
  This specifies the number of points per side, default is 5.
setPolicyValue(State, Action, double) - Method in class org.encog.ml.world.basic.BasicWorld
setPolicyValue(State, Action, double) - Method in interface org.encog.ml.world.World
setPolicyValueSize(int) - Method in class org.encog.ml.world.basic.BasicState
setPolicyValueSize(int) - Method in interface org.encog.ml.world.State
setPopulation(Population) - Method in class org.encog.ml.ea.genome.BasicGenome
setPopulation(Population) - Method in interface org.encog.ml.ea.genome.Genome
  Set the population that this genome belongs to.
setPopulation(Population) - Method in class org.encog.ml.ea.species.BasicSpecies
  Set the population.
setPopulation(Population) - Method in interface org.encog.ml.ea.species.Species
  Set the population.
setPopulation(Population) - Method in class org.encog.ml.ea.train.basic.BasicEA
  Set the population.
setPopulation(Population) - Method in interface org.encog.ml.ea.train.EvolutionaryAlgorithm
  Set the population.
setPopulation(NEATPopulation) - Method in class org.encog.neural.neat.training.NEATInnovationList
  Set the population that this genome belongs to.
setPopulationSize(int) - Method in class org.encog.ml.ea.population.BasicPopulation
  Set the max population size.
setPopulationSize(int) - Method in interface org.encog.ml.ea.population.Population
  Set the max population size.
setPopulationSize(int) - Method in class org.encog.neural.networks.training.pso.NeuralPSO
  Set the swarm size.
setPrecision(int) - Method in class org.encog.app.analyst.csv.basic.BasicFile
  Set the precision to use.
setPredictWindow(int) - Method in class org.encog.util.arrayutil.TemporalWindowArray
setPredictWindowSize(int) - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
setPreprocess(boolean) - Method in class org.encog.app.analyst.wizard.AnalystWizard
setProbability(double) - Method in class org.encog.ml.bayesian.table.TableLine
  Set the probability of this line.
setProbability(ActionProbability) - Method in class org.encog.ml.world.basic.BasicWorld
setProbability(ActionProbability) - Method in interface org.encog.ml.world.World
setProbabilityLeft(double) - Method in class org.encog.ml.world.grid.probability.GridStochasticProbability
setProbabilityReverse(double) - Method in class org.encog.ml.world.grid.probability.GridStochasticProbability
setProbabilityRight(double) - Method in class org.encog.ml.world.grid.probability.GridStochasticProbability
setProbabilitySame(double) - Method in class org.encog.ml.world.grid.probability.GridStochasticProbability
setProbabilitySuccess(double) - Method in class org.encog.ml.world.grid.probability.GridStochasticProbability
setProduceOutputHeaders(boolean) - Method in class org.encog.app.analyst.csv.basic.BasicFile
setProgram(EncogGenProgram) - Method in class org.encog.app.generate.program.EncogTreeNode
  Set the program.
setProperty(String, AnalystFileFormat) - Method in class org.encog.app.analyst.script.prop.ScriptProperties
  Set the property to a format.
setProperty(String, AnalystGoal) - Method in class org.encog.app.analyst.script.prop.ScriptProperties
  Set a property.
setProperty(String, boolean) - Method in class org.encog.app.analyst.script.prop.ScriptProperties
  Set a property as a boolean.
setProperty(String, double) - Method in class org.encog.app.analyst.script.prop.ScriptProperties
  Set a property as a double.
setProperty(String, File) - Method in class org.encog.app.analyst.script.prop.ScriptProperties
  Get a property as an object.
setProperty(String, int) - Method in class org.encog.app.analyst.script.prop.ScriptProperties
  Set a property to an int.
setProperty(String, String) - Method in class org.encog.app.analyst.script.prop.ScriptProperties
  Set the property to the specified value.
setProperty(String, URL) - Method in class org.encog.app.analyst.script.prop.ScriptProperties
  Get a property as an object.
setProperty(String, TargetLanguage) - Method in class org.encog.app.analyst.script.prop.ScriptProperties
  Set a property as a target language.
setProperty(String, double) - Method in class org.encog.ml.BasicML
  Set a property as a double.
setProperty(String, long) - Method in class org.encog.ml.BasicML
  Set a property as a long.
setProperty(String, String) - Method in class org.encog.ml.BasicML
  Set a property as a double.
setProperty(String, double) - Method in interface org.encog.ml.MLProperties
  Set a property as a double.
setProperty(String, long) - Method in interface org.encog.ml.MLProperties
  Set a property as a long.
setProperty(String, String) - Method in interface org.encog.ml.MLProperties
  Set a property as a double.
setProperty(String, Object) - Method in class org.encog.ml.world.basic.BasicState
setProperty(String, Object) - Method in interface org.encog.ml.world.State
setQuery(BayesianQuery) - Method in class org.encog.ml.bayesian.BayesianNetwork
setRadius(double) - Method in class org.encog.neural.som.training.basic.neighborhood.NeighborhoodBubble
  Set the radius.
setRadius(double) - Method in interface org.encog.neural.som.training.basic.neighborhood.NeighborhoodFunction
  Set the radius.
setRadius(double) - Method in class org.encog.neural.som.training.basic.neighborhood.NeighborhoodRBF
  Set the radius.
setRadius(double) - Method in class org.encog.neural.som.training.basic.neighborhood.NeighborhoodRBF1D
  Set the radius.
setRadius(double) - Method in class org.encog.neural.som.training.basic.neighborhood.NeighborhoodSingle
  Set the radius.
setRandom(GenerateRandom) - Method in class org.encog.mathutil.randomize.BasicRandomizer
setRandom(GenerateRandom) - Method in interface org.encog.mathutil.randomize.Randomizer
  Explicitly set the Random source
setRandomFactory(RandomFactory) - Method in class org.encog.Encog
setRandomFactory(RandomFactory) - Method in class org.encog.ml.prg.generator.AbstractPrgGenerator
setRandomNumberFactory(RandomFactory) - Method in class org.encog.ml.ea.train.basic.BasicEA
setRandomNumberFactory(RandomFactory) - Method in class org.encog.neural.neat.NEATPopulation
setRange(NormalizeRange) - Method in class org.encog.app.analyst.wizard.AnalystWizard
setRBF(RadialBasisFunction[]) - Method in class org.encog.neural.flat.FlatNetworkRBF
  Set the RBF's used.
setRBF(RBFEnum) - Method in class org.encog.neural.pattern.RadialBasisPattern
setRBF(RadialBasisFunction[]) - Method in class org.encog.neural.rbf.RBFNetwork
  Set the RBF's.
setRBFCentersAndWidths(double[][], double[], RBFEnum) - Method in class org.encog.neural.rbf.RBFNetwork
  Array containing center position.
setRBFCentersAndWidthsEqualSpacing(double, double, RBFEnum, double, boolean) - Method in class org.encog.neural.rbf.RBFNetwork
  Equally spaces all hidden neurons within the n dimensional variable space.
setRBFFunction(int, RBFEnum, double[], double) - Method in class org.encog.neural.rbf.RBFNetwork
  Set an RBF function.
setReal(boolean) - Method in class org.encog.app.analyst.script.DataField
setRecordCount(int) - Method in class org.encog.app.analyst.csv.basic.BasicFile
  Set the record count.
setRecurrent(boolean) - Method in class org.encog.neural.freeform.basic.BasicFreeformConnection
  Determine if this is a recurrent connecton.
setRecurrent(boolean) - Method in interface org.encog.neural.freeform.FreeformConnection
  Determine if this is a recurrent connecton.
setRegression(boolean) - Method in class org.encog.neural.pattern.SVMPattern
  Set if regression is used.
setRelaxationThreshold(double) - Method in class org.encog.neural.neat.NEATNetwork
  The amount of change allowed before the network is considered to have relaxed.
setReport(StatusReportable) - Method in class org.encog.app.analyst.csv.basic.BasicFile
  Set the status reporting object.
setReport(StatusReportable) - Method in class org.encog.ml.model.EncogModel
setReport(StatusReportable) - Method in class org.encog.neural.networks.training.concurrent.ConcurrentTrainingManager
  Setup the object to report status to.
setReport(StatusReportable) - Method in class org.encog.util.concurrency.job.ConcurrentJob
setReport(StatusReportable) - Method in class org.encog.util.normalize.DataNormalization
  Set the object that this one is reporting to.
setReportInterval(int) - Method in class org.encog.app.analyst.csv.basic.BasicFile
  Set the reporting interval.
setResourceName(String) - Method in class org.encog.util.normalize.input.InputFieldEncogCollection
setResourceName(String) - Method in class org.encog.util.normalize.target.NormalizationStorageEncogCollection
setResult(BasicMLDataSet) - Method in class org.encog.ml.data.buffer.MemoryDataLoader
  Set the resulting dataset.
setResult(VariableMapping) - Method in class org.encog.ml.prg.EncogProgramContext
setReward(double) - Method in class org.encog.ml.world.basic.BasicState
setReward(double) - Method in interface org.encog.ml.world.State
setRnd(GenerateRandom) - Method in class org.encog.ml.data.cross.KFoldCrossvalidation
setRootNode(ProgramNode) - Method in class org.encog.ml.prg.EncogProgram
  Set the root node for the program.
setRounds(int) - Method in class org.encog.ml.ea.opp.selection.TournamentSelection
  Set the number of rounds.
setRPROPType(RPROPType) - Method in class org.encog.neural.networks.training.propagation.resilient.ResilientPropagation
  Set the type of RPROP to use.
setRules(RuleHolder) - Method in class org.encog.ml.ea.train.basic.BasicEA
setRules(RuleHolder) - Method in interface org.encog.ml.ea.train.EvolutionaryAlgorithm
  Set the rules holder to use.
setRunCycles(int) - Method in class org.encog.neural.pattern.BoltzmannPattern
  Set the number of cycles per run.
setRunCycles(int) - Method in class org.encog.neural.thermal.BoltzmannMachine
setSamples(BasicMLDataSet) - Method in class org.encog.neural.pnn.BasicPNN
setSampleSize(int) - Method in class org.encog.ml.bayesian.query.sample.SamplingQuery
setScore(double) - Method in class org.encog.ml.anneal.SimulatedAnnealing
  Set the score.
setScore(double) - Method in class org.encog.ml.data.cross.DataFold
setScore(double) - Method in class org.encog.ml.ea.genome.BasicGenome
  Set the score.
setScore(double) - Method in interface org.encog.ml.ea.genome.Genome
  Set the score.
setScore(CalculateScore) - Method in class org.encog.ml.prg.generator.AbstractPrgGenerator
setScript(AnalystScript) - Method in class org.encog.app.analyst.csv.basic.BasicFile
setScript(AnalystScript) - Method in class org.encog.app.analyst.script.preprocess.AnalystPreprocess
setSd(double) - Method in class org.encog.ml.data.versatile.columns.ColumnDefinition
setSeed(long) - Method in class org.encog.mathutil.randomize.generate.MersenneTwisterGenerateRandom
setSeed(int[]) - Method in class org.encog.mathutil.randomize.generate.MersenneTwisterGenerateRandom
setSegregateTargets(AnalystSegregateTarget[]) - Method in class org.encog.app.analyst.script.segregate.AnalystSegregate
setSelection(SelectionOperator) - Method in class org.encog.ml.ea.train.basic.BasicEA
  Set the selection operator.
setSelection(SelectionOperator) - Method in interface org.encog.ml.ea.train.EvolutionaryAlgorithm
  Set the selection operator.
setSelectionComparator(GenomeComparator) - Method in class org.encog.ml.ea.train.basic.BasicEA
  Set the comparator that is used to choose the "best" genome for selection, as opposed to the "true best".
setSelectionComparator(GenomeComparator) - Method in interface org.encog.ml.ea.train.EvolutionaryAlgorithm
  Set the comparator that is used to choose the "best" genome for selection, as opposed to the "true best".
setSeparateClass(boolean) - Method in class org.encog.neural.pnn.AbstractPNN
setSequence(int) - Method in class org.encog.ml.data.temporal.TemporalPoint
setSequenceCount(int) - Method in class org.encog.ml.hmm.alog.KullbackLeiblerDistanceCalculator
setSequenceGrandularity(TimeUnit) - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
setShouldIgnoreExceptions(boolean) - Method in class org.encog.ml.ea.train.basic.BasicEA
  Determines if genetic operator exceptions should be ignored.
setShouldIgnoreExceptions(boolean) - Method in interface org.encog.ml.ea.train.EvolutionaryAlgorithm
  Determines if genetic operator exceptions should be ignored.
setShouldMinimize(boolean) - Method in class org.encog.ml.anneal.SimulatedAnnealing
  Should the score be minimized.
setShrink(double) - Method in class org.encog.neural.networks.training.propagation.quick.QuickPropagation
setSigmaHigh(double) - Method in class org.encog.neural.networks.training.pnn.TrainBasicPNN
setSigmaLow(double) - Method in class org.encog.neural.networks.training.pnn.TrainBasicPNN
setSignificance(ArrayList<Double>) - Method in class org.encog.ensemble.data.factories.EnsembleDataSetFactory
setSignificance(double) - Method in class org.encog.ml.data.basic.BasicMLDataPair
  Set the significance, 1.0 is neutral.
setSignificance(double) - Method in interface org.encog.ml.data.MLDataPair
  Set the significance, 1.0 is neutral.
setSingleThreaded(boolean) - Method in class org.encog.neural.networks.training.concurrent.ConcurrentTrainingManager
setSortGenomes(SortGenomesForSpecies) - Method in class org.encog.ml.ea.species.ThresholdSpeciation
setSortType(SortType) - Method in class org.encog.app.analyst.csv.sort.SortedField
setSource(String) - Method in class org.encog.app.analyst.script.DataField
setSource(WebPage) - Method in class org.encog.bot.browse.range.DocumentRange
  Set the source web page.
setSource(FreeformNeuron) - Method in class org.encog.neural.freeform.basic.BasicFreeformConnection
  Set the source neuron.
setSource(FreeformNeuron) - Method in interface org.encog.neural.freeform.FreeformConnection
  Set the source neuron.
setSourceColumns(List<ColumnDefinition>) - Method in class org.encog.ml.data.versatile.NormalizationHelper
setSourceFile(File, boolean, CSVFormat) - Method in class org.encog.app.analyst.csv.normalize.AnalystNormalizeCSV
  Set the source file.
setSourceFile(File, boolean, CSVFormat) - Method in class org.encog.app.analyst.csv.normalize.AnalystNormalizeToEGB
  Set the source file.
setSourceUniverse(Universe) - Method in interface org.encog.ca.program.CAProgram
setSourceUniverse(Universe) - Method in class org.encog.ca.program.conway.ConwayProgram
setSourceUniverse(Universe) - Method in class org.encog.ca.program.elementary.ElementaryCA
setSourceUniverse(Universe) - Method in class org.encog.ca.program.generic.GenericCA
setSpeciation(Speciation) - Method in class org.encog.ml.ea.train.basic.BasicEA
  Set the speciation method.
setSpeciation(Speciation) - Method in interface org.encog.ml.ea.train.EvolutionaryAlgorithm
  Set the speciation method.
setSpecies(Species) - Method in class org.encog.ml.ea.genome.BasicGenome
setSpecies(Species) - Method in interface org.encog.ml.ea.genome.Genome
  Set the species for this genome.
setStandardDeviation(double) - Method in class org.encog.app.analyst.script.DataField
setStartingPoint(Date) - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
setStartTemperature(double) - Method in class org.encog.ml.anneal.SimulatedAnnealing
setStateDistribution(int, StateDistribution) - Method in class org.encog.ml.hmm.HiddenMarkovModel
setStatus(StatusReportable) - Method in class org.encog.ml.data.buffer.BinaryDataLoader
  Set the object that status is reported to.
setStatus(StatusReportable) - Method in class org.encog.ml.data.buffer.MemoryDataLoader
  Set the object that status will be reported to.
setStopTemperature(double) - Method in class org.encog.ml.anneal.SimulatedAnnealing
setStrategy(NormalizationStrategy) - Method in class org.encog.ml.data.versatile.NormalizationHelper
  Set the normalization strategy.
setSubstrate(Substrate) - Method in class org.encog.neural.neat.NEATPopulation
setSurvivalRate(double) - Method in class org.encog.neural.neat.NEATPopulation
  Set the survival rate, this is the percent of the population allowed to mate.
setSVMType(SVMType) - Method in class org.encog.neural.pattern.SVMPattern
  Set the SVM type.
setTable(String) - Method in class org.encog.ml.bayesian.bif.BIFDefinition
setTag(Tag) - Method in class org.encog.bot.dataunit.TagDataUnit
  Set the tag that this data unit is based on.
setTarget(Address) - Method in class org.encog.bot.browse.range.Link
  Set the target of this link.
setTarget(FreeformNeuron) - Method in class org.encog.neural.freeform.basic.BasicFreeformConnection
  Set the target neuron.
setTarget(FreeformNeuron) - Method in interface org.encog.neural.freeform.FreeformConnection
  Set the target neuron.
setTarget(NormalizationStorage) - Method in class org.encog.util.normalize.DataNormalization
  Determines where the normalized data will be sent.
setTargetField(AnalystField) - Method in class org.encog.app.analyst.wizard.AnalystWizard
  Set the target field.
setTargetField(String) - Method in class org.encog.app.analyst.wizard.AnalystWizard
setTargetUniverse(Universe) - Method in interface org.encog.ca.program.CAProgram
setTargetUniverse(Universe) - Method in class org.encog.ca.program.conway.ConwayProgram
setTargetUniverse(Universe) - Method in class org.encog.ca.program.elementary.ElementaryCA
setTargetUniverse(Universe) - Method in class org.encog.ca.program.generic.GenericCA
setTaskBalance(boolean) - Method in class org.encog.app.analyst.wizard.AnalystWizard
setTaskCluster(boolean) - Method in class org.encog.app.analyst.wizard.AnalystWizard
setTaskNormalize(boolean) - Method in class org.encog.app.analyst.wizard.AnalystWizard
setTaskNumber(int) - Method in class org.encog.util.concurrency.job.JobUnitContext
  Set the task number.
setTaskRandomize(boolean) - Method in class org.encog.app.analyst.wizard.AnalystWizard
setTaskSegregate(boolean) - Method in class org.encog.app.analyst.wizard.AnalystWizard
setTemperature(double) - Method in class org.encog.ml.anneal.SimulatedAnnealing
setTemperature(double) - Method in class org.encog.neural.pattern.BoltzmannPattern
  Set the temperature.
setTemperature(double) - Method in class org.encog.neural.thermal.BoltzmannMachine
  Set the network temperature.
setTempTraining(int, double) - Method in class org.encog.neural.freeform.basic.BasicFreeformConnection
  Set a temp training value.
setTempTraining(int, double) - Method in class org.encog.neural.freeform.basic.BasicFreeformNeuron
  Set a temp training value.
setTempTraining(int, double) - Method in interface org.encog.neural.freeform.TempTrainingData
  Set a temp training value.
setText(String) - Method in class org.encog.bot.dataunit.TextDataUnit
  Set the text for this data unit.
setThreadCount(int) - Method in class org.encog.mathutil.matrices.hessian.HessianCR
  Set the number of threads.
setThreadCount(int) - Method in class org.encog.ml.ea.score.parallel.ParallelScore
setThreadCount(int) - Method in class org.encog.ml.ea.train.basic.BasicEA
  Set the number of threads to use.
setThreadCount(int) - Method in class org.encog.ml.genetic.MLMethodGeneticAlgorithm
setThreadCount(int) - Method in class org.encog.ml.prg.generator.AbstractPrgGenerator
setThreadCount(int) - Method in class org.encog.neural.networks.training.lma.LevenbergMarquardtTraining
setThreadCount(int) - Method in class org.encog.neural.networks.training.propagation.Propagation
  Set the number of threads.
setThreadCount(int) - Method in class org.encog.util.concurrency.EngineConcurrency
  Set the number of threads to use.
setThreadCount(int) - Method in class org.encog.util.concurrency.job.ConcurrentJob
  Set the number of threads to use.
setThreadCount(int) - Method in interface org.encog.util.concurrency.MultiThreadable
  Set the number of threads to use.
setThreshold(double[]) - Method in class org.encog.neural.thermal.BoltzmannMachine
  Set the thresholds.
setThresholdHigh(double) - Method in class org.encog.engine.network.activation.ActivationRamp
  Set the threshold high.
setThresholdLow(double) - Method in class org.encog.engine.network.activation.ActivationRamp
  Set the threshold low.
setTime(int) - Method in class org.encog.platformspecific.j2se.TrainingDialog
  Set the time.
setTimeSlice(int) - Method in class org.encog.app.analyst.script.normalize.AnalystField
setTitle(DocumentRange) - Method in class org.encog.bot.browse.WebPage
  Set the title of this document.
setTitle(String) - Method in class org.encog.bot.rss.RSSItem
  Set the item title.
setTo(MLData) - Method in class org.encog.neural.networks.NeuralDataMapping
  Set the target data.
setToNeuron(int) - Method in class org.encog.neural.neat.NEATLink
  Set the target neuron.
setToNeuronID(int) - Method in class org.encog.neural.neat.training.NEATLinkGene
  Set the to neuron id.
setTotalWords(int) - Method in class org.encog.util.text.BagOfWords
setTrain(MLTrain) - Method in class org.encog.neural.networks.training.concurrent.jobs.TrainingJob
setTrained(boolean) - Method in class org.encog.neural.pnn.AbstractPNN
setTrainer(EvolutionaryAlgorithm) - Method in class org.encog.ml.ea.opp.selection.TournamentSelection
  Set the trainer.
setTraining(MLTrain) - Method in interface org.encog.ensemble.EnsembleML
  Set the training for this member
setTraining(MLTrain) - Method in class org.encog.ensemble.GenericEnsembleML
setTraining(MLDataSet) - Method in class org.encog.ml.train.BasicTraining
  Set the training object that this strategy is working with.
setTraining(MLDataSet) - Method in class org.encog.neural.networks.training.concurrent.jobs.TrainingJob
setTrainingData(MLDataSet) - Method in class org.encog.ensemble.Ensemble
  Set which training data to base the training on
setTrainingDataFactory(EnsembleDataSetFactory) - Method in class org.encog.ensemble.Ensemble
  Set which dataSetFactory to use to create the correct tranining sets
setTrainingDataset(MatrixMLDataSet) - Method in class org.encog.ml.model.EncogModel
setTrainingMethod(EnsembleTrainFactory) - Method in class org.encog.ensemble.Ensemble
  Set the training method to use for this ensemble
setTrainingSet(EnsembleDataSet) - Method in class org.encog.ensemble.aggregator.Averaging
setTrainingSet(EnsembleDataSet) - Method in class org.encog.ensemble.aggregator.MajorityVoting
setTrainingSet(EnsembleDataSet) - Method in class org.encog.ensemble.aggregator.MetaClassifier
setTrainingSet(EnsembleDataSet) - Method in interface org.encog.ensemble.EnsembleAggregator
setTrainingSet(EnsembleDataSet) - Method in interface org.encog.ensemble.EnsembleML
  Set the dataset for this member
setTrainingSet(EnsembleDataSet) - Method in class org.encog.ensemble.GenericEnsembleML
setTrainingType(String) - Method in class org.encog.neural.networks.training.propagation.TrainingContinuation
setTransitionProbability(int, int, double) - Method in class org.encog.ml.hmm.HiddenMarkovModel
setTransitionProbability(double[][]) - Method in class org.encog.ml.hmm.HiddenMarkovModel
setType(String) - Method in class org.encog.bot.browse.range.Input
  Set the type of this input element.
setType(Tag.Type) - Method in class org.encog.parse.tags.Tag
  Set the tag type.
setTypes(List<ValueType>) - Method in class org.encog.ml.prg.opp.LevelHolder
SETUP_CONFIG_ALLOWED_CLASSES - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: = "SETUP:CONFIG_allowedClasses".
SETUP_CONFIG_CSV_FORMAT - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "SETUP:CONFIG_csvFormat".
SETUP_CONFIG_INPUT_HEADERS - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "SETUP:CONFIG_inputHeaders".
SETUP_CONFIG_MAX_CLASS_COUNT - Static variable in class org.encog.app.analyst.script.prop.ScriptProperties
  Property for: "SETUP:CONFIG_maxClassCount".
setUsedDefault(boolean) - Method in class org.encog.ml.factory.parse.ArchitectureLayer
setUsedForNetworkInput(boolean) - Method in class org.encog.util.normalize.input.BasicInputField
  This is needed so that the buildForNetworkInput method of the normalization class knows how many input fields to expect.
setValidationDataset(MatrixMLDataSet) - Method in class org.encog.ml.model.EncogModel
setValidationMode(boolean) - Method in class org.encog.ml.ea.train.basic.BasicEA
  Determine if the genomes should be validated.
setValidationMode(boolean) - Method in interface org.encog.ml.ea.train.EvolutionaryAlgorithm
  Determine if the genomes should be validated.
setValue(String) - Method in class org.encog.bot.browse.range.FormElement
  Set the value for this form element.
setValue(String) - Method in class org.encog.ml.bayesian.parse.ParsedEvent
  Set the value for this event.
setValue(int) - Method in class org.encog.ml.bayesian.query.sample.EventState
setVariable(int, double) - Method in class org.encog.ml.prg.EncogProgramVariables
  Set a variable floating point value by index.
setVariable(String, double) - Method in class org.encog.ml.prg.EncogProgramVariables
  Set a floating point variable value by name.
setVariable(String, ExpressionValue) - Method in class org.encog.ml.prg.EncogProgramVariables
  Set a variable value by name.
setVigilance(double) - Method in class org.encog.neural.art.ART1
  Set the vigilance.
setVigilance(double) - Method in class org.encog.neural.pattern.ART1Pattern
  Set the vigilance for the network.
setVisited(int) - Method in class org.encog.ml.world.basic.BasicState
setVisited(int) - Method in interface org.encog.ml.world.State
setWeight(double) - Method in class org.encog.neural.freeform.basic.BasicFreeformConnection
  Set the weight.
setWeight(double) - Method in interface org.encog.neural.freeform.FreeformConnection
  Set the weight.
setWeight(double) - Method in class org.encog.neural.neat.NEATLink
  Set the weight of this link.
setWeight(double) - Method in class org.encog.neural.neat.training.NEATLinkGene
  Set the weight of this connection.
setWeight(int, int, int, double) - Method in class org.encog.neural.networks.BasicNetwork
  Set the weight between the two specified neurons.
setWeight(int, int, double) - Method in class org.encog.neural.thermal.ThermalNetwork
  Set the weight.
setWeightIndex(int[]) - Method in class org.encog.neural.flat.FlatNetwork
  Set the weight index.
setWeights(double[]) - Method in class org.encog.neural.flat.FlatNetwork
  Set the weights.
setWeights(Matrix) - Method in class org.encog.neural.som.SOM
setWeights(double[]) - Method in class org.encog.neural.thermal.ThermalNetwork
  Set the weight array.
setWeightsF1toF2(Matrix) - Method in class org.encog.neural.art.ART1
  Set the f1 to f2 matrix.
setWeightsF1toF2(Matrix) - Method in class org.encog.neural.bam.BAM
  Set the weights for F1 to F2.
setWeightsF2toF1(Matrix) - Method in class org.encog.neural.art.ART1
  Set the f2 to f1 matrix.
setWeightsF2toF1(Matrix) - Method in class org.encog.neural.bam.BAM
  Set the weights for F2 to F1.
setWidth(double) - Method in class org.encog.mathutil.rbf.BasicRBF
  Set the width.
setWidth(double) - Method in interface org.encog.mathutil.rbf.RadialBasisFunction
  Set the width.
setWorld(World) - Method in class org.encog.ml.world.basic.BasicAgent
setWorld(World) - Method in interface org.encog.ml.world.WorldAgent
setX(int) - Method in class org.encog.mathutil.IntPair
setX1(double) - Method in class org.encog.neural.networks.training.pnn.GlobalMinimumSearch
setX2(double) - Method in class org.encog.neural.networks.training.pnn.GlobalMinimumSearch
setX3(double) - Method in class org.encog.neural.networks.training.pnn.GlobalMinimumSearch
setY(int) - Method in class org.encog.mathutil.IntPair
setY1(double) - Method in class org.encog.neural.networks.training.pnn.GlobalMinimumSearch
setY2(double) - Method in class org.encog.neural.networks.training.pnn.GlobalMinimumSearch
setY3(double) - Method in class org.encog.neural.networks.training.pnn.GlobalMinimumSearch
setZoom(int) - Method in class org.encog.ca.visualize.basic.BasicCAVisualizer
setZoom(int) - Method in interface org.encog.ca.visualize.CAVisualizer
shift() - Method in class org.encog.util.datastruct.WindowInt
shouldContinue() - Method in class org.encog.neural.networks.training.concurrent.jobs.TrainingJob
shouldInclude() - Method in class org.encog.util.normalize.segregate.index.IndexRangeSegregator
  Determines if the current row should be included.
shouldInclude() - Method in class org.encog.util.normalize.segregate.index.IndexSampleSegregator
  Should this row be included.
shouldInclude() - Method in class org.encog.util.normalize.segregate.IntegerBalanceSegregator
  Determine of the current row should be included.
shouldInclude() - Method in class org.encog.util.normalize.segregate.RangeSegregator
shouldInclude() - Method in interface org.encog.util.normalize.segregate.Segregator
  Should this row be included, according to this segregator.
shouldMinimize() - Method in interface org.encog.ml.CalculateScore
shouldMinimize() - Method in class org.encog.ml.ea.score.EmptyScoreFunction
shouldMinimize() - Method in interface org.encog.ml.ea.sort.GenomeComparator
shouldMinimize() - Method in class org.encog.ml.ea.sort.MaximizeAdjustedScoreComp
shouldMinimize() - Method in class org.encog.ml.ea.sort.MaximizeScoreComp
shouldMinimize() - Method in class org.encog.ml.ea.sort.MinimizeAdjustedScoreComp
shouldMinimize() - Method in class org.encog.ml.ea.sort.MinimizeScoreComp
shouldMinimize() - Method in class org.encog.ml.fitness.MultiObjectiveFitness
shouldMinimize() - Method in class org.encog.ml.prg.train.ZeroEvalScoreFunction
shouldMinimize() - Method in class org.encog.neural.networks.training.TrainingSetScore
  A training set based score should always seek to lower the error, as a result, this method always returns true.
shouldShutDown() - Method in interface org.encog.app.analyst.AnalystListener
shouldShutDown() - Method in class org.encog.app.analyst.ConsoleAnalystListener
shouldStop() - Method in class org.encog.app.analyst.csv.basic.BasicFile
shouldStop() - Method in class org.encog.app.quant.loader.yahoo.YahooDownload
shouldStop() - Method in interface org.encog.app.quant.QuantTask
shouldStop() - Method in class org.encog.ml.train.strategy.end.EarlyStoppingStrategy
shouldStop() - Method in class org.encog.ml.train.strategy.end.EndIterationsStrategy
shouldStop() - Method in class org.encog.ml.train.strategy.end.EndMaxErrorStrategy
shouldStop() - Method in class org.encog.ml.train.strategy.end.EndMinutesStrategy
shouldStop() - Method in interface org.encog.ml.train.strategy.end.EndTrainingStrategy
shouldStop() - Method in class org.encog.ml.train.strategy.end.SimpleEarlyStoppingStrategy
shouldStop() - Method in class org.encog.ml.train.strategy.StopTrainingStrategy
shouldStop() - Method in class org.encog.platformspecific.j2se.TrainingDialog
shouldStopCommand() - Method in interface org.encog.app.analyst.AnalystListener
shouldStopCommand() - Method in class org.encog.app.analyst.ConsoleAnalystListener
shouldStopCommand() - Method in class org.encog.app.analyst.EncogAnalyst
  Should the current command be stopped.
shrinking - Variable in class org.encog.mathutil.libsvm.svm_parameter
ShuffleCSV - Class in org.encog.app.analyst.csv.shuffle
  Randomly shuffle the lines of a CSV file.
ShuffleCSV() - Constructor for class org.encog.app.analyst.csv.shuffle.ShuffleCSV
  Construct the object.
shutdown() - Method in class org.encog.Encog
  Provides any shutdown that Encog may need.
shutdown(long) - Method in class org.encog.util.concurrency.EngineConcurrency
  Wait for all threads in the pool to complete.
SIGMA - Static variable in class org.encog.persist.PersistConst
  Sigma.
SIGMOID - Static variable in class org.encog.mathutil.libsvm.svm_parameter
sign(double) - Static method in class org.encog.mathutil.EncogMath
  Determine the sign of the value.
SIGN(double, double) - Static method in class org.encog.neural.rbf.training.SVD
SimpleDestinationGoal - Class in org.encog.ml.graph.search
SimpleDestinationGoal(BasicNode) - Constructor for class org.encog.ml.graph.search.SimpleDestinationGoal
SimpleEarlyStoppingStrategy - Class in org.encog.ml.train.strategy.end
  A simple early stopping strategy that halts training when the validation set no longer improves.
SimpleEarlyStoppingStrategy(MLDataSet) - Constructor for class org.encog.ml.train.strategy.end.SimpleEarlyStoppingStrategy
SimpleEarlyStoppingStrategy(MLDataSet, int) - Constructor for class org.encog.ml.train.strategy.end.SimpleEarlyStoppingStrategy
SimpleEstimator - Class in org.encog.ml.bayesian.training.estimator
  A simple probability estimator.
SimpleEstimator() - Constructor for class org.encog.ml.bayesian.training.estimator.SimpleEstimator
simpleFeedForward(int, int, int, int, boolean) - Static method in class org.encog.util.simple.EncogUtility
  Create a simple feedforward neural network.
SimpleIntensityDownsample - Class in org.encog.util.downsample
  Downsample an image using a simple intensity scale.
SimpleIntensityDownsample() - Constructor for class org.encog.util.downsample.SimpleIntensityDownsample
SimpleParser - Class in org.encog.util
SimpleParser(String) - Constructor for class org.encog.util.SimpleParser
SimulatedAnnealing<UNIT_TYPE> - Class in org.encog.ml.anneal
  Simulated annealing is a common training method.
SimulatedAnnealing() - Constructor for class org.encog.ml.anneal.SimulatedAnnealing
sin(double) - Static method in class org.encog.mathutil.BoundMath
  Calculate the sin.
sin() - Method in class org.encog.mathutil.ComplexNumber
  Sine of this Complex number (doesn't change this Complex number).
SingleSpeciation - Class in org.encog.ml.ea.species
  This speciation strategy simply creates a single species that contains the entire population.
SingleSpeciation() - Constructor for class org.encog.ml.ea.species.SingleSpeciation
singular(TimeUnit) - Method in class org.encog.util.time.EnglishTimeUnitNames
  Get the singular form for a TimeUnit.
singular(TimeUnit) - Method in interface org.encog.util.time.TimeUnitNames
  Get the singular form of the specified time unit.
SingularValueDecomposition - Class in org.encog.mathutil.matrices.decomposition
  Singular Value Decomposition.
SingularValueDecomposition(Matrix) - Constructor for class org.encog.mathutil.matrices.decomposition.SingularValueDecomposition
  Construct the singular value decomposition Structure to access U, S and V.
sinh() - Method in class org.encog.mathutil.ComplexNumber
  Hyperbolic sine of this Complex number (doesn't change this Complex number).
size() - Method in class org.encog.app.analyst.util.CSVHeaders
size() - Method in class org.encog.ca.universe.basic.BasicCellFactory
size() - Method in class org.encog.ca.universe.basic.BasicContinuousCell
size() - Method in class org.encog.ca.universe.basic.BasicDiscreteCell
size() - Method in interface org.encog.ca.universe.UniverseCell
size() - Method in interface org.encog.ca.universe.UniverseCellFactory
size() - Method in class org.encog.ensemble.data.EnsembleDataSet
size() - Method in class org.encog.mathutil.dimension.MultiDimension
size() - Method in interface org.encog.mathutil.EncogFunction
size() - Method in class org.encog.mathutil.matrices.Matrix
  Get the size of the array.
size() - Method in class org.encog.mathutil.probability.vars.VariableList
size() - Method in class org.encog.ml.data.auto.AutoFloatDataSet
size() - Method in class org.encog.ml.data.basic.BasicMLComplexData
size() - Method in class org.encog.ml.data.basic.BasicMLData
size() - Method in class org.encog.ml.data.basic.BasicMLDataSet
size() - Method in class org.encog.ml.data.basic.BasicMLSequenceSet
size() - Method in class org.encog.ml.data.buffer.BufferedMLDataSet
size() - Method in class org.encog.ml.data.folded.FoldedDataSet
size() - Method in interface org.encog.ml.data.MLData
size() - Method in interface org.encog.ml.data.MLDataSet
size() - Method in class org.encog.ml.data.sparse.SparseMLData
size() - Method in class org.encog.ml.data.specific.BiPolarNeuralData
  Get the size of this data object.
size() - Method in class org.encog.ml.data.versatile.MatrixMLDataSet
size() - Method in interface org.encog.ml.ea.genome.Genome
size() - Method in class org.encog.ml.ea.population.BasicPopulation
size() - Method in interface org.encog.ml.ea.population.Population
size() - Method in class org.encog.ml.genetic.genome.DoubleArrayGenome
size() - Method in class org.encog.ml.genetic.genome.IntegerArrayGenome
size() - Method in class org.encog.ml.graph.BasicPath
size() - Method in class org.encog.ml.graph.search.FrontierHolder
size() - Method in class org.encog.ml.kmeans.BasicCluster
size() - Method in interface org.encog.ml.MLCluster
size() - Method in class org.encog.ml.prg.EncogProgram
size() - Method in class org.encog.ml.prg.EncogProgramVariables
size() - Method in class org.encog.ml.prg.extension.FunctionFactory
size() - Method in class org.encog.ml.tree.basic.BasicTreeNode
size() - Method in interface org.encog.ml.tree.TreeNode
size() - Method in class org.encog.neural.freeform.basic.BasicFreeformLayer
size() - Method in interface org.encog.neural.freeform.FreeformLayer
size() - Method in class org.encog.neural.hyperneat.substrate.SubstrateNode
size() - Method in class org.encog.neural.neat.training.NEATGenome
SIZE - Static variable in class org.encog.persist.PersistConst
size() - Method in class org.encog.util.datastruct.StackInt
size() - Method in class org.encog.util.datastruct.StackObject
size() - Method in class org.encog.util.datastruct.StackString
size() - Method in class org.encog.util.datastruct.WindowInt
size() - Method in class org.encog.util.kmeans.KMeansUtil
size() - Method in class org.encog.util.obj.ChooseObject
sizeNonBias() - Method in class org.encog.neural.freeform.basic.BasicFreeformLayer
sizeNonBias() - Method in interface org.encog.neural.freeform.FreeformLayer
skip(long) - Method in class org.encog.parse.PeekableInputStream
  Skip the specified number of bytes.
SmartLearningRate - Class in org.encog.neural.networks.training.strategy
  Attempt to automatically set the learning rate in a learning method that supports a learning rate.
SmartLearningRate() - Constructor for class org.encog.neural.networks.training.strategy.SmartLearningRate
SmartMomentum - Class in org.encog.neural.networks.training.strategy
  Attempt to automatically set a momentum in a training algorithm that supports momentum.
SmartMomentum() - Constructor for class org.encog.neural.networks.training.strategy.SmartMomentum
solve(Matrix) - Method in class org.encog.mathutil.matrices.decomposition.CholeskyDecomposition
  Solve A*X = B.
solve(Matrix) - Method in class org.encog.mathutil.matrices.decomposition.LUDecomposition
  Solve A*X = B
Solve(double[]) - Method in class org.encog.mathutil.matrices.decomposition.LUDecomposition
solve(Matrix) - Method in class org.encog.mathutil.matrices.decomposition.QRDecomposition
  Least squares solution of A*X = B
solve(Matrix) - Method in class org.encog.mathutil.matrices.Matrix
  Solve A*X = B.
SOM - Class in org.encog.neural.som
  A self organizing map neural network.
SOM() - Constructor for class org.encog.neural.som.SOM
  Default constructor.
SOM(int, int) - Constructor for class org.encog.neural.som.SOM
  The constructor.
SOMClusterCopyTraining - Class in org.encog.neural.som.training.clustercopy
  SOM cluster copy is a very simple trainer for SOM's.
SOMClusterCopyTraining(SOM, MLDataSet) - Constructor for class org.encog.neural.som.training.clustercopy.SOMClusterCopyTraining
  Construct the object.
SOMFactory - Class in org.encog.ml.factory.method
  A factory that is used to produce self-organizing maps.
SOMFactory() - Constructor for class org.encog.ml.factory.method.SOMFactory
SOMPattern - Class in org.encog.neural.pattern
  A self organizing map is a neural network pattern with an input and output layer.
SOMPattern() - Constructor for class org.encog.neural.pattern.SOMPattern
SortCSV - Class in org.encog.app.analyst.csv.sort
  Used to sort a CSV file by one, or more, fields.
SortCSV() - Constructor for class org.encog.app.analyst.csv.sort.SortCSV
SortedField - Class in org.encog.app.analyst.csv.sort
  Specifies how a field is to be sorted by SortCSV.
SortedField(int, SortType, boolean) - Constructor for class org.encog.app.analyst.csv.sort.SortedField
  Construct the object.
sortGenes() - Method in class org.encog.neural.neat.training.NEATGenome
  Sort the genes.
SortGenomesForSpecies - Class in org.encog.ml.ea.sort
  Sort the gnomes for species.
SortGenomesForSpecies(EvolutionaryAlgorithm) - Constructor for class org.encog.ml.ea.sort.SortGenomesForSpecies
  Construct the comparator.
sortPoints() - Method in class org.encog.ml.data.temporal.TemporalMLDataSet
  Sort the points.
SortType - Enum in org.encog.app.analyst.csv.sort
  The type of sort.
SourceElement - Class in org.encog.app.analyst.wizard
SourceElement(String, String) - Constructor for class org.encog.app.analyst.wizard.SourceElement
Span - Class in org.encog.bot.browse.range
  A document range that specifies a span tag, and any embedded tags.
Span(WebPage) - Constructor for class org.encog.bot.browse.range.Span
  Construct a span range from the specified web page.
SparseMLData - Class in org.encog.ml.data.sparse
SparseMLData(double[]) - Constructor for class org.encog.ml.data.sparse.SparseMLData
  Construct this object with the specified data.
SparseMLData(double[], int[]) - Constructor for class org.encog.ml.data.sparse.SparseMLData
  Construct this object with the specified data.
SparseMLData(int) - Constructor for class org.encog.ml.data.sparse.SparseMLData
  Construct this object with blank data and a specified size.
SparseMLData(MLData) - Constructor for class org.encog.ml.data.sparse.SparseMLData
  Construct a new BasicMLData object from an existing one.
SPECIAL_CHAR_LIMIT - Static variable in class org.encog.util.http.URLUtility
  Beyond this number are special chars.
Speciation - Interface in org.encog.ml.ea.species
  Defines a speciation strategy.
Species - Interface in org.encog.ml.ea.species
  Defines a species.
SpeciesComparator - Class in org.encog.ml.ea.sort
  This comparator is used to compare two species.
SpeciesComparator(EvolutionaryAlgorithm) - Constructor for class org.encog.ml.ea.sort.SpeciesComparator
  Create a species comparator.
Splice - Class in org.encog.ml.genetic.crossover
  A simple cross over where genes are simply "spliced".
Splice(int) - Constructor for class org.encog.ml.genetic.crossover.Splice
  Create a slice crossover with the specified cut length.
SpliceNoRepeat - Class in org.encog.ml.genetic.crossover
  A simple cross over where genes are simply "spliced".
SpliceNoRepeat(int) - Constructor for class org.encog.ml.genetic.crossover.SpliceNoRepeat
  Construct a splice crossover.
splitColumns(String) - Static method in class org.encog.persist.EncogFileSection
  Split a delimited string into columns.
SQLCODEC - Class in org.encog.ml.data.buffer.codec
  A CODEC that is designed to read data from an SQL source.
SQLCODEC(Connection, String, int, int) - Constructor for class org.encog.ml.data.buffer.codec.SQLCODEC
  Create a SQLNeuralDataSet based on the specified connection.
SQLCODEC(String, int, int, String, String, String, String) - Constructor for class org.encog.ml.data.buffer.codec.SQLCODEC
  Construct a SQL dataset.
SQLNeuralDataSet - Class in org.encog.platformspecific.j2se.data
  A dataset based on a SQL query.
SQLNeuralDataSet(Connection, String, int, int) - Constructor for class org.encog.platformspecific.j2se.data.SQLNeuralDataSet
  Create a SQLNeuralDataSet based on the specified connection.
SQLNeuralDataSet(String, int, int, String, String, String, String) - Constructor for class org.encog.platformspecific.j2se.data.SQLNeuralDataSet
  Construct a SQL dataset.
sqrt(double) - Static method in class org.encog.mathutil.BoundMath
  Calculate the square root.
sqrt() - Method in class org.encog.mathutil.ComplexNumber
  Complex square root (doesn't change this complex number).
square(double) - Static method in class org.encog.mathutil.EncogMath
SRNFactory - Class in org.encog.ml.factory.method
  A factory that creates simple recurrent neural networks (SRN's), i.e.
SRNFactory() - Constructor for class org.encog.ml.factory.method.SRNFactory
sse - Variable in class org.encog.mathutil.matrices.hessian.BasicHessian
  The sum of square error.
Stacking - Class in org.encog.ensemble.stacking
Stacking(int, int, EnsembleMLMethodFactory, EnsembleTrainFactory, EnsembleAggregator) - Constructor for class org.encog.ensemble.stacking.Stacking
StackInt - Class in org.encog.util.datastruct
  An integer stack.
StackInt(int) - Constructor for class org.encog.util.datastruct.StackInt
  Construct a new stack.
StackObject<T> - Class in org.encog.util.datastruct
StackObject(int) - Constructor for class org.encog.util.datastruct.StackObject
StackString - Class in org.encog.util.datastruct
StackString(int) - Constructor for class org.encog.util.datastruct.StackString
StandardExtensions - Class in org.encog.ml.prg.extension
  This class defines the standard opcodes for Encog programs.
StandardExtensions() - Constructor for class org.encog.ml.prg.extension.StandardExtensions
start() - Method in class org.encog.ca.runner.BasicCARunner
start() - Method in interface org.encog.ca.runner.CARunner
start() - Method in class org.encog.neural.networks.training.concurrent.ConcurrentTrainingManager
  Start the manager.
start() - Method in class org.encog.util.Stopwatch
  Start the stop watch.
START_MOMENTUM - Static variable in class org.encog.neural.networks.training.strategy.SmartMomentum
  The starting momentum.
startConsoleLogging() - Method in class org.encog.plugin.system.SystemLoggingPlugin
  Start logging to the console.
startElement(String, String, String, Attributes) - Method in class org.encog.ml.bayesian.bif.BIFHandler
startNewSequence() - Method in class org.encog.ml.data.basic.BasicMLSequenceSet
startNewSequence() - Method in interface org.encog.ml.data.MLSequenceSet
  Cause a "break" in the data by creating a the beginning of a new sequence.
startNode - Variable in class org.encog.ml.schedule.ScheduleGraph
State - Interface in org.encog.ml.world
StateDistribution - Interface in org.encog.ml.hmm.distributions
  This class represents a "state distribution".
stateSequence() - Method in class org.encog.ml.hmm.alog.ViterbiCalculator
StatusReportable - Interface in org.encog
  This class allows for Encog jobs to report their current status, as they run.
stimulateNeuron(double, int, int) - Method in class org.encog.neural.prune.PruneSelective
  Stimulate the specified neuron by the specified percent.
stimulateWeakNeurons(int, int, double) - Method in class org.encog.neural.prune.PruneSelective
  Stimulate weaker neurons on a layer.
stop() - Method in class org.encog.ca.runner.BasicCARunner
stop() - Method in interface org.encog.ca.runner.CARunner
stop() - Method in class org.encog.util.concurrency.job.ConcurrentJob
  Request the process to stop.
stop() - Method in class org.encog.util.Stopwatch
  Stop the stopwatch.
stopCurrentTask() - Method in class org.encog.app.analyst.EncogAnalyst
  Stop the current task.
stopLogging() - Method in class org.encog.plugin.system.SystemLoggingPlugin
  Stop any console or file logging.
StopTrainingStrategy - Class in org.encog.ml.train.strategy
  This strategy will indicate once training is no longer improving the neural network by a specified amount, over a specified number of cycles.
StopTrainingStrategy() - Constructor for class org.encog.ml.train.strategy.StopTrainingStrategy
  Construct the strategy with default options.
StopTrainingStrategy(double, int) - Constructor for class org.encog.ml.train.strategy.StopTrainingStrategy
  Construct the strategy with the specified parameters.
Stopwatch - Class in org.encog.util
  A stopwatch, meant to emulate the C# Stopwatch class.
Stopwatch() - Constructor for class org.encog.util.Stopwatch
  Construct a stopwatch.
storeColumn(String, double) - Method in class org.encog.app.quant.ninja.NinjaStreamWriter
  Store a column.
Strategy - Interface in org.encog.ml.train.strategy
  Training strategies can be added to training algorithms.
string2AnalystFileFormat(String) - Static method in class org.encog.app.analyst.util.ConvertStringConst
  Convert a string to an analyst file format.
string2double(String) - Static method in class org.encog.mathutil.Convert
  Convert a string to a double.
string2int(String) - Static method in class org.encog.mathutil.Convert
  Convert a string to an int.
stringToKernel(String) - Static method in class org.encog.neural.pnn.PersistBasicPNN
  Convert a string to a PNN kernel.
stringToNeuronType(String) - Static method in class org.encog.neural.neat.PersistNEATPopulation
stringToOutputMode(String) - Static method in class org.encog.neural.pnn.PersistBasicPNN
  Convert a string to a PNN output mode.
stripTags(String) - Static method in class org.encog.bot.BotUtil
  Strip any HTML or XML tags from the specified string.
stripTime(Date) - Static method in class org.encog.util.time.NumericDateUtil
sub(double[], double[]) - Method in class org.encog.mathutil.VectorAlgebra
  v1 = v1 - v2
sub(ExpressionValue, ExpressionValue) - Static method in class org.encog.ml.prg.expvalue.EvaluateExpr
  Perform a subtract on two expression values.
sub() - Method in class org.encog.util.datastruct.StackInt
Substrate - Class in org.encog.neural.hyperneat.substrate
  The substrate defines the structure of the produced HyperNEAT network.
Substrate(int) - Constructor for class org.encog.neural.hyperneat.substrate.Substrate
  Construct a substrate with the specified number of dimensions in the input/output layers.
SubstrateFactory - Class in org.encog.neural.hyperneat.substrate
  Produce substrates for various topologies.
SubstrateFactory() - Constructor for class org.encog.neural.hyperneat.substrate.SubstrateFactory
SubstrateLink - Class in org.encog.neural.hyperneat.substrate
  A substrate link.
SubstrateLink(SubstrateNode, SubstrateNode) - Constructor for class org.encog.neural.hyperneat.substrate.SubstrateLink
SubstrateNode - Class in org.encog.neural.hyperneat.substrate
  A substrate node.
SubstrateNode(int, int) - Constructor for class org.encog.neural.hyperneat.substrate.SubstrateNode
  Construct this node.
subtract(Matrix, Matrix) - Static method in class org.encog.mathutil.matrices.MatrixMath
  Return the results of subtracting one matrix from another.
subtract(double[], double[]) - Static method in class org.encog.util.EngineArray
SubtreeCrossover - Class in org.encog.ml.prg.opp
  Perform a type-safe subtree crossover.
SubtreeCrossover() - Constructor for class org.encog.ml.prg.opp.SubtreeCrossover
SubtreeMutation - Class in org.encog.ml.prg.opp
  Perform a type-safe subtree mutation.
SubtreeMutation(EncogProgramContext, int) - Constructor for class org.encog.ml.prg.opp.SubtreeMutation
  Construct the subtree mutation object.
SuccessorState - Class in org.encog.ml.world
SuccessorState(State, double) - Constructor for class org.encog.ml.world.SuccessorState
suggestModelArchitecture(VersatileMLDataSet) - Method in class org.encog.ml.model.config.FeedforwardConfig
  Suggest a model architecture, based on a dataset.
suggestModelArchitecture(VersatileMLDataSet) - Method in interface org.encog.ml.model.config.MethodConfig
  Suggest a model architecture, based on a dataset.
suggestModelArchitecture(VersatileMLDataSet) - Method in class org.encog.ml.model.config.NEATConfig
  Suggest a model architecture, based on a dataset.
suggestModelArchitecture(VersatileMLDataSet) - Method in class org.encog.ml.model.config.PNNConfig
  Suggest a model architecture, based on a dataset.
suggestModelArchitecture(VersatileMLDataSet) - Method in class org.encog.ml.model.config.RBFNetworkConfig
  Suggest a model architecture, based on a dataset.
suggestModelArchitecture(VersatileMLDataSet) - Method in class org.encog.ml.model.config.SVMConfig
  Suggest a model architecture, based on a dataset.
suggestNormalizationStrategy(VersatileMLDataSet, String) - Method in class org.encog.ml.model.config.FeedforwardConfig
  Suggest a normalization strategy based on a dataset.
suggestNormalizationStrategy(VersatileMLDataSet, String) - Method in interface org.encog.ml.model.config.MethodConfig
  Suggest a normalization strategy based on a dataset.
suggestNormalizationStrategy(VersatileMLDataSet, String) - Method in class org.encog.ml.model.config.NEATConfig
  Suggest a normalization strategy based on a dataset.
suggestNormalizationStrategy(VersatileMLDataSet, String) - Method in class org.encog.ml.model.config.PNNConfig
  Suggest a normalization strategy based on a dataset.
suggestNormalizationStrategy(VersatileMLDataSet, String) - Method in class org.encog.ml.model.config.RBFNetworkConfig
  Suggest a normalization strategy based on a dataset.
suggestNormalizationStrategy(VersatileMLDataSet, String) - Method in class org.encog.ml.model.config.SVMConfig
  Suggest a normalization strategy based on a dataset.
suggestTrainingArgs(String) - Method in class org.encog.ml.model.config.FeedforwardConfig
  Suggest training arguments.
suggestTrainingArgs(String) - Method in interface org.encog.ml.model.config.MethodConfig
  Suggest training arguments.
suggestTrainingArgs(String) - Method in class org.encog.ml.model.config.NEATConfig
  Suggest training arguments.
suggestTrainingArgs(String) - Method in class org.encog.ml.model.config.PNNConfig
  Suggest training arguments.
suggestTrainingArgs(String) - Method in class org.encog.ml.model.config.RBFNetworkConfig
  Suggest training arguments.
suggestTrainingArgs(String) - Method in class org.encog.ml.model.config.SVMConfig
suggestTrainingType() - Method in class org.encog.ml.model.config.FeedforwardConfig
  Suggest a training type.
suggestTrainingType() - Method in interface org.encog.ml.model.config.MethodConfig
  Suggest a training type.
suggestTrainingType() - Method in class org.encog.ml.model.config.NEATConfig
  Suggest a training type.
suggestTrainingType() - Method in class org.encog.ml.model.config.PNNConfig
  Suggest a training type.
suggestTrainingType() - Method in class org.encog.ml.model.config.RBFNetworkConfig
  Suggest a training type.
suggestTrainingType() - Method in class org.encog.ml.model.config.SVMConfig
  Suggest a training type.
sum() - Method in class org.encog.mathutil.matrices.Matrix
  Sum all of the values in the matrix.
SUMS - Static variable in class org.encog.persist.PersistConst
  Sums
suspendEncoding() - Method in class org.encog.util.text.Base64.OutputStream
  Suspends encoding of the stream.
SV - Variable in class org.encog.mathutil.libsvm.svm_model
sv_coef - Variable in class org.encog.mathutil.libsvm.svm_model
SVD - Class in org.encog.neural.rbf.training
  Perform a SVD decomp on a matrix.
SVD() - Constructor for class org.encog.neural.rbf.training.SVD
svdbksb(double[][], double[], double[][], double[][], double[][]) - Static method in class org.encog.neural.rbf.training.SVD
svdcmp(double[][], double[], double[][]) - Static method in class org.encog.neural.rbf.training.SVD
svdfit(double[][], double[][], double[][], RadialBasisFunction[]) - Static method in class org.encog.neural.rbf.training.SVD
SVDTraining - Class in org.encog.neural.rbf.training
  Train a RBF neural network using a SVD.
SVDTraining(RBFNetwork, MLDataSet) - Constructor for class org.encog.neural.rbf.training.SVDTraining
  Construct the training object.
svm - Class in org.encog.mathutil.libsvm
svm() - Constructor for class org.encog.mathutil.libsvm.svm
SVM - Class in org.encog.ml.svm
  This is a network that is backed by one or more Support Vector Machines (SVM).
SVM() - Constructor for class org.encog.ml.svm.SVM
  Construct the SVM.
SVM(int, boolean) - Constructor for class org.encog.ml.svm.SVM
  Construct an SVM network.
SVM(int, SVMType, KernelType) - Constructor for class org.encog.ml.svm.SVM
  Construct a SVM network.
SVM(svm_model) - Constructor for class org.encog.ml.svm.SVM
  Construct a SVM from a model.
svm_check_parameter(svm_problem, svm_parameter) - Static method in class org.encog.mathutil.libsvm.svm
svm_check_probability_model(svm_model) - Static method in class org.encog.mathutil.libsvm.svm
svm_cross_validation(svm_problem, svm_parameter, int, double[]) - Static method in class org.encog.mathutil.libsvm.svm
svm_get_labels(svm_model, int[]) - Static method in class org.encog.mathutil.libsvm.svm
svm_get_nr_class(svm_model) - Static method in class org.encog.mathutil.libsvm.svm
svm_get_svm_type(svm_model) - Static method in class org.encog.mathutil.libsvm.svm
svm_get_svr_probability(svm_model) - Static method in class org.encog.mathutil.libsvm.svm
svm_load_model(String) - Static method in class org.encog.mathutil.libsvm.svm
svm_load_model(BufferedReader) - Static method in class org.encog.mathutil.libsvm.svm
svm_model - Class in org.encog.mathutil.libsvm
  This class was taken from the libsvm package.
svm_model() - Constructor for class org.encog.mathutil.libsvm.svm_model
svm_node - Class in org.encog.mathutil.libsvm
  This class was taken from the libsvm package.
svm_node() - Constructor for class org.encog.mathutil.libsvm.svm_node
svm_parameter - Class in org.encog.mathutil.libsvm
  This class was taken from the libsvm package.
svm_parameter() - Constructor for class org.encog.mathutil.libsvm.svm_parameter
svm_predict(svm_model, svm_node[]) - Static method in class org.encog.mathutil.libsvm.svm
svm_predict_probability(svm_model, svm_node[], double[]) - Static method in class org.encog.mathutil.libsvm.svm
svm_predict_values(svm_model, svm_node[], double[]) - Static method in class org.encog.mathutil.libsvm.svm
svm_print_interface - Interface in org.encog.mathutil.libsvm
  This class was taken from the libsvm package.
svm_problem - Class in org.encog.mathutil.libsvm
  This class was taken from the libsvm package.
svm_problem() - Constructor for class org.encog.mathutil.libsvm.svm_problem
svm_save_model(String, svm_model) - Static method in class org.encog.mathutil.libsvm.svm
svm_save_model(DataOutputStream, svm_model) - Static method in class org.encog.mathutil.libsvm.svm
svm_set_print_string_function(svm_print_interface) - Static method in class org.encog.mathutil.libsvm.svm
svm_train(svm_problem, svm_parameter) - Static method in class org.encog.mathutil.libsvm.svm
svm_type - Variable in class org.encog.mathutil.libsvm.svm_parameter
SVMConfig - Class in org.encog.ml.model.config
  Config class for EncogModel to use an SVM.
SVMConfig() - Constructor for class org.encog.ml.model.config.SVMConfig
SVMFactory - Class in org.encog.ml.factory.method
  A factory that is used to create support vector machines (SVM).
SVMFactory() - Constructor for class org.encog.ml.factory.method.SVMFactory
SVMFactory - Class in org.encog.ml.factory.train
  A factory to create SVM trainers.
SVMFactory() - Constructor for class org.encog.ml.factory.train.SVMFactory
SVMPattern - Class in org.encog.neural.pattern
  A pattern to create support vector machines.
SVMPattern() - Constructor for class org.encog.neural.pattern.SVMPattern
SVMSearchFactory - Class in org.encog.ml.factory.train
  A factory that creates SVM-search trainers.
SVMSearchFactory() - Constructor for class org.encog.ml.factory.train.SVMSearchFactory
SVMSearchTrain - Class in org.encog.ml.svm.training
  Provides training for Support Vector Machine networks.
SVMSearchTrain(SVM, MLDataSet) - Constructor for class org.encog.ml.svm.training.SVMSearchTrain
  Construct a trainer for an SVM network.
SVMTrain - Class in org.encog.ml.svm.training
  Provides training for Support Vector Machine networks.
SVMTrain(SVM, MLDataSet) - Constructor for class org.encog.ml.svm.training.SVMTrain
  Construct a trainer for an SVM network.
SVMType - Enum in org.encog.ml.svm
  Supports both class and new support vector calculations, as well as one-class distribution.
swap(int, int) - Method in interface org.encog.ml.genetic.genome.ArrayGenome
  Swap two elements in this genome.
swap(int, int) - Method in class org.encog.ml.genetic.genome.DoubleArrayGenome
  Swap two elements in this genome.
swap(int, int) - Method in class org.encog.ml.genetic.genome.IntegerArrayGenome
  Swap two elements in this genome.
SystemActivationPlugin - Class in org.encog.plugin.system
SystemActivationPlugin() - Constructor for class org.encog.plugin.system.SystemActivationPlugin
SystemLoggingPlugin - Class in org.encog.plugin.system
  This is the built-in logging plugin for Encog.
SystemLoggingPlugin() - Constructor for class org.encog.plugin.system.SystemLoggingPlugin
SystemMethodsPlugin - Class in org.encog.plugin.system
  The system machine learning methods plugin.
SystemMethodsPlugin() - Constructor for class org.encog.plugin.system.SystemMethodsPlugin
SystemTrainingPlugin - Class in org.encog.plugin.system
SystemTrainingPlugin() - Constructor for class org.encog.plugin.system.SystemTrainingPlugin

## T

TableLine - Class in org.encog.ml.bayesian.table
  A line from a Bayesian truth table.
TableLine(double, int, int[]) - Constructor for class org.encog.ml.bayesian.table.TableLine
  Construct a truth table line.
tablePair(String, String) - Method in class org.encog.util.HTMLReport
Tag - Class in org.encog.parse.tags
  HTMLTag: This class holds a single HTML tag.
Tag() - Constructor for class org.encog.parse.tags.Tag
Tag.Type - Enum in org.encog.parse.tags
  Tag types.
TAG_BEGIN_TRAINING - Static variable in class org.encog.neural.networks.BasicNetwork
  The property for begin training.
TAG_BIAS_ACTIVATION - Static variable in class org.encog.neural.networks.BasicNetwork
  The property for bias activation.
TAG_CONNECTION_LIMIT - Static variable in class org.encog.neural.networks.BasicNetwork
  The property for connection limit.
TAG_CONTEXT_TARGET_OFFSET - Static variable in class org.encog.neural.networks.BasicNetwork
  The property for context target offset.
TAG_CONTEXT_TARGET_SIZE - Static variable in class org.encog.neural.networks.BasicNetwork
  The property for context target size.
TAG_COVARIANCE - Static variable in class org.encog.ml.hmm.HiddenMarkovModel
TAG_DIST_TYPE - Static variable in class org.encog.ml.hmm.HiddenMarkovModel
TAG_END_TRAINING - Static variable in class org.encog.neural.networks.BasicNetwork
  The property for end training.
TAG_HAS_CONTEXT - Static variable in class org.encog.neural.networks.BasicNetwork
  The property for has context.
TAG_INSTAR - Static variable in class org.encog.neural.pattern.CPNPattern
  The tag for the INSTAR layer.
TAG_ITEMS - Static variable in class org.encog.ml.hmm.HiddenMarkovModel
TAG_LAYER_CONTEXT_COUNT - Static variable in class org.encog.neural.networks.BasicNetwork
  The property for layer context count.
TAG_LAYER_COUNTS - Static variable in class org.encog.neural.networks.BasicNetwork
  The property for layer counts.
TAG_LAYER_FEED_COUNTS - Static variable in class org.encog.neural.networks.BasicNetwork
  The property for layer feed counts.
TAG_LAYER_INDEX - Static variable in class org.encog.neural.networks.BasicNetwork
  The property for layer index.
TAG_LIMIT - Static variable in class org.encog.neural.networks.BasicNetwork
  Tag used for the connection limit.
TAG_MEAN - Static variable in class org.encog.ml.hmm.HiddenMarkovModel
TAG_OUTSTAR - Static variable in class org.encog.neural.pattern.CPNPattern
  The tag for the OUTSTAR layer.
TAG_PI - Static variable in class org.encog.ml.hmm.HiddenMarkovModel
TAG_PROBABILITIES - Static variable in class org.encog.ml.hmm.HiddenMarkovModel
TAG_STATES - Static variable in class org.encog.ml.hmm.HiddenMarkovModel
TAG_TRANSITION - Static variable in class org.encog.ml.hmm.HiddenMarkovModel
TAG_WEIGHT_INDEX - Static variable in class org.encog.neural.networks.BasicNetwork
  The property for weight index.
tagColumn(String, int, int, boolean) - Static method in class org.encog.app.analyst.util.CSVHeaders
  Tag a column with part # and timeslice.
TagConst - Class in org.encog.parse.tags
  Constants to use while parsing the tags.
TagDataUnit - Class in org.encog.bot.dataunit
  A data unit that holds a tag.
TagDataUnit() - Constructor for class org.encog.bot.dataunit.TagDataUnit
tan() - Method in class org.encog.mathutil.ComplexNumber
  Tangent of this Complex number (doesn't change this Complex number).
tanh(double) - Static method in class org.encog.mathutil.BoundMath
  Calculate TANH, within bounds.
TargetLanguage - Enum in org.encog.app.generate
  Specifies the target language for Encog code generation.
task(TreeNode) - Method in class org.encog.ml.tree.traverse.tasks.TaskCountNodes
task(TreeNode) - Method in class org.encog.ml.tree.traverse.tasks.TaskGetNodeIndex
task(TreeNode) - Method in class org.encog.ml.tree.traverse.tasks.TaskReplaceNode
task(TreeNode) - Method in interface org.encog.ml.tree.traverse.TreeTraversalTask
task(FreeformConnection) - Method in interface org.encog.neural.freeform.task.ConnectionTask
  The task.
task(FreeformNeuron) - Method in interface org.encog.neural.freeform.task.NeuronTask
  The task.
TASK_FULL - Static variable in class org.encog.app.analyst.EncogAnalyst
  The name of the task that SHOULD everything.
TaskCountNodes - Class in org.encog.ml.tree.traverse.tasks
  Count the nodes in an acyclic tree.
TaskCountNodes() - Constructor for class org.encog.ml.tree.traverse.tasks.TaskCountNodes
  Construct the task.
TaskGetNodeIndex - Class in org.encog.ml.tree.traverse.tasks
  Get a node by index.
TaskGetNodeIndex(int) - Constructor for class org.encog.ml.tree.traverse.tasks.TaskGetNodeIndex
TaskGroup - Class in org.encog.util.concurrency
  A task group is a group of tasks that you would like to execute at once.
TaskGroup(int) - Constructor for class org.encog.util.concurrency.TaskGroup
  Create a task group with the specified id.
TaskReplaceNode - Class in org.encog.ml.tree.traverse.tasks
  Task to replace a node.
TaskReplaceNode(TreeNode, TreeNode) - Constructor for class org.encog.ml.tree.traverse.tasks.TaskReplaceNode
taskStarting() - Method in class org.encog.util.concurrency.TaskGroup
  Notify that a task is starting.
taskStopping() - Method in class org.encog.util.concurrency.TaskGroup
  Notify that a task is stopping.
TEMP_GRADIENT - Static variable in class org.encog.neural.freeform.training.FreeformResilientPropagation
  Temp value #0: the gradient.
TEMP_LAST_GRADIENT - Static variable in class org.encog.neural.freeform.training.FreeformResilientPropagation
  Temp value #1: the last gradient.
TEMP_LAST_WEIGHT_DELTA - Static variable in class org.encog.neural.freeform.training.FreeformResilientPropagation
  Temp value #3: the the last weight delta.
TEMP_UPDATE - Static variable in class org.encog.neural.freeform.training.FreeformResilientPropagation
  Temp value #2: the update.
TEMPERATURE - Static variable in class org.encog.persist.PersistConst
  Temperature.
TemplateGenerator - Interface in org.encog.app.generate.generators
  This interface defines a generator that works by template.
TemporalDataDescription - Class in org.encog.ml.data.temporal
  This class describes one unit of input, or output, to a temporal neural network.
TemporalDataDescription(ActivationFunction, double, double, TemporalDataDescription.Type, boolean, boolean) - Constructor for class org.encog.ml.data.temporal.TemporalDataDescription
  Construct a data description item.
TemporalDataDescription(ActivationFunction, TemporalDataDescription.Type, boolean, boolean) - Constructor for class org.encog.ml.data.temporal.TemporalDataDescription
  Construct a data description with an activation function, but no range.
TemporalDataDescription(TemporalDataDescription.Type, boolean, boolean) - Constructor for class org.encog.ml.data.temporal.TemporalDataDescription
  Construct a data description with no activation function or range.
TemporalDataDescription.Type - Enum in org.encog.ml.data.temporal
  The type of data requested.
TemporalError - Exception in org.encog.ml.data.temporal
  Error occurred processing temporal data.
TemporalError(String) - Constructor for exception org.encog.ml.data.temporal.TemporalError
  Construct a message exception.
TemporalError(Throwable) - Constructor for exception org.encog.ml.data.temporal.TemporalError
  Construct an exception that holds another exception.
TemporalMLDataSet - Class in org.encog.ml.data.temporal
  This class implements a temporal neural data set.
TemporalMLDataSet(int, int) - Constructor for class org.encog.ml.data.temporal.TemporalMLDataSet
  Construct a dataset.
TemporalPoint - Class in org.encog.ml.data.temporal
  A temporal point is all of the data captured at one point in time to be used for prediction.
TemporalPoint(int) - Constructor for class org.encog.ml.data.temporal.TemporalPoint
  Construct a temporal point of the specified size.
TemporalType - Enum in org.encog.util.arrayutil
  Operations that the temporal class may perform on fields.
TemporalWindowArray - Class in org.encog.util.arrayutil
  Produce a time-series from an array.
TemporalWindowArray(int, int) - Constructor for class org.encog.util.arrayutil.TemporalWindowArray
  Construct a time-series from an array.
TemporalWindowField - Class in org.encog.util.arrayutil
  This class specifies how fields are to be used by the TemporalWindowCSV class.
TemporalWindowField(String) - Constructor for class org.encog.util.arrayutil.TemporalWindowField
  Construct the object.
tempTrainingAllocate(int, int) - Method in class org.encog.neural.freeform.FreeformNetwork
  Allocate temp training space.
tempTrainingClear() - Method in class org.encog.neural.freeform.FreeformNetwork
  Clear the temp training data.
TempTrainingData - Interface in org.encog.neural.freeform
  Some training methods require that temp data be stored during the training process.
Test - Class in org.encog
Test() - Constructor for class org.encog.Test
TextDataUnit - Class in org.encog.bot.dataunit
  A data unit that holds text.
TextDataUnit() - Constructor for class org.encog.bot.dataunit.TextDataUnit
ThermalNetwork - Class in org.encog.neural.thermal
  The thermal network forms the base class for Hopfield and Boltzmann machines.
ThermalNetwork() - Constructor for class org.encog.neural.thermal.ThermalNetwork
  Default constructor.
ThermalNetwork(int) - Constructor for class org.encog.neural.thermal.ThermalNetwork
  Construct the network with the specicified neuron count.
thirds(double) - Static method in class org.encog.mathutil.EncogMath
  Transform a number in the range (-1,1) to a tri-state value indicated by -1, 0 or 1.
THRESHOLDS - Static variable in class org.encog.persist.PersistConst
  Thresholds.
ThresholdSpeciation - Class in org.encog.ml.ea.species
  Speciate based on threshold.
ThresholdSpeciation() - Constructor for class org.encog.ml.ea.species.ThresholdSpeciation
tick() - Method in class org.encog.ml.world.basic.BasicAgent
tick() - Method in class org.encog.ml.world.basic.BasicWorld
tick() - Method in interface org.encog.ml.world.World
tick() - Method in interface org.encog.ml.world.WorldAgent
TickerSymbol - Class in org.encog.ml.data.market
  Holds a ticker symbol and exchange.
TickerSymbol(String) - Constructor for class org.encog.ml.data.market.TickerSymbol
  Construct a ticker symbol with no exchange.
TickerSymbol(String, String) - Constructor for class org.encog.ml.data.market.TickerSymbol
  Construct a ticker symbol with exchange.
TIME - Static variable in class org.encog.app.analyst.csv.basic.FileData
  The time.
time2Int(Date) - Static method in class org.encog.util.time.NumericDateUtil
times(ComplexNumber) - Method in class org.encog.mathutil.ComplexNumber
  Complex multiplication (doesn't change this Complex number).
times(double) - Method in class org.encog.ml.data.basic.BasicMLData
  Multiply one data element with another.
TimeSeriesUtil - Class in org.encog.app.analyst.csv
  A utility used to breat data into time-series lead and lag.
TimeSeriesUtil(EncogAnalyst, boolean, List<String>) - Constructor for class org.encog.app.analyst.csv.TimeSeriesUtil
  Construct the time-series utility.
TimeSpan - Class in org.encog.util.time
  A timespan between two Dates.
TimeSpan(Date, Date) - Constructor for class org.encog.util.time.TimeSpan
  Construct a time span.
TimeUnit - Enum in org.encog.util.time
  Time units.
TimeUnitNames - Interface in org.encog.util.time
  Get the name or code for a time unit.
title(String) - Method in class org.encog.util.HTMLReport
toBinary(double) - Static method in class org.encog.mathutil.matrices.BiPolarUtil
  Convert bipolar to binary.
toBiPolar(double) - Static method in class org.encog.mathutil.matrices.BiPolarUtil
  Convert binary to bipolar.
toBooleanValue() - Method in class org.encog.ml.prg.expvalue.ExpressionValue
toBrokenList(StringBuilder, double[]) - Method in class org.encog.app.generate.generators.AbstractTemplateGenerator
  Create an array list broken into 10 columns.
toBrokenList(StringBuilder, int[]) - Method in class org.encog.app.generate.generators.AbstractTemplateGenerator
  Create an array list broken into 10 columns.
toDots(String) - Static method in class org.encog.app.analyst.script.prop.ScriptProperties
  Convert a key to the dot form.
toFloatValue() - Method in class org.encog.ml.prg.expvalue.ExpressionValue
toFullString() - Method in class org.encog.ml.bayesian.BayesianChoice
toFullString() - Method in class org.encog.ml.bayesian.BayesianEvent
toIntValue() - Method in class org.encog.ml.prg.expvalue.ExpressionValue
toList(MLDataSet) - Static method in class org.encog.ml.data.basic.BasicMLDataSet
  Concert the data set to a list.
toList(CSVFormat, StringBuilder, double[]) - Static method in class org.encog.util.csv.NumberList
  Convert an array of doubles to a comma separated list.
toList(CSVFormat, int, StringBuilder, double[]) - Static method in class org.encog.util.csv.NumberList
toListInt(CSVFormat, StringBuilder, int[]) - Static method in class org.encog.util.csv.NumberList
toNormalizedBinary(double) - Static method in class org.encog.mathutil.matrices.BiPolarUtil
  Convert to binary and normalize.
TOO_BIG - Static variable in class org.encog.mathutil.BoundNumbers
  Too big of a number.
TOO_SMALL - Static variable in class org.encog.mathutil.BoundNumbers
  Too small of a number.
toPackedArray() - Method in class org.encog.mathutil.matrices.Matrix
  Convert the matrix into a packed array.
toSimpleString(EventState) - Static method in class org.encog.ml.bayesian.query.sample.EventState
  Convert a state to a simple string.
toString() - Method in class org.encog.app.analyst.analyze.AnalyzedField
toString() - Method in class org.encog.app.analyst.analyze.PerformAnalysis
toString() - Method in class org.encog.app.analyst.commands.Cmd
toString() - Method in class org.encog.app.analyst.csv.basic.BasicFile
toString() - Method in class org.encog.app.analyst.csv.filter.ExcludedField
toString() - Method in class org.encog.app.analyst.csv.segregate.SegregateTargetPercent
toString() - Method in class org.encog.app.analyst.csv.sort.SortedField
toString() - Method in class org.encog.app.analyst.script.AnalystClassItem
toString() - Method in class org.encog.app.analyst.script.normalize.AnalystField
toString() - Method in class org.encog.app.analyst.script.normalize.AnalystNormalize
toString() - Method in class org.encog.app.analyst.script.prop.PropertyEntry
toString() - Method in class org.encog.app.analyst.script.prop.ScriptProperties
toString() - Method in class org.encog.app.analyst.script.segregate.AnalystSegregateTarget
toString() - Method in class org.encog.app.analyst.script.task.AnalystTask
toString() - Method in class org.encog.bot.browse.Address
toString() - Method in class org.encog.bot.browse.Browser
toString() - Method in class org.encog.bot.browse.range.Div
toString() - Method in class org.encog.bot.browse.range.Form
toString() - Method in class org.encog.bot.browse.range.FormElement
toString() - Method in class org.encog.bot.browse.range.Link
toString() - Method in class org.encog.bot.browse.range.Span
toString() - Method in class org.encog.bot.browse.WebPage
toString() - Method in class org.encog.bot.dataunit.CodeDataUnit
toString() - Method in class org.encog.bot.dataunit.TagDataUnit
toString() - Method in class org.encog.bot.dataunit.TextDataUnit
toString() - Method in class org.encog.bot.rss.RSS
toString() - Method in class org.encog.bot.rss.RSSItem
toString() - Method in class org.encog.ca.program.generic.Trans
toString() - Method in class org.encog.ca.runner.BasicCARunner
toString() - Method in class org.encog.ca.universe.basic.BasicContinuousCell
toString() - Method in class org.encog.ca.universe.basic.BasicDiscreteCell
toString() - Method in class org.encog.mathutil.ComplexNumber
  String representation of this Complex number.
toString() - Method in class org.encog.mathutil.dimension.MultiDimension
toString() - Method in class org.encog.mathutil.IntPair
toString() - Method in class org.encog.mathutil.matrices.Matrix
toString() - Method in class org.encog.mathutil.NumericRange
toString() - Method in class org.encog.mathutil.probability.vars.RandomVariable
toString() - Method in class org.encog.mathutil.rbf.BasicRBF
toString() - Method in class org.encog.ml.bayesian.BayesianChoice
toString() - Method in class org.encog.ml.bayesian.BayesianEvent
toString() - Method in class org.encog.ml.bayesian.BayesianNetwork
toString() - Method in class org.encog.ml.bayesian.parse.ParsedChoice
toString() - Method in class org.encog.ml.bayesian.parse.ParsedEvent
toString() - Method in class org.encog.ml.bayesian.parse.ParsedProbability
toString() - Method in class org.encog.ml.bayesian.query.enumerate.EnumerationQuery
toString() - Method in class org.encog.ml.bayesian.query.sample.EventState
toString() - Method in class org.encog.ml.bayesian.query.sample.SamplingQuery
toString() - Method in class org.encog.ml.bayesian.table.BayesianTable
toString() - Method in class org.encog.ml.bayesian.table.TableLine
toString() - Method in class org.encog.ml.data.auto.AutoFloatColumn
toString() - Method in class org.encog.ml.data.basic.BasicMLComplexData
toString() - Method in class org.encog.ml.data.basic.BasicMLData
toString() - Method in class org.encog.ml.data.basic.BasicMLDataPair
toString() - Method in class org.encog.ml.data.sparse.SparseMLData
toString() - Method in class org.encog.ml.data.specific.BiPolarNeuralData
toString() - Method in class org.encog.ml.data.temporal.TemporalPoint
toString() - Method in class org.encog.ml.data.versatile.columns.ColumnDefinition
toString() - Method in class org.encog.ml.data.versatile.NormalizationHelper
toString() - Method in class org.encog.ml.ea.genome.BasicGenome
toString() - Method in class org.encog.ml.ea.species.BasicSpecies
toString() - Method in class org.encog.ml.graph.BasicEdge
toString() - Method in class org.encog.ml.graph.BasicNode
toString() - Method in class org.encog.ml.graph.BasicPath
toString() - Method in class org.encog.ml.prg.EncogProgram
toString() - Method in class org.encog.ml.prg.expvalue.ExpressionValue
toString() - Method in class org.encog.ml.prg.extension.BasicTemplate
toString() - Method in class org.encog.ml.prg.ProgramNode
toString() - Method in class org.encog.ml.prg.VariableMapping
toString() - Method in class org.encog.ml.schedule.ActionNode
toString() - Method in class org.encog.ml.world.basic.BasicAction
toString() - Method in class org.encog.ml.world.basic.BasicAgent
toString() - Method in class org.encog.ml.world.basic.BasicState
toString() - Method in class org.encog.ml.world.grid.GridState
toString() - Method in class org.encog.ml.world.SuccessorState
toString() - Method in class org.encog.neural.flat.FlatLayer
toString() - Method in class org.encog.neural.freeform.basic.BasicFreeformConnection
toString() - Method in class org.encog.neural.freeform.basic.BasicFreeformNeuron
toString() - Method in class org.encog.neural.freeform.FreeformContextNeuron
toString() - Method in class org.encog.neural.hyperneat.substrate.SubstrateLink
toString() - Method in class org.encog.neural.hyperneat.substrate.SubstrateNode
toString() - Method in class org.encog.neural.neat.NEATLink
toString() - Method in class org.encog.neural.neat.training.NEATGenome
toString() - Method in class org.encog.neural.neat.training.NEATInnovation
toString() - Method in class org.encog.neural.neat.training.NEATLinkGene
toString() - Method in class org.encog.neural.neat.training.NEATNeuronGene
toString() - Method in class org.encog.neural.neat.training.opp.links.MutatePerturbLinkWeight
toString() - Method in class org.encog.neural.neat.training.opp.links.MutateResetLinkWeight
toString() - Method in class org.encog.neural.neat.training.opp.links.SelectFixed
toString() - Method in class org.encog.neural.neat.training.opp.links.SelectProportion
toString() - Method in class org.encog.neural.neat.training.opp.NEATMutateWeights
toString() - Method in class org.encog.neural.networks.BasicNetwork
toString() - Method in class org.encog.neural.networks.structure.AnalyzeNetwork
toString() - Method in class org.encog.neural.networks.training.concurrent.ConcurrentTrainingManager
toString() - Method in class org.encog.neural.networks.training.concurrent.performers.ConcurrentTrainingPerformerCPU
toString() - Method in class org.encog.neural.som.training.basic.BasicTrainSOM
toString() - Method in class org.encog.parse.tags.read.ReadTags
toString() - Method in class org.encog.parse.tags.Tag
  Convert this tag back into string form, with the beginning < and ending >.
toString() - Method in class org.encog.persist.EncogFileSection
toString() - Method in class org.encog.util.arrayutil.ClassItem
toString() - Method in class org.encog.util.arrayutil.NormalizedField
toString() - Method in class org.encog.util.arrayutil.TemporalWindowField
toString() - Method in class org.encog.util.datastruct.StackInt
toString() - Method in class org.encog.util.datastruct.StackObject
toString() - Method in class org.encog.util.datastruct.StackString
toString() - Method in class org.encog.util.HTMLReport
toString() - Method in class org.encog.util.normalize.input.InputFieldEncogCollection
toString() - Method in class org.encog.util.normalize.output.OutputFieldDirect
toString() - Method in class org.encog.util.SimpleParser
toString() - Method in class org.encog.util.text.BagOfWords
toStringLiteral(File) - Static method in class org.encog.util.file.FileUtil
toStringValue() - Method in class org.encog.ml.prg.expvalue.ExpressionValue
TOTAL_PCT - Static variable in class org.encog.app.analyst.csv.segregate.SegregateCSV
  TOtal percents should add to this.
TournamentSelection - Class in org.encog.ml.ea.opp.selection
  Tournament select can be used to select a fit (or unfit) genome from a species.
TournamentSelection(EvolutionaryAlgorithm, int) - Constructor for class org.encog.ml.ea.opp.selection.TournamentSelection
  Construct a tournament selection.
train(double, double, EnsembleDataSet, boolean) - Method in class org.encog.ensemble.adaboost.AdaBoost
train() - Method in class org.encog.ensemble.aggregator.Averaging
train() - Method in class org.encog.ensemble.aggregator.MajorityVoting
train() - Method in class org.encog.ensemble.aggregator.MetaClassifier
train(double, double, EnsembleDataSet, boolean) - Method in class org.encog.ensemble.Ensemble
  Train the ensemble to a target accuracy
train(double, double, EnsembleDataSet) - Method in class org.encog.ensemble.Ensemble
  Train the ensemble to a target accuracy
train() - Method in interface org.encog.ensemble.EnsembleAggregator
train(double) - Method in interface org.encog.ensemble.EnsembleML
  Train the ML to a certain accuracy.
train(double, boolean) - Method in interface org.encog.ensemble.EnsembleML
  Train the ML to a certain accuracy.
train(double, boolean) - Method in class org.encog.ensemble.GenericEnsembleML
train(double) - Method in class org.encog.ensemble.GenericEnsembleML
Train - Interface in org.encog.neural.networks.training
  This is an alias class for Encog 2.5 compatibility.
TrainAdaline - Class in org.encog.neural.networks.training.simple
  Train an ADALINE neural network.
TrainAdaline(BasicNetwork, MLDataSet, double) - Constructor for class org.encog.neural.networks.training.simple.TrainAdaline
  Construct an ADALINE trainer.
TrainBasicPNN - Class in org.encog.neural.networks.training.pnn
  Train a PNN.
TrainBasicPNN(BasicPNN, MLDataSet) - Constructor for class org.encog.neural.networks.training.pnn.TrainBasicPNN
  Train a BasicPNN.
TrainBaumWelch - Class in org.encog.ml.hmm.train.bw
  Baum Welch Learning allows a HMM to be constructed from a series of sequence observations.
TrainBaumWelch(HiddenMarkovModel, MLSequenceSet) - Constructor for class org.encog.ml.hmm.train.bw.TrainBaumWelch
TrainBaumWelchScaled - Class in org.encog.ml.hmm.train.bw
  Baum Welch Learning allows a HMM to be constructed from a series of sequence observations.
TrainBaumWelchScaled(HiddenMarkovModel, MLSequenceSet) - Constructor for class org.encog.ml.hmm.train.bw.TrainBaumWelchScaled
TrainBayesian - Class in org.encog.ml.bayesian.training
  Train a Bayesian network.
TrainBayesian(BayesianNetwork, MLDataSet, int) - Constructor for class org.encog.ml.bayesian.training.TrainBayesian
  Construct a Bayesian trainer.
TrainBayesian(BayesianNetwork, MLDataSet, int, BayesianInit, BayesSearch, BayesEstimator) - Constructor for class org.encog.ml.bayesian.training.TrainBayesian
  Construct a Bayesian trainer.
TrainBayesianFactory - Class in org.encog.ml.factory.train
TrainBayesianFactory() - Constructor for class org.encog.ml.factory.train.TrainBayesianFactory
trainConsole(BasicNetwork, MLDataSet, int) - Static method in class org.encog.util.simple.EncogUtility
  Train the neural network, using SCG training, and output status to the console.
trainConsole(MLTrain, BasicNetwork, MLDataSet, int) - Static method in class org.encog.util.simple.EncogUtility
  Train the network, using the specified training algorithm, and send the output to the console.
trainDialog(MLTrain, BasicNetwork, MLDataSet) - Static method in class org.encog.platformspecific.j2se.TrainingDialog
  Train, using the specified training method, display progress to a dialog box.
trainDialog(BasicNetwork, MLDataSet) - Static method in class org.encog.platformspecific.j2se.TrainingDialog
  Train using SCG and display progress to a dialog box.
TrainEA - Class in org.encog.ml.ea.train.basic
  Provides a MLTrain compatible class that can be used to train genomes.
TrainEA(Population, CalculateScore) - Constructor for class org.encog.ml.ea.train.basic.TrainEA
  Create a trainer for a score function.
TrainEA(Population, MLDataSet) - Constructor for class org.encog.ml.ea.train.basic.TrainEA
  Create a trainer for training data.
trainFactory - Variable in class org.encog.ensemble.Ensemble
TrainGaussian - Class in org.encog.ml.fitting.gaussian
TrainGaussian(GaussianFitting, MLDataSet) - Constructor for class org.encog.ml.fitting.gaussian.TrainGaussian
training - Variable in class org.encog.mathutil.matrices.hessian.BasicHessian
  The training data that provides the ideal values.
TrainingContinuation - Class in org.encog.neural.networks.training.propagation
  Allows training to be continued.
TrainingContinuation() - Constructor for class org.encog.neural.networks.training.propagation.TrainingContinuation
TrainingDialog - Class in org.encog.platformspecific.j2se
  Display a training dialog.
TrainingDialog() - Constructor for class org.encog.platformspecific.j2se.TrainingDialog
  Construct the training dialog.
TrainingError - Exception in org.encog.neural.networks.training
  Thrown when a training error occurs.
TrainingError(String) - Constructor for exception org.encog.neural.networks.training.TrainingError
  Construct a message exception.
TrainingError(Throwable) - Constructor for exception org.encog.neural.networks.training.TrainingError
  Construct an exception that holds another exception.
TrainingImplementationType - Enum in org.encog.ml
  Specifies the type of training that an object provides.
TrainingJob - Class in org.encog.neural.networks.training.concurrent.jobs
  Base class for all concurrent training jobs.
TrainingJob(BasicNetwork, MLDataSet, boolean) - Constructor for class org.encog.neural.networks.training.concurrent.jobs.TrainingJob
  Construct a training job.
TrainingSetScore - Class in org.encog.neural.networks.training
  Calculate a score based on a training set.
TrainingSetScore(MLDataSet) - Constructor for class org.encog.neural.networks.training.TrainingSetScore
  Construct a training set score calculation.
TrainingSetUtil - Class in org.encog.util.simple
TrainingSetUtil() - Constructor for class org.encog.util.simple.TrainingSetUtil
trainingToArray(MLDataSet) - Static method in class org.encog.util.simple.TrainingSetUtil
TrainInstar - Class in org.encog.neural.cpn.training
  Used for Instar training of a CPN neural network.
TrainInstar(CPN, MLDataSet, double, boolean) - Constructor for class org.encog.neural.cpn.training.TrainInstar
  Construct the instar training object.
TrainKMeans - Class in org.encog.ml.hmm.train.kmeans
  Train a Hidden Markov Model (HMM) with the KMeans algorithm.
TrainKMeans(HiddenMarkovModel, MLSequenceSet) - Constructor for class org.encog.ml.hmm.train.kmeans.TrainKMeans
TrainLinearRegression - Class in org.encog.ml.fitting.linear
TrainLinearRegression(LinearRegression, MLDataSet) - Constructor for class org.encog.ml.fitting.linear.TrainLinearRegression
TrainOutstar - Class in org.encog.neural.cpn.training
  Used for Instar training of a CPN neural network.
TrainOutstar(CPN, MLDataSet, double) - Constructor for class org.encog.neural.cpn.training.TrainOutstar
  Construct the outstar trainer.
trainPattern(MLData) - Method in class org.encog.neural.som.training.basic.BasicTrainSOM
  Train the specified pattern.
trainStep() - Method in class org.encog.ensemble.bagging.Bagging
trainStep() - Method in interface org.encog.ensemble.EnsembleML
trainStep() - Method in class org.encog.ensemble.GenericEnsembleML
trainStep() - Method in class org.encog.ensemble.stacking.Stacking
trainToError(MLMethod, MLDataSet, double) - Static method in class org.encog.util.simple.EncogUtility
  Train the method, to a specific error, send the output to the console.
trainToError(MLTrain, double) - Static method in class org.encog.util.simple.EncogUtility
  Train to a specific error, using the specified training method, send the output to the console.
Trans - Class in org.encog.ca.program.generic
Trans(UniverseCellFactory, int, double[]) - Constructor for class org.encog.ca.program.generic.Trans
transpose(Matrix) - Static method in class org.encog.mathutil.matrices.MatrixMath
  Return the transposition of a matrix.
traverse(TreeNode, TreeTraversalTask) - Method in class org.encog.ml.tree.traverse.DepthFirstTraversal
  Traverse the tree.
traverse(TreeNode, TreeTraversalTask) - Method in interface org.encog.ml.tree.traverse.TreeTraversal
  Traverse the tree.
TreeNode - Interface in org.encog.ml.tree
  A node for a tree.
TreeTraversal - Interface in org.encog.ml.tree.traverse
  Defines a method for traversing a tree.
TreeTraversalTask - Interface in org.encog.ml.tree.traverse
  A task used to traverse the tree.
TruncationSelection - Class in org.encog.ml.ea.opp.selection
  Truncation selection chooses a random genome from the top genomes in the population.
TruncationSelection(EvolutionaryAlgorithm, double) - Constructor for class org.encog.ml.ea.opp.selection.TruncationSelection
  Construct the truncation selector.
twoPassesNeeded() - Method in class org.encog.util.normalize.DataNormalization
TYPE - Static variable in class org.encog.persist.PersistConst
  Type.
TYPE_ANNEAL - Static variable in class org.encog.ml.factory.MLTrainFactory
  Use simulated annealing.
TYPE_ART1 - Static variable in class org.encog.persist.PersistConst
  An ART1 neural network.
TYPE_BACKPROP - Static variable in class org.encog.ml.factory.MLTrainFactory
  String constant for backprop training.
TYPE_BAM - Static variable in class org.encog.persist.PersistConst
  A BAM neural network.
TYPE_BASIC_NETWORK - Static variable in class org.encog.persist.PersistConst
  A neural network.
TYPE_BASIC_SPECIES - Static variable in class org.encog.persist.PersistConst
  A species.
TYPE_BAYESIAN - Static variable in class org.encog.ml.factory.MLMethodFactory
  String constant for a bayesian neural network.
TYPE_BAYESIAN - Static variable in class org.encog.ml.factory.MLTrainFactory
  K2 training for Bayesian.
TYPE_BOLTZMANN - Static variable in class org.encog.persist.PersistConst
  A Boltzmann machine.
TYPE_CPPN - Static variable in class org.encog.neural.neat.PersistNEATPopulation
  Type for the Compositional pattern-producing networks used by HyperNEAT.
TYPE_EPL - Static variable in class org.encog.ml.factory.MLMethodFactory
  A Encog program.
TYPE_EPL_GA - Static variable in class org.encog.ml.factory.MLTrainFactory
  String constant for LMA training.
TYPE_FEEDFORWARD - Static variable in class org.encog.ml.factory.MLMethodFactory
  String constant for feedforward neural networks.
TYPE_GENETIC - Static variable in class org.encog.ml.factory.MLTrainFactory
  Genetic training.
TYPE_HOPFIELD - Static variable in class org.encog.persist.PersistConst
  A Hopfield neural network.
TYPE_LMA - Static variable in class org.encog.ml.factory.MLTrainFactory
  String constant for LMA training.
TYPE_LOGGING - Static variable in interface org.encog.plugin.EncogPluginBase
TYPE_MANHATTAN - Static variable in class org.encog.ml.factory.MLTrainFactory
  Manhattan training.
TYPE_NEAT - Static variable in class org.encog.ml.factory.MLMethodFactory
  A NEAT neural network.
TYPE_NEAT - Static variable in class org.encog.persist.PersistConst
  A NEAT neural network.
TYPE_NEAT_GA - Static variable in class org.encog.ml.factory.MLTrainFactory
  String constant for LMA training.
TYPE_NEAT_GENOME - Static variable in class org.encog.persist.PersistConst
  NEAT genome.
TYPE_NEAT_INNOVATION - Static variable in class org.encog.persist.PersistConst
  NEAT innovation.
TYPE_NEAT_NEURON_GENE - Static variable in class org.encog.persist.PersistConst
  A neuron gene.
TYPE_NEAT_POPULATION - Static variable in class org.encog.persist.PersistConst
  A NEAT population.
TYPE_NELDER_MEAD - Static variable in class org.encog.ml.factory.MLTrainFactory
  K2 training for Bayesian.
TYPE_PNN - Static variable in class org.encog.ml.factory.MLMethodFactory
  A probabilistic neural network.
TYPE_PNN - Static variable in class org.encog.ml.factory.MLTrainFactory
  PNN training.
TYPE_PSO - Static variable in class org.encog.ml.factory.MLTrainFactory
TYPE_QPROP - Static variable in class org.encog.ml.factory.MLTrainFactory
  QPROP training.
TYPE_RBF_NETWORK - Static variable in class org.encog.persist.PersistConst
  A RBF network.
TYPE_RBFNETWORK - Static variable in class org.encog.ml.factory.MLMethodFactory
  String constant for RBF neural networks.
TYPE_RPROP - Static variable in class org.encog.ml.factory.MLTrainFactory
  String constant for RPROP training.
TYPE_SCG - Static variable in class org.encog.ml.factory.MLTrainFactory
  String constant for SCG training.
TYPE_SERVICE - Static variable in interface org.encog.plugin.EncogPluginBase
TYPE_SOM - Static variable in class org.encog.ml.factory.MLMethodFactory
  String constant for SOMs.
TYPE_SOM - Static variable in class org.encog.persist.PersistConst
  A SOM neural network.
TYPE_SOM_CLUSTER - Static variable in class org.encog.ml.factory.MLTrainFactory
  String constant for SOM-Cluster training.
TYPE_SOM_NEIGHBORHOOD - Static variable in class org.encog.ml.factory.MLTrainFactory
  String constant for SOM-Neighborhood training.
TYPE_SVD - Static variable in class org.encog.ml.factory.MLTrainFactory
  RBF-SVD training.
TYPE_SVM - Static variable in class org.encog.ml.factory.MLMethodFactory
  String constant for support vector machines.
TYPE_SVM - Static variable in class org.encog.ml.factory.MLTrainFactory
  String constant for SVM training.
TYPE_SVM - Static variable in class org.encog.persist.PersistConst
  A support vector machine.
TYPE_SVM_SEARCH - Static variable in class org.encog.ml.factory.MLTrainFactory
  String constant for SVM-Search training.

## U

unIndentLine(String) - Method in class org.encog.app.generate.generators.AbstractGenerator
  Unindent and then add this line.
Universe - Interface in org.encog.ca.universe
UniverseCell - Interface in org.encog.ca.universe
UniverseCellFactory - Interface in org.encog.ca.universe
UniverseListener - Interface in org.encog.ca.universe
unregisterPlugin(EncogPluginBase) - Method in class org.encog.Encog
  Unregister a plugin.
update(double[][]) - Method in class org.encog.ml.hmm.distributions.ContinousDistribution
  Update the covariance.
UPDATE_TIME - Static variable in class org.encog.app.analyst.EncogAnalyst
  The update time for a download.
UPDATE_VALUES - Static variable in class org.encog.neural.networks.training.propagation.resilient.ResilientPropagation
  Continuation tag for the last values.
updateContext() - Method in class org.encog.neural.freeform.basic.BasicFreeformNeuron
  Update the context value for this neuron.
updateContext() - Method in class org.encog.neural.freeform.FreeformContextNeuron
updateContext() - Method in class org.encog.neural.freeform.FreeformNetwork
  Update context.
updateContext() - Method in interface org.encog.neural.freeform.FreeformNeuron
  Update the context value for this neuron.
updateError(double, double) - Method in class org.encog.mathutil.error.ErrorCalculation
  Update the error with single values.
updateError(double[], double[], double) - Method in class org.encog.mathutil.error.ErrorCalculation
  Called to update for each number that should be checked.
updateGlobalBestPosition() - Method in class org.encog.neural.networks.training.pso.NeuralPSO
  Update the swarm's best position
updateHessian(double[]) - Method in class org.encog.mathutil.matrices.hessian.BasicHessian
  Update the Hessian, sum's with what is in the Hessian already.
updateiWeightMinus(double[], double[], int) - Method in class org.encog.neural.networks.training.propagation.resilient.ResilientPropagation
updateiWeightPlus(double[], double[], int) - Method in class org.encog.neural.networks.training.propagation.resilient.ResilientPropagation
updateParticle(int, boolean) - Method in class org.encog.neural.networks.training.pso.NeuralPSO
  Update the velocity, position and personal best position of a particle
updatePersonalBestPosition(int, double[]) - Method in class org.encog.neural.networks.training.pso.NeuralPSO
  Update the personal best position of a particle.
updateProperties() - Method in class org.encog.ca.universe.basic.BasicUniverse
updateProperties() - Method in class org.encog.ml.BasicML
updateProperties() - Method in class org.encog.ml.bayesian.BayesianNetwork
  Update any objeccts when a property changes.
updateProperties() - Method in class org.encog.ml.ea.population.BasicPopulation
  Update any objeccts when a property changes.
updateProperties() - Method in class org.encog.ml.hmm.HiddenMarkovModel
updateProperties() - Method in interface org.encog.ml.MLProperties
  Update any objeccts when a property changes.
updateProperties() - Method in class org.encog.ml.svm.SVM
  Not needed, no properties to update.
updateProperties() - Method in class org.encog.neural.art.ART
  Update any objeccts when a property changes.
updateProperties() - Method in class org.encog.neural.bam.BAM
  Update any objeccts when a property changes.
updateProperties() - Method in class org.encog.neural.cpn.CPN
  Update any objeccts when a property changes.
updateProperties() - Method in class org.encog.neural.freeform.FreeformNetwork
  Update any objeccts when a property changes.
updateProperties() - Method in class org.encog.neural.networks.BasicNetwork
  Update any objeccts when a property changes.
updateProperties() - Method in class org.encog.neural.networks.structure.NeuralStructure
  Update any properties from the property map.
updateProperties() - Method in class org.encog.neural.pnn.BasicPNN
  Update any objeccts when a property changes.
updateProperties() - Method in class org.encog.neural.rbf.RBFNetwork
  Update any objeccts when a property changes.
updateProperties() - Method in class org.encog.neural.som.SOM
  Update any objeccts when a property changes.
updateProperties() - Method in class org.encog.neural.thermal.BoltzmannMachine
  Update any objeccts when a property changes.
updateProperties() - Method in class org.encog.neural.thermal.HopfieldNetwork
  Update any objeccts when a property changes.
updateStatus(boolean) - Method in class org.encog.app.analyst.csv.basic.BasicFile
  Update the status.
updateStatus(String) - Method in class org.encog.app.analyst.csv.basic.BasicFile
  Report the current status.
updateVelocity(int, double[]) - Method in class org.encog.neural.networks.training.pso.NeuralPSO
  Update the velocity of a particle
updateWeight(double[], double[], int) - Method in class org.encog.neural.networks.training.propagation.back.Backpropagation
  Update a weight.
updateWeight(double[], double[], int) - Method in class org.encog.neural.networks.training.propagation.manhattan.ManhattanPropagation
  Calculate the amount to change the weight by.
updateWeight(double[], double[], int) - Method in class org.encog.neural.networks.training.propagation.Propagation
  Update a weight, the means by which weights are updated vary depending on the training.
updateWeight(double[], double[], int) - Method in class org.encog.neural.networks.training.propagation.quick.QuickPropagation
  Update a weight.
updateWeight(double[], double[], int) - Method in class org.encog.neural.networks.training.propagation.resilient.ResilientPropagation
  Calculate the amount to change the weight by.
updateWeight(double[], double[], int) - Method in class org.encog.neural.networks.training.propagation.scg.ScaledConjugateGradient
  Update the weights.
updateWeightMinus(double[], double[], int) - Method in class org.encog.neural.networks.training.propagation.resilient.ResilientPropagation
updateWeightPlus(double[], double[], int) - Method in class org.encog.neural.networks.training.propagation.resilient.ResilientPropagation
updateWeights() - Method in class org.encog.neural.networks.training.lma.LevenbergMarquardtTraining
  Update the weights in the neural network.
URL_SAFE - Static variable in class org.encog.util.text.Base64
  Encode using Base64-like encoding that is URL- and Filename-safe as described in Section 4 of RFC3548: http://www.faqs.org/rfcs/rfc3548.html.
URLUtility - Class in org.encog.util.http
  URLUtility: A set of useful utilities for processing URL's.

## V

validate(String, String, String, String) - Method in class org.encog.app.analyst.script.prop.PropertyEntry
  Validate the specified property.
validate() - Method in class org.encog.ml.bayesian.BayesianEvent
  Validate the event.
validate() - Method in class org.encog.ml.bayesian.BayesianNetwork
  Validate the structure of this Bayesian network.
validate() - Method in class org.encog.ml.bayesian.table.BayesianTable
  Validate the truth table.
validate() - Method in class org.encog.neural.neat.training.NEATGenome
  Validate the structure of this genome.
validateAnalyzed() - Method in class org.encog.app.analyst.csv.basic.BasicFile
  Validate that the file has been analyzed.
validateMethodToData(MLMethod, MLDataSet) - Static method in class org.encog.util.validate.ValidateNetwork
ValidateNetwork - Class in org.encog.util.validate
ValidateNetwork() - Constructor for class org.encog.util.validate.ValidateNetwork
validateNetworkForTraining(ContainsFlat, MLDataSet) - Static method in class org.encog.util.EncogValidate
  Validate a network for training.
validateNeuron(int, int) - Method in class org.encog.neural.networks.BasicNetwork
  Validate the the specified targetLayer and neuron are valid.
value - Variable in class org.encog.mathutil.libsvm.svm_node
ValueIteration - Class in org.encog.ml.world.learning.mdp
ValueIteration(World, double) - Constructor for class org.encog.ml.world.learning.mdp.ValueIteration
valueOf(String) - Static method in enum org.encog.app.analyst.AnalystFileFormat
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.app.analyst.AnalystGoal
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.app.analyst.csv.sort.SortType
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.app.analyst.script.preprocess.PreprocessAction
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.app.analyst.script.prop.PropertyType
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.app.analyst.util.FieldDirection
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.app.analyst.wizard.NormalizeRange
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.app.analyst.wizard.PredictionType
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.app.analyst.wizard.WizardMethodType
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.app.generate.program.EncogArgType
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.app.generate.program.NodeType
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.app.generate.TargetLanguage
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.bot.browse.range.Form.Method
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.ensemble.EnsembleTypes.ProblemType
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.mathutil.error.ErrorCalculationMode
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.mathutil.rbf.RBFEnum
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.ml.bayesian.bif.FileSection
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.ml.bayesian.EventType
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.ml.bayesian.training.BayesianInit
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.ml.data.market.MarketDataType
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.ml.data.temporal.TemporalDataDescription.Type
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.ml.data.versatile.columns.ColumnType
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.ml.hmm.alog.ForwardBackwardCalculator.Computation
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.ml.prg.expvalue.ValueType
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.ml.prg.extension.EncogOpcodeRegistry
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.ml.prg.extension.NodeType
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.ml.svm.KernelType
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.ml.svm.SVMType
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.ml.TrainingImplementationType
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.neural.neat.NEATNeuronType
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.neural.neat.training.NEATInnovationType
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.neural.networks.training.propagation.resilient.RPROPType
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.neural.pnn.PNNKernelType
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.neural.pnn.PNNOutputMode
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.neural.prune.NetworkPattern
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.parse.expression.ExpressionNodeType
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.parse.tags.Tag.Type
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.util.arrayutil.NormalizationAction
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.util.arrayutil.TemporalType
  Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.encog.util.time.TimeUnit
  Returns the enum constant of this type with the specified name.
values() - Static method in enum org.encog.app.analyst.AnalystFileFormat
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.app.analyst.AnalystGoal
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.app.analyst.csv.sort.SortType
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.app.analyst.script.preprocess.PreprocessAction
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.app.analyst.script.prop.PropertyType
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.app.analyst.util.FieldDirection
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.app.analyst.wizard.NormalizeRange
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.app.analyst.wizard.PredictionType
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.app.analyst.wizard.WizardMethodType
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.app.generate.program.EncogArgType
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.app.generate.program.NodeType
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.app.generate.TargetLanguage
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.bot.browse.range.Form.Method
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.ensemble.EnsembleTypes.ProblemType
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.mathutil.error.ErrorCalculationMode
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.mathutil.rbf.RBFEnum
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.ml.bayesian.bif.FileSection
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.ml.bayesian.EventType
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.ml.bayesian.training.BayesianInit
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.ml.data.market.MarketDataType
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.ml.data.temporal.TemporalDataDescription.Type
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.ml.data.versatile.columns.ColumnType
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.ml.hmm.alog.ForwardBackwardCalculator.Computation
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.ml.prg.expvalue.ValueType
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.ml.prg.extension.EncogOpcodeRegistry
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.ml.prg.extension.NodeType
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.ml.svm.KernelType
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.ml.svm.SVMType
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.ml.TrainingImplementationType
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.neural.neat.NEATNeuronType
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.neural.neat.training.NEATInnovationType
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.neural.networks.training.propagation.resilient.RPROPType
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.neural.pnn.PNNKernelType
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.neural.pnn.PNNOutputMode
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.neural.prune.NetworkPattern
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.parse.expression.ExpressionNodeType
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.parse.tags.Tag.Type
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.util.arrayutil.NormalizationAction
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.util.arrayutil.TemporalType
  Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.encog.util.time.TimeUnit
  Returns an array containing the constants of this enum type, in the order they are declared.
ValueType - Enum in org.encog.ml.prg.expvalue
  The type of value.
variableExists(String) - Method in class org.encog.ml.prg.EncogProgramVariables
  Determine if the specified variable name exists.
VariableList - Class in org.encog.mathutil.probability.vars
VariableList() - Constructor for class org.encog.mathutil.probability.vars.VariableList
VariableMapping - Class in org.encog.ml.prg
  A variable mapping defines the type for each of the variables in an Encog program.
VariableMapping(String, ValueType) - Constructor for class org.encog.ml.prg.VariableMapping
  Construct a variable mapping for a non-enum type.
VariableMapping(String, ValueType, int, int) - Constructor for class org.encog.ml.prg.VariableMapping
  Construct a variable mapping.
VectorAlgebra - Class in org.encog.mathutil
  Basic vector algebra operators.
VectorAlgebra() - Constructor for class org.encog.mathutil.VectorAlgebra
vectorLength(Matrix) - Static method in class org.encog.mathutil.matrices.MatrixMath
  Calculate the length of a vector.
vectorProduct(double[], double[]) - Static method in class org.encog.util.EngineArray
  Calculate the product of two vectors (a scalar value).
VectorWindow - Class in org.encog.util.arrayutil
  Create a sliding window of double arrays.
VectorWindow(int) - Constructor for class org.encog.util.arrayutil.VectorWindow
  Construct a sliding window.
VersatileDataSource - Interface in org.encog.ml.data.versatile.sources
  Defines a data source for the versatile data set.
VersatileMLDataSet - Class in org.encog.ml.data.versatile
  The versatile dataset supports several advanced features.
VersatileMLDataSet(VersatileDataSource) - Constructor for class org.encog.ml.data.versatile.VersatileMLDataSet
  Construct the data source.
VERSION - Static variable in class org.encog.Encog
  The current engog version, this should be read from the properties.
VERSION - Static variable in class org.encog.persist.PersistConst
  Version.
VERYSMALL - Static variable in class org.encog.neural.som.SOM
  Do not allow patterns to go below this very small number.
visualize() - Method in class org.encog.ca.visualize.basic.BasicCAVisualizer
visualize() - Method in interface org.encog.ca.visualize.CAVisualizer
ViterbiCalculator - Class in org.encog.ml.hmm.alog
  The Viterbi algorithm is used to find the most likely sequence of hidden states (called the Viterbi path) that results in a sequence of observed events.
ViterbiCalculator(MLDataSet, HiddenMarkovModel) - Constructor for class org.encog.ml.hmm.alog.ViterbiCalculator
VOLUME - Static variable in class org.encog.app.analyst.csv.basic.FileData
  The volume.

## W

waitForComplete() - Method in class org.encog.util.concurrency.TaskGroup
  Wait for all tasks to complete in this group.
waitForFreePerformer() - Method in class org.encog.neural.networks.training.concurrent.ConcurrentTrainingManager
  Wait for a free performer.
wasVisited() - Method in class org.encog.ml.world.basic.BasicState
wasVisited() - Method in interface org.encog.ml.world.State
WebPage - Class in org.encog.bot.browse
  Holds a web page that was loaded by the Browse class.
WebPage() - Constructor for class org.encog.bot.browse.WebPage
weight - Variable in class org.encog.mathutil.libsvm.svm_parameter
WEIGHT - Static variable in class org.encog.persist.PersistConst
  Weight.
weight_label - Variable in class org.encog.mathutil.libsvm.svm_parameter
WeightedResamplingDataSetFactory - Class in org.encog.ensemble.data.factories
WeightedResamplingDataSetFactory(int) - Constructor for class org.encog.ensemble.data.factories.WeightedResamplingDataSetFactory
WEIGHTS - Static variable in class org.encog.persist.PersistConst
  Weights.
WindowDouble - Class in org.encog.util.arrayutil
  This class implements a simple sliding window.
WindowDouble(int) - Constructor for class org.encog.util.arrayutil.WindowDouble
  Construct the window.
WindowInt - Class in org.encog.util.datastruct
WindowInt(int) - Constructor for class org.encog.util.datastruct.WindowInt
winner(MLData) - Method in class org.encog.ensemble.GenericEnsembleML
winner(MLData) - Method in class org.encog.neural.networks.BasicNetwork
  Determine the winner for the specified input.
winner(MLData) - Method in class org.encog.neural.som.SOM
  An alias for the classify method, kept for compatibility with earlier versions of Encog.
wizard(File, boolean, AnalystFileFormat) - Method in class org.encog.app.analyst.wizard.AnalystWizard
  Analyze a file.
wizard(URL, File, File, boolean, AnalystFileFormat) - Method in class org.encog.app.analyst.wizard.AnalystWizard
  Analyze a file at the specified URL.
WizardMethodType - Enum in org.encog.app.analyst.wizard
  The machine learning method that the Encog Analyst Wizard should use.
wizardRealTime(List<SourceElement>, File, int, int, PredictionType, String) - Method in class org.encog.app.analyst.wizard.AnalystWizard
World - Interface in org.encog.ml.world
WorldAgent - Interface in org.encog.ml.world
WorldError - Exception in org.encog.ml.world
WorldError(String) - Constructor for exception org.encog.ml.world.WorldError
  Construct a message exception.
WorldError(Throwable) - Constructor for exception org.encog.ml.world.WorldError
  Construct an exception that holds another exception.
WorldError(String, Throwable) - Constructor for exception org.encog.ml.world.WorldError
  Construct an exception that holds another exception.
WrappingNonResamplingDataSetFactory - Class in org.encog.ensemble.data.factories
WrappingNonResamplingDataSetFactory(int) - Constructor for class org.encog.ensemble.data.factories.WrappingNonResamplingDataSetFactory
write(double[], double[], double) - Method in class org.encog.ml.data.buffer.codec.ArrayDataCODEC
  Write one record of data to an external destination.
write(double[], double[], double) - Method in class org.encog.ml.data.buffer.codec.CSVDataCODEC
  Write one record of data to a CSV file.
write(double[], double[], double) - Method in interface org.encog.ml.data.buffer.codec.DataSetCODEC
  Write one record of data to an external destination.
write(double[], double[], double) - Method in class org.encog.ml.data.buffer.codec.ExcelCODEC
  Write one record of data to an external destination.
write(double[], double[], double) - Method in class org.encog.ml.data.buffer.codec.NeuralDataSetCODEC
  Write one record of data to an external destination.
write(double[], double[], double) - Method in class org.encog.ml.data.buffer.codec.SQLCODEC
  Write one record of data to an external destination.
write(byte) - Method in class org.encog.ml.data.buffer.EncogEGBFile
  Write a byte.
write(double[]) - Method in class org.encog.ml.data.buffer.EncogEGBFile
  Write an array.
write(int, double[]) - Method in class org.encog.ml.data.buffer.EncogEGBFile
  Write an array at the specified record.
write(int, int, double) - Method in class org.encog.ml.data.buffer.EncogEGBFile
  Write the specified row and column.
write(double) - Method in class org.encog.ml.data.buffer.EncogEGBFile
write(String) - Method in class org.encog.persist.EncogWriteHelper
  Write the specified string.
write(double[], int) - Method in interface org.encog.util.normalize.target.NormalizationStorage
  Write an array.
write(double[], int) - Method in class org.encog.util.normalize.target.NormalizationStorageArray1D
  Write an array.
write(double[], int) - Method in class org.encog.util.normalize.target.NormalizationStorageArray2D
  Write an array.
write(double[], int) - Method in class org.encog.util.normalize.target.NormalizationStorageCSV
  Write an array.
write(double[], int) - Method in class org.encog.util.normalize.target.NormalizationStorageEncogCollection
write(double[], int) - Method in class org.encog.util.normalize.target.NormalizationStorageNeuralDataSet
  Write an array.
write(int) - Method in class org.encog.util.text.Base64.OutputStream
  Writes the byte to the output stream after converting to/from Base64 notation.
write(byte[], int, int) - Method in class org.encog.util.text.Base64.OutputStream
  Calls `Base64.OutputStream.write(int)` repeatedly until len bytes are written.
writeBIF(String, BayesianNetwork) - Static method in class org.encog.ml.bayesian.bif.BIFUtil
  Write a Bayesian network to BIF form.
writeBIF(File, BayesianNetwork) - Static method in class org.encog.ml.bayesian.bif.BIFUtil
  Write a Bayesian network to a BIF file.
writeBIF(OutputStream, BayesianNetwork) - Static method in class org.encog.ml.bayesian.bif.BIFUtil
  Write a Bayesian network to an output stream in BIF format.
writeContents(File) - Method in class org.encog.app.generate.generators.AbstractGenerator
  Write the contents to the specified file.
writeContents(File) - Method in class org.encog.app.generate.generators.AbstractTemplateGenerator
  Write the generated code to a file.
writeContents(File) - Method in interface org.encog.app.generate.generators.LanguageSpecificGenerator
  Write the generated code to a file.
writeFileAsString(File, String) - Static method in class org.encog.util.file.FileUtil
writeLine() - Method in class org.encog.persist.EncogWriteHelper
  Write the line.
writeln(String) - Method in class org.encog.util.http.FormUtility
  Write a string, with a carriage return and linefeed.
writeProperty(String, ActivationFunction) - Method in class org.encog.persist.EncogWriteHelper
  Write a property as an activation function.
writeProperty(String, boolean) - Method in class org.encog.persist.EncogWriteHelper
  Write the property as a boolean.
writeProperty(String, CSVFormat) - Method in class org.encog.persist.EncogWriteHelper
  Write a property as a CSV format.
writeProperty(String, double) - Method in class org.encog.persist.EncogWriteHelper
  Write the property as a double.
writeProperty(String, double[]) - Method in class org.encog.persist.EncogWriteHelper
  Write the property as a double array.
writeProperty(String, int) - Method in class org.encog.persist.EncogWriteHelper
  Write a property as an int value.
writeProperty(String, int[]) - Method in class org.encog.persist.EncogWriteHelper
  Write a property as an int array.
writeProperty(String, Matrix) - Method in class org.encog.persist.EncogWriteHelper
  Write a matrix as a property.
writeProperty(String, String) - Method in class org.encog.persist.EncogWriteHelper
  Write the property a s string.
writeRow(PrintWriter, LoadedRow) - Method in class org.encog.app.analyst.csv.basic.BasicFile
  Write a row to the output file.
WriteTags - Class in org.encog.parse.tags.write
  Class used to write out tags, such as XML or HTML.
WriteTags(OutputStream) - Constructor for class org.encog.parse.tags.write.WriteTags
  Construct an object to write tags.
WriteXML - Class in org.encog.parse.tags.write
  Contains specifics to writing XML.
WriteXML(OutputStream) - Constructor for class org.encog.parse.tags.write.WriteXML
  Construct an object to write an XML file.

## X

x - Variable in class org.encog.mathutil.libsvm.svm_problem

## Y

y - Variable in class org.encog.mathutil.libsvm.svm_problem
YahooDownload - Class in org.encog.app.quant.loader.yahoo
  Download financial data from Yahoo.
YahooDownload() - Constructor for class org.encog.app.quant.loader.yahoo.YahooDownload
  Construct the object with default precision.
YahooFinanceLoader - Class in org.encog.ml.data.market.loader
  This class loads financial data from Yahoo.
YahooFinanceLoader() - Constructor for class org.encog.ml.data.market.loader.YahooFinanceLoader
YahooSearch - Class in org.encog.util
  YahooSearch: Perform a search using Yahoo.
YahooSearch() - Constructor for class org.encog.util.YahooSearch
YEAR_OFFSET - Static variable in class org.encog.util.time.NumericDateUtil
YEARS_CENTURY - Static variable in class org.encog.util.time.TimeSpan
  Years in a century.
YEARS_MIL - Static variable in class org.encog.util.time.TimeSpan
  Years in a mil.
YEARS_SCORE - Static variable in class org.encog.util.time.TimeSpan
  Years in a score.

## Z

ZAxisGroup - Class in org.encog.util.normalize.output.zaxis
  Used to group Z-Axis fields together.
ZAxisGroup() - Constructor for class org.encog.util.normalize.output.zaxis.ZAxisGroup
ZeroEvalScoreFunction - Class in org.encog.ml.prg.train
  This is a very simple evaluation function that simply passes in all zeros for the input arguments.
ZeroEvalScoreFunction() - Constructor for class org.encog.ml.prg.train.ZeroEvalScoreFunction

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