Uses of Interface
org.colomoto.biolqm.service.ModelTask

Packages that use ModelTask

Package	Description
org.colomoto.biolqm.io	Input/Output for Logical Model.
org.colomoto.biolqm.io.bnet	The format used by boolnet and pyboolnet
org.colomoto.biolqm.io.booleannet	The format used by booleannet and related tools in Reka Albert's group
org.colomoto.biolqm.io.boolsim	The format used by boolsim/GenYsis.
org.colomoto.biolqm.io.cnet	The format used by boolnet and pyboolnet
org.colomoto.biolqm.io.functions	logical functions.
org.colomoto.biolqm.io.implicanttables	Implicant table format.
org.colomoto.biolqm.io.mnet	A custom text format for multi-valued networks
org.colomoto.biolqm.io.sbml	SBML qual support.
org.colomoto.biolqm.io.truthtable	TruthTable file reader.
org.colomoto.biolqm.modifier	Modifications of logical models.
org.colomoto.biolqm.modifier.booleanize	Construct Boolean versions of Multi-valued models
org.colomoto.biolqm.modifier.buffer	Expand a model using "buffer components".
org.colomoto.biolqm.modifier.perturbation	Perturbation of logical models: local modifications of its logical functions.
org.colomoto.biolqm.modifier.reduction	model modification: remove components from the core.
org.colomoto.biolqm.modifier.reverse	model modification: creates a new model capable of generating the reverse dynamics.
org.colomoto.biolqm.modifier.sanitize	Cleanups and sanity-checks, preserving the same model
org.colomoto.biolqm.modifier.submodel
org.colomoto.biolqm.modifier.subspace

Uses of ModelTask in org.colomoto.biolqm.io

Subinterfaces of ModelTask in org.colomoto.biolqm.io

Modifier and Type	Interface and Description
interface	ModelLoader Model loaders are tasks dedicated to loading a model from a specific format.

Classes in org.colomoto.biolqm.io that implement ModelTask

Modifier and Type	Class and Description
class	BaseLoader Base class for model loader.

Uses of ModelTask in org.colomoto.biolqm.io.bnet

Classes in org.colomoto.biolqm.io.bnet that implement ModelTask

Modifier and Type	Class and Description
class	BNetImport Simple import reading logical functions in a text file.

Uses of ModelTask in org.colomoto.biolqm.io.booleannet

Classes in org.colomoto.biolqm.io.booleannet that implement ModelTask

Modifier and Type	Class and Description
class	BooleanNetImport launch an antlr-generated parser, listen for events and feed them to an ExpressionStack

Uses of ModelTask in org.colomoto.biolqm.io.boolsim

Classes in org.colomoto.biolqm.io.boolsim that implement ModelTask

Modifier and Type	Class and Description
class	BoolSimImport Import boolsim models.

Uses of ModelTask in org.colomoto.biolqm.io.cnet

Classes in org.colomoto.biolqm.io.cnet that implement ModelTask

Modifier and Type	Class and Description
class	CNetImport

Uses of ModelTask in org.colomoto.biolqm.io.functions

Classes in org.colomoto.biolqm.io.functions that implement ModelTask

Modifier and Type	Class and Description
class	BooleanFunctionImport Simple import reading logical functions in a text file.

Uses of ModelTask in org.colomoto.biolqm.io.implicanttables

Classes in org.colomoto.biolqm.io.implicanttables that implement ModelTask

Modifier and Type	Class and Description
class	ImplicantTableImport

Uses of ModelTask in org.colomoto.biolqm.io.mnet

Classes in org.colomoto.biolqm.io.mnet that implement ModelTask

Modifier and Type	Class and Description
class	MNetImport Simple import reading multi-valued logical functions from a text file.

Uses of ModelTask in org.colomoto.biolqm.io.sbml

Classes in org.colomoto.biolqm.io.sbml that implement ModelTask

Modifier and Type	Class and Description
class	SBMLqualImport Crude SBML import using JSBML and the qual extension.

Uses of ModelTask in org.colomoto.biolqm.io.truthtable

Classes in org.colomoto.biolqm.io.truthtable that implement ModelTask

Modifier and Type	Class and Description
class	TruthTableImport Imports a file in the Truth Table format into a LogicalModel.

Uses of ModelTask in org.colomoto.biolqm.modifier

Subinterfaces of ModelTask in org.colomoto.biolqm.modifier

Modifier and Type	Interface and Description
interface	ModelModifier Model Modifiers are tasks dedicated to the construction of modified logical models.

Classes in org.colomoto.biolqm.modifier that implement ModelTask

Modifier and Type	Class and Description
class	BaseModifier

Uses of ModelTask in org.colomoto.biolqm.modifier.booleanize

Classes in org.colomoto.biolqm.modifier.booleanize that implement ModelTask

Modifier and Type	Class and Description
class	BooleanizeModifier Construct a Boolean version of a multi-valued model.

Uses of ModelTask in org.colomoto.biolqm.modifier.buffer

Classes in org.colomoto.biolqm.modifier.buffer that implement ModelTask

Modifier and Type	Class and Description
class	BufferingModifier

Uses of ModelTask in org.colomoto.biolqm.modifier.perturbation

Classes in org.colomoto.biolqm.modifier.perturbation that implement ModelTask

Modifier and Type	Class and Description
class	PerturbationModifier

Uses of ModelTask in org.colomoto.biolqm.modifier.reduction

Classes in org.colomoto.biolqm.modifier.reduction that implement ModelTask

Modifier and Type	Class and Description
class	PatternReduction
class	ReductionModifier

Uses of ModelTask in org.colomoto.biolqm.modifier.reverse

Classes in org.colomoto.biolqm.modifier.reverse that implement ModelTask

Modifier and Type	Class and Description
class	ReverseModifier Wrap ReverseOperation to properly create a new model capable of generating the reverse dynamics.

Uses of ModelTask in org.colomoto.biolqm.modifier.sanitize

Classes in org.colomoto.biolqm.modifier.sanitize that implement ModelTask

Modifier and Type	Class and Description
class	SanitizeModifier

Uses of ModelTask in org.colomoto.biolqm.modifier.submodel

Classes in org.colomoto.biolqm.modifier.submodel that implement ModelTask

Modifier and Type	Class and Description
class	SubmodelModifier Given a list of component names, this modifier will extract a sub-model containing: - the given list of components, - all dependent components of these nodes (involved in the logical functions) as input components (if they are not fixed values).

Uses of ModelTask in org.colomoto.biolqm.modifier.subspace

Classes in org.colomoto.biolqm.modifier.subspace that implement ModelTask

Modifier and Type	Class and Description
class	SubSpaceModifier Model Modifier to restrict a model into a subspace.