Package net.haesleinhuepf.clij2.plugins

Class Summary

Class	Description
Absolute	Author: @haesleinhuepf November 2019
AbsoluteDifference	Author: @haesleinhuepf June 2020
AddImageAndScalar	Author: @haesleinhuepf December 2018
AddImages	Author: @haesleinhuepf 12 2018
AddImagesWeighted	Author: @haesleinhuepf December 2018
AdjacencyMatrixToTouchMatrix	Author: @haesleinhuepf April 2020
AffineTransform	Deprecated.
AffineTransform2D	Author: @haesleinhuepf December 2019
AffineTransform3D	Author: @haesleinhuepf December 2019
ApplyVectorField2D	Author: @haesleinhuepf 12 2018
ApplyVectorField3D	Author: @haesleinhuepf 12 2018
ArgMaximumZProjection	Author: @haesleinhuepf December 2018
AutomaticThreshold	AutomaticThreshold
AutoThresholderImageJ1	Copied from https://github.com/imagej/imagej1/blob/master/ij/process/AutoThresholder.java To reduce dependencies towards ImageJ1
AverageDistanceOfNClosestPoints
AverageDistanceOfNFarOffPoints
AverageDistanceOfTouchingNeighbors
BinaryAnd	Author: @haesleinhuepf 12 2018
BinaryEdgeDetection	Author: @haesleinhuepf September 2019
BinaryFillHoles	Author: @haesleinhuepf March 2020
BinaryIntersection
BinaryNot	Author: @haesleinhuepf 12 2018
BinaryOr	Author: @haesleinhuepf 12 2018
BinarySubtract	Author: @haesleinhuepf September 2019
BinaryUnion
BinaryXOr	Author: @haesleinhuepf 12 2018
Blur2D	Deprecated.
Blur3D	Deprecated.
Blur3DSliceBySlice	Deprecated.
BottomHatBox
BottomHatSphere
BoundingBox	Author: @haesleinhuepf December 2018
CenterOfMass	Author: @haesleinhuepf December 2018
CentroidsOfBackgroundAndLabels	Author: @haesleinhuepf July 2020
CentroidsOfLabels	Author: @haesleinhuepf December 2018
Clear	Author: @haesleinhuepf 12 2018
ClInfo	Author: @haesleinhuepf 12 2018
CloseIndexGapsInLabelMap	ConnectedComponentsLabeling
ClosingBox
ClosingDiamond
CombineHorizontally	Author: @haesleinhuepf May 2020
CombineVertically	Author: @haesleinhuepf May 2020
ConcatenateStacks	Author: @haesleinhuepf March 2020
ConnectedComponentsLabeling	Deprecated.
ConnectedComponentsLabelingBox	ConnectedComponentsLabeling
ConnectedComponentsLabelingDiamond	ConnectedComponentsLabeling
ConvertFloat	Author: @haesleinhuepf 12 2018
ConvertUInt16	Author: @haesleinhuepf 12 2018
ConvertUInt8	Author: @haesleinhuepf 12 2018
Convolve	Author: @haesleinhuepf December 2018
Copy	Author: @haesleinhuepf 12 2018
CopySlice	Author: @haesleinhuepf December 2018
CountNonZeroPixels	Author: @haesleinhuepf June 2019
CountNonZeroPixels2DSphere	Author: @haesleinhuepf December 2018
CountNonZeroPixelsSliceBySliceSphere	Author: @haesleinhuepf December 2018
CountNonZeroVoxels3DSphere	Author: @haesleinhuepf December 2018
CountTouchingNeighbors	Author: @haesleinhuepf October 2019
Create2D	Release
Create3D	Release
Crop2D	Author: @haesleinhuepf December 2018
Crop3D	Author: @haesleinhuepf December 2018
CustomOperation	Author: @haesleinhuepf
DepthColorProjection	Author: @haesleinhuepf April 2020
DetectLabelEdges	Author: @haesleinhuepf October 2019
DetectMaxima2DBox	Author: @haesleinhuepf May 2020
DetectMaxima3DBox	Author: @haesleinhuepf May 2020
DetectMaximaBox	Deprecated.
DetectMaximaSliceBySliceBox	Author: @haesleinhuepf December 2018
DetectMinima2DBox	Author: @haesleinhuepf May 2020
DetectMinima3DBox	Author: @haesleinhuepf May 2020
DetectMinimaBox	Deprecated.
DetectMinimaSliceBySliceBox	Author: @haesleinhuepf December 2018
DifferenceOfGaussian2D
DifferenceOfGaussian3D
DilateBox	Author: @haesleinhuepf 12 2018
DilateBoxSliceBySlice	Author: @haesleinhuepf 12 2018
DilateSphere	Author: @haesleinhuepf 12 2018
DilateSphereSliceBySlice	Author: @haesleinhuepf 12 2018
DistanceMap	Author: @haesleinhuepf September 2019
DistanceMatrixToMesh	Author: @haesleinhuepf December 2019
DivideImages	Author: @haesleinhuepf 12 2018
Downsample2D	Author: @haesleinhuepf 12 2018
Downsample3D	Author: @haesleinhuepf 12 2018
DownsampleSliceBySliceHalfMedian	Author: @haesleinhuepf 12 2018
DrawBox	DrawLine
DrawLine	DrawLine
DrawSphere	DrawLine
EntropyBox
Equal	Author: @haesleinhuepf August 2019
EqualConstant	Author: @haesleinhuepf August 2019
EqualizeMeanIntensitiesOfSlices
ErodeBox	Author: @haesleinhuepf 12 2018
ErodeBoxSliceBySlice	Author: @haesleinhuepf 12 2018
ErodeSphere	Author: @haesleinhuepf 12 2018
ErodeSphereSliceBySlice	Author: @haesleinhuepf 12 2018
ExcludeLabels	Author: @haesleinhuepf April 2020
ExcludeLabelsOnEdges	Author: @haesleinhuepf June 2019
ExcludeLabelsOnSurface	Author: @haesleinhuepf June 2019
ExcludeLabelsSubSurface	Author: @haesleinhuepf June 2019
ExcludeLabelsWithValuesOutOfRange	Author: @haesleinhuepf May 2020
ExcludeLabelsWithValuesWithinRange	Author: @haesleinhuepf May 2020
Exponential	Based on net.haesleinhuepf.clij.macro.modules.Power.java Author: @haesleinhuepf December 2018 modified by: @phaub July 2019
ExtendLabelingViaVoronoi	Author: @haesleinhuepf June 2020
Flip2D	Author: @haesleinhuepf 12 2018
Flip3D	Author: @haesleinhuepf 12 2018
FloodFillDiamond	Author: @haesleinhuepf March 2020
GaussianBlur2D	Author: @haesleinhuepf 12 2018
GaussianBlur3D	Author: @haesleinhuepf 12 2018
GenerateBinaryOverlapMatrix	Author: @haesleinhuepf October 2019
GenerateDistanceMatrix	Author: @haesleinhuepf December 2018
GenerateJaccardIndexMatrix	Author: @haesleinhuepf June 2020
GenerateParametricImage
GenerateParametricImageFromResultsTableColumn
GenerateTouchCountMatrix	Author: @haesleinhuepf June 2020
GenerateTouchMatrix	Author: @haesleinhuepf October 2019
GetAutomaticThreshold	AutomaticThreshold
GetBoundingBox	Author: @haesleinhuepf April 2020
GetCenterOfMass	Author: @haesleinhuepf April 2020
GetDimensions	Author: @haesleinhuepf June 2019
GetGPUProperties	Author: @haesleinhuepf September 2019
GetJaccardIndex	Author: @haesleinhuepf April 2020
GetMaximumOfAllPixels	Author: @haesleinhuepf April 2020
GetMeanOfAllPixels	Author: @haesleinhuepf April 2020
GetMeanOfMaskedPixels	Author: @haesleinhuepf August 2020
GetMeanSquaredError	Author: @haesleinhuepf April 2020
GetMinimumOfAllPixels	Author: @haesleinhuepf April 2020
GetSize	Deprecated.
GetSorensenDiceCoefficient	Author: @haesleinhuepf April 2020
GetSumOfAllPixels	Author: @haesleinhuepf April 2020
GetTimeTracing	Author: @haesleinhuepf April 2020
GPUProperties	Author: @haesleinhuepf April 2020
GradientX	Author: @haesleinhuepf 12 2018
GradientY	Author: @haesleinhuepf 12 2018
GradientZ	Author: @haesleinhuepf 12 2018
Greater	Author: @haesleinhuepf August 2019
GreaterConstant	Author: @haesleinhuepf August 2019
GreaterOrEqual	Author: @haesleinhuepf August 2019
GreaterOrEqualConstant	Author: @haesleinhuepf August 2019
Help	Author: @haesleinhuepf 12 2018
Histogram	Author: @haesleinhuepf December 2019
Image2DToResultsTable	Deprecated.
ImageToStack	Author: @haesleinhuepf February 2020
InvalidateKernelCache	Author: @haesleinhuepf 12 2018
Invert	Author: @haesleinhuepf 12 2018
JaccardIndex	Author: @haesleinhuepf July 2019
LabelCentroidsToPointList
LabelledSpotsToPointList
LabelSpots
LabelToMask	Author: @haesleinhuepf August 2019
LabelVoronoiOctagon	Author: @haesleinhuepf April 2020
LaplaceBox
LaplaceDiamond
ListAvailableGPUs	Author: @haesleinhuepf September 2019
LocalThreshold	Author: @haesleinhuepf 12 2018
Logarithm	Based on net.haesleinhuepf.clij.macro.modules.Power.java Author: @haesleinhuepf December 2018 modified by: @phaub July 2019
Mask	Author: @haesleinhuepf 12 2018
MaskLabel	Author: @haesleinhuepf 12 2018
MaskStackWithPlane	Author: @haesleinhuepf 12 2018
MatrixEqual
Maximum2DBox	Author: @haesleinhuepf 12 2018
Maximum2DSphere	Author: @haesleinhuepf 12 2018
Maximum3DBox	Author: @haesleinhuepf 12 2018
Maximum3DSphere	Author: @haesleinhuepf 12 2018
MaximumImageAndScalar	Author: @haesleinhuepf 12 2018
MaximumImages	Author: @haesleinhuepf 12 2018
MaximumOctagon	Author: @haesleinhuepf December 2019
MaximumOfAllPixels	Author: @haesleinhuepf December 2018
MaximumOfMaskedPixels	Author: @haesleinhuepf 12 2018
MaximumOfTouchingNeighbors
MaximumSliceBySliceSphere	Author: @haesleinhuepf 12 2018
MaximumXProjection	Author: @haesleinhuepf December 2018
MaximumYProjection	Author: @haesleinhuepf December 2018
MaximumZProjection	Author: @haesleinhuepf December 2018
MaximumZProjectionBounded	Author: @haesleinhuepf December 2019
Mean2DBox	Author: @haesleinhuepf 12 2018
Mean2DSphere	Author: @haesleinhuepf December 2018
Mean3DBox	Author: @haesleinhuepf 12 2018
Mean3DSphere	Author: @haesleinhuepf 12 2018
MeanClosestSpotDistance	Author: @haesleinhuepf July 2019
MeanOfAllPixels	Author: @haesleinhuepf December 2018
MeanOfMaskedPixels	Author: @haesleinhuepf 12 2018
MeanOfPixelsAboveThreshold	Author: @haesleinhuepf 12 2018
MeanOfTouchingNeighbors
MeanSliceBySliceSphere	Author: @haesleinhuepf 12 2018
MeanSquaredError	Author: @haesleinhuepf December 2018
MeanXProjection	Author: @haesleinhuepf June 2020
MeanYProjection	Author: @haesleinhuepf June 2020
MeanZProjection	Author: @haesleinhuepf December 2018
MeanZProjectionBounded	Author: @haesleinhuepf December 2019
Median2DBox	Author: @haesleinhuepf 12 2018
Median2DSphere	Author: @haesleinhuepf 12 2018
Median3DBox	Author: @haesleinhuepf 12 2018
Median3DSphere	Author: @haesleinhuepf 12 2018
MedianOfTouchingNeighbors
MedianSliceBySliceBox	Author: @haesleinhuepf 12 2018
MedianSliceBySliceSphere	Author: @haesleinhuepf 12 2018
MedianZProjection	Author: @haesleinhuepf June 2019
Minimum2DBox	Author: @haesleinhuepf 12 2018
Minimum2DSphere	Author: @haesleinhuepf 12 2018
Minimum3DBox	Author: @haesleinhuepf 12 2018
Minimum3DSphere	Author: @haesleinhuepf 12 2018
MinimumDistanceOfTouchingNeighbors
MinimumImageAndScalar	Author: @haesleinhuepf 12 2018
MinimumImages	Author: @haesleinhuepf 12 2018
MinimumOctagon	Author: @haesleinhuepf December 2019
MinimumOfAllPixels	Author: @haesleinhuepf December 2018
MinimumOfMaskedPixels	Author: @haesleinhuepf 12 2018
MinimumOfTouchingNeighbors
MinimumSliceBySliceSphere	Author: @haesleinhuepf 12 2018
MinimumXProjection	Author: @haesleinhuepf June 2020
MinimumYProjection	Author: @haesleinhuepf June 2020
MinimumZProjection	Author: @haesleinhuepf December 2018
MinimumZProjectionBounded	Author: @haesleinhuepf December 2019
MinimumZProjectionThresholdedBounded	Author: @haesleinhuepf December 2019
MultiplyImageAndCoordinate	Author: @haesleinhuepf December 2018
MultiplyImageAndScalar	Author: @haesleinhuepf December 2018
MultiplyImages	Author: @haesleinhuepf 12 2018
MultiplyImageStackWithScalars	Author: @haesleinhuepf December 2018
MultiplyMatrix	Author: @haesleinhuepf August 2019
MultiplyStackWithPlane	Author: @haesleinhuepf December 2018
NClosestDistances
NClosestPoints
NeighborsOfNeighbors	Author: @haesleinhuepf May 2020
NonzeroMaximumBox
NonzeroMaximumDiamond
NonzeroMinimumBox
NonzeroMinimumDiamond
NotEqual	Author: @haesleinhuepf August 2019
NotEqualConstant	Author: @haesleinhuepf August 2019
OnlyzeroOverwriteMaximumBox
OnlyzeroOverwriteMaximumDiamond
OpeningBox
OpeningDiamond
Paste2D	Author: @haesleinhuepf December 2018
Paste3D	Author: @haesleinhuepf December 2018
PointIndexListToMesh	PointIndexListToMesh
PointlistToLabelledSpots	Author: @haesleinhuepf April 2020
Power	Author: @haesleinhuepf December 2018
PowerImages	Author: @haesleinhuepf August 2019
Print	Author: @haesleinhuepf March 2020 in Bordeaux
Pull	Release
PullAsROI
PullBinary	PullBinary
PullLabelsToROIList
PullLabelsToROIManager
PullString	Author: @haesleinhuepf April 2020
PullToCurrentSlice
PullToCurrentSliceSelection
PullToResultsTable	Author: @haesleinhuepf April 2020
PullToROIManager
Push	Release
PushArray	Author: @haesleinhuepf September 2019
PushCurrentSelection	Release
PushCurrentSlice	Release
PushCurrentSliceSelection	Release
PushCurrentZStack	Release
PushResultsTable	Author: @haesleinhuepf April 2020
PushResultsTableColumn	Author: @haesleinhuepf April 2020
PushString	Author: @haesleinhuepf April 2020
ReduceStack	Author: @haesleinhuepf May 2020
Release	Release
ReplaceIntensities
ReplaceIntensity
ReplacePixelsIfZero	Author: @haesleinhuepf June 2020
ReportMemory	Author: @haesleinhuepf 12 2018
Resample	Author: @haesleinhuepf 12 2018
ResliceBottom	Author: @haesleinhuepf 12 2018
ResliceLeft	Author: @haesleinhuepf 12 2018
ResliceRadial	ResliceRadial
ResliceRadialTop	ResliceRadial
ResliceRight	Author: @haesleinhuepf 12 2018
ResliceTop	Author: @haesleinhuepf 12 2018
ResultsTableColumnToImage	Author: @haesleinhuepf April 2020
ResultsTableToImage2D	Deprecated.
Rotate2D	Author: @haesleinhuepf 12 2018
Rotate3D	Author: @haesleinhuepf 12 2018
RotateClockwise	Author: @haesleinhuepf 12 2018
RotateCounterClockwise	Author: @haesleinhuepf 12 2018
RotateLeft	Deprecated.
RotateRight	Deprecated.
SaveAsTIF
Scale	Deprecated.
Scale2D	Author: @haesleinhuepf 12 2018
Scale3D	Author: @haesleinhuepf 12 2018
Set	Author: @haesleinhuepf December 2018
SetColumn	Author: @haesleinhuepf December 2018
SetImageBorders	Author: @haesleinhuepf March 2020
SetNonZeroPixelsToPixelIndex	Author: @haesleinhuepf 12 2018
SetPlane	Author: @haesleinhuepf December 2018
SetRampX	Author: @haesleinhuepf February 2020
SetRampY	Author: @haesleinhuepf February 2020
SetRampZ	Author: @haesleinhuepf February 2020
SetRandom	Author: @haesleinhuepf March 2020
SetRow	Author: @haesleinhuepf December 2018
SetWhereXequalsY	Author: @haesleinhuepf December 2018
SetWhereXgreaterThanY	Author: @haesleinhuepf December 2018
SetWhereXsmallerThanY	Author: @haesleinhuepf December 2018
ShortestDistances
Smaller	Author: @haesleinhuepf August 2019
SmallerConstant	Author: @haesleinhuepf August 2019
SmallerOrEqual	Author: @haesleinhuepf August 2019
SmallerOrEqualConstant	Author: @haesleinhuepf August 2019
Sobel	Author: @ruthhwj, @haesleinhuepf November 2019
SorensenDiceCoefficient	Author: @haesleinhuepf July 2019
SpotsToPointList
SquaredDifference	Author: @haesleinhuepf June 2020
StandardDeviationOfAllPixels	Author: @haesleinhuepf September 2019
StandardDeviationOfMaskedPixels	Author: @haesleinhuepf September 2019
StandardDeviationOfTouchingNeighbors
StandardDeviationZProjection	Author: @haesleinhuepf June 2019
StartTimeTracing	Author: @haesleinhuepf April 2020
StatisticsOfBackgroundAndLabelledPixels	Author: @haesleinhuepf April 2020
StatisticsOfImage	Author: @haesleinhuepf April 2020
StatisticsOfLabelledPixels	Author: @haesleinhuepf September 2019 in Prague
StopTimeTracing	Author: @haesleinhuepf April 2020
SubtractImageFromScalar	Author: @haesleinhuepf 12 2018
SubtractImages	Author: @haesleinhuepf 12 2018
SumImageSliceBySlice	Author: @haesleinhuepf December 2018
SumOfAllPixels	Author: @haesleinhuepf December 2018
SumXProjection	Author: @haesleinhuepf December 2018
SumYProjection	Author: @haesleinhuepf December 2018
SumZProjection	Author: @haesleinhuepf December 2018
Threshold	Author: @haesleinhuepf December 2018
ThresholdDefault	ThresholdDefault
ThresholdHuang	ThresholdHuang
ThresholdIJ_IsoData	ThresholdIJ_IsoData
ThresholdIntermodes	ThresholdIntermodes
ThresholdIsoData	ThresholdIsoData
ThresholdLi	ThresholdLi
ThresholdMaxEntropy	ThresholdMaxEntropy
ThresholdMean	ThresholdMean
ThresholdMinError	ThresholdMinError
ThresholdMinimum	ThresholdMinimum
ThresholdMoments	ThresholdMoments
ThresholdOtsu	ThresholdOtsu
ThresholdPercentile	ThresholdPercentile
ThresholdRenyiEntropy	ThresholdRenyiEntropy
ThresholdShanbhag	ThresholdShanbhag
ThresholdTriangle	ThresholdTriangle
ThresholdYen	ThresholdYen
TopHatBox
TopHatSphere
TouchMatrixToAdjacencyMatrix	Author: @haesleinhuepf April 2020
TouchMatrixToMesh	Author: @haesleinhuepf November 2019
Translate2D	Author: @haesleinhuepf 12 2018
Translate3D	Author: @haesleinhuepf 12 2018
TransposeXY
TransposeXZ
TransposeYZ
UndefinedToZero	Author: @haesleinhuepf June 2020
VarianceOfAllPixels	Author: @haesleinhuepf September 2019
VarianceOfMaskedPixels	Author: @haesleinhuepf 12 2018
VoronoiLabeling	Author: @haesleinhuepf March 2020
VoronoiOctagon	Author: @haesleinhuepf March 2020
Watershed	Author: @haesleinhuepf December 2018
WriteValuesToPositions	Author: @haesleinhuepf June 2019

Enum Summary

Enum	Description
AutoThresholderImageJ1.Method
StatisticsOfLabelledPixels.STATISTICS_ENTRY