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A

ABS_DIFF - Static variable in interface inra.ijpb.math.ImageCalculator.Operation
Abs_diff operator, that computes the absolute value of the difference of values of the two images
AbstractInPlaceStrel - Class in inra.ijpb.morphology.strel
Implementation stub for in place Structuring elements.
AbstractInPlaceStrel() - Constructor for class inra.ijpb.morphology.strel.AbstractInPlaceStrel
 
AbstractInPlaceStrel3D - Class in inra.ijpb.morphology.strel
Implementation stub for in place 3D Structuring elements.
AbstractInPlaceStrel3D() - Constructor for class inra.ijpb.morphology.strel.AbstractInPlaceStrel3D
 
AbstractSeparableStrel - Class in inra.ijpb.morphology.strel
Implementation stub for separable Structuring elements.
AbstractSeparableStrel() - Constructor for class inra.ijpb.morphology.strel.AbstractSeparableStrel
 
AbstractSeparableStrel3D - Class in inra.ijpb.morphology.strel
Implementation stub for separable 3D Structuring elements.
AbstractSeparableStrel3D() - Constructor for class inra.ijpb.morphology.strel.AbstractSeparableStrel3D
 
AbstractStrel - Class in inra.ijpb.morphology.strel
Implementation basis for planar structuring elements.
AbstractStrel() - Constructor for class inra.ijpb.morphology.strel.AbstractStrel
 
AbstractStrel3D - Class in inra.ijpb.morphology.strel
Implementation basis for 3D structuring elements
AbstractStrel3D() - Constructor for class inra.ijpb.morphology.strel.AbstractStrel3D
 
add(double) - Method in class inra.ijpb.morphology.strel.LocalExtremumBufferDouble
Adds a value to the local histogram, and update bounds if needed.
add(int) - Method in class inra.ijpb.morphology.strel.LocalBufferedHistogram
Adds a value to the local histogram, and update bounds if needed.
add(int) - Method in class inra.ijpb.morphology.strel.LocalExtremumBufferGray8
Adds a value to the local histogram, and update bounds if needed.
addAlgoListener(AlgoListener) - Method in interface inra.ijpb.algo.Algo
 
addAlgoListener(AlgoListener) - Method in class inra.ijpb.algo.AlgoStub
 
addResult(ResultsTable) - Method in class inra.ijpb.measure.ResultsBuilder
Add a results table to the already existing table.
addVertex(Point2D) - Method in class inra.ijpb.geometry.Polygon2D
Adds a new vertex in this polygon
adjustDynamic(ImageStack, double, double) - Static method in class inra.ijpb.data.image.Images3D
Returns a new instance of ImageStack containing ByteProcessors such that display range is specified by vmin and vmax.
Algo - Interface in inra.ijpb.algo
An interface for managing progression and status changes of algorithms.
AlgoEvent - Class in inra.ijpb.algo
An event class for storing information about the status and progression of an algorithm.
AlgoEvent(Object, double, double) - Constructor for class inra.ijpb.algo.AlgoEvent
Creates a new AlgoEvent.
AlgoEvent(Object, String) - Constructor for class inra.ijpb.algo.AlgoEvent
Creates a new AlgoEvent.
AlgoEvent(Object, String, double, double) - Constructor for class inra.ijpb.algo.AlgoEvent
Creates a new AlgoEvent.
AlgoListener - Interface in inra.ijpb.algo
Interface for managing progression and status changes of an algorithm.
algoProgressChanged(AlgoEvent) - Method in interface inra.ijpb.algo.AlgoListener
The method devoted to manage the change in the progression of the algorithm.
algoProgressChanged(AlgoEvent) - Method in class inra.ijpb.algo.DefaultAlgoListener
 
algoProgressChanged(AlgoEvent) - Method in class inra.ijpb.binary.geodesic.GeodesicDiameter3DFloat
Deprecated.
 
algoProgressChanged(AlgoEvent) - Method in class inra.ijpb.measure.region2d.IntrinsicVolumesAnalyzer2D
 
algoProgressChanged(AlgoEvent) - Method in class inra.ijpb.measure.region3d.GeodesicDiameter3D
 
algoProgressChanged(AlgoEvent) - Method in class inra.ijpb.measure.region3d.IntrinsicVolumesAnalyzer3D
 
algoProgressChanged(AlgoEvent) - Method in class inra.ijpb.morphology.strel.AbstractSeparableStrel
Propagates the event by changing the source.
algoProgressChanged(AlgoEvent) - Method in class inra.ijpb.morphology.strel.AbstractSeparableStrel3D
Propagates the event by changing the source.
algoStatusChanged(AlgoEvent) - Method in interface inra.ijpb.algo.AlgoListener
The method devoted to manage the change in the status of the algorithm.
algoStatusChanged(AlgoEvent) - Method in class inra.ijpb.algo.DefaultAlgoListener
 
algoStatusChanged(AlgoEvent) - Method in class inra.ijpb.binary.geodesic.GeodesicDiameter3DFloat
Deprecated.
 
algoStatusChanged(AlgoEvent) - Method in class inra.ijpb.measure.region2d.IntrinsicVolumesAnalyzer2D
 
algoStatusChanged(AlgoEvent) - Method in class inra.ijpb.measure.region3d.GeodesicDiameter3D
 
algoStatusChanged(AlgoEvent) - Method in class inra.ijpb.measure.region3d.IntrinsicVolumesAnalyzer3D
 
algoStatusChanged(AlgoEvent) - Method in class inra.ijpb.morphology.strel.AbstractSeparableStrel
Propagates the event by changing the source.
algoStatusChanged(AlgoEvent) - Method in class inra.ijpb.morphology.strel.AbstractSeparableStrel3D
Propagates the event by changing the source.
AlgoStub - Class in inra.ijpb.algo
A minimal implementation of algorithm for managing progression listeners.
AlgoStub() - Constructor for class inra.ijpb.algo.AlgoStub
 
almostEquals(Vector2D, double) - Method in class inra.ijpb.geometry.Vector2D
Checks if this vector is close to the given vector, by checking each coordinate using the given threshold.
almostEquals(Vector3D, double) - Method in class inra.ijpb.geometry.Vector3D
Checks if this vector is close to the given vector, by checking each coordinate using the given threshold.
almostEquals(Vector3d, double) - Method in class inra.ijpb.measure.Vector3d
Deprecated.
Checks if this vector is close to the given vector, by checking each coordinate using the given threshold.
analyzeBinary(ImageProcessor, double[]) - Method in class inra.ijpb.measure.region2d.MaxFeretDiameter
Computes Maximum Feret diameter from a single region in a binary image.
analyzeImage(ImageProcessor) - Method in interface inra.ijpb.binary.geodesic.GeodesicDiameter
Deprecated.
computes geodesic diameter for each region of the input image.
analyzeImage(ImageProcessor) - Method in class inra.ijpb.binary.geodesic.GeodesicDiameterFloat
Deprecated.
Computes the geodesic diameter of each particle within the given label image.
analyzeImage(ImageProcessor) - Method in class inra.ijpb.binary.geodesic.GeodesicDiameterShort
Deprecated.
Computes the geodesic diameter of each particle within the given label image.
AnalyzeMicrostructure3D - Class in inra.ijpb.plugins
Plugin for computing densities of 3D intrinsic volumes (volume, surface area, mean breadth and Euler number) from 3D binary images.
AnalyzeMicrostructure3D() - Constructor for class inra.ijpb.plugins.AnalyzeMicrostructure3D
 
analyzeRegions(ImagePlus) - Method in class inra.ijpb.measure.region2d.RegionAnalyzer2D
Default implementation of the analyzeRegions method, that calls the more specialized RegionAnalyzer2D.analyzeRegions(ImageProcessor, int[], Calibration) method and transforms the result into a map.
analyzeRegions(ImagePlus) - Method in class inra.ijpb.measure.region3d.RegionAnalyzer3D
Default implementation of the analyzeRegions method, that calls the more specialized RegionAnalyzer3D.analyzeRegions(ImageStack, int[], ij.measure.Calibration) method and transforms the result into a map.
analyzeRegions(ImagePlus) - Method in interface inra.ijpb.measure.RegionAnalyzer
Generic method to compute the result of an analysis on each region of a label or binary image.
analyzeRegions(ImageStack, int[], Calibration) - Method in class inra.ijpb.measure.region3d.BoundingBox3D
Computes the bounding box of each region within a 3D label image.
analyzeRegions(ImageStack, int[], Calibration) - Method in class inra.ijpb.measure.region3d.Centroid3D
Computes centroid of each region in input label image.
analyzeRegions(ImageStack, int[], Calibration) - Method in class inra.ijpb.measure.region3d.EquivalentEllipsoid
Computes equivalent ellipsoid of each region in the input 3D label image.
analyzeRegions(ImageStack, int[], Calibration) - Method in class inra.ijpb.measure.region3d.GeodesicDiameter3D
Computes the geodesic diameter of each particle within the given label image.
analyzeRegions(ImageStack, int[], Calibration) - Method in class inra.ijpb.measure.region3d.InertiaEllipsoid
Deprecated.
Computes inertia ellipsoid of each region in the input 3D label image.
analyzeRegions(ImageStack, int[], Calibration) - Method in class inra.ijpb.measure.region3d.IntrinsicVolumesAnalyzer3D
 
analyzeRegions(ImageStack, int[], Calibration) - Method in class inra.ijpb.measure.region3d.LargestInscribedBall
Computes largest inscribed ball of each region with a 3D label image.
analyzeRegions(ImageStack, int[], Calibration) - Method in class inra.ijpb.measure.region3d.MaxFeretDiameter3D
Computes maximum Feret Diameter for each label of the input label image.
analyzeRegions(ImageStack, int[], Calibration) - Method in class inra.ijpb.measure.region3d.RegionAnalyzer3D
Computes an instance of the generic type T for each region in input label image.
analyzeRegions(ImageStack, Calibration) - Method in class inra.ijpb.measure.region3d.RegionAnalyzer3D
Identifies labels within image and computes an instance of the generic type T for each region in input label image.
analyzeRegions(ImageProcessor) - Method in class inra.ijpb.measure.region2d.GeodesicDiameter
Computes the geodesic diameter of each particle within the given label image.
analyzeRegions(ImageProcessor, double[]) - Static method in class inra.ijpb.measure.GeometricMeasures2D
Deprecated.
analyzeRegions(ImageProcessor, double[], int) - Static method in class inra.ijpb.measure.GeometricMeasures2D
Deprecated.
analyzeRegions(ImageProcessor, int[], Calibration) - Method in class inra.ijpb.measure.region2d.AverageThickness
 
analyzeRegions(ImageProcessor, int[], Calibration) - Method in class inra.ijpb.measure.region2d.BoundingBox
Computes bounding box of each region in input label image.
analyzeRegions(ImageProcessor, int[], Calibration) - Method in class inra.ijpb.measure.region2d.Centroid
Computes centroid of each region in input label image.
analyzeRegions(ImageProcessor, int[], Calibration) - Method in class inra.ijpb.measure.region2d.Convexity
 
analyzeRegions(ImageProcessor, int[], Calibration) - Method in class inra.ijpb.measure.region2d.EquivalentEllipse
Computes the equivalent ellipse of each region within the input label image.
analyzeRegions(ImageProcessor, int[], Calibration) - Method in class inra.ijpb.measure.region2d.GeodesicDiameter
Computes the geodesic diameter of each region within the given label image.
analyzeRegions(ImageProcessor, int[], Calibration) - Method in class inra.ijpb.measure.region2d.InertiaEllipse
Deprecated.
Computes inertia ellipse of each region in input label image.
analyzeRegions(ImageProcessor, int[], Calibration) - Method in class inra.ijpb.measure.region2d.IntrinsicVolumesAnalyzer2D
 
analyzeRegions(ImageProcessor, int[], Calibration) - Method in class inra.ijpb.measure.region2d.LargestInscribedCircle
Computes largest inscribed disk of each region within a label image.
analyzeRegions(ImageProcessor, int[], Calibration) - Method in class inra.ijpb.measure.region2d.MaxFeretDiameter
Computes maximum Feret Diameter for each label of the input label image.
analyzeRegions(ImageProcessor, int[], Calibration) - Method in class inra.ijpb.measure.region2d.OrientedBoundingBox2D
 
analyzeRegions(ImageProcessor, int[], Calibration) - Method in class inra.ijpb.measure.region2d.RegionAnalyzer2D
Computes an instance of the generic type T for each region in input label image.
analyzeRegions(ImageProcessor, Calibration) - Method in class inra.ijpb.measure.region2d.RegionAnalyzer2D
Identifies labels within image and computes an instance of the generic type T for each region in input label image.
AnalyzeRegions - Class in inra.ijpb.plugins
Plugin for computing morphology of regions from label images.
AnalyzeRegions() - Constructor for class inra.ijpb.plugins.AnalyzeRegions
 
AnalyzeRegions3D - Class in inra.ijpb.plugins
Plugin for measuring geometric quantities such as volume, surface area, and eventually sphericity index.
AnalyzeRegions3D() - Constructor for class inra.ijpb.plugins.AnalyzeRegions3D
 
AND - Static variable in interface inra.ijpb.math.ImageCalculator.Operation
And operator.
angle - Variable in class inra.ijpb.geometry.AngleDiameterPair
Angle in radians
angle() - Method in class inra.ijpb.geometry.PointPair2D
 
angle(Vector2D, Vector2D) - Static method in class inra.ijpb.geometry.Vector2D
Computes the angle between two vectors.
angle(Vector3D, Vector3D) - Static method in class inra.ijpb.geometry.Vector3D
Computes the angle between two 3D vectors.
angle(Vector3d, Vector3d) - Static method in class inra.ijpb.measure.Vector3d
Deprecated.
Computes the angle between two 3D vectors.
AngleDiameterPair - Class in inra.ijpb.geometry
Data structure used to return result of Feret diameters computation.
AngleDiameterPair(double, double) - Constructor for class inra.ijpb.geometry.AngleDiameterPair
Default constructor, using angle in degrees and diameter.
apply() - Method in class inra.ijpb.watershed.WatershedTransform2D
Apply fast watersheds using flooding simulations, as described by Soille, Pierre, and Luc M.
apply() - Method in class inra.ijpb.watershed.WatershedTransform3D
Apply fast watersheds using flooding simulations, as described by Soille, Pierre, and Luc M.
apply(double, double) - Method in class inra.ijpb.watershed.WatershedTransform2D
Apply fast watersheds using flooding simulations, as described by Soille, Pierre, and Luc M.
apply(double, double) - Method in class inra.ijpb.watershed.WatershedTransform3D
Apply fast watersheds using flooding simulations, as described by Soille, Pierre, and Luc M.
apply(ImageStack, int) - Method in enum inra.ijpb.plugins.ExtendedMinAndMax3DPlugin.Operation
Applies this operation to the specified image.
apply(ImageStack, int) - Method in enum inra.ijpb.plugins.RegionalMinAndMax3DPlugin.Operation
Process to image given as argument.
apply(ImageStack, int, int) - Method in enum inra.ijpb.plugins.ExtendedMinAndMax3DPlugin.Operation
Applies this operation to the specified image.
apply(ImageStack, int, Connectivity3D) - Method in enum inra.ijpb.plugins.ExtendedMinAndMax3DPlugin.Operation
Applies this operation to the specified image.
apply(ImageStack, Strel3D) - Method in enum inra.ijpb.morphology.Morphology.Operation
Applies the current operator to the input 3D image.
apply(ImageProcessor, int) - Method in enum inra.ijpb.plugins.ExtendedMinAndMaxPlugin.Operation
Applies this operation to the specified image.
apply(ImageProcessor, int) - Method in enum inra.ijpb.plugins.RegionalMinAndMaxPlugin.Operation
Process to image given as argument.
apply(ImageProcessor, int, int) - Method in enum inra.ijpb.plugins.ExtendedMinAndMaxPlugin.Operation
Applies this operation to the specified image.
apply(ImageProcessor, int, Connectivity2D) - Method in enum inra.ijpb.plugins.ExtendedMinAndMaxPlugin.Operation
Applies this operation to the specified image.
apply(ImageProcessor, Strel) - Method in enum inra.ijpb.morphology.directional.DirectionalFilter.Operation
Applies this operation to the input image.
apply(ImageProcessor, Strel) - Method in enum inra.ijpb.morphology.Morphology.Operation
Applies the current operator to the input image.
apply(ImageProcessor, Connectivity2D) - Method in enum inra.ijpb.plugins.RegionalMinAndMaxPlugin.Operation
Process to image given as argument.
applyLut(int[][], double[]) - Static method in class inra.ijpb.measure.region2d.BinaryConfigurationsHistogram2D
Applies look-up-table of values for each configuration for each label, based on the 16-array of count for each binary configuration.
applyLut(int[][], double[]) - Static method in class inra.ijpb.measure.region3d.BinaryConfigurationsHistogram3D
Applies look-up-table of values for each configuration of each region, based on the array of count for each binary configuration.
applyLut(int[][], int[]) - Static method in class inra.ijpb.measure.region2d.BinaryConfigurationsHistogram2D
Applies look-up-table of values for each configuration for each label, based on the 16-array of count for each binary configuration.
applyLut(int[], double[]) - Static method in class inra.ijpb.measure.region2d.BinaryConfigurationsHistogram2D
Applies look-up-table of values for each configuration, based on the array of count for each binary configuration.
applyLut(int[], double[]) - Static method in class inra.ijpb.measure.region3d.BinaryConfigurationsHistogram3D
Applies look-up-table of values for each configuration, based on the array of count for each binary configuration.
applyLut(int[], int[]) - Static method in class inra.ijpb.measure.region2d.BinaryConfigurationsHistogram2D
Applies look-up-table of values for each configuration, based on the array of count for each binary configuration.
applyLut(ImageStack, double[]) - Static method in class inra.ijpb.label.LabelImages
Applies the given Look-up table to the input label image.
applyLut(ImageProcessor, double[]) - Static method in class inra.ijpb.label.LabelImages
Applies the given Look-up table to the input label image.
applyTo(float, float) - Method in interface inra.ijpb.math.ImageCalculator.Operation
The method to override to make it possible to use an operation.
applyTo(int, int) - Method in interface inra.ijpb.math.ImageCalculator.Operation
The method to override to make it possible to use an operation.
applyTo(ImagePlus, int) - Method in enum inra.ijpb.plugins.LabelSizeFilteringPlugin.Operation
Applies the operator wrapped by this enumeration item to the input image.
applyTo(ImageStack) - Method in class inra.ijpb.morphology.extrema.RegionalExtrema3DAlgo
Applies this regional extrema algorithm on the 3D image given as argument, and returns the result as a binary image stack.
applyTo(ImageStack) - Method in class inra.ijpb.morphology.extrema.RegionalExtrema3DByFlooding
 
applyTo(ImageStack, ImageStack) - Method in class inra.ijpb.morphology.extrema.RegionalExtrema3DAlgo
Applies this regional extrema algorithm on the 3D image given as argument and using the given mask, and returns the result as a binary image stack.
applyTo(ImageStack, ImageStack) - Method in class inra.ijpb.morphology.extrema.RegionalExtrema3DByFlooding
 
applyTo(ImageStack, ImageStack) - Method in interface inra.ijpb.morphology.geodrec.GeodesicReconstruction3DAlgo
Applies the geodesic reconstruction algorithm to the input marker and mask images.
applyTo(ImageStack, ImageStack) - Method in class inra.ijpb.morphology.geodrec.GeodesicReconstruction3DHybrid0Float
Run the reconstruction by dilation algorithm using the images specified as argument.
applyTo(ImageStack, ImageStack) - Method in class inra.ijpb.morphology.geodrec.GeodesicReconstruction3DHybrid0Gray16
Run the reconstruction by dilation algorithm using the images specified as argument.
applyTo(ImageStack, ImageStack) - Method in class inra.ijpb.morphology.geodrec.GeodesicReconstruction3DHybrid0Gray8
Run the reconstruction by dilation algorithm using the images specified as argument.
applyTo(ImageStack, ImageStack) - Method in class inra.ijpb.morphology.geodrec.GeodesicReconstruction3DHybrid1Image3D
Run the reconstruction by dilation algorithm using the images specified as argument.
applyTo(ImageStack, ImageStack) - Method in class inra.ijpb.morphology.geodrec.GeodesicReconstructionByDilation3D
Run the reconstruction by dilation algorithm using the images specified as argument.
applyTo(ImageStack, ImageStack) - Method in class inra.ijpb.morphology.geodrec.GeodesicReconstructionByDilation3DGray8
Run the reconstruction by dilation algorithm using the images specified as argument.
applyTo(ImageStack, ImageStack) - Method in class inra.ijpb.morphology.geodrec.GeodesicReconstructionByDilation3DScanning
Run the reconstruction by dilation algorithm using the images specified as argument.
applyTo(ImageStack, ImageStack) - Method in class inra.ijpb.morphology.geodrec.GeodesicReconstructionByDilation3DScanningGray8
Run the reconstruction by dilation algorithm using the images specified as argument.
applyTo(ImageStack, ImageStack) - Method in class inra.ijpb.morphology.geodrec.GeodesicReconstructionByErosion3DGray8
Run the reconstruction by dilation algorithm using the images specified as argument.
applyTo(ImageStack, ImageStack) - Method in class inra.ijpb.morphology.geodrec.GeodesicReconstructionByErosion3DScanning
Run the reconstruction by dilation algorithm using the images specified as argument.
applyTo(ImageStack, ImageStack) - Method in class inra.ijpb.morphology.geodrec.GeodesicReconstructionByErosion3DScanningGray8
Run the reconstruction by dilation algorithm using the images specified as argument.
applyTo(ImageStack, ImageStack) - Method in enum inra.ijpb.plugins.ImposeMinAndMax3DPlugin.Operation
Process to image given as argument.
applyTo(ImageStack, ImageStack, int) - Method in enum inra.ijpb.plugins.ImposeMinAndMax3DPlugin.Operation
Process to image given as argument.
applyTo(ImageStack, ImageStack, int) - Method in enum inra.ijpb.plugins.MorphologicalReconstruction3DPlugin.Operation
Process to image given as argument.
applyTo(ImageStack, ImageStack, ImageStack) - Method in interface inra.ijpb.morphology.geodrec.GeodesicReconstruction3DAlgo
Applies the geodesic reconstruction algorithm to the input marker and mask images, restricted by a binary mask.
applyTo(ImageStack, ImageStack, ImageStack) - Method in class inra.ijpb.morphology.geodrec.GeodesicReconstruction3DHybrid0Float
Run the reconstruction by dilation algorithm using the images specified as argument.
applyTo(ImageStack, ImageStack, ImageStack) - Method in class inra.ijpb.morphology.geodrec.GeodesicReconstruction3DHybrid0Gray16
Run the reconstruction by dilation algorithm using the images specified as argument.
applyTo(ImageStack, ImageStack, ImageStack) - Method in class inra.ijpb.morphology.geodrec.GeodesicReconstruction3DHybrid0Gray8
Run the reconstruction by dilation algorithm using the images specified as argument.
applyTo(ImageStack, ImageStack, ImageStack) - Method in class inra.ijpb.morphology.geodrec.GeodesicReconstruction3DHybrid1Image3D
Run the reconstruction by dilation algorithm using the images specified as argument.
applyTo(ImageStack, ImageStack, ImageStack) - Method in class inra.ijpb.morphology.geodrec.GeodesicReconstructionByDilation3D
 
applyTo(ImageStack, ImageStack, ImageStack) - Method in class inra.ijpb.morphology.geodrec.GeodesicReconstructionByDilation3DGray8
 
applyTo(ImageStack, ImageStack, ImageStack) - Method in class inra.ijpb.morphology.geodrec.GeodesicReconstructionByDilation3DScanning
Run the reconstruction by dilation algorithm using the images specified as argument.
applyTo(ImageStack, ImageStack, ImageStack) - Method in class inra.ijpb.morphology.geodrec.GeodesicReconstructionByDilation3DScanningGray8
Run the reconstruction by dilation algorithm using the images specified as argument.
applyTo(ImageStack, ImageStack, ImageStack) - Method in class inra.ijpb.morphology.geodrec.GeodesicReconstructionByErosion3DGray8
 
applyTo(ImageStack, ImageStack, ImageStack) - Method in class inra.ijpb.morphology.geodrec.GeodesicReconstructionByErosion3DScanning
Run the reconstruction by dilation algorithm using the images specified as argument.
applyTo(ImageStack, ImageStack, ImageStack) - Method in class inra.ijpb.morphology.geodrec.GeodesicReconstructionByErosion3DScanningGray8
 
applyTo(ImageProcessor) - Method in class inra.ijpb.morphology.extrema.RegionalExtremaAlgo
Applies this regional extrema algorithm on the image given as argument, and returns the result as a binary image.
applyTo(ImageProcessor) - Method in class inra.ijpb.morphology.extrema.RegionalExtremaByFlooding
 
applyTo(ImageProcessor, ImageProcessor) - Method in interface inra.ijpb.morphology.geodrec.GeodesicReconstructionAlgo
Applies the geodesic reconstruction algorithm to the input marker and mask images.
applyTo(ImageProcessor, ImageProcessor) - Method in class inra.ijpb.morphology.geodrec.GeodesicReconstructionByDilation
Run the reconstruction by dilation algorithm using the images specified as argument.
applyTo(ImageProcessor, ImageProcessor) - Method in class inra.ijpb.morphology.geodrec.GeodesicReconstructionByErosion
Run the reconstruction by erosion algorithm using the images specified as argument.
applyTo(ImageProcessor, ImageProcessor) - Method in class inra.ijpb.morphology.geodrec.GeodesicReconstructionHybrid
Run the geodesic reconstruction algorithm using the specified images as argument.
applyTo(ImageProcessor, ImageProcessor) - Method in class inra.ijpb.morphology.geodrec.GeodesicReconstructionScanning
Run the reconstruction by dilation algorithm using the images specified as argument.
applyTo(ImageProcessor, ImageProcessor) - Method in enum inra.ijpb.plugins.ImposeMinAndMaxPlugin.Operation
Process to image given as argument.
applyTo(ImageProcessor, ImageProcessor, int) - Method in enum inra.ijpb.plugins.ImposeMinAndMaxPlugin.Operation
Process to image given as argument.
applyTo(ImageProcessor, ImageProcessor, int) - Method in enum inra.ijpb.plugins.MorphologicalReconstructionPlugin.Operation
Process to image given as argument.
applyTo(ImageProcessor, ImageProcessor, Connectivity2D) - Method in enum inra.ijpb.plugins.ImposeMinAndMaxPlugin.Operation
Process to image given as argument.
applyTo(ImageProcessor, ImageProcessor, Connectivity2D) - Method in enum inra.ijpb.plugins.MorphologicalReconstructionPlugin.Operation
Process to image given as argument.
applyToOld(ImageStack, ImageStack) - Method in class inra.ijpb.morphology.geodrec.GeodesicReconstructionByDilation3DGray8
Run the reconstruction by dilation algorithm using the images specified as argument.
applyToTmp(ImageStack, ImageStack) - Method in class inra.ijpb.morphology.geodrec.GeodesicReconstructionByDilation3DGray8
Run the reconstruction by dilation algorithm using the images specified as argument.
applyWithPriorityQueue() - Method in class inra.ijpb.watershed.MarkerControlledWatershedTransform2D
Apply watershed transform on inputImage, using the labeled markers from markerImage and restricted to the white areas of maskImage.
applyWithPriorityQueue() - Method in class inra.ijpb.watershed.MarkerControlledWatershedTransform3D
Apply watershed transform on inputImage, using the labeled markers from markerImage and restricted to the white areas of maskImage.
applyWithPriorityQueueAndDams() - Method in class inra.ijpb.watershed.MarkerControlledWatershedTransform2D
Apply watershed transform on inputImage, using the labeled markers from markerImage and restricted to the white areas of maskImage (optionally).
applyWithPriorityQueueAndDams() - Method in class inra.ijpb.watershed.MarkerControlledWatershedTransform3D
Apply watershed transform on inputImage, using the labeled markers from markerImage and restricted to the white areas of maskImage (optionally).
applyWithSortedList() - Method in class inra.ijpb.watershed.MarkerControlledWatershedTransform2D
Deprecated.
The algorithm with a sorted list does not visit the pixels based on their h value and proximity to markers so it is not a true watershed method.
applyWithSortedList() - Method in class inra.ijpb.watershed.MarkerControlledWatershedTransform3D
Deprecated.
The algorithm with a sorted list does not visit the voxels based on their h value and proximity to markers so it is not a true watershed method.
applyWithSortedListAndDams() - Method in class inra.ijpb.watershed.MarkerControlledWatershedTransform2D
Deprecated.
The algorithm with a sorted list does not visit the pixels based on their h value and proximity to markers so it is not a true watershed method.
applyWithSortedListAndDams() - Method in class inra.ijpb.watershed.MarkerControlledWatershedTransform3D
Deprecated.
The algorithm with a sorted list does not visit the voxels based on their h value and proximity to markers so it is not a true watershed method.
area - Variable in class inra.ijpb.measure.region2d.Convexity.Result
The area of the region in the original image.
area - Variable in class inra.ijpb.measure.region2d.IntrinsicVolumesAnalyzer2D.Result
the area of the region.
area() - Method in class inra.ijpb.geometry.Box2D
Computes the area of this bounding box.
area() - Method in class inra.ijpb.geometry.Circle2D
 
area() - Method in class inra.ijpb.geometry.Ellipse
 
area() - Method in class inra.ijpb.geometry.OrientedBox2D
Computes the area of this box.
area() - Method in class inra.ijpb.geometry.Polygon2D
Computes the area of this polygon
area(ImageProcessor, int[], double[]) - Static method in class inra.ijpb.measure.GeometricMeasures2D
area(ImageProcessor, Calibration) - Static method in class inra.ijpb.measure.IntrinsicVolumes2D
Measures the area of the foreground region within a binary image.
areaDensity(ImageProcessor) - Static method in class inra.ijpb.measure.IntrinsicVolumes2D
Computes the area density for the 2D binary microstructure.
areaLut(Calibration) - Static method in class inra.ijpb.measure.region2d.IntrinsicVolumes2DUtils
Computes the Look-up table that is used for computing area.
areaLut(Calibration) - Static method in class inra.ijpb.measure.region2d.IntrinsicVolumesAnalyzer2D
Deprecated.
use IntrinsicVolumes2DUtils instead
areaOpening(ImageProcessor, int) - Static method in class inra.ijpb.binary.BinaryImages
Applies area opening on a binary image: creates a new binary image that contains only particles with at least the specified number of pixels.
areaOpening(ImageProcessor, int) - Static method in class inra.ijpb.label.LabelImages
Applies area opening on a label image: creates a new label image that contains only particles with at least the specified number of pixels.
areaOpening(ImageProcessor, int) - Static method in class inra.ijpb.morphology.AttributeFiltering
Applies grayscale area opening on input image, by retaining only the connected components that contain at least the specified number of pixels.
AreaOpening - Interface in inra.ijpb.morphology.attrfilt
Area opening for gray level images.
AreaOpeningNaive - Class in inra.ijpb.morphology.attrfilt
Computes area opening using naive algorithm.
AreaOpeningNaive() - Constructor for class inra.ijpb.morphology.attrfilt.AreaOpeningNaive
 
AreaOpeningPlugin - Class in inra.ijpb.plugins
Select binary particles in a planar image based on number of pixels.
AreaOpeningPlugin() - Constructor for class inra.ijpb.plugins.AreaOpeningPlugin
 
AreaOpeningQueue - Class in inra.ijpb.morphology.attrfilt
Area opening using priority queue for updating each regional maxima.
AreaOpeningQueue() - Constructor for class inra.ijpb.morphology.attrfilt.AreaOpeningQueue
 
areas(ImageProcessor, int[], Calibration) - Static method in class inra.ijpb.measure.IntrinsicVolumes2D
Measures the area of each region within a label image, taking into account image resolution.
AttributeFiltering - Class in inra.ijpb.morphology
Several static methods for computation of attribute filtering (opening, thinning...) on gray level images.
AttributeFiltering() - Constructor for class inra.ijpb.morphology.AttributeFiltering
 
AverageThickness - Class in inra.ijpb.measure.region2d
Compute average thickness of a binary region, or of each region in a label image.
AverageThickness() - Constructor for class inra.ijpb.measure.region2d.AverageThickness
 
AverageThickness.Result - Class in inra.ijpb.measure.region2d
Inner class used for representing results of average thickness computations.
AverageThicknessPlugin - Class in inra.ijpb.plugins
 
AverageThicknessPlugin() - Constructor for class inra.ijpb.plugins.AverageThicknessPlugin
 
avgThickness - Variable in class inra.ijpb.measure.region2d.AverageThickness.Result
Average thickness value computed from the average distance.
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