I-Index

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I

ICE - inra.ijpb.color.ColorMaps.CommonLabelMaps: Colormap containing blue-white values
IJUtils - Class in inra.ijpb.util: A collection of utility methods for interacting with ImageJ.
Image3D - Interface in inra.ijpb.data.image: Interface for accessing the values of a 3D stack.
ImageCalculator - Class in inra.ijpb.math: Provides some methods for combining two images, in a more comprehensive way than standard ImageJ, and providing the possibility of defining its own local operation.
ImageCalculator() - Constructor for class inra.ijpb.math.ImageCalculator
ImageCalculator.Operation - Interface in inra.ijpb.math: General interface for defining an operation that combines the values of two pixels to create a new one.
ImageJSkeleton - Class in inra.ijpb.binary.skeleton: Adaptation of the skeletonization code from ImageJ.
ImageJSkeleton() - Constructor for class inra.ijpb.binary.skeleton.ImageJSkeleton: Creates a new skeletonizer.
Images3D - Class in inra.ijpb.data.image: A collection of static methods for working on 3D images.
ImageShape - Class in inra.ijpb.shape: A collection of utility method for processing global shape of images: crop, add borders...
ImageUtils - Class in inra.ijpb.data.image: A collection of static utility methods for processing 2D or 3D images.
IMPOSE_MAXIMA - inra.ijpb.plugins.ImposeMinAndMax3DPlugin.Operation: Imposition of maxima
IMPOSE_MAXIMA - inra.ijpb.plugins.ImposeMinAndMaxPlugin.Operation: Imposition of maxima
IMPOSE_MINIMA - inra.ijpb.plugins.ImposeMinAndMax3DPlugin.Operation: Imposition of minima
IMPOSE_MINIMA - inra.ijpb.plugins.ImposeMinAndMaxPlugin.Operation: Imposition of minima
imposeMaxima(ImageStack, ImageStack) - Static method in class inra.ijpb.morphology.MinimaAndMaxima3D: Imposes the maxima given by marker image into the input image, using the default connectivity.
imposeMaxima(ImageStack, ImageStack, int) - Static method in class inra.ijpb.morphology.MinimaAndMaxima3D: Imposes the maxima given by marker image into the input image, using the specified connectivity.
imposeMaxima(ImageProcessor, ImageProcessor) - Static method in class inra.ijpb.morphology.MinimaAndMaxima: Imposes the maxima given by marker image into the input image, using the default connectivity.
imposeMaxima(ImageProcessor, ImageProcessor, int) - Static method in class inra.ijpb.morphology.MinimaAndMaxima: Imposes the maxima given by marker image into the input image, using the specified connectivity.
ImposeMinAndMax3DPlugin - Class in inra.ijpb.plugins: Plugin for imposing minima or maxima on a grayscale 3D image, using a specific connectivity.
ImposeMinAndMax3DPlugin() - Constructor for class inra.ijpb.plugins.ImposeMinAndMax3DPlugin
ImposeMinAndMax3DPlugin.Operation - Enum in inra.ijpb.plugins: A customized enumeration to choose between minima or maxima imposition.
ImposeMinAndMaxPlugin - Class in inra.ijpb.plugins: Plugin for imposing minima or maxima on a grayscale image, using a specific connectivity.
ImposeMinAndMaxPlugin() - Constructor for class inra.ijpb.plugins.ImposeMinAndMaxPlugin
ImposeMinAndMaxPlugin.Operation - Enum in inra.ijpb.plugins: A customized enumeration to choose between minima or maxima imposition.
imposeMinima(ImageStack, ImageStack) - Static method in class inra.ijpb.morphology.MinimaAndMaxima3D: Imposes the minima given by marker image into the input image, using the default connectivity.
imposeMinima(ImageStack, ImageStack, int) - Static method in class inra.ijpb.morphology.MinimaAndMaxima3D: Imposes the minima given by marker image into the input image, using the specified connectivity.
imposeMinima(ImageProcessor, ImageProcessor) - Static method in class inra.ijpb.morphology.MinimaAndMaxima: Imposes the minima given by marker image into the input image, using the default connectivity.
imposeMinima(ImageProcessor, ImageProcessor, int) - Static method in class inra.ijpb.morphology.MinimaAndMaxima: Imposes the minima given by marker image into the input image, using the specified connectivity.
inertiaEllipse(ImageProcessor) - Static method in class inra.ijpb.measure.GeometricMeasures2D: Deprecated.
use inra.ijpb.measure.region2d.InertiaEllipse instead
InertiaEllipse - Class in inra.ijpb.measure.region2d: Deprecated.
Replaced by EquivalentEllipse (since 1.4.2)
InertiaEllipse() - Constructor for class inra.ijpb.measure.region2d.InertiaEllipse: Deprecated.

Default constructor
InertiaEllipsePlugin - Class in inra.ijpb.plugins: Deprecated.
replaced by EquivalentEllipsePlugin (since 1.4.2).
InertiaEllipsePlugin() - Constructor for class inra.ijpb.plugins.InertiaEllipsePlugin: Deprecated.
inertiaEllipses(ImageProcessor, int[], Calibration) - Static method in class inra.ijpb.measure.region2d.InertiaEllipse: Deprecated.

Computes inertia ellipse of each region in input label image.
inertiaEllipsoid(ImageStack) - Static method in class inra.ijpb.measure.GeometricMeasures3D: Deprecated.
use InertiaEllipsoid instead
inertiaEllipsoid(ImageStack, double[]) - Static method in class inra.ijpb.measure.GeometricMeasures3D: Deprecated.
use InertiaEllipsoid instead
inertiaEllipsoid(ImageStack, int[], double[]) - Static method in class inra.ijpb.measure.GeometricMeasures3D: Deprecated.
use InertiaEllipsoid instead
InertiaEllipsoid - Class in inra.ijpb.measure.region3d: Deprecated.
replaced by EquivalentEllipsoid (since 1.4.1)
InertiaEllipsoid() - Constructor for class inra.ijpb.measure.region3d.InertiaEllipsoid: Deprecated.

Default constructor
InertiaEllipsoid.InertiaMoments3D - Class in inra.ijpb.measure.region3d: Deprecated.

Inner class for storing result if moments computation.
InertiaEllipsoidPlugin - Class in inra.ijpb.plugins: Deprecated.
replaced by EquivalentEllipsoidPlugin (since 1.4.1)
InertiaEllipsoidPlugin() - Constructor for class inra.ijpb.plugins.InertiaEllipsoidPlugin: Deprecated.
inertiaEllipsoids(ImageStack, int[], Calibration) - Static method in class inra.ijpb.measure.region3d.InertiaEllipsoid: Deprecated.

Computes inertia ellipsoid of each region in the input 3D label image.
InertiaMoments3D() - Constructor for class inra.ijpb.measure.region3d.InertiaEllipsoid.InertiaMoments3D: Deprecated.
initialPoint - Variable in class inra.ijpb.measure.region2d.GeodesicDiameter.Result: The initial point used for propagating distances, corresponding the center of one of the minimum inscribed circles.
initialPoint - Variable in class inra.ijpb.measure.region3d.GeodesicDiameter3D.Result: The initial point used for propagating distances, corresponding the center of one of the minimum inscribed circles.
innerRadius - Variable in class inra.ijpb.measure.region2d.GeodesicDiameter.Result: The radius of the largest inner circle.
innerRadius - Variable in class inra.ijpb.measure.region3d.GeodesicDiameter3D.Result: The radius of the largest inner ball.
inPlaceDilation(ImageStack) - Method in class inra.ijpb.morphology.strel.AbstractInPlaceStrel
inPlaceDilation(ImageStack) - Method in interface inra.ijpb.morphology.strel.InPlaceStrel3D: Performs dilation of the stack given as argument, and stores the result in the same image.
inPlaceDilation(ImageStack) - Method in class inra.ijpb.morphology.strel.LinearDepthStrel3D
inPlaceDilation(ImageProcessor) - Method in class inra.ijpb.morphology.strel.Cross3x3Strel
inPlaceDilation(ImageProcessor) - Method in class inra.ijpb.morphology.strel.DiskStrel: Performs in-place dilation with a disk structuring element by calling the ImageJ native RankFilters algorithm, using RankFilters.MAX option.
inPlaceDilation(ImageProcessor) - Method in interface inra.ijpb.morphology.strel.InPlaceStrel: Performs dilation of the image given as argument, and stores the result in the same image.
inPlaceDilation(ImageProcessor) - Method in class inra.ijpb.morphology.strel.LinearDiagDownStrel
inPlaceDilation(ImageProcessor) - Method in class inra.ijpb.morphology.strel.LinearDiagUpStrel
inPlaceDilation(ImageProcessor) - Method in class inra.ijpb.morphology.strel.LinearHorizontalStrel
inPlaceDilation(ImageProcessor) - Method in class inra.ijpb.morphology.strel.LinearVerticalStrel
inPlaceErosion(ImageStack) - Method in class inra.ijpb.morphology.strel.AbstractInPlaceStrel
inPlaceErosion(ImageStack) - Method in interface inra.ijpb.morphology.strel.InPlaceStrel3D: Performs erosion of the image given as argument, and stores the result in the same image.
inPlaceErosion(ImageStack) - Method in class inra.ijpb.morphology.strel.LinearDepthStrel3D
inPlaceErosion(ImageProcessor) - Method in class inra.ijpb.morphology.strel.Cross3x3Strel
inPlaceErosion(ImageProcessor) - Method in class inra.ijpb.morphology.strel.DiskStrel: Performs in-place erosion with a disk structuring element by calling the ImageJ native RankFilters algorithm, using RankFilters.MIN option.
inPlaceErosion(ImageProcessor) - Method in interface inra.ijpb.morphology.strel.InPlaceStrel: Performs erosion of the image given as argument, and stores the result in the same image.
inPlaceErosion(ImageProcessor) - Method in class inra.ijpb.morphology.strel.LinearDiagDownStrel
inPlaceErosion(ImageProcessor) - Method in class inra.ijpb.morphology.strel.LinearDiagUpStrel
inPlaceErosion(ImageProcessor) - Method in class inra.ijpb.morphology.strel.LinearHorizontalStrel
inPlaceErosion(ImageProcessor) - Method in class inra.ijpb.morphology.strel.LinearVerticalStrel
InPlaceStrel - Interface in inra.ijpb.morphology.strel: A structuring element that can performs erosion or dilation directly in the original image buffer.
InPlaceStrel3D - Interface in inra.ijpb.morphology.strel: A structuring element that can performs erosion or dilation directly in the original image stack.
inra.ijpb.algo - package inra.ijpb.algo: Several classes for managing progress of algorithms.
inra.ijpb.label.edit - package inra.ijpb.label.edit: Processing classes for edition of label images.
inra.ijpb.morphology.directional - package inra.ijpb.morphology.directional: Morphological directional filters.
inra.ijpb.morphology.filter - package inra.ijpb.morphology.filter: Morphological filtering operators implemented as classes.
inra.ijpb.segment - package inra.ijpb.segment: Aims at gathering various segmentation algorithms.
inra.ijpb.shape - package inra.ijpb.shape: Operators for changing the "shape" of images: crop, padd, rotate...
inra.ijpb.watershed - package inra.ijpb.watershed: Image segmentation using a marker-controlled watershed transform.
IntensityMeasures - Class in inra.ijpb.measure: Class to facilitate the calculation of intensity measures by grouping together voxels belonging to the same label.
IntensityMeasures(ImagePlus, ImagePlus) - Constructor for class inra.ijpb.measure.IntensityMeasures: Initialize the measurements by reading the input (grayscale) image and its corresponding labels.
IntensityMeasures3D - Class in inra.ijpb.plugins: This class implements a set of photometric (intensity) measurements over an input grayscale image (2D or 3D) and its set of corresponding labels.
IntensityMeasures3D() - Constructor for class inra.ijpb.plugins.IntensityMeasures3D
InteractiveGeodesicDistanceMap - Class in inra.ijpb.plugins: Plugin for computing geodesic distance map from binary images using chamfer weights.
InteractiveGeodesicDistanceMap() - Constructor for class inra.ijpb.plugins.InteractiveGeodesicDistanceMap
InteractiveMarkerControlledWatershed - Class in inra.ijpb.plugins: Plugin to perform automatic segmentation of 2D and 3D images using marker-controlled watershed with manually selected seeds.
InteractiveMarkerControlledWatershed() - Constructor for class inra.ijpb.plugins.InteractiveMarkerControlledWatershed
InteractiveMarkerControlledWatershed.ResultMode - Enum in inra.ijpb.plugins: enumeration of result modes
InteractiveMorphologicalReconstruction - Class in inra.ijpb.plugins: Plugin for performing interactive morphological reconstruction by dilation or by erosion on grayscale images.
InteractiveMorphologicalReconstruction() - Constructor for class inra.ijpb.plugins.InteractiveMorphologicalReconstruction
InteractiveMorphologicalReconstruction3D - Class in inra.ijpb.plugins: Plugin for performing interactive geodesic reconstruction by dilation erosion on grayscale images.
InteractiveMorphologicalReconstruction3D() - Constructor for class inra.ijpb.plugins.InteractiveMorphologicalReconstruction3D
interfaceSurfaceArea(ImageStack, int, int, Calibration, int) - Static method in class inra.ijpb.measure.IntrinsicVolumes3D: Measures the surface area of the interface between two regions in a 3D label image.
InterfaceSurfaceArea - Class in inra.ijpb.measure.region3d: Computes the surface area of the interface between two labels.
InterfaceSurfaceArea() - Constructor for class inra.ijpb.measure.region3d.InterfaceSurfaceArea: Default empty constructor.
InterfaceSurfaceArea(int) - Constructor for class inra.ijpb.measure.region3d.InterfaceSurfaceArea: Constructor that specifies the number of directions to use.
InterfaceSurfaceArea3D - Class in inra.ijpb.plugins: Plugin for measuring the surface area of the interface between two labels within a 3D label image.
InterfaceSurfaceArea3D() - Constructor for class inra.ijpb.plugins.InterfaceSurfaceArea3D
INTERNAL_GRADIENT - inra.ijpb.morphology.Morphology.Operation: Morphological internal gradient (difference of dilation with original image)
internalGradient(ImagePlus, Strel3D) - Static method in class inra.ijpb.morphology.Morphology: Computes the morphological internal gradient of the input image.
internalGradient(ImageStack, Strel3D) - Static method in class inra.ijpb.morphology.Morphology: Computes the morphological internal gradient of the 3D input image.
internalGradient(ImageProcessor, Strel) - Static method in class inra.ijpb.morphology.Morphology: Computes the morphological internal gradient of the input image.
InternalGradient - Class in inra.ijpb.morphology.filter: Computes the morphological internal gradient of the input image.
InternalGradient(Strel3D) - Constructor for class inra.ijpb.morphology.filter.InternalGradient: Creates a new Internal Gradient operator with the specified structuring element.
interpolateLut(byte[][], int) - Static method in class inra.ijpb.color.ColorMaps: Interpolates between LUT values such that the result array has the specified number of colors.
IntrinsicVolumes2D - Class in inra.ijpb.measure: Computation of intrinsic volumes(area, perimeter, Euler number) in planar binary or label images.
IntrinsicVolumes2DUtils - Class in inra.ijpb.measure.region2d: Utility functions for classes that compute 2D intrinsic volumes measures.
IntrinsicVolumes3D - Class in inra.ijpb.measure: Collection of static classes for the computation of intrinsic volumes (volume, surface area, mean breadth and Euler number) for binary or label 3D images.
IntrinsicVolumes3DUtils - Class in inra.ijpb.measure.region3d: Utility functions for classes that compute 3D intrinsic volumes measures.
IntrinsicVolumesAnalyzer2D - Class in inra.ijpb.measure.region2d: Computation of intrinsic volumes (area, perimeter and Euler number) for binary or label 2D images.
IntrinsicVolumesAnalyzer2D() - Constructor for class inra.ijpb.measure.region2d.IntrinsicVolumesAnalyzer2D: Default empty constructor.
IntrinsicVolumesAnalyzer2D.Result - Class in inra.ijpb.measure.region2d: Inner class for storing results.
IntrinsicVolumesAnalyzer3D - Class in inra.ijpb.measure.region3d: Computation of intrinsic volumes (Volume, Surface Area, Mean Breadth and Euler Number) for 3D binary or label images, based on the RegionAnalyzer3D interface.
IntrinsicVolumesAnalyzer3D() - Constructor for class inra.ijpb.measure.region3d.IntrinsicVolumesAnalyzer3D: Default empty constructor.
IntrinsicVolumesAnalyzer3D.Result - Class in inra.ijpb.measure.region3d: Inner class for storing results.
invert() - Method in class inra.ijpb.geometry.Polygon2D: Computes the complementary polygon, whose interior is the exterior of this polygon.
invert(ImageStack) - Static method in class inra.ijpb.data.image.Images3D: Inverts the values of a 3D image
isBinaryImage(ImagePlus) - Static method in class inra.ijpb.binary.BinaryImages: Check if input image is binary (8-bit with only 0 or 255 values)
isBinaryImage(ImageProcessor) - Static method in class inra.ijpb.binary.BinaryImages: Check if input image is binary (8-bit with only 0 or 255 values)
isColorImage(ImagePlus) - Static method in class inra.ijpb.data.image.ImageUtils: Checks if the specified image is a color image.
isLabelImageType(ImagePlus) - Static method in class inra.ijpb.label.LabelImages: Checks if the input image may be a label image, and returns false if the type is not valid for label images.
isProgressVisible() - Method in class inra.ijpb.morphology.extrema.RegionalExtrema3DAlgo: Returns the value of progress visibility option.
isProgressVisible() - Method in class inra.ijpb.morphology.extrema.RegionalExtremaAlgo: Returns the value of progress visibility option.
isSameSize(ImagePlus, ImagePlus) - Static method in class inra.ijpb.data.image.ImageUtils: Checks if the two input images have the same dimensionality and the same size in each direction.
isSameSize(ImageStack, ImageStack) - Static method in class inra.ijpb.data.image.Images3D: Deprecated.
replaced by ImageUtils.isSameSize(...)
isSameSize(ImageStack, ImageStack) - Static method in class inra.ijpb.data.image.ImageUtils: Checks if the two input 3D images have the same size in each direction.
isSameSize(ImageProcessor, ImageProcessor) - Static method in class inra.ijpb.data.image.ImageUtils: Checks if the two input images have the same size in each direction.
isSameType(ImagePlus, ImagePlus) - Static method in class inra.ijpb.data.image.ImageUtils: Checks if the two input images have the same data type.
isSameType(ImageStack, ImageStack) - Static method in class inra.ijpb.data.image.Images3D: Deprecated.
replaced by ImageUtils.isSameType(...)
isSameType(ImageStack, ImageStack) - Static method in class inra.ijpb.data.image.ImageUtils: Checks if the two input 3D images have the same data type.
isSameType(ImageProcessor, ImageProcessor) - Static method in class inra.ijpb.data.image.ImageUtils: Checks if the two input images have the same data type.
iterator() - Method in class inra.ijpb.geometry.Polygon2D

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