| Class | Description |
|---|---|
| AnalyzeMicrostructure3D |
Plugin for computing densities of 3D intrinsic volumes (volume, surface area,
mean breadth and Euler number) from 3D binary images.
|
| AnalyzeRegions |
Plugin for computing morphological feature of regions from label images.
|
| AnalyzeRegions.Features |
The list of features to compute.
|
| AnalyzeRegions3D |
Plugin for measuring geometric quantities such as volume, surface area,
and eventually sphericity index.
|
| AreaOpeningPlugin |
Select binary particles in a planar image based on number of pixels.
|
| AverageThicknessPlugin | |
| BinaryOrLabelOverlayPlugin |
Display a label map or a binary image as overlay onto a grayscale image.
|
| BinaryOverlayPlugin | |
| BoundingBox3DPlugin |
Plugin for measuring extend of 3D bounding box from label images.
|
| BoundingBoxPlugin |
Plugin for computing (2D) bounding box of regions from label images.
|
| ChamferDistanceMap3DPlugin |
Compute 3D distance map, with possibility to choose the chamfer mask, the
result type (integer or floating point), and to normalize result or not.
|
| ChamferDistanceMapPlugin |
Compute distance map, with possibility to choose the chamfer mask, the result
type (integer or floating point), and to normalize result or not.
|
| ConvexifyPlugin |
Computes the Convex equivalent of a binary image.
|
| CropLabelPlugin |
Crops a label image and binarize it to contain only the specified label.
|
| DilateLabelsPlugin |
Dilate all labels within a label image.
|
| DirectionalFilteringPlugin |
Plugin for computing directional filtering.
|
| DistanceTransformWatershed |
This plugin computes watershed on the inverse of the distance map of a
binary image.
|
| DistanceTransformWatershed3D |
This plugin computes watershed on the inverse of the distance map of a 3D
binary image.
|
| DrawLabelsAsOverlayPlugin |
Draw the labels of the regions as overlay.
|
| DrawTableValuesPlugin |
Draw the values of a results table column into current image, using specified
columns for x and y positions.
|
| EquivalentEllipsePlugin |
Computes equivalent ellipse of each region within a label image.
|
| EquivalentEllipsoidPlugin |
Computes equivalent ellipsoid for each region with a binary or label 3D
image.
|
| ExpandLabelsPlugin |
Creates a new image larger than the original one, and copies each label identically
but shifted by a given dilation coefficient.
|
| ExtendBordersPlugin |
Pads the current image with the specified value or color.
|
| ExtendedMinAndMax3DPlugin |
Plugin for computing regional minima and maxima in grayscale images.
|
| ExtendedMinAndMaxPlugin |
Plugin for computing extended minima and maxima in grayscale images.
|
| FillHolesPlugin |
Plugin for filling holes (dark holes within bright structures) in 8-bits
grayscale or binary 2D/3D images.
|
| FillLabelHolesPlugin |
Fills the holes within the region of a label image.
|
| GeodesicDiameter3DPlugin |
Plugin for computing geodesic distances of 3D particles from label images
using chamfer weights.
|
| GeodesicDiameterPlugin |
Plugin for computing geodesic distances of labeled particles using chamfer
weights.
|
| GeodesicDistanceMap3D | Deprecated
use GeodesicDistanceMap3DPlugin instead
|
| GeodesicDistanceMap3DPlugin |
Plugin for computing geodesic distance map from binary 3D images using
chamfer weights.
|
| GeodesicDistanceMapPlugin |
Plugin for computing geodesic distance map from binary marker and constrained
to binary or label images using chamfer distances propagation.
|
| GrayscaleAreaOpeningPlugin |
Select binary particles in a planar image based on number of pixels.
|
| GrayscaleAttributeFiltering3D |
Plugin to perform between attribute opening, closing, and black or white
top-hat on a 3D grayscale image.
|
| GrayscaleAttributeFilteringPlugin |
Select binary particles in a planar image based on number of pixels.
|
| GrayscaleBoxDiameterOpeningPlugin |
Select binary particles in a planar image based on number of pixels.
|
| ImposeMinAndMax3DPlugin |
Plugin for imposing minima or maxima on a grayscale 3D image, using a specific
connectivity.
|
| ImposeMinAndMaxPlugin |
Plugin for imposing minima or maxima on a grayscale image, using a specific
connectivity.
|
| InertiaEllipsePlugin | Deprecated
replaced by EquivalentEllipsePlugin (since 1.4.2).
|
| InertiaEllipsoidPlugin | Deprecated
replaced by EquivalentEllipsoidPlugin (since 1.4.1)
|
| IntensityMeasures3D |
This class implements a set of photometric (intensity) measurements over
an input grayscale image (2D or 3D) and its set of corresponding labels.
|
| InteractiveGeodesicDistanceMap |
Plugin for computing geodesic distance map from binary images using chamfer
weights.
|
| InteractiveMarkerControlledWatershed |
Plugin to perform automatic segmentation of 2D and 3D images
using marker-controlled watershed with manually selected seeds.
|
| InteractiveMorphologicalReconstruction |
Plugin for performing interactive morphological reconstruction by dilation or
by erosion on grayscale images.
|
| InteractiveMorphologicalReconstruction3D |
Plugin for performing interactive geodesic reconstruction by dilation erosion
on grayscale images.
|
| InterfaceSurfaceArea3D |
Plugin for measuring the surface area of the interface between two labels
within a 3D label image.
|
| KeepLargestLabelPlugin |
Removes all the labels in a 2D/3D image but the largest one.
|
| KeepLargestRegionPlugin |
Removes all the regions in a binary 2D or 3D image but the largest one.
|
| KillBordersPlugin |
Plugin for removing borders in 8-bits grayscale or binary 2D or 3D image.
|
| LabelAreaOpeningPlugin | |
| LabelBoundariesPlugin | |
| LabelEdition |
Plugin for the manual edition of label images (2D and 3D).
|
| LabelingPlugin |
Computes label image of connected components in a binary planar image or 3D
stack.
|
| LabelMapMorphologicalFilteringPlugin |
Applies morphological filtering on a label image.
|
| LabelOverlapMeasures |
This class implements a plugin to calculate overlap measurements over
an source and a target label image (2D or 3D).
|
| LabelSizeFilteringPlugin |
Filter labels within a label image using a size criterion.
|
| LabelToRgbPlugin |
Creates a new Color Image that associate a given color to each label of the input image.
|
| LabelToValuePlugin |
Combines a label image and the values within a column of a results table to
create a new image with intensity corresponding to the vales in the table
column.
|
| MarkerControlledWatershed3DPlugin |
A plugin to perform marker-controlled watershed on a 2D or 3D image.
|
| MaxFeretDiameterPlugin |
Computes Maximum Feret Diameters of a binary or label image.
|
| MaxInscribedCirclePlugin |
Plugin for max inscribed circle of regions from label images.
|
| MaxInscribedSpherePlugin |
Plugin for computing largest inscribed balls within 3D regions.
|
| MergeLabelsPlugin | |
| MicrostructureAnalysisPlugin |
Plugin for quantifying microstructures from binary or label images.
|
| MorphologicalFilter3DPlugin |
Various morphological filters for 3D images.
|
| MorphologicalFilterCross3DPlugin |
A simple plugin to test the Cross 3D strel.
|
| MorphologicalFilterPlugin |
Plugin for computing various morphological filters on gray scale or color
images.
|
| MorphologicalReconstruction3DPlugin |
Plugin for performing geodesic reconstruction by dimation or by erosion on
grayscale images.
|
| MorphologicalReconstructionPlugin |
Plugin for performing morphological reconstruction by dilation or by erosion
on grayscale images.
|
| MorphologicalSegmentation |
Plugin to perform automatic segmentation of 2D and 3D images
based on morphological operations, mainly extended minima
and watershed transforms.
|
| NeighborLabelsPlugin |
Extract the neighbor regions within a label image from a region label, or a
list of region labels.
|
| OrientedBoundingBoxPlugin |
Plugin for computing oriented bounding box.
|
| ParticleAnalysis3DPlugin | Deprecated
replaced by AnalyzeRegions3D
|
| RegionAdjacencyGraphPlugin | |
| RegionalMinAndMax3DPlugin |
Plugin for computing regional minima and maxima in grayscale images.
|
| RegionalMinAndMaxPlugin |
Plugin for computing regional minima and maxima in grayscale images.
|
| RegionBoundariesLabelingPlugin | |
| RegionMorphometryPlugin | Deprecated
replaced by AnalyzeRegions
|
| RemapLabelsPlugin |
Ensures the labels in the current label image are numbered between 1 and
LMax, where LMax is the number of labels.
|
| RemoveBorderLabelsPlugin |
Removes all labels that touch the selected border, and replace them with value 0.
|
| RemoveLargestLabelPlugin |
Removes all the labels in a 2D/3D image but the largest one.
|
| RemoveLargestRegionPlugin |
Removes the largest region of a binary 2D or 3D image.
|
| ReplaceLabelValuesPlugin |
Replaces the value of selected label(s) by a given value,
for 2D/3D images, for gray8, gray16 and float images.
|
| ReplaceValuePlugin |
Simple plugin to replace a value by another one, for 2D/3D images, for
gray8, gray16 and float images.
|
| SelectLabelsPlugin |
Creates a new binary image containing only the selected label(s).
|
| SetLabelMapPlugin |
Changes the current LUT such that each label is associated to a different
color, and specifies color of background.
|
| SizeOpeningPlugin |
Select binary particles in a 2D or 3D image based on number of pixels.
|
| Watershed3DPlugin |
A plugin to perform watershed on a 3D image using flooding simulations,
as described by Soille, Pierre, and Luc M.
|
| Enum | Description |
|---|---|
| Connectivity2D |
An enumeration of connectivity options for 2D Mathematical Morphology
operators.
|
| Connectivity3D |
An enumeration of connectivity options for 3D Mathematical Morphology
operators.
|
| ExtendedMinAndMax3DPlugin.Operation |
A customized enumeration to choose between extended minima or maxima.
|
| ExtendedMinAndMaxPlugin.Operation |
A customized enumeration to choose between extended minima or maxima.
|
| ImposeMinAndMax3DPlugin.Operation |
A customized enumeration to choose between minima or maxima imposition.
|
| ImposeMinAndMaxPlugin.Operation |
A customized enumeration to choose between minima or maxima imposition.
|
| InteractiveMarkerControlledWatershed.ResultMode |
enumeration of result modes
|
| LabelMapMorphologicalFilteringPlugin.Operation |
A pre-defined set of basis morphological operations, that can be easily
used with a GenericDialog.
|
| LabelSizeFilteringPlugin.Operation |
A pre-defined set of Labels for populating plugin.
|
| MorphologicalReconstruction3DPlugin.Operation |
A pre-defined set of operations for geodesic reconstruction.
|
| MorphologicalReconstructionPlugin.Operation |
A pre-defined set of operations for geodesic reconstruction.
|
| MorphologicalSegmentation.ResultMode |
enumeration of result modes
|
| RegionalMinAndMax3DPlugin.Operation |
A customized enumeration to choose between regional minima or maxima.
|
| RegionalMinAndMaxPlugin.Operation |
A customized enumeration to choose between regional minima or maxima.
|
Contains plugins, for integration with ImageJ GUI.
The file defining the plugin arborescence in menu is located in
src/main/resources/plugins.config.
Copyright © 2014–2023 INRA-IJPB Modeling and Digital Imaging lab. All rights reserved.