Uses of Package
org.anchoranalysis.image.voxel.object

Packages that use org.anchoranalysis.image.voxel.object
Package
Description
org.anchoranalysis.annotation.io.assignment
A pairing of objects from two collections (bipartite matching).
org.anchoranalysis.annotation.io.assignment.generator
Generates output images to illustrate a Assignment between annotations.
org.anchoranalysis.annotation.io.bean.comparer
What to compare an annotation (ground truth) against?
org.anchoranalysis.annotation.mark
Annotations that use one or more marks to describe entities in an image.
org.anchoranalysis.image.bean.nonbean.init
Classes that aren't AnchorBeans that pertain to the initialization of image-related beans.
org.anchoranalysis.image.bean.object
Beans pertaining to ObjectMask and their collections.
org.anchoranalysis.image.bean.provider
Base classes for providers of different core data entities related to images.
org.anchoranalysis.image.bean.segment.binary
Base classes to perform binary-segmentation.
org.anchoranalysis.image.bean.segment.object
Base classes to segment a channel into objects.
org.anchoranalysis.image.core.channel
The Channel core data-class and related operations and converters.
org.anchoranalysis.image.core.contour
Finds outline voxels, the pixels on the contour/edge of the object.
org.anchoranalysis.image.core.mask
An image with only two permissible states.
org.anchoranalysis.image.core.merge
Merges two or more entities.
org.anchoranalysis.image.core.object
The key data entity org.anchoranalysis.image.voxel.object and related-classes and operations.
org.anchoranalysis.image.core.object.label
Labelling elements (object-masks or similar) with unique successive integers in a channel.
org.anchoranalysis.image.core.object.properties
An ObjectCollection with associated key-value pairs.
org.anchoranalysis.image.core.object.scale
Scaling object-collections, or lists of elements with object-representations.
org.anchoranalysis.image.core.points
Operations that extract points from image data entities or vice versa.
org.anchoranalysis.image.core.stack
Defines the key data object, Stack, and related classes.
org.anchoranalysis.image.feature.input
Image-related implementations of FeatureInput.
org.anchoranalysis.image.inference.bean.reduce
Beans to reduce the number of results that are returned from inference, by removing overlaping entities etc.
org.anchoranalysis.image.inference.bean.segment.instance
Instance-segmentation of a Stack.
org.anchoranalysis.image.inference.segment
Non-beans pertaining to segmentation of images via model inference.
org.anchoranalysis.image.io.object.input
Non-bean classes for reading an ObjectCollection from the filesystem.
org.anchoranalysis.image.io.object.output.grayscale
Writing an ObjectCollection to the filesystem as a single-channeled stack.
org.anchoranalysis.image.io.object.output.hdf5
Writing an ObjectCollection to the filesystem in HDF5 format.
org.anchoranalysis.image.io.object.output.mask
Writing an ObjectCollection to the filesystem as multiple binary singled-channeled images.
org.anchoranalysis.image.io.stack.output.box
Base classes for generators that ultimately write only a bounding-box portion of a Stack to the filesystem.
org.anchoranalysis.image.voxel
Data-structures to store and manipulate image raster-data or voxels.
org.anchoranalysis.image.voxel.arithmetic
Arithmetic operations for Voxels.
org.anchoranalysis.image.voxel.assigner
Assigns values to some or all voxels.
org.anchoranalysis.image.voxel.binary.connected
Creating an ObjectCollection that is a connected component labelling of a BinaryVoxels.
org.anchoranalysis.image.voxel.extracter
Methods to read/copy/duplicate portions of voxels.
org.anchoranalysis.image.voxel.extracter.predicate
Methods to find or count voxels that satisfy a predicate.
org.anchoranalysis.image.voxel.iterator
Utilities to iterate over voxel-locations in images and sub-regions of images.
org.anchoranalysis.image.voxel.iterator.intersecting
Like org.anchoranalysis.image.voxel.iterator but refers to iterators that operation over the intersecting regions of two entities.
org.anchoranalysis.image.voxel.iterator.neighbor
Iterating over a point's neighboring voxels.
org.anchoranalysis.image.voxel.kernel.count
Kernels to count the number of voxels that are equal to a particular value.
org.anchoranalysis.image.voxel.neighborhood
A region in proximity to a voxel, encompassing this voxel as well as others.
org.anchoranalysis.image.voxel.object
The fundamental data class that is an ObjectMask and related structures.
org.anchoranalysis.image.voxel.object.morphological
Morphological operations applied to ObjectMasks.
org.anchoranalysis.image.voxel.thresholder
Thresholding operations on voxels.
org.anchoranalysis.mpp.io.input
Non-beans for reading data structures related to marked point processes from the file system.
org.anchoranalysis.mpp.mark
Non-bean classes related to Marks.
org.anchoranalysis.overlay.object
An implementation of an Overlay that draws an ObjectMask on an image.
org.anchoranalysis.plugin.annotation.bean.comparer
Comparing the similarity of annotations from two images to each other.
org.anchoranalysis.plugin.annotation.bean.comparison
Task to compare a set of annotations to a segmentation or another set of annotations.
org.anchoranalysis.plugin.annotation.bean.comparison.assigner
Pairs annotations from two different sets, creating an assignment of some type.
org.anchoranalysis.plugin.annotation.comparison
Non-bean classes for comparing two sets of annotations.
org.anchoranalysis.plugin.annotation.counter
Utility classes for counting images incrementally.
org.anchoranalysis.plugin.fiji.bean.channel.grayscalereconstruction
Morphological grayscale-reconstruction algorithm.
org.anchoranalysis.plugin.image.bean.channel.provider
Implementations of ChannelProvider that are generic base-classes or otherwise abstract or general.
org.anchoranalysis.plugin.image.bean.channel.provider.intensity
Implementations of ChannelProvider that manipulate the intensity-values of the voxels of a Channel's voxels.
org.anchoranalysis.plugin.image.bean.channel.provider.object
Implementations of ChannelProvider that involve conversion from or application of ObjectMasks.
org.anchoranalysis.plugin.image.bean.channel.provider.score
Implementations of ChannelProvider that assign a score to particular subregions of a channel.
org.anchoranalysis.plugin.image.bean.object.filter
Implementations of ObjectFilter.
org.anchoranalysis.plugin.image.bean.object.filter.collective
Implementations of ObjectFilter that assess each element in a collection collectively.
org.anchoranalysis.plugin.image.bean.object.filter.combine
Implementations of ObjectFilter that combine two or more other ObjectFilters.
org.anchoranalysis.plugin.image.bean.object.filter.independent
Implementations of ObjectFilter that independently assess each element in a collection.
org.anchoranalysis.plugin.image.bean.object.match
Implementations of ObjectMatcher.
org.anchoranalysis.plugin.image.bean.object.provider
Implementations of ObjectCollectionProvider.
org.anchoranalysis.plugin.image.bean.object.provider.connected
Implementations of ObjectCollectionProvider involving connected-components.
org.anchoranalysis.plugin.image.bean.object.provider.feature
Implementations of ObjectCollectionProvider involving feature calculation.
org.anchoranalysis.plugin.image.bean.object.provider.filter
Implementations of ObjectCollectionProvider that filter objects.
org.anchoranalysis.plugin.image.bean.object.provider.mask
Implementations of ObjectCollectionProvider involving a Mask.
org.anchoranalysis.plugin.image.bean.object.provider.merge
Implementations of ObjectCollectionProvider involving merging objects together.
org.anchoranalysis.plugin.image.bean.object.provider.morphological
Implementations of ObjectCollectionProvider involving morphological operations.
org.anchoranalysis.plugin.image.bean.object.provider.segment
Implementations of ObjectCollectionProvider involving segmentation.
org.anchoranalysis.plugin.image.bean.object.provider.slice
Implementations of ObjectCollectionProvider involving z-slice processing.
org.anchoranalysis.plugin.image.bean.object.provider.split
Implementations of ObjectCollectionProvider involving splitting objects into smaller objects.
org.anchoranalysis.plugin.image.bean.object.segment.channel
Implementations of SegmentChannelIntoObjects.
org.anchoranalysis.plugin.image.bean.object.segment.channel.watershed.minima
Minima imposition for a Watershed transformation.
org.anchoranalysis.plugin.image.bean.object.segment.channel.watershed.minima.grayscalereconstruction
Grayscale reconstruction to support the Watershed transformation.
org.anchoranalysis.plugin.image.bean.object.segment.channel.watershed.yeong
Implementation of a Watershed transformation based on Yeong et al. 2009.
org.anchoranalysis.plugin.image.bean.object.segment.reduce
Strategies for reducing the number of elements with a list by merging/removing lower-confidence elements that overlap.
org.anchoranalysis.plugin.image.bean.segment.binary
Implementations of BinarySegmentation.
org.anchoranalysis.plugin.image.bean.stack.provider.color
Implementations of StackProvider that color portions of an image.
org.anchoranalysis.plugin.image.bean.thumbnail.object
Implementations of ThumbnailFromObjects.
org.anchoranalysis.plugin.image.feature.bean.object.combine
Features from combinations of ObjectMasks.
org.anchoranalysis.plugin.image.feature.bean.object.pair.touching
Features that calculate how many other objects an ObjectMask directly neighbors.
org.anchoranalysis.plugin.image.feature.bean.object.single
Implementations of FeatureSingleObject.
org.anchoranalysis.plugin.image.feature.bean.object.single.border
Implementations of FeatureSingleObject that determine if an object lies at the border of an image.
org.anchoranalysis.plugin.image.feature.bean.object.single.energy
Implementations of FeatureSingleObject that reference a particular Channel in the associated EnergyStack.
org.anchoranalysis.plugin.image.feature.bean.object.single.intensity
Implementations of FeatureSingleObject that measure an object's intensity on a corresponding Channel.
org.anchoranalysis.plugin.image.feature.bean.object.single.morphological
Implementations of FeatureSingleObject that implement morphological operations.
org.anchoranalysis.plugin.image.feature.bean.object.single.shared.intersecting
Implementations of FeatureSingleObject that use SharedObjects for calculations, and measure the degree of intersection between objects.
org.anchoranalysis.plugin.image.feature.object.calculation.single
Implementations of CalculationPart that that process a single ObjectMask.
org.anchoranalysis.plugin.image.feature.object.calculation.single.morphological
Implementations of CalculationPart that that process a single ObjectMask - with morphological operations.
org.anchoranalysis.plugin.image.intensity
Non-bean for operations or calculations relating to intensity.
org.anchoranalysis.plugin.image.intensity.level
Non-beans for calculating a thresholding level from itensity values.
org.anchoranalysis.plugin.image.object
Non-beans pertaining to ObjectMasks.
org.anchoranalysis.plugin.image.object.merge
Merging ObjectMasks.
org.anchoranalysis.plugin.image.object.merge.condition
Conditions for merging ObjectMasks.
org.anchoranalysis.plugin.image.object.merge.priority
Assigning priority when merging ObjectMasks.
org.anchoranalysis.plugin.image.segment.thresholder.slice
Non-beans pertaining to segmenting a z-stack slice-by-slice.
org.anchoranalysis.plugin.image.segment.watershed.encoding
Encoding voxels in a watershed-transformation implementation.
org.anchoranalysis.plugin.image.task.feature.calculator
Non-beans for calculating Features.
org.anchoranalysis.plugin.imagej.bean.object.provider
Implementations of ObjectCollectionProvider that call ImageJ.
org.anchoranalysis.plugin.imagej.bean.object.segment
Implementations of ObjectCollectionProvider that call ImageJ to perform segmentation.
org.anchoranalysis.plugin.mpp.bean.object.provider
Implementations of ObjectCollectionProvider.
org.anchoranalysis.plugin.mpp.bean.stack.provider
Implementations of StackProvider involving Mark or related classes.
org.anchoranalysis.plugin.opencv
Plugins that call OpenCV.
org.anchoranalysis.plugin.opencv.convert
Conversion to/from OpenCV data-structures.
org.anchoranalysis.plugin.points.bean
Beans that fit or otherwise manipulate sets of points.
org.anchoranalysis.plugin.points.bean.fitter
Fitting geometric structures to points.
org.anchoranalysis.plugin.points.calculate.ellipse
CalculationPart related to fitting ellipses to points by least-squares.
org.anchoranalysis.plugin.points.calculate.ellipsoid
CalculationPart related to fitting ellipsoids to points by least-squares.
org.anchoranalysis.plugin.points.convexhull
Non-bean convex hull operations.
org.anchoranalysis.test.feature.plugins.objects
Fixtures for creating object-masks and related feature-inputs.
org.anchoranalysis.test.image
Testing utilities and fixtures with no greater downstream dependency than anchor-image-io or anchor-io-bioformats or anchor-imagej.
org.anchoranalysis.test.image.io
Utilities for testing-related reading and writing to the filesystem.
org.anchoranalysis.test.image.object
Fixtures for creating object-masks.