inra.ijpb.measure.region3d

Class BinaryConfigurationsHistogram3D

java.lang.Object

inra.ijpb.algo.AlgoStub

inra.ijpb.measure.region3d.BinaryConfigurationsHistogram3D

All Implemented Interfaces:

Algo

public class BinaryConfigurationsHistogram3D
extends AlgoStub

Computes histogram of binary 2-by-2-by-2 configurations within a 3D image. Implements the Algo interface, so the progress can be tracked.

Author:

dlegland

Constructor Summary

Constructors

Constructor and Description
BinaryConfigurationsHistogram3D() Empty constructor.

Method Summary

Modifier and Type	Method and Description
static double[]	applyLut(int[][] histograms, double[] lut) Applies look-up-table of values for each configuration of each region, based on the array of count for each binary configuration.
static double	applyLut(int[] histogram, double[] lut) Applies look-up-table of values for each configuration, based on the array of count for each binary configuration.
int[]	process(ij.ImageStack image) Applies a look-up-table for each of the 2x2x2 voxel configurations containing at least one voxel of the input binary image, and returns the sum of contributions for each label.
int[][]	process(ij.ImageStack image, int[] labels) Applies a look-up-table for each of the 2x2x2 voxel configurations containing at least one voxel of the input image, and returns the sum of contributions for each label.
int[]	processInnerFrame(ij.ImageStack image) Applies a look-up-table for each of the 2x2x2 voxel configurations with all voxels within the input binary image, and returns the sum of contributions for each label.

Methods inherited from class inra.ijpb.algo.AlgoStub

addAlgoListener, fireProgressChanged, fireProgressChanged, fireStatusChanged, fireStatusChanged, removeAlgoListener

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

BinaryConfigurationsHistogram3D

public BinaryConfigurationsHistogram3D()

Empty constructor.

Method Detail

applyLut

public static final double applyLut(int[] histogram,
                                    double[] lut)

Applies look-up-table of values for each configuration, based on the array of count for each binary configuration.

Parameters:

histogram - the count of each type of 2-by-2-by-2 binary configurations, as a 256 array

lut - the value to associate to each configuration

Returns:

the sum of the products of counts by the associated value

applyLut

public static final double[] applyLut(int[][] histograms,
                                      double[] lut)

Applies look-up-table of values for each configuration of each region, based on the array of count for each binary configuration.

Parameters:

histograms - the count of each type of 2-by-2-by-2 binary configurations, as a 256 array

lut - the value to associate to each configuration

Returns:

the sum of the products of counts by the associated value

process

public int[] process(ij.ImageStack image)

Applies a look-up-table for each of the 2x2x2 voxel configurations containing at least one voxel of the input binary image, and returns the sum of contributions for each label. This method is used for computing Euler number, surface area and mean beradth from binary images.

Parameters:

image - the input 3D binary image

Returns:

an array of 256 integers containing the number of each binary configurations

processInnerFrame

public int[] processInnerFrame(ij.ImageStack image)

Applies a look-up-table for each of the 2x2x2 voxel configurations with all voxels within the input binary image, and returns the sum of contributions for each label. This method is used for computing densities of Euler number, surface area and mean breadth from binary images.

Parameters:

image - the input 3D binary image

Returns:

an array of 256 integers containing the number of each binary configurations

See Also:

process(ImageStack)

process

public int[][] process(ij.ImageStack image,
                       int[] labels)

Applies a look-up-table for each of the 2x2x2 voxel configurations containing at least one voxel of the input image, and returns the sum of contributions for each label. This method is used for computing Euler number and surface area.

Parameters:

image - the input 3D image of labels

labels - the set of labels to process

Returns:

an array of nLabels-by-256 integers containing the number of binary configurations for each label

See Also:

processInnerFrame(ImageStack)