inra.ijpb.measure

Class GeometricMeasures2D

java.lang.Object

inra.ijpb.measure.GeometricMeasures2D

Deprecated.

use IntrinsicVolumes2D instead

@Deprecated
public class GeometricMeasures2D
extends Object

Provides a set of static methods to compute geometric measures such as area, perimeter, and their densities in planar binary or label images.

Author:

David Legland

See Also:

IntrinsicVolumes2D

Field Summary

Fields

Modifier and Type	Field and Description
static boolean	debug Deprecated. option for debugging

Method Summary

Modifier and Type	Method and Description
static ij.measure.ResultsTable	analyzeRegions(ij.process.ImageProcessor labelImage, double[] resol) Deprecated.
static ij.measure.ResultsTable	analyzeRegions(ij.process.ImageProcessor labelImage, double[] resol, int nDirs) Deprecated.
static double[]	area(ij.process.ImageProcessor image, int[] labels, double[] resol) Deprecated. use IntrinsicVolumes2D.areas(ImageProcessor, int[], Calibration) instead
static ij.measure.ResultsTable	boundingBox(ij.process.ImageProcessor labelImage) Deprecated. use BoundingBox class instead
static double[][]	boundingBox(ij.process.ImageProcessor labelImage, int[] labels) Deprecated. use BoundingBox class instead
static double[][]	centroids(ij.process.ImageProcessor labelImage, int[] labels) Deprecated. replaced by Centroid.centroids
static ij.measure.ResultsTable	croftonPerimeter(ij.process.ImageProcessor labelImage, double[] resol, int nDirs) Deprecated. use analyzeRegions instead
static double[]	croftonPerimeter(ij.process.ImageProcessor image, int[] labels, double[] resol, int nDirs) Deprecated. replaced by IntrinsicVolumes2D
static double[]	croftonPerimeterD2(ij.process.ImageProcessor labelImage, int[] labels, double[] resol) Deprecated. replaced by IntrinsicVolumes2D
static double[]	croftonPerimeterD4(ij.process.ImageProcessor labelImage, int[] labels, double[] resol) Deprecated. replaced by IntrinsicVolumes2D
static ij.measure.ResultsTable	inertiaEllipse(ij.process.ImageProcessor image) Deprecated. use inra.ijpb.measure.region2d.InertiaEllipse instead
static ij.measure.ResultsTable	maximumInscribedCircle(ij.process.ImageProcessor labelImage) Deprecated. use class inra.ijpb.measure.region2d.largestInscribedCircle instead
static ij.measure.ResultsTable	maximumInscribedCircle(ij.process.ImageProcessor labelImage, double[] resol) Deprecated. use class inra.ijpb.measure.region2d.largestInscribedCircle instead
static int	particleArea(ij.process.ImageProcessor image, int label) Deprecated.
static ij.measure.ResultsTable	perimeterDensity(ij.process.ImageProcessor image, double[] resol, int nDirs) Deprecated.

Methods inherited from class java.lang.Object

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

Field Detail

debug

public static boolean debug

Deprecated.

option for debugging

Method Detail

analyzeRegions

@Deprecated
public static final ij.measure.ResultsTable analyzeRegions(ij.process.ImageProcessor labelImage,
                                                                       double[] resol)

Deprecated.

Computes several morphometric features for each region in the input label image.

Parameters:

labelImage - the input image containing label of particles

resol - the spatial resolution

Returns:

a data table containing the area, the perimeter and the "circularity" of each labeled particle

analyzeRegions

@Deprecated
public static final ij.measure.ResultsTable analyzeRegions(ij.process.ImageProcessor labelImage,
                                                                       double[] resol,
                                                                       int nDirs)

Deprecated.

Computes several morphometric features for each region in the input label image and specifying number of directions to use for measuring perimeter.

Parameters:

labelImage - the input image containing label of particles

resol - the spatial resolution

nDirs - the number of directions for perimeter measure

Returns:

a data table containing the area, the perimeter and the "circularity" of each labeled particle

boundingBox

@Deprecated
public static final ij.measure.ResultsTable boundingBox(ij.process.ImageProcessor labelImage)

Deprecated. use BoundingBox class instead

Compute bounding box of each label in input stack and returns the result as a ResultsTable.

Parameters:

labelImage - the input image containing label of particles

Returns:

a data table containing for each labeled particle the extent in each dimension

See Also:

BoundingBox.analyzeRegions(ImageProcessor, int[], Calibration)

boundingBox

@Deprecated
public static final double[][] boundingBox(ij.process.ImageProcessor labelImage,
                                                       int[] labels)

Deprecated. use BoundingBox class instead

Compute bounding box of each label in input stack and returns the result as an array of double for each label.

Parameters:

labelImage - the input image containing label of particles

labels - an array of unique labels in image

Returns:

a data table containing for each labeled particle the extent in each dimension

See Also:

BoundingBox.boundingBoxes(ImageProcessor, int[], Calibration)

area

@Deprecated
public static final double[] area(ij.process.ImageProcessor image,
                                              int[] labels,
                                              double[] resol)

Deprecated. use IntrinsicVolumes2D.areas(ImageProcessor, int[], Calibration) instead

Computes the area for each particle in the label image, taking into account image resolution.

Parameters:

image - the input image containing label of particles

labels - the array of unique labels in image

resol - the size of a pixel in each direction

Returns:

the area of each region

See Also:

IntrinsicVolumes2D.areas(ImageProcessor, int[], Calibration)

particleArea

@Deprecated
public static final int particleArea(ij.process.ImageProcessor image,
                                                 int label)

Deprecated.

Counts the number of pixel that composes the particle with given label.

Parameters:

image - the input image containing label of particles

label - the label of the region to process

Returns:

the number of pixels of the specified region

croftonPerimeter

@Deprecated
public static final ij.measure.ResultsTable croftonPerimeter(ij.process.ImageProcessor labelImage,
                                                                         double[] resol,
                                                                         int nDirs)

Deprecated. use analyzeRegions instead

Computes perimeter of each label using Crofton method.

Parameters:

labelImage - the input image containing label of particles

nDirs - the number of directions to process, either 2 or 4

resol - the spatial resolution

Returns:

a data table containing the perimeter of each labeled particle

See Also:

analyzeRegions(ij.process.ImageProcessor, double[])

croftonPerimeter

@Deprecated
public static final double[] croftonPerimeter(ij.process.ImageProcessor image,
                                                          int[] labels,
                                                          double[] resol,
                                                          int nDirs)

Deprecated. replaced by IntrinsicVolumes2D

Compute surface area for each label given in the "labels" argument. Consists in calling the IntrinsicVolumes2D class.

Parameters:

image - the input image containing label of particles

labels - the array of unique labels in image

resol - the spatial resolution

nDirs - the number of directions to process, either 2 or 4

Returns:

an array containing for each label, an estimate of the region perimeter

croftonPerimeterD2

@Deprecated
public static final double[] croftonPerimeterD2(ij.process.ImageProcessor labelImage,
                                                            int[] labels,
                                                            double[] resol)

Deprecated. replaced by IntrinsicVolumes2D

Computes perimeter of each label using Crofton method with 2 directions. Iterates over labels, then iterates over lines in horizontal and vertical directions. Slow... Consists in calling the IntrinsicVolumes2D class.

Parameters:

labelImage - the input image containing label of particles

labels - the array of unique labels in image

resol - the spatial resolution

Returns:

an array containing for each label, an estimate of the region perimeter

croftonPerimeterD4

@Deprecated
public static final double[] croftonPerimeterD4(ij.process.ImageProcessor labelImage,
                                                            int[] labels,
                                                            double[] resol)

Deprecated. replaced by IntrinsicVolumes2D

Computes perimeter of each label using Crofton method with 4 directions (orthogonal and diagonal). Iterates over labels, then iterates over lines in the four main directions. Slow... Consists in calling the IntrinsicVolumes2D class.

Parameters:

labelImage - the input image containing label of particles

labels - the array of unique labels in image

resol - the spatial resolution

Returns:

an array containing for each label, an estimate of the region perimeter

perimeterDensity

@Deprecated
public static final ij.measure.ResultsTable perimeterDensity(ij.process.ImageProcessor image,
                                                                         double[] resol,
                                                                         int nDirs)

Deprecated.

Computes porosity and perimeter density of binary image.

Parameters:

image - the input binary image

resol - the spatial resolution

nDirs - the number of directions to consider, either 2 or 4

Returns:

a results table containing for each label, an estimate of the region perimeter

centroids

@Deprecated
public static final double[][] centroids(ij.process.ImageProcessor labelImage,
                                                     int[] labels)

Deprecated. replaced by Centroid.centroids

Compute centroid of each label in input stack and returns the result as an array of double for each label.

Parameters:

labelImage - the input image containing label of particles

labels - the array of unique labels in image the number of directions to process, either 2 or 4

Returns:

an array containing for each label, the coordinates of the centroid, in pixel coordinates

See Also:

Centroid.centroids(ImageProcessor, int[])

inertiaEllipse

@Deprecated
public static final ij.measure.ResultsTable inertiaEllipse(ij.process.ImageProcessor image)

Deprecated. use inra.ijpb.measure.region2d.InertiaEllipse instead

Computes inertia ellipse of each region in input label image.

Parameters:

image - the input image containing label of particles

Returns:

an ResultsTable containing for each label, the parameters of the inertia ellipsoid, in pixel coordinates

maximumInscribedCircle

@Deprecated
public static final ij.measure.ResultsTable maximumInscribedCircle(ij.process.ImageProcessor labelImage)

Deprecated. use class inra.ijpb.measure.region2d.largestInscribedCircle instead

Computes radius and center of maximum inscribed disk of each particle. Particles must be disjoint.

Parameters:

labelImage - the input image containing label of particles

Returns:

a ResultsTable with as many rows as the number of unique labels in label image, and columns "Label", "xi", "yi" and "Radius".

maximumInscribedCircle

@Deprecated
public static final ij.measure.ResultsTable maximumInscribedCircle(ij.process.ImageProcessor labelImage,
                                                                               double[] resol)

Deprecated. use class inra.ijpb.measure.region2d.largestInscribedCircle instead

Radius of maximum inscribed disk of each particle. Particles must be disjoint.

Parameters:

labelImage - the input image containing label of particles

resol - an array containing the size of the pixel in each direction

Returns:

a ResultsTable with as many rows as the number of unique labels in label image, and columns "Label", "xi", "yi" and "Radius".