inra.ijpb.label

Class LabelValues

java.lang.Object

inra.ijpb.label.LabelValues

public class LabelValues
extends Object

Utility methods for combining label images and intensity images.

Author:

David Legland

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
static class	LabelValues.Position3DValuePair Inner class for storing a value associated to a 3D position.
static class	LabelValues.PositionValuePair Inner class for storing a value associated to a 2D position.

Method Summary

Modifier and Type	Method and Description
static LabelValues.PositionValuePair[]	findMaxValues(ij.process.ImageProcessor valueImage, ij.process.ImageProcessor labelImage, int[] labels) For each label, finds the position of the point belonging to label region defined by labelImage and with maximal value in intensity image valueImage.
static LabelValues.Position3DValuePair[]	findMaxValues(ij.ImageStack valueImage, ij.ImageStack labelImage, int[] labels) For each label, finds the position of the 3D point belonging to label region defined by the 3D labelImage and with maximal value in intensity 3D image valueImage.
static LabelValues.PositionValuePair[]	findMinValues(ij.process.ImageProcessor valueImage, ij.process.ImageProcessor labelImage, int[] labels) For each label, finds the position of the point belonging to label region defined by labelImage and with minimal value in intensity image valueImage.
static LabelValues.Position3DValuePair[]	findMinValues(ij.ImageStack valueImage, ij.ImageStack labelImage, int[] labels) For each label, finds the position of the 3D point belonging to 3D label region defined by labelImage and with minimal value in 3D intensity image valueImage.
static Point[]	findPositionOfMaxValues(ij.process.ImageProcessor valueImage, ij.process.ImageProcessor labelImage, int[] labels) For each label, finds the position of the point belonging to label region defined by labelImage and with maximal value in intensity image valueImage.
static Cursor3D[]	findPositionOfMaxValues(ij.ImageStack valueImage, ij.ImageStack labelImage, int[] labels) For each label, finds the position of the point belonging to label region defined by labelImage and with maximal value in intensity image valueImage.
static Point[]	findPositionOfMinValues(ij.process.ImageProcessor valueImage, ij.process.ImageProcessor labelImage, int[] labels) For each label, finds the position of the point belonging to label region defined by labelImage and with minimal value in intensity image valueImage.
static Cursor3D[]	findPositionOfMinValues(ij.ImageStack valueImage, ij.ImageStack labelImage, int[] labels) For each label, finds the position of the point belonging to label region defined by labelImage and with minimal value in intensity image valueImage.
static double[]	maxValues(ij.process.ImageProcessor image, ij.process.ImageProcessor labelImage, int[] labels) Find maximum value in intensity image for each label.
static double[]	maxValues(ij.ImageStack image, ij.ImageStack labelImage, int[] labels) Find maximum value in intensity image for each label.
static double	maxValueWithinLabels(ij.process.ImageProcessor valueImage, ij.process.ImageProcessor labelImage) Computes the largest value within the valueImage, using the strictly positive values in labelImage as mask.
static double	maxValueWithinLabels(ij.ImageStack valueImage, ij.ImageStack labelImage) Computes the largest value within the valueImage, using the strictly positive values in labelImage as mask.

Methods inherited from class java.lang.Object

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

Method Detail

maxValueWithinLabels

public static final double maxValueWithinLabels(ij.process.ImageProcessor valueImage,
                                                ij.process.ImageProcessor labelImage)

Computes the largest value within the valueImage, using the strictly positive values in labelImage as mask. Can be used to setup min/max display value after computing a distance transform.

Parameters:

valueImage - the image containing values (e.g. a distance map)

labelImage - the image containing strictly positive values for foreground

Returns:

the maximum value within the value image restricted to the label image

maxValueWithinLabels

public static final double maxValueWithinLabels(ij.ImageStack valueImage,
                                                ij.ImageStack labelImage)

Computes the largest value within the valueImage, using the strictly positive values in labelImage as mask. Can be used to setup min/max display value after computing a distance transform.

Parameters:

valueImage - the image containing values (e.g. a distance map)

labelImage - the image containing strictly positive values for foreground

Returns:

the maximum value within the value image restricted to the label image

maxValues

public static final double[] maxValues(ij.process.ImageProcessor image,
                                       ij.process.ImageProcessor labelImage,
                                       int[] labels)

Find maximum value in intensity image for each label.

Parameters:

image - the intensity image

labelImage - the image containing labels

labels - the list of labels for which the values are computed

Returns:

an array of values corresponding to the maximum value within each label

maxValues

public static final double[] maxValues(ij.ImageStack image,
                                       ij.ImageStack labelImage,
                                       int[] labels)

Find maximum value in intensity image for each label.

Parameters:

image - the intensity 3D image

labelImage - the 3D image containing labels

labels - the list of labels for which the values are computed

Returns:

an array of values corresponding to the maximum value within each label

findMaxValues

public static final LabelValues.PositionValuePair[] findMaxValues(ij.process.ImageProcessor valueImage,
                                                                  ij.process.ImageProcessor labelImage,
                                                                  int[] labels)

For each label, finds the position of the point belonging to label region defined by labelImage and with maximal value in intensity image valueImage.

Parameters:

valueImage - the intensity image containing values to compare

labelImage - the intensity image containing label of each pixel

labels - the list of labels in the label image

Returns:

the position of maximum value in intensity image for each label

findMaxValues

public static final LabelValues.Position3DValuePair[] findMaxValues(ij.ImageStack valueImage,
                                                                    ij.ImageStack labelImage,
                                                                    int[] labels)

For each label, finds the position of the 3D point belonging to label region defined by the 3D labelImage and with maximal value in intensity 3D image valueImage.

Parameters:

valueImage - the intensity image containing values to compare

labelImage - the intensity image containing label of each pixel

labels - the list of labels in the label image

Returns:

the position of maximum value in intensity image for each label

findMinValues

public static final LabelValues.PositionValuePair[] findMinValues(ij.process.ImageProcessor valueImage,
                                                                  ij.process.ImageProcessor labelImage,
                                                                  int[] labels)

For each label, finds the position of the point belonging to label region defined by labelImage and with minimal value in intensity image valueImage.

Parameters:

valueImage - the intensity image containing values to compare

labelImage - the intensity image containing label of each pixel

labels - the list of labels in the label image

Returns:

the position of minimum value in intensity image for each label

findMinValues

public static final LabelValues.Position3DValuePair[] findMinValues(ij.ImageStack valueImage,
                                                                    ij.ImageStack labelImage,
                                                                    int[] labels)

For each label, finds the position of the 3D point belonging to 3D label region defined by labelImage and with minimal value in 3D intensity image valueImage.

Parameters:

valueImage - the intensity image containing values to compare

labelImage - the intensity image containing label of each pixel

labels - the list of labels in the label image

Returns:

the position of minimum value in intensity image for each label

findPositionOfMaxValues

public static final Point[] findPositionOfMaxValues(ij.process.ImageProcessor valueImage,
                                                    ij.process.ImageProcessor labelImage,
                                                    int[] labels)

For each label, finds the position of the point belonging to label region defined by labelImage and with maximal value in intensity image valueImage.

Parameters:

valueImage - the intensity image containing values to compare

labelImage - the intensity image containing label of each pixel

labels - the list of labels in the label image

Returns:

the position of maximum value in intensity image for each label

findPositionOfMaxValues

public static final Cursor3D[] findPositionOfMaxValues(ij.ImageStack valueImage,
                                                       ij.ImageStack labelImage,
                                                       int[] labels)

For each label, finds the position of the point belonging to label region defined by labelImage and with maximal value in intensity image valueImage.

Parameters:

valueImage - the intensity image containing values to compare

labelImage - the intensity image containing label of each pixel

labels - the list of labels in the label image

Returns:

the position of maximum value in intensity image for each label

findPositionOfMinValues

public static final Point[] findPositionOfMinValues(ij.process.ImageProcessor valueImage,
                                                    ij.process.ImageProcessor labelImage,
                                                    int[] labels)

For each label, finds the position of the point belonging to label region defined by labelImage and with minimal value in intensity image valueImage.

Parameters:

valueImage - the intensity image containing values to compare

labelImage - the intensity image containing label of each pixel

labels - the list of labels in the label image

Returns:

the position of minimum value in intensity image for each label

findPositionOfMinValues

public static final Cursor3D[] findPositionOfMinValues(ij.ImageStack valueImage,
                                                       ij.ImageStack labelImage,
                                                       int[] labels)

For each label, finds the position of the point belonging to label region defined by labelImage and with minimal value in intensity image valueImage.

Parameters:

valueImage - the intensity image containing values to compare

labelImage - the intensity image containing label of each pixel

labels - the list of labels in the label image

Returns:

the position of minimum value in intensity image for each label