inra.ijpb.watershed

Class ExtendedMinimaWatershed

java.lang.Object

inra.ijpb.watershed.ExtendedMinimaWatershed

public class ExtendedMinimaWatershed
extends Object

Static methods for directly computing result of watershed after imposition of extended minima.

Example of use:

  ImagePlus imagePlus = IJ.getImage();
  ImageProcessor image = imagePlus.getProcessor();
  // Computes basins, using a dynamic of 10, and a connectivity equal to 4.
  ImageProcessor basins = ExtendedMinimaWatershed.extendedMinimaWatershed(image, 10, 4);
  ImagePlus resPlus = new ImagePlus("Basins", basins);
  resPlus.show();
 

Constructor Summary

Constructors

Constructor and Description
ExtendedMinimaWatershed()

Method Summary

Modifier and Type	Method and Description
static ij.ImagePlus	extendedMinimaWatershed(ij.ImagePlus imagePlus, int dynamic, int connectivity) Computes watershed on a gray scale image after imposition of extended minima.
static ij.process.ImageProcessor	extendedMinimaWatershed(ij.process.ImageProcessor image, ij.process.ImageProcessor mask, int dynamic, int connectivity, boolean verbose) Computes watershed on a gray scale image after imposition of extended minima.
static ij.process.ImageProcessor	extendedMinimaWatershed(ij.process.ImageProcessor image, ij.process.ImageProcessor mask, int dynamic, int connectivity, int outputType, boolean verbose) Computes watershed on a gray scale image after imposition of extended minima.
static ij.process.ImageProcessor	extendedMinimaWatershed(ij.process.ImageProcessor image, int dynamic, int connectivity) Computes watershed on a gray scale image after imposition of extended minima.
static ij.process.ImageProcessor	extendedMinimaWatershed(ij.process.ImageProcessor image, int dynamic, int connectivity, int outputType) Computes watershed on a gray scale image after imposition of extended minima.
static ij.ImageStack	extendedMinimaWatershed(ij.ImageStack image, ij.ImageStack mask, int dynamic, int connectivity, boolean verbose) Computes watershed on a gray scale image after imposition of extended minima.
static ij.ImageStack	extendedMinimaWatershed(ij.ImageStack image, ij.ImageStack mask, int dynamic, int connectivity, int outputType, boolean verbose) Computes watershed on a gray scale image after imposition of extended minima.
static ij.ImageStack	extendedMinimaWatershed(ij.ImageStack image, int dynamic, int connectivity) Computes watershed on a gray scale image after imposition of extended minima.
static ij.ImageStack	extendedMinimaWatershed(ij.ImageStack image, int dynamic, int connectivity, int outputType) Computes watershed on a gray scale image after imposition of extended minima.

Methods inherited from class java.lang.Object

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

Constructor Detail

ExtendedMinimaWatershed

public ExtendedMinimaWatershed()

Method Detail

extendedMinimaWatershed

public static final ij.ImagePlus extendedMinimaWatershed(ij.ImagePlus imagePlus,
                                                         int dynamic,
                                                         int connectivity)

Computes watershed on a gray scale image after imposition of extended minima.

Parameters:

imagePlus - the input image (grayscale)

dynamic - the maximum difference between the minima and the boundary of a basin

connectivity - the connectivity to use

Returns:

the image of watershed basins computed on original image, as a label image

See Also:

MinimaAndMaxima

extendedMinimaWatershed

public static final ij.process.ImageProcessor extendedMinimaWatershed(ij.process.ImageProcessor image,
                                                                      int dynamic,
                                                                      int connectivity,
                                                                      int outputType)

Computes watershed on a gray scale image after imposition of extended minima.

Parameters:

image - the input image (grayscale)

dynamic - the maximum difference between the minima and the boundary of a basin

connectivity - the connectivity to use, either 4 or 8

outputType - image output type (16 or 32 bit)

Returns:

the image of watershed basins computed on original image, as a label image

See Also:

MinimaAndMaxima

extendedMinimaWatershed

public static final ij.process.ImageProcessor extendedMinimaWatershed(ij.process.ImageProcessor image,
                                                                      ij.process.ImageProcessor mask,
                                                                      int dynamic,
                                                                      int connectivity,
                                                                      int outputType,
                                                                      boolean verbose)

Computes watershed on a gray scale image after imposition of extended minima.

Parameters:

image - the input image (grayscale)

mask - mask image to constraint segmentation

dynamic - the maximum difference between the minima and the boundary of a basin

connectivity - the connectivity to use, either 4 or 8

outputType - image output type (16 or 32 bit)

verbose - flag to show log messages

Returns:

the image of watershed basins computed on original image, as a label image

See Also:

MinimaAndMaxima

extendedMinimaWatershed

public static final ij.ImageStack extendedMinimaWatershed(ij.ImageStack image,
                                                          ij.ImageStack mask,
                                                          int dynamic,
                                                          int connectivity,
                                                          int outputType,
                                                          boolean verbose)

Computes watershed on a gray scale image after imposition of extended minima.

Parameters:

image - the input image (grayscale)

mask - mask image to constraint segmentation

dynamic - the maximum difference between the minima and the boundary of a basin

connectivity - the connectivity to use, either 4 or 8

outputType - image output type (16 or 32 bit)

verbose - flag to show log messages

Returns:

the image of watershed basins computed on original image, as a label image

See Also:

MinimaAndMaxima3D

extendedMinimaWatershed

public static final ij.ImageStack extendedMinimaWatershed(ij.ImageStack image,
                                                          int dynamic,
                                                          int connectivity,
                                                          int outputType)

Computes watershed on a gray scale image after imposition of extended minima.

Parameters:

image - the input 3D image (grayscale)

dynamic - the maximum difference between the minima and the boundary of a basin

connectivity - the connectivity to use, either 6 or 26

outputType - image output type (16 or 32 bit)

Returns:

the image of watershed basins computed on original image, as a label image

See Also:

MinimaAndMaxima3D

extendedMinimaWatershed

public static final ij.process.ImageProcessor extendedMinimaWatershed(ij.process.ImageProcessor image,
                                                                      int dynamic,
                                                                      int connectivity)

Computes watershed on a gray scale image after imposition of extended minima.

Parameters:

image - the input image (grayscale)

dynamic - the maximum difference between the minima and the boundary of a basin

connectivity - the connectivity to use, either 4 or 8

Returns:

the image of watershed basins computed on original image, as a label image

See Also:

MinimaAndMaxima

extendedMinimaWatershed

public static final ij.process.ImageProcessor extendedMinimaWatershed(ij.process.ImageProcessor image,
                                                                      ij.process.ImageProcessor mask,
                                                                      int dynamic,
                                                                      int connectivity,
                                                                      boolean verbose)

Computes watershed on a gray scale image after imposition of extended minima.

Parameters:

image - the input image (grayscale)

mask - mask image to constraint segmentation

dynamic - the maximum difference between the minima and the boundary of a basin

connectivity - the connectivity to use, either 4 or 8

verbose - flag to show log messages

Returns:

the image of watershed basins computed on original image, as a label image

See Also:

MinimaAndMaxima

extendedMinimaWatershed

public static final ij.ImageStack extendedMinimaWatershed(ij.ImageStack image,
                                                          ij.ImageStack mask,
                                                          int dynamic,
                                                          int connectivity,
                                                          boolean verbose)

Computes watershed on a gray scale image after imposition of extended minima.

Parameters:

image - the input image (grayscale)

mask - mask image to constraint segmentation

dynamic - the maximum difference between the minima and the boundary of a basin

connectivity - the connectivity to use, either 4 or 8

verbose - flag to show log messages

Returns:

the image of watershed basins computed on original image, as a label image

See Also:

MinimaAndMaxima3D

extendedMinimaWatershed

public static final ij.ImageStack extendedMinimaWatershed(ij.ImageStack image,
                                                          int dynamic,
                                                          int connectivity)

Computes watershed on a gray scale image after imposition of extended minima.

Parameters:

image - the input 3D image (grayscale)

dynamic - the maximum difference between the minima and the boundary of a basin

connectivity - the connectivity to use, either 6 or 26

Returns:

the image of watershed basins computed on original image, as a label image

See Also:

MinimaAndMaxima3D