inra.ijpb.plugins

Class Watershed3DPlugin

java.lang.Object

inra.ijpb.plugins.Watershed3DPlugin

All Implemented Interfaces:

ij.plugin.PlugIn

public class Watershed3DPlugin
extends Object
implements ij.plugin.PlugIn

A plugin to perform watershed on a 3D image using flooding simulations, as described by Soille, Pierre, and Luc M. Vincent. "Determining watersheds in digital pictures via flooding simulations." Lausanne-DL tentative. International Society for Optics and Photonics, 1990.

Author:

Ignacio Arganda-Carreras

Field Summary

Fields

Modifier and Type	Field and Description
static double	hMax the maximum value for dynamic
static double	hMin the minimum value for dynamic
static boolean	use26neighbors flag to use 26-connectivity

Constructor Summary

Constructors

Constructor and Description
Watershed3DPlugin()

Method Summary

Modifier and Type	Method and Description
ij.ImagePlus	process(ij.ImagePlus input, ij.ImagePlus mask, int connectivity, double hMin, double hMax) Apply 3D watershed to a 2D or 3D image (it does work for 2D images too).
void	run(String arg) Plugin run method, to be called from ImageJ.

Methods inherited from class java.lang.Object

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

Field Detail

use26neighbors

public static boolean use26neighbors

flag to use 26-connectivity

hMin

public static double hMin

the minimum value for dynamic

hMax

public static double hMax

the maximum value for dynamic

Constructor Detail

Watershed3DPlugin

public Watershed3DPlugin()

Method Detail

process

public ij.ImagePlus process(ij.ImagePlus input,
                            ij.ImagePlus mask,
                            int connectivity,
                            double hMin,
                            double hMax)

Apply 3D watershed to a 2D or 3D image (it does work for 2D images too).

Parameters:

input - the 2D or 3D image (in principle a "gradient" image)

mask - binary mask to restrict region of interest

connectivity - 6 or 26 voxel connectivity

hMin - minimum grayscale level height

hMax - maximum grayscale level height

Returns:

labeled catchment basins image

run

public void run(String arg)

Plugin run method, to be called from ImageJ.

Specified by:

run in interface ij.plugin.PlugIn