Module org.bonej.bonej_plugins

Package org.bonej.wrapperPlugins

Class ElementFractionWrapper<T extends net.imglib2.type.numeric.RealType<T> & net.imglib2.type.NativeType<T>>

java.lang.Object

org.scijava.AbstractContextual

org.scijava.command.ContextCommand

org.bonej.wrapperPlugins.BoneJCommand

org.bonej.wrapperPlugins.ElementFractionWrapper<T>

All Implemented Interfaces:

Runnable, org.scijava.Cancelable, org.scijava.command.Command, org.scijava.Contextual, org.scijava.plugin.SciJavaPlugin

public class ElementFractionWrapper<T extends net.imglib2.type.numeric.RealType<T> & net.imglib2.type.NativeType<T>>
extends BoneJCommand

This command estimates the size of the given sample by counting its foreground elements, and the whole stack by counting all the elements (bone) and the whole image stack. In the case of a 2D image "size" refers to areas, and in 3D volumes. The plugin displays the sizes and their ratio in the results table. Results are shown in calibrated units, if possible.

Author:

Richard Domander, Michael Doube

Field Summary

Fields inherited from class org.bonej.wrapperPlugins.BoneJCommand

resultsTable, subspaces

Constructor Summary

Constructors

Constructor	Description
ElementFractionWrapper()

Method Summary

Modifier and Type	Method	Description
static <T> net.imglib2.RandomAccessibleInterval<T>	get2DSlice(net.imagej.ImgPlus<T> img, int z, int t, int c)
void	run()

Methods inherited from class org.bonej.wrapperPlugins.BoneJCommand

find3DSubspaces

Methods inherited from class org.scijava.command.ContextCommand

cancel, getCancelReason, isCanceled

Methods inherited from class org.scijava.AbstractContextual

context, getContext

Methods inherited from class java.lang.Object

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

Methods inherited from interface org.scijava.Contextual

setContext

Constructor Details

ElementFractionWrapper

public ElementFractionWrapper()

Method Details

run

public void run()

get2DSlice

public static <T>
net.imglib2.RandomAccessibleInterval<T> get2DSlice(net.imagej.ImgPlus<T> img,
 int z,
 int t,
 int c)