Particle_Analyzer_3D (Fiji Javadocs 0-SNAPSHOT API)

java.lang.Object
- process3d.Particle_Analyzer_3D

All Implemented Interfaces:: ij.plugin.filter.PlugInFilter

public class Particle_Analyzer_3D
extends Object
implements ij.plugin.filter.PlugInFilter

Field Summary
- Fields inherited from interface ij.plugin.filter.PlugInFilter
  CONVERT_TO_FLOAT, DOES_16, DOES_32, DOES_8C, DOES_8G, DOES_ALL, DOES_RGB, DOES_STACKS, DONE, FINAL_PROCESSING, KEEP_THRESHOLD, NO_CHANGES, NO_IMAGE_REQUIRED, NO_UNDO, NO_UNDO_RESET, PARALLELIZE_IMAGES, PARALLELIZE_STACKS, ROI_REQUIRED, SNAPSHOT, STACK_REQUIRED, SUPPORTS_MASKING

Constructor Summary

Constructors
Constructor and Description

Particle_Analyzer_3D()

Particle_Analyzer_3D(ij.ImagePlus imp, int th, boolean showStatus)
Constructor

Constructors
Constructor and Description
`Particle_Analyzer_3D()`
`Particle_Analyzer_3D(ij.ImagePlus imp, int th, boolean showStatus)` Constructor

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method and Description
`void`	`calculateIntensities(ij.ImagePlus intImp)`
`void`	`calculateSizes()`
`ij.ImagePlus`	`classesAsImage()` Returns an image whose pixel values are the class labels.
`int`	`classesCount()` Returns the number of classes (excluding the 'background' class)
`int[]`	`getClasses()` Returns an array of ints, where each int is one class label.
`int`	`getLargestClass()` Returns the label of the largest class
`ij.ImagePlus`	`getResultAsByteImage()`
`int`	`getSize(int classlabel)` Returns the size of the specified class
`ij.ImagePlus`	`imageForClass(int classlabel, String label)` Returns the part of the original picture which belongs to the specified class
`ij.ImagePlus`	`imageOfLargestClass()` Returns the image of the largest class
`void`	`keepNLargest(int n)`
`void`	`run(ij.process.ImageProcessor ip)`
`int`	`setup(String arg, ij.ImagePlus imp)`
`void`	`showChart()`
`void`	`showResultWindow()`
`int[]`	`sizes()` Returns an array which contains the number of pixels for each class.
`void`	`sortResults()`

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

- Constructor Detail
  - Particle_Analyzer_3D
```
public Particle_Analyzer_3D()
```
  - Particle_Analyzer_3D
```
public Particle_Analyzer_3D(ij.ImagePlus imp,
                            int th,
                            boolean showStatus)
```
    Constructor
- Method Detail
  - setup
```
public int setup(String arg,
                 ij.ImagePlus imp)
```
    Specified by:
    
    setup in interface ij.plugin.filter.PlugInFilter
  - run
```
public void run(ij.process.ImageProcessor ip)
```
    Specified by:
    
    run in interface ij.plugin.filter.PlugInFilter
  - getResultAsByteImage
```
public ij.ImagePlus getResultAsByteImage()
```
  - keepNLargest
```
public void keepNLargest(int n)
```
  - sortResults
```
public void sortResults()
```
  - showResultWindow
```
public void showResultWindow()
```
  - showChart
```
public void showChart()
```
  - getClasses
```
public int[] getClasses()
```
    Returns an array of ints, where each int is one class label.
    
    Returns:
    
    classes
  - sizes
```
public int[] sizes()
```
    Returns an array which contains the number of pixels for each class. The order in the array is the same as in the array returned by getClasses().
    
    Returns:
    
    size of the classes
  - classesCount
```
public int classesCount()
```
    Returns the number of classes (excluding the 'background' class)
    
    Returns:
    
    number of classes
  - classesAsImage
```
public ij.ImagePlus classesAsImage()
```
    Returns an image whose pixel values are the class labels.
    
    Returns:
    
    class image
  - imageForClass
```
public ij.ImagePlus imageForClass(int classlabel,
                                  String label)
```
    Returns the part of the original picture which belongs to the specified class
    
    Parameters:
    
    classlabel - id number of the class
    
    label - title for the new image
    
    Returns:
    
    New image of the particle(s) in the given class
  - getSize
```
public int getSize(int classlabel)
```
    Returns the size of the specified class
    
    Parameters:
    
    classlabel - id number of the class
    
    Returns:
    
    number of elements in the class
  - getLargestClass
```
public int getLargestClass()
```
    Returns the label of the largest class
  - imageOfLargestClass
```
public ij.ImagePlus imageOfLargestClass()
```
    Returns the image of the largest class
  - calculateSizes
```
public void calculateSizes()
```
  - calculateIntensities
```
public void calculateIntensities(ij.ImagePlus intImp)
```

Class Particle_Analyzer_3D

Field Summary

Fields inherited from interface ij.plugin.filter.PlugInFilter

Constructor Summary

Method Summary

Methods inherited from class java.lang.Object

Constructor Detail

Particle_Analyzer_3D

Particle_Analyzer_3D

Method Detail

setup

run

getResultAsByteImage

keepNLargest

sortResults

showResultWindow

showChart

getClasses

sizes

classesCount

classesAsImage

imageForClass

getSize

getLargestClass

imageOfLargestClass

calculateSizes

calculateIntensities