edu.jhu.ece.iacl.algorithms.manual_label.staple
Class STAPLE

java.lang.Object
  edu.jhu.ece.iacl.jist.pipeline.AbstractCalculation
      edu.jhu.ece.iacl.algorithms.manual_label.staple.STAPLE

public class STAPLE
extends AbstractCalculation

Author:

John Bogovic

Field Summary

protected float	baseWeight
protected float	convergesum
protected java.lang.String	dir
protected java.util.ArrayList<java.lang.Number>	labels
protected int	maxiters
protected int	nbhdsize
protected float	nbhdWeight
protected float	nbhdWeightIn
protected float[][]	pl
protected float	prior

Fields inherited from class edu.jhu.ece.iacl.jist.pipeline.AbstractCalculation

monitor

Constructor Summary

STAPLE()

STAPLE(int[][][][] img)

STAPLE(java.util.List<ImageData> img)

STAPLE(java.lang.String[] filenames, int[] dim)

Method Summary

void	Estep() Estimate the true segmentation based on the rater segmentations and reliabilities using Equansions (14)-(16)
void	findLabels()
float[][]	getPeformanceLevel()
java.lang.String	getPerformanceLevels()
void	getPriorProb()
ImageDataFloat	getTruth()
float[][][]	getTruthImage()
void	initialize()
void	initializeSingle()
void	iterate()
void	Mstep()
void	printPerformanceLevels()
void	printPerformanceLevels2()
void	setDir(java.lang.String dir)
void	setImages(int[][][][] img)
void	setmaxIters(int max)
boolean	verifySizes()

Methods inherited from class edu.jhu.ece.iacl.jist.pipeline.AbstractCalculation

add, addTotalUnits, decrementCompletedUnits, decrementCompletedUnits, getCompletedUnits, getCurrentLabel, getCurrentProgress, getLabel, getPerformance, getProgress, getTotalUnits, incrementCompletedUnits, incrementCompletedUnits, isCompleted, markCompleted, reset, setCompletedUnits, setCompletedUnits, setLabel, setMonitor, setTotalUnits

Methods inherited from class java.lang.Object

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

Field Detail

pl

protected float[][] pl

prior

protected float prior

labels

protected java.util.ArrayList<java.lang.Number> labels

convergesum

protected float convergesum

maxiters

protected int maxiters

dir

protected java.lang.String dir

nbhdWeightIn

protected float nbhdWeightIn

nbhdWeight

protected float nbhdWeight

baseWeight

protected float baseWeight

nbhdsize

protected int nbhdsize

Constructor Detail

STAPLE

public STAPLE()

STAPLE

public STAPLE(int[][][][] img)

STAPLE

public STAPLE(java.lang.String[] filenames,
              int[] dim)

STAPLE

public STAPLE(java.util.List<ImageData> img)

Method Detail

setmaxIters

public void setmaxIters(int max)

setImages

public void setImages(int[][][][] img)

setDir

public void setDir(java.lang.String dir)

verifySizes

public boolean verifySizes()

findLabels

public void findLabels()

initializeSingle

public void initializeSingle()

initialize

public void initialize()

Estep

public void Estep()

Estimate the true segmentation based on the rater segmentations and reliabilities using Equansions (14)-(16)

Mstep

public void Mstep()

getPriorProb

public void getPriorProb()

iterate

public void iterate()

printPerformanceLevels

public void printPerformanceLevels()

getPerformanceLevels

public java.lang.String getPerformanceLevels()

printPerformanceLevels2

public void printPerformanceLevels2()

getTruthImage

public float[][][] getTruthImage()

getTruth

public ImageDataFloat getTruth()

getPeformanceLevel

public float[][] getPeformanceLevel()