trans.main
Class SamChromosomeData

java.lang.Object
  trans.main.SamChromosomeData

public class SamChromosomeData

extends java.lang.Object

Constructor Summary

SamChromosomeData(int numberOfWindows, int numberOfPermutations)

Method Summary

void	calculateFudgeFactor(int windowIndex)
float[][]	getPermMeanDiff()
float[][]	getPermTStats()
float[][]	getPermVariance()
float[]	getRealMeanDiff()
float[]	getRealTStats()
float[]	getRealVariance()
void	setPermMeanDiff(float[][] permMeanDiff)
void	setPermSamScores(float[] samScores, int permutationIndex, int windowIndex)
void	setPermTStats(float[][] permTStats)
void	setPermVariance(float[][] permVariance)
void	setRealMeanDiff(float[] realMeanDiff)
void	setRealSamScores(float[] samScores, int windowIndex)
void	setRealTStats(float[] realTStats)
void	setRealVariance(float[] realVariance)

Methods inherited from class java.lang.Object

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

Constructor Detail

SamChromosomeData

public SamChromosomeData(int numberOfWindows,
                         int numberOfPermutations)

Method Detail

setRealSamScores

public void setRealSamScores(float[] samScores,
                             int windowIndex)

setPermSamScores

public void setPermSamScores(float[] samScores,
                             int permutationIndex,
                             int windowIndex)

calculateFudgeFactor

public void calculateFudgeFactor(int windowIndex)

getPermMeanDiff

public float[][] getPermMeanDiff()

setPermMeanDiff

public void setPermMeanDiff(float[][] permMeanDiff)

getPermTStats

public float[][] getPermTStats()

setPermTStats

public void setPermTStats(float[][] permTStats)

getPermVariance

public float[][] getPermVariance()

setPermVariance

public void setPermVariance(float[][] permVariance)

getRealMeanDiff

public float[] getRealMeanDiff()

setRealMeanDiff

public void setRealMeanDiff(float[] realMeanDiff)

getRealTStats

public float[] getRealTStats()

setRealTStats

public void setRealTStats(float[] realTStats)

getRealVariance

public float[] getRealVariance()

setRealVariance

public void setRealVariance(float[] realVariance)