org.broadinstitute.hellbender.utils.genotyper

Class ProbabilityVector

java.lang.Object

org.broadinstitute.hellbender.utils.genotyper.ProbabilityVector

public final class ProbabilityVector
extends java.lang.Object

Represents a 1-dimentional probability distribution.

Constructor Summary

Constructors

Constructor and Description
ProbabilityVector(double[] vec)
ProbabilityVector(double[] vec, boolean compressRange) Default constructor: take vector in log-space, with support from range [0,len-1]
ProbabilityVector(ProbabilityVector other, boolean compressRange)

Method Summary

Modifier and Type	Method and Description
double	getLogProbabilityForIndex(int idx) Return log Probability for original index i
int	getMaxVal()
int	getMinVal()
double[]	getProbabilityVector()
double[]	getUncompressedProbabilityVector()
double	logDotProduct(ProbabilityVector other)

Methods inherited from class java.lang.Object

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

Constructor Detail

ProbabilityVector

public ProbabilityVector(double[] vec,
                         boolean compressRange)

Default constructor: take vector in log-space, with support from range [0,len-1]

Parameters:

vec - Probability (or likelihood) vector in log space

compressRange - If true, compress by eliminating edges with little support

ProbabilityVector

public ProbabilityVector(double[] vec)

ProbabilityVector

public ProbabilityVector(ProbabilityVector other,
                         boolean compressRange)

Method Detail

getMinVal

public int getMinVal()

getMaxVal

public int getMaxVal()

getProbabilityVector

public double[] getProbabilityVector()

getUncompressedProbabilityVector

public double[] getUncompressedProbabilityVector()

getLogProbabilityForIndex

public double getLogProbabilityForIndex(int idx)

Return log Probability for original index i

Parameters:

idx - Index to probe

Returns:

log10(Pr X = i) )

logDotProduct

public double logDotProduct(ProbabilityVector other)