broad.core.motif.PositionWeightColumn Member List

This is the complete list of members for broad.core.motif.PositionWeightColumn, including all inherited members.

addPseudoCounts()	broad.core.motif.PositionWeightColumn
computeProb()	broad.core.motif.PositionWeightColumn
DEFAULT_ALPHABET_SIZE	broad.core.motif.PositionWeightColumn	static
flatWeight(double infoTh)	broad.core.motif.PositionWeightColumn
getAlphabetSize()	broad.core.motif.PositionWeightColumn
getBaseIUB()	broad.core.motif.PositionWeightColumn
getComplement()	broad.core.motif.PositionWeightColumn
getInformationContent()	broad.core.motif.PositionWeightColumn
getLogProb(char ch)	broad.core.motif.PositionWeightColumn
getLogProb(int baseIdx)	broad.core.motif.PositionWeightColumn
getLogRatio(char ch)	broad.core.motif.PositionWeightColumn
getLogRatio(char i, boolean isNumSeq)	broad.core.motif.PositionWeightColumn
getLogRatioWeightedByNegEntropy(char ch)	broad.core.motif.PositionWeightColumn
getLogRatioWeightedByNegEntropy(char i, boolean isNumSeq)	broad.core.motif.PositionWeightColumn
getProbability(int baseIndex)	broad.core.motif.PositionWeightColumn
getWeight(int letterIndex)	broad.core.motif.PositionWeightColumn
init(int alphabetSize)	broad.core.motif.PositionWeightColumn
init()	broad.core.motif.PositionWeightColumn
kullbackLeiber(PositionWeightColumn pwc)	broad.core.motif.PositionWeightColumn
PositionWeightColumn()	broad.core.motif.PositionWeightColumn
PositionWeightColumn(String[] rawData)	broad.core.motif.PositionWeightColumn
PositionWeightColumn(int[] n)	broad.core.motif.PositionWeightColumn
PositionWeightColumn(int nA, int nC, int nG, int nT)	broad.core.motif.PositionWeightColumn
PositionWeightColumn(double[] freq)	broad.core.motif.PositionWeightColumn
print()	broad.core.motif.PositionWeightColumn
printProb()	broad.core.motif.PositionWeightColumn
resetProbWithNullPriorProb()	broad.core.motif.PositionWeightColumn
resetToUniformProb()	broad.core.motif.PositionWeightColumn
setFromCounts(int[] n)	broad.core.motif.PositionWeightColumn	protected
setNum(int[] n)	broad.core.motif.PositionWeightColumn
setNum(int nA, int nC, int nG, int nT)	broad.core.motif.PositionWeightColumn
toConsensus()	broad.core.motif.PositionWeightColumn
toString()	broad.core.motif.PositionWeightColumn
write(BufferedWriter bw, NumberFormat formatter)	broad.core.motif.PositionWeightColumn