broad.pda.seq.protection.TwoSampleScanSkellamPeakCaller Member List

This is the complete list of members for broad.pda.seq.protection.TwoSampleScanSkellamPeakCaller, including all inherited members.

backgroundData	broad.pda.seq.protection.TwoSampleScanSkellamPeakCaller	protected
backgroundName	broad.pda.seq.protection.TwoSampleScanSkellamPeakCaller	protected
backgroundProcessor	broad.pda.seq.protection.TwoSampleScanSkellamPeakCaller	protected
backgroundScanPvalues	broad.pda.seq.protection.TwoSampleScanSkellamPeakCaller	protected
EXPRESSION_PVALUE_CUTOFF	broad.pda.seq.protection.TwoSampleScanSkellamPeakCaller	static
filterWindows(Collection< Annotation > windows)	broad.pda.seq.protection.TwoSampleScanSkellamPeakCaller
genes	broad.pda.seq.protection.TwoSampleScanSkellamPeakCaller	protected
getPoissonLambda(int regionLength, double d, int windowSize)	broad.pda.seq.protection.TwoSampleScanSkellamPeakCaller	static
getSkellamPvalue(double backgroundLambda, double signalLambda, int backgroundCount, int signalCount)	broad.pda.seq.protection.TwoSampleScanSkellamPeakCaller	protectedstatic
logger	broad.pda.seq.protection.TwoSampleScanSkellamPeakCaller	protectedstatic
MIN_WINDOW_COUNT	broad.pda.seq.protection.TwoSampleScanSkellamPeakCaller	protectedstatic
pValueCutoffScan	broad.pda.seq.protection.TwoSampleScanSkellamPeakCaller	protected
pValueCutoffSkellam	broad.pda.seq.protection.TwoSampleScanSkellamPeakCaller	protected
signalData	broad.pda.seq.protection.TwoSampleScanSkellamPeakCaller	protected
signalName	broad.pda.seq.protection.TwoSampleScanSkellamPeakCaller	protected
signalProcessor	broad.pda.seq.protection.TwoSampleScanSkellamPeakCaller	protected
stepSize	broad.pda.seq.protection.TwoSampleScanSkellamPeakCaller	protected
transcriptomeSpace	broad.pda.seq.protection.TwoSampleScanSkellamPeakCaller	protected
trimPeak(Gene window)	broad.pda.seq.protection.TwoSampleScanSkellamPeakCaller	protected
trimPeakByQuantile	broad.pda.seq.protection.TwoSampleScanSkellamPeakCaller	protected
windowSize	broad.pda.seq.protection.TwoSampleScanSkellamPeakCaller	protected
writeResult(Collection< Annotation > windows, FileWriter writer)	broad.pda.seq.protection.TwoSampleScanSkellamPeakCaller
writeResults(Collection< Annotation > windows, String out)	broad.pda.seq.protection.TwoSampleScanSkellamPeakCaller