broad.core.math.PermutationDistribution Member List

This is the complete list of members for broad.core.math.PermutationDistribution, including all inherited members.

getScanDistribution(int windowSize)	broad.core.math.PermutationDistribution
getScanPvalue(Annotation window)	broad.core.math.PermutationDistribution
main(String[] args)	broad.core.math.PermutationDistribution	static
PermutationDistribution(Annotation parentRegion, String bamFile, String bedFile, int numPermutations)	broad.core.math.PermutationDistribution
PermutationDistribution(Annotation parentRegion, String bamFile, String bedFile, int numPermutations, int maxGenomicSpan)	broad.core.math.PermutationDistribution
PermutationDistribution(Annotation parentRegion, AlignmentModel alignments, CoordinateSpace coordinateSpace, int numPermutations)	broad.core.math.PermutationDistribution
PermutationDistribution(Annotation parentRegion, AlignmentModel alignments, CoordinateSpace coordinateSpace, int numPermutations, int maxGenomicSpan)	broad.core.math.PermutationDistribution
writeWigEachPosition(String outWig)	broad.core.math.PermutationDistribution
writeWindowsWithPvalue(int windowSize, String outBed)	broad.core.math.PermutationDistribution