basesCovered	estimate.mean.fraglen
chipseqFilter	chipseqFilter
coverageplot	coverageplot
cstest	cstest
densityCorr	estimate.mean.fraglen
densityCorr,GenomicRanges	estimate.mean.fraglen
densityCorr,list	estimate.mean.fraglen
diffPeakSummary	diffPeakSummary
diffPeakSummary,RleViewsList,RleViewsList-method	diffPeakSummary
estimate.mean.fraglen	estimate.mean.fraglen
estimate.mean.fraglen,AlignedRead-method	estimate.mean.fraglen
estimate.mean.fraglen,GRanges-method	estimate.mean.fraglen
islandDepthPlot	islandDepthPlot
laneSubsample	laneSubsample
peakCutoff	peakCutoff
peakSummary	peakSummary-methods
peakSummary,RleViews-method	peakSummary-methods
peakSummary,RleViewsList-method	peakSummary-methods
peakSummary-methods	peakSummary-methods
sparse.density	estimate.mean.fraglen
subsetSummary	subsetSummary
