as.list,AlignedRead-method	readReads
basesCovered	estimate.mean.fraglen
coerce,AlignedRead,GenomeData-method	readReads
combineLanes	combineLanes
contextDistribution	contextDistribution
copyIRanges	copyIRangesbyChr
copyIRangesbyChr	copyIRangesbyChr
coverageplot	coverageplot
cstest	cstest
densityCorr	estimate.mean.fraglen
diffPeakSummary	diffPeakSummary
estimate.mean.fraglen	estimate.mean.fraglen
estimate.mean.fraglen,AlignedRead-method	estimate.mean.fraglen
estimate.mean.fraglen,GenomeData-method	estimate.mean.fraglen
estimate.mean.fraglen,IntegerList-method	estimate.mean.fraglen
estimate.mean.fraglen,list-method	estimate.mean.fraglen
estimate.mean.fraglen,RangedData-method	estimate.mean.fraglen
estimate.mean.fraglen,RangesList-method	estimate.mean.fraglen
extendReads	extendReads
genomic_exons	genomic_regions
genomic_introns	genomic_regions
genomic_regions	genomic_regions
laneSubsample	combineLanes
readReads	readReads
sparse.density	estimate.mean.fraglen
subsetSummary	subsetSummary
