API for csaw
ChIP-Seq Analysis with Windows

Global functions
$,readParam-method Man page
activeChrs Source code
asDGEList Man page
asDGEList,SummarizedExperiment-method Man page
boundIntervals Source code
checkBimodality Man page Source code
checkLibSizes Source code
check_bimodality Source code
check_test_inputs Source code
clusterFDR Man page Source code
clusterWindows Man page Source code
coerceFragments Source code
collateExt Source code
combineOverlaps Man page Source code
combineTests Man page Source code
consolidateClusters Man page Source code
consolidateSizes Man page Source code
controlClusterFDR Man page Source code
correlateReads Man page Source code
correlate_reads Source code
csaw Man page
csawUsersGuide Man page Source code
decideStrand Source code
detailRanges Man page Source code
discardReads Source code
empiricalFDR Man page Source code
empiricalOverlaps Man page Source code
expandNA Source code
extendSE Source code
extendSEdir Source code
extractPE Source code
extractReads Man page Source code
extractSE Source code
filterWindows Man page Source code
findMaxima Man page Source code
formatColData Source code
getBestOverlaps Man page Source code
getBestTest Man page Source code
getGlobalBg Source code
getPESizes Man page Source code
getPValCol Source code
getWidths Man page Source code
getWindowNum Source code
make_one_sided Source code
maximizeCcf Man page Source code
mergeWindows Man page Source code
mixedClusters Man page Source code
mixedOverlaps Man page Source code
normOffsets Man page
normOffsets,SummarizedExperiment-method Man page
normOffsets,matrix-method Man page
normalize Man page
normalize,SummarizedExperiment-method Man page
overlapStats Source code
parseFCcol Source code
profileSites Man page Source code
profile_sites Source code
readParam Man page Source code
readParam-class Man page
reform Man page
reform,readParam-method Man page
regionCounts Man page Source code
region_counts Source code
runningWM Source code
scaleControlFilter Man page Source code
scaledAverage Man page Source code
show,readParam-method Man page
strandedCounts Man page Source code
summitOverlaps Man page Source code
toGRanges Source code
upweightSummit Man page Source code
weightedFDR Source code
windowCounts Man page Source code
window_counts Source code
wwhm Man page Source code
csaw documentation built on Nov. 17, 2017, 9:21 a.m.