API for jma1991/Daim
Analysis, interpretation, and visualization of DamID-seq data

Global functions
Daim Man page Source code
annotatePeaks Man page Source code
annotatePeaks.nearestTSS Source code
annotatePeaks.overlapRef Source code
callPeaks Man page Source code
callPeaks.RangedSummarizedExperiment Source code
centerMotif Man page Source code
centerMotif.GRanges Source code
computeInput Man page Source code
computeInput.RangedSummarizedExperiment Source code
daimTreat Man page Source code
digestGenome Man page Source code
digestGenome.BSgenome Source code
digestGenome.DNAStringSet Source code
digestGenome.FaFile Source code
filterBySize Man page Source code
filterBySize.GRanges Source code
fragmentCounts Man page Source code
fragmentCounts.flank Source code
fragmentCounts.inner Source code
genomeInfo Man page
normalizeBias Man page Source code
normalizeBias.RangedSummarizedExperiment Source code
plotComplexity Man page Source code
plotComplexity.RangedSummarizedExperiment Source code
plotCorrelation Man page Source code
plotCorrelation.RangedSummarizedExperiment Source code
plotCoverage Man page Source code
plotCoverage.RangedSummarizedExperiment Source code
plotDensity Man page Source code
plotDensity.RangedSummarizedExperiment Source code
plotEnrichment Man page Source code
plotEnrichment.RangedSummarizedExperiment Source code
plotFeature Man page Source code
plotMA Man page Source code
plotMA.RangedSummarizedExperiment Source code
plotMDS Man page Source code
plotMDS.RangedSummarizedExperiment Source code
plotMDS.matrix Source code
plotPCA Man page Source code
plotPCA.RangedSummarizedExperiment Source code
plotPCA.matrix Source code
plotTSS Man page Source code
plotTSS.absolute Source code
plotTSS.relative Source code
rollAssay Man page Source code
searchMotif Man page Source code
searchMotif.BSgenome Source code
writeAssay Man page Source code
writeAssay.counts Source code
writeAssay.qsmooth Source code
writeBroad Man page Source code
writeBroad.GRanges Source code
writeRatio Man page Source code
writeRatio.RangedSummarizedExperiment Source code
jma1991/Daim documentation built on Aug. 14, 2019, 2:34 p.m.