API for Bioconductor-mirror/chromstaR
Combinatorial and Differential Chromatin State Analysis for ChIP-Seq Data

Global functions
Chromstar Man page Source code
assignGroups Source code
bin2dec Man page Source code
binReads Man page Source code
binned.data Man page
binning Man page
callPeaksMultivariate Man page Source code
callPeaksReplicates Man page Source code
callPeaksUnivariate Man page Source code
callPeaksUnivariateAllChr Man page Source code
changeFDR Man page Source code
changeFDR.multivariate Source code
changeFDR.univariate Source code
changePostCutoff Man page Source code
changePostCutoff.multivariate Source code
changePostCutoff.univariate Source code
check.exclusive.table Source code
check.experiment.table Source code
check.integer Source code
check.logical Source code
check.multivariate.model Source code
check.multivariate.modellist Source code
check.nonnegative.integer Source code
check.nonnegative.integer.vector Source code
check.nonnegative.vector Source code
check.positive Source code
check.positive.integer Source code
check.positive.integer.vector Source code
check.positive.vector Source code
check.univariate.model Source code
check.univariate.modellist Source code
chromstaR Man page
chromstaR-objects Man page
chromstaR-package Man page
collapseBins Man page Source code
combinatorialStates Man page Source code
combineMultivariates Man page Source code
combinedHMM Man page
combinedMultiHMM Man page
combined_model Man page
conversion Man page
dec2bin Man page Source code
differentialScoreMax Man page Source code
differentialScoreSum Man page Source code
differentialScores Source code
dnbinom.mean Source code
dnbinom.prob Source code
dnbinom.size Source code
dnbinom.variance Source code
dzinbinom Man page Source code
enrichmentAtAnnotation Man page Source code
enrichment_analysis Man page
experiment.table Man page
exportBinnedData Source code
exportCombinations Man page Source code
exportCombinedMultivariate Source code
exportCombinedMultivariateCombinations Source code
exportCombinedMultivariateCounts Source code
exportCombinedMultivariatePeaks Source code
exportCounts Man page Source code
exportFiles Man page
exportGRangesAsBedFile Man page Source code
exportMultivariate Source code
exportMultivariateCombinations Source code
exportMultivariateCounts Source code
exportMultivariatePeaks Source code
exportPeaks Man page Source code
exportUnivariateCounts Source code
exportUnivariatePeaks Source code
exportUnivariates Source code
fixedWidthBins Man page Source code
genes_rn4 Man page
genomicFrequencies Man page Source code
getCombinations Man page Source code
getDistinctColors Man page Source code
getPeakScore.univariate Source code
getPeakScores Source code
getStateColors Man page Source code
get_rightxlim Source code
heatmapCombinations Man page Source code
heatmapCountCorrelation Man page Source code
heatmapTransitionProbs Man page Source code
insertchr Source code
loadHmmsFromFiles Man page Source code
mergeChroms Man page Source code
messageU Source code
multi.hmm Man page
multiHMM Man page
multivariateSegmentation Man page Source code
multivariate_model Man page
onAttach Source code
plotBoxplot Source code
plotEnrichCountHeatmap Man page Source code
plotEnrichment Man page Source code
plotExpression Man page Source code
plotFoldEnrichHeatmap Man page Source code
plotGenomeBrowser Man page Source code
plotHistogram Man page Source code
plotHistograms Man page Source code
plotKaryogram Man page Source code
plotNormalTransformation Source code
plotting Man page
prepareMultivariate Source code
print.combinedMultiHMM Man page Source code
print.multiHMM Man page Source code
print.uniHMM Man page Source code
pzinbinom Man page Source code
qzinbinom Man page Source code
readBamFileAsGRanges Man page Source code
readBedFileAsGRanges Man page Source code
readConfig Man page Source code
readCustomBedFile Man page Source code
removeCondition Man page Source code
rpkm.matrix Source code
rpkm.vector Source code
runMultivariate Source code
rzinbinom Man page Source code
scanBinsizes Man page Source code
scores Man page
simulateMultivariate Man page Source code
simulateReadsFromCounts Man page Source code
simulateUnivariate Man page Source code
startTimedMessage Source code
state.brewer Man page Source code
stateBrewer Man page Source code
stateorderByTransition Source code
stateswap Source code
stopTimedMessage Source code
subsample Man page Source code
transProbs Source code
transitionFrequencies Man page Source code
uni.hmm Man page
uniHMM Man page
unis2pseudomulti Man page Source code
variableWidthBins Man page Source code
writeConfig Man page Source code
zinbinom Man page
Bioconductor-mirror/chromstaR documentation built on July 21, 2017, 11:42 a.m.