API for recoup
An R package for the creation of complex genomic profile plots

Global functions
applySelectors Source code
areColors Source code
baseCoverageMatrix Source code
binCoverageMatrix Source code
buildAnnotationStore Man page Source code
calcCoverage Man page Source code
calcDesignPlotProfiles Source code
calcLinearFactors Source code
calcPlotProfiles Source code
checkFileArgs Source code
checkInput Source code
checkMainArgs Source code
checkNumArgs Source code
checkTextArgs Source code
checkUcscToEnsembl Source code
cleanRanges Source code
cmclapply Source code
cmcmapply Source code
correctTranscripts Source code
coverageFromBam Source code
coverageFromBigWig Source code
coverageFromBigWigOld Source code
coverageFromRanges Source code
coverageFromRangesOld Source code
coverageRef Man page Source code
coverageRnaRef Man page Source code
decideChanges Source code
flankFirstLast Source code
getAltHost Source code
getAnnotation Man page Source code
getArg Source code
getBiotypes Man page Source code Source code
getBsOrganism Source code
getChromInfo Source code
getDataset Source code
getDefaultListArgs Source code
getEnsemblAnnotation Source code
getExonAttributes Source code
getFlankingRanges Source code
getGcContent Source code
getGeneAttributes Source code
getHost Source code
getHostOld Source code
getMainRanges Source code
getMainRnaRangesOnTheFly Source code
getRegionalRanges Source code
getSupportedOrganisms Source code
getSupportedRefDbs Source code
getSupportedUcscDbs Source code
getTranscriptAttributes Source code
getTranscriptUtrAttributes Source code
getUcscAnnotation Source code
getUcscCredentials Source code
getUcscDbl Source code
getUcscOrganism Source code
getUcscQuery Source code
getUcscTabledef Source code
getUcscTblTpl Source code
getUcscToEnsembl Source code
getValidChrs Source code
getValidChrsWithMit Source code
getr Man page Source code
graphicsClose Source code
graphicsOpen Source code
kmeansDesign Man page Source code
loadBsGenome Source code
makeHorizontalAnnotation Source code
mergeRuns Man page Source code
orderDesignSignals Source code
orderProfiles Source code
orderProfilesByDesign Source code
orderSignals Source code
prepareBam Source code
preprocessRanges Man page Source code
profileMatrix Man page Source code
readBam Source code
readBed Source code
readConfig Source code
readRanges Source code
recoup Man page Source code
recoupCorrelation Man page Source code
recoupHeatmap Man page Source code
recoupPlot Man page Source code
recoupProfile Man page Source code
recoup_test_data Man page
reduceExons Source code
removeData Man page Source code
resizeRanges Source code
setArg Source code
setr Man page Source code
sliceObj Man page Source code
splitBySeqname Source code
splitVector Source code
ssCI Source code
test.design Man page
test.exons Man page
test.genome Man page
test.input Man page
toOutput Source code
ucscToEnsembl Source code
validateListArgs Source code
validateOrganismArg Source code
recoup documentation built on May 2, 2018, 2:42 a.m.