Files in CAGEfightR

Analysis of Cap Analysis of Gene Expression (CAGE) data using Bioconductor

README.md R/bam.R R/swap.R R/check.R R/split.R R/aaa.R R/bw.R R/convert.R R/utils.R R/CTSSs.R R/trimTo.R R/rowsum2.R R/subsetBy.R R/assign.R R/calc.R R/zzz.R R/example.R R/combine.R R/tune.R R/shape.R R/find.R R/track.R R/enhancers.R R/cluster.R R/quick.R R/quantify.R vignettes/Introduction_to_CAGEfightR.Rmd man/findStretches.Rd man/trackCTSS.Rd man/trimToPeak.Rd man/assignTxID.Rd man/calcSupport.Rd man/quantifyClusters.Rd man/quantifyCTSSs2.Rd man/calcTPM.Rd man/convertBED2BigWig.Rd man/bwCommonGenome.Rd man/subsetByComposition.Rd man/shapeMean.Rd man/quickTSSs.Rd man/utilsSimplifyTxDb.Rd man/tuneTagClustering.Rd man/assignGeneID.Rd man/bwGenomeCompatibility.Rd man/trackClusters.Rd man/subsetBySupport.Rd man/utilsAggregateRows.Rd man/trackLinks.Rd man/utilsDeStrand.Rd man/shapeIQR.Rd man/calcComposition.Rd man/subsetByBidirectionality.Rd man/bwValid.Rd man/shapeEntropy.Rd man/checkCTSSs.Rd man/findLinks.Rd man/trackBalance.Rd man/quickGenes.Rd man/assignMissingID.Rd man/balanceBC.Rd man/balanceD.Rd man/trimToPercentiles.Rd man/checkPeaked.Rd man/clusterBidirectionally.Rd man/convertGRanges2GPos.Rd man/quickEnhancers.Rd man/quantifyGenes.Rd man/clusterUnidirectionally.Rd man/swapScores.Rd man/calcTotalTags.Rd man/assignTxType.Rd man/swapRanges.Rd man/calcPooled.Rd man/calcShape.Rd man/calcBidirectionality.Rd man/shapeMultimodality.Rd man/combineClusters.Rd man/exampleDesign.Rd man/quantifyCTSSs.Rd man/checkPooled.Rd man/convertBAM2BigWig.Rd man/utilsScoreOverlaps.Rd inst/doc/Introduction_to_CAGEfightR.Rmd inst/doc/Introduction_to_CAGEfightR.R