dupRadar: Assessment of duplication rates in RNA-Seq datasets

Duplication rate quality control for RNA-Seq datasets.

AuthorSergi Sayols <sergisayolspuig@gmail.com>, Holger Klein <holger.klein@gmail.com>
Date of publicationNone
MaintainerSergi Sayols <sergisayolspuig@gmail.com>, Holger Klein <holger.klein@gmail.com>
LicenseGPL-3
Version1.4.0

View on Bioconductor

Files in this package

dupRadar/.BBSoptions
dupRadar/DESCRIPTION
dupRadar/NAMESPACE
dupRadar/NEWS
dupRadar/R
dupRadar/R/analyzeDuprates.R dupRadar/R/cumulativeDuprateBarplot.R dupRadar/R/dupRadar.R dupRadar/R/duprateExpBoxplot.R dupRadar/R/duprateExpDensPlot.R dupRadar/R/duprateExpFit.R dupRadar/R/duprateExpIdentify.R dupRadar/R/duprateExpPlot.R dupRadar/R/expressionHist.R dupRadar/R/getBinDuplication.R dupRadar/R/getBinRpkMean.R dupRadar/R/getDupMatBin.R dupRadar/R/getDupMatStats.R dupRadar/R/getDynamicRange.R dupRadar/R/getRpkBinReadCountFraction.R dupRadar/R/getRpkCumulativeReadCountFraction.R dupRadar/R/markDuplicates.R dupRadar/R/readcountExpBoxplot.R
dupRadar/build
dupRadar/build/vignette.rds
dupRadar/data
dupRadar/data/datalist
dupRadar/data/dupRadar_examples.RData
dupRadar/inst
dupRadar/inst/doc
dupRadar/inst/doc/dupRadar.R
dupRadar/inst/doc/dupRadar.Rmd
dupRadar/inst/doc/dupRadar.html
dupRadar/inst/extdata
dupRadar/inst/extdata/genes.gtf
dupRadar/inst/extdata/wgEncodeCaltechRnaSeqGm12878R1x75dAlignsRep2V2.bam
dupRadar/inst/extdata/wgEncodeCaltechRnaSeqGm12878R1x75dAlignsRep2V2.bam.bai
dupRadar/inst/extdata/wgEncodeCaltechRnaSeqGm12878R1x75dAlignsRep2V2_duprm.bam
dupRadar/inst/extdata/wgEncodeCaltechRnaSeqGm12878R1x75dAlignsRep2V2_duprm.bam.log
dupRadar/man
dupRadar/man/analyzeDuprates.Rd dupRadar/man/bamutilMarkDuplicates.Rd dupRadar/man/cumulativeDuprateBarplot.Rd dupRadar/man/dm.Rd dupRadar/man/dm.bad.Rd dupRadar/man/dupRadar.Rd dupRadar/man/dupRadar_examples.Rd dupRadar/man/duprateExpBoxplot.Rd dupRadar/man/duprateExpDensPlot.Rd dupRadar/man/duprateExpFit.Rd dupRadar/man/duprateExpIdentify.Rd dupRadar/man/duprateExpPlot.Rd dupRadar/man/expressionHist.Rd dupRadar/man/getBinDuplication.Rd dupRadar/man/getBinRpkMean.Rd dupRadar/man/getDupMatBin.Rd dupRadar/man/getDupMatStats.Rd dupRadar/man/getDynamicRange.Rd dupRadar/man/getRpkBinReadCountFraction.Rd dupRadar/man/getRpkCumulativeReadCountFraction.Rd dupRadar/man/markDuplicates.Rd dupRadar/man/picardMarkDuplicates.Rd dupRadar/man/readcountExpBoxplot.Rd
dupRadar/vignettes
dupRadar/vignettes/dupRadar.Rmd
dupRadar/vignettes/figures
dupRadar/vignettes/figures/GCcontent.svg
dupRadar/vignettes/figures/GCdependence.png
dupRadar/vignettes/figures/encode.svg

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

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