JunctionSeq: JunctionSeq: A Utility for Detection of Differential Exon and Splice-Junction Usage in RNA-Seq data

A Utility for Detection and Visualization of Differential Exon or Splice-Junction Usage in RNA-Seq data.

AuthorStephen Hartley [aut, cre] (PhD), Simon Anders [cph], Alejandro Reyes [cph]
Date of publicationNone
MaintainerStephen Hartley <JunctionSeq-contact@list.nih.gov>
Licensefile LICENSE
Version1.4.0
http://hartleys.github.io/JunctionSeq/index.html

View on Bioconductor

Functions

buildAllPlots Man page
buildAllPlotsForGene Man page
defaultColorList Man page
estimateEffectSizes Man page
estimateJunctionSeqDispersions Man page
estimateJunctionSeqSizeFactors Man page
fitJunctionSeqDispersionFunction Man page
junctionSeqColors Man page
JunctionSeqCountSet Man page
JunctionSeqCountSet-class Man page
JUNCTIONSEQ.DEFAULT.COLOR.LIST Man page
plotDispEsts Man page
plotJunctionSeqResultsForGene Man page
plotMA Man page
readAnnotationData Man page
readJunctionSeqCounts Man page
runJunctionSeqAnalyses Man page
testForDiffUsage Man page
writeCompleteResults Man page
writeExprBedTrack Man page
writeSigBedTrack Man page
writeSizeFactors Man page

Files

JunctionSeq/DESCRIPTION
JunctionSeq/LICENSE
JunctionSeq/NAMESPACE
JunctionSeq/NEWS
JunctionSeq/R
JunctionSeq/R/00.minor.utils.R JunctionSeq/R/03.AllClasses.R JunctionSeq/R/DESeq2.adapted.cpp.wrappers.R JunctionSeq/R/adapted.functions.R JunctionSeq/R/file.output.R JunctionSeq/R/func.R JunctionSeq/R/internal.func.R JunctionSeq/R/main.analysis.R JunctionSeq/R/main.plotAlt.R JunctionSeq/R/main.plotGenes.R JunctionSeq/R/plotting.helpers.R
JunctionSeq/build
JunctionSeq/build/vignette.rds
JunctionSeq/inst
JunctionSeq/inst/CITATION
JunctionSeq/inst/doc
JunctionSeq/inst/doc/JunctionSeq.Rnw
JunctionSeq/inst/doc/JunctionSeq.pdf
JunctionSeq/inst/doc/gpl.v3.txt
JunctionSeq/inst/extdata
JunctionSeq/inst/extdata/styles.css
JunctionSeq/man
JunctionSeq/man/JunctionSeqCountSet-class.Rd JunctionSeq/man/buildAllPlots.Rd JunctionSeq/man/buildAllPlotsForGene.Rd JunctionSeq/man/defaultColorList.Rd JunctionSeq/man/estimateEffectSizes.Rd JunctionSeq/man/estimateJunctionSeqDispersions.Rd JunctionSeq/man/estimateJunctionSeqSizeFactors.Rd JunctionSeq/man/fitJunctionSeqDispersionFunction.Rd JunctionSeq/man/plotDispEsts.Rd JunctionSeq/man/plotJunctionSeqResultsForGene.Rd JunctionSeq/man/plotMA.Rd JunctionSeq/man/readAnnotationData.Rd JunctionSeq/man/readJunctionSeqCounts.Rd JunctionSeq/man/runJunctionSeqAnalyses.Rd JunctionSeq/man/testForDiffUsage.Rd JunctionSeq/man/writeBedTrack.Rd JunctionSeq/man/writeCompleteResults.Rd
JunctionSeq/vignettes
JunctionSeq/vignettes/JunctionSeq.Rnw
JunctionSeq/vignettes/JunctionSeq.bib
JunctionSeq/vignettes/figs
JunctionSeq/vignettes/figs/DAY-wiggle.png
JunctionSeq/vignettes/figs/SHAM1_RG1-wiggle.png
JunctionSeq/vignettes/figs/final.png
JunctionSeq/vignettes/figs/fullMultiWig.png
JunctionSeq/vignettes/figs/junctions.png

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