Files in GeneStructureTools

Tools for spliced gene structure manipulation and analysis

README.md

NAMESPACE

DESCRIPTION

LICENSE

build/vignette.rds

R/longestORF.R R/quickAnalysis.R R/compareTranscripts.R R/IntronRetention.R R/classes.R R/leafCutter.R R/AltSplicingJunctionSupported.R R/ExonSkipping.R R/UTR2UTR53.R R/OverlapFunctions.R R/readWhippetFiles.R R/plotGvisTracks.R

vignettes/transcript_types_broad_table.txt

vignettes/Eif4a2_clu_1396.png

vignettes/transcript_types_broad_table

vignettes/whippetExonSkip.png

vignettes/whippetAltFirstLast.png

vignettes/whippetAltAceDon.png

vignettes/Vignette.Rmd

vignettes/whippetIntronRetention.png

vignettes/Rnps1_clu_1281.png

vignettes/HexLogoGeneStructureTools.png

man/readCounts-methods.Rd man/attrChangeAltSpliced.Rd man/filterWhippetEvents.Rd man/orfSimilarity.Rd man/filterGtfOverlap.Rd man/annotateGeneModel.Rd man/summariseExonTypes.Rd man/getOrfs.Rd man/findIntronContainingTranscripts.Rd man/getUOrfs.Rd man/orfDiff.Rd man/exonsToTranscripts.Rd man/readWhippetDIFFfiles.Rd man/whippetTranscriptChangeSummary.Rd man/formatWhippetEvents.Rd man/addIntronInTranscript.Rd man/makeGeneModel.Rd man/UTR2UTR53.Rd man/leafcutterTranscriptChangeSummary.Rd man/readWhippetDataSet.Rd man/findJunctionPairs.Rd man/reorderExonNumbers.Rd man/coordinates-methods.Rd man/removeSameExon.Rd man/junctions-methods.Rd man/findDEXexonType.Rd man/skipExonInTranscript.Rd man/removeVersion.Rd man/cumsumANDpad.Rd man/DEXSeqIdsToGeneIds.Rd man/readWhippetPSIfiles.Rd man/replaceJunction.Rd man/addBroadTypes.Rd man/findExonContainingTranscripts.Rd man/addSets.Rd man/overlapTypes.Rd man/maxLocation.Rd man/diffSplicingResults-methods.Rd man/alternativeIntronUsage.Rd man/removeDuplicateTranscripts.Rd man/transcriptChangeSummary.Rd man/whippetDataSet-class.Rd man/readWhippetJNCfiles.Rd

inst/NEWS

inst/doc/Vignette.html

inst/doc/Vignette.Rmd inst/doc/Vignette.R inst/extdata/leafviz2table.R

inst/extdata/example_gtf.gtf

inst/extdata/dexseq_results_significant.txt

inst/extdata/dexseq_process.R

inst/extdata/gencode.vM14.dexseq.gtf

inst/extdata/leafcutter/per_intron_results.tab

inst/extdata/whippet/B01.jnc.gz

inst/extdata/whippet/A21.psi.gz

inst/extdata/whippet/A21.jnc.gz

inst/extdata/whippet/01_v_21.diff.gz

inst/extdata/whippet/B21.psi.gz

inst/extdata/whippet/B01.psi.gz

inst/extdata/whippet/B21.jnc.gz

inst/extdata/whippet/A01.jnc.gz

inst/extdata/whippet/A01.psi.gz

GeneStructureTools documentation built on Nov. 8, 2020, 6:04 p.m.