TIN: Transcriptome instability analysis

The TIN package implements a set of tools for transcriptome instability analysis based on exon expression profiles. Deviating exon usage is studied in the context of splicing factors to analyse to what degree transcriptome instability is correlated to splicing factor expression. In the transcriptome instability correlation analysis, the data is compared to both random permutations of alternative splicing scores and expression of random gene sets.

AuthorBjarne Johannessen, Anita Sveen and Rolf I. Skotheim
Date of publicationNone
MaintainerBjarne Johannessen <bjajoh@rr-research.no>
LicenseArtistic-2.0
Version1.6.0

View on Bioconductor

Files

TIN/DESCRIPTION
TIN/NAMESPACE
TIN/NEWS
TIN/R
TIN/R/aberrantExonUsage.R TIN/R/clusterPlot.R TIN/R/correlation.R TIN/R/correlationPlot.R TIN/R/firmaAnalysis.R TIN/R/geneSetCorrelation.R TIN/R/posNegCorrPlot.R TIN/R/probesetPermutations.R TIN/R/readGeneSummaries.R TIN/R/scatterPlot.R
TIN/build
TIN/build/vignette.rds
TIN/data
TIN/data/datalist
TIN/data/geneAnnotation.rda
TIN/data/geneSets.rda
TIN/data/sampleSetFirmaScores.rda
TIN/data/sampleSetGeneSummaries.rda
TIN/data/splicingFactors.rda
TIN/doc
TIN/doc/TIN.pdf
TIN/inst
TIN/inst/doc
TIN/inst/doc/TIN.R
TIN/inst/doc/TIN.Rnw
TIN/inst/doc/TIN.pdf
TIN/inst/unitTests
TIN/inst/unitTests/test_aberrantExonUsage.R
TIN/inst/unitTests/test_firmaAnalysis.R
TIN/inst/unitTests/test_geneSetCorrelation.R
TIN/inst/unitTests/test_probesetPermutations.R
TIN/inst/unitTests/test_readGeneSummaries.R
TIN/man
TIN/man/aberrantExonUsage.Rd TIN/man/clusterPlot.Rd TIN/man/correlation.Rd TIN/man/correlationPlot.Rd TIN/man/firmaAnalysis.Rd TIN/man/geneAnnotation.Rd TIN/man/geneSetCorrelation.Rd TIN/man/geneSets.Rd TIN/man/posNegCorrPlot.Rd TIN/man/probesetPermutations.Rd TIN/man/readGeneSummaries.Rd TIN/man/sampleSetFirmaScores.Rd TIN/man/sampleSetGeneSummaries.Rd TIN/man/scatterPlot.Rd TIN/man/splicingFactors.Rd
TIN/tests
TIN/tests/runTests.R
TIN/vignettes
TIN/vignettes/TIN.Rnw

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