Files in aghozlane/DESeq2shaman
Differential gene expression analysis based on the negative binomial distribution
DESCRIPTION
NAMESPACE
NEWS
R/AllClasses.R
R/AllGenerics.R
R/RcppExports.R
R/core.R
R/expanded.R
R/helper.R
R/methods.R
R/plots.R
R/results.R
R/rlogTransformation.R
R/varianceStabilizingTransformation.R
build/vignette.rds
inst/CITATION
inst/doc/DESeq2.R
inst/doc/DESeq2.Rnw
inst/doc/DESeq2.pdf
inst/script/makeSim.R
inst/script/runScripts.R
inst/script/simulateCluster.R
inst/script/simulateDE.R
inst/script/simulateLFCAccuracy.R
inst/script/simulateOutliers.R
inst/script/simulation.Rmd
inst/script/simulation.pdf
inst/script/testsuite.Rmd
inst/unitTests/test_1vs1.R
inst/unitTests/test_LRT_prior.R
inst/unitTests/test_QR.R
inst/unitTests/test_addMLE.R
inst/unitTests/test_betaFitting.R
inst/unitTests/test_dispersionFitting.R
inst/unitTests/test_fringeCases.R
inst/unitTests/test_frozenTransformations.R
inst/unitTests/test_interactions.R
inst/unitTests/test_optim.R
inst/unitTests/test_outlier.R
inst/unitTests/test_parallel.R
inst/unitTests/test_results.R
inst/unitTests/test_rlog.R
inst/unitTests/test_vst.R
man/DESeq.Rd
man/DESeqDataSet.Rd
man/DESeqResults.Rd
man/coef.Rd
man/collapseReplicates.Rd
man/counts.Rd
man/design.Rd
man/dispersionFunction.Rd
man/dispersions.Rd
man/estimateBetaPriorVar.Rd
man/estimateDispersions.Rd
man/estimateDispersionsGeneEst.Rd
man/estimateSizeFactors.Rd
man/estimateSizeFactorsForMatrix.Rd
man/fpkm.Rd
man/fpm.Rd
man/makeExampleDESeqDataSet.Rd
man/nbinomLRT.Rd
man/nbinomWaldTest.Rd
man/normalizationFactors.Rd
man/plotCounts.Rd
man/plotDispEsts.Rd
man/plotMA.Rd
man/plotPCA.Rd
man/replaceOutliers.Rd
man/results.Rd
man/rlog.Rd
man/show.Rd
man/sizeFactors.Rd
man/summary.Rd
man/varianceStabilizingTransformation.Rd
src/DESeq2shaman.cpp
src/Makevars
src/Makevars.win
src/RcppExports.cpp
tests/runTests.R
vignettes/DESeq2.Rnw
vignettes/library.bib
vignettes/vst.nb
vignettes/vst.pdf
