Files in acidgenomics/DESeqAnalysis
DESeq2 Analysis Utilities

.Rbuildignore
.gitignore
.lintr
.travis.yml
DESCRIPTION
DESeqAnalysis.Rproj
LICENSE
NAMESPACE
NEWS.md R/AllClasses.R R/AllGenerators.R R/AllGenerics.R R/AllGlobals.R R/alphaSummary-methods.R R/apeglmResults-methods.R R/as-methods.R R/contrastName-methods.R R/contrastSamples-methods.R R/correlation-methods.R R/data.R R/deg-methods.R R/deprecated.R R/export-methods.R R/importPairwiseContrasts.R R/imports.R R/internal.R R/lfcShrinkType-methods.R R/markdown-methods.R R/matchMetadataToFiles.R R/package.R R/params.R R/plotBaseMean-methods.R R/plotCounts-methods.R R/plotDEGHeatmap-methods.R R/plotDEGPCA-methods.R R/plotDEGUpset-methods.R R/plotHeatmap-methods.R R/plotMA-methods.R R/plotPCA-methods.R R/plotVolcano-methods.R R/prepareTximportFiles.R R/results-methods.R R/resultsMatrix-methods.R R/resultsNames-methods.R R/resultsTables-methods.R R/sampleData-methods.R R/show-methods.R R/topTables-methods.R R/transformType-methods.R R/updateObject-methods.R README.md
_pkgdown.yml
appveyor.yml
data-raw/deseq.R
data/deseq.rda
docs/404.html
docs/CNAME
docs/LICENSE-text.html
docs/authors.html
docs/docsearch.css
docs/docsearch.js
docs/extra.css
docs/index.html
docs/link.svg
docs/news/index.html
docs/news/news-0.1.html
docs/news/news-0.2.html
docs/pkgdown.css
docs/pkgdown.js
docs/pkgdown.yml
docs/reference/DESeqAnalysis-class.html
docs/reference/DESeqAnalysis-package.html
docs/reference/DESeqAnalysis.html
docs/reference/DESeqAnalysisList-class.html
docs/reference/DESeqAnalysisList.html
docs/reference/alphaSummary.html
docs/reference/apeglmResults.html
docs/reference/as.html
docs/reference/contrastName.html
docs/reference/contrastSamples.html
docs/reference/correlation.html
docs/reference/deg.html
docs/reference/deprecated.html
docs/reference/deseq.html
docs/reference/export.html
docs/reference/importPairwiseContrasts.html
docs/reference/index.html
docs/reference/lfcShrinkType.html
docs/reference/markdown.html
docs/reference/matchMetadataToFiles.html
docs/reference/params.html
docs/reference/plotBaseMean-1.png
docs/reference/plotBaseMean.html
docs/reference/plotCounts-1.png
docs/reference/plotCounts-2.png
docs/reference/plotCounts.html
docs/reference/plotDEGHeatmap-1.png
docs/reference/plotDEGHeatmap.html
docs/reference/plotDEGPCA-1.png
docs/reference/plotDEGPCA.html
docs/reference/plotDEGUpset-1.png
docs/reference/plotDEGUpset.html
docs/reference/plotHeatmap-1.png
docs/reference/plotHeatmap-2.png
docs/reference/plotHeatmap-3.png
docs/reference/plotHeatmap.html
docs/reference/plotMA-1.png
docs/reference/plotMA-2.png
docs/reference/plotMA-3.png
docs/reference/plotMA-4.png
docs/reference/plotMA-5.png
docs/reference/plotMA.html
docs/reference/plotPCA-1.png
docs/reference/plotPCA-2.png
docs/reference/plotPCA.html
docs/reference/plotVolcano-1.png
docs/reference/plotVolcano-2.png
docs/reference/plotVolcano-3.png
docs/reference/plotVolcano-4.png
docs/reference/plotVolcano-5.png
docs/reference/plotVolcano.html
docs/reference/prepareTximportFiles.html
docs/reference/results.html
docs/reference/resultsMatrix.html
docs/reference/resultsNames.html
docs/reference/resultsTables.html
docs/reference/sampleData.html
docs/reference/show.html
docs/reference/topTables.html
docs/reference/transformType.html
docs/reference/updateObject.html
inst/extdata/contrasts.csv
inst/rmarkdown/templates/differential-expression/skeleton/.gitignore
inst/rmarkdown/templates/differential-expression/skeleton/skeleton.Rmd
inst/rmarkdown/templates/differential-expression/template.yaml
inst/scripts/render.R man/DESeqAnalysis-class.Rd man/DESeqAnalysis-package.Rd man/DESeqAnalysis.Rd man/DESeqAnalysisList-class.Rd man/DESeqAnalysisList.Rd man/alphaSummary.Rd man/apeglmResults.Rd man/as.Rd man/contrastName.Rd man/contrastSamples.Rd man/correlation.Rd man/deg.Rd man/deprecated.Rd man/deseq.Rd man/export.Rd man/importPairwiseContrasts.Rd man/lfcShrinkType.Rd man/markdown.Rd man/matchMetadataToFiles.Rd man/params.Rd man/plotBaseMean.Rd man/plotCounts.Rd man/plotDEGHeatmap.Rd man/plotDEGPCA.Rd man/plotDEGUpset.Rd man/plotHeatmap.Rd man/plotMA.Rd man/plotPCA.Rd man/plotVolcano.Rd man/prepareTximportFiles.Rd man/results.Rd man/resultsMatrix.Rd man/resultsNames.Rd man/resultsTables.Rd man/sampleData.Rd man/show.Rd man/topTables.Rd man/transformType.Rd man/updateObject.Rd
pkgdown/extra.css
tests/testthat.R tests/testthat/helper-globals.R tests/testthat/test-DESeqAnalysis.R tests/testthat/test-DESeqAnalysisList.R tests/testthat/test-alphaSummary.R tests/testthat/test-contrastName.R tests/testthat/test-contrastSamples.R tests/testthat/test-export.R tests/testthat/test-importPairwiseContrasts.R tests/testthat/test-markdown.R tests/testthat/test-matchMetadataToFiles.R tests/testthat/test-plotCounts.R tests/testthat/test-plotDEGHeatmap.R tests/testthat/test-plotDEGPCA.R tests/testthat/test-plotDEGUpset.R tests/testthat/test-plotMA.R tests/testthat/test-plotPCA.R tests/testthat/test-plotVolcano.R tests/testthat/test-prepareTximportFiles.R tests/testthat/test-results.R tests/testthat/test-resultsMatrix.R tests/testthat/test-resultsNames.R tests/testthat/test-resultsTables.R tests/testthat/test-sampleData.R tests/testthat/test-show.R tests/testthat/test-topTables.R tests/testthat/test-transformType.R tests/testthat/test-updateObject.R
acidgenomics/DESeqAnalysis documentation built on Nov. 21, 2019, 3:56 p.m.