Files in hbc/bcbioRnaseq
bcbio RNA-Seq

.Rbuildignore
.gitignore
.lintr
.travis.yml
CONTRIBUTING.md
DESCRIPTION
LICENSE
NAMESPACE
NEWS.md R/AllClasses.R R/AllGenerators.R R/AllGenerics.R R/AllGlobals.R R/DESeq2-internal.R R/assertions-internal.R R/coerce-methods.R R/counts-methods.R R/data.R R/deprecated.R R/extract-methods.R R/featureCounts-internal.R R/ggplot2-internal.R R/imports.R R/package.R R/plot5Prime3PrimeBias-methods.R R/plotCorrelationHeatmap-methods.R R/plotCounts-methods.R R/plotCountsPerBiotype-methods.R R/plotCountsPerFeature-methods.R R/plotDispEsts-methods.R R/plotExonicMappingRate-methods.R R/plotGenderMarkers-methods.R R/plotGeneSaturation-methods.R R/plotIntronicMappingRate-methods.R R/plotMappedReads-methods.R R/plotMappingRate-methods.R R/plotMeanSD-methods.R R/plotPCA-methods.R R/plotPCACovariates-methods.R R/plotPseudoVsAlignedCounts-methods.R R/plotQC-methods.R R/plotRRNAMappingRate-methods.R R/plotTotalReads-methods.R R/reexports.R R/relativeLogExpression-methods.R R/show-methods.R R/slotAlignedCounts-methods.R R/tmm-methods.R R/tximport-internal.R R/updateObject-methods.R README.md
_pkgdown.yml
appveyor.yml
bcbioRNASeq.Rproj
data-raw/.gitignore
data-raw/bcb.R data-raw/f1000.R
data/bcb.rda
docs/404.html
docs/CONTRIBUTING.html
docs/LICENSE-text.html
docs/articles/bcbioRNASeq.html
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docs/pkgdown.css
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inst/CITATION
inst/extdata/bcbio/2018-03-18_GSE65267-merged/bcbio-nextgen-commands.log
inst/extdata/bcbio/2018-03-18_GSE65267-merged/bcbio-nextgen.log
inst/extdata/bcbio/2018-03-18_GSE65267-merged/combined.counts
inst/extdata/bcbio/2018-03-18_GSE65267-merged/programs.txt
inst/extdata/bcbio/2018-03-18_GSE65267-merged/project-summary.yaml
inst/extdata/bcbio/2018-03-18_GSE65267-merged/tx2gene.csv
inst/extdata/bcbio/control_rep1/salmon/quant.sf
inst/extdata/bcbio/control_rep2/salmon/quant.sf
inst/extdata/bcbio/control_rep3/salmon/quant.sf
inst/extdata/bcbio/fa_day7_rep1/salmon/quant.sf
inst/extdata/bcbio/fa_day7_rep2/salmon/quant.sf
inst/extdata/bcbio/fa_day7_rep3/salmon/quant.sf
inst/extdata/bcbio/sample_metadata.csv
inst/rmarkdown/templates/differential-expression/skeleton/skeleton.Rmd
inst/rmarkdown/templates/differential-expression/template.yaml
inst/rmarkdown/templates/functional-analysis/skeleton/skeleton.Rmd
inst/rmarkdown/templates/functional-analysis/template.yaml
inst/rmarkdown/templates/quality-control/skeleton/skeleton.Rmd
inst/rmarkdown/templates/quality-control/template.yaml
man/bcb.Rd man/bcbioRNASeq-class.Rd man/bcbioRNASeq-package.Rd man/bcbioRNASeq.Rd man/bcbioRNASeqTestsURL.Rd man/coerce.Rd man/counts.Rd man/defunct.Rd man/deprecated.Rd man/extract.Rd man/plot5Prime3PrimeBias.Rd man/plotCorrelationHeatmap.Rd man/plotCounts.Rd man/plotCountsPerBiotype.Rd man/plotCountsPerFeature.Rd man/plotDispEsts.Rd man/plotExonicMappingRate.Rd man/plotGenderMarkers.Rd man/plotGeneSaturation.Rd man/plotIntronicMappingRate.Rd man/plotMappedReads.Rd man/plotMappingRate.Rd man/plotMeanSD.Rd man/plotPCA.Rd man/plotPCACovariates.Rd man/plotPseudoVsAlignedCounts.Rd man/plotQC.Rd man/plotRRNAMappingRate.Rd man/plotTotalReads.Rd man/reexports.Rd man/relativeLogExpression.Rd man/show.Rd man/slotAlignedCounts.Rd man/tmm.Rd man/updateObject.Rd
pkgdown/extra.css
tests/testthat-extra/.gitignore
tests/testthat-extra/test-f1000.R tests/testthat.R
tests/testthat/.gitignore
tests/testthat/helper-globals.R tests/testthat/test-bcb.R tests/testthat/test-bcbioRNASeq.R tests/testthat/test-coerce.R tests/testthat/test-counts.R tests/testthat/test-extract.R tests/testthat/test-plotCorrelationHeatmap.R tests/testthat/test-plotCounts.R tests/testthat/test-plotCountsPerBiotype.R tests/testthat/test-plotCountsPerFeature.R tests/testthat/test-plotDispEsts.R tests/testthat/test-plotFeaturesDetected.R tests/testthat/test-plotGenderMarkers.R tests/testthat/test-plotGeneSaturation.R tests/testthat/test-plotHeatmap.R tests/testthat/test-plotMeanSD.R tests/testthat/test-plotPCA.R tests/testthat/test-plotPCACovariates.R tests/testthat/test-plotPseudoVsAlignedCounts.R tests/testthat/test-plotQC.R tests/testthat/test-relativeLogExpression.R tests/testthat/test-sampleData.R tests/testthat/test-show.R tests/testthat/test-slotAlignedCounts.R tests/testthat/test-tmm.R tests/testthat/test-updateObject.R
vignettes/.gitignore
vignettes/bcbioRNASeq.Rmd
hbc/bcbioRnaseq documentation built on Nov. 20, 2019, 10:21 p.m.