Files in Bishop-Laboratory/RLSeq

RLSeq: An analysis package for R-loop mapping data

.Rbuildignore

.github/workflows/check-bioc.yml

.gitignore

DESCRIPTION

LICENSE

LICENSE.md

NAMESPACE

NEWS.md R/AllClasses.R R/RLRangesFromRLBase.R R/RLSeq.R R/analyzeRLFS.R R/corrAnalyze.R R/data.R R/featureEnrich.R R/geneAnnotation.R R/noiseAnalyze.R R/plots.R R/predictCondition.R R/report.R R/rlRegionTest.R R/txFeatureOverlap.R R/utils-pipe.R R/utils.R R/zzz.R README.md

RLSeq.Rproj

_pkgdown.yml

data-raw/auxdata.R data-raw/available_genomes.R data-raw/genome_masks.R data-raw/randomWindows.R data-raw/rlbaseNoiseAnalyze.R data-raw/rlsampleTxOl.R

data/auxdata.rda

data/available_genomes.rda

data/genomeMasks.rda

data/randomWindows.rda

data/rlbaseNoiseAnalyze.rda

data/rlsampleTxOl.rda

docs/404.html

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docs/reference/RLRanges.html

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docs/reference/analyzeRLFS.html

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docs/reference/checkRLFSAnno.html

docs/reference/corrAnalyze.html

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docs/reference/featureEnrich.html

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docs/reference/geneAnnotation.html

docs/reference/genomeMasks.html

docs/reference/getChromSizes.html

docs/reference/getGSSignal.html

docs/reference/getRLFSAnno.html

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docs/reference/predictCondition.html

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docs/reference/rlRegionTest.html

docs/reference/rlbaseNoiseAnalyze.html

docs/reference/rlresult.html

docs/reference/rlsampleTxOl.html

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docs/reference/txFeatureOverlap.html

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inst/CITATION

inst/README.md inst/Rmd/correlationMat.Rmd

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inst/Rmd/featureEnrichment.Rmd inst/Rmd/geneAnnoRes.Rmd

inst/Rmd/header.html

inst/Rmd/noiseAnalysis.Rmd inst/Rmd/predictRes.Rmd inst/Rmd/report.Rmd

inst/Rmd/report_style.css

inst/Rmd/rlRegionRes.Rmd inst/Rmd/rlfsRes.Rmd inst/Rmd/txFeatureOverlap.Rmd

inst/extdata/Centromeres.csv.gz

inst/extdata/SRX7671349_hg38.broadPeak

inst/extdata/rlrsmall.rds

inst/scripts/extdata.R man/RLRanges.Rd man/RLRangesFromRLBase.Rd man/RLResults.Rd man/RLSeq.Rd man/analyzeRLFS.Rd man/auxdata.Rd man/available_genomes.Rd man/checkRLFSAnno.Rd man/corrAnalyze.Rd man/corrHeatmap.Rd man/featureEnrich.Rd man/feature_ggplot.Rd man/geneAnnotation.Rd man/genomeMasks.Rd man/getChromSizes.Rd man/getGSSignal.Rd man/getRLFSAnno.Rd man/noiseAnalyze.Rd man/noiseComparisonPlot.Rd man/peak_stats.Rd man/pipe.Rd man/plotEnrichment.Rd man/plotFingerprint.Rd man/plotRLFSRes.Rd man/plotRLRegionOverlap.Rd man/plotTxFeatureOverlap.Rd man/predictCondition.Rd man/randomWindows.Rd man/report.Rd man/rlRegionTest.Rd man/rlbaseNoiseAnalyze.Rd man/rlsampleTxOl.Rd man/tableToRegions.Rd man/txFeatureOverlap.Rd man/urlExists.Rd

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tests/testthat.R tests/testthat/test-RLRanges.R tests/testthat/test-RLRangesFromRLBase.R tests/testthat/test-plotEnrichment.R tests/testthat/test-report.R tests/testthat/test-rlseq.R

vignettes/.gitignore

vignettes/RLSeq.Rmd

vignettes/references.bib

Bishop-Laboratory/RLSeq documentation built on Jan. 28, 2023, 11:38 p.m.