bsseq: Analyze, manage and store bisulfite sequencing data

A collection of tools for analyzing and visualizing bisulfite sequencing data.

AuthorKasper Daniel Hansen [aut, cre], Peter Hickey [ctb]
Date of publicationNone
MaintainerKasper Daniel Hansen <kasperdanielhansen@gmail.com>
LicenseArtistic-2.0
Version1.10.0
https://github.com/kasperdanielhansen/bsseq

View on Bioconductor

Files in this package

bsseq/DESCRIPTION
bsseq/NAMESPACE
bsseq/R
bsseq/R/BSmooth.R bsseq/R/BSmooth.fstat.R bsseq/R/BSmooth.tstat.R bsseq/R/BSseqStat_class.R bsseq/R/BSseqTstat_class.R bsseq/R/BSseq_class.R bsseq/R/BSseq_utils.R bsseq/R/combine.R bsseq/R/dmrFinder.R bsseq/R/fisher.R bsseq/R/getStats.R bsseq/R/gof_stats.R bsseq/R/hasGRanges.R bsseq/R/permutations.R bsseq/R/plotting.R bsseq/R/read.bismark.R bsseq/R/read.bsmooth.R bsseq/R/utils.R
bsseq/README.md
bsseq/build
bsseq/build/vignette.rds
bsseq/data
bsseq/data/BS.chr22.rda
bsseq/data/datalist
bsseq/inst
bsseq/inst/CITATION
bsseq/inst/NEWS.Rd
bsseq/inst/doc
bsseq/inst/doc/bsseq.R
bsseq/inst/doc/bsseq.Rnw
bsseq/inst/doc/bsseq.pdf
bsseq/inst/doc/bsseq_analysis.R
bsseq/inst/doc/bsseq_analysis.Rnw
bsseq/inst/doc/bsseq_analysis.pdf
bsseq/inst/extdata
bsseq/inst/extdata/test_data.cytosineReport.gz
bsseq/inst/extdata/test_data.fastq_bismark.bismark.cov.gz
bsseq/inst/scripts
bsseq/inst/scripts/get_BS.chr22.R
bsseq/inst/unitTests
bsseq/inst/unitTests/test_base.R
bsseq/inst/unitTests/test_perm.R
bsseq/inst/unitTests/test_read.bismark.R
bsseq/man
bsseq/man/BS.chr22.Rd bsseq/man/BSmooth.Rd bsseq/man/BSmooth.fstat.Rd bsseq/man/BSmooth.tstat.Rd bsseq/man/BSseq-class.Rd bsseq/man/BSseq.Rd bsseq/man/BSseqStat-class.Rd bsseq/man/BSseqTstat-class.Rd bsseq/man/computeStat.Rd bsseq/man/data.frame2GRanges.Rd bsseq/man/dmrFinder.Rd bsseq/man/fisherTests.Rd bsseq/man/getCoverage.Rd bsseq/man/getMeth.Rd bsseq/man/getStats.Rd bsseq/man/goodnessOfFit.Rd bsseq/man/hasGRanges-class.Rd bsseq/man/internals.Rd bsseq/man/plotRegion.Rd bsseq/man/read.bismark.Rd bsseq/man/read.bsmooth.Rd bsseq/man/read.umtab.Rd bsseq/man/smoothSds.Rd
bsseq/tests
bsseq/tests/runTests.R
bsseq/vignettes
bsseq/vignettes/bsseq.Rnw
bsseq/vignettes/bsseq.bib
bsseq/vignettes/bsseq_analysis.Rnw
bsseq/vignettes/unsrturl.bst

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