bsseq
This package is for version 3.19 of Bioconductor; for the stable, up-to-date release version, see bsseq.
Analyze, manage and store bisulfite sequencing data
Bioconductor version: 3.19
A collection of tools for analyzing and visualizing bisulfite sequencing data.
Author: Kasper Daniel Hansen [aut, cre], Peter Hickey [aut]
Maintainer: Kasper Daniel Hansen <kasperdanielhansen at gmail.com>
Citation (from within R, enter
citation("bsseq")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("bsseq")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("bsseq") Reference Manual
PDF
NEWS
Text
Details
biocViews
DNAMethylation, Software
Version
1.40.0
In Bioconductor since
BioC 2.11 (R-2.15) (12 years)
License
Artistic-2.0
Depends
R (>= 4.0), methods, BiocGenerics, GenomicRanges(>= 1.41.5), SummarizedExperiment(>= 1.19.5)
Imports
IRanges(>= 2.23.9), GenomeInfoDb, scales, stats, graphics, Biobase, locfit, gtools, data.table (>= 1.11.8), S4Vectors(>= 0.27.12), R.utils (>= 2.0.0), DelayedMatrixStats(>= 1.5.2), permute, limma, DelayedArray(>= 0.15.16), Rcpp, BiocParallel, BSgenome, Biostrings, utils, HDF5Array(>= 1.19.11), rhdf5
System Requirements
See More
Suggests
testthat, bsseqData, BiocStyle, rmarkdown, knitr, Matrix, doParallel, rtracklayer, BSgenome.Hsapiens.UCSC.hg38, beachmat(>= 1.5.2), batchtools
Enhances
Suggests Me
methrix, tissueTreg
Links To Me
Build Report
Build Report
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package
bsseq_1.40.0.tar.gz
Windows Binary (x86_64)
bsseq_1.40.0.zip
macOS Binary (x86_64)
bsseq_1.40.0.tgz
macOS Binary (arm64)
bsseq_1.40.0.tgz
Source Repository
git clone https://git.bioconductor.org/packages/bsseq
Source Repository (Developer Access)
git clone git@git.bioconductor.org:packages/bsseq
Bioc Package Browser
https://code.bioconductor.org/browse/bsseq/
Package Short Url
https://bioconductor.org/packages/bsseq/
Package Downloads Report
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