To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("bsseq")

In most cases, you don't need to download the package archive at all.

bsseq

This package is for version 3.4 of Bioconductor; for the stable, up-to-date release version, see bsseq.

Analyze, manage and store bisulfite sequencing data

Bioconductor version: 3.4

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

Author: Kasper Daniel Hansen [aut, cre], Peter Hickey [ctb]

Maintainer: Kasper Daniel Hansen <kasperdanielhansen at gmail.com>

Citation (from within R, enter citation("bsseq")):

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("bsseq")

Documentation

To view documentation for the version of this package installed in your system, start R and enter: 

browseVignettes("bsseq")
PDF R Script Analyzing WGBS with bsseq
PDF R Script The bsseq user's guide
PDF Reference Manual
Text NEWS

Details

biocViews DNAMethylation, Software
Version 1.10.0
In Bioconductor since BioC 2.11 (R-2.15) (4.5 years)
License Artistic-2.0
Depends R (>= 3.3), methods, BiocGenerics, GenomicRanges(>= 1.23.7), SummarizedExperiment(>= 0.1.1), parallel, limma
Imports IRanges(>= 2.5.17), GenomeInfoDb, scales, stats, graphics, Biobase, locfit, gtools, data.table, S4Vectors, R.utils (>= 2.0.0), matrixStats (>= 0.50.0), permute
LinkingTo
Suggests RUnit, bsseqData, BiocStyle, knitr
SystemRequirements
Enhances
URL https://github.com/kasperdanielhansen/bsseq
BugReports https://github.com/kasperdanielhansen/bsseq/issues
Depends On Me bsseqData, DSS
Imports Me
Suggests Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Package Source bsseq_1.10.0.tar.gz
Windows Binary bsseq_1.10.0.zip
Mac OS X 10.9 (Mavericks) bsseq_1.10.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/bsseq/tree/release-3.4
Package Short Url http://bioconductor.org/packages/bsseq/
Package Downloads Report Download Stats

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