source("http://bioconductor.org/biocLite.R")
biocLite("BiSeq")

BiSeq

Processing and analyzing bisulfite sequencing data

Bioconductor version: 2.13

The BiSeq package provides useful classes and functions to handle and analyze targeted bisulfite sequencing (BS) data such as reduced-representation bisulfite sequencing (RRBS) data. In particular, it implements an algorithm to detect differentially methylated regions (DMRs). The package takes already aligned BS data from one or multiple samples.

Author: Katja Hebestreit, Hans-Ulrich Klein

Maintainer: Katja Hebestreit <katja.hebestreit at uni-muenster.de>

Installation

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("BiSeq")

Documentation

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

browseVignettes("BiSeq")

 

PDF	R Script	An Introduction to BiSeq
PDF		Reference Manual

Details

biocViews	DNAMethylation, Genetics, HighThroughputSequencing, Methylseq, Sequencing, Software
Version	1.2.5
In Bioconductor since	BioC 2.12 (R-3.0)
License	LGPL-3
Depends	R (>= 2.15.2), methods, IRanges(>= 1.17.24), GenomicRanges, Formula
Imports	methods, BiocGenerics, Biobase, IRanges, GenomicRanges, rtracklayer, parallel, betareg, lokern, Formula, globaltest
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Package Archives

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

Package Source	BiSeq_1.2.5.tar.gz
Windows Binary	BiSeq_1.2.5.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)	BiSeq_1.2.5.tgz
Browse/checkout source	(username/password: readonly)
Package Downloads Report	Download Stats