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This is the development version of BiSeq; for the stable release version, see BiSeq.

Processing and analyzing bisulfite sequencing data

Bioconductor version: Development (3.19)

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 gmail.com>

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


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


For older versions of R, please refer to the appropriate Bioconductor release.


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

An Introduction to BiSeq PDF R Script
Reference Manual PDF


biocViews DNAMethylation, Genetics, MethylSeq, Sequencing, Software
Version 1.43.0
In Bioconductor since BioC 2.12 (R-3.0) (11 years)
License LGPL-3
Depends R (>= 3.5.0), methods, S4Vectors, IRanges(>= 1.17.24), GenomicRanges, SummarizedExperiment(>= 0.2.0), Formula
Imports methods, BiocGenerics, Biobase, S4Vectors, IRanges, GenomeInfoDb, GenomicRanges, SummarizedExperiment, rtracklayer, parallel, betareg, lokern, Formula, globaltest
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Follow Installation instructions to use this package in your R session.

Source Package BiSeq_1.43.0.tar.gz
Windows Binary BiSeq_1.43.0.zip
macOS Binary (x86_64) BiSeq_1.43.0.tgz
macOS Binary (arm64) BiSeq_1.43.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/BiSeq
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/BiSeq
Bioc Package Browser https://code.bioconductor.org/browse/BiSeq/
Package Short Url https://bioconductor.org/packages/BiSeq/
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