DOI: 10.18129/B9.bioc.BiSeq    

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

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

Processing and analyzing bisulfite sequencing data

Bioconductor version: Development (3.11)

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 <katjah at>

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


To install this package, start R (version "4.0") and enter:

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

# The following initializes usage of Bioc devel


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


PDF   Reference Manual


biocViews DNAMethylation, Genetics, MethylSeq, Sequencing, Software
Version 1.27.1
In Bioconductor since BioC 2.12 (R-3.0) (7 years)
License LGPL-3
Depends R (>= 2.15.2), 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
Depends On Me RRBSdata
Imports Me M3D
Suggests Me
Links To Me
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