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

msgbsR: methylation sensitive genotyping by sequencing (MS-GBS) R functions

Bioconductor version: Development (3.19)

Pipeline for the anaysis of a MS-GBS experiment.

Author: Benjamin Mayne

Maintainer: Benjamin Mayne <benjamin.mayne at adelaide.edu.au>

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


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:

msgbsR_Example PDF R Script
Reference Manual PDF


biocViews DataImport, DifferentialMethylation, Epigenetics, ImmunoOncology, MethylSeq, Software
Version 1.27.0
In Bioconductor since BioC 3.5 (R-3.4) (7 years)
License GPL-2
Depends R (>= 3.5.0), GenomicRanges, methods
Imports BSgenome, easyRNASeq, edgeR, GenomicAlignments, GenomicFeatures, GenomeInfoDb, ggbio, ggplot2, IRanges, parallel, plyr, Rsamtools, R.utils, stats, SummarizedExperiment, S4Vectors, utils
System Requirements
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Suggests roxygen2, BSgenome.Rnorvegicus.UCSC.rn6
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Package Archives

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

Source Package msgbsR_1.27.0.tar.gz
Windows Binary msgbsR_1.27.0.zip
macOS Binary (x86_64) msgbsR_1.27.0.tgz
macOS Binary (arm64) msgbsR_1.27.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/msgbsR
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/msgbsR
Bioc Package Browser https://code.bioconductor.org/browse/msgbsR/
Package Short Url https://bioconductor.org/packages/msgbsR/
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