DOI: 10.18129/B9.bioc.RnBeads  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see RnBeads.


Bioconductor version: 3.16

RnBeads facilitates comprehensive analysis of various types of DNA methylation data at the genome scale.

Author: Yassen Assenov [aut], Christoph Bock [aut], Pavlo Lutsik [aut], Michael Scherer [aut], Fabian Mueller [aut, cre]

Maintainer: Fabian Mueller <team at rnbeads.org>

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


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PDF R Script Comprehensive DNA Methylation Analysis with RnBeads
PDF R Script RnBeads Annotation
PDF   Reference Manual
Text   NEWS


biocViews BatchEffect, CpGIsland, DNAMethylation, DataImport, DifferentialMethylation, Epigenetics, ImmunoOncology, MethylSeq, MethylationArray, Preprocessing, QualityControl, Sequencing, Software, TwoChannel
Version 2.16.0
In Bioconductor since BioC 3.1 (R-3.2) (8 years)
License GPL-3
Depends R (>= 3.0.0), BiocGenerics, S4Vectors(>= 0.9.25), GenomicRanges, MASS, cluster, ff, fields, ggplot2 (>= 0.9.2), gplots, grid, gridExtra, limma, matrixStats, methods, illuminaio, methylumi, plyr
Imports IRanges
Suggests Category, GOstats, Gviz, IlluminaHumanMethylation450kmanifest, RPMM, RnBeads.hg19, RnBeads.mm9, XML, annotate, biomaRt, foreach, doParallel, ggbio, isva, mclust, mgcv, minfi, nlme, org.Hs.eg.db, org.Mm.eg.db, org.Rn.eg.db, quadprog, rtracklayer, qvalue, sva, wateRmelon, wordcloud, qvalue, argparse, glmnet, GLAD, IlluminaHumanMethylation450kanno.ilmn12.hg19, scales, missMethyl, impute, shiny, shinyjs, plotrix, hexbin, RUnit, MethylSeekR, sesame
Depends On Me MAGAR
Imports Me
Suggests Me RnBeads.hg19, RnBeads.hg38, RnBeads.mm10, RnBeads.mm9, RnBeads.rn5
Links To Me
Build Report  

Package Archives

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

Source Package RnBeads_2.16.0.tar.gz
Windows Binary RnBeads_2.16.0.zip (64-bit only)
macOS Binary (x86_64) RnBeads_2.16.0.tgz
macOS Binary (arm64) RnBeads_2.16.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/RnBeads
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/RnBeads
Bioc Package Browser https://code.bioconductor.org/browse/RnBeads/
Package Short Url https://bioconductor.org/packages/RnBeads/
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