DOI: 10.18129/B9.bioc.methylGSA    

Gene Set Analysis Using the Outcome of Differential Methylation

Bioconductor version: Release (3.8)

The main functions for methylGSA are methylglm and methylRRA. methylGSA implements logistic regression adjusting number of probes as a covariate. methylRRA adjusts multiple p-values of each gene by Robust Rank Aggregation. For more detailed help information, please see the vignette.

Author: Xu Ren [aut, cre], Pei Fen Kuan [aut]

Maintainer: Xu Ren <xuren2120 at>

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


To install this package, start R and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
BiocManager::install("methylGSA", version = "3.8")


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



HTML R Script methylGSA: Gene Set Analysis for DNA Methylation Datasets
PDF   Reference Manual


biocViews DNAMethylation, DifferentialMethylation, GeneRegulation, GeneSetEnrichment, Pathways, Regression, Software
Version 1.0.0
License GPL-2
Depends R (>= 3.5)
Imports RobustRankAggreg, ggplot2, stringr, stats, clusterProfiler, missMethyl,, reactome.db, GO.db, AnnotationDbi, IlluminaHumanMethylation450kanno.ilmn12.hg19, IlluminaHumanMethylationEPICanno.ilm10b2.hg19
Suggests knitr, rmarkdown, testthat, enrichplot
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package methylGSA_1.0.0.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan) methylGSA_1.0.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
Package Short Url
Package Downloads Report Download Stats

Documentation »


R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: