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Gene Set Analysis Using the Outcome of Differential Methylation

Bioconductor version: Release (3.19)

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 (version "4.4") and enter:

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


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:

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


biocViews DNAMethylation, DifferentialMethylation, GeneRegulation, GeneSetEnrichment, Pathways, Regression, Software
Version 1.22.0
In Bioconductor since BioC 3.8 (R-3.5) (5.5 years)
License GPL-2
Depends R (>= 3.5)
Imports RobustRankAggreg, ggplot2, stringr, stats, clusterProfiler, missMethyl,, reactome.db, BiocParallel, GO.db, AnnotationDbi, shiny, IlluminaHumanMethylation450kanno.ilmn12.hg19, IlluminaHumanMethylationEPICanno.ilm10b4.hg19
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Follow Installation instructions to use this package in your R session.

Source Package methylGSA_1.22.0.tar.gz
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macOS Binary (x86_64) methylGSA_1.22.0.tgz
macOS Binary (arm64) methylGSA_1.22.0.tgz
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