Gene Set Analysis Using the Outcome of Differential Methylation

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Documentation for package ‘methylGSA’ version 1.16.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.

Help Pages

barplot	Barplot for methylGSA analysis result
cpg.pval	An example of user input cpg.pval
CpG2Gene	An example of user user-supplied mapping between CpGs and genes
getAnnot	Get CpG annotation
getDescription	Get gene set description
getGS	Get Gene Sets
GS.list	An example of user input gene sets
methylglm	Implement logistic regression adjusting for number of probes in enrichment analysis
methylgometh	Adjusting number of probes in gene set testing using gometh or gsameth in missMethyl
methylRRA	Enrichment analysis after adjusting multiple p-values of each gene by Robust Rank Aggregation
prepareAnnot	Prepare user-supplied mapping between CpGs and genes.
runExample	methylGSA shiny app