# Gene Set Analysis Using the Outcome of Differential Methylation

## Documentation for package ‘methylGSA’ version 1.29.0

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS
- Package README

## 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