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| 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 |