Gene Set Analysis Using the Outcome of Differential Methylation


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Documentation for package ‘methylGSA’ version 1.12.0

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