EpiMethEx 2.0 is a R package performing clustering analysis of adjacent CG using Infinium HumanMethylation450K probeset annotation to identify intragenic and intergenic CG clusters. Clustering analyses are then performed considering the correlation data between CG methylation status and expression levels of relative genes, as well as the Beta difference values computed between the comparison groups. Integrated analysis is also executed combining methDNA, correlation, and Beta difference CG clusters.