FindComethylatedRegions: Find Contiguous Co-Methylated Regions

In TransBioInfoLab/coMethDMR: Accurate identification of co-methylated and differentially methylated regions in epigenome-wide association studies

Find Contiguous Co-Methylated Regions

Description

Find contiguous comethylated regions based on output file from function MarkComethylatedCpGs

Usage

FindComethylatedRegions(CpGs_df, minCpGs_int = 3)

Arguments

CpGs_df	an output dataframe from function MarkComethylatedCpGs, with variables: CpG, keep, ind, r_drop. See details in documentation for MarkComethylatedCpGs.
minCpGs_int	an integer indicating the minimum number of CpGs for output genomic regions

Value

A data frame with variables ProbeID and Subregion (index for each output contiguous comethylated region)

Examples

   data(betaMatrix_ex4)

   CpGs_df <- MarkComethylatedCpGs(betaCluster_mat = betaMatrix_ex4)

   FindComethylatedRegions(CpGs_df)

TransBioInfoLab/coMethDMR documentation built on Oct. 15, 2024, 12:52 a.m.