prepareAnnot {methylGSA} | R Documentation

## Prepare user-supplied mapping between CpGs and genes.

### Description

This function prepares CpG to gene mapping which will be used by methylRRA and methylglm.

### Usage

    prepareAnnot(CpG2Gene, geneidtype = "SYMBOL")

### Arguments

`CpG2Gene` | A matrix, or a data frame or a list contains CpG to gene mapping. For a matrix or data frame, 1st column should be CpG ID and 2nd column should be gene name. For a list, entry names should be gene names, and elements correpond to CpG IDs.
`geneidtype` | A string. "SYMBOL", "ENSEMBL", "ENTREZID" or "REFSEQ". Default is "SYMBOL".

### Value

A data frame contains ready to use CpG to gene mapping.

### References

Carlson M (2017). org.Hs.eg.db: Genome wide annotation for Human. R package version 3.5.0.

### Examples

    data(CpG2Genetoy)
    FullAnnot = prepareAnnot(CpG2Gene)
    head(FullAnnot)

[Package methylGSA version 1.0.4 Index]