getAnnot {methylGSA}R Documentation

Get CpG annotation

Description

This function gets CpG IDs and their corresponding gene symbols.

Usage

getAnnot(array.type, group = "all")

Arguments

array.type

A string. Either "450K" or "EPIC". Default is "450K".

group

A string. "all", "body" or "promoter". Default is "all".

Details

The implementation of the function is modified from .flattenAnn function in missMethyl package.

Value

A data frame contains CpG IDs and gene symbols.

References

Hansen KD (2016). IlluminaHumanMethylation450kanno.ilmn12.hg19: Annotation for Illumina's 450k methylation arrays. R package version 0.6.0.

Hansen KD (2016). IlluminaHumanMethylationEPICanno.ilm10b2.hg19: Annotation for Illumina's EPIC methylation arrays. R package version 0.6.0, https://bitbucket.com/kasperdanielhansen/Illumina_EPIC.

Phipson B, Maksimovic J and Oshlack A (2015). “missMethyl: an R package for analysing methylation data from Illuminas HumanMethylation450 platform.” Bioinformatics, pp. btv560.


[Package methylGSA version 1.2.1 Index]