identifyCpG {methyAnalysis} | R Documentation

## Identify the CpG-site locations from a genome library

### Description

Identify the CpG-site locations from a genome library

### Usage

    identifyCpG(bsgenome = "Hsapiens", seqnames, genomeLib = "BSgenome.Hsapiens.UCSC.hg19", pattern = "CG")

### Arguments

`bsgenome` | a BSgenome object or variant name in the genomeLib
`seqnames` | chromosome names, if missing all chromosomes will be used.
`genomeLib` | the BSgenome library in Bioconductor
`pattern` | the sequence pattern to be matched.

### Value

a GRanges object with CpG-site locations

### Author(s)

Pan Du

### See Also

`filterBisulfiteVariant`

### Examples

      # library(GenomicFeatures)
      # library(BSgenome)
      # seqnames <- paste('chr', c(1:22, 'X', 'Y', 'M'), sep='')

[Package methyAnalysis version 1.30.0 Index]