BS.chr22 {bsseq} | R Documentation

## Whole-genome bisulfite sequencing for chromosome 22 from Lister et al.

### Description

This dataset represents chromosome 22 from the IMR90 cell line sequenced in Lister et al. Only CpG methylation are included (there were very few non-CpG loci). The two samples are two different extractions from the same cell line (ie. technical replicates), and are pooled in the analysis in the original paper.

### Usage

    data(BS.chr22)

### Format

An object of class `BSseq`.

### Details

All coordinates are in hg18.

### Source

Obtained from http://neomorph.salk.edu/human_methylome/data.html specifically the files mc_imr90_r1.tar.gz and mc_imr90_r2.tar.gz. A script which downloads these files and constructs the `BS.chr22` object may be found in ‘inst/scripts/get_BS.chr22.R’, see the example.

### References

R Lister et al. Human DNA methylomes at base resolution show widespread epigenomic differences. Nature (2009) 462, 315-322.

### Examples

    data(BS.chr22)
    BS.chr22

    script <- system.file("scripts", "get_BS.chr22.R", package = "bsseq")
    script
    readLines(script)

[Package bsseq version 1.18.0 Index]