bsseq (version 1.8.2)

BS.chr22: 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.

Source

Obtained from http://neomorph.salk.edu/human_methylome/data.html specifically the files mc_h1_r1.tar.gz and mc_h1_r1.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.

Details

All coordinates are in hg18.

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)