Use ChipSeekR to visualise DMRs

[oneillkza]

Description

As a bioinformatician, I would like to display the regions DMRs fall within, and annotate them to genes.

Estimate

3

Priority

SHOULD

Notes

• input should be:
  • A BED file specifying regions of interest (for testing purposes I've added an example bed file to the test_metadata)
  • A string specifying the genome (for testing purposes use 'hg19')
• output should be an Rmd document

http://bioconductor.org/packages/release/bioc/vignettes/ChIPseeker/inst/doc/ChIPseeker.html

[oneillkza]

@jjonphl this would be a useful small unit of coding for you to work on. @cmorganl and @sibylgisela have been putting together code for rendering/generating Rmd documents within CWL, so hit them up for some advice on that. But the first step would be putting together an Rmd.