Create a complete workflow for analysis of the Farlik 2015 data

[oneillkza]

Description

As a bioinformatician, I would like to run the complete workflow, including generating QC plots, pairwise clustering, regional methylation, and DMR analysis on the Farlik 2015 data set, in order to include it in the broader meta-analysis.

Estimate

5

Priority

SHOULD

Notes

Should be based on #30, depends on #33

Focus on embryonic cell data for now -- the 5-Aza stuff will likely need different analyses.

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4542311/
https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE65196

[oneillkza]

I've created a repo for this: https://github.com/Epigenomics-Screw/Farlik_2015_example