Converting between Genome Wide Association Study (GWAS) file formats

Currently supported formats ==================

• Reading using https://github.com/superbobry/snpy

http://pngu.mgh.harvard.edu/~purcell/plink/

• Writing PED and MAP files
• Reading PED, BIM, FAM files using https://github.com/fadern/libplinkio

Convenient for python and matlab

• Reading and Writing using http://www.pytables.org

Using scripts in folder scripts/

Generate BED, BIM, FAM file from openSNP data for phenotypes of interest ./process_opensnp.sh

Use plink to find epistatic interaction pairs. Also create some files that are useful for downstream processing ./plink_example.sh