Generate snp PC values

[lahuuki]

Use genotype data generate snpPC values check MDDseq code

[lahuuki]

@reneegf I think you'll need to follow what we did in these two scripts using plink:

1. Create bed files from the VCF using plink (example from MDDseq)

   #!/bin/bash
   module load plink
   plink --vcf input.vcf.gz --make-bed --out output

2. Use other plink commands to make the MDS file which contains the snpPCs MDDseq script running plink via R