I am trying to conduct a multiple regression on indel data. In my vcf file I have some variants that are biallelic and some which are multiallelic. I have already tested the biallelic data so only need to run the multiallelic.
I was given this line of code as a guide "plink --bfile mydata --linear --covar mycov.txt"
I'm not sure how to lay out my covar file though or what to include in it.
Any help would be great thanks