UKB ARP plink merge
Dear all,
I am now trying to merge 22 chromosome data into one, I tried plink with bed, fam, bim files, using --merge-list, when I run locally, it will give me a merge.missnp file, so i can remove these variants, and run merge again, which will work. but when i use swiss army knife, it gives me errors as multiallelic variants, then STOP, without generate any output. so i cannot remove these variants. I tried to use PLINK2 by setting --max-allele 2, but have similar problems.
I was wondering if anyone know how to solve this?
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1 comment
I think I might be dealing with something similar, did you end up figuring this out?
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