I am running the following script to update IDs in my PLINK project:
plink \ --bfile Project1 \ --update-ids UpdateIDs\ --make-bed --out /Renamed/Project1
But when I try to run it, I get the following error:
Error: Duplicate ID '009-009 009-009-01'.
Sample file structure for UpdateIDs:
1 GSA_009-009_009-009-01_A01B01 009-009 009-009-01
Which is a tab-separated file containing following columns: old_fid, old_iid, new_fid, new_iid. I've checked the fam file and there are no actual ID duplicates, which is why I'm currently confused...