sarahcolbert
commented
2 years ago I found out that this error was popping up because my original plink files (that I used to create the vcf for step 2) had some "0"s in the .bim file instead of allele codes. When I removed the SNPs which had the "0" alleles I no longer encountered this error 🙂
Hi! I am trying to run step 2 and am getting the error message "Error: variants must be biallelic". I then tried to use bcftools to split any multiallelic sites, but it looks like there are none. Do you know why else I could be getting this error? Thank you!