Hi All, I'm trying to convert VCF obtained from (Michigan imputed server) to bfile (plink file format) for further operation. When I look the VCF file I found a very long variant name of the REF/ALT. I want to keep the limit to 100 variant long SNPs.
I have tried all plink following command but it is not working
--set-missing-var-ids @:#[b37] --set-missing-var-ids @:#[b37]\$1,\$2 --new-id-max-allele-len 50 --snps-only --biallelic-only
At the end, I'm getting the following error: Error: Variant names are limited to 16000 characters.