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3.1 years ago
asadrahmanms
•
0
Recently I got access genomic data by an organization. It has .bgen file, so I converted it to vcf file by qctool. But it has different SNP representation than I used to. I used to SNP representation like 0, 1, 2 or 00, 01, 10 and 11. But it has representation like 0,0,1 ; 1,0,0 ; 0,1,0 and .,.,. . Please kindly enlighten me about that.
Seems like you have genotype probabilities. You can use qctools to convert them into genotypes.