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2.4 years ago
Adarsh Kuamr
▴
60
Hello All
I generated vcf file using GATK (First Haplotypecaller --> CombinedGVCF --> GenotypeGVCF and then Hard filtering ). After this, I converted filtered vcf file into plink binary PED files (.bed, .fem, .bim, plink v1.9) using --make-bed command. However, when I used these files for ROH detection using --bfile and --homogyz command, It showed 0 ROH.
Please help me to resolve this issue.
Thanks
Hi,
Have you solved this problem?