I'm having some issues filtering individuals out with a GQ below a given threshold.
Using the command ./vcftools --vcf AST.txt --minGQ 10 --indv --recode
I get 0 individuals kept.
If I run it without the --indv flag it turns all my genotypes to ./.
Any ideas?
Using the command ./vcftools --vcf AST.txt --minGQ 10 --indv --recode
I get 0 individuals kept.
If I run it without the --indv flag it turns all my genotypes to ./.
Any ideas?
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