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Hi, you can give gvcfgenotyper a list of regions using the -r commandline arg. The syntax is identical to "bcftools view" : https://samtools.github.io/bcftools/bcftools.html#common_options. We don't support the -R option yet,...

Hi Claire, I realized that I did not really understand your problem. Thanks for the clarification. This is not directly supported by gvcfgenotyper but you could try to "hack" it....

Hi, you can restrict gvcfgenotyper to a region use the -r command line argument. The similar is the same as in bcftools (chrom:start-end). If you have variants from multiple regions,...

Hi, thanks for your interest in Polaris and GVCF Genotyper. The Human autosomes are mostly (!) diploid but for the other chromosomes, this isn't always the case. Could you share...