FILTER column in vcf file from HaplotypeCaller
Posted in Ask the GATK team | Last updated on


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I used a cohort in running HaplotypeCaller. Some of values in the FILTER column of the resulting vcf file are ".", what does that mean?

Here is one example (not all columns included):

#CHROM  POS     ID      REF     ALT     QUAL    FILTER
22      16084134        .       A       C       152.03  .

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