gravatar for rachaelthomas

6 hours ago by

I'm working with some VCF files from a collaborator. In the FILTER column of any given VCF I'm used to seeing either PASS or some form of flag; however, in the files I'm looking at now, a reasonable proportion of variants are annotated PASS BUT also have one or more flags
e.g. 'alt_allele_in_normal,clustered_events,t_lod_fstar,PASS,homologous_mapping_event,triallelic_site'

Is that normal, or does this suggest something went awry with the raw data processing (I'm awaiting details on the methodology used)? I've never seen this before. Thanks

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