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2 hours ago by

Hello everyone
I have some mutect2 vcf files . Unfortunately the quality column is not reported ( the value of QUAL for all variants is NA)
and some variants have very low depth ( for example 1 ALT , 0 REF )
I was wondering if I could add quality to vcf files myself? if not, to remove low depth variants myself , what threshold of depth should I consider as a cut off



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