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can i determine total count for a snp using HaplotypeCaller Tool?

paumarcpaumarc ZagrebMember


I am interested in finding the total number of reads supporting each snp found by the HaploTypeCaller tool. I just find the DepthOfCoverage tool which has the --countType COUNT_READS option. It is pretty close to what I am looking at, but I need to mix it whit the snp found. Is it possible? thanks

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