Somatic
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Mutect2 missing a low AF known deletion0 votes 4 comments
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mutect2 turm-only pipeline missing low AF0 votes 0 comments
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GenomicsDBImport: are all intervals being processed or is there an error? Answered0 votes 4 comments
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Mutect2 issue with --force-active: not all regions are active Answered1 vote 25 comments
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Broad hg19 TWIST interval list Answered1 vote 4 comments
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mutect2.bam could not find the mutation, but bqsr found the mutation Answered0 votes 1 comment
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GGA-mode gives PASS tag while the site failed in the normal workflow0 votes 13 comments
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How to decrease the likelihood threshold for a candidate haplotype to be called as a genotype in Mutect2 Answered0 votes 9 comments
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mutect2 genotyping wrong? Answered0 votes 1 comment
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Mutect stats table not found.0 votes 1 comment
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Error while running ModelSegments Answered0 votes 3 comments
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Called Somatic Mutations High Frequency of C>A SNVs Answered0 votes 6 comments
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SAMException: Value was put into PairInfoMap more than once Answered0 votes 5 comments
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Mutect2 Funcotator interval error Answered0 votes 3 comments
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Funcotator error: StringIndexOutOfBoundsException Answered0 votes 6 comments
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empty pon vcf file Answered1 vote 1 comment
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MarkDuplicates TAG_DUPLICATE_SET_MEMBERS=true does not add DS and DI tags in the output BAM file Answered0 votes 3 comments
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missing file: Callset.json , when creating PON Answered0 votes 3 comments
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Funconator's ignore-filtered-variants is not a recognized option Answered0 votes 1 comment
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Why do I see a variant called by mutect2 in my matched-normal sample when checking the results? Answered0 votes 10 comments
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How mutect2 panel of normal works? Answered0 votes 8 comments
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Mutect2 calls long deletion with absolutely zero read support Answered0 votes 1 comment
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[Repost] Wrong annotation with Funcotator 1.7 Answered0 votes 10 comments
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Deletion is split into two deletions Answered0 votes 1 comment
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Running Mutect 2 with matched normal vs tumor mode0 votes 3 comments
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AnalyzeCovariates Answered0 votes 9 comments