Somatic
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Mutect stats table not found.0 votes 1 comment
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GGA-mode gives PASS tag while the site failed in the normal workflow0 votes 9 comments
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Called Somatic Mutations High Frequency of C>A SNVs0 votes 6 comments
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Funconator's ignore-filtered-variants is not a recognized option0 votes 1 comment
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Running Mutect 2 with matched normal vs tumor mode0 votes 3 comments
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Not generating denoisedLimit4.png with PlotModeledSegments0 votes 4 comments
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Mutect2 issue with --force-active: not all regions are active1 vote 21 comments
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Mutect20 votes 1 comment
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Issue Regarding CNV_Somatic_Pair Workflow0 votes 0 comments
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HaplotypeCaller VCF for PON0 votes 3 comments
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Bug: Badly formed genome unclippedLoc0 votes 10 comments
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FilterMutectCalls --unique-alt-read-count argument0 votes 10 comments
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Panel of normals for Mutect2 GRCh370 votes 2 comments
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SNP analysis returning way too many variants0 votes 1 comment
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Funcotator does not work on hg190 votes 1 comment
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Mutect2 for ATAC-seq?0 votes 1 comment
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Question GetPileupSummaries, columns all 00 votes 6 comments
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QUAL values not present in Mutect2 VCF0 votes 2 comments
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GetPileupSummaries error0 votes 4 comments
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Do read group names have effect on marking duplicates using GATK?0 votes 1 comment
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GATK Funcotator missing DP and AF information from vcf file0 votes 3 comments
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GATK Funcotator Variant_Classification0 votes 1 comment
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No headers found in VCF0 votes 2 comments
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Some of variants detected by the Mutect2 are contradictory0 votes 3 comments
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af-only-gnomad.hg38.vcf.gz details0 votes 8 comments