Somatic
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Bamout haplotypes are much worse than bamout tumor reads would suggest0 votes 1 comment
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Wrong annotation with Funcotator 1.70 votes 3 comments
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Empty final PON vcf file from 7 samples0 votes 2 comments
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How to use UpdateVCFSequenceDictionary if I don't have any input VCF files?0 votes 9 comments
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GATK4 MUTECT2 missed some variants in the raw vcf0 votes 2 comments
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How do I add allele depth to Mutect2 output?0 votes 2 comments
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Mutect2 strand_bias problem0 votes 2 comments
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Sequence dictionary and index contain different numbers of contigs0 votes 4 comments
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Is BQSR accurate on Novaseq 6000?0 votes 3 comments
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Cromwell: can't find file ID0 votes 1 comment
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Missing mutations0 votes 7 comments
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strand bias and orientation bias5 votes 1 comment
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DepthOfCoverage intervals0 votes 1 comment
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how to see 2 or more variants are in the same read0 votes 1 comment
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CalculateContamination: Multiple KernelSegmenter warnings0 votes 17 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 panel of normals and germline source files with incompatible contigs0 votes 5 comments
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How do I get known-SNP, Indel files in hg19 version?0 votes 2 comments
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bwa index doesn't create .alt file in hg38 Answered1 vote 8 comments
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FilterMutectCalls0 votes 5 comments
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Which gnomAD version is used for somatic-hg38_af-only-gnomad.hg38.vcf.gz0 votes 2 comments
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Running Mutect wdl on Cromwell0 votes 3 comments
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Mutect2 clustered_events filtered0 votes 1 comment
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Using CollectOxoGMetrics to determine biological 8oxoG0 votes 1 comment
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VariantAnnotator returns NullPointerException0 votes 6 comments
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Germline false positives in Mutect20 votes 9 comments