Somatic
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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
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Error in FilterMutectCalls0 votes 4 comments
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Memory error with Mutect20 votes 1 comment
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Error while running CreateReadCountPanelOfNormals0 votes 1 comment
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MarkDuplicatesSpark error missing Read Group fields1 vote 1 comment
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Missed Somatic CNV call with significant log2 values0 votes 9 comments
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MuTect2: There are too many keys for the sample0 votes 3 comments
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How do I get MuTect2 to output the contig lines in the VCF header?0 votes 2 comments
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Missing contig lines in thh Somatic b37 gnomad sites-only VCF header0 votes 2 comments
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A USER ERROR has occurred: af-only-gnomad.hg38.vcf.gz because no suitable codecs found Answered0 votes 9 comments
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Error Using Picard CollectAlignmentSummaryMetrics0 votes 1 comment
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WellFormedReadFilter0 votes 1 comment
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Mutect2 LearnReadOrientationModel Memory Error0 votes 5 comments
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Funcotator and mutect2 coordinate system0 votes 7 comments
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Call SNPs from mapped reads with MAPQ zero (bwa-mem, hg38, GATK4 Mutect2)0 votes 4 comments
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Mutect2 java.lang.NullPointerException Answered0 votes 6 comments
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Creating Panel of Normals Error0 votes 3 comments
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LeftAlignAndTrimVariants removes header tags0 votes 1 comment
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problem with docker image for Copy Number Alterations tutorial0 votes 2 comments
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Funcotator b38 and hg38 contig compatibility issue0 votes 3 comments
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Sample does not have a positive sample median when running DenoiseReadCounts0 votes 2 comments
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GetPileupSummaries errors0 votes 1 comment
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VariantAnnotator QualByDepth - no error and no annotation..0 votes 10 comments
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GenomeSTRiP analysis0 votes 3 comments