New User Advice
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GATK Germline CNV calling0 votes 3 comments
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Tumor-match mode doubt0 votes 1 comment
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Comprehending Duplicates in Mutect2 and filtering0 votes 1 comment
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Base Quality Score Recalibration doubt0 votes 4 comments
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Tumour Match Mutect0 votes 1 comment
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Creating PON0 votes 2 comments
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Germline Variants Calling0 votes 5 comments
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gatk4.5 markduplicatesspark error spark0 votes 4 comments
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VariantFiltration isn't working0 votes 1 comment
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GenomiCDBImport issue0 votes 9 comments
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Checking of GATK script0 votes 1 comment
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GATG-4.80 votes 1 comment
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Contig names lost after FastaAlternateReferenceMaker0 votes 4 comments
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BQSR error0 votes 4 comments
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Joint Call on individuals sequenced with differing coverage0 votes 2 comments
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Clipping both ends with ClipReads0 votes 2 comments
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mutect2 analysis with one tumor vs two normals from the same individual?0 votes 3 comments
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GATK test data for Mutect?0 votes 1 comment
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Using CrosscheckFingerprints for panelseq data0 votes 1 comment
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UnsupportedOperationException: getFragment called for paired read0 votes 14 comments
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VariantRecalibrator resource0 votes 2 comments
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Error in MarkDuplicates0 votes 2 comments
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Problem with CollectRnaSeqMetrics0 votes 1 comment
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vcf to maf conversion & cloud application0 votes 7 comments
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help/collaboration with mapping/variant calling pipeline0 votes 1 comment