General Discussion
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Joint calling with Mutect2 with mitochondria mode0 votes 1 comment
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GenomicsDBImport error: the field AF has 1 elements; expected 20 votes 6 comments
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GATK GetPileupSummary output empty0 votes 1 comment
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How to create .fai and .dict files?0 votes 1 comment
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CollectReadCount outputs a lexicographic chromosome sort0 votes 2 comments
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FilterMutectCalls Troubleshooting, null pointer error0 votes 1 comment
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Can I change the behavior on GATK 4.6.0.0 on change GQ0 hom-refs to no-calls0 votes 6 comments
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Bam almost double after ApplyBQSR and compression-level=60 votes 2 comments
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Delete my account0 votes 3 comments
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'Illegal base [ ] seen in the allele' with FastaAlternateReferenceMaker0 votes 3 comments
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I/O considerations for joint variant calling0 votes 2 comments
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Defination of PF_ALIGNED_BASES and PF_INDEL_RATE1 vote 3 comments
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SelectVariant for indels with single nucleotide in ALT allele only0 votes 1 comment
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Need help with deciding which Variant filtration to use0 votes 2 comments
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Optimizing Parallel Execution of GnarlyGenotyper0 votes 1 comment
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BQSR on trimmed reads0 votes 3 comments
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Funcotator [SQLITE_CORRUPT]0 votes 2 comments
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Issue with Assembling BAM Files from GATK PathSeq Output1 vote 2 comments
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Seeking Advice on GnarlyGenotyper0 votes 6 comments
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Is it recommended to filter out SNPs around INDELS ?0 votes 1 comment
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Depth Filter in GATK0 votes 1 comment
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GATK bundle 2016 for GATK 4.6?0 votes 3 comments