Documentation Questions
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Known Sites for BQSR Answered4 votes 5 comments
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Difference between the different annotation groups available in GATK2 votes 1 comment
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Where is the list of annotations and annotation groups? Answered2 votes 7 comments
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gCNV2 votes 1 comment
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GATK4.1.5 GenotypeGVCFs --annotation-group2 votes 1 comment
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Limit core use of DetermineGermlineContigPloidy & GermlineCNVCaller Answered1 vote 1 comment
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Documentation for running GATK and Cromwell on IBM Cloud Answered1 vote 7 comments
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genotyping calls don't align with coverage Answered1 vote 1 comment
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Where do I find guidance on when to mark duplicates a second time? Answered1 vote 2 comments
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Germline Resouce Answered1 vote 3 comments
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CollectAllelicCounts interval_list Answered1 vote 15 comments
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vcf files for BQSR step Answered1 vote 4 comments
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GATK Best Practices Mitochondrial Analysis Answered1 vote 45 comments
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Documentation for interval files in resource bundle0 votes 1 comment
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UmiAwareMarkDuplicatesWithMateCigar - UMI_METRICS0 votes 2 comments
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CalculateFingerprintMetrics Usability On Somatic Samples0 votes 1 comment
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Request: examples of svtk usage0 votes 1 comment
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Too many duplicate articles Answered0 votes 2 comments
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ASEReadCount Only Outputting the First Chromosome Answered0 votes 3 comments
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Calculating FQ or an FQ-like score from information in GATK4 vcf0 votes 1 comment
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ASEReadCounter outputting blank table Answered0 votes 4 comments
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GenomicsDBImport function is not executing: Aborted (core dumped)0 votes 2 comments
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How to use Funcotator for PostprocessGermlineCNVCalls results0 votes 1 comment
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What does RAW_MQ annotation mean ?0 votes 1 comment
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SamToFastq - bam order0 votes 3 comments
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Picard CollectHsMetrics output0 votes 1 comment
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HaplotypeCaller using one sample split in two bam files Answered0 votes 3 comments
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GATK genomicsDBImport error Answered0 votes 3 comments