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filterSamReads stdout format error0 votes 15 comments
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Cromwell stuck at WaitingForReturnCode on Mac0 votes 3 comments
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Reference Fasta vs Alt Reference Fasta0 votes 2 comments
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Mutect2: NuMTs filtering on RNA-seq Answered0 votes 2 comments
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HaplotypeCaller -ERC GVCF -variant_index_type LINEAR1 vote 1 comment
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Comparison between ReadsPipelineSpark and MarkDuplicates0 votes 7 comments
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Resource bundle for GRCh370 votes 2 comments
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Funcotator missing AF0 votes 1 comment
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MarkDuplicates0 votes 1 comment
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ASEReadCounter java.lang.ArrayIndexOutOfBoundsException: 00 votes 3 comments
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Any documents for 199 columns in Funcotator output?0 votes 2 comments
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How to merge approx 150 bam file using Picard0 votes 4 comments
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DepthOfCoverage in GATK4.1.9.0 with -gene-list option0 votes 4 comments
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Clarity on Variant Callers being "optimized for UMI-containing data"0 votes 1 comment
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BQSR no output table found0 votes 3 comments
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How do I get intermediate outputs from cromwell0 votes 1 comment
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Missing ReadPosRankSum, MQRankSum and BaseQRankSum Scores in VCF0 votes 1 comment
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Call-caching not functional running cromwell locally on GCP VM Answered0 votes 9 comments
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HaplotypeCaller - Shutting down engine - Encountering a large genome0 votes 5 comments
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Some stop positions of .interval_list is smaller than the start positions0 votes 2 comments
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GermlineCNVCaller edge case?0 votes 8 comments
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SVDiscovery OutOfMemoryError.0 votes 5 comments
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-DepthOfCoverage-ct not working in GATK 4.1.8.10 votes 5 comments
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No results of CollectvariantCallingMetrics Answered0 votes 30 comments