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HaplotypeCaller bam file path not recognized0 votes 7 comments
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Dockerfile for genomes-in-the-cloud0 votes 5 comments
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CreateSomaticPanelOfNormals fails0 votes 2 comments
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Out of memory error using OpenJDK vs Oracle JDK for CNV-LOH2 votes 2 comments
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Why does my vcf contain a genotype when there are no reads supporting it?0 votes 3 comments
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Delete <NON_REF> from VCF0 votes 2 comments
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Cohort vcf WES analysis0 votes 1 comment
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Where did the GATK3 documentation go?0 votes 1 comment
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Has -log_to_file been depreciated0 votes 1 comment
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Fail to set up conda environment for GATK with the gatkcondaenv.yml file0 votes 5 comments
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Question: Picard - MergeBamAlignment: Reads remaining on alignment iterator0 votes 4 comments
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HaplotypeCaller produces very large .idx files1 vote 4 comments
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What kind of statistical methods genome strip used?0 votes 3 comments
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HaplotypeCaller complains (in 2 different ways) about sample-name0 votes 12 comments
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Problem running GenomeSTRiP CNVDiscovery on X chromosome0 votes 5 comments
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BI and BD tags.0 votes 2 comments
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ValidateSamFile behavior1 vote 7 comments
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WES covarage analysis0 votes 4 comments
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<b>OUT OF OFFICE NOTICE</b>: GATK Team on holiday on Feb 17th 20200 votes 0 comments
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User error: input files reference and features have incompatible contigs0 votes 6 comments
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Loss of data after HaplotypeCaller0 votes 5 comments
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What is the 'physical phasing'0 votes 3 comments
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Cannot get AddOrReplaceReadGroups to run0 votes 2 comments
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Where's the DRAGEN?0 votes 3 comments
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PathseqPipelineSpark stops without error message0 votes 6 comments
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GATK on Oracle Cloud Infrastructure0 votes 2 comments
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Problem Installing GATK python environment - SOLUTION POSTED! Featured1 vote 17 comments