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Refseq accession number and version number in Funcotator Answered0 votes 4 comments
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No results of CollectvariantCallingMetrics Answered0 votes 30 comments
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CNNScoreVariants carshes with java.lang.NullPointerException Answered1 vote 13 comments
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CNNScoreVariants Issues with environment and Java version Answered0 votes 6 comments
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ApplyBQSR no positional argument is defined for this tool Answered0 votes 7 comments
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Fontconfig error in the newest gatk docker image Answered0 votes 1 comment
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vulnerability issue for gatk-package-4.2.5.0-local.jar Answered0 votes 4 comments
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Error in GenomicsDBImport: Invalid deflate block found Answered1 vote 6 comments
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Local WDL Mitochondria Pipeline - Import failed Answered0 votes 1 comment
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Error in running SplitNCigarReads - htsjdk.samtools.util.RuntimeIOException Answered0 votes 8 comments
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GC overhead limit exceeded using Mutect2 only tumor version Answered0 votes 5 comments
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Error in running GenomicsDBConfigException Answered0 votes 12 comments
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GATK R plots with R v4.1.2 Answered0 votes 3 comments
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--tmp-dir option user error Answered0 votes 13 comments
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Panel of Normals Documentation Answered1 vote 16 comments
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CollectRnaSeqMetrics GL000220 test not counting ribosomal reads Answered0 votes 5 comments
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MarkduplicatesSpark failed Answered0 votes 3 comments
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Warning: Reading will be unbuffered. Answered1 vote 3 comments
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Contamination calculation on single file don't detect contaminated samples Answered0 votes 7 comments
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GenomincsDBImport Failed to create reader from file: An index is required, but none found., for input source: Answered0 votes 6 comments
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markduplicatesSpark .bam.parts output error (directory already exists) Answered0 votes 3 comments
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Truncated bam file after running ReplaceSamHeader(Picard) Answered0 votes 6 comments
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Funcotator gnomAD MAF columns Answered0 votes 2 comments
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DepthofCoverage GATK4.1.7.0 -gene-list Answered0 votes 15 comments
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Can't explain the number of reads FilterSamReads outputs Answered0 votes 8 comments
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GenomeSTRiP SVPreprocess failed Answered0 votes 3 comments
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Call-caching not functional running cromwell locally on GCP VM Answered0 votes 9 comments
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Hi Can you please point me to the chain file for human_g1k_v37_decoy to hg19 conversion Answered0 votes 1 comment
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evaluation of the VCF file which is made using GATK Answered0 votes 2 comments
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SelectVariants v4.1.6.0 doesn't select the variants as expected Answered0 votes 8 comments