Other
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Loss of data after HaplotypeCaller0 votes 5 comments
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ShiftFasta creates empty intervals file Answered0 votes 4 comments
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How can I build the GATK jar so that the intel native libraries are available? Answered0 votes 4 comments
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libgkl_compression.so not found + Failed to detect Google Compute Engine in a GATK workflow Answered0 votes 4 comments
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Haploytpe caller shows me that 0 read(s) were filtered by: MappingQualityAvailableReadFilter etc. Answered0 votes 4 comments
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Refseq accession number and version number in Funcotator Answered0 votes 4 comments
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vulnerability issue for gatk-package-4.2.5.0-local.jar Answered0 votes 4 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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MitochondriaPipeline on merged Bams0 votes 4 comments
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Interval Filtering -- How does it actually work?0 votes 4 comments
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Picard CollectHsMetrics PCT_EXC_OFF_TARGET1 vote 4 comments
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A USER ERROR has occurred: Number of read groups must be >= 1, but is 00 votes 4 comments
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Do I need to perform fastqc and adapters trimming before gatk pipeline?2 votes 4 comments
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ValidateSamFile tmp not found ERROR with not output or Exception0 votes 4 comments
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Picard ExtractIlluminaBarcodes return NullPointerException error0 votes 4 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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WES covarage analysis0 votes 4 comments
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HaplotypeCaller confuses introns as long deletions0 votes 3 comments
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Error in Running command CreateExtendedIlluminaManifest Answered0 votes 3 comments
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How to run muTect without normal sample? Answered1 vote 3 comments
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markDuplicatesSpark running out of memory Answered0 votes 3 comments
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GATK R plots with R v4.1.2 Answered0 votes 3 comments
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markduplicatesSpark .bam.parts output error (directory already exists) Answered0 votes 3 comments
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GenomeSTRiP SVPreprocess failed Answered0 votes 3 comments
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LiftoverVcf: hg19 to hg38 all variants mismatched0 votes 3 comments