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Error in running SplitNCigarReads - htsjdk.samtools.util.RuntimeIOException Answered0 votes 9 comments
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Merge different individual VCF1 vote 13 comments
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Issue with GenotypegVCFS after Genomics DB import, building vs updating0 votes 6 comments
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Error when building an image using Dockerfile0 votes 2 comments
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PathSeq freezing0 votes 1 comment
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GATK BQSR is taking too long to be run (running since last 6 days)0 votes 1 comment
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Error in running SplitNCigarReads - Attempt to add record to closed writer0 votes 19 comments
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Do I need to perform fastqc and adapters trimming before gatk pipeline?2 votes 6 comments
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string length error generated by funcotator while processing a mutect2 vcf0 votes 5 comments
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Error in MutSigCV on GenePattern0 votes 1 comment
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GenomicsDBImport: has too many genotypes in the combined VCF record1 vote 4 comments
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CombineGVCFs with error output0 votes 5 comments
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ASEReadCounter output for Indels is incorrect0 votes 1 comment
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Error in GATK CollectAllelicCounts0 votes 4 comments
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PathSeqPipelineSpark multiple cpus0 votes 1 comment
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HaplotypeCaller - Shutting down engine - Encountering a large genome0 votes 7 comments
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Liftover Picard hg19 to hg38: variants were not successfully lifted over Answered2 votes 3 comments
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GATK Index Feature FIle No suitable codecs found Answered0 votes 4 comments
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Install GATK version 4.1.0.0 using Conda. Answered0 votes 4 comments
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BaseRecalibrator on MT .bam files Answered0 votes 5 comments
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Out of memory error using OpenJDK vs Oracle JDK for CNV-LOH2 votes 3 comments
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problem with R library0 votes 4 comments
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Could not find walker with name: DepthOfCoverage0 votes 1 comment
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evaluation of the VCF file which is made using GATK Answered0 votes 6 comments
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Haplotype caller taking too long0 votes 11 comments
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User error: input files reference and features have incompatible contigs0 votes 8 comments