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ASEReadCounter output for Indels is incorrect0 votes 0 comments
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Error in running SplitNCigarReads - Attempt to add record to closed writer0 votes 4 comments
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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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Error in MutSigCV on GenePattern0 votes 0 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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Could not find walker with name: DepthOfCoverage0 votes 1 comment
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Haplotype caller taking too long0 votes 11 comments
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problem with R library0 votes 4 comments
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PathSeqPipelineSpark successfully but no result0 votes 9 comments
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--minimum-allele-fraction does not work, vcf output is not filtered properly0 votes 5 comments
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GaTK-3.3-0 download0 votes 2 comments
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Error in Running command GtcToVcf0 votes 4 comments
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FastaAlternateReferenceMaker generates same sequence for multisample vcf0 votes 1 comment
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GATK ContaminationModel0 votes 0 comments
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Error while running HaplotypeCaller0 votes 1 comment
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Picard LiftOver behaviour for multiallelic positions0 votes 1 comment
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ASEReadCounter does not return the value only for chrX0 votes 2 comments
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Liftover Picard hg19 to hg38: variants were not successfully lifted over Answered2 votes 3 comments
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Invalid or corrupt jarfile error Answered0 votes 2 comments
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HaplotypeCaller confuses introns as long deletions0 votes 4 comments
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error when running ASEReadCounter0 votes 2 comments
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SortSam - Question about I/O error0 votes 2 comments
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ShiftFasta creates empty intervals file Answered0 votes 4 comments
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Does GATK4 BaseRecalibrator not understand relative paths?0 votes 10 comments