rcorbett
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Recent activity by rcorbett Sort by recent activity-
GATK-DRAGEN standalone pipeline?
AnsweredHi folks, I have been asked to try out your GATK-dragen pipeline. I found this and related pages: https://gatk.broadinstitute.org/hc/en-us/articles/4411716682011-Full-release-of-open-source-DRAGE...
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CollectRnaSeqMetrics GL000220 test not counting ribosomal reads
AnsweredIf you are seeing an error, please provide(REQUIRED) : a) GATK version used: gatk-4.1.9.0 b) Exact command used: gatk-4.1.9.0/gatk CollectRnaSeqMetrics -I A56781.STAR.genome.sorted.bam.dup.bam.chrU...
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filterSamReads stdout format error
Hi there, I am seeing some differences between the /dev/stdout and -O output.bam output formats for filterSamReads. GATK version: gatk-4.0.10.0 Command 1: gatk-4.0.10.0/gatk FilterSamReads -I inp...