NawarDalila
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Recent activity by NawarDalila Sort by recent activity-
ScatterIntervalList error message when running DRAGEN-GATK on HPC
AnsweredHi, I am running DRAGEN-GATK pipeline on our HPC and the workflow stopped at some point with this error: [2022-01-14 13:51:27,76] [info] WorkflowManagerActor: Workflow c48ca756-d705-4a0a-a45f-b6aa...
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bait_set_name in WGS DRAGEN-GATK pipeline
AnsweredHi, I am running the DRAGEN-GATK pipeline on our HPC and it is failing with this error: Failed to evaluate input 'references' (reason 1 of 1): Error(s):No value for field 'evaluation_interval_list...
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Missing files in GATK resource bundle hg38
AnsweredDear all, I am trying to run your WGS analysis pipeline DRAGEN-GATK. I am faced with two missing files in your resource bundle that are supplied by your pipeline input files. Those two files are: ...
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How do I call a variant even if its region is not considered active by HaplotypeCaller?
I have a sample (Sample1) that is analyzed using BWA v0.7.6a-r433 and GATK 4.1.0.0. I called the variants using HaplotypeCaller using the ERC mode (GVCF) and then joint genotyped the samples (8 sam...
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How do I use MarkIlluminaAdapters properly in combination with its metrics for new adapters other than Illumina standards?
Hi, We are moving our wet lab workflow (NovaSeq) from Illumina library preparation to TWIST bioscience library preparation. In our new sample sheets for demultiplexing the samples (using bcl2fastq ...