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MicahR-Y
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Jan 16, 2026
| base_name = base_name, | ||
| raw_depth = CollectRawReadDepthOfCoverage.depth_of_coverage, | ||
| start_stop_depth = CollectRawStartStopDepthOfCoverage.depth_of_coverage, | ||
| start_stop_depth = select_first([CollectRawStartStopDepthOfCoverage.depth_of_coverage, CollectRawReadDepthOfCoverage.depth_of_coverage]), |
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To do: go into the docker and make this actually optional.
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Plan for this is to demonstrate equivalency between this WDL run on a sample vs the current multiple WDLs |
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This WDL is for extracting the UMIs from DRAGEN BAM read names and realigning the BAMs with bwa aln to better work with FGBio for duplex BAM generation.