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Implement target_cov_report using existing DRAGEN QC information optionally #423

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xiamaz opened this issue Jul 20, 2023 · 0 comments · May be fixed by #424
Open

Implement target_cov_report using existing DRAGEN QC information optionally #423

xiamaz opened this issue Jul 20, 2023 · 0 comments · May be fixed by #424
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xiamaz commented Jul 20, 2023

This is a needed change for importing DRAGEN processed data into Varfish.

Currently coverage computation on snappy-pipeline is redone using bedtools coverage, which generates slightly different results in comparison to other tools picard, DRAGEN. In order to present users with consistent information, this should be replaced, as much as possible with utilizing values extracted from the DRAGEN pipeline.
@xiamaz xiamaz self-assigned this Jul 20, 2023
@xiamaz xiamaz linked a pull request Jul 20, 2023 that will close this issue
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feat: Integrate DRAGEN QC into external data import bihealth/snappy-pipeline
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