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Make input QC optional #7

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dfornika opened this issue Sep 28, 2022 · 0 comments
Open

Make input QC optional #7

dfornika opened this issue Sep 28, 2022 · 0 comments

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@dfornika
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There are cases where we run this pipeline on the outputs of another pipeline (generally BCCDC-PHL/routine-assembly. That pipeline may already perform QC on its outputs, so running essentially the same QC on the inputs of this pipeline would be redundant.

Add a --skip_input_qc flag that causes the QUAST analysis on the input assemblies to be skipped.
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@dfornika