sc2-illumina-pipeline
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[minor] Better handling of skipping ERCC process
The quantifyERCCs
step should only happen when doing MSSPE sequencing, not ARTIC sequencing.
Currently, we de facto skip it for ARTIC -- in particular, we still run the process, but just create a dummy output. However it would be better to skip the process entirely.
A slight complication is that one of the downstream processes (computeStats
) consumes the output of quantifyERCCs
, which is why we created the dummy output instead of skipping the process entirely.