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replikation / poreCov

SARS-CoV-2 workflow for nanopore sequence data
https://case-group.github.io/
GNU General Public License v3.0
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Publish basecalled FASTQ files #36

Closed hoelzer closed 3 years ago

hoelzer commented 3 years ago

For downstream analyses often the basecalled FASTQ files are needed.

Can we add a parameter e.g. --publish_fastq to activate publishing of .fastq.gz files after basecalling and demultiplexing?

hoelzer commented 3 years ago

Ahh, there is an output folder but it is called 0.Lineages :) @replikation

replikation commented 3 years ago
hoelzer commented 3 years ago

yep thx!