Parsing of Freyja results into cecret results output

UPHL-BioNGS / Cecret

Reference-based consensus creation

MIT License

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Parsing of Freyja results into cecret results output #98

Closed poojasgupta closed 2 years ago

poojasgupta commented 2 years ago

Thank you for adding Freyja in Cecret. It has been very helpful. However, freyja results are not getting parsed correctly in the cecret result output. An additional row is being created in the table to output the freyja result. I have attached an example result file for your reference.

example_cecret_results.csv

erinyoung commented 2 years ago

I have been able to replicate this, and I think I have a solution.

Right now it's in the 'edits' branch, and I hope to have the changes pushed to master soon

erinyoung commented 2 years ago

I think this issue has been addressed with https://github.com/UPHL-BioNGS/Cecret/pull/100, let me know if you continue to run into issues.