IKIM-Essen / uncovar

Transparent and robust SARS-CoV-2 variant calling and lineage assignment with comprehensive reporting.

https://ikim-essen.github.io/uncovar

BSD 2-Clause "Simplified" License

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feat: add patient or environmental mode flag #420

Closed thomasbtf closed 2 years ago

thomasbtf commented 2 years ago

Description

Adds a flag for patient vs environmental mode. We don't need e.g. assemblies for wastewater data.

Related Issue

closes #352

Checklist

[X] I've formatted the PR title in accordance with the structure of the conventional commit messages.
[X] I've updated the code style using pre-commit if needed.
[x] I've updated or supplemented the documentation as needed.
[X] I've read the CODE_OF_CONDUCT.md document.
[X] I've read the CONTRIBUTING.md guide.