augur
https://github.com/nextstrain/augur
Python
Pipeline components for real-time phylodynamic analysis
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- Issues
- augur curate format-host
- CLI docs have incorrect default values for options using `store_false` action
- Missing trait literals are converted to lower case in augur export stderr output
- Update language around snakemake install
- merge: Support sequences
- Uncaught error when root not in tree.
- `parse-genbank-location` should warn about region/locality mix ups
- Speed up augur filter without replacing Pandas
- Speed up augur filter by replacing Pandas
- Speed up augur filter
- Docs
- Python not yet supported