augur
https://github.com/nextstrain/augur
Python
Pipeline components for real-time phylodynamic analysis
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Help out
- Issues
- Update lat/longs
- export multiple trees
- WIP [refine] unique internal node names
- Unpin pandas
- Allow repeating an option that takes multiple values
- Add subsampling command with YAML config, basic weighted sampling
- Allow custom date column name to be specified in `refine` - similar to `metadata-id-column`
- Add schema for node-data JSONs
- align: error message when reading a reference sequence does not completely explain the root issue
- DRAFT: add 'gene' feature capture when reading genbank files
- Docs
- Python not yet supported