augur
https://github.com/nextstrain/augur
Python
Pipeline components for real-time phylodynamic analysis
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Help out
- Issues
- WIP and RFC: Rewrite `filter.py` with several classes
- [WIP] Add tests for clades and add black code format
- Developer Documentation for Functions Generating 'Auto-Colorbys'
- Define concept of strain, date etc in docs
- Document file formats
- Start and end date of augur build intervals are not stored in auspice JSONs
- Update the conda channels list in environment.yml
- Make Sequence Traits work with Fasta Input
- Store titer records in TiterRecord class and export in structured JSON format
- Representation of uncertainty in JSONs
- Docs
- Python not yet supported