augur
https://github.com/nextstrain/augur
Python
Pipeline components for real-time phylodynamic analysis
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- Issues
- Register subparsers recursively
- CLI: Use raw descriptions
- Improve rendering of CLI documentation
- Also accept "region" as synonym of "source" for gb files?
- CI/release: Run tests on build artifacts
- Add escape hatch for the "Augur version incompatibility detected" error
- Improve help text of CLI options
- `augur merge` is slow to read in metadata
- filter: Deprecate `--output` and `-o`
- merge: Import metadata files concurrently?
- Docs
- Python not yet supported