augur
https://github.com/nextstrain/augur
Python
Pipeline components for real-time phylodynamic analysis
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Help out
- Issues
- Allow full stop character in gene names
- Add README to describe example data files
- Discussion: Should `augur mask` error if not a single change is made (no-op)?
- Internal representation of data
- Validate annotations produced from ancestral + translate
- BUG: Mask should not fail if no sites are to be masked
- BUG in mask: empty (header only) .bed file causes unhandled error
- dates: Consolidate date parsing logic
- filter: Update functional test coverage
- io.read_metadata does not always set index dtype as expected
- Docs
- Python not yet supported