augur
https://github.com/nextstrain/augur
Python
Pipeline components for real-time phylodynamic analysis
Triage Issues!
When you volunteer to triage issues, you'll receive an email each day with a link to an open issue that needs help in this project. You'll also receive instructions on how to triage issues.
Triage Docs!
Receive a documented method or class from your favorite GitHub repos in your inbox every day. If you're really pro, receive undocumented methods or classes and supercharge your commit history.
Python not yet supported38 Subscribers
Add a CodeTriage badge to augur
Help out
- Issues
- ENH: Add option to mask terminal gaps
- ENH: Augur clade "reconstruction from metadata" mode
- Clarify metadata date parsing behavior for un-parsable values
- dates: Consolidate date logic
- Inconsistent behavior when `date` column is missing from metadata
- frequencies: Limit the range of frequency pivots to the observed data when no start and end date are provided
- Add JSON schema(s) for output of `augur titers {tree,sub}`
- Invalid none key
- measurements validation accepts inputs that cannot be parsed by JavaScript parser in Auspice
- `augur tree --method raxml` fails when RAxML variants with unsupported CPU features are installed
- Docs
- Python not yet supported