phylo-match 0.0.5

For matching species databases

Phylo-Match

Phylo-Match is a package for correcting misspellings or disparate labelings in phylogenetic trees

Installation

This project was built with python v3.8. Later versions should be fine, but no guarantees for earlier. Not compatible with python 2.

Use the package manager pip to install phylo-match.

pip3 install phylo-match

Usage

phylo-match

Use the gui to select a database file (.csv), and a taxa tree (.nexus) to match the database to. Click run when you are happy with your selection.

Phylo-Match does all of its calculations and api requests upfront, so users may have to wait a minute or two after run is clicked, depending on internet speed.

Information about the DB's taxa will be on the left-hand side. All similar entries in the .nexus file will appear in the middle of the screen. Click on the name you'd like to change the entry to, manually enter a name on the bottom, or click on 'same species', or 'same genus' for additional options, if available.

Once all selections have been made, a new .csv file will be created in the same directory as the original database .csv file.

Contributing

Pull requests are welcome. For major changes, please open an issue first to discuss what you would like to change.

Please make sure to update tests as appropriate.

License

MIT