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⚠️ Warning: This package has been replaced by laminlabs/bionty. Please update your dependencies accordingly. If you are using lamindb, please remove the bionty-base package from your environment.

bionty-base

Access public biological ontologies.

Installation

Bionty-base is a Python package available for pyversions

pip install bionty-base

Entities

Check out sources.yaml for details.

Didn’t see your favorite source or version? Bionty is extendable!

Entity versions

import bionty_base as bt

# display currently used sources
bt.display_currently_used_sources()

# display all managed sources
bt.display_available_sources()

# local yaml file specifying all managed sources
bt.LOCAL_SOURCES

# access to the Mondo ontology
disease = bt.Disease(source="mondo")