Basic biological entities, coupled to public ontologies [`source <https://github.com/laminlabs/bionty/blob/main/bionty/models.py>`__].

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  • License: Apache Software License
  • Author: Lamin Labs
  • Requires: Python <3.14, >=3.10
  • Provides-Extra: dev
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Project description

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bionty: Access & manage biological ontologies

  • Access >20 public ontologies such as Gene, Protein, CellMarker, ExperimentalFactor, CellType, CellLine, Tissue, …
  • Create records from entries in public ontologies using .from_source().
  • Access full underlying public ontologies via .public() to search & bulk-create records.
  • Create in-house ontologies by extending public ontologies using hierarchical relationships among records (.parents).
  • Use .synonyms and .abbr to manage synonyms.
  • Safeguards against typos & duplications.
  • Manage multiple ontology versions via bionty.Source.

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  • License: Apache Software License
  • Author: Lamin Labs
  • Requires: Python <3.14, >=3.10
  • Provides-Extra: dev
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