Obo Python Packages

fastobo

Faultless AST for Open Biomedical Ontologies in Python.

pronto

A Python frontend to (Open Biomedical) Ontologies.

ontoportal-client

🎡 Unified access to OntoPortal instances like BioPortal, AgroPortal, and EcoPortal

psims

A declarative API for writing XML documents for HUPO PSI-MS mzML and mzIdentML

obonet

OBO-formatted ontologies → networkx (Python 3)

pyobo

📛 A Python package for using ontologies, terminologies, and biomedical nomenclatures

ontobio

python library for working with ontologies and ontology associations

obographs

A Pydantic model for OBO Graph JSON

robot-obo-tool

A Python wrapper around the ROBOT ontology tool

psimodpy

Python library, API, and MCP server for the PSI-MOD protein modification ontology

unimodpy

Python library, API, and MCP server for the UNIMOD mass spectrometry modifications database

obo-parser

A Python library for parsing OBO files