Obofoundry Python Packages

curies

🐸 Idiomatic conversion between URIs and compact URIs (CURIEs) in Python

prefixmaps

Semantic prefix map registry

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

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

dosdp

A simple system for specifying OWL class design patterns for OBO-ish ontologies.

pkt-kg

PheKnowLator: Heterogeneous Biomedical Knowledge Graphs and Benchmarks Constructed Under Alternative Semantic Models

kgcl

Tools for working with KGCL

biolinkmg

Schema and generated objects for biolink data model and upper ontology

biolookup

🔍 The Biolookup Service retrieves metadata and ontological information about biomedical entities.

odk-core

Docker-less, core package for the Ontology Development Kit

debio

🥮 Decentralized Biomedical Ontology

sparqlfun

sparql templates for linkml (alpha)

oquat

🎬 Ontology Quality Assesment Toolkit

omop2obo

OMOP2OBO: A Python Library for mapping OMOP standardized clinical terminologies to Open Biomedical Ontologies