Mondo Disease Ontology

Schema and generated objects for biolink data model and upper ontology

SQL and SQLite builds of OWL ontologies

Graph-based modeling environment for biology, including prototype editor and services

Mapping between LinkML schemas

Claude skills for a variety of curation and knowledge-based tasks. We currently have 3 skills included, but intend to grow this.

Standardized identifiers and OWL classes for chromosomes and chromosomal parts across species

Common value sets (enums) for science, biomedicine, computing, and other areas

Validate that supporting text quotes in your data actually appear in their cited references

A simple Python wrapper for multiple deep research tools including OpenAI Deep Research, FutureHouse Falcon, and Perplexity AI.

Copier template for adding AI integrations to a GH repo

Best practices for BBOP group repos, intended for coding agents and humans

A copier template for your next LinkML project

Demonstration of AI review of existing functional annotations

A Python CLI wrapper for running AI coder agents (claude code, gemini-cli, etc)

Disease Mechanisms KB

MCP approaches for getting textual representations of scientific literature from PMIDs, DOIs, etc.