CogStack/MedCAT

Medical Concept Annotation Tool

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Performs named entity recognition and linking on clinical text using spaCy-based NLP pipelines, extracting medical concepts and automatically mapping them to standardized biomedical ontologies (UMLS, SNOMED-CT). Includes pre-trained model packs optimized for different languages and specialties (Dutch, full UMLS with 4M+ concepts), with support for negation detection and metadata classification via MetaCAT. Integrates with EHR systems and knowledge graphs like Neo4j for downstream analysis.

526 stars. No commits in the last 6 months.

Archived Stale 6m No Package No Dependents
Maintenance 0 / 25
Adoption 10 / 25
Maturity 16 / 25
Community 24 / 25

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Stars

526

Forks

118

Language

Python

License

Apache-2.0

Category

clinical-concept-linking

Last pushed

Jul 25, 2025

Commits (30d)

0

GitHub
Clinical Concept Linking · 33 tools

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