Medical & Healthcare
ETL To OMOP CDM
Map OpenMed-extracted, terminology-coded conditions, drugs, and measurements into OMOP CDM v5.4 clinical tables (condition_occurrence, drug_exposure, measurement) for OHDSI/ATLAS analytics. Use when the user wants to load NLP-derived facts into an OMOP database, build an OHDSI ETL from clinical notes, populate condition_occurrence or drug_exposure from text, or standardize note-derived findings to OMOP standard concepts. Covers the source-to-standard concept mapping pattern, required vs optional CDM fields, type concepts for NLP-derived rows, and the user-supplied OHDSI vocabulary (CONCEPT/CONCEPT_RELATIONSHIP). Consumes coded OpenMed analyze_text output (after SNOMED/RxNorm/LOINC linking) and produces OMOP-conformant rows.
- Publisher / source
- maziyarpanahi/openmed (found on GitHub top repositories)
- Upstream record
- maziyarpanahi/openmed
- Version
- Version 1
- Published
- Publication review
- Approved for publication · recorded passed scan 2026-11-05
- Content fingerprint
7d9f3bfbc78802d1dc94207dd68f53085cafe748b9274b6a9199fcd419cb20bf