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.
70
85%
Does it follow best practices?
Run evals on this skill
Adds up to 20 points to the overall score
View guide
Passed
No findings from the security scan
No security issues found
Scanned
- Repository
- maziyarpanahi/openmed
- Commit
80da98c
- Audited
- Security analysis
Is this your skill?
If you maintain this skill, you can claim it as your own. Once claimed, you can manage eval scenarios, bundle related skills, attach documentation or rules, and ensure cross-agent compatibility.