phenotype-concept-set

MCP tool from Omophub MCP by OMOPHub

Guided workflow to build a concept set for a clinical phenotype

How to use it

Project documentation lists phenotype-concept-set for the Omophub MCP MCP server. Add the server to your MCP client (Claude Desktop, Cursor, Windsurf and others), then check which tools your installed version makes available. Tool availability can depend on configuration and credentials. A server handshake does not verify this tool’s behavior. See the full listing for setup details.

Install Omophub MCP

$npx -y @omophub/omophub-mcp

FULL OMOPHUB MCP LISTING

Other tools in Omophub MCP (12)

code-lookup

Look up and validate a medical code with mappings and hierarchy

explore_concept

Get concept details, hierarchy, and cross-vocabulary mappings in one call

fhir_resolve

Resolve a FHIR coded value (incl. administrative codes via the HL7 FHIR-to-OMOP IG ConceptMaps) to its OMOP standard concept and CDM target table

fhir_resolve_codeable_concept

Resolve a FHIR CodeableConcept — best match by OHDSI vocabulary preference, honoring userSelected

find_similar_concepts

Find concepts similar to a reference concept, name, or description

get_concept

Get detailed info about a specific OMOP concept by conceptid

get_concept_by_code

Look up a concept using a vocabulary-specific code (e.g., ICD-10 E11.9)

get_hierarchy

Navigate concept hierarchy - ancestors, descendants, or both

list_vocabularies

List available medical vocabularies with statistics

map_concept

Map a concept to equivalent concepts in other vocabularies (paginated — see note below)

search_concepts

Search for medical concepts by name or clinical term across all vocabularies

semantic_search

Search using natural language with neural embeddings (understands clinical meaning)