OMOP MCP Server vs Memory (Knowledge Graph)

A side-by-side comparison of two AI, Data & Knowledge servers — tools, transport, auth, maintenance, and copy-paste config for each.

	OMOP MCP Server Map clinical terminology to standardized OMOP CDM concepts using LLMs and the OMOPHub vocabulary API. Unverified stdio (local) API key Python	Memory (Knowledge Graph) Official MCP server providing persistent, file-backed knowledge-graph memory across sessions. Verified stdio (local) No auth TypeScript
Category	AI, Data & Knowledge	AI, Data & Knowledge
Language	Python	TypeScript
Transport	stdio (local)	stdio (local)
Auth	API key	None
GitHub stars	36	74k
Last commit	1 month ago	5 months ago
Verified
Actively maintained
Install	`git clone https://github.com/OHNLP/omop_mcp.git`	`npx -y @modelcontextprotocol/server-memory`
Repo	Open	Open

Verdict

Pick OMOP MCP Server if you prefer its approach (map clinical terminology to standardized omop cdm concepts using llms and the omophub vocabulary api).

Pick Memory (Knowledge Graph) if you want the official, vendor-maintained server, and you prefer the more popular, battle-tested option.

Add OMOP MCP Server

Install / run

git clone https://github.com/OHNLP/omop_mcp.git

Paste into ~/Library/Application Support/Claude/claude_desktop_config.json

{
  "mcpServers": {
    "omop-mcp-server": {
      "command": "uv",
      "args": [
        "--directory",
        "<path-to-local-repo>",
        "run",
        "omop_mcp"
      ]
    }
  }
}

Add Memory (Knowledge Graph)

Install / run

npx -y @modelcontextprotocol/server-memory

Paste into ~/Library/Application Support/Claude/claude_desktop_config.json

{
  "mcpServers": {
    "memory-knowledge-graph": {
      "command": "npx",
      "args": [
        "-y",
        "@modelcontextprotocol/server-memory"
      ],
      "env": {
        "MEMORY_FILE_PATH": "/absolute/path/to/memory.jsonl"
      }
    }
  }
}

FAQ

OMOP MCP Server or Memory (Knowledge Graph) — which is better?

Pick OMOP MCP Server if you prefer its approach (map clinical terminology to standardized omop cdm concepts using llms and the omophub vocabulary api). Pick Memory (Knowledge Graph) if you want the official, vendor-maintained server, and you prefer the more popular, battle-tested option.

Can I use both OMOP MCP Server and Memory (Knowledge Graph)?

Yes — MCP clients let you enable multiple servers at once. Add both configs to your client's mcpServers and use whichever tool fits the task.

Do OMOP MCP Server and Memory (Knowledge Graph) work with Claude, Cursor and Windsurf?

Both do. Copy the per-client config below into Claude Desktop, Cursor, or Windsurf.

View OMOP MCP Server →View Memory (Knowledge Graph) →More comparisons →