MCP-Mirror/JackKuo666_PubTator-MCP-Server

3.1

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The PubTator MCP Server is a biomedical literature annotation and relationship mining server that provides access to the PubTator3 system through the Model Context Protocol (MCP).

MCPHub score:3.11

Has a README

Github repo has a README.md.

Has a License

Github repo has license info.

Server can be inspected

Currently can not be tried on MCPHub.

Server schema can be extracted

Can not extract tools info from the README or server.

Online hosted on MCPHub

More deployment information is needed.

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Author

MCP-Mirror

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Repository

https://github.com/MCP-Mirror/JackKuo666_PubTator-MCP-Server

License

MIT License

Last publish date

2025-04-09

Last update date

2025-05-14

Server configs

in claude desktop

{
  "mcpServers": {
    "pubtator": {
      "command": "python",
      "args": ["-m", "pubtator-mcp-server"]
    }
  }
}

in claude desktop on windows

{
  "mcpServers": {
    "pubtator": {
      "command": "C:\\Users\\YOUR\\PATH\\miniconda3\\envs\\mcp_server\\python.exe",
      "args": [
        "D:\\code\\YOUR\\PATH\\PubTator-MCP-Server\\pubtator_server.py"
      ],
      "env": {},
      "disabled": false,
      "autoApprove": []
    }
  }
}

in cline

{
  "mcpServers": {
    "pubtator": {
      "command": "bash",
      "args": [
        "-c",
        "source /home/YOUR/PATH/mcp-server-pubtator/.venv/bin/activate && python /home/YOUR/PATH/pubtator_server.py"
      ],
      "env": {
        "MCP_TRANSPORT": "stdio"
      },
      "disabled": false,
      "autoApprove": []
    }
  }
}

in cline

{
  "mcpServers": {
    "pubtator": {
      "command": "bash",
      "args": [
        "-c",
        "source /home/YOUR/PATH/mcp-server-pubtator/.venv/bin/activate && python /home/YOUR/PATH/pubtator_server.py"
      ],
      "env": {
        "MCP_TRANSPORT": "tcp",
        "MCP_HOST": "127.0.0.1",
        "MCP_PORT": "8888"
      },
      "disabled": false,
      "autoApprove": []
    }
  }
}