Data Aggregator

Name: Data Aggregator
Author: musharna

musharna

Unified research-data acquisition MCP — search & fetch datasets across Zenodo, DataCite, NCBI omics (GEO/SRA/BioProject), and literature (PubMed/OpenAIRE) behind one normalized model.

Setup

Choose your client, copy the config, then fill in any required environment variables.

Add to Cursor Add to VS Code

claude mcp add data-aggregator --env NCBI_API_KEY='<NCBI_API_KEY>' --env LLM_API_KEY='<LLM_API_KEY>' --env EMBEDDING_API_KEY='<EMBEDDING_API_KEY>' --env DATA_GOV_API_KEY='<DATA_GOV_API_KEY>' -- uvx data-aggregator-mcp

~/.codex/config.toml

[mcp_servers.data-aggregator]
command = "uvx"
args = ["data-aggregator-mcp"]
env = { NCBI_API_KEY = "<NCBI_API_KEY>", LLM_API_KEY = "<LLM_API_KEY>", EMBEDDING_API_KEY = "<EMBEDDING_API_KEY>", DATA_GOV_API_KEY = "<DATA_GOV_API_KEY>" }

# codex mcp add data-aggregator --env NCBI_API_KEY='<NCBI_API_KEY>' --env LLM_API_KEY='<LLM_API_KEY>' --env EMBEDDING_API_KEY='<EMBEDDING_API_KEY>' --env DATA_GOV_API_KEY='<DATA_GOV_API_KEY>' -- uvx data-aggregator-mcp

~/.cursor/mcp.json

{
  "mcpServers": {
    "data-aggregator": {
      "command": "uvx",
      "args": [
        "data-aggregator-mcp"
      ],
      "env": {
        "NCBI_API_KEY": "<NCBI_API_KEY>",
        "LLM_API_KEY": "<LLM_API_KEY>",
        "EMBEDDING_API_KEY": "<EMBEDDING_API_KEY>",
        "DATA_GOV_API_KEY": "<DATA_GOV_API_KEY>"
      }
    }
  }
}

.vscode/mcp.json

{
  "servers": {
    "data-aggregator": {
      "type": "stdio",
      "command": "uvx",
      "args": [
        "data-aggregator-mcp"
      ],
      "env": {
        "NCBI_API_KEY": "<NCBI_API_KEY>",
        "LLM_API_KEY": "<LLM_API_KEY>",
        "EMBEDDING_API_KEY": "<EMBEDDING_API_KEY>",
        "DATA_GOV_API_KEY": "<DATA_GOV_API_KEY>"
      }
    }
  }
}

~/.gemini/settings.json

{
  "mcpServers": {
    "data-aggregator": {
      "command": "uvx",
      "args": [
        "data-aggregator-mcp"
      ],
      "env": {
        "NCBI_API_KEY": "<NCBI_API_KEY>",
        "LLM_API_KEY": "<LLM_API_KEY>",
        "EMBEDDING_API_KEY": "<EMBEDDING_API_KEY>",
        "DATA_GOV_API_KEY": "<DATA_GOV_API_KEY>"
      }
    }
  }
}

claude_desktop_config.json

{
  "mcpServers": {
    "data-aggregator": {
      "command": "uvx",
      "args": [
        "data-aggregator-mcp"
      ],
      "env": {
        "NCBI_API_KEY": "<NCBI_API_KEY>",
        "LLM_API_KEY": "<LLM_API_KEY>",
        "EMBEDDING_API_KEY": "<EMBEDDING_API_KEY>",
        "DATA_GOV_API_KEY": "<DATA_GOV_API_KEY>"
      }
    }
  }
}

.trae/mcp.json

{
  "mcpServers": {
    "data-aggregator": {
      "command": "uvx",
      "args": [
        "data-aggregator-mcp"
      ],
      "env": {
        "NCBI_API_KEY": "<NCBI_API_KEY>",
        "LLM_API_KEY": "<LLM_API_KEY>",
        "EMBEDDING_API_KEY": "<EMBEDDING_API_KEY>",
        "DATA_GOV_API_KEY": "<DATA_GOV_API_KEY>"
      }
    }
  }
}

Environment variables

NCBI_API_KEY
LLM_API_KEY
EMBEDDING_API_KEY
DATA_GOV_API_KEY

Replace the placeholders with your own credentials and keep them out of version control.

Setup

Environment variables

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