Allen Brain

Name: Allen Brain
Author: pipeworx-io

pipeworx-io

Gene expression experiments and the brain structure ontology from the Allen Institute's Brain Atlas — where in the brain a gene is expressed.

Setup

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

Add to Cursor Add to VS Code

claude mcp add --transport http allen-brain https://gateway.pipeworx.io/allen-brain/mcp

~/.codex/config.toml

[mcp_servers.allen-brain]
url = "https://gateway.pipeworx.io/allen-brain/mcp"

# codex mcp add allen-brain --url https://gateway.pipeworx.io/allen-brain/mcp

~/.cursor/mcp.json

{
  "mcpServers": {
    "allen-brain": {
      "url": "https://gateway.pipeworx.io/allen-brain/mcp"
    }
  }
}

.vscode/mcp.json

{
  "servers": {
    "allen-brain": {
      "type": "http",
      "url": "https://gateway.pipeworx.io/allen-brain/mcp"
    }
  }
}

~/.gemini/settings.json

{
  "mcpServers": {
    "allen-brain": {
      "httpUrl": "https://gateway.pipeworx.io/allen-brain/mcp"
    }
  }
}

claude_desktop_config.json · Customize › Connectors › Add custom connector

{
  "mcpServers": {
    "allen-brain": {
      "command": "npx",
      "args": [
        "-y",
        "mcp-remote",
        "https://gateway.pipeworx.io/allen-brain/mcp"
      ]
    }
  }
}

.trae/mcp.json

{
  "mcpServers": {
    "allen-brain": {
      "url": "https://gateway.pipeworx.io/allen-brain/mcp"
    }
  }
}

Setup

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