Koskamo

GDC MCP

The GDC MCP server provides access to the NCI Genomic Data Commons, allowing agents to list cancer genomics projects like TCGA and TARGET, look up project details, search for cancer cases by primary site, and find genomic data files by category. It supports keyless, open-access queries with a free tier of 50 calls per day.

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Package and access

Local package with source-attributed installation metadata. Koskamo does not execute packages during review.

GDC MCP logo, by PipeworxCommunity listingLocal stdioSource reviewed; not executedPublished by Pipeworx
You need:Keyless, open-access
Vendor documentation

What you can do with it

  • List NCI Genomic Data Commons cancer genomics projects
  • Search cancer cases by primary site and project
  • Find genomic data files by data category
  • Look up single project details and summary counts

Source and maintenance

Community listingRegistry 0.2.0
mcp-registry: io.github.pipeworx-io/gdc@0.2.0Source repositoryProject website
Maintenance checked

Packages and installation

Source-provided package data. Koskamo has not executed or live-probed this package.

@pipeworx/mcp-gdc 0.2.0

npm
@pipeworx/mcp-gdc package definition
{
  "version": "0.2.0",
  "transport": "stdio",
  "identifier": "@pipeworx/mcp-gdc",
  "registryType": "npm",
  "environmentVariables": [
    {
      "name": "PIPEWORX_API_KEY",
      "description": "Optional Pipeworx API key. Without it calls are anonymous and capped daily; a free key raises the cap."
    }
  ]
}

Tools

Reported by the attributed source; not independently observed by Koskamo.

No tool definitions available.

Connect from your client

Each snippet configures the same source-provided package; replace placeholders before use.

This server is operated by the named third party. Listing and endpoint checks are not an endorsement or a security audit. Review the operator's permissions, terms, and data handling before connecting. How listings are checked and corrected.

Cursor

Merge this local stdio configuration, replace every placeholder environment value, and restart Cursor. Koskamo has not executed this package.
Cursor configuration
{
  "mcpServers": {
    "gdc-mcp-pipeworx-mcp-gdc": {
      "command": "npx",
      "args": [
        "-y",
        "@pipeworx/mcp-gdc@0.2.0"
      ],
      "env": {
        "PIPEWORX_API_KEY": "<YOUR_PIPEWORX_API_KEY>"
      }
    }
  }
}

Cline

Merge this local stdio configuration, replace every placeholder environment value, and restart Cline. Koskamo has not executed this package.
Cline configuration
{
  "mcpServers": {
    "gdc-mcp-pipeworx-mcp-gdc": {
      "command": "npx",
      "args": [
        "-y",
        "@pipeworx/mcp-gdc@0.2.0"
      ],
      "env": {
        "PIPEWORX_API_KEY": "<YOUR_PIPEWORX_API_KEY>"
      }
    }
  }
}

VS Code

Merge this local stdio configuration, replace every placeholder environment value, and restart VS Code. Koskamo has not executed this package.
VS Code configuration
{
  "servers": {
    "gdc-mcp-pipeworx-mcp-gdc": {
      "type": "stdio",
      "command": "npx",
      "args": [
        "-y",
        "@pipeworx/mcp-gdc@0.2.0"
      ],
      "env": {
        "PIPEWORX_API_KEY": "<YOUR_PIPEWORX_API_KEY>"
      }
    }
  }
}

Claude Desktop

Merge this local stdio configuration, replace every placeholder environment value, and restart Claude Desktop. Koskamo has not executed this package.
Claude Desktop configuration
{
  "mcpServers": {
    "gdc-mcp-pipeworx-mcp-gdc": {
      "command": "npx",
      "args": [
        "-y",
        "@pipeworx/mcp-gdc@0.2.0"
      ],
      "env": {
        "PIPEWORX_API_KEY": "<YOUR_PIPEWORX_API_KEY>"
      }
    }
  }
}

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