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mcp/harbor
VS Code

ENCODE Toolkit for VS Code

io.github.ammawla/encode-toolkit

20 MCP tools + 48 skills for ENCODE Project genomics — search, download, pipelines

client:VS Code transport:stdio runtime:npm

Install ENCODE Toolkit in VS Code

.vscode/mcp.json 

{
  "servers": {
    "encode-toolkit": {
      "type": "stdio",
      "command": "npx",
      "args": [
        "-y",
        "encode-toolkit"
      ]
    }
  }
}

Requires agent mode. MCP: Open User Configuration puts the same block in every workspace. VS Code docs

ENCODE Toolkit in other clients

ENCODE Toolkit MCP server