ENCODE Toolkit for Zed

io.github.ammawla/encode-toolkit

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

client:Zed transport:stdio runtime:npm

Install ENCODE Toolkit in Zed

~/.config/zed/settings.json · windows: %APPDATA%\Zed\settings.json

{
  "context_servers": {
    "encode-toolkit": {
      "command": "npx",
      "args": [
        "-y",
        "encode-toolkit"
      ]
    }
  }
}

Merge this into your existing settings object — do not replace the file. Zed docs