PluginBench
MCP Server
Active
BSD-3-Clause

Cytoscape Desktop MCP MCP Server

io.github.cytoscape/cytoscape-desktop-mcp-bridge

RepositoryRegistry

What is the Cytoscape Desktop MCP MCP server?

Drive a running Cytoscape Desktop to load, lay out, and style biological networks.

How to install Cytoscape Desktop MCP

Copy-paste configuration for popular MCP clients.

transport: stdio
Config generated by PluginBench — verify against the source before use.
Environment / auth
  • CYREST_PORT

    Port Cytoscape Desktop's REST interface listens on (Edit > Preferences > REST API)

Claude Desktop
~/Library/Application Support/Claude/claude_desktop_config.json
{
  "mcpServers": {
    "cytoscape-desktop-mcp-bridge": {
      "command": "npx",
      "args": [
        "-y",
        "@cytoscape/cytoscape-desktop-mcp-bridge"
      ],
      "env": {
        "CYREST_PORT": "<YOUR_CYREST_PORT>"
      }
    }
  }
}
Cursor
~/.cursor/mcp.json
{
  "mcpServers": {
    "cytoscape-desktop-mcp-bridge": {
      "command": "npx",
      "args": [
        "-y",
        "@cytoscape/cytoscape-desktop-mcp-bridge"
      ],
      "env": {
        "CYREST_PORT": "<YOUR_CYREST_PORT>"
      }
    }
  }
}
Windsurf
~/.codeium/windsurf/mcp_config.json
{
  "mcpServers": {
    "cytoscape-desktop-mcp-bridge": {
      "command": "npx",
      "args": [
        "-y",
        "@cytoscape/cytoscape-desktop-mcp-bridge"
      ],
      "env": {
        "CYREST_PORT": "<YOUR_CYREST_PORT>"
      }
    }
  }
}
VS Code
.vscode/mcp.json
{
  "servers": {
    "cytoscape-desktop-mcp-bridge": {
      "type": "stdio",
      "command": "npx",
      "args": [
        "-y",
        "@cytoscape/cytoscape-desktop-mcp-bridge"
      ],
      "env": {
        "CYREST_PORT": "<YOUR_CYREST_PORT>"
      }
    }
  }
}
Claude Code
claude mcp add cytoscape-desktop-mcp-bridge --env CYREST_PORT=<YOUR_CYREST_PORT> -- npx -y @cytoscape/cytoscape-desktop-mcp-bridge

Related MCP servers

com.browser-use/browser-use

Active

Control a real Chrome browser to complete any task: fill forms, extract data, book flights.

110k
Python
MIT
View repository →

World Monitor

Active

Live global intelligence: real-time markets, conflicts, country risk, chokepoints, energy. 39 tools.

83k
TypeScript
AGPL-3.0
View repository →

Netdata

Active

Real-time infrastructure monitoring with metrics, logs, alerts, and ML-based anomaly detection.

80k
Go
GPL-3.0
View repository →

io.github.IncorporatedPartners/labelhead-artist-momentum

Active

Trending hip-hop artist momentum scores across four cultural dimensions.

79k
TypeScript
MIT
View repository →

io.github.ruvnet/claude-flow

Active

AI orchestration with hive-mind swarms, neural networks, and 87 MCP tools for enterprise dev.

68k
TypeScript
MIT
View repository →

Scrapling MCP Server

Active

Give your AI agent stealth web scraping with Cloudflare bypass and CSS selection, powered by Scrapling.

67k
Python
BSD-3-Clause
View repository →