Skip to contentCytoscape Desktop MCP MCP Server | MCPpediaCCytoscape Desktop MCP MCP Server
Drive a running Cytoscape Desktop to load, lay out, and style biological networks.
50FairInstall
~/Library/Application Support/Claude/claude_desktop_config.json
{
"mcpServers": {
"cytoscape-cytoscape-desktop-mcp": {
"command": "npx",
"args": [
"-y",
"https://github.com/cytoscape/cytoscape-desktop-mcp/releases/download/mcpb-v1.0.3/cytoscape-mcp.mcpb"
],
"env": {
"CYREST_PORT": "1234"
}
}
}
}
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Environment
| Name | Required | Notes |
|---|
| CYREST_PORT | No | Port Cytoscape Desktop's REST interface listens on (Edit > Preferences > REST API) |
| CYREST_PORT | No | Port Cytoscape Desktop's REST interface listens on (Edit > Preferences > REST API) |
Tools show up when the registry metadata or the repository README lists them. GitHub enrichment fills this in when a token is configured.
About
Drive a running Cytoscape Desktop to load, lay out, and style biological networks.
FAQ
- What is Cytoscape Desktop MCP?
- Drive a running Cytoscape Desktop to load, lay out, and style biological networks.
- How do I install Cytoscape Desktop MCP?
- Pick a client above and copy the generated config. Cursor and VS Code also have a deep link when the server can run locally or remotely.
- Is Cytoscape Desktop MCP official?
- No. Registry-listed is not the same as vendor-official. Read the methodology for the difference.
- How is the trust score calculated?
- This listing scores 50 (Fair). The formula is published on the methodology page.
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