Scanpy MCP
Provides a natural language interface for scRNA-Seq analysis using the Scanpy library, supporting operations such as data preprocessing, clustering, and visualization. It enables AI agents and clients to perform complex single-cell transcriptomics wo
What is Scanpy MCP?
Scanpy MCP is a Model Context Protocol (MCP) server that allows AI assistants like Claude, Cursor, and VS Code to provides a natural language interface for scrna-seq analysis using the scanpy library, supporting operations such as data preprocessing, clustering, and visualization. it enables ai agents and clients...
Provides a natural language interface for scRNA-Seq analysis using the Scanpy library, supporting operations such as data preprocessing, clustering, and visualization. It enables AI agents and clients to perform complex single-cell transcriptomics wo
This server falls under the Data Science & ML category on MCPgee, the world's largest MCP server directory with 33,000+ servers.
Features
- Provides a natural language interface for scRNA-Seq analysis
Use Cases
Maintainer
Works with
Installation
Manual Installation
npx scanpy-mcpConfiguration
Configuration Details
claude_desktop_config.json
Performance
Response Metrics
Resource Usage
Frequently Asked Questions about Scanpy MCP
What is Scanpy MCP?
Scanpy MCP is a Model Context Protocol (MCP) server that provides a natural language interface for scrna-seq analysis using the scanpy library, supporting operations such as data preprocessing, clustering, and visualization. it enables ai agents and clients to perform complex single-cell transcriptomics wo It connects AI assistants to external tools and data sources through a standardized interface.
How do I install Scanpy MCP?
Follow the installation instructions on the Scanpy MCP GitHub repository. Clone the repo, install dependencies, and add the server config to your AI client.
Which AI clients work with Scanpy MCP?
Scanpy MCP works with all major MCP-compatible AI clients including Claude Desktop, Claude Code, Cursor, VS Code (GitHub Copilot), Windsurf, and Cline.
Is Scanpy MCP free to use?
Yes, Scanpy MCP is open source and available under the BSD 3-Clause license. You can use it freely in both personal and commercial projects.
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Set Up Scanpy MCP in Your Editor
Choose your AI client for step-by-step setup instructions.
Quick Config Preview
Add this to your claude_desktop_config.json or .cursor/mcp.json
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