liana-mcp

# Liana-MCP Natural language interface for scRNA-Seq analysis with Liana through MCP. ## 🪩 What can it do? - IO module like read and write scRNA-Seq data - Cell-cell communication method - Plotting module, circle plot, dotplot ## ❓ Who is this for? - Anyone who wants to do scRNA-Seq analysis natural language! - Agent developers who want to call Liana's functions for their applications ## 🌐 Where to use it? You can use Liana-mcp in most AI clients, plugins, or agent frameworks that support the MCP: - AI clients, like Cherry Studio - Plugins, like Cline - Agent frameworks, like Agno ## 🎬 Demo A demo showing scRNA-Seq cell cluster analysis in a AI client Cherry Studio using natural language based on Liana-mcp https://github.com/user-attachments/assets/40fb5bd8-a166-4993-9979-3258ef6646a0 ## 📚 Documentation scmcphub's complete documentation is available at https://docs.scmcphub.org ## 🏎️ Quickstart ### Install Install from PyPI ``` pip install liana-mcp ``` you can test it by running ``` liana-mcp run ``` #### run liana-mcp locally Refer to the following configuration in your MCP client: check path ``` $ which liana /home/test/bin/liana-mcp ``` ``` "mcpServers": { "liana-mcp": { "command": "/home/test/bin/liana-mcp", "args": [ "run" ] } } ``` #### run liana-server remotely Refer to the following configuration in your MCP client: run it in your server ``` liana-mcp run --transport shttp --port 8000 ``` Then configure your MCP client in local AI client, like this: ``` "mcpServers": { "liana-mcp": { "url": "http://localhost:8000/mcp" } } ``` ## 🤝 Contributing If you have any questions, welcome to submit an issue, or contact me(hsh-me@outlook.com). Contributions to the code are also welcome! ## Citing If you use liana-mcp in for your research, please consider citing following work: > Dimitrov D., Schäfer P.S.L, Farr E., Rodriguez Mier P., Lobentanzer S., Badia-i-Mompel P., Dugourd A., Tanevski J., Ramirez Flores R.O. and Saez-Rodriguez J. LIANA+ provides an all-in-one framework for cell–cell communication inference. Nat Cell Biol (2024). https://doi.org/10.1038/s41556-024-01469-w