infercnv-mcp

# Infercnv-MCP Natural language interface for Copy Number Variation (CNV) inference from scRNA-Seq data with infercnvpy through MCP. ## 🪩 What can it do? - IO module for reading and writing scRNA-Seq data, load gene position - Preprocessing module for neighbors computation and data preparation - Tool module for CNV inference, cnv score - Plotting module for chromosome heatmaps, UMAP, and t-SNE visualizations ## ❓ Who is this for? - Researchers who want to infer CNVs from scRNA-Seq data using natural language - Agent developers who want to integrate CNV analysis into their applications ## 🌐 Where to use it? You can use infercnv-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 ## 📚 Documentation scmcphub's complete documentation is available at https://docs.scmcphub.org ## 🏎️ Quickstart ### Install Install from PyPI ``` pip install infercnv-mcp ``` you can test it by running ``` infercnv-mcp run ``` #### run infercnv-mcp locally Refer to the following configuration in your MCP client: check path ``` $ which infercnv /home/test/bin/infercnv-mcp ``` ``` "mcpServers": { "infercnv-mcp": { "command": "/home/test/bin/infercnv-mcp", "args": [ "run" ] } } ``` #### Run infercnv-server remotely Refer to the following configuration in your MCP client: Run it in your server ``` infercnv-mcp run --transport shttp --port 8000 ``` Then configure your MCP client, like this: ``` 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 infercnv-mcp in your research, please consider citing following work: > https://github.com/icbi-lab/infercnvpy