infercnv-mcp 0.1.0

Natural language interface for CNV inference from scRNA-Seq data with infercnvpy through MCP.

Infercnvpy-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
• Preprocessing module for neighbors computation and data preparation
• Tool module for CNV inference, clustering, and dimensionality reduction
• 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 infercnvpy-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

🏎️ Quickstart

Install

Install from PyPI

pip install infercnvpy-mcp

you can test it by running

infercnvpy-mcp run

Run infercnvpy-server locally

Refer to the following configuration in your MCP client:

"mcpServers": {
  "infercnvpy-mcp": {
    "command": "infercnvpy-mcp",
    "args": [
      "run"
    ]
  }
}

Run infercnvpy-server remotely

Refer to the following configuration in your MCP client:

Run it in your server

infercnvpy-mcp run --transport shttp --port 8000

Then configure your MCP client, like this:

http://localhost:8000/mcp

🤝 Contributing

Contributions to the code are welcome!