Allows to retrieve information about an AnnData object via MCP
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# AnnData MCP [](https://biocontext.ai/registry) [![Tests][badge-tests]][tests] [![Documentation][badge-docs]][documentation] [badge-tests]: https://img.shields.io/github/actions/workflow/status/biocontext-ai/anndata-mcp/test.yaml?branch=main [badge-docs]: https://img.shields.io/readthedocs/anndata-mcp Allows to retrieve information about an AnnData object via MCP using the `read_lazy` function from `anndata`. ## Getting started Please refer to the [documentation][], in particular, the [API documentation][]. You can also find the project on [BioContextAI](https://biocontext.ai), the community-hub for biomedical MCP servers: [anndata-mcp on BioContextAI](https://biocontext.ai/registry/biocontext-ai/anndata-mcp). ## Installation You need to have Python 3.11 or newer installed on your system. If you don't have Python installed, we recommend installing [uv][]. There are several alternative options to install anndata-mcp: 1. Use `uvx` to run it immediately: ```bash uvx anndata-mcp ``` 2. Include it in one of various clients that supports the `mcp.json` standard, please use: ```json { "mcpServers": { "anndata-mcp": { "command": "uvx", "args": ["anndata-mcp"] } } } ``` 3. Install it through `pip`: ```bash pip install --user anndata-mcp ``` 4. Install the latest development version: ```bash pip install git+https://github.com/biocontext-ai/anndata-mcp.git@main ``` ## Contact If you found a bug, please use the [issue tracker][]. ## Citation If this MCP server is useful to your research, please cite the `BioContextAI` and the `anndata` publications: ```bibtex @article{BioContext_AI_Kuehl_Schaub_2025, title={BioContextAI is a community hub for agentic biomedical systems}, url={http://dx.doi.org/10.1038/s41587-025-02900-9}, urldate = {2025-11-06}, …
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