anndata

SUMMARY

What it does

This skill provides procedural knowledge for working with AnnData, a Python package for annotated data matrices used in single-cell analysis. It covers creating, reading, writing, concatenating, subsetting, and transforming AnnData objects, including handling h5ad and zarr formats, backed mode for large datasets, and integration with the scverse ecosystem (e.g., scanpy, muon). The skill includes installation instructions, code examples, best practices, and troubleshooting guidance. It is designed for use by AI agents with access to Read, Write, Edit, and Bash tools, and requires Python 3.11+ and uv. The skill content is derived from the official AnnData documentation and the Scientific Agent Skills library by K-Dense.