anndata is a Python package for handling annotated data matrices in memory and on disk, positioned between pandas and xarray. anndata offers a broad range of computationally efficient features including, among others, sparse data support, lazy operations, and a PyTorch interface.
- Discuss development on GitHub.
- Read the documentation.
- Ask questions on the scverse Discourse.
- Install via
pip install anndataorconda install anndata -c conda-forge. - Consider citing the anndata paper.
- See Scanpy's documentation for usage related to single cell data. anndata was initially built for Scanpy.