anndata - Annotated data

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 anndata or conda 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.