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ginseng is a python package for accurate, and somewhat efficient, cell type annotation using jax and zarr. It provides a variety of classes and functions in a simple-to-use interface for on-disk dataset creation, iterators for model training or data processing, and a lightweight neural attention model for cell type annotation.

Installation

ginseng can be installed using pip

pip install ginseng

Or, added to your project using uv

uv add ginseng

License

ginseng is licensed under the MIT License (see LICENSE).