rapids-singlecell: GPU-Accelerated Single-Cell Analysis within scverse®

rapids-singlecell provides GPU-accelerated single-cell analysis with an AnnData-first API. It is largely compatible with Scanpy and includes selected functionality from Squidpy, decoupler, and pertpy. Computations use CuPy and NVIDIA RAPIDS for performance on large datasets.

GPU acceleration: Common single-cell workflows on AnnData run on the GPU.
Ecosystem compatibility: Works with Scanpy APIs; includes pieces from Squidpy, decoupler, and pertpy.
Simple installation: Available via Conda and PyPI.

Documentation

For more information please have a look through the documentation

Citation

If you use this tool, please cite:

Please cite the relevant tools if used: decoupler for decoupler functions, squidpy for spatial analysis, and pertpy for perturbation analysis.

rapids-singlecell is part of the scverse® project (website, governance) and is fiscally sponsored by NumFOCUS. If you like scverse® and want to support our mission, please consider making a tax-deductible donation to help the project pay for developer time, professional services, travel, workshops, and a variety of other needs.

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rapids_singlecell_cu13-0.16.0-cp312-abi3-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (16.2 MB view details)

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