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
AnnDatarun 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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