Metadata-Version: 2.2
Name: rapids-singlecell-cu13
Version: 0.15.0rc5
Summary: running single cell analysis on Nvidia GPUs
Author: Severin Dicks
License: MIT License
         
         Copyright (c) 2022, Severin Dicks
         Copyright (c) 2025, scverse®
         
         Permission is hereby granted, free of charge, to any person obtaining a copy
         of this software and associated documentation files (the "Software"), to deal
         in the Software without restriction, including without limitation the rights
         to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
         copies of the Software, and to permit persons to whom the Software is
         furnished to do so, subject to the following conditions:
         
         The above copyright notice and this permission notice shall be included in all
         copies or substantial portions of the Software.
         
         THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
         IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
         FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
         AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
         LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
         OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
         SOFTWARE.
         
Project-URL: Documentation, https://rapids-singlecell.readthedocs.io
Project-URL: Source, https://github.com/scverse/rapids_singlecell
Requires-Python: <3.14,>=3.12
Requires-Dist: anndata>=0.10.0
Requires-Dist: scanpy>=1.10.0
Requires-Dist: numpy>=1.17.0
Requires-Dist: scipy>=1.4
Requires-Dist: pandas
Requires-Dist: natsort
Requires-Dist: scikit-misc>=0.1.3
Requires-Dist: scikit-learn
Requires-Dist: matplotlib>=3.4
Requires-Dist: tqdm
Requires-Dist: statsmodels>=0.12.0
Requires-Dist: scikit-image
Requires-Dist: docrep
Provides-Extra: rapids
Requires-Dist: cupy-cuda13x; extra == "rapids"
Requires-Dist: cudf-cu13>=25.10; extra == "rapids"
Requires-Dist: cuml-cu13>=25.10; extra == "rapids"
Requires-Dist: cugraph-cu13>=25.10; extra == "rapids"
Requires-Dist: cuvs-cu13>=25.10; extra == "rapids"
Provides-Extra: doc
Requires-Dist: sphinx>=4.5.0; extra == "doc"
Requires-Dist: sphinx-copybutton; extra == "doc"
Requires-Dist: nbsphinx>=0.8.12; extra == "doc"
Requires-Dist: myst-nb; extra == "doc"
Requires-Dist: sphinx-design; extra == "doc"
Requires-Dist: sphinx-tabs; extra == "doc"
Requires-Dist: sphinxext-opengraph; extra == "doc"
Requires-Dist: sphinxcontrib.bibtex; extra == "doc"
Requires-Dist: scanpydoc[theme,typehints]>=0.9.4; extra == "doc"
Requires-Dist: dask; extra == "doc"
Requires-Dist: pytest; extra == "doc"
Provides-Extra: test-minimal
Requires-Dist: pytest; extra == "test-minimal"
Requires-Dist: pytest-cov; extra == "test-minimal"
Requires-Dist: pytest-timeout; extra == "test-minimal"
Requires-Dist: pytest-rerunfailures; extra == "test-minimal"
Requires-Dist: anyio; extra == "test-minimal"
Requires-Dist: pooch; extra == "test-minimal"
Requires-Dist: profimp; extra == "test-minimal"
Requires-Dist: scanpy>=1.10.0; extra == "test-minimal"
Requires-Dist: bbknn; extra == "test-minimal"
Requires-Dist: decoupler; extra == "test-minimal"
Requires-Dist: fast-array-utils; extra == "test-minimal"
Provides-Extra: test
Requires-Dist: rapids_singlecell[test-minimal]; extra == "test"
Requires-Dist: igraph; extra == "test"
Provides-Extra: dev
Requires-Dist: hatch-vcs; extra == "dev"
Requires-Dist: pre-commit; extra == "dev"
Description-Content-Type: text/markdown

[![Stars](https://img.shields.io/github/stars/scverse/rapids_singlecell?style=flat&logo=GitHub&color=blue)](https://github.com/scverse/rapids_singlecell/stargazers)
[![PyPI](https://img.shields.io/pypi/v/rapids-singlecell?logo=PyPI)](https://pypi.org/project/rapids-singlecell)
[![Downloads](https://static.pepy.tech/badge/rapids-singlecell)](https://pepy.tech/project/rapids-singlecell)
[![Documentation Status](https://readthedocs.org/projects/rapids-singlecell/badge/?version=latest)](https://rapids-singlecell.readthedocs.io/en/latest/?badge=latest)
[![CI-Pass](https://github.com/scverse/rapids_singlecell/actions/workflows/test-gpu.yml/badge.svg)](https://github.com/scverse/rapids_singlecell/actions/workflows/test-gpu.yml)
[![codecov](https://codecov.io/gh/scverse/rapids-singlecell/graph/badge.svg?token=PFHJEQD94X)](https://codecov.io/gh/scverse/rapids-singlecell)
[![Chat](https://img.shields.io/badge/zulip-join_chat-%2367b08f.svg)](https://scverse.zulipchat.com)


# 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](https://rapids-singlecell.readthedocs.io/en/latest/)

## Citation

If you use this tool, please cite: [![arXiv](https://img.shields.io/badge/arXiv-2603.02402-b31b1b.svg)](https://doi.org/10.48550/arXiv.2603.02402)

Please cite the relevant tools if used: [decoupler](https://doi.org/10.1093/bioadv/vbac016) for decoupler functions, [squidpy](https://doi.org/10.1038/s41592-021-01358-2) for spatial analysis, and [pertpy](https://doi.org/10.1038/s41592-024-02233-6) for perturbation analysis.

[//]: # (numfocus-fiscal-sponsor-attribution)

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

<div align="center">
<a href="https://numfocus.org/project/scverse">
  <img
    src="https://raw.githubusercontent.com/numfocus/templates/master/images/numfocus-logo.png"
    width="200"
  >
</a>
</div>
