Metadata-Version: 2.1
Name: scanpy
Version: 1.9.3
Summary: Single-Cell Analysis in Python.
Author: Alex Wolf, Philipp Angerer, Fidel Ramirez, Isaac Virshup, Sergei Rybakov, Gokcen Eraslan, Tom White, Malte Luecken, Davide Cittaro, Tobias Callies, Marius Lange, Andrés R. Muñoz-Rojas
Maintainer-email: Isaac Virshup <ivirshup@gmail.com>, Philipp Angerer <phil.angerer@gmail.com>, Alex Wolf <f.alex.wolf@gmx.de>
Requires-Python: >=3.7
Description-Content-Type: text/markdown
Classifier: License :: OSI Approved :: BSD License
Classifier: Development Status :: 5 - Production/Stable
Classifier: Environment :: Console
Classifier: Framework :: Jupyter
Classifier: Intended Audience :: Developers
Classifier: Intended Audience :: Science/Research
Classifier: Natural Language :: English
Classifier: Operating System :: MacOS :: MacOS X
Classifier: Operating System :: Microsoft :: Windows
Classifier: Operating System :: POSIX :: Linux
Classifier: Programming Language :: Python :: 3
Classifier: Programming Language :: Python :: 3.7
Classifier: Programming Language :: Python :: 3.8
Classifier: Programming Language :: Python :: 3.9
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
Classifier: Topic :: Scientific/Engineering :: Visualization
Requires-Dist: anndata>=0.7.4
Requires-Dist: numpy>=1.17.0
Requires-Dist: matplotlib>=3.4
Requires-Dist: pandas>=1.0
Requires-Dist: scipy>=1.4
Requires-Dist: seaborn
Requires-Dist: h5py>=3
Requires-Dist: tqdm
Requires-Dist: scikit-learn>=0.22
Requires-Dist: statsmodels>=0.10.0rc2
Requires-Dist: patsy
Requires-Dist: networkx>=2.3
Requires-Dist: natsort
Requires-Dist: joblib
Requires-Dist: numba>=0.41.0
Requires-Dist: umap-learn>=0.3.10
Requires-Dist: packaging
Requires-Dist: session-info
Requires-Dist: importlib_metadata>=0.7; python_version < '3.8'
Requires-Dist: bbknn ; extra == "bbknn"
Requires-Dist: dask[array]!=2.17.0 ; extra == "dask"
Requires-Dist: setuptools_scm ; extra == "dev"
Requires-Dist: black>=20.8b1 ; extra == "dev"
Requires-Dist: docutils ; extra == "dev"
Requires-Dist: sphinx>=4.4 ; extra == "doc"
Requires-Dist: sphinx-rtd-theme>=1.0 ; extra == "doc"
Requires-Dist: scanpydoc[typehints]>=0.7.7 ; extra == "doc"
Requires-Dist: typing_extensions ; extra == "doc" and ( python_version < '3.8')
Requires-Dist: myst-parser ; extra == "doc"
Requires-Dist: matplotlib!=3.6.1 ; extra == "doc"
Requires-Dist: scanpy[paga] ; extra == "doc"
Requires-Dist: harmonypy ; extra == "harmony"
Requires-Dist: python-igraph ; extra == "leiden"
Requires-Dist: leidenalg ; extra == "leiden"
Requires-Dist: python-igraph ; extra == "louvain"
Requires-Dist: louvain>=0.6,!=0.6.2 ; extra == "louvain"
Requires-Dist: magic-impute>=2.0 ; extra == "magic"
Requires-Dist: python-igraph ; extra == "paga"
Requires-Dist: cudf>=0.9 ; extra == "rapids"
Requires-Dist: cuml>=0.9 ; extra == "rapids"
Requires-Dist: cugraph>=0.9 ; extra == "rapids"
Requires-Dist: scanorama ; extra == "scanorama"
Requires-Dist: scrublet ; extra == "scrublet"
Requires-Dist: scikit-misc>=0.1.3 ; extra == "skmisc"
Requires-Dist: scanpy[test-min] ; extra == "test"
Requires-Dist: scanpy[leiden] ; extra == "test"
Requires-Dist: zarr ; extra == "test"
Requires-Dist: scanpy[dask] ; extra == "test"
Requires-Dist: scanpy[test] ; extra == "test-full"
Requires-Dist: scanpy[leiden] ; extra == "test-full"
Requires-Dist: scanpy[magic] ; extra == "test-full"
Requires-Dist: scanpy[skmisc] ; extra == "test-full"
Requires-Dist: scanpy[harmony] ; extra == "test-full"
Requires-Dist: scanpy[scanorama] ; extra == "test-full"
Requires-Dist: scanpy[scrublet] ; extra == "test-full"
Requires-Dist: pytest>=4.4 ; extra == "test-min"
Requires-Dist: pytest-nunit ; extra == "test-min"
Requires-Dist: profimp ; extra == "test-min"
Project-URL: Documentation, https://scanpy.readthedocs.io/
Project-URL: Home-page, https://scanpy.org
Project-URL: Source, https://github.com/scverse/scanpy
Provides-Extra: bbknn
Provides-Extra: dask
Provides-Extra: dev
Provides-Extra: doc
Provides-Extra: harmony
Provides-Extra: leiden
Provides-Extra: louvain
Provides-Extra: magic
Provides-Extra: paga
Provides-Extra: rapids
Provides-Extra: scanorama
Provides-Extra: scrublet
Provides-Extra: skmisc
Provides-Extra: test
Provides-Extra: test-full
Provides-Extra: test-min

[![Stars](https://img.shields.io/github/stars/scverse/scanpy?logo=GitHub&color=yellow)](https://github.com/scverse/scanpy/stargazers)
[![PyPI](https://img.shields.io/pypi/v/scanpy?logo=PyPI)](https://pypi.org/project/scanpy)
[![PyPIDownloads](https://pepy.tech/badge/scanpy)](https://pepy.tech/project/scanpy)
[![Conda](https://img.shields.io/conda/dn/conda-forge/scanpy?logo=Anaconda)](https://anaconda.org/conda-forge/scanpy)
[![Docs](https://readthedocs.com/projects/icb-scanpy/badge/?version=latest)](https://scanpy.readthedocs.io)
[![Build Status](https://dev.azure.com/scverse/scanpy/_apis/build/status/theislab.scanpy?branchName=master)](https://dev.azure.com/scverse/scanpy/_build)
![Discourse topics](https://img.shields.io/discourse/posts?color=yellow&logo=discourse&server=https%3A%2F%2Fdiscourse.scverse.org)
[![Chat](https://img.shields.io/badge/zulip-join_chat-%2367b08f.svg)](https://scverse.zulipchat.com)

# Scanpy – Single-Cell Analysis in Python

Scanpy is a scalable toolkit for analyzing single-cell gene expression data
built jointly with [anndata](https://anndata.readthedocs.io).  It includes
preprocessing, visualization, clustering, trajectory inference and differential
expression testing.  The Python-based implementation efficiently deals with
datasets of more than one million cells.

Discuss usage on the scverse [Discourse]. Read the [documentation].
If you'd like to contribute by opening an issue or creating a pull request, please take a look at our [contributing guide].
If Scanpy is useful for your research, consider citing [Genome Biology (2018)].

[contributing guide]: CONTRIBUTING.md
[discourse]: https://discourse.scverse.org/
[documentation]: https://scanpy.readthedocs.io
[genome biology (2018)]: https://doi.org/10.1186/s13059-017-1382-0

