| Name | scanpy JSON |
| Version |
1.10.1
JSON |
| download |
| home_page | None |
| Summary | Single-Cell Analysis in Python. |
| upload_time | 2024-04-09 09:54:37 |
| maintainer | None |
| docs_url | None |
| 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 |
| requires_python | >=3.9 |
| license | None |
| keywords |
|
| VCS |
 |
| bugtrack_url |
|
| requirements |
No requirements were recorded.
|
| Travis-CI |
No Travis.
|
| coveralls test coverage |
No coveralls.
|
[](https://github.com/scverse/scanpy/stargazers)
[](https://pypi.org/project/scanpy)
[](https://pepy.tech/project/scanpy)
[](https://anaconda.org/conda-forge/scanpy)
[](https://scanpy.readthedocs.io)
[](https://dev.azure.com/scverse/scanpy/_build)
[](https://discourse.scverse.org/)
[](https://scverse.zulipchat.com)
[](https://numfocus.org/)
# Scanpy – Single-Cell Analysis in Python
Scanpy is a scalable toolkit for analyzing single-cell gene expression data
built jointly with [anndata][]. 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 [contribution guide][].
[anndata]: https://anndata.readthedocs.io
[discourse]: https://discourse.scverse.org/
[documentation]: https://scanpy.readthedocs.io
[//]: # (numfocus-fiscal-sponsor-attribution)
scanpy 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 [donation](https://numfocus.org/donate-to-scverse) to support our efforts.
<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>
## Citation
If you use `scanpy` in your work, please cite the `scanpy` publication as follows:
> **SCANPY: large-scale single-cell gene expression data analysis**
>
> F. Alexander Wolf, Philipp Angerer, Fabian J. Theis
>
> _Genome Biology_ 2018 Feb 06. doi: [10.1186/s13059-017-1382-0](https://doi.org/10.1186/s13059-017-1382-0).
You can cite the scverse publication as follows:
> **The scverse project provides a computational ecosystem for single-cell omics data analysis**
>
> Isaac Virshup, Danila Bredikhin, Lukas Heumos, Giovanni Palla, Gregor Sturm, Adam Gayoso, Ilia Kats, Mikaela Koutrouli, Scverse Community, Bonnie Berger, Dana Pe’er, Aviv Regev, Sarah A. Teichmann, Francesca Finotello, F. Alexander Wolf, Nir Yosef, Oliver Stegle & Fabian J. Theis
>
> _Nat Biotechnol._ 2023 Apr 10. doi: [10.1038/s41587-023-01733-8](https://doi.org/10.1038/s41587-023-01733-8).
[contribution guide]: CONTRIBUTING.md
Raw data
{
"_id": null,
"home_page": null,
"name": "scanpy",
"maintainer": null,
"docs_url": null,
"requires_python": ">=3.9",
"maintainer_email": "Isaac Virshup <ivirshup@gmail.com>, Philipp Angerer <phil.angerer@gmail.com>, Alex Wolf <f.alex.wolf@gmx.de>",
"keywords": null,
"author": "Alex Wolf, Philipp Angerer, Fidel Ramirez, Isaac Virshup, Sergei Rybakov, Gokcen Eraslan, Tom White, Malte Luecken, Davide Cittaro, Tobias Callies, Marius Lange, Andr\u00e9s R. Mu\u00f1oz-Rojas",
"author_email": null,
"download_url": "https://files.pythonhosted.org/packages/02/4b/a0ce822d6071ada47872c91f54d2778ba80c1c03f5b3241bb96780b70c24/scanpy-1.10.1.tar.gz",
"platform": null,
"description": "[](https://github.com/scverse/scanpy/stargazers)\n[](https://pypi.org/project/scanpy)\n[](https://pepy.tech/project/scanpy)\n[](https://anaconda.org/conda-forge/scanpy)\n[](https://scanpy.readthedocs.io)\n[](https://dev.azure.com/scverse/scanpy/_build)\n[](https://discourse.scverse.org/)\n[](https://scverse.zulipchat.com)\n[](https://numfocus.org/)\n\n# Scanpy \u2013 Single-Cell Analysis in Python\n\nScanpy is a scalable toolkit for analyzing single-cell gene expression data\nbuilt jointly with [anndata][]. It includes\npreprocessing, visualization, clustering, trajectory inference and differential\nexpression testing. The Python-based implementation efficiently deals with\ndatasets of more than one million cells.\n\nDiscuss usage on the scverse [Discourse][]. Read the [documentation][].\nIf you'd like to contribute by opening an issue or creating a pull request, please take a look at our [contribution guide][].\n\n[anndata]: https://anndata.readthedocs.io\n[discourse]: https://discourse.scverse.org/\n[documentation]: https://scanpy.readthedocs.io\n\n[//]: # (numfocus-fiscal-sponsor-attribution)\n\nscanpy 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/).\nIf you like scverse and want to support our mission, please consider making a [donation](https://numfocus.org/donate-to-scverse) to support our efforts.\n\n<div align=\"center\">\n<a href=\"https://numfocus.org/project/scverse\">\n <img\n src=\"https://raw.githubusercontent.com/numfocus/templates/master/images/numfocus-logo.png\"\n width=\"200\"\n >\n</a>\n</div>\n\n\n## Citation\n\nIf you use `scanpy` in your work, please cite the `scanpy` publication as follows:\n\n> **SCANPY: large-scale single-cell gene expression data analysis**\n>\n> F. Alexander Wolf, Philipp Angerer, Fabian J. Theis\n>\n> _Genome Biology_ 2018 Feb 06. doi: [10.1186/s13059-017-1382-0](https://doi.org/10.1186/s13059-017-1382-0).\n\nYou can cite the scverse publication as follows:\n\n> **The scverse project provides a computational ecosystem for single-cell omics data analysis**\n>\n> Isaac Virshup, Danila Bredikhin, Lukas Heumos, Giovanni Palla, Gregor Sturm, Adam Gayoso, Ilia Kats, Mikaela Koutrouli, Scverse Community, Bonnie Berger, Dana Pe\u2019er, Aviv Regev, Sarah A. Teichmann, Francesca Finotello, F. Alexander Wolf, Nir Yosef, Oliver Stegle & Fabian J. Theis\n>\n> _Nat Biotechnol._ 2023 Apr 10. doi: [10.1038/s41587-023-01733-8](https://doi.org/10.1038/s41587-023-01733-8).\n\n\n[contribution guide]: CONTRIBUTING.md\n",
"bugtrack_url": null,
"license": null,
"summary": "Single-Cell Analysis in Python.",
"version": "1.10.1",
"project_urls": {
"Discourse": "https://discourse.scverse.org/c/help/scanpy/37",
"Documentation": "https://scanpy.readthedocs.io/",
"Home-page": "https://scanpy.org",
"Source": "https://github.com/scverse/scanpy",
"Twitter": "https://twitter.com/scverse_team"
},
"split_keywords": [],
"urls": [
{
"comment_text": "",
"digests": {
"blake2b_256": "2728816010697b1b529793b3b3cc992e630596b8e93c34d635a138f76174504f",
"md5": "04e6d6c0c9717cb78cdeaaa799abcb4a",
"sha256": "399c6a0fc9c8b85500cfab87f79daf8684782a6bb5303eb680c0ac99da14e4d8"
},
"downloads": -1,
"filename": "scanpy-1.10.1-py3-none-any.whl",
"has_sig": false,
"md5_digest": "04e6d6c0c9717cb78cdeaaa799abcb4a",
"packagetype": "bdist_wheel",
"python_version": "py3",
"requires_python": ">=3.9",
"size": 2079202,
"upload_time": "2024-04-09T09:54:34",
"upload_time_iso_8601": "2024-04-09T09:54:34.862635Z",
"url": "https://files.pythonhosted.org/packages/27/28/816010697b1b529793b3b3cc992e630596b8e93c34d635a138f76174504f/scanpy-1.10.1-py3-none-any.whl",
"yanked": false,
"yanked_reason": null
},
{
"comment_text": "",
"digests": {
"blake2b_256": "024ba0ce822d6071ada47872c91f54d2778ba80c1c03f5b3241bb96780b70c24",
"md5": "87ef6e3a1de84d9594668ddd52919ef9",
"sha256": "4a9194d94985dee41d914fc9438f0b502dfacf54796d0501e06a5978d709c7f6"
},
"downloads": -1,
"filename": "scanpy-1.10.1.tar.gz",
"has_sig": false,
"md5_digest": "87ef6e3a1de84d9594668ddd52919ef9",
"packagetype": "sdist",
"python_version": "source",
"requires_python": ">=3.9",
"size": 4631179,
"upload_time": "2024-04-09T09:54:37",
"upload_time_iso_8601": "2024-04-09T09:54:37.360919Z",
"url": "https://files.pythonhosted.org/packages/02/4b/a0ce822d6071ada47872c91f54d2778ba80c1c03f5b3241bb96780b70c24/scanpy-1.10.1.tar.gz",
"yanked": false,
"yanked_reason": null
}
],
"upload_time": "2024-04-09 09:54:37",
"github": true,
"gitlab": false,
"bitbucket": false,
"codeberg": false,
"github_user": "scverse",
"github_project": "scanpy",
"travis_ci": false,
"coveralls": false,
"github_actions": true,
"lcname": "scanpy"
}
