Metadata-Version: 2.4
Name: napari-tyssue
Version: 0.1.3
Summary: A napari plugin for use with the tyssue library
Author-email: Kyle Harrington <czi@kyleharrington.com>
License: BSD-3-Clause
Project-URL: Bug Tracker, https://github.com/kephale/napari-tyssue/issues
Project-URL: Documentation, https://github.com/kephale/napari-tyssue#README.md
Project-URL: Source Code, https://github.com/kephale/napari-tyssue
Project-URL: User Support, https://github.com/kephale/napari-tyssue/issues
Classifier: Development Status :: 3 - Alpha
Classifier: Framework :: napari
Classifier: Intended Audience :: Developers
Classifier: License :: OSI Approved :: BSD License
Classifier: Operating System :: OS Independent
Classifier: Programming Language :: Python
Classifier: Programming Language :: Python :: 3
Classifier: Programming Language :: Python :: 3 :: Only
Classifier: Programming Language :: Python :: 3.10
Classifier: Programming Language :: Python :: 3.11
Classifier: Programming Language :: Python :: 3.12
Classifier: Programming Language :: Python :: 3.13
Classifier: Topic :: Scientific/Engineering :: Image Processing
Requires-Python: >=3.10
Description-Content-Type: text/markdown
License-File: LICENSE
License-File: COPYING
License-File: COPYING.MPLv2
Requires-Dist: numpy
Requires-Dist: magicgui
Requires-Dist: qtpy
Requires-Dist: tyssue
Requires-Dist: quantities
Requires-Dist: pooch
Requires-Dist: tables
Requires-Dist: imageio-ffmpeg
Requires-Dist: invagination==0.0.2
Provides-Extra: testing
Requires-Dist: tox; extra == "testing"
Requires-Dist: pytest; extra == "testing"
Requires-Dist: pytest-cov; extra == "testing"
Requires-Dist: pytest-qt; extra == "testing"
Requires-Dist: napari; extra == "testing"
Requires-Dist: pyqt5; extra == "testing"
Requires-Dist: matplotlib; extra == "testing"
Dynamic: license-file

# napari-tyssue

[![License BSD-3](https://img.shields.io/pypi/l/napari-tyssue.svg?color=green)](https://github.com/kephale/napari-tyssue/raw/main/LICENSE)
[![PyPI](https://img.shields.io/pypi/v/napari-tyssue.svg?color=green)](https://pypi.org/project/napari-tyssue)
[![Python Version](https://img.shields.io/pypi/pyversions/napari-tyssue.svg?color=green)](https://python.org)
[![tests](https://github.com/kephale/napari-tyssue/workflows/tests/badge.svg)](https://github.com/kephale/napari-tyssue/actions)
[![codecov](https://codecov.io/gh/kephale/napari-tyssue/branch/main/graph/badge.svg)](https://codecov.io/gh/kephale/napari-tyssue)
[![napari hub](https://img.shields.io/endpoint?url=https://api.napari-hub.org/shields/napari-tyssue)](https://napari-hub.org/plugins/napari-tyssue)

A napari plugin for use with the tyssue library

![napari-tyssue demo of apoptosis model](https://github.com/kephale/napari-tyssue/raw/main/assets/napari_tyssue_apoptosis.gif)


Example video of apoptosis demo simulation created based on the
apoptosis demo from
[tyssue-demo](https://github.com/DamCB/tyssue-demo).

![napari-tyssue demo of invagination model](https://github.com/kephale/napari-tyssue/raw/main/assets/napari_tyssue_invagination_3x.gif)


Example video of apoptosis demo simulation created based on work under
revision by Suzanne group at U Toulouse entitled
"Epithelio-mesenchymal transition generates an apico-basal driving
force required for tissue remodeling" [available here](https://github.com/DamCB/invagination).

----------------------------------

This [napari] plugin was generated with [Cookiecutter] using [@napari]'s [cookiecutter-napari-plugin] template.

<!--
Don't miss the full getting started guide to set up your new package:
https://github.com/napari/cookiecutter-napari-plugin#getting-started

and review the napari docs for plugin developers:
https://napari.org/stable/plugins/index.html
-->

## Installation

You are better off using conda. You will need pytables, and ideally CGAL.

You can install `napari-tyssue` via [pip]:

    pip install napari-tyssue



To install latest development version :

    pip install git+https://github.com/kephale/napari-tyssue.git


## Contributing

Contributions are very welcome. Tests can be run with [tox], please ensure
the coverage at least stays the same before you submit a pull request.

## License

Distributed under the terms of the [BSD-3] license,
"napari-tyssue" is free and open source software

## Issues

If you encounter any problems, please [file an issue] along with a detailed description.

[napari]: https://github.com/napari/napari
[Cookiecutter]: https://github.com/audreyr/cookiecutter
[@napari]: https://github.com/napari
[MIT]: http://opensource.org/licenses/MIT
[BSD-3]: http://opensource.org/licenses/BSD-3-Clause
[GNU GPL v3.0]: http://www.gnu.org/licenses/gpl-3.0.txt
[GNU LGPL v3.0]: http://www.gnu.org/licenses/lgpl-3.0.txt
[Apache Software License 2.0]: http://www.apache.org/licenses/LICENSE-2.0
[Mozilla Public License 2.0]: https://www.mozilla.org/media/MPL/2.0/index.txt
[cookiecutter-napari-plugin]: https://github.com/napari/cookiecutter-napari-plugin

[file an issue]: https://github.com/kephale/napari-tyssue/issues

[napari]: https://github.com/napari/napari
[tox]: https://tox.readthedocs.io/en/latest/
[pip]: https://pypi.org/project/pip/
[PyPI]: https://pypi.org/
