Metadata-Version: 2.1
Name: epicure
Version: 0.1.3
Summary: Napari plugin to manually correct epithelia segmentation in movies
Home-page: https://gitlab.pasteur.fr/gletort/epicure
Author: Gaëlle Letort
License: BSD-3-Clause
Project-URL: Bug Tracker, https://gitlab.pasteur.fr/gletort/epicure/issues
Project-URL: Documentation, https://gitlab.pasteur.fr/gletort/epicure#README.md
Project-URL: Source Code, https://gitlab.pasteur.fr/gletort/epicure
Project-URL: User Support, https://gitlab.pasteur.fr/gletort/epicure/issues
Classifier: Development Status :: 2 - Pre-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 :: 3.8
Classifier: Programming Language :: Python :: 3.9
Classifier: Programming Language :: Python :: 3.10
Classifier: Topic :: Scientific/Engineering :: Image Processing
Requires-Python: >=3.8
Description-Content-Type: text/markdown
License-File: LICENSE
Requires-Dist: napari<=0.4.19
Requires-Dist: numpy
Requires-Dist: magicgui
Requires-Dist: qtpy
Requires-Dist: scikit-image
Requires-Dist: opencv_python_headless
Requires-Dist: roifile
Requires-Dist: xlsxwriter
Requires-Dist: laptrack
Requires-Dist: matplotlib
Requires-Dist: imagecodecs
Requires-Dist: edt
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"

# EpiCure

[![License BSD-3](https://img.shields.io/pypi/l/epicure.svg?color=green)](https://gitlab.pasteur.fr/gletort/epicure/raw/main/LICENSE)
[![PyPI](https://img.shields.io/pypi/v/epicure.svg?color=green)](https://pypi.org/project/epicure)
[![Python Version](https://img.shields.io/pypi/pyversions/epicure.svg?color=green)](https://python.org)
[![napari hub](https://img.shields.io/endpoint?url=https://api.napari-hub.org/shields/epicure)](https://napari-hub.org/plugins/epicure)

Napari plugin to manually correct epithelia segmentation in movies

 > **Documentation in the [wiki](https://gitlab.pasteur.fr/gletort/epicure/-/wikis/EpiCure)**

## Installation

### Install plugin
To install EpiCure on a fresh python virtual environment, type inside the environement:
```
pip install epicure
``` 

Then launch `Napari`, and the plugin should be visible in the `Plugins` list.

If you already have an environment with `Napari` installed, you can also install it directly in `Napari>Plugins>Install/Uninstall plugins`

### Install code
To have the code to be able to modify it, clone this repository. You can use `pip install -e .` so that everytime you update the code, the plugin will be updated. 

## Usage

Refer to the [wiki](https://gitlab.pasteur.fr/gletort/epicure/-/wikis/EpiCure) for documentation of the different steps possible in the pipeline.



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

[napari]: https://github.com/napari/napari
[Cookiecutter]: https://github.com/audreyr/cookiecutter
[file an issue]: https://github.com/gletort/epicure/issues
[tox]: https://tox.readthedocs.io/en/latest/
[pip]: https://pypi.org/project/pip/
[PyPI]: https://pypi.org/
