{"name":"napari-morphodynamics","display_name":"napari-morphodynamics","visibility":"public","icon":"","categories":[],"schema_version":"0.2.0","on_activate":null,"on_deactivate":null,"contributions":{"commands":[{"id":"napari-morphodynamics.make_qwidget","title":"Make MorphoWidget","python_name":"napari_morphodynamics.napari_gui:MorphoWidget","short_title":null,"category":null,"icon":null,"enablement":null}],"readers":null,"writers":null,"widgets":[{"command":"napari-morphodynamics.make_qwidget","display_name":"MorphoWidget","autogenerate":false}],"sample_data":null,"themes":null,"menus":{},"submenus":null,"keybindings":null,"configuration":[]},"package_metadata":{"metadata_version":"2.1","name":"napari-morphodynamics","version":"0.1.2","dynamic":null,"platform":null,"supported_platform":null,"summary":"Interface to run the morphodynamics package.","description":"# napari-morphodynamics\n\n[![License](https://img.shields.io/pypi/l/napari-morphodynamics.svg?color=green)](https://github.com/guiwitz/napari-morphodynamics/raw/main/LICENSE)\n[![PyPI](https://img.shields.io/pypi/v/napari-morphodynamics.svg?color=green)](https://pypi.org/project/napari-morphodynamics)\n[![Python Version](https://img.shields.io/pypi/pyversions/napari-morphodynamics.svg?color=green)](https://python.org)\n[![tests](https://github.com/guiwitz/napari-morphodynamics/workflows/tests/badge.svg)](https://github.com/guiwitz/napari-morphodynamics/actions)\n[![codecov](https://codecov.io/gh/guiwitz/napari-morphodynamics/branch/main/graph/badge.svg)](https://codecov.io/gh/guiwitz/napari-morphodynamics)\n[![napari hub](https://img.shields.io/endpoint?url=https://api.napari-hub.org/shields/napari-morphodynamics)](https://napari-hub.org/plugins/napari-morphodynamics)\n\nThis plugin offers an interface for the [Morphodynamics](https://github.com/guiwitz/MorphoDynamics) package which allows to study the shape and intra-cellular dynamics of cells imaged as time-lapses by fluorescence microscopy. The plugin offers a single place to perfrom segmentation, windowing (partition cells into small regions of interests that are tracked over time) and results visualization. The software depends on [napari-convpaint](https://github.com/guiwitz/napari-convpaint) a pixel-classifier and/or on [cellpose](https://cellpose.readthedocs.io/en/latest/index.html) for segmentation. \n\n## Installation\n\nYou can install the plugin via [pip] with:\n\n    pip install napari-morphodynamics\n\nTo install latest development version :\n\n    pip install git+https://github.com/guiwitz/napari-morphodynamics.git\n\n\n## Contributing\n\nContributions are very welcome. Tests can be run with [tox], please ensure\nthe coverage at least stays the same before you submit a pull request.\n\n## License\n\nDistributed under the terms of the [BSD-3] license,\n\"napari-morphodynamics\" is free and open source software\n\n## Authors\n\nThis plugin has been developed by Guillaume Witz and Ana Stojiljkovic at the Data Science Lab, University of Bern, in collaboration with Lucien Hinderling and Olivier Pertz from the Pertz Lab, University of Bern. Development has been partially funded by a [Chan Zuckerberg Initiative grant](https://chanzuckerberg.com/science/programs-resources/imaging/napari/napari-morphodynamics-a-plugin-to-quantify-cellular-dynamics/).\n\n## Issues\n\nIf you encounter any problems, please [file an issue] along with a detailed description.\n\n[napari]: https://github.com/napari/napari\n[Cookiecutter]: https://github.com/audreyr/cookiecutter\n[@napari]: https://github.com/napari\n[MIT]: http://opensource.org/licenses/MIT\n[BSD-3]: http://opensource.org/licenses/BSD-3-Clause\n[GNU GPL v3.0]: http://www.gnu.org/licenses/gpl-3.0.txt\n[GNU LGPL v3.0]: http://www.gnu.org/licenses/lgpl-3.0.txt\n[Apache Software License 2.0]: http://www.apache.org/licenses/LICENSE-2.0\n[Mozilla Public License 2.0]: https://www.mozilla.org/media/MPL/2.0/index.txt\n[cookiecutter-napari-plugin]: https://github.com/napari/cookiecutter-napari-plugin\n\n[file an issue]: https://github.com/guiwitz/napari-morphodynamics/issues\n\n[tox]: https://tox.readthedocs.io/en/latest/\n[pip]: https://pypi.org/project/pip/\n[PyPI]: https://pypi.org/\n","description_content_type":"text/markdown","keywords":null,"home_page":"https://github.com/guiwitz/napari-morphodynamics","download_url":null,"author":"Guillaume Witz","author_email":"guillaume.witz@unibe.ch","maintainer":null,"maintainer_email":null,"license":"BSD-3-Clause","classifier":["Development Status :: 2 - Pre-Alpha","Intended Audience :: Developers","Framework :: napari","Topic :: Software Development :: Testing","Programming Language :: Python","Programming Language :: Python :: 3","Programming Language :: Python :: 3.9","Programming Language :: Python :: 3.10","Operating System :: OS Independent","License :: OSI Approved :: BSD License"],"requires_dist":["morphodynamics","napari-convpaint","napari-guitils","napari-matplotlib","cellpose ; extra == 'cellpose'"],"requires_python":">=3.9","requires_external":null,"project_url":["Bug Tracker, https://github.com/guiwitz/napari-morphodynamics/issues","Documentation, https://github.com/guiwitz/napari-morphodynamics#README.md","Source Code, https://github.com/guiwitz/napari-morphodynamics","User Support, https://github.com/guiwitz/napari-morphodynamics/issues"],"provides_extra":["cellpose"],"provides_dist":null,"obsoletes_dist":null},"npe1_shim":false}