{"name":"napari-bigfish","display_name":"BigFISH smFISH Analysis","visibility":"public","icon":"","categories":[],"schema_version":"0.2.0","on_activate":null,"on_deactivate":null,"contributions":{"commands":[{"id":"napari-bigfish.make_sample_data","title":"Load sample data from BigFISH smFISH Analysis","python_name":"napari_bigfish._sample_data:make_sample_data","short_title":null,"category":null,"icon":null,"enablement":null},{"id":"napari-bigfish.make_qwidget","title":"Make DetectFISHSpotsWidget QWidget","python_name":"napari_bigfish._widget:DetectFISHSpotsWidget","short_title":null,"category":null,"icon":null,"enablement":null}],"readers":null,"writers":null,"widgets":[{"command":"napari-bigfish.make_qwidget","display_name":"Detect FISH spots","autogenerate":false}],"sample_data":[{"command":"napari-bigfish.make_sample_data","key":"unique_id.1","display_name":"BigFISH smFISH Analysis"}],"themes":null,"menus":{},"submenus":null,"keybindings":null,"configuration":[]},"package_metadata":{"metadata_version":"2.1","name":"napari-bigfish","version":"0.4","dynamic":null,"platform":null,"supported_platform":null,"summary":"A napari-plugin providing an alternative GUI for Big-FISH. Big-FISH is a python package for the analysis of smFISH images.","description":" # napari-bigfish\n\n[![License MIT](https://img.shields.io/pypi/l/napari-bigfish.svg?color=green)](https://github.com/MontpellierRessourcesImagerie/napari-bigfish/raw/main/LICENSE)\n[![PyPI](https://img.shields.io/pypi/v/napari-bigfish.svg?color=green)](https://pypi.org/project/napari-bigfish)\n[![Python Version](https://img.shields.io/pypi/pyversions/napari-bigfish.svg?color=green)](https://python.org)\n[![tests](https://github.com/MontpellierRessourcesImagerie/napari-bigfish/workflows/tests/badge.svg)](https://github.com/MontpellierRessourcesImagerie/napari-bigfish/actions)\n[![codecov](https://codecov.io/gh/MontpellierRessourcesImagerie/napari-bigfish/branch/main/graph/badge.svg)](https://codecov.io/gh/MontpellierRessourcesImagerie/napari-bigfish)\n[![napari hub](https://img.shields.io/endpoint?url=https://api.napari-hub.org/shields/napari-bigfish)](https://napari-hub.org/plugins/napari-bigfish)\n\nA napari-plugin providing an alternative GUI for [Big-FISH](https://github.com/fish-quant/big-fish). Big-FISH is a python package for the analysis of smFISH images.\n\nThe plugin provides a graphical user interface for some of the functionality in Big-FISH. Currently implemented are:\n\n * Gaussian-background subtraction\n * FISH-spot detection with \n\t* Elimination of duplicates\n\t* Auto-detection of threshold\n* Dense-region decomposition\n\nThe plugin further implements by itself:\n\n* Counting of spots per cell, inside and outside of the nucleus\n* Batch processing on a list of images\n\n\nYou can find the user and the api-documentation of napari-bigfish [here](https://montpellierressourcesimagerie.github.io/napari-bigfish/).\n \n\n----------------------------------\n\nThis [napari] plugin was generated with [Cookiecutter] using [@napari]'s [cookiecutter-napari-plugin] template.\n\n## Installation\n\nYou can install `napari-bigfish` via [pip]:\n\n    pip install napari-bigfish\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\n## License\n\nDistributed under the terms of the [MIT] license,\n\"napari-bigfish\" is free and open source software\n\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[napari]: https://github.com/napari/napari\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/MontpellierRessourcesImagerie/napari-bigfish","download_url":null,"author":"Volker Baecker","author_email":"volker.baecker@mri.cnrs.fr","maintainer":null,"maintainer_email":null,"license":"MIT","classifier":["Development Status :: 4 - Beta","Framework :: napari","Intended Audience :: Developers","License :: OSI Approved :: MIT License","Operating System :: OS Independent","Programming Language :: Python","Programming Language :: Python :: 3","Programming Language :: Python :: 3 :: Only","Programming Language :: Python :: 3.8","Programming Language :: Python :: 3.9","Programming Language :: Python :: 3.10","Topic :: Scientific/Engineering :: Image Processing"],"requires_dist":["numpy","magicgui","qtpy","pyperclip","big-fish","tox ; extra == 'testing'","pytest ; extra == 'testing'","pytest-cov ; extra == 'testing'","pytest-qt ; extra == 'testing'","napari ; extra == 'testing'","pyqt5 ; extra == 'testing'"],"requires_python":">=3.8","requires_external":null,"project_url":["Bug Tracker, https://github.com/MontpellierRessourcesImagerie/napari-bigfish/issues","Documentation, https://montpellierressourcesimagerie.github.io/napari-bigfish/","Source Code, https://github.com/MontpellierRessourcesImagerie/napari-bigfish","User Support, https://github.com/MontpellierRessourcesImagerie/napari-bigfish/issues"],"provides_extra":["testing"],"provides_dist":null,"obsoletes_dist":null},"npe1_shim":false}