{"name":"napari-denoiseg","display_name":"DenoiSeg","visibility":"public","icon":"","categories":[],"schema_version":"0.2.0","on_activate":null,"on_deactivate":null,"contributions":{"commands":[{"id":"napari-denoiseg.make_train_widget","title":"DenoiSeg train","python_name":"napari_denoiseg._train_widget:TrainingWidgetWrapper","short_title":null,"category":null,"icon":null,"enablement":null},{"id":"napari-denoiseg.make_predict_widget","title":"DenoiSeg predict","python_name":"napari_denoiseg._predict_widget:PredictWidgetWrapper","short_title":null,"category":null,"icon":null,"enablement":null},{"id":"napari-denoiseg.make_threshold_widget","title":"DenoiSeg threshold optimizer","python_name":"napari_denoiseg._threshold_widget:ThresholdWidgetWrapper","short_title":null,"category":null,"icon":null,"enablement":null},{"id":"napari-denoiseg.make_denoiseg_demo_prediction","title":"Make DenoiSeg demo 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noise)"},{"command":"napari-denoiseg.denoiseg_data_2D_n10","key":"denoiseg_data_2D_n10","display_name":"Download 2D data (n10 noise)"},{"command":"napari-denoiseg.denoiseg_data_2D_n20","key":"denoiseg_data_2D_n20","display_name":"Download 2D data (n20 noise)"},{"command":"napari-denoiseg.denoiseg_data_3D_n10","key":"denoiseg_data_3D_n10","display_name":"Download 3D data (n10 noise)"},{"command":"napari-denoiseg.denoiseg_data_3D_n20","key":"denoiseg_data_3D_n20","display_name":"Download 3D data (n20 noise)"}],"themes":null,"menus":{},"submenus":null,"keybindings":null,"configuration":[]},"package_metadata":{"metadata_version":"2.1","name":"napari-denoiseg","version":"0.0.1rc2","dynamic":null,"platform":null,"supported_platform":null,"summary":"A napari plugin performing joint denoising and segmentation of microscopy images using DenoiSeg.","description":"# napari-denoiseg\n\n[![License](https://img.shields.io/pypi/l/napari-denoiseg.svg?color=green)](https://github.com/juglab/napari-denoiseg/raw/main/LICENSE)\n[![PyPI](https://img.shields.io/pypi/v/napari-denoiseg.svg?color=green)](https://pypi.org/project/napari-denoiseg)\n[![Python Version](https://img.shields.io/pypi/pyversions/napari-denoiseg.svg?color=green)](https://python.org)\n[![tests](https://github.com/juglab/napari-denoiseg/workflows/build/badge.svg)](https://github.com/juglab/napari-denoiseg/actions)\n[![codecov](https://codecov.io/gh/juglab/napari-denoiseg/branch/main/graph/badge.svg)](https://codecov.io/gh/juglab/napari-denoiseg)\n[![napari hub](https://img.shields.io/endpoint?url=https://api.napari-hub.org/shields/napari-denoiseg)](https://napari-hub.org/plugins/napari-denoiseg)\n\nA napari plugin performing joint denoising and segmentation of microscopy images using [DenoiSeg](https://github.com/juglab/DenoiSeg).\n\n<img src=\"https://raw.githubusercontent.com/juglab/napari-denoiseg/master/docs/images/example.png\" width=\"800\" />\n----------------------------------\n\n## Installation\n\nCheck out the [documentation](https://juglab.github.io/napari-denoiseg/installation.html) for more detailed installation \ninstructions. \n\n\n## Quick demo\n\nYou can try out a demo by loading the `DenoiSeg Demo prediction` plugin and directly clicking on `Predict`.\n\n\n<img src=\"https://raw.githubusercontent.com/juglab/napari-denoiseg/master/docs/images/prediction.gif\" width=\"800\" />\n\n\n## Documentation\n\nDocumentation is available on the [project website](https://juglab.github.io/napari-denoiseg/).\n\n\n## Contributing and feedback\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. You can also \nhelp us improve by [filing an issue] along with a detailed description or contact us\nthrough the [image.sc](https://forum.image.sc/) forum (tag @jdeschamps).\n\n\n## Cite us\n\n\nTim-Oliver Buchholz, Mangal Prakash, Alexander Krull and Florian Jug, \"[DenoiSeg: Joint Denoising and Segmentation](https://arxiv.org/abs/2005.02987)\" _arxiv_ (2020)\n\n\n## Acknowledgements\n\nThis plugin was developed thanks to the support of the Silicon Valley Community Foundation (SCVF) and the \nChan-Zuckerberg Initiative (CZI) with the napari Plugin Accelerator grant _2021-239867_.\n\n\nDistributed under the terms of the [BSD-3] license,\n\"napari-denoiseg\" is a free and open source software.\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[filing an issue]: https://github.com/juglab/napari-denoiseg/issues\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/juglab/napari_denoiseg","download_url":null,"author":"Tom Burke, Joran Deschamps","author_email":"joran.deschamps@fht.org","maintainer":null,"maintainer_email":null,"license":"BSD-3-Clause","classifier":["Framework :: napari","Development Status :: 3 - Alpha","Intended Audience :: Science/Research","Topic :: Scientific/Engineering :: Image Processing","Topic :: Scientific/Engineering :: Information Analysis","Programming Language :: Python","Programming Language :: Python :: 3","Programming Language :: Python :: 3.7","Programming Language :: Python :: 3.8","Programming Language :: Python :: 3.9","Programming Language :: Python :: 3.10","Operating System :: OS Independent","License :: OSI Approved :: BSD License"],"requires_dist":["numpy","pyqtgraph","denoiseg (>=0.3.0)","bioimageio.core","magicgui","qtpy","napari-time-slicer (>=0.4.9)","napari (<=0.4.15)","vispy (<=0.9.6)","imageio (!=2.11.0,!=2.22.1,>=2.5.0)","tensorflow ; platform_system != \"Darwin\" or platform_machine != \"arm64\"","tensorflow-macos ; platform_system == \"Darwin\" and platform_machine == \"arm64\"","tensorflow-metal ; platform_system == \"Darwin\" and platform_machine == \"arm64\"","pytest ; extra == 'testing'","pytest-cov ; extra == 'testing'","pytest-qt ; extra == 'testing'","pyqt5 ; extra == 'testing'"],"requires_python":">=3.7","requires_external":null,"project_url":["Bug Tracker, https://github.com/juglab/napari_denoiseg/issues","Documentation, https://juglab.github.io/napari-denoiseg/","Source Code, https://github.com/juglab/napari_denoiseg","User Support, https://github.com/juglab/napari_denoiseg/issues"],"provides_extra":["testing"],"provides_dist":null,"obsoletes_dist":null},"npe1_shim":false}