https://github.com/deep-finder/napari-deepfinder
A napari plugin for the DeepFinder library which includes display, annotation, target generation, segmentation and clustering functionalities. An orthoslice view has been added for an easier visualisation and annotation process.
https://github.com/deep-finder/napari-deepfinder
cryo-et deep-learning deepfinder napari napari-plugin python
Last synced: 6 months ago
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A napari plugin for the DeepFinder library which includes display, annotation, target generation, segmentation and clustering functionalities. An orthoslice view has been added for an easier visualisation and annotation process.
- Host: GitHub
- URL: https://github.com/deep-finder/napari-deepfinder
- Owner: deep-finder
- License: gpl-3.0
- Created: 2022-05-31T13:50:17.000Z (about 4 years ago)
- Default Branch: main
- Last Pushed: 2025-10-01T12:01:49.000Z (10 months ago)
- Last Synced: 2025-10-29T03:04:31.262Z (9 months ago)
- Topics: cryo-et, deep-learning, deepfinder, napari, napari-plugin, python
- Language: Python
- Homepage: https://deep-finder.github.io/napari-deepfinder/
- Size: 5.5 MB
- Stars: 3
- Watchers: 2
- Forks: 1
- Open Issues: 2
-
Metadata Files:
- Readme: README.md
- License: LICENSE
Awesome Lists containing this project
README
# napari-deepfinder
[](https://github.com/deep-finder/napari-deepfinder/raw/main/LICENSE)
[](https://pypi.org/project/napari-deepfinder)
[](https://python.org)
[](https://github.com/deep-finder/napari-deepfinder/actions)
[](https://codecov.io/gh/deep-finder/napari-deepfinder)
[](https://napari-hub.org/plugins/napari-deepfinder)
A napari plugin for the DeepFinder library which includes display, annotation, target generation, segmentation and clustering functionalities.
An orthoslice view has been added for an easier visualisation and annotation process.
**The documentation for users is available [here](https://deep-finder.github.io/napari-deepfinder/).**
> [!WARNING]
>
> An upstream bug in `napari` versions **≥ 0.5.0** causes the menu bar to break when closing the *Orthoslice view*.
>
> See this issue for more details: https://github.com/napari/napari/issues/7588.
>
> As a temporary workaround, you can use [napari v0.4.19](https://github.com/napari/napari/releases/tag/v0.4.19), which is not affected by this bug.
----------------------------------
This [napari] plugin was generated with [Cookiecutter] using [@napari]'s [cookiecutter-napari-plugin] template.
## Installation
You can install `napari-deepfinder` via [pip]:
pip install napari-deepfinder
To install latest development version :
pip install git+https://github.com/deep-finder/napari-deepfinder.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 [GNU GPL v3.0] license,
"napari-deepfinder" 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/deep-finder/napari-deepfinder/issues
[napari]: https://github.com/napari/napari
[tox]: https://tox.readthedocs.io/en/latest/
[pip]: https://pypi.org/project/pip/
[PyPI]: https://pypi.org/