{"name":"napari-deepfinder","display_name":"Napari DeepFinder","visibility":"public","icon":"","categories":[],"schema_version":"0.2.0","on_activate":null,"on_deactivate":null,"contributions":{"commands":[{"id":"napari-deepfinder.get_reader","title":"Open data with Napari DeepFinder","python_name":"napari_deepfinder._reader:napari_get_reader","short_title":null,"category":null,"icon":null,"enablement":null},{"id":"napari-deepfinder.make_denoise_widget","title":"Make denoise widget","python_name":"napari_deepfinder._widget:denoise_widget","short_title":null,"category":null,"icon":null,"enablement":null},{"id":"napari-deepfinder.make_reorder_widget","title":"Reorder layers automatically","python_name":"napari_deepfinder._widget:reorder_widget","short_title":null,"category":null,"icon":null,"enablement":null},{"id":"napari-deepfinder.make_add_points_widget","title":"Add points to layers","python_name":"napari_deepfinder._widget:AddPointsWidget","short_title":null,"category":null,"icon":null,"enablement":null},{"id":"napari-deepfinder.write_annotations","title":"Save annotation layers (points) to xml file","python_name":"napari_deepfinder._writer:write_annotations_xml","short_title":null,"category":null,"icon":null,"enablement":null},{"id":"napari-deepfinder.write_labelmap","title":"Save labelmap layer (labels) to mrc file","python_name":"napari_deepfinder._writer:write_labelmap","short_title":null,"category":null,"icon":null,"enablement":null},{"id":"napari-deepfinder.write_tomogram","title":"Save tomogram layer (image) to mrc file","python_name":"napari_deepfinder._writer:write_tomogram","short_title":null,"category":null,"icon":null,"enablement":null},{"id":"napari-deepfinder.make_orthoview","title":"Orthoslice","python_name":"napari_deepfinder._orthoview_widget:Orthoslice","short_title":null,"category":null,"icon":null,"enablement":null},{"id":"napari-deepfinder.make_segmentation","title":"Segmentation","python_name":"napari_deepfinder._segmentation_widget:SegmentationWidget","short_title":null,"category":null,"icon":null,"enablement":null},{"id":"napari-deepfinder.make_cluster","title":"Clustering","python_name":"napari_deepfinder._cluster_widget:ClusterWidget","short_title":null,"category":null,"icon":null,"enablement":null}],"readers":[{"command":"napari-deepfinder.get_reader","filename_patterns":["*.mrc","*.map","*.rec","*.h5","*.tif","*.TIF","*.xml","*.ods","*.xls","*.xlsx"],"accepts_directories":false}],"writers":[{"command":"napari-deepfinder.write_annotations","layer_types":["points*"],"filename_extensions":[".xml"],"display_name":""},{"command":"napari-deepfinder.write_labelmap","layer_types":["labels"],"filename_extensions":[".mrc"],"display_name":""},{"command":"napari-deepfinder.write_tomogram","layer_types":["image"],"filename_extensions":[".mrc"],"display_name":""}],"widgets":[{"command":"napari-deepfinder.make_reorder_widget","display_name":"Reorder layers automatically","autogenerate":false},{"command":"napari-deepfinder.make_denoise_widget","display_name":"Denoise tomogram","autogenerate":false},{"command":"napari-deepfinder.make_add_points_widget","display_name":"Annotation","autogenerate":false},{"command":"napari-deepfinder.make_orthoview","display_name":"Orthoslice view","autogenerate":false},{"command":"napari-deepfinder.make_segmentation","display_name":"Segmentation","autogenerate":false},{"command":"napari-deepfinder.make_cluster","display_name":"Clustering","autogenerate":false}],"sample_data":null,"themes":null,"menus":{},"submenus":null,"keybindings":null,"configuration":[]},"package_metadata":{"metadata_version":"2.1","name":"napari-deepfinder","version":"0.0.1","dynamic":null,"platform":null,"supported_platform":null,"summary":"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.","description":"# napari-deepfinder\n\n[![License GNU GPL v3.0](https://img.shields.io/pypi/l/napari-deepfinder.svg?color=green)](https://github.com/deep-finder/napari-deepfinder/raw/main/LICENSE)\n[![PyPI](https://img.shields.io/pypi/v/napari-deepfinder.svg?color=green)](https://pypi.org/project/napari-deepfinder)\n[![Python Version](https://img.shields.io/pypi/pyversions/napari-deepfinder.svg?color=green)](https://python.org)\n[![tests](https://github.com/deep-finder/napari-deepfinder/workflows/tests/badge.svg)](https://github.com/deep-finder/napari-deepfinder/actions)\n[![codecov](https://codecov.io/gh/deep-finder/napari-deepfinder/branch/main/graph/badge.svg)](https://codecov.io/gh/deep-finder/napari-deepfinder)\n[![napari hub](https://img.shields.io/endpoint?url=https://api.napari-hub.org/shields/napari-deepfinder)](https://napari-hub.org/plugins/napari-deepfinder)\n\nA napari plugin for the DeepFinder library which includes display, annotation, target generation, segmentation and clustering functionalities.\nAn orthoslice view has been added for an easier visualisation and annotation process.\n\n**The documentation for users is available [here](https://deep-finder.github.io/napari-deepfinder/).**\n\n----------------------------------\n\nThis [napari] plugin was generated with [Cookiecutter] using [@napari]'s [cookiecutter-napari-plugin] template.\n\n<!--\nDon't miss the full getting started guide to set up your new package:\nhttps://github.com/napari/cookiecutter-napari-plugin#getting-started\n\nand review the napari docs for plugin developers:\nhttps://napari.org/plugins/index.html\n-->\n\n## Installation\n\nYou can install `napari-deepfinder` via [pip]:\n\n    pip install napari-deepfinder\n\n\n\nTo install latest development version :\n\n    pip install git+https://github.com/deep-finder/napari-deepfinder.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 [GNU GPL v3.0] license,\n\"napari-deepfinder\" is free and open source software\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/deep-finder/napari-deepfinder/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/deep-finder/napari-deepfinder","download_url":null,"author":"Constantin Aronssohn","author_email":"cnstt@tutanota.com","maintainer":null,"maintainer_email":null,"license":"GPL-3.0-only","classifier":["Development Status :: 3 - Alpha","Intended Audience :: Education","Intended Audience :: Science/Research","Framework :: napari","Topic :: Scientific/Engineering","Topic :: Scientific/Engineering :: Visualization","Topic :: Scientific/Engineering :: Information Analysis","Topic :: Scientific/Engineering :: Bio-Informatics","Topic :: Scientific/Engineering :: Artificial Intelligence","Topic :: Scientific/Engineering :: Image Processing","Programming Language :: Python","Programming Language :: Python :: 3","Programming Language :: Python :: 3.8","Programming Language :: Python :: 3.9","Programming Language :: Python :: 3.10","Operating System :: OS Independent","License :: OSI Approved :: GNU General Public License v3 (GPLv3)"],"requires_dist":["em-deepfinder","numpy","magicgui","qtpy","napari","scikit-image","typing","pandas","lxml","pillow","h5py","mrcfile","scipy","tox ; extra == 'testing'","pytest ; extra == 'testing'","pytest-cov ; extra == 'testing'","pytest-qt ; extra == 'testing'"],"requires_python":">=3.8","requires_external":null,"project_url":["Bug Tracker, https://github.com/deep-finder/napari-deepfinder/issues","Documentation, https://deep-finder.github.io/napari-deepfinder/","Source Code, https://github.com/deep-finder/napari-deepfinder","User Support, https://github.com/deep-finder/napari-deepfinder/issues"],"provides_extra":["testing"],"provides_dist":null,"obsoletes_dist":null},"npe1_shim":false}