{"name":"napari-blob-detection","display_name":"napari blob detection","visibility":"public","icon":"","categories":[],"schema_version":"0.2.0","on_activate":null,"on_deactivate":null,"contributions":{"commands":[{"id":"napari-blob-detection.detect_blobs_widget","title":"Detects blobs on images","python_name":"napari_blob_detection:detect_blobs_widget","short_title":null,"category":null,"icon":null,"enablement":null},{"id":"napari-blob-detection.points_to_labels","title":"Convert points layer to labels layer","python_name":"napari_blob_detection:points_to_labels","short_title":null,"category":null,"icon":null,"enablement":null}],"readers":null,"writers":null,"widgets":[{"command":"napari-blob-detection.detect_blobs_widget","display_name":"Detects blobs on images","autogenerate":false},{"command":"napari-blob-detection.points_to_labels","display_name":"Convert points layer to labels layer","autogenerate":true}],"sample_data":null,"themes":null,"menus":{},"submenus":null,"keybindings":null,"configuration":[]},"package_metadata":{"metadata_version":"2.1","name":"napari-blob-detection","version":"0.0.2","dynamic":null,"platform":["UNKNOWN"],"supported_platform":null,"summary":"Detects blobs in images","description":"# napari-blob-detection\n\n[![License](https://img.shields.io/pypi/l/napari-blob-detection.svg?color=green)](https://github.com/andy-sweet/napari-blob-detection/raw/main/LICENSE)\n[![PyPI](https://img.shields.io/pypi/v/napari-blob-detection.svg?color=green)](https://pypi.org/project/napari-blob-detection)\n[![Python Version](https://img.shields.io/pypi/pyversions/napari-blob-detection.svg?color=green)](https://python.org)\n[![tests](https://github.com/andy-sweet/napari-blob-detection/workflows/tests/badge.svg)](https://github.com/andy-sweet/napari-blob-detection/actions)\n[![codecov](https://codecov.io/gh/andy-sweet/napari-blob-detection/branch/main/graph/badge.svg)](https://codecov.io/gh/andy-sweet/napari-blob-detection)\n[![napari hub](https://img.shields.io/endpoint?url=https://api.napari-hub.org/shields/napari-blob-detection)](https://napari-hub.org/plugins/napari-blob-detection)\n\nDetects blobs in images\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/stable/index.html\n-->\n\nThis plugin consists of two widgets:\n\n1. Detects blobs on images\n2. Convert points layer to labels layer\n\n----------------------------------\n\n### Detects blobs on images\n\nThis widget uses [scikit-image's blob detection algorithms](https://scikit-image.org/docs/stable/auto_examples/features_detection/plot_blob.html) to detect bright blobs on dark backgrounds.\n\nParameters\n\n- method: Laplacian of Gaussian (most accurate) or Difference of Gaussian (faster approximation) \n- image: Image layer for blob detection. Can be a 2D, 3D, or higher dimensionality image.\n- dimensionality: users can specify if the image is 2D(+t) or 3D(+t).\n- min sigma: the smallest blob size to detect\n- max sigma: the largest blob size to detect\n- threshold: the lower the threshold, the more low intensity blobs are detected. \n\nOutput\n\nBlobs are represented by the Points layer.\nThe size of each blob is proportional to `Points.feature['sigma']`,\nwhich signifies the scale at which the feature point was found.\n\n### Convert points layer to labels layer\n\nThis widget takes a points layer and converts it into a labels layer, with the image dimension matching the selected image layer.\nBy converting points to labels, users can leverage feature extraction functions that are available to labels to the detected points.\n\n----------------------------------\n\n## Installation\n\nYou can install `napari-blob-detection` via [pip]:\n\n    pip install napari-blob-detection\n\n\n\nTo install latest development version :\n\n    pip install git+https://github.com/andy-sweet/napari-blob-detection.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-blob-detection\" 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/andy-sweet/napari-blob-detection/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\n\n","description_content_type":"text/markdown","keywords":null,"home_page":"https://github.com/andy-sweet/napari-blob-detection","download_url":null,"author":"Andy Sweet, Chi-Li Chiu","author_email":"andrewdsweet@gmail.com, cchiu@chanzuckerberg.com","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 :: 3.8","Programming Language :: Python :: 3.9","Operating System :: OS Independent","License :: OSI Approved :: BSD License"],"requires_dist":["napari (>=0.4.13)","numpy","scikit-image","magicgui","pytest ; extra == 'test'"],"requires_python":">=3.8","requires_external":null,"project_url":["Bug Tracker, https://github.com/andy-sweet/napari-blob-detection/issues","Documentation, https://github.com/andy-sweet/napari-blob-detection#README.md","Source Code, https://github.com/andy-sweet/napari-blob-detection","User Support, https://github.com/andy-sweet/napari-blob-detection/issues"],"provides_extra":["test"],"provides_dist":null,"obsoletes_dist":null},"npe1_shim":false}