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iacs-ipac-reader.json
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iacs-ipac-reader.json
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{
"name": "iacs-ipac-reader",
"display_name": "iacs-ipac-reader",
"visibility": "public",
"icon": "",
"categories": [],
"schema_version": "0.2.1",
"on_activate": null,
"on_deactivate": null,
"contributions": {
"commands": [
{
"id": "iacs-ipac-reader.iacs_ipac_reader",
"title": "iacs_ipac_reader",
"python_name": "iacs_ipac_reader._dock_widget:iacs_ipac_reader",
"short_title": null,
"category": null,
"icon": null,
"enablement": null
}
],
"readers": null,
"writers": null,
"widgets": [
{
"command": "iacs-ipac-reader.iacs_ipac_reader",
"display_name": "iacs_ipac_reader",
"autogenerate": false
}
],
"sample_data": null,
"themes": null,
"menus": {},
"submenus": null,
"keybindings": null,
"configuration": []
},
"package_metadata": {
"metadata_version": "2.1",
"name": "iacs-ipac-reader",
"version": "0.0.13",
"dynamic": null,
"platform": [
"UNKNOWN"
],
"supported_platform": null,
"summary": "A reader plugin for read iacs/ipac images and export .rtdc files.",
"description": "# iacs_ipac_reader\n\n[](https://github.com/zcqwh/iacs_ipac_reader/raw/main/LICENSE)\n[](https://pypi.org/project/iacs_ipac_reader)\n[](https://python.org)\n[](https://github.com/zcqwh/iacs_ipac_reader/actions)\n[](https://codecov.io/gh/zcqwh/iacs_ipac_reader)\n[](https://napari-hub.org/plugins/iacs_ipac_reader)\n\nA plugin used a convolutional neural network (CNN) to distinguish single platelets, platelet clusters, and white blood cells and performed classical image analysis for each subpopulation individually. Based on the derived single-cell features for each population, a Random Forest (RF) model was trained and used to classify COVID-19 associated thrombosis and non-COVID-19 associated thrombosis.\n\nMore information about IACS/iPAC. \n__IACS__: DOI: [10.1016/j.cell.2018.08.028](https://www.sciencedirect.com/science/article/pii/S0092867418310444) \n__iPAC__: DOI: [10.7554/eLife.52938](https://elifesciences.org/articles/52938)\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\n## Installation\n\nYou can install `iacs_ipac_reader` via [pip]:\n\n pip install iacs_ipac_reader\n\n\n\nTo install latest development version :\n\n pip install git+https://github.com/zcqwh/iacs_ipac_reader.git\n\n\n## Introduction\n\nThe iacs-ipac-reader plugin mainly include 3 functional tabs:\n\n* iPAC\n* IACS\n* AID classif.\n\n\n\n### iPAC image contour tracker\n<center>Interface of iPAC contour tracker</center> \n\n![ipac.](https://github.com/zcqwh/iacs_ipac_reader/blob/main/Tutorial/pictures/ipac.png?raw=true \"iPAC\")\n\n### IACS image contour tracker\n<center>Interface of IACS contour tracker</center> \n\n![iacs.](https://github.com/zcqwh/iacs_ipac_reader/blob/main/Tutorial/pictures/iacs.png?raw=true \"IACS\")\n\n### AID classif.\n<center>Interface of AID classif.</center> \n \n![AID_classif.](https://github.com/zcqwh/iacs_ipac_reader/blob/main/Tutorial/pictures/classifier.jpg?raw=true \"AID classif\")\n\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\"iacs_ipac_reader\" 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/zcqwh/iacs_ipac_reader/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\n",
"description_content_type": "text/markdown",
"keywords": null,
"home_page": "https://github.com/zcqwh/iacs_ipac_reader",
"download_url": null,
"author": "Chenqi Zhang",
"author_email": "[email protected]",
"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 :: 3.7",
"Programming Language :: Python :: 3.8",
"Programming Language :: Python :: 3.9",
"Operating System :: OS Independent",
"License :: OSI Approved :: BSD License"
],
"requires_dist": [
"h5py (>=3.5.0)",
"napari (>=0.4.12)",
"napari-plugin-engine (>=0.2.0)",
"numpy (>=1.21.4)",
"opencv-contrib-python-headless (>=4.4.0.46)",
"openpyxl (>=3.0.9)",
"sklearn (>=0.0)",
"PyQt5 (==5.12.3)",
"pandas (>=1.4.0)"
],
"requires_python": ">=3.7",
"requires_external": null,
"project_url": [
"Bug Tracker, https://github.com/zcqwh/iacs_ipac_reader/issues",
"Documentation, https://github.com/zcqwh/iacs_ipac_reader#README.md",
"Source Code, https://github.com/zcqwh/iacs_ipac_reader",
"User Support, https://github.com/zcqwh/iacs_ipac_reader/issues"
],
"provides_extra": null,
"provides_dist": null,
"obsoletes_dist": null
},
"npe1_shim": true
}