{"name":"iacs-ipac-reader","display_name":"iacs-ipac-reader","visibility":"public","icon":"","categories":[],"schema_version":"0.2.0","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[![License](https://img.shields.io/pypi/l/iacs_ipac_reader.svg?color=green)](https://github.com/zcqwh/iacs_ipac_reader/raw/main/LICENSE)\n[![PyPI](https://img.shields.io/pypi/v/iacs_ipac_reader.svg?color=green)](https://pypi.org/project/iacs_ipac_reader)\n[![Python Version](https://img.shields.io/pypi/pyversions/iacs_ipac_reader.svg?color=green)](https://python.org)\n[![tests](https://github.com/zcqwh/iacs_ipac_reader/workflows/tests/badge.svg)](https://github.com/zcqwh/iacs_ipac_reader/actions)\n[![codecov](https://codecov.io/gh/zcqwh/iacs_ipac_reader/branch/main/graph/badge.svg)](https://codecov.io/gh/zcqwh/iacs_ipac_reader)\n[![napari hub](https://img.shields.io/endpoint?url=https://api.napari-hub.org/shields/iacs_ipac_reader)](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":"cqzhang@g.ecc.u-tokyo.ac.jp","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}