{"name":"napari-PixSeq","display_name":"PixSeq","visibility":"public","icon":"","categories":["Annotation","Segmentation","Acquisition"],"schema_version":"0.2.0","on_activate":null,"on_deactivate":null,"contributions":{"commands":[{"id":"napari-PixSeq.make_qwidget","title":"Make a QWidget","python_name":"napari_pixseq:PixSeqWidget","short_title":null,"category":null,"icon":null,"enablement":null}],"readers":null,"writers":null,"widgets":[{"command":"napari-PixSeq.make_qwidget","display_name":"PixSeq","autogenerate":false}],"sample_data":null,"themes":null,"menus":{},"submenus":null,"keybindings":null,"configuration":[]},"package_metadata":{"metadata_version":"2.1","name":"napari-PixSeq","version":"1.0.3","dynamic":null,"platform":null,"supported_platform":null,"summary":"A Napari plugin for extracting time series traces from Single Molecule Localisation Microsocpy (SMLM) data.","description":"# napari-PixSeq\n\n[![License MIT](https://img.shields.io/pypi/l/napari-GapSeq2.svg?color=green)](https://github.com/piedrro/napari-PixSeq/blob/main/LICENSE)\n[![PyPI](https://img.shields.io/pypi/v/napari-GapSeq2.svg?color=green)](https://pypi.org/project/napari-PixSeq/)\n[![Python Version](https://img.shields.io/pypi/pyversions/napari-GapSeq2.svg?color=green)](https://python.org)\n[![napari hub](https://img.shields.io/endpoint?url=https://api.napari-hub.org/shields/napari-GapSeq2)](https://napari-hub.org/plugins/napari-PixSeq)\n\nA **Napari** plugin for extracting time series traces from single molecule FRET data.\n\nnapari-PixSeq uses **Picasso** (picassosr) as a backend and includes features for **aligning** image channels/datasets, **undrifting** images, **detecting/fitting** localisations and extracting **traces**, and supports both **ALEX** and **FRET** data. Traces can be exported in different formats for downstream analysis.\n\nnapari-PixSeq traces can be analysed with TraceAnalyser: https://github.com/piedrro/TraceAnalyser\n\nThis is still undergoing development, so some features may not work as expected.\n\nThis was built by Dr Piers Turner from the Kapanidis Lab, University of Oxford.\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/stable/plugins/index.html\n-->\n\n## Installation\n\nYou can install `napari-PixSeq` via [pip]:\n\n    pip install napari-PixSeq\n\nYou can install `napari-PixSeq` via [GitHub]:\n\n    conda create –-name napari-pixseq python==3.9\n    conda activate napari-pixseq\n    conda install -c anaconda git\n    conda update --all\n\n    pip install git+https://github.com/piedrro/napari-PixSeq.git\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 [MIT] license,\n\"napari-PixSeq\" 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/piedrro/napari-GapSeq2/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/piedrro/napari-PixSeq","download_url":null,"author":"Piers Turner","author_email":"piers.turner@physics.ox.ac.uk","maintainer":null,"maintainer_email":null,"license":"MIT","classifier":["Development Status :: 2 - Pre-Alpha","Framework :: napari","Intended Audience :: Developers","License :: OSI Approved :: MIT License","Operating System :: OS Independent","Programming Language :: Python","Programming Language :: Python :: 3","Programming Language :: Python :: 3 :: Only","Programming Language :: Python :: 3.8","Programming Language :: Python :: 3.9","Programming Language :: Python :: 3.10","Topic :: Scientific/Engineering :: Image Processing"],"requires_dist":["napari[all]","numpy","magicgui","qtpy","scipy","pyqtgraph","picassosr","pandas","matplotlib","opencv-python","tqdm","originpro","pyqt5-tools","torch","cellpose >=3.0.1","omnipose","trackpy","shapely","astropy","tox ; extra == 'testing'","pytest ; extra == 'testing'","pytest-cov ; extra == 'testing'","pytest-qt ; extra == 'testing'","napari ; extra == 'testing'","pyqt5 ; extra == 'testing'"],"requires_python":">=3.8","requires_external":null,"project_url":["Bug Tracker, https://github.com/piedrro/napari-PixSeq/issues","Documentation, https://github.com/piedrro/napari-PixSeq#README.md","Source Code, https://github.com/piedrro/napari-PixSeq","User Support, https://github.com/piedrro/napari-PixSeq/issues"],"provides_extra":["testing"],"provides_dist":null,"obsoletes_dist":null},"npe1_shim":false}