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actions-user committed Aug 27, 2024
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10 changes: 5 additions & 5 deletions data/cleaned_napari_plugins.csv
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Expand Up @@ -1762,7 +1762,7 @@ If you find this package useful, and use it in your research, please cite the fo
[let us know](https://brainglobe.info/contact.html), and
we'd be happy to promote your paper/talk etc.**
",text/markdown,,,"""Adam Tyson, Christian Niedworok, Charly Rousseau"" <[email protected]>",BSD-3-Clause,"['Development Status :: 4 - Beta', 'Framework :: napari', 'Intended Audience :: Developers', 'Intended Audience :: Science/Research', 'Operating System :: OS Independent', 'Programming Language :: Python', 'Programming Language :: Python :: 3', 'Programming Language :: Python :: 3.10', 'Programming Language :: Python :: 3.11', 'Programming Language :: Python :: 3.12', 'Topic :: Scientific/Engineering :: Image Recognition']","['brainglobe-utils>=0.5.0', 'brainglobe-napari-io>=0.3.4', 'dask[array]', 'fancylog>=0.0.7', 'natsort', 'numba', 'numpy<2', 'scikit-image', 'scikit-learn', 'keras>=3.0.0', 'torch>=2.1.0', 'tifffile', 'tqdm', 'black; extra == ""dev""', 'pre-commit; extra == ""dev""', 'pyinstrument; extra == ""dev""', 'pytest-cov; extra == ""dev""', 'pytest-mock; extra == ""dev""', 'pytest-qt; extra == ""dev""', 'pytest-timeout; extra == ""dev""', 'pytest; extra == ""dev""', 'tox; extra == ""dev""', 'brainglobe-napari-io; extra == ""napari""', 'magicgui; extra == ""napari""', 'napari-ndtiffs; extra == ""napari""', 'napari-plugin-engine>=0.1.4; extra == ""napari""', 'napari[pyqt5]; extra == ""napari""', 'pooch>=1; extra == ""napari""', 'qtpy; extra == ""napari""']",>=3.10,"['Homepage, https://brainglobe.info/documentation/cellfinder/index.html', 'Source Code, https://github.com/brainglobe/cellfinder', 'Bug Tracker, https://github.com/brainglobe/cellfinder/issues', 'Documentation, https://brainglobe.info/documentation/cellfinder/index.html', 'User Support, https://forum.image.sc/tag/brainglobe']","['dev', 'napari']",False,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,cellfinder.napari.training_widget,Create Train network,cellfinder.napari.train:training_widget,cellfinder.napari.CurationWidget,Create Curation,cellfinder.napari.curation:CurationWidget,cellfinder.napari.SampleData,Sample data,cellfinder.napari.sample_data:load_sample,cellfinder.napari.detect_widget,Cell detection,False,cellfinder.napari.training_widget,Train network,False,cellfinder.napari.CurationWidget,Curation,False,,,,,,,,,,,,,,cellfinder.napari.SampleData,sample,Sample data,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
20,cellpose-napari,0.1.5,cellpose-napari,a generalist algorithm for anatomical segmentation,Carsen Stringer,BSD-3,https://github.com/Mouseland/cellpose-napari,620a3096414b5ba20e173296,['conda'],,https://github.com/Mouseland/cellpose-napari,True,,,conda-forge,conda-forge,,"A community-led collection of recipes, build infrastructure, and distributions for the conda package manager.",2015-04-11 10:15:08.727000+00:00,org,conda-forge/cellpose-napari,http://api.anaconda.org/packages/conda-forge/cellpose-napari,http://anaconda.org/conda-forge/cellpose-napari,"['0.1.4', '0.1.5']",0.1.5,0.1.5,['noarch'],4.0,,['pyhd8ed1ab_0'],0.1.4,conda-forge/cellpose-napari/0.1.4,1.0,0.0,2022-02-14 10:36:04.400000+00:00,2023-06-18 08:40:51.521000+00:00,conda,noarch/cellpose-napari-0.1.4-pyhd8ed1ab_0.tar.bz2,0.0,BSD-3-Clause,False,python,"['cellpose >0.6.3', 'imagecodecs', 'napari', 'napari-plugin-engine >=0.1.4', 'python >=3.6']",noarch,1644834700267.0,None-any-None,pyhd8ed1ab_0,2022-02-14 10:36:04.855000+00:00,10188b526544942ce15915713544f503,None,14365.0,conda-forge/cellpose-napari/0.1.4/noarch/cellpose-napari-0.1.4-pyhd8ed1ab_0.tar.bz2,//api.anaconda.org/download/conda-forge/cellpose-napari/0.1.4/noarch/cellpose-napari-0.1.4-pyhd8ed1ab_0.tar.bz2,conda,0.1.4,conda-forge,['main'],public,,0.1.0,cellpose-napari.widget_wrapper,Create cellpose,cellpose_napari._dock_widget:widget_wrapper,,,,2.1,cellpose-napari,0.1.5,,a generalist algorithm for anatomical segmentation,"# cellpose-napari <img src=""docs/_static/favicon.ico"" width=""50"" title=""cellpose"" alt=""cellpose"" align=""right"" vspace = ""50"">
20,cellpose-napari,0.2.0,cellpose-napari,a generalist algorithm for anatomical segmentation,Carsen Stringer,BSD-3,https://github.com/Mouseland/cellpose-napari,620a3096414b5ba20e173296,['conda'],,https://github.com/Mouseland/cellpose-napari,True,,,conda-forge,conda-forge,,"A community-led collection of recipes, build infrastructure, and distributions for the conda package manager.",2015-04-11 10:15:08.727000+00:00,org,conda-forge/cellpose-napari,http://api.anaconda.org/packages/conda-forge/cellpose-napari,http://anaconda.org/conda-forge/cellpose-napari,"['0.1.4', '0.1.5']",0.1.5,0.1.5,['noarch'],4.0,,['pyhd8ed1ab_0'],0.1.4,conda-forge/cellpose-napari/0.1.4,1.0,0.0,2022-02-14 10:36:04.400000+00:00,2023-06-18 08:40:51.521000+00:00,conda,noarch/cellpose-napari-0.1.4-pyhd8ed1ab_0.tar.bz2,0.0,BSD-3-Clause,False,python,"['cellpose >0.6.3', 'imagecodecs', 'napari', 'napari-plugin-engine >=0.1.4', 'python >=3.6']",noarch,1644834700267.0,None-any-None,pyhd8ed1ab_0,2022-02-14 10:36:04.855000+00:00,10188b526544942ce15915713544f503,None,14365.0,conda-forge/cellpose-napari/0.1.4/noarch/cellpose-napari-0.1.4-pyhd8ed1ab_0.tar.bz2,//api.anaconda.org/download/conda-forge/cellpose-napari/0.1.4/noarch/cellpose-napari-0.1.4-pyhd8ed1ab_0.tar.bz2,conda,0.1.4,conda-forge,['main'],public,,0.1.0,cellpose-napari.widget_wrapper,Create cellpose,cellpose_napari._dock_widget:widget_wrapper,,,,2.1,cellpose-napari,0.2.0,,a generalist algorithm for anatomical segmentation,"# cellpose-napari <img src=""docs/_static/favicon.ico"" width=""50"" title=""cellpose"" alt=""cellpose"" align=""right"" vspace = ""50"">

[![Documentation Status](https://readthedocs.org/projects/cellpose-napari/badge/?version=latest)](https://cellpose-napari.readthedocs.io/en/latest/?badge=latest)
[![tests](https://github.com/mouseland/cellpose-napari/workflows/tests/badge.svg)](https://github.com/mouseland/cellpose-napari/actions)
Expand Down Expand Up @@ -1818,8 +1818,8 @@ If install fails in your base environment, create a new environment:
1. Download the [`environment.yml`](https://github.com/MouseLand/cellpose-napari/blob/master/environment.yml?raw=true) file from the repository. You can do this by cloning the repository, or copy-pasting the text from the file into a text document on your local computer.
2. Open an anaconda prompt / command prompt with `conda` for **python 3** in the path
3. Change directories to where the `environment.yml` is and run `conda env create -f environment.yml`
4. To activate this new environment, run `conda activate cellpose-napari`
5. You should see `(cellpose-napari)` on the left side of the terminal line.
4. To activate this new environment, run `conda activate cellpose_napari`
5. You should see `(cellpose_napari)` on the left side of the terminal line.

If you have **issues** with cellpose installation, see the [cellpose docs](https://cellpose.readthedocs.io/en/latest/installation.html) for more details, and then if the suggestions fail, open an issue.

Expand Down Expand Up @@ -1901,7 +1901,7 @@ cellpose relies on the following excellent packages (which are automatically ins
[@napari]: https://github.com/napari
[BSD-3]: http://opensource.org/licenses/BSD-3-Clause
[cookiecutter-napari-plugin]: https://github.com/napari/cookiecutter-napari-plugin
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",text/markdown,https://github.com/Mouseland/cellpose-napari,Carsen Stringer,[email protected],BSD-3,"['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', 'Framework :: napari']","['napari', 'napari-plugin-engine>=0.1.4', 'cellpose>0.6.3', 'imagecodecs', 'sphinx>=3.0; extra == ""docs""', 'sphinxcontrib-apidoc; extra == ""docs""', 'sphinx-rtd-theme; extra == ""docs""', 'sphinx-prompt; extra == ""docs""', 'sphinx-autodoc-typehints; extra == ""docs""', 'tox; extra == ""testing""', 'pytest; extra == ""testing""', 'pytest-cov; extra == ""testing""', 'pytest-qt; extra == ""testing""', 'napari; extra == ""testing""', 'pyqt5; extra == ""testing""']",>=3.7,,"['docs', 'testing']",False,0.1.5,conda-forge/cellpose-napari/0.1.5,,,,,conda,noarch/cellpose-napari-0.1.5-pyhd8ed1ab_0.tar.bz2,0.0,BSD-3-Clause,False,python,"['cellpose >0.6.3', 'imagecodecs', 'napari', 'napari-plugin-engine >=0.1.4', 'python >=3.6']",pyhd8ed1ab_0,1654699306505.0,None-any-None,noarch,2022-06-08 14:45:59.175000+00:00,e4f601d8f089a541cb91e735b3c84c4e,None,14703.0,conda-forge/cellpose-napari/0.1.5/noarch/cellpose-napari-0.1.5-pyhd8ed1ab_0.tar.bz2,//api.anaconda.org/download/conda-forge/cellpose-napari/0.1.5/noarch/cellpose-napari-0.1.5-pyhd8ed1ab_0.tar.bz2,conda,0.1.5,conda-forge,['main'],,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,cellpose-napari.data.rgb_3D,Generate RGB 3D sample,cellpose_napari._sample_data:rgb_3D.tif,cellpose-napari.data.rgb_2D,Generate RGB 2D sample,cellpose_napari._sample_data:rgb_2D.png,,,,cellpose-napari.widget_wrapper,cellpose,False,,,,,,,,,,,,,,,,,,,,cellpose-napari.data.rgb_3D,rgb_3D,Cells (3D+2Ch),,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,cellpose-napari.data.rgb_2D,rgb_2D,Cells 2D,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
21,cryaleconcho,0.0.7,cryaleconcho,Napari plugin of algorithms for Panoptic Segmentation of organelles in EM,Ryan Conrad,BSD-3-Clause,https://github.com/volume-em/empanada-napari,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,public,,0.1.0,cryaleconcho.test_widget,Create 2D Inference (Parameter Testing),empanada_napari._slice_inference:test_widget,,,,2.1,cryaleconcho,0.0.7,,Napari plugin of algorithms for Panoptic Segmentation of organelles in EM,"# empanada-napari

**The preprint describing this work is now available [on bioRxiv](https://www.biorxiv.org/content/10.1101/2022.03.17.484806v1).**
Expand Down Expand Up @@ -34455,7 +34455,7 @@ If you encounter any problems, please [file an issue] along with a detailed desc
[pip]: https://pypi.org/project/pip/
[PyPI]: https://pypi.org/
",text/markdown,,Christian Schulze,[email protected],BSD-3-Clause,"['Development Status :: 2 - Pre-Alpha', 'Framework :: napari', 'Intended Audience :: Developers', 'License :: OSI Approved :: BSD 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', 'Topic :: Scientific/Engineering :: Visualization']","['numpy', 'pandas', 'magicgui', 'qtpy', 'scikit-image', 'pyclesperanto', 'tensorflow', 'stardist', ""tox ; extra == 'testing'"", ""napari ; extra == 'testing'"", ""pyqt5 ; extra == 'testing'""]",>=3.8,"['Bug Tracker, https://github.com/drchrisch/napari-spofi/issues', 'Documentation, https://github.com/drchrisch/napari-spofi#README.md', 'Source Code, https://github.com/drchrisch/napari-spofi', 'User Support, https://github.com/drchrisch/napari-spofi/issues']",['testing'],False,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"['Annotation', 'Segmentation', 'Visualization']",,,,,,,,,,napari-spofi.widget,spot finder,False,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
338,napari-spotiflow,0.3.0,napari-spotiflow,Napari plugin for Spotiflow,"Albert Dominguez Mantes, Martin Weigert",BSD 3-Clause License,https://github.com/weigertlab/napari-spotiflow,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,public,,0.2.0,napari-spotiflow.reader,open csv data with napari-spotiflow,napari_spotiflow._io_hooks:napari_get_reader,napari-spotiflow.reader,['*.csv'],False,2.1,napari-spotiflow,0.3.0,,Napari plugin for Spotiflow,"[![License: BSD-3](https://img.shields.io/badge/License-BSD3-blue.svg)](https://www.gnu.org/licenses/bsd3)
338,napari-spotiflow,0.3.1,napari-spotiflow,Napari plugin for Spotiflow,"Albert Dominguez Mantes, Martin Weigert",BSD 3-Clause License,https://github.com/weigertlab/napari-spotiflow,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,public,,0.2.0,napari-spotiflow.reader,open csv data with napari-spotiflow,napari_spotiflow._io_hooks:napari_get_reader,napari-spotiflow.reader,['*.csv'],False,2.1,napari-spotiflow,0.3.1,,Napari plugin for Spotiflow,"[![License: BSD-3](https://img.shields.io/badge/License-BSD3-blue.svg)](https://www.gnu.org/licenses/bsd3)
[![PyPI](https://img.shields.io/pypi/v/napari-spotiflow.svg?color=green)](https://pypi.org/project/napari-spotiflow)
[![Python Version](https://img.shields.io/pypi/pyversions/napari-spotiflow.svg?color=green)](https://python.org)
[![tests](https://github.com/weigertlab/napari-spotiflow/workflows/tests/badge.svg)](https://github.com/weigertlab/napari-spotiflow/actions)
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