napari tyssue

napari-tyssue

A napari plugin for use with the tyssue library


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    License BSD-3 PyPI Python Version tests codecov napari hub

    A napari plugin for use with the tyssue library

    napari-tyssue demo of apoptosis model

    Example video of apoptosis demo simulation created based on the apoptosis demo from tyssue-demo.

    napari-tyssue demo of invagination model

    Example video of apoptosis demo simulation created based on work under revision by Suzanne group at U Toulouse entitled "Epithelio-mesenchymal transition generates an apico-basal driving force required for tissue remodeling" available here.


    This napari plugin was generated with Cookiecutter using @napari's cookiecutter-napari-plugin template.

    Installation

    You are better off using conda. You will need pytables, and ideally CGAL.

    You can install napari-tyssue via pip:

    pip install napari-tyssue

    To install latest development version :

    pip install git+https://github.com/kephale/napari-tyssue.git

    Contributing

    Contributions are very welcome. Tests can be run with tox, please ensure the coverage at least stays the same before you submit a pull request.

    License

    Distributed under the terms of the BSD-3 license, "napari-tyssue" is free and open source software

    Issues

    If you encounter any problems, please file an issue along with a detailed description.

    Version:

    • 0.1.1

    Release date:

    • 10 November 2022

    First released:

    • 20 October 2022

    License:

    • BSD-3-Clause

    Supported data:

    • Information not submitted

    Plugin type:

    GitHub activity:

    • Stars: 4
    • Forks: 1
    • Issues + PRs: 3

    Python versions supported:

    Operating system:

    Requirements:

    • numpy
    • magicgui
    • qtpy
    • tyssue
    • quantities
    • pooch
    • tables
    • imageio-ffmpeg
    • invagination (==0.0.2)

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