napari-yapic-prediction

A napari widget plugin to perform YAPiC model segmentation prediction in the napari window.

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

Description¶

This napari plugin provides a widget to upload a YAPiC trained model and perform segmentation over all the present images in the napari window. The segmentation results are uploaded as napari layers into the viewer automatically with the name structure of imgename_prediction.

Installation¶

1. Please install either GPU or CPU version of tensorflow that is compatible with your cuda and cudnn libraries before installing the plugin depending on your system. One of the plugin dependency is yapic that currently has sensitivity to tensorflow versions.

2. You can install napari-yapic-prediction via pip:

   pip install napari-yapic-prediction

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 GNU GPL v3.0 license, "napari-yapic-prediction" is free and open source software

Issues¶

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