SeedSeg Segmentation

A simple plugin for 2D medical image segmentation. In this project, we are trying to use Flood method for segmentation. Flood segmentation, also known as flood fill or region growing, is an image segmentation technique that starts from a seed point and expands to neighboring pixels with similar properties (e.g., intensity, color). In our project, you only can segment one label at the time. Below is a description of the repository's structure and the purpose of each file:

.
├── setup.cfg              # package metadata
├── pyproject.toml         # use setuptools
├── src/napari_seedseg     
│   ├── napari.yaml        # Load and stress tests
│   ├── __init.py__        # Python package metadata files
│   ├── _widget.py         # Widget contributions
│   ├── _layers.py         # Layers contributions
│   └── _method.py         # Methods contributions
└── ...

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

Installation¶

You can install napari-seedseg via pip:

pip install napari-seedseg

To install latest development version :

pip install git+https://github.com/rezaakb/napari-seedseg.git

Packages¶

In this project we have used these packages:

numpy
magicgui
qtpy
opencv-python-headless
scikit-image>=0.19.3

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-seedseg" is free and open source software

Issues¶

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