EM image segmentation

This repository contains a complete workflow to perform semantic and instance segmentation of electron microscopy (EM) images. The code is based on Keras and TensorFlow as backend.

To use the code please visit our documentation site.

Semantic segmentation

Instance segmentation

EM image	Ground Truth	Prediction

Citation

This repository is the base of the following work:

@Article{Franco-Barranco2021,
author={Franco-Barranco, Daniel and Mu{\~{n}}oz-Barrutia, Arrate and Arganda-Carreras, Ignacio},
title={Stable Deep Neural Network Architectures for Mitochondria Segmentation on Electron Microscopy Volumes},
journal={Neuroinformatics},
year={2021},
month={Dec},
day={02},
issn={1559-0089},
doi={10.1007/s12021-021-09556-1},
url={https://doi.org/10.1007/s12021-021-09556-1}
}