The goal of this repo is to document how to train and use a 2D UNet for 2-class segmentation on microscopy images using MONAI. Adaptation of the default SEM segmentation model used in axondeepseg, for which the config can be found here.
The SEM dataset used for training is located here: https://github.com/axondeepseg/data_axondeepseg_sem.git