Image segmentation with PyTorch and MONAI

Introduction

This tutorial/lab is designed to introduce you to the concepts of medical image segmentation and the U-Net architecture. You will also get hands-on experience with training a U-Net model using PyTorch and MONAI.

Tutorial structure

The tutorial is divided into three parts:

1. Part 1: Introduction to Segmentation and U-Net: Segmentation and UNET

2. Part 2: Visualizing attention maps: Attention Maps

3. Part 3: Training a U-Net model with MONAI: MONAI

The lab requires you to code some part in python files, you can use the VSCode IDE on JupyterHub to do so more conveniently.