Table of Contents
Scientific Visualization 101: Introduction to Image Segmentation, 3D Analysis and Rendering
Date
- November 4, 2025
- 1:30pm - 3:30pm
Venue
- Building 1, Level 2, Room 2418 (Desert Side)
Organizer
Ronell Sicat
Visualization Core Laboratory
help@vis.kaust.edu.sa
Register
Workshop Materials
- Slides: TBD
- Download datasets here.
How to Prepare?
- Review and download the workshop materials
- Bring a laptop (external mouse input recommended) with Avizo installed (only works on Windows or Linux)
- Installer and instructions available here
Overview
Visualization experts from the laboratory will introduce Avizo/Amira — an all-in-one application for visualization, segmentation, and analysis of imaging data. The workshop will start with introducing the basic usage of Avizo, e.g., installation, user interface, data loading, and basic visualizations. This will be followed by two simple real-world examples demonstrating basic workflows in Avizo from data loading, visualization, segmentation, and analysis. The goal of the workshop is to give an overview of Avizo and enable participants to start using and confidently explore its vast advanced capabilities.
Who Should Attend?
The target audience for this workshop are KAUST users who want to visualize, segment, process, and/or analyze their imaging data (image stacks), e.g., from optical microscopes, electron microscopes (TEM, SEM, Cryo-SEM/TEM, FIB, etc.), and other imaging techniques.
Agenda
| Time | Topic |
|---|---|
| ~5 min | Introduction |
| ~40 min | Avizo Basics |
| ~5 min | Coffee Break & Questions |
| ~30 min | Example 1: Porosity in Rock CT Image Stacks |
| ~5 min | Coffee Break & Questions |
| ~30 min | Example 2: Mitochondria in Brain EM Image Stacks |
| on demand | Q&A / Discussion |