Scientific Visualization with Avizo

Overview

The KAUST Visualization Core Lab (KVL), in collaboration with Thermo Fisher, is pleased to announce three half-day workshops on introductory and advanced use of the AVIZO Visualization Suite - a multi-platform data analysis and scientific visualization tool. This workshop will be led by engineers from Thermo Fisher, the developers of the software. Attendees will participate in tutorials, hands-on sessions, and discussions with the engineers on working with AVIZO. Topics will include data visualization, quantitative analysis, image processing & segmentation, 3D reconstruction, and machine learning applications.

AVIZO is available for use at the Visualization Core Laboratory and throughout the campus through IT provided workstations and laptops.

This is event is open to all KAUST community and staff.

Who Should Attend?

If your research involves extracting 3D information from microscopy image stacks (e.g., CT, SEM, TEM, or Confocal, etc.), this workshop will help you acquire new insight into your data.

Agenda

This is a three day event with topics ranging from beginner, intermediate, and advanced.

March 12

• Software overview, general concepts and user interface
• Data visualization in 2D&3D and annotations
• Basic Data Manipulation: cropping, re-sampling, pixel type and conversion
• Image processing: denoising, filters, background correction
• Automatic Segmentation: binarization and thresholding
• Separation, classification, analysis & measurement
• Recipe and batch processing

March 13

• Segmentation editor, multi-material segmentation
• Watershed segmentation
• Surface reconstruction and simplification
• Data registration and alignment
• Animation
• A brand new Segmentation+ workroom (requires Avizo 2022.2)
• Superpixel tools
• AI-assisted segmentation tools

March 12

• Overview of Avizo extensions
• Focus on specific extensions
• Installing Python Environment for Deep Learning
• 2D & 3D Deep Learning Training module
• Deep Learning Prediction Module