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training:scivis:2025:introavizo [2025/09/01 12:41] – Ronell Sicattraining:scivis:2025:introavizo [2025/10/30 10:28] (current) – Ronell Sicat
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-====== Scientific Visualization 101: Avizo ~ An Introductory Hands-On Workshop ======+====== Scientific Visualization 101: Introduction to Image Segmentation, 3D Analysis and Rendering ======
  
 <WRAP group> <WRAP quarter column> <WRAP center round box 110%> {{:icon:twbs:link:w-25:h-auto:calendar3.svg?nolink&}} <tab1> <fs:26px>** Date**</fs> <WRAP group> <WRAP quarter column> <WRAP center round box 110%> {{:icon:twbs:link:w-25:h-auto:calendar3.svg?nolink&}} <tab1> <fs:26px>** Date**</fs>
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 <WRAP quarter column> <WRAP center round box 100%>{{:icon:twbs:link:w-25:h-auto:person-add.svg?nolink&}} <tab1>  <fs:26px>** Register**</fs> <WRAP quarter column> <WRAP center round box 100%>{{:icon:twbs:link:w-25:h-auto:person-add.svg?nolink&}} <tab1>  <fs:26px>** Register**</fs>
  
-<wrap em button> TBD </wrap> \\+<wrap em button> [[https://kaustforms.formstack.com/forms/avizofall2025|Register here]] </wrap> \\
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-{{  wiki:training:2025:cell-avizo.png?direct&  }}+{{  wiki:training:2025:avizo2025.png?direct&  }}
  
 <WRAP center round box download 100%> <WRAP center round box download 100%>
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   * Slides: TBD   * Slides: TBD
-  * Data: TBD+  * Download datasets [[https://download.vis.kaust.edu.sa/pub/workshops/2025/SciVis101-Segmentation/datasets.zip|here]].
  
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 ===== Overview ===== ===== Overview =====
  
-Visualization experts from the laboratory will introduce Avizo.+Visualization experts from the laboratory will introduce [[https://www.thermofisher.com/sa/en/home/electron-microscopy/products/software-em-3d-vis/avizo-software.html|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? ===== ===== Who Should Attend? =====
  
-The target audience for this workshop are KAUST users with little or no experience with Avizo.+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 ===== ===== Agenda =====
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 ^ ~40 min       | Avizo Basics                         | ^ ~40 min       | Avizo Basics                         |
 ^ ~5 min        | Coffee Break & Questions                                        | ^ ~5 min        | Coffee Break & Questions                                        |
-^ ~30 min       | Example 1                         |+^ ~30 min       | Example 1: Porosity in Rock CT Image Stacks                         |
 ^ ~5 min        | Coffee Break & Questions                                        | ^ ~5 min        | Coffee Break & Questions                                        |
-^ ~30 min       | Example 2                                   |+^ ~30 min       | Example 2: Mitochondria in Brain EM Image Stacks                                    |
 ^ on demand     | Q&A / Discussion                                                | ^ on demand     | Q&A / Discussion                                                |