Slicer 3 Tutorial The SPL Abdominal Atlas

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Slicer 3 TutorialThe SPL Abdominal Atlas
Ion-Florin Talos, M.D.
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Acknowledgments
NIH P41RR013218 (Neuroimage Analysis Center)?
NIH U54EB005149 (NA-MIC)?
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Disclaimer
It is the responsibility of the user of
3DSlicer to comply with both the terms of the
license and with the applicable laws,
regulations and rules.
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Material

• Slicer 3
• http//www.slicer.org/pages/SpecialSlicer_Downloa
  ds/Release
• Atlas data set
• http//wiki.na-mic.org/Wiki/index.php/SlicerWorks
  hopsUser_Training_101
• CT
• Labels
• 3D-models

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Learning Objectives

• Loading the atlas data
• Creating and displaying customized 3D-views of
  anatomy

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Prerequisites

• Slicer Training
• Slicer 3 Training 1 Loading and Viewing Data

http//www.na-mic.org/Wiki/index.php/SlicerWorksh
opsUser_Training_101
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Overview

• Part 1 Loading the Abdominal Atlas Data
• Part 2 Creating and Displaying Customized 3D
  anatomical Views

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Loading the Abdominal Atlas Data

• Slicer can load
• Anatomic grayscale data (CT, MRI)
  .
• Label maps
• 3D-Models
• MRML Scenes .

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Loading the Atlas Data
Select File -gt Load Scene
In the pop-up window, select the file named
Abdominal_Atlas2008.mrml, then click Open
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Loading the Atlas Data
3D-models
CT with overlaid label maps
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Overview

• Part 1 Loading the Brain Atlas Data
• Part 2 Creating and displaying customized 3D
  anatomical views

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Creating customized 3D-Views
By taking advantage of the ability to selectively
display 3D-models, customized 3D-views of anatomy
can be created
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Customized 3D-Views
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Creating customized 3D-Views (1)?
Select the Models module
Select the Display tab
From the pull-down menu, select the models of
interest, then click the checkbox, in order to
make them visible in the 3D-view to remove
models from the 3D-view, uncheck the box
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Creating customized 3D-Views (2)?
Select the Data module
Click Create Scene Snapshot when prompted,
select a name for your customized 3D-view (e.g.
Portal Circulation)?
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Creating customized 3D-Views (3)?
To switch between different customized 3D-views
select the view you wish to display from the
pull-down menu, then click Restore