Slicer 3 Tutorial The SPL Abdominal Atlas

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Presentation transcript:

Slicer 3 Tutorial The SPL Abdominal Atlas Ion-Florin Talos, M.D.

Acknowledgments NIH P41RR013218 (Neuroimage Analysis Center) NIH U54EB005149 (NA-MIC)

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.

Material Slicer 3 Atlas data set CT Labels 3D-models http://www.slicer.org/pages/Special:Slicer_Downloads/Release Atlas data set http://wiki.na-mic.org/Wiki/index.php/Slicer:Workshops:User_Training_101 CT Labels 3D-models

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

Prerequisites Slicer Training Slicer 3 Training 1: Loading and Viewing Data http://www.na-mic.org/Wiki/index.php/Slicer:Workshops:User_Training_101

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

Loading the Abdominal Atlas Data Slicer can load: Anatomic grayscale data (CT, MRI) …………………………………………. Label maps…………………………… 3D-Models……………………………… MRML Scenes ……………………….

Loading the Atlas Data Select “File” -> “Load Scene” In the pop-up window, select the file named Abdominal_Atlas2008.mrml, then click “Open”

Loading the Atlas Data 3D-models CT with overlaid label maps

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

Creating customized 3D-Views By taking advantage of the ability to selectively display 3D-models, customized 3D-views of anatomy can be created

Customized 3D-Views

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

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)

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”