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iGyne1.0 Tutorial
Xiaojun Chen, Ph.D.and iGyne Team
Surgical Planning Laboratory,Brigham and Women's Hospital,
Harvard Medical School
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Guide you step-by-step through the process of loading of applicator CAD models, performing registration, selecting virtual needle and viewing the results within Slicer4. This module features include:Loading of Applicator CAD models and MR imagesInitial registration of CAD model of the Template to MR imagesRegistration RefinementVisualization of RegistrationNeedle Selection and Display of Virtual Needles relative to Applicator CAD models and Tumor Segmentation
Learning Objective
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Prerequisites
This tutorial assumes that you have completed the course Data Loading and Visualization.
Tutorials for Slicer4 are available on the website:
http://www.slicer.org/slicerWiki/index.php/Documentation/4.1/Training
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Materials
This tutorial requires the installation of the Slicer4 software and the tutorial dataset. These materials are available at the following locations:
• Slicer4 download page
http://download.slicer.org/
• Applicator CAD models download page
https://github.com/xjchen/igyne/tree/master/scene%20for%20template%20and%20obturator
• Sample Image data download page
https://github.com/xjchen/igyne/tree/master/Sample%20data
Disclaimer: It is the responsibility of the user of Slicer to comply with both the terms of the license and with the applicable laws, regulations, and rules.
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Loading of Applicator CAD models and MR images
1.Click on Load(Scene/Template) Button
2.Choose the Template.mrml you have downloaded
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1.Click on AddVolume Button
2.Choose the Test.nrrd you have downloaded
Loading of Applicator CAD models and MR images
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Loading of Applicator CAD models and MR images
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Initial registration
1.Switch to Annotation Module
2.Click Fiducial List_fixed
3. Click 3 Fiducials of the center points of the long holes in the template on the axial images(First: Top point(shown in the picture), Second: Left point, Third:Right point)
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Initial registration
The other 2 Fiducials of the center points of the long holes in the template on the axial images(Left and Right point, point, shown in the picture)
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Initial registration
Switch to Fiducial Registration Module, then perform the initial registration
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Registration refinement
Switch to Crop Volume Module, in order to crop the template region in the image volume
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Registration refinement
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Registration refinement
1.Switch to Editor Module, in order to segment the template and obturator in the image volume
2. Use Threshold tool to segment the template holes
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Registration refinement
Use MakeModelEffect tool to build a 3D model of the template holes
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Registration refinement
Use GrowCut tool to segment the obturator in the image volume
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Registration refinement
Use MakeModelEffect tool to build a 3D model of the obturator
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Registration refinement
1.Switch to Igyne Module
2. Click CADmodel2Image button to refine the registration
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Needle selection and visualization
Click the hole label on the template sheet to show/hide the corresponding needle, and its insertion depth can also be adjusted
Surgical Planning Laboratory, Harvard Medical School