Difference between revisions of "ProstateNavigation workflow"
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==Key Investigators== | ==Key Investigators== | ||
| − | Peter Behringer | + | Peter Behringer, Andrey Fedorov, Hans Johnson |
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==Project Description== | ==Project Description== | ||
<div style="margin: 20px;"> | <div style="margin: 20px;"> | ||
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<h3>Approach, Plan</h3> | <h3>Approach, Plan</h3> | ||
* Create mockup GUI | * Create mockup GUI | ||
| − | * Try to use existing segmentation modules like [ | + | * Try to use existing segmentation modules like [https://www.slicer.org/wiki/Modules:RobustStatisticsSeg-Documentation-3.6 Robust Statistics Segmenter] or [https://www.youtube.com/watch?v=1mYNwJbE7dQ VolumeClip] for quicker prostate segmentation |
* Evaluate the segmentation results (DICE-Coefficient) by comparing to manual segmentation of trained radiologists using [http://www.spl.harvard.edu/publications/item/view/2174 this] dataset | * Evaluate the segmentation results (DICE-Coefficient) by comparing to manual segmentation of trained radiologists using [http://www.spl.harvard.edu/publications/item/view/2174 this] dataset | ||
* Evaluate pre-op to intra-op registration with General Registration (BRAINS) module in Slicer 4.4 | * Evaluate pre-op to intra-op registration with General Registration (BRAINS) module in Slicer 4.4 | ||
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* Created draft of the GUI with its necessary components | * Created draft of the GUI with its necessary components | ||
* Best solution for prostate segmentation seems to be VolumeClip Model (under 15 seconds user interaction time) | * Best solution for prostate segmentation seems to be VolumeClip Model (under 15 seconds user interaction time) | ||
| − | * Started evaluation of BSpline registration module with masks | + | * Started evaluation of BSpline registration in BRAINSFit module with masks |
| + | * [[BRAINSFit_to_simpleITK|MR prostate registration from BRAINSFit to simpleITK]] | ||
| + | * [[BRAINSFit_prostate_registration|prostate registration using BRAINSFit in Slicer 4.4]] | ||
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Latest revision as of 18:07, 10 July 2017
Home < ProstateNavigation workflow
Key Investigators
Peter Behringer, Andrey Fedorov, Hans Johnson
Project Description
Objective
- Design an easy to use GUI for ProstateNavigation (Planning, Registration, Navigation)
- Get ideas how prostate segmentation can be done quicker, fully automatic in best case
- Validate different pre-op to intra-op registration approaches
Approach, Plan
- Create mockup GUI
- Try to use existing segmentation modules like Robust Statistics Segmenter or VolumeClip for quicker prostate segmentation
- Evaluate the segmentation results (DICE-Coefficient) by comparing to manual segmentation of trained radiologists using this dataset
- Evaluate pre-op to intra-op registration with General Registration (BRAINS) module in Slicer 4.4
Progress
- Created requirements list containing the core functions of the workflow
- Created draft of the GUI with its necessary components
- Best solution for prostate segmentation seems to be VolumeClip Model (under 15 seconds user interaction time)
- Started evaluation of BSpline registration in BRAINSFit module with masks
- MR prostate registration from BRAINSFit to simpleITK
- prostate registration using BRAINSFit in Slicer 4.4
