Difference between revisions of "ProstateNavigation workflow"

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==Key Investigators==
 
==Key Investigators==
Peter Behringer and Andrey Fedorov
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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>Objective</h3>
 
<h3>Objective</h3>
 
* Design an easy to use GUI for ProstateNavigation (Planning, Registration, Navigation)
 
* 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  
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* Get ideas how prostate segmentation can be done quicker, fully automatic in best case  
 
* Validate different pre-op to intra-op registration approaches
 
* Validate different pre-op to intra-op registration approaches
  
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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 [http://www.slicer.org/slicerWiki/index.php/Modules:RobustStatisticsSeg-Documentation-3.6 Robust Statistics Segmenter] or [https://www.youtube.com/watch?v=1mYNwJbE7dQ VolumeClip] for quicker prostate segmentation
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* 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 using Landmark Registration Error
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* Evaluate pre-op to intra-op registration with General Registration (BRAINS) module in Slicer 4.4
 
</div>
 
</div>
 
<div style="width: 27%; float: left; padding-right: 3%;">
 
<div style="width: 27%; float: left; padding-right: 3%;">
 
<h3>Progress</h3>
 
<h3>Progress</h3>
* We created a manual describing the workflow steps in the current stage
 
 
* Created requirements list containing the core functions of the workflow
 
* Created requirements list containing the core functions of the workflow
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* Created draft of the GUI with its necessary components
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* Best solution for prostate segmentation seems to be VolumeClip Model (under 15 seconds user interaction time)
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* Started evaluation of BSpline registration in BRAINSFit module with masks
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* [[BRAINSFit_to_simpleITK|MR prostate registration from BRAINSFit to simpleITK]]
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* [[BRAINSFit_prostate_registration|prostate registration using BRAINSFit in Slicer 4.4]]
 
</div>
 
</div>
 
</div>
 
</div>

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