Difference between revisions of "2015 BRAINSFit registration in SimpleITK"

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__NOTOC__
 
__NOTOC__
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{|
 
{|
| Case 9
+
| Case 25
|[[Image:pat9-ref.png‎ |thumb|300px|Reference intraop volume]]  
+
|[[Image:HighIrregulation.gif‎ |thumb|400px|High irregulations in ITKv4]]  
|[[Image:pat9-3_6.png|thumb|300px|Reg Result Slicer 3.6 with ITKv3]]
+
|[[Image:fixedIrregulations.gif|thumb|400px|Resolved Irregulations ins ITKv4]]  
|[[Image:pat9-4_4.png|thumb|300px|Reg Result Slicer 4.4 with ITKv4]]  
 
 
|}
 
|}
  
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* Peter Behringer
 
* Peter Behringer
 
* Andriy Fedorov
 
* Andriy Fedorov
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* Dženan Zukić
  
 
==Project Description==
 
==Project Description==
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<h3>Objective</h3>
 
<h3>Objective</h3>
 
* Our registration module for b-spline deformable registration of prostate MRI uses BRAINSFit in Slicer4/ITKv4.  
 
* Our registration module for b-spline deformable registration of prostate MRI uses BRAINSFit in Slicer4/ITKv4.  
* One issue that we are getting with ITKv4 is that there are a lot more irregular and unrealistic than what we used to get in ITKv3 (see summary [http://www.na-mic.org/Wiki/index.php/BRAINSFit_prostate_registration here]
+
* One issue that we are getting with Slicer4/ITKv4 is that they are a lot more irregular and unrealistic than what we used to get in Slicer3/ITKv3 (see summary [http://www.na-mic.org/Wiki/index.php/BRAINSFit_prostate_registration here])
 
* The Slicer4/ITKv4 registration tool should be comparable with the functionality we had in Slicer3/ITKv3, which was evaluated [http://onlinelibrary.wiley.com/doi/10.1002/jmri.23688/abstract;jsessionid=F9AADC56E72CA73A422B9C09728F7E81.f01t03 here]
 
* The Slicer4/ITKv4 registration tool should be comparable with the functionality we had in Slicer3/ITKv3, which was evaluated [http://onlinelibrary.wiley.com/doi/10.1002/jmri.23688/abstract;jsessionid=F9AADC56E72CA73A422B9C09728F7E81.f01t03 here]
  
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<div style="width: 27%; float: left; padding-right: 3%;">
 
<div style="width: 27%; float: left; padding-right: 3%;">
 
<h3>Approach, Plan</h3>
 
<h3>Approach, Plan</h3>
* Implement BRAINSFit functionality in SimpleITK
+
* Implement a subset of BRAINSFit functionality used for supporting in-bore MRI-guided prostate biopsy in SimpleITK
 
* Get ideas from the community how the irregularity can be avoided and implemented in SimpleITK
 
* Get ideas from the community how the irregularity can be avoided and implemented in SimpleITK
 
</div>
 
</div>
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<h3>Progress</h3>
 
<h3>Progress</h3>
 
* Initialization and rigid registration is implemented using SimpleITK
 
* Initialization and rigid registration is implemented using SimpleITK
 +
* We tracked the issue down using various parameters
 +
* We used strongly dilated masks for the BSpline registration and results are looking much better
 
</div>
 
</div>
 
</div>
 
</div>

Latest revision as of 14:48, 24 June 2015

Home < 2015 BRAINSFit registration in SimpleITK


Case 25
High irregulations in ITKv4
Resolved Irregulations ins ITKv4

Key Investigators

  • Peter Behringer
  • Andriy Fedorov
  • Dženan Zukić

Project Description

Objective

  • Our registration module for b-spline deformable registration of prostate MRI uses BRAINSFit in Slicer4/ITKv4.
  • One issue that we are getting with Slicer4/ITKv4 is that they are a lot more irregular and unrealistic than what we used to get in Slicer3/ITKv3 (see summary here)
  • The Slicer4/ITKv4 registration tool should be comparable with the functionality we had in Slicer3/ITKv3, which was evaluated here

Approach, Plan

  • Implement a subset of BRAINSFit functionality used for supporting in-bore MRI-guided prostate biopsy in SimpleITK
  • Get ideas from the community how the irregularity can be avoided and implemented in SimpleITK

Progress

  • Initialization and rigid registration is implemented using SimpleITK
  • We tracked the issue down using various parameters
  • We used strongly dilated masks for the BSpline registration and results are looking much better