Difference between revisions of "2012 Summer Project Week:ANTS Registation"

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Image:ANTSLargeDef.jpg|ANTS Brain registration to population-based template
 
Image:ANTSLargeDef.jpg|ANTS Brain registration to population-based template
 
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==Instructions for Use of this Template==
 
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#Please create a new wiki page with an appropriate title for your project using the convention 2012_Winter_Project_Week:<Project Name>
 
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#Copy the entire text of this page into the page created above
 
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#Link the created page into the list of projects for the project event
 
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#Delete this section from the created page
 
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#Send an email to tkapur at bwh.harvard.edu if you are stuck
 
  
 
==Key Investigators==
 
==Key Investigators==
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* UNC: Isabelle Corouge, Casey Goodlett, Guido Gerig
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* Iowa: Dave Welch, Hans Johnson
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* Utah: Tom Fletcher, Ross Whitaker
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* Penn State: Brian Avants, Gang Song, Nick Tustison
  
 
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<h3>Objective</h3>
 
<h3>Objective</h3>
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We are developing methods for analyzing diffusion tensor data along fiber tracts. The goal is to be able to make statistical group comparisons with fiber tracts as a common reference frame for comparison.
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We are developing an ANTS-based registration module.
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<h3>Approach, Plan</h3>
 
<h3>Approach, Plan</h3>
  
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Our approach for analyzing diffusion tensors is summarized in the IPMI 2007 reference below.  The main challenge to this approach is <foo>.
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Our approach for implementing ANTS registration will be to create a command line module and integrate ANTS into the Slicer build process, if possible.
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Our plan for the project week is to first try out <bar>,...
 
  
 
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<h3>Progress</h3>
 
<h3>Progress</h3>
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Software for the fiber tracking and statistical analysis along the tracts has been implemented. The statistical methods for diffusion tensors are implemented as ITK code as part of the [[NA-MIC/Projects/Diffusion_Image_Analysis/DTI_Software_and_Algorithm_Infrastructure|DTI Software Infrastructure]] project. The methods have been validated on a repeated scan of a healthy individual. This work has been published as a conference paper (MICCAI 2005) and a journal version (MEDIA 2006). Our recent IPMI 2007 paper includes a nonparametric regression method for analyzing data along a fiber tract.
 
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==Delivery Mechanism==
 
==Delivery Mechanism==
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This work will be delivered to the NA-MIC Kit as a (please select the appropriate options by noting YES against them below)
 
This work will be delivered to the NA-MIC Kit as a (please select the appropriate options by noting YES against them below)
  
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#ITK Module
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#ITK Module  
 
#Slicer Module
 
#Slicer Module
 
##Built-in
 
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##Extension -- commandline
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##Extension -- commandline YES
 
##Extension -- loadable
 
##Extension -- loadable
 
#Other (Please specify)
 
#Other (Please specify)
  
 
==References==
 
==References==
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* [http://www.picsl.upenn.edu/ANTS/ ANTS webpage: http://www.picsl.upenn.edu/ANTS/]
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* ANTS webpage: http://www.picsl.upenn.edu/ANTS/ [http://www.picsl.upenn.edu/ANTS/]
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* Fletcher P, Tao R, Jeong W, Whitaker R. [http://www.na-mic.org/publications/item/view/634 A volumetric approach to quantifying region-to-region white matter connectivity in diffusion tensor MRI.] Inf Process Med Imaging. 2007;20:346-358. PMID: 17633712.
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* Avants B, Tustison N, and Song G, €œANTS: Open-Source Tools for Normalization And Neuroanatomy,€ IEEE Transactions on Medical Imaging, pp. 1-11.
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* Corouge I, Fletcher P, Joshi S, Gouttard S, Gerig G. [http://www.na-mic.org/publications/item/view/292 Fiber tract-oriented statistics for quantitative diffusion tensor MRI analysis.] Med Image Anal. 2006 Oct;10(5):786-98. PMID: 16926104.
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* Avants B B, Tustison N T, Song G, Cook P A, Klein A, and Gee J C, €œA reproducible evaluation of ANTs similarity metric performance in brain image registration.,€ NeuroImage, vol. 54, no. 3, pp. 2033-44, Feb. 2011.
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* Corouge I, Fletcher P, Joshi S, Gilmore J, Gerig G. [http://www.na-mic.org/publications/item/view/1122 Fiber tract-oriented statistics for quantitative diffusion tensor MRI analysis.] Int Conf Med Image Comput Comput Assist Interv. 2005;8(Pt 1):131-9. PMID: 16685838.
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* Avants B, Tustison N, and Song G, €œAdvanced Normalization Tools: v1.0,€ Insight Journal, July 2009 [http://hdl.handle.net/10380/3113]
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* Goodlett C, Corouge I, Jomier M, Gerig G, A Quantitative DTI Fiber Tract Analysis Suite, The Insight Journal, vol. ISC/NAMIC/ MICCAI Workshop on Open-Source Software, 2005, Online publication: http://hdl.handle.net/1926/39 .
 
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Latest revision as of 20:40, 22 May 2012

Home < 2012 Summer Project Week:ANTS Registation

  • ANTS Brain registration to population-based template

Key Investigators

  • Iowa: Dave Welch, Hans Johnson
  • Penn State: Brian Avants, Gang Song, Nick Tustison

Objective

We are developing an ANTS-based registration module.

Approach, Plan

Our approach for implementing ANTS registration will be to create a command line module and integrate ANTS into the Slicer build process, if possible.

Progress

Delivery Mechanism

This work will be delivered to the NA-MIC Kit as a (please select the appropriate options by noting YES against them below)

  1. ITK Module
  2. Slicer Module
    1. Built-in
    2. Extension -- commandline YES
    3. Extension -- loadable
  3. Other (Please specify)

References

  • ANTS webpage: http://www.picsl.upenn.edu/ANTS/ [1]
  • Avants B, Tustison N, and Song G, €œANTS: Open-Source Tools for Normalization And Neuroanatomy,€ IEEE Transactions on Medical Imaging, pp. 1-11.
  • Avants B B, Tustison N T, Song G, Cook P A, Klein A, and Gee J C, €œA reproducible evaluation of ANTs similarity metric performance in brain image registration.,€ NeuroImage, vol. 54, no. 3, pp. 2033-44, Feb. 2011.
  • Avants B, Tustison N, and Song G, €œAdvanced Normalization Tools: v1.0,€ Insight Journal, July 2009 [2]
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