Difference between revisions of "2012 Summer Project Week:DTI-Reg"

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(Created page with '__NOTOC__ <gallery> Image:PW-MIT2012.png|Projects List Image:genuFAp.jpg|Scatter plot of the original FA data through the genu of the corpus…')
 
 
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<gallery>
 
<gallery>
 
Image:PW-MIT2012.png|[[2012_Summer_Project_Week#Projects|Projects List]]
 
Image:PW-MIT2012.png|[[2012_Summer_Project_Week#Projects|Projects List]]
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Image:genuFAp.jpg|Scatter plot of the original FA data through the genu of the corpus callosum of a normal brain.
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Image:Glyphs-coronal-clean.png|DTI image: Color coded FA and glyphs
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Image:genuFA.jpg|Regression of FA data; solid line represents the mean and dotted lines the standard deviation.
 
 
</gallery>
 
</gallery>
  
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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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* UNC: Francois Budin
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* Utah: Tom Fletcher, Ross Whitaker
 
  
 
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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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DTI-reg is a tool available on NITRC that allows to register DTI images. It has been developped to work with Slicer3. Other tools such as dtiprocess already exist and work with Slicer3. We want to test and integrate those existing tools in Slicer4 to perform DTI atlas based fiber analysis.
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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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Existing tools may need re-writing to make them slicer4 compatible. The goal is to integrate them to Slicer4 as extensions.
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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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DTI-reg now compiles with Slicer4 in the svn branch SlicerExtension. DTIProcessToolkit, when downloaded through DTI-reg, also compiles with Slicer4. The next step is to integrate those tools as extensions in Slicer4.
  
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http://www.nitrc.org/projects/dtireg
 
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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
 
 
#Slicer Module
 
#Slicer Module
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##Built-in
 
 
##Extension -- commandline
 
##Extension -- commandline
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##Extension -- loadable
 
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#Other (Please specify)
 
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==References==
 
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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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* 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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* 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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* 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 .
 

Latest revision as of 13:14, 22 June 2012

Home < 2012 Summer Project Week:DTI-Reg


Key Investigators

  • UNC: Francois Budin

Objective

DTI-reg is a tool available on NITRC that allows to register DTI images. It has been developped to work with Slicer3. Other tools such as dtiprocess already exist and work with Slicer3. We want to test and integrate those existing tools in Slicer4 to perform DTI atlas based fiber analysis.


Approach, Plan

Existing tools may need re-writing to make them slicer4 compatible. The goal is to integrate them to Slicer4 as extensions.


Progress

DTI-reg now compiles with Slicer4 in the svn branch SlicerExtension. DTIProcessToolkit, when downloaded through DTI-reg, also compiles with Slicer4. The next step is to integrate those tools as extensions in Slicer4.

http://www.nitrc.org/projects/dtireg

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. Slicer Module
    1. Extension -- commandline
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