Difference between revisions of "2011 Summer Project Week White Matter Laterality"

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<gallery>
 
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Image:PW-MIT2011.png|[[2011_Summer_Project_Week#Projects|Projects List]]
 
Image:PW-MIT2011.png|[[2011_Summer_Project_Week#Projects|Projects List]]
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Image:notfound.png|Interesting picture to be added...  
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Image:fiberLI-beforemidsagalign.png|before automatic midsagittal alignment
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Image:fiberLI-aftermidsagalign.png|after automatic midsagittal alignment. Note increased symmetry (green laterality indices, near 0)
 
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==Key Investigators==
 
==Key Investigators==
 
* Harvard Medical School: Lauren O'Donnell
 
* Harvard Medical School: Lauren O'Donnell
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* Kitware: JC (Thanks for help on how to integrate as a Slicer4 module/extension)
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* Harvard Medical School: Sandy Wells (Thanks for helpful discussions on angle representation and objective functions for registration)
  
 
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<h3>Objective</h3>
 
<h3>Objective</h3>
  
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#:Segmentaion and 3d
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#:Fast computation of white matter 
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#:reconstruction of pericardial sac
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#:fiber tract laterality indices
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#: (a thin tissue layer that covers the heart)
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#: in python and ... Slicer4
  
 
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<h3>Approach, Plan</h3>
 
<h3>Approach, Plan</h3>
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#:Trying 3dslicer modules
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#:So far have preliminary code running in python/vtk
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#:for segmentation
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#:Slicer-ification is goal for this week
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#:and 3d reconstruction 
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#:Another goal: learn how to make an extension module
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#:Another goal: can this module use testing framework
  
 
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<h3>Progress</h3>
 
<h3>Progress</h3>
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#: Project is now organized as a python package
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#: Command line script written to run on large groups
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#: Initial testing on R/L handedness group data showed significant differences
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#: Preprocessing and midsagittal alignment have been implemented
  
 
<!-- Fill this out before Friday's summary presentations - list what you did and how well it worked. -->
 
<!-- Fill this out before Friday's summary presentations - list what you did and how well it worked. -->
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==References==
 
==References==
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D’Avila A, Scanavacca M, Sosa E, Riskin JN, Reddy VY. Pericardial anatomy for the Interventional Electrophysiologist. J Cardiovasc Electrophysiol 2003;14:422-430
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The fiber laterality histogram: A new way to measure white matter asymmetry.
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Lauren J. O'Donnell, Carl-Fredrik Westin, Isaiah Norton, Stephen Whalen, Laura Rigolo, Ruth Propper, and Alexandra J. Golby
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Med Image Comput Comput Assist Interv. 2010; 13(Pt 2): 225-232
  
 
==Delivery Mechanism==
 
==Delivery Mechanism==

Latest revision as of 14:58, 24 June 2011

Home < 2011 Summer Project Week White Matter Laterality

  • before automatic midsagittal alignment

  • after automatic midsagittal alignment. Note increased symmetry (green laterality indices, near 0)

White Matter Laterality/Asymmetry Measurement

Key Investigators

  • Harvard Medical School: Lauren O'Donnell
  • Kitware: JC (Thanks for help on how to integrate as a Slicer4 module/extension)
  • Harvard Medical School: Sandy Wells (Thanks for helpful discussions on angle representation and objective functions for registration)

Objective

  1. Fast computation of white matter
    fiber tract laterality indices
    in python and ... Slicer4

Approach, Plan

  1. So far have preliminary code running in python/vtk
    Slicer-ification is goal for this week
    Another goal: learn how to make an extension module
    Another goal: can this module use testing framework

Progress

  1. Project is now organized as a python package
    Command line script written to run on large groups
    Initial testing on R/L handedness group data showed significant differences
    Preprocessing and midsagittal alignment have been implemented


References

The fiber laterality histogram: A new way to measure white matter asymmetry. Lauren J. O'Donnell, Carl-Fredrik Westin, Isaiah Norton, Stephen Whalen, Laura Rigolo, Ruth Propper, and Alexandra J. Golby Med Image Comput Comput Assist Interv. 2010; 13(Pt 2): 225-232

Delivery Mechanism

This work will be delivered to the NAMIC Kit as a

  1. NITRIC distribution
  2. Slicer Module
    1. Built-in:
    2. Extension -- commandline:
    3. Extension -- loadable:
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