Difference between revisions of "Measuring Alcohol Stress Interaction"

From NAMIC Wiki
Jump to: navigation, search
 
(5 intermediate revisions by the same user not shown)
Line 3: Line 3:
 
Image:PW2009-v3.png|[[2009_Summer_Project_Week#Projects|Projects List]]
 
Image:PW2009-v3.png|[[2009_Summer_Project_Week#Projects|Projects List]]
 
Image:MonkeyProject09Slicer.png|Segmentation of Vervet Subcortical Structures
 
Image:MonkeyProject09Slicer.png|Segmentation of Vervet Subcortical Structures
 +
 
</gallery>
 
</gallery>
  
Line 35: Line 36:
 
* [http://svn.na-mic.org/NAMICSandBox/trunk/MRIBiasCorrectionFilter/ MRIBiasCorrectionFilter] module by Nicolas Rannou available in NAMIC SandBox, initial testing on rhesus data done
 
* [http://svn.na-mic.org/NAMICSandBox/trunk/MRIBiasCorrectionFilter/ MRIBiasCorrectionFilter] module by Nicolas Rannou available in NAMIC SandBox, initial testing on rhesus data done
 
* GWE set up on SPL Cluster for registration parameter exploration
 
* GWE set up on SPL Cluster for registration parameter exploration
 +
* ChangerTracker used to detect change between hippocampus of State0 and State1 of first vervet subject.
 +
{|
 +
|[[Image:ChangeTracker_3dScreenShot_0.png|thumb|220px|ChangerTracker output for hippocampus changes between state0 and state1]]
 +
 +
|}
 +
 +
* MRIBiasCorrection Module parameter exploration being set up in GWE of SPL cluster.
  
 +
  {|
 +
|[[Image:Hugo_ICC_SagSlice128_BiasC_5.nii.base.png‎ |thumb|220px|Before bias correction ]]
 +
|[[Image:Hugo_ICC_SagSlice128_BiasC_5.nii.diff.png‎|thumb|220px|After bias correction]]
 +
|}
 +
<h3>In Progress</h3>
 +
* Working with Xioadong to adapt SkullStripper Module for Vervet Images
 +
* Explore use of ACPC align prior to rigid registration.
 
</div>
 
</div>
 
</div>
 
</div>

Latest revision as of 14:29, 26 June 2009

Home < Measuring Alcohol Stress Interaction


Key Investigators

  • VT: Chris Wyatt, Vidya Rajagopalan
  • BWH: Andrey Fedorov, Ron Kikinis, Nicolas Rannou, Sylvain Jaume

Objective

  • To improve cortical segmentation of Vervet segmentation Results
  • Use Change tracker module in Slicer to study hippocampal changes between subjects at two time points

Approach, Plan

  • Improve rigid registration results by optimizing parameters
  • Add bias correction to workflow to improve segmentation results
  • Study hippocampal changes between subjects at two time points using Change Tracker

Progress

  • ChangeTracker augmented with the capability to accept externally-defined segmentation (ChangeTrackerVT in NAMIC Sandbox)
  • MRIBiasCorrectionFilter module by Nicolas Rannou available in NAMIC SandBox, initial testing on rhesus data done
  • GWE set up on SPL Cluster for registration parameter exploration
  • ChangerTracker used to detect change between hippocampus of State0 and State1 of first vervet subject.
ChangerTracker output for hippocampus changes between state0 and state1
  • MRIBiasCorrection Module parameter exploration being set up in GWE of SPL cluster.
Before bias correction
After bias correction

In Progress

  • Working with Xioadong to adapt SkullStripper Module for Vervet Images
  • Explore use of ACPC align prior to rigid registration.

References