Difference between revisions of "DBP:Harvard:Software:Minutes:12-6-06"

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1. Presentation by Santiago - "Optimal filtering and noise estimation on DTI data" (slides are attached in lmmse.pdf)
 
1. Presentation by Santiago - "Optimal filtering and noise estimation on DTI data" (slides are attached in lmmse.pdf)
- We will try to apply this filtering to 1.5T data for fornix and cingulum tractography
+
* We will try to apply this filtering to 1.5T data for fornix and cingulum tractography
  
  
2. Update from Marc on EPI outlier removal (slides attached in epi_outlier_rejection.pdf)
+
2. Update from Marc on EPI outlier removal
 
+
*Our pipeline for new data will consist of:
Our pipeline for new data will consist of:
 
 
# Scanning
 
# Scanning
 
# Resampling
 
# Resampling
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3. 3T SPGRs
 
3. 3T SPGRs
- The new SPGRs have an artifact that is preventing measurement of cortical thickness in Freesurfer (but segmentation is still possible)
+
* The new SPGRs have an artifact that is preventing measurement of cortical thickness in Freesurfer (but segmentation is still possible)
- Sylvain will try some bias field correction on these images
+
* Sylvain will try some bias field correction on these images
  
  
 
4. Clustering in Slicer
 
4. Clustering in Slicer
- The clustering part of DTMRI module is not consistent--there is some stochastic element that produces different results when using the same settings multiple times
+
* The clustering part of DTMRI module is not consistent--there is some stochastic element that produces different results when using the same settings multiple times
- Marek will contact Lauren about this issue.
+
* Marek will contact Lauren about this issue.

Latest revision as of 16:38, 3 January 2007

Home < DBP:Harvard:Software:Minutes:12-6-06

DTI Meeting Minutes | December 6, 2006

Present: Doug, Marek, Sylvain, CF, Mahnaz, Santiago, Gudrun, Jenny, Katharina, Marc


1. Presentation by Santiago - "Optimal filtering and noise estimation on DTI data" (slides are attached in lmmse.pdf)

  • We will try to apply this filtering to 1.5T data for fornix and cingulum tractography


2. Update from Marc on EPI outlier removal

  • Our pipeline for new data will consist of:
  1. Scanning
  2. Resampling
  3. Outlier removal
  4. Noise estimation/Filtering
  5. Distortion correction (can be done at any point, only looks at the distortion maps) - this is on hold until we get the software from NanQuei


3. 3T SPGRs

  • The new SPGRs have an artifact that is preventing measurement of cortical thickness in Freesurfer (but segmentation is still possible)
  • Sylvain will try some bias field correction on these images


4. Clustering in Slicer

  • The clustering part of DTMRI module is not consistent--there is some stochastic element that produces different results when using the same settings multiple times
  • Marek will contact Lauren about this issue.