View source for 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 (slides attached in epi_outlier_rejection.pdf)

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.