What space is the RS data in? If native functional space, I would register to the anatomical (bbregister), then use mri_vol2vol with the --fstal option
On 05/08/2014 04:31 PM, Paul Beach wrote:
Hi Freesurfers,
I have several processed resting time series files (processed through AFNI) and I'd like to convert them to MNI space. I have done this successfully for T1Volumes and some ROI masks using mri_convert and tried to use the same code for the resting series. However, I've run into a few issues - namely that the transformation cuts off part of the top of the cortex.
My code:
/mri_convert -it nii -ot mgz CleanData_RestState.nii.gz CleanData_RestState.mgz/ / / /mri_convert CleanData_RestState.mgz --apply_transform transforms/talairach.xfm / /-oc 0 0 0 CleanData_RestState_talairach.mgz / / / /mri_convert CleanData_RestState_talairach.mgz \ cleanData_RestState_talairach.nii.gz/
The final time series file, overlayed on the transformed T1Volume, is below.
Inline image 1
Any suggestions?
Thanks!
Paul Beach DO/PhD candidate - Year VI Michigan State University
- College of Osteopathic Medicine
- Neuroscience Program
- MSU *Co*gnitive and *Ge*riatric *N*eurology *T*eam (*CoGeNT*)
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