Doug,

Thank you for the response. You are correct in that it was originally in native EPI space. I'll try out your suggestions.

Cheers

On Fri, May 9, 2014 at 1:51 PM, Douglas N Greve greve@nmr.mgh.harvard.eduwrote:

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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