First register the DTI to the anatomical with bbregister to create a register.dat file for each DTI (you can use the same one for FA and MD; for the "mov" volume, use whatever reference you used for motion correction). You can then run

mri_vol2surf --mov FA.nii --reg register.dat --projfrac 0.5 --hemi lh --trgsubject fsaverage --o subject1.FA.lh.fsaverage.mgh

Run mri_vol2surf with --help to get info about the arguemts

Dear Freesurfer developers,

I would like to perform an analysis that requires me to have all of my subjects surface based and diffusion data in the same space.

I have performed recon-all –qcache so that all my surface based measures are in fsaverage space. 

I now would like to register the FA.nii and MD.nii images to fsaverage space as well. 

Could you please provide me some command line examples to perform this? I am unsure if I should be using mri_vol2vol or mri_cvs_register.

Thank you for your support.

Best, Derek 

---

Derek Sayre Andrews, MSc
PhD Candidate

The Sackler Institute for Translational Neurodevelopment

Department of Forensic and Neurodevelopmental Sciences 

Institute of Psychiatry, Psychology & Neuroscience, King's College London

Telephone: +44 (0)20 7848 5701
Email: Derek.Andrews@kcl.ac.uk 

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