Try this Greg:
1. Convert the brain.mgz volume to analyze: mri_convert $SUBJECTS_DIR/subjectname/mri/brain.mgz brain.img 2. Align brain.img with your functional data in spm (eg, func.img) 3. Create your spm statistical output (eg, t.img) 4. Create the registration file: tkregister2 --s subjectname --mov func.img \ --regheader --reg register.dat --surf orig
This will bring up the tkregister window with the orig volume. Hit the "Compare" button to see the functional. The green line will be the surface. Make sure the alignment is good (ie, the green line follows the bright intensity patterns in the functional). Hit the "Save" button to save the registration. This will create a file called register.dat. 5. View your functional data in the volume: tkmedit subjectname orig.mgz -overlay t.img -overlay-reg register.dat 6. View your functional data on the surface: tksurfer subjectname lh inflated -overlay t.img -overlay-reg register.dat
Notes: 1. This might not work very well if you've used the non-linear registration
Kirk, Gregory wrote:
Hi, I think this is one for Doug,
Thomas Witzel told me it is possible to resample the volume activation data from spm2 onto the cortical surface generated with freesurfer. Is their a blurb around that details the process or could you give me some instructions.
thanks
Greg.
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