Hello, I'm relatively new to Freesurfer so chances are that this is a pretty basic error on my side but here goes anyhow. I'm trying to use mri_vol2surf for surface-based smoothing of functional MRI data. I would then like to extract time courses from the surface with spm functions by converting the surface to a volume again with mri_surf2vol.
Specifically the commands I'm using are: bbregister --s subject0016 --mov volume0001.nii.gz --reg epi2T1.dat --init-spm --bold mri_vol2surf --mov volume0001.nii.gz --reg epi2T1.dat --surf-fwhm 8 --hemi lh --projdist-avg 0 1 0.1 --o ./volume0001Surf_lh.w --out_type paint mri_surf2vol --surfval volume0001Surf_lh.w paint --hemi lh --projfrac 0.5 --reg epi2T1.dat --o volume0001Surf2Vol_lh.nii --template volume0001.nii.gz Registration looks allright with tkregister2. I'm only using one volume (volume0001.nii.gz) to test this set of commands. However if I now view volume0001Surf2Vol_lh.nii in fslview, it shows the hemisphere on the right. I'm pretty sure that this is actually the left hemisphere but now flipped. I wonder how this can be solved. All the best, Hubert _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
