External Email - Use Caution
Dear experts,
I’ve done the fMRI preprocessing and now I would like to convert each file (that contains 250 volumes) to surface.
Is it correct to use the function mri_vol2surf? Should I use any specific flag because they are 4D files? What is the best way to transform the volumes to surface?
Thank you in advance.
Best regards,
Marina.
Yes, use mri_vol2surf. Make sure to use --projfrac 0.5 to sample in the middle of cortex. Run it with --help to get examples.
On 12/17/2019 11:16 AM, Marina Fernández wrote:
External Email - Use Caution Dear experts, I’ve done the fMRI preprocessing and now I would like to convert each file (that contains 250 volumes) to surface. Is it correct to use the function mri_vol2surf? Should I use any specific flag because they are 4D files? What is the best way to transform the volumes to surface? Thank you in advance.
Best regards, Marina.
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edumailto:Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Hi Marina
yes, mri_vol2surf will sample volumes onto the surface. You will need to register them first (we typically use Doug Greve's bbregister for this). What preprocessing did you do? For cortical data we don't recommend smoothing in the volume - you are much better off sampling to the surface then smoothing on the surface
cheers Bruce
On Tue, 17 Dec 2019, Marina Fernández wrote:
External Email - Use Caution
Dear experts,
I’ve done the fMRI preprocessing and now I would like to convert each file (that contains 250 volumes) to surface.
Is it correct to use the function mri_vol2surf? Should I use any specific flag because they are 4D files? What is the best way to transform the volumes to surface?
Thank you in advance.
Best regards,
Marina.
freesurfer@nmr.mgh.harvard.edu
-
Bruce Fischl -
Greve, Douglas N.,Ph.D. -
Marina Fernández