Basically looks ok. The only things that jump out at me are that you are
using regheader (I would create a registration file with bbregister
rather than assuming that there was no motion between the anatomical and
the ASL). Where did brain.fsaverage.lh.mgh come from?
doug
On 2/27/15 2:16 PM, Matthieu Vanhoutte wrote:
Dear Freesurfer's experts,
I computed some perfusion maps from ASL data. These perfusion maps
were registered on anatomical T1 and I would like to make a group
analysis on surfaces. Please find below my actual commands in order to
project these volumic maps on fsaverage then smooth the data projected
on fsaverage :
*Project CBF maps on fsaverage* :
/mri_vol2surf --mov cbf.nii.gz --regheader subj_id--trgsubject
fsaverage --interp trilin --projfrac 0.5 --hemi lh --o
lh.fsaverage.cbf.mgh --noreshape --cortex --surfreg sphere.reg//
//mri_vol2surf --mov cbf.nii.gz --regheader subj_id--trgsubject
fsaverage --interp trilin --projfrac 0.5 --hemi rh --o
rh.fsaverage.cbf.mgh --noreshape --cortex --surfreg sphere.reg/
*Smooth the data projected on fsaverage (native ASL data size voxel of
3mm)* :
/mris_fwhm --s fsaverage --hemi lh --smooth-only --i
lh.fsaverage.cbf.mgh --fwhm 3 --o lh.fwhm3.fsaverage.cbf.mgh --mask
brain.fsaverage.lh.mgh//
//mris_fwhm --s fsaverage --hemi rh --smooth-only --i
rh.fsaverage.cbf.mgh --fwhm 3 --o rh.fwhm3.fsaverage.cbf.mgh --mask
brain.fsaverage.rh.mgh/
Could you advise me on these two steps and tell me first if this is
the best way to project CBF maps on fsaverage, then to smooth the data
on surfaces ? Is my process could be improved ?
Best regards,
--
-----------------------------
Matthieu Vanhoutte, MSc
Research Engineer - Department of Neuroradiology
Regional University Hospital, Lille, France
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