Dear Doug, Thank you for helping !
Yes I directly used the regheader option because in the steps before I already registered ASL maps on anatomical T1. The brain.fsaverage.lh.mgh come from the projection of the T1 brain mask (dilated by 1) on the fsaverage. 1) So isn't it better to project first on the anatomical subject then on fsaverage than what I've done ? 2) Smoothing with mris_fwhm is a good way with --mask option ? Thank you for your precious advices ! Best regards, ------------------------------------- Matthieu Vanhoutte, MSc Research Engineer - Department of Neuroradiology Regional University Hospital, Lille, France 2015-03-01 19:45 GMT+01:00 Douglas Greve <gr...@nmr.mgh.harvard.edu>: > > 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 > > > > _______________________________________________ > Freesurfer mailing > listfreesur...@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > > _______________________________________________ > 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. > >
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