Hi there,
I am trying to use local gyrification index values for the purpose of adaptive smoothing. I use recon -all and calculate lgi values for vertices on the surface. To show related voxels on the MR volume I changed vertex coordinates to voxel coordinates with the help of freesurfer_surf2voxels command. Then I changed the colour of these voxels on the volume obtained by normalization which is under mri/norm.mgz. However there are several types of shifts both left - right and superior - inferior. Could you please help me to identify the problem here?
I don't think that freesurfer_surf2voxles is our command is it? In any event, I don't know what you mean about shifts.
On 05/19/2017 09:01 AM, Serian doma wrote:
Hi there,
I am trying to use local gyrification index values for the purpose of adaptive smoothing. I use recon -all and calculate lgi values for vertices on the surface. To show related voxels on the MR volume I changed vertex coordinates to voxel coordinates with the help of freesurfer_surf2voxels command. Then I changed the colour of these voxels on the volume obtained by normalization which is under mri/norm.mgz. However there are several types of shifts both left - right and superior - inferior. Could you please help me to identify the problem here?
-- Serian DOMA
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
No, I am working with MATLAB on the outputs of freesurfer and the freesurfer_surf2voxels command is under MATLAB. I want to check the coordinates of lgi values found by recon - all lgi command on MATLAB. When I check the coordinates on the brain image I realize a shift app 5-10 vox according to real image. I am now searching on this differences between lgi surface voxels and real surface voxels.
2017-05-22 18:13 GMT+03:00 Douglas N Greve greve@nmr.mgh.harvard.edu:
I don't think that freesurfer_surf2voxles is our command is it? In any event, I don't know what you mean about shifts.
On 05/19/2017 09:01 AM, Serian doma wrote:
Hi there,
I am trying to use local gyrification index values for the purpose of adaptive smoothing. I use recon -all and calculate lgi values for vertices on the surface. To show related voxels on the MR volume I changed vertex coordinates to voxel coordinates with the help of freesurfer_surf2voxels command. Then I changed the colour of these voxels on the volume obtained by normalization which is under mri/norm.mgz. However there are several types of shifts both left - right and superior - inferior. Could you please help me to identify the problem here?
-- Serian DOMA
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
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