Hi, I'm a new user of Freesurfer. 1) I would like to extract only the cortex cerebrum . So I think I don't need the complete subcortical segmentation ( 20-40 hours). Do you know a way to segment only cortex or only ( cortex+ pial ( left/rigt hemispher)?2) I already try the complete subcortical segmentation ( about 12 hours, with the recon-all command). Do you know a way to extract only the cortex surface from the software? I would like to get the 3D surface mesh for analysis on Matlab. Could you help me, Thanks. VP.
Hi VP
sorry, the subcortical stuff is needed to automate the cortical surface modeling, so you need teh whole thing.
We do distribute matlab scripts for reading the surfaces in (read_surf.m).
cheers Bruce On Wed, 6 Mar 2013, Valtina Pouegue wrote:
Hi, I'm a new user of Freesurfer.
- I would like to extract only the cortex cerebrum . So I think I don't need the complete subcortical segmentation (
20-40 hours). Do you know a way to segment only cortex or only ( cortex+ pial ( left/rigt hemispher)? 2) I already try the complete subcortical segmentation ( about 12 hours, with the recon-all command). Do you know a way to extract only the cortex surface from the software? I would like to get the 3D surface mesh for analysis on Matlab.
Could you help me,
Thanks. VP.
freesurfer@nmr.mgh.harvard.edu
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Bruce Fischl -
Valtina Pouegue