Re: [Freesurfer] The difference between wm.mgz and wm.seg.mgz

Hi Mohamad

the wm.seg.mgz is the output of mri_segment and is a voxel segmentation that considers local intensities and estimated cortical geometry, but not topology. mri_pretess then takes the wm.seg.mgz and removes certain pathological voxel configurations (like corners touching) that mess up the subsequent tessellation and creates the wm.mgz

cheers Bruce

On Tue, 29 Jul 2014, Alshikho, Mohamad J. wrote:

Dear Fs Experts,

What is the difference between (wm.mgz and wm.seg.mgz)_ in the output of recon-all? i.e is wm.mgz means the whole white matter (right_left hemispheres and brain stem except the cerebellum)

Thanks

Mohamad