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Hi
I'm new to freesurfer.
I used freesurfer to preform Thalamus segmentation, and can see the segmented volume in freeview. I would like to export the segmented volume to nii to continue analysis in MRvista. I was able to do this using mri_convert - however the values in the nifti are not those on the label list (as seen in freeview). The number of different values is similar but not the same, and the values themselves are totally different (8103-8233 in freeview, 16384 - 32767). It is possible to compare regions based on visual inspection - however that is tedious and might lead to mistakes. How can I export the labels of each region in the segmented mgz?
Any suggestions? I'd appreciate to learn fro your experience
Thanks Atira