samseg does not have a CC seg. You can get the CC with something like mri_cc -aseg samseg/seg.mgz -o samseg/seg+cc.mgz -lta samseg/cc_up.lta you can ignore the lta output
On 1/28/2025 7:00 PM, Taghizadeh Mortezaei, Nima wrote:
Dear FreeSurfer Support Team,
I am using FreeSurfer version 7.4.1 and recently ran SAMSEG on a subject’s MRI data. However, I noticed that the corpus callosum does not appear as a distinct label in the segmented structures. After reviewing the output files and label definitions, I was unable to find any explicit segmentation for the corpus callosum in the SAMSEG results.
Could you please clarify if the corpus callosum is included as a distinct structure in the default SAMSEG atlas? If not, is there a recommended approach to extract or segment the corpus callosum using SAMSEG?
Any guidance or suggestions would be greatly appreciated. Please let me know if additional details or files are needed for context.
Thank you for your time and support.
Best regards, Nima Taghizadeh
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