If you look in the recon-all.log file for any subject, you will see a
mri_aparc2aseg command line. YOu can use that specifying your annot and the new
output name.
On 8/1/2019 4:58 PM, Mahshid Fouladivanda wrote:
External Email - Use Caution
Dear experts,
I have a segmentation file of all the tissues in the brain and the ribbon file
which were extracted by another toolbox rather than freesurfer. Also, I have
created the annotation file using "write_annotation.m". Now, I wanna create a
parcellation file based on the segmentation and annotation files using
"mri_aparc2aseg" in freesurfer. Bellow is the command I entered in the terminal
and extract the parcels:
mri_aparc2aseg --s subject name --annot annotation name --o output name
and I used the segmentation file as the "aseg.mgz" for the above command. Now,
I am wondered that do I select the right aseg file or not??
Any help would be appreciated.
Regards,
Mahshid
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