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I have not used mri_cc for that. I would use mri_sclimbic_seg; that will also segment the fornix and create a stats files that you can use as normal

On 5/26/2023 3:37 AM, Ahsan Ali wrote:

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Dear Sir/Madam,

I hope you are doing well. I'm having a ADNI T1 weighted MRI database. I have run the recon-all command successfully and got a couple of default stats files in the stats folder. Then fornix.mgz is estimated using  command "mri_cc -aseg aseg.auto_noCCseg.mgz -o aseg.auto_CCseg.mgz -f folder_name" successfully. Now what can be done to generate the stats for only fornix.mgz?
I've been struggling with this for a long time, please help me with this.

I'm using linux-ubuntu.
IMG-20230526-WA0000.jpg



With Regards
Ahsan
---------------------------------------------
Ahsan Ali
Ph.D Scholar
Department of Applied Mechanics and Biomedical Engineering (AMBE)
Indian Institute of Technology Madras 
Chennai-600036, Tamil Nadu, INDIA
Mob.:- +91-8899605552

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