Look in the recon-all.log file for the command that creates the aparc+aseg.mgz. Change the annotation to be the annotation that you want to use, and change the name of the output file.

On 9/30/2021 10:07 AM, Ahmed Radwan wrote:

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Dear FreeSurfer experts,

I would like to generate .mgz Brodmann parcellation maps in FreeSurfer 6.0 (freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c) to be precise.

Is this possible? I found this thread (https://secure-web.cisco.com/177FKNV88nkCNrwgn4jIC93-E_ZjHSBW0BXiH1uX3pOj28u...) asking a similar question but aiming to propagate those parcellations into WM using FS 7.1.

Thanks in advance,

Ahmed Radwan

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