Hi Carl

Did you try outputting files with names that won’t be overwritten by recon-all for the sphere.reg and annot files and see if they are correct?

Cheers

Bruce

From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> On Behalf Of Trolle, Carl
Sent: Sunday, August 28, 2022 4:32 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] Shift in cortical parcellation, issues with previously suggested solution

Hi!

Thank you, yes, using the Freesurfer dev-version available through the Martinos cluster produced the desired result with the Destrieux-atlas. I’ve been using the 711-version throughout, I hope that I specified the version in my first email.

Is it possible to use these commands (mris_register and mris_ca_label) as expert option files during recon-all to correct the incorrect parcellation of the annot.aparc-file? If so, would that also require a later Freesurfer vesion than what we’ve been using?

Kind regards,

Carl