[Freesurfer] aseg.mgz file not generated after recon-all

External Email - Use Caution Dear all, I ran FS recon-all -subcortseg -sd -subjid and it was completed without any errors. However, when looking into the mri folder, there is no aseg.mgz file, only aseg.auto.mgz. Could you please explain why this is and how to get the aseg.mgz

[Freesurfer] consensus on mp2rage or other t1w mri at 7T

External Email - Use Caution Dear community I'm wondering if there is a good consensus paper or other resources that can summarize the best practices of using high resolution T1w MRI at 7T and Freesurfer? We have a lot of mp2rage data which has nice uniformity but is affected b

[Freesurfer] longitudinal analyses, more than 2 timepoints

External Email - Use Caution Dear FreeSurfer Team, We are analyzing some longitudinal data (baseline [0], 6 months, 1 year, 1.5 years) using FreeSurfer 7.4.1. We already analyzed two timepoints (basline[0] and 6 months) but now we are trying to look at 4 timepoints in total. I w

Re: [Freesurfer] longitudinal analyses, more than 2 timepoints

Here is the tutorial for longitudinal processing - https://surfer.nmr.mgh.harvard.edu/fswiki/LongitudinalProcessing The 'base' and 'long' steps of the longitudinal processing should be re-run after adding new timepoints. Yujing From: freesurfer-boun...@nmr.mgh.harvard.edu On Behalf Of Eszt