Lars M. Rimol wrote:

Hi, I have two questions on make_average_subject

1) Why are two sets of surfaces created by the make_average_subject
script? What is the difference between e.g. inflated and inflated_avg?
Which one(s) should be used for visualization?

inflated_avg is the average of the inflated surfaces of the input subjects (not very useful).
inflated is the inflation of the average of the surfaces (use this)




2) As far as I understand, make_average_subject is run for visualization purposes 
only, and the output is not critical for the integrity of the statistical analyses 
(recon-all does the spherical warping and registration, and t

he mris_preproc script 
makes sure the tesselation is uniform across the data set). 
So, does it matter if there are defects in the surfaces created by make_average_subject? 


I tend to get topological defects in the inflated_avg.

No, it is not critical for stats.

doug


Thank you!

--
yours,
LMR


_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

-- 
Douglas N. Greve, Ph.D.
MGH-NMR Center
greve@nmr.mgh.harvard.edu
Phone Number: 617-724-2358 
Fax: 617-726-7422

In order to help us help you, please follow the steps in:
surfer.nmr.mgh.harvard.edu/fswiki/BugReporting