I have never used the forum before but I am a long time user of Freesurfer and I am currently working on making a new atlas for the cerebellum. However I am having a problem loading my seg_edited.mgz files into the rebuild_gca_atlas.csh script. So I renamed my aseg.mgz file to seg_edited and that worked but my resulting image is not great. 

I think it did not work with my original seg_edited file because the atlas needed cortex data to complete the process and my original seg_edited file did not have and my aseg does. 

I would like to try and combine my aseg file and my original seg_edited files together but I realized that no one has apparently asked about doing that before on your forums. Is there anyway to combine those files?

I would appreciate any advise on the matter!

Thank you,

Alexarae Bryon

FIU student