Hi Reema

you should visualize it over the norm.mgz. The brainmask and brain will wash out many low contrast borders (e.g. thalamus, pallidum)

cheers Bruce On Mon, 18 Jul 2016, Reema Jayakar wrote:

Hello FS Listserv members, With regard to checking amygdala segmentation, is it appropriate to overlay the aseg.mgz file on the brainmask.mgz? Or should I be overlaying aseg.mgz on norm.mgz? I am aware of the general rule of thumb that editing the subcortical segmentations generally is not recommended.

Also, where can I find documentation on the Freeview options "Resample to standard RAS space" and

"Apply registration file". I am trying to understand whether or not it is ne cessary for me to use any of these options for what I am doing with the subc ortical segmentations.

Thanks in advance for your help!

Reema

-- Reema Jayakar, M.A.Doctoral Candidate - Clinical Neuropsychology Health Resources and Services Administration (HRSA) Fellow Department of Psychology Georgia State University Email: rjayakar1@student.gsu.edu