Hi Liane the brainmask is not for subcortical segmentation - use the norm.mgz if you want to visualize subcortical structures
cheers Bruce On Tue, 16 Jul 2013, Liane Hunter wrote:
Hello, I noticed that when I am checking the subcortical segmentation the brainmask does not accurately display the subcortical structures ( ie. the putamen is too small). The segmentation appears to be correct when I compare it to the original file. Does anyone know why this is the case? Also, if I make changes to the subcortical segmentation based on the original file will this change accurately edit the brainmask?
Thank you. Sincerely, Liane
Liane HunterMD/Ph.D Candidate Albert Einstein College of Medicine