Hi Jose,

not sure I understand. Do you mean to edit the aseg.mgz to improve hippocampus and thalamus? We don't have any protocols for this, although you could certainly do it in tkmedit or freeview. Changing these shouldn't have much affect on cortical thickness.

cheers, Bruce

On Mon, 16 Feb 2009, Jose Luis Cantero Lorente wrote:

Hi there,

we have a bunch of MRI scans already segmented by using the typical FS

recons protocol. Now we would like to improve the hippocampus and thalamus delimitation by manual segmentation, but several basic questions arose:

1. Are there radiological protocols (commonly used) to segment these subcortical structures from FS? Any help with this issue will be very welcome.

2. Is there any tutorial to manually segment subcortical structures from FS? We just performed cortical segmentation and are not familiar at all with manual subcortical segmentation menus and steps to follow.

3. Will these subcortical changes affect to our cortical thickness values and cortical parcellation?

Thanks for your help.

Best regards, Jose

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Jose Luis Cantero, Ph.D. Laboratory of Functional Neuroscience Department of Physiology, Anatomy, and Cellular Biology University Pablo de Olavide Ctra. de Utrera, Km.1 41013 - Sevilla

• Spain -

Phone: +34 954 977433 Fax: +34 954 349151 Email: jlcanlor@upo.es http://www.upo.es/neuroaging/es/

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