Hi Erik, one possible way of doing this: 1. For a single subfield: set the color map to Lookup Table. Tick "show as isosurface in 3d view". Tick "label volume". Then, set both values of the range to the numeric code of the subfield you want to display (e.g., for CA1, it would be 206). 2. For all subfields simultaneously: same as before, but setting the range to 200-226. This will color each subfield differently. 3. For showing the whole hippocampus in the same color: an easy, quick way is to switch the color map to grayscale, tick "show as isosurface in 3d view", untick "label volume", and set the lower and upper thresholds to 200 and 226, respectively. Cheers, Eugenio

Juan Eugenio Iglesias Postdoctoral researcher BCBL www.jeiglesias.com www.bcbl.eu

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From: "Erik O'Hanlon" erikohanlon@rcsi.ie To: "Freesurfer support list" freesurfer@nmr.mgh.harvard.edu Sent: Friday, October 2, 2015 10:31:17 AM Subject: [Freesurfer] Hippocampus visualisation

Hi Freesurfer experts,

I've run the subfield analysis with Dev v6 and am just wondering if it is possible to display only certain subfields (say the CA1 and Subiculum rendered in 3D using freeview? Can I also render the entire hippocampus that is basically the addition of all the subfields given in the table output? Sorry for the basic question, just trying to put together some images.

Thanks in advance

erik

Erik O'Hanlon Postdoctoral researcher

RCSI Psychiatry Royal College of Surgeons in Ireland Beaumont Road, Beaumont, D9, Ireland T: 8093740 E: erikohanlon@rcsi.ie W: www.rcsi.ie

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