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
Legal disclaimer/Aviso legal/Lege-oharra: www.bcbl.eu/legal-disclaimer
Postdoctoral researcher BCBL
www.jeiglesias.com
www.bcbl.eu
Legal disclaimer/Aviso legal/Lege-oharra: www.bcbl.eu/legal-disclaimer
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
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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