Hi, There is nothing to solve — that is the expected behavior around the hippocampus/amygdala.
See this FAQ: https://surfer.nmr.mgh.harvard.edu/fswiki/UserContributions/FAQ#Q.Thesurfac esnearthemedialwall.2Chippocampus.2Candamygdalaaren.27taccuratelyfollowingt hestructuresthere.HowcanIfixthis.3F cheers, -MH -- Michael Harms, Ph.D. ----------------------------------------------------------- Conte Center for the Neuroscience of Mental Disorders Washington University School of Medicine Department of Psychiatry, Box 8134 660 South Euclid Ave.Tel: 314-747-6173 St. Louis, MO 63110Email: mha...@wustl.edu On 7/6/16, 4:47 AM, "freesurfer-boun...@nmr.mgh.harvard.edu on behalf of Barbara Kreilkamp" <freesurfer-boun...@nmr.mgh.harvard.edu on behalf of bakk....@googlemail.com> wrote: Dear Freesurfers, Unfortunately I am having a problem with recon-all segmentation in some of my participants. It seems that part of the brain is cut off in the medial part of the Temporal lobes (please see attachment), around the region where the hippocampus is. I am unable to place WM region control points, as the algorithm does not have seemed to miss white matter, rather only gray matter of the hippocampus. I've seen on your website that also there the cortical surface does not include the hippocampus, so I wonder if this is intentional? Problem is that the surface here grasps some of the hippocampus but not all of it. What is the best way of solving this? Thanks very much. Best wishes, Barbara ________________________________ The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return mail. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
