[Freesurfer] single hemisphere analysis

Dear All, 1. Is it possible to run recon-all on only 1 hemisphere? 2. Is it possible to do longitudinal analysis on a single hemisphere? 3. How? We have big lesions in our patients in one of the hemispheres, so we would like to analyze the contralateral one. Thank you for your help in advance!

[Freesurfer] single hemisphere longitudinal analysis

Dear Freesurfers, I tried to run recon-all on a single hemisphere. However, I only got the aparc stat files. Is it possible to get the aseg stats as well? Is it possible to do longitudinal analysis on a single hemisphere? We have big lesions in our patients in one of the hemispheres, so we woul

[Freesurfer] tumor mask

Dear Freesurfers, I would like to run recon-all on patients with brain tumors. Can I add a previously created tumor mask along with the mprage to improve the segmentation? If so, how to do it? Thank you! Andrea -- *Andrea Horváth M.D.* PhD Fellow Diagnostic Centre of Pécs horvath.andr

[Freesurfer] how to shrink wm surface

Dear Freesurfers, After running recon-all, the wm surfaces are too close to the pial surface, some gray matter is segmented as white matter as seen in the attached picture (red cross: a bigger cortical part is included in the white matter). How can I shrink the wm surface? Thank you for your he

[Freesurfer] Freesurfer course 2015 Brazil

Dear Freesurfers, Does anyone know the exact date of the upcoming Freesurfer course in Sao Paolo, Brazil? I know that it is too early, but we need the date for a travel grant application. Thank you for your help in advance! Cheers, Andrea -- *Andrea Horvath M.D.* PhD Fellow Diagnostic Centr