Hi Maxime,
I'll take a look at your data and the issue you're having and get back to you after the weekend.
Best,
Bram
________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Maxime Perron maxime.perron.6@ulaval.ca Sent: Tuesday, September 25, 2018 1:14:08 PM To: Freesurfer support list Subject: Re: [Freesurfer] Correction Needed for the Midline
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Hi Freesurfer Experts,
About 2 weeks ago, I sent a question about the midline correction but have not yet received a feedback. I am wondering if someone had time to check my data or has an idea on how to correct the bad midline.
I tried to correct the aseg.presurf.mgz (Freesurfer v.6.0.0) many times with different autorecon (wm, cp, noaseg); still, although the segmentation changes, the midline doesn’t follow the new segmentation.
Since 10 of my subjects show this error, a solution is much needed.
Many thanks for your help!
Best, Maxime ________________________________________ De : freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu de la part de Maxime Perron maxime.perron.6@ulaval.ca Envoyé : 17 septembre 2018 10:00 À : Freesurfer support list Objet : Re: [Freesurfer] Midline errors
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Hi Freesurfer Experts,
I was wondering if you have had time to look at my data to correct my midline problems? Many of my subjects have this problem.
Best regards, Maxime ________________________________________ De : Maxime Perron Envoyé : 13 septembre 2018 22:29 À : Freesurfer support list Objet : Re: [Freesurfer] Midline errors
Hi Bruce,
I upload my subject to the ftp site as you requested. In the file midline_MP, you will find a file named Freesurfer_S043_test in which I made modifications on the aseg.presurf. The other file is the participant without modification.
The problem of the midline is from the coronal slice 137 to 157. For example, Talairach: 1.9 4.6 14.3.
Thank you for all your help, Maxime
On Sep 13, 2018, at 10:08 AM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
Hi Maxime
if you upload a gzipped tar file of the entire subject dir to our ftp site we will take a look. Please include voxel coordinates of the spots you think are inaccurate.
cheers Bruce On Thu, 13 Sep 2018, Maxime Perron wrote:
External Email - Use CautionHi Freesurfer Experts,
I tried to correct the midline with the information you provided me. Indeed, I tried to correct the aseg.presurf (Freesurfer v.6) using Freeview. Although parcelisation has changed, the midline has not changed. I launched several types of autorecon (-noaseg, -cp, -wm), but it didn't work. Do you have an idea?
Best, Maxime
On Aug 10, 2018, at 5:09 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
HI Maxime
check the aseg labels and make sure they are correct (and fix them if not). Probably a couple of left/right ventricle voxels are mislabeled Bruce On Fri, 10 Aug 2018, Maxime Perron wrote:
External Email - Use CautionHello FreeSurfer Developers,
I use Freesurfer 6 on macOS Sierra 10.12.6. In several subjects, I found midline cutting error, that is the midline does not go through exactly the center of the brain in coronal cut. For example, the midline is a little bit fuzzy and goes through an hemisphere than the other (see attachment). I've searched in the mail list and I don't find the way to fix it. Does anyone have any idea to fix it? Thank you, Maxime Perron
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