Re: [Freesurfer] (no subject)

it looks okay to me in the slices you sent, but it's hard to tell. Basically you should check the ?h.white surface and see if it follows the true boundary, and if not edit the wm.mgz to add/delete voxels cheers, Bruce p.s. if you are still not sure, tar and gzip the subject and drop it on our

[Freesurfer] tksurfer: Load GDF command line?

Hi All, I was wondering if there was a flag or command in tksurfer that would allow me to load a group descriptor file (y.fsgd) using the command line. I looked through the tutorial and couldn't seem to find anything. I only found resources for loading a timecourse. This isn't the same thin

Re: [Freesurfer] Recon-all -long

Hi Juergen, we're trying to minimize technology-induced differences. In the case where tp1 and tp2 are the same scan, you will then have applied a different procedure to tp2 then tp1 (it will have been processes longitudinally twice), so you will find differences where none exist. This is why

Re: [Freesurfer] (no subject)

Hi Rysia, I would look at wm.mgz loaded as auxiliary volume and switch to main volume frequently to see, whether you have anything in wm.mgz, which needs to be fixed. There is a tutorial on fixing wm.mgz on the followning web-page: http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/WhiteMatter

[Freesurfer] brainmask.mgz

Hey, I was just wondering if the brainmask.mgz file is the image after normalization? Thanks Alexa ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

[Freesurfer] Recon Error Message

Hi guys, I also have another question: I am getting the following error message when I run recon-all with a few of my images: Loading, Inverting, Saving, Exiting ... Reading transforms/talairach.m3z ERROR: cannot find or read transforms/talairach.m3z ERROR: mri_ca_register with non-zero status

Re: [Freesurfer] brainmask.mgz

It's the volume created after the first normalization and skull stripping. Allison On Wed, 12 Nov 2008, Alexa Nardelli wrote: Hey, I was just wondering if the brainmask.mgz file is the image after normalization? Thanks Alexa ___ Freesurfer mailing

Re: [Freesurfer] Recon Error Message

can you send us the recon-all command line? On Wed, 12 Nov 2008, Alexa Nardelli wrote: Hi guys, I also have another question: I am getting the following error message when I run recon-all with a few of my images: Loading, Inverting, Saving, Exiting ... Reading transforms/talairach.m3z ERROR: