RE: [Freesurfer] Voxel size smaller than 1x1x1mm?

Falk, Probably you should try adding the -noaseg flag to recon-all, as the aseg step relies on having 'conformed' volume data to register to the atlas. The -noaseg flag skips creation and usage of the subcortical atlas. Nick On Wed, 2009-03-11 at 13:16 +0100, Falk Lüsebrink wrote: > Hi again,

Re: [Freesurfer] problem with tksurfer:no open gl window

Besides what Krish told you, you should disable effects in Ubuntu preferences->appearance. Otherwise you'll have a window without border. Also, you should turn on Auto redraw in TKSurfer. Notice that setenv is for csh, if you are using bash you should do export doublebufferflag=1 tksurfer ---

RE: [Freesurfer] merging rh and lh surfaces

Hi Bruce, I am trying to create a volume conductor of human brain for FEM based source reconstruction. A nice surface of full pial (and other compartments like WM) layer is supposed to generate 3D FEM mesh by means of a meshing tool. Cheers, Seok > can you tell us why you want such a thing? I ha

Re: [Freesurfer] mri_surfcluster

by default it uses the 1st time point. If you want to change it, spec --frame. d Yigal Agam wrote: Hi, When I run mri_surfcluster on a surface with 12 timepoints, how do I know when each of the reported clusters occurred? Thanks, Yigal ___ Freesu

Re: [Freesurfer] problem with tksurfer:no open gl window

Hi giovanni Could you try with setenv doublebufferflag 1 and then run tksurfer again? On Mar 20, 2009, at 1:13 PM, Battistella Giovanni wrote: Dear freesurfer users, I've just installed freesurfer on my PC and I tried testing it using the sample subject. tkmedit works fine, but with tksurf

[Freesurfer] problem with tksurfer:no open gl window

Dear freesurfer users, I've just installed freesurfer on my PC and I tried testing it using the sample subject. tkmedit works fine, but with tksurfer I see the window where the image should appear but no image. the error I have is: no open gl window. I'm using Ubuntu 8.10 version with a Intel Q4

[Freesurfer] mri_surfcluster

Hi, When I run mri_surfcluster on a surface with 12 timepoints, how do I know when each of the reported clusters occurred? Thanks, Yigal ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/free

Re: [Freesurfer] Outline files convert

Hi Flavio, you should contact the CMA guys. I think mri_convert can do this, but I haven't really tried. cheers Bruce On Thu, 19 Mar 2009, Flavio Seixas wrote: Hi All, I've got from IBSR (Internet Brain Segmentation Repository) MR images and their subcortical structures segmented manually.