Re: [Freesurfer] midbrain question

where in the midbrain? We cut the brainstem at the level of the pons. The important thing is to be above the cerebellar peduncles so that the cerebellum is disconnected. cheers, Bruce On Wed, 25 Aug 2004, camilo wrote: Hi everyone, I was just wondering if any of you knew if the midbrain is suppo

Re: [Freesurfer] mris_fix_topology error

check to see if the cerebellum or skull is attached. Bruce On Wed, 25 Aug 2004, Jonathan Wisco wrote: Hi, how do I fix the following error (taken from log file): Finding true center and radius of Spherical Surface...done Surface centered at (0,0,0) with radius 100.0 in 8 iterationscould not allo

[Freesurfer] mris_fix_topology error

Hi, how do I fix the following error (taken from log file): Finding true center and radius of Spherical Surface...done Surface centered at (0,0,0) with radius 100.0 in 8 iterationscould not allocate 16022 edges for retessellation Cannot allocate memory INFO: Src volume /tmp/mritotal_30123/orig_8_d

[Freesurfer] midbrain question

Hi everyone, I was just wondering if any of you knew if the midbrain is supposed to show up on the white matter filled images. Thanks, Camilo ___ Freesurfer mailing list [EMAIL PROTECTED] https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

Re: [Freesurfer] Freesurfer and brainstem

Hi, Please check the cutting planes.Left/right is OK? Do you see the cutting plane at the pon correct? If they are bad, then you add seed point option to mri_fill so that you get the good locations. left/right cut is fixed by the corpus callosum seed, -C x y z where x y z is the MNI tala

[Freesurfer] Freesurfer and brainstem

Hi everyone, I have been runnig into some problems with the freesurfer. The problem is that the brainstem still appears on the white matter filled images. I have tryed to do what they tell you to do on the manual (go to expert preferences and in the WMFill menu, set the coordinates for the pons

Re: [Freesurfer] Motion registration

try using mri_motion_correct instead. cheers, Bruce On Wed, 25 Aug 2004, camilo wrote: Hi everyone, I am using the register.csh script to motion correction. SOme how the motion correted images are not saved in the directory that I specified, and I get this "error" message: /autofs/space/rao_001/use

[Freesurfer] Motion registration

Hi everyone, I am using the register.csh script to motion correction. SOme how the motion correted images are not saved in the directory that I specified, and I get this "error" message: /autofs/space/rao_001/users/patrickp/auditory_eegfmri/aepfmri05/3danat mri_convert -raw 256 256 256 uchar /t