[Freesurfer] bad segmentation [newbie]

Hi to all, In our last analysis, among 12 subjects after "-stage 1" and "-stage 2" we got only 3 reasonable brain surfaces. Most of the other brains have a very odd shape: -pieces of skull -coharse lack of cortex -holes -bridges -bad cutting planes -cerebellar attachments It seems to be a segmenta

[Freesurfer] Update for mris_register

There is an updated version of mris_register available for download. Darwin: ftp://surfer.nmr.mgh.harvard.edu/pub/dist/mri_watershed-20040407-Darwin.tar.gz Linux: ftp://surfer.nmr.mgh.harvard.edu/pub/dist/mri_watershed-20040407-Linux.tar.gz Download the tarfile and expand it in your FREESURFER_HOME

Re: [Freesurfer] Update for mris_register

The filenames are wrong. The correct ones are: mris_register-040916-Darwin.tar.gz 901 KB 09/16/2004 04:58:00 PM mris_register-040916-Linux.tar.gz

[Freesurfer] mincinfo error opening "orig.mnc"

Hi everybody, I am trying to run segment_subject on one run of data which was originally in BRIK format and then converted to COR using mri_convert. In the initial registration to talairach process, mincinfo can't seem to read the .mnc file that mri_convert gave it. As a result the talairach.xfm t

Re: [Freesurfer] mincinfo error opening "orig.mnc"

Hi Mithun, if you can send us the output from mri_convert/talairach that fails, and we'll take a look. cheers, Bruce On Thu, 16 Sep 2004, Mithun Mukherjee wrote: Hi everybody, I am trying to run segment_subject on one run of data which was originally in BRIK format and then converted to COR usin

[Freesurfer] Re: bad segmentation [newbie]

Hi Francesco, these look pretty bad. Can you describe the acquisitions? How many? Did you motion correct and average them? What is the resolution? What field strength? What receive coil(s)? cheers, Bruce On Thu, 16 Sep 2004, F.Musso wrote: Hi to all, In our last analysis, among 12 subjects after