[Freesurfer] Anatomical stats for labels

Hi, I've noticed that when I run mris_anatomical stats on a label, I get a different value for "total gray matter volume" if I run it on the pial surface, compared to if I run it on the white surface. Just wondering why this is, how the total gray matter volume is calculated, and which one rep

Re: [Freesurfer] Problem filling labels

Hi Kevin, I deleted tksurfer.new.tcl and it worked perfectly. Thanks so much! >Xander On Jul 8, 2005, at 4:57 PM, Kevin Teich wrote: Yes, delete tksurfer.new.tcl. We stopped using tksurfer.new.tcl a while before that release and removed it from the distribution, but unfortunately, our up

Re: [Freesurfer] Anatomical stats for labels

Hi Alex, that's a bug - the volume is the total of the surface area of each triangle times the average thickness there, so the pial will be different from the white (should just take the average of the two) Bruce On Mon, 11 Jul 2005, Fornito, Alexander wrote: Hi, I've noticed that when I r

[Freesurfer] problem with recon-all

when i source: Setting up environment for FreeSurfer/FS-FAST FREESURFER_HOME /usr/local/freesurfer/dev FSFAST_HOME /usr/local/freesurfer/dev/fsfast SUBJECTS_DIR/space/sake/3/users/inverse/subjects FUNCTIONALS_DIR /usr/local/freesurfer/dev/sessions MINC_BIN_DIR/usr/pubsw/packages/mni/cu

Re: [Freesurfer] problem with recon-all

I modified recon-all to try to autodetect the input format (but introduced a bug). It should work if you add -COR to the command-line. In the mean time I'll fix my mistake. doug Tamara Knutsen wrote: when i source: Setting up environment for FreeSurfer/FS-FAST FREESURFER_HOME /usr/loca