[Freesurfer] Fwd: Problems with mri_label2vol

2010-09-17 Thread Jose Angel Pineda Pardo
Hi everyone, Im using the instruction mri_label2vol, to resample the resulting aseg.mgz into the original Dicom Volume (same dimension as rawavg.mgz), as follows: *mri_label2vol --seg /Users/jangel85/Desktop/ejemplo/Results_FreeSurfer/mri/aseg.mgz --regheader /Users/jangel85/Desktop/ejemplo/Resul

Re: [Freesurfer] Fwd: Problems with mri_label2vol

2010-09-17 Thread Douglas N Greve
Can you view the original aseg.mgz in slicer? doug Jose Angel Pineda Pardo wrote: > Hi everyone, > > Im using the instruction mri_label2vol, to resample the resulting > aseg.mgz into the original Dicom Volume (same dimension as > rawavg.mgz), as follows: > > /mri_label2vol --seg > /Users/jang

Re: [Freesurfer] mri_label2volume issues

2010-09-17 Thread Michael Waskom
Hi Prapti, Basically, you just need to have a label file that you can turn into a lh.your_annot_name.annot (assuming your actual ROI is in the right hemisphere), so that mri_label2annot runs properly. The easiest thing to do would be to rename any old label you have in your subject's label direct

[Freesurfer] Generating a 'non-zero' group mask

2010-09-17 Thread Marco Loggia, PhD
Dear all, I am performing surface analyses on ASL CBF maps. As these maps do not cover the whole brain, and some masks have larger brain coverage than others, I would need to create a binary surface mask (in the fsaverage space) which would zero out the vertices where at least one of my subject

Re: [Freesurfer] recon-all quality control checks on large numbers of subjects

2010-09-17 Thread Nick Schmansky
consult this page: http://surfer.nmr.mgh.harvard.edu/fswiki/TksurferDisplayProblems typically the problem is resolved by upgrading the nvidia driver (assuming you have such a graphics card). n. On Fri, 2010-09-17 at 15:17 -0700, Pradeep wrote: > Hello Nick, > > The data_check program works aft