Dear Freesurfer experts,
In the QDEC plot there is the possibility to view cortical thickness for each subject in a specific region. Is there a possibility to make an automatic table of all these thickness data ?
In a previous question, the answer was to use a script:
=========================== # Script created December 2007 by Pedro Paulo Jr. # Use with Freesurfer 4.x # Updated: 24/03/2010
set FSAVERAGE_DIR = "usr/local/freesurfer/subjects/fsaverage" cd /usr/local/freesurfer/subjects/qdec/QDEC-DATA set numsubject = 17 for i in 'seq 1 $numsubject' do mri_convert --frame $i y.mgh $FSAVERAGE_DIR/surf/lh.$i.mgh mris_convert -c $i.mgh $FSAVERAGE_DIR/surf/lh.inflated lh.$i.asc done ===========================
But that script doesn't work in tcsh, so we changed the cmd line:
=========================== foreach i in (`seq 1 $numsubject`) mri_convert --frame $i y.mgh $FSAVERAGE_DIR/surf/lh.$i.mgh mris_convert -c $i.mgh $FSAVERAGE_DIR/surf/lh.inflated lh.$i.asc end ===========================
But we still receive error. Can you please help us ? (we use FS 5.1, Centos4_x86_64)
Thank you in advance, Sincerely, Alex. * *