Let's backup a moment. Can you send the y.ocn.dat file that has problematic values?
On 10/4/2019 4:58 AM, Jose Graterol wrote:
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Dear Freesurfer Experts,
I would appreciate your help. I will explain first what I have done and where my problem is.
I want to measure the cortical thickness in stroke patients. Therefore I followed Douglas' instructions provided in this link https://www.mail-archive.com/search?l=freesurfer@nmr.mgh.harvard.edu&q=subject:%22%5C%5BFreesurfer%5C%5D+flipping+surface+data%22&o=newest&f=1 to join both affected hemispheres (left or right, depending on the patient) and to analyze them with xhemi.
After mri_glmfit and mri_glmfit-sim (--cwpvalthresh 0,05 --cache 4 abs/neg) have run I obtained 2 significant clusters. One in the precentral area, which I am interested in. When I check the *abs/neg.y.ocn.dat file the values are all -0.XXXX. If I understood it correctly, those should be cortical thickness values in mm, making those values implausible. For that reason I made a label of that cluster using the autofill option from tksurfer. The idea was to obtain the mean cortical thickness using mris_anatomical_stats after mapping the label to the subjects.
Now my questions, what would be the best method to map the label created from the fsaverage_sym space to the subject space? Or just simply, is this the right way to do this? or should I check why I am obtaining those values in the *y.ocn.dat file?
Thanks in advance.
Kind Regards
José Graterol
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