Dear Freesurfer Experts,
I would like the mean thickness measures of each clusters i found in qdec from both control and patient group. I used qdec for a group comparison in cortical thickness between a patient group and a healthy control group. I found 30 different significant clusters after FDR. I would like to extract the mean cortical thickness of each significant cluster in the patient group and in the healthy control group. I went though previous post and run the following command: mri_glmfit-sim --glmdir lh-Diff-Control-HF-Intercept-thickness --cache 1.3 abs --cwpvalthresh .99 and found following output: cmdline mri_glmfit --y /home/virtualuser/freesurfer/subjects/qdec/glmdir/y.mgh --fsgd /home/virtualuser/freesurfer/subjects/qdec/glmdir/qdec.fsgd doss --glmdir /home/virtualuser/freesurfer/subjects/qdec/glmdir --surf fsaverage lh --label /home/virtualuser/freesurfer/subjects/fsaverage/label/lh.aparc.label --C /home/virtualuser/freesurfer/subjects/qdec/glmdir/contrasts/lh-Avg-Intercept-thickness.mat --C /home/virtualuser/freesurfer/subjects/qdec/glmdir/contrasts/lh-Diff-Control-HF-Intercept-thickness.mat WARNING: unrecognized mri_glmfit cmd option doss SURFACE: fsaverage lh set: No match. FreeSurfer:~/freesurfer/subjects/qdec/glmdir> Any help would be great. With regards, Santosh -- With Best Regards, Post Doctoral Fellow, Department of Anesthesiology University of California, Los Angeles, CA 90034 Phone No. 808-5896940
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