Dear Freesurfer Experts,

 

I would like the mean thickness measures of each cluster i found in qdec.

 

I used qdec for a group comparison in cortical thickness between a patient group and a healthy control group. I found 5 different significant clusters. I would like to extract the mean cortical thickness of each significant cluster in the patient group and in the healthy control group. If this is not possible the mean cortical thickness of the peak/max vertex is also enough information. Where can i found the file with this information?

 

the problem is what do i have to do? run mri_glmfit-sim? but qdec do not create a .glmdir file? so do i have to run the mri_glmfit first? or is mri_glmfit-sim enough but where is the .glmdir file?

 

I use mri_glmfit-sim --glmdir ?.glmdir --sim mc-z 10000 1.3 mc-z.negative --sim-sign abs --cwpvalthresh 0.5 --overwrite

 

I want to create the csdbase.y.ocn.dat (explaind in mri_glmfit-sim --help) for the mean cluster thickness. This is the file where i can find the mean thickness of each cluster, right?  

 

A jpeg file is attached to this email.

 

Many thanks,

Stan