Thanks for getting back so quickly, Doug.

Creating pial label files will enable me to write something which does what I want.

 

What I want to do is generate a list of cortical thickness values, one for each vertex in a ctx label file. The main question is whether something to do this has already been implemented in freesurfer. If not, I will generate pial label files and then for each vertex in a ctx label file, I will find the nearest points in that ROI’s pial and white label files and use the sum of the two distances as the cortical thickness.

 

 

Not sure what you mean as the pial files are surfaces not labels or annotations. If you want to extract labels from the annotations you can use mri_annotation2label

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Dear freesurfer group,

 

I wish to measure a cortical thickness value for each entry in a label file, e.g. SubNo/wmparc/ctx-lh-lateraloccipital_1011.label .

Is there a function in the freesurfer distribution which includes this capability?

Also, is there a function in the distribution that produces regional label files from the surf/[lr]h.pial files?

 

Thanks - Don

 

Don Krieger, Ph.D.

Research Scientist

Department of Neurological Surgery

University of Pittsburgh

 

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