depends on the size of the label and the command you used. A better way to do it is to map all of the individual thickness maps into fsaverage space, and then just use the significant cluster directly.

On 5/29/18 6:44 AM, Emmanuel Nwosu wrote:

Dear FreeSurfer users,

I want to extract the thickness value of a significant cluster from all the subjects used for a comparison for further statistical analyses.

I ran the mri_surfcluster first to create the ROI label with fsaverage and then used mri_label2label to map this label to all the subjects but the label generated for some of the subjects are empty  (i.e the label file size is 0kb). Does anyone know the reason for this? and how it can be resolved?

I need the label for all the subjects before running the mris_anatomical_stats and aparcstats2table.

Any help on this will be appreciated.

Kind regards Emmanuel

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