Hi Sara

You can assemble all the BA labels on fsaverage into a .annot file and display it that way if you want.  mris_label2annot should do the trick. Just give it all the appropriate either with/without thresh (?h.BA*_exvivo.label or ?h.BA*_exvivo.thresh.label)

Or just load the individual labels, which would be easy enough to do in a script to build the freeview command line

Cheers

Bruce

From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> On Behalf Of Romanella,Sara (BIDMC - Wilkinson - Neurology SF)
Sent: Saturday, May 15, 2021 8:59 AM
To: freesurfer@nmr.mgh.harvard.edu
Subject: [Freesurfer] Overlay of MGH clusters on Broadmann atlas

Hi FreeSurfer community, 

I have a cluster.mgh file (along with the .annot and .summary) resulting from correlation analysis of cortical thickness in a group of patients. I can open it as overlay in freeview but I was wondering if there was any chance to overlay it to a Broadmann atlas (hopefully in freeview) so I can visually show the overlap of the clusters with the BA areas. I cannot seem to find a Broadmann atlas in fsaverage to open in freeview. 

Also I was wondering, if I want to convert .mgh and open it on Connectome Workbench what extension do you think I should use (e.g., .gii). Should I use mri_convert or mris_convert? I am not sure if .mgh should be converted as a surface.

Thank you so much for your help!

Sara 

Sara Romanella

Fellow (Ph.D. in Neuroscience)

Berenson-Allen Center for Noninvasive Brain Stimulation 

Department of Neurology | Beth Israel Deaconess Medical Center
330 Brookline Avenue, 02215 Boston, MA, USA

Phone Nr: +1-339-229-7645

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