Run recon-all on the MNI template, then view your ROI on the output volume, including the surfaces to verify that the surfaces pass through your ROI. Map the ROI to the surface using mri_vol2surf with the --regheader option, then map the surface-ROI to each subject with mris_apply_reg (make sure to use the --no-rev) option, then run mri_segstats something like mri_segstats --i lh.thickness --seg roi-in-this-subject.mgz --id 1 --sum subject/stats/roi.stats Then you can run asegstats2table with --statsfile=roi.stats -m mean to get a table across your subjects
On 12/20/2020 5:36 PM, Paul Dhami wrote:
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Dear Freesurfer community,
I have a volumetric roi.nii file created with spm, based on MNI coordinates from the literature.
My goal is to do a roi analysis in Freesurfer, as I am interested in correlating the thickness values of this roi with a behavioral measurer.
However, I am lost as to how I can appropriately convert this volumetric roi.nii file to a label.
I hate to ask for too much, but can anyone briefly share the commands or steps as to how to convert this roi.nii file to a label so I can conduct an roi analysis within Freesurfer?
Thank you very much, Paul
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