Any experience extracting cortical thickness from HCP annot (fsaverage) in FreeSurfer 7.4.1?
Yiwen Xiao
I’m trying to extract cortical thickness values for each ROI using the HCP annot files (163842 vertices, mapped to fsaverage) in FreeSurfer 7.4.1.
So far, I’ve resampled each subject’s lh.thickness/rh.thickness to fsaverage with mri_surf2surf and got .mgh files with matching vertex counts. But whenever I run mris_anatomical_stats with the HCP annot, I repeatedly get freadFloat: fread failed
Has anyone run into similar issues or found a reliable way to compute ROI-wise thickness from HCP annot + fsaverage thickness (especially without the original ROI files)?
Any tips or suggestions would be much appreciated!
Thanks!
Glasser, Matthew
I would ask this on the FreeSurfer list. We can tell you how to do this with Connectome Workbench with HCP cross-platform NIFTI/GIFTI/CIFTI formats, but are not experts in FreeSurfer’s formats.
Matt.
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