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FreeSurfer terminal commands

 FreeSurfer terminal commands Useful freesurfer commands to perform various actions.  What is freesurfer? FreeSurfer is a software package for the analysis and visualization of structural and functional neuroimaging data from cross-sectional or longitudinal studies. It is developed by the Laboratory for Computational Neuroimaging at the Athinoula A. Martinos Center for Biomedical Imaging. FreeSurfer is Read more…

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How to get ROIs from Kastner FreeSurfer Atlas

How to get ROIs from Kastner FreeSurfer Atlas? Surface based → Volume based Probabilistic maps of visual topography in human cortex: An atlas from Sabine Kastner’s Lab !! FreeSurfer v5.3 is needed !! Creating Volumetic Kastner Atlas (not really necessary): Left hemisphere ./surf2vol.sh ./Kastner2015Labels-LH.mgz E01S05 lh freesurfer $SUBJECTS_DIR/E01S05/mri/lh.kastner_freesurfer.mgz Right hemisphere Read more…