Revision as of 18:35, 28 July 2017 by Maxprok (talk | contribs)
Jump to navigation Jump to search


freesurfer website  

Freesurfer is a set of automated tools for reconstruction of the brain’s cortical surface from structural MRI data, and overlay of functional MRI data onto the reconstructed surface.

Required Modules


  • freesurfer

System Variables

  • HPC_{{#uppercase:freesurfer}}_DIR and FREESURFER_HOME - installation directory

Additional Information

Starting with freesurfer/6.0.0 the software is available as a Singularity container. To run any executable use the 'launch_freesurfer' wrapper after loading the module.


launch_freesurfer dcmunpack

NOTE: Freesurfer comes with Freeview software. Freeview is a completely separate software from Freesurfer and is used purely for data visualization. Freesurfer 6 includes Freeview 2.0.


If you publish research that uses freesurfer you have to cite it as follows:

See [1] in the Freesurfer wiki on how to correctly cite Freesurfer tools.