FreesurferInformation - MRC CBU Imaging Wiki

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location: FreesurferInformation

Freesurfer

From the 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.

You can now use Freesurfer 5.1 at the CBU.

To run freesurfer 5.1 on the CBU systems, run the following from the linux prompt, or put this line into your .cshrc file: 

alias freesurfer 'setenv FREESURFER_HOME /imaging/local/software/freesurfer/5.1.0; setenv SUBJECTS_DIR /imaging/yourusername/freesurfer_data; source $FREESURFER_HOME/SetUpFreesurfer.csh'

If you would rather use the previous version (4.3.0) just type the following command: 

freesurfer_4.3.0

This will setup freesurfer with load balancing.

Important: To use the graphical tools use a vncserver.glx session.

Or you can type this in the terminal to set it up with load balancing: 

freesurfer_5.1.0