Skip to content

Running FreeSurfer in batch mode

by manuel on August 17th, 2015

Here is a quick way to run FS for each MRI image as a Nifti file in a folder.

Start by creating a new text file in the terminal (eg vi run.sh).

Put in the following code:

Save it an run it from inside the folder containing the images.

From → Image Processing

No comments yet

Leave a Reply

Note: XHTML is allowed. Your email address will never be published.

Subscribe to this comment feed via RSS

*