Before starting this tutorialΒΆ

  1. Make sure that you have the following files in your working directory:

    • single_subject/data/mt/mt1.nii.gz : The magnetization transfer image with the off-resonance RF pulse applied.

    • single_subject/data/t2/warp_template2anat.nii.gz : The warping field that defines the transformation from the PAM50 template to the T2 anatomical space.

    You can get these files by downloading

  2. Open a terminal and navigate to the single_subject/data/mt/ directory:

cd {PATH_TO_DOWNLOADED_DATA}/single_subject/data/mt/