Before starting this tutorialΒΆ

For this tutorial, because the fMRI data is axially acquired with thick slices, it helps to re-use the registration results from another contrast to initialize template registration for the dMRI data.

That is why, alongside the fMRI data, we provide T2-based warping fields below:

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

    • single_subject/data/fmri/fmri.nii.gz : A 4D fMRI image comprised of 35 3D volumes.

    • single_subject/data/t2/t2.nii.gz : A 3D anatomical image used to create a mask around spinal cord for the fMRI image.

    • single_subject/data/t2/warp_template2anat.nii.gz : A warping field to transform the PAM50 template to the T2 space.

    • single_subject/data/t2/warp_anat2template.nii.gz : A warping field to transform the T2 image to the PAM50 template space

    You can get these files by downloading data_processing-fmri-data.zip.

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

cd {PATH_TO_DOWNLOADED_DATA}/single_subject/data/fmri/