Preprocessing - sjgershm/ccnl-fmri GitHub Wiki

Preprocessing runs the following steps:

1. Realignment of functional images (motion correction)

2. Unwarping of functional images (magnetic field distortion correction)

3. Segmentation of the structural image into tissue types

4. Normalization of the structural to the MNI template using the segmentation maps

5. Application of the normalization parameters to the functional images

6. Smoothing of the functional images

To run preprocessing, call:

ccnl_fmri_preproc(EXPT,subjects)

where subjects is a vector of subjects to preprocess (if omitted, it will preprocess all subjects).