Resting State fMRI processing

The pipeline processes images from a resting state fMRI acquisition.

Here is the list of available options:

usage: perform_restingstate_preprocessing.py [-h] -i fmri [fmri ...] -t t1
                                             [t1 ...] -s segmentation
                                             [segmentation ...] -p
                                             parcellation [parcellation ...]
                                             [-o output_dir] [-g]

Resting State fMRI preprocessing

optional arguments:
  -h, --help            show this help message and exit
  -i fmri [fmri ...], --fmri fmri [fmri ...]
                        Input fMRI 4D image
  -t t1 [t1 ...], --t1 t1 [t1 ...]
                        Input T1 image
  -s segmentation [segmentation ...], --segmentation segmentation [segmentation ...]
                        Input Tissue Segmentation image (from GIF pipeline)
  -p parcellation [parcellation ...], --parcellation parcellation [parcellation ...]
                        Input Parcellation image (from GIF pipeline)
  -o output_dir, --output_dir output_dir
                        output directory to which the average and the are
                        stored
  -g, --graph           Print a graph describing the node connections