Preprocessing:

1. Structural:
   • FreeSurfer recon-all

   01_anat_process.sh
   

2. Functional:
   • CCS pipeline to preprocess data:
   • Remove first 5 TR's
   • Motion correction
   • Grand mean scaling to 10,000
   • anatomical alignment
   • Nuisance regression (no global signal regression)
   • bandpass filtering (0.01 Hz < f < 0.1 Hz)
   • Spatial smoothing to 6 mm FWHM

   01_func_preproc.sh
   

   • Create surface files (gifti, cifti) and parcellation

   02_resample.parcellate.sh
   

3. wait for dti?

Analyses:

1. Connectivity heatmaps and "spring-embedded" plots
2. Find comparable metrics