fMRI Preprocessing

This page is a generic overview. For specific software see

• fmriprep + xcpd – BIDS App standard functional MRI preprocessing
• Preprocess Functional (Hallquist pipeline) – in-house legacy pipeline from Hallquist. Has useful features and exists for older studies (Cog Grant, PET Study, Brain Mechanisms R01 (7T))

Considerations:

• Warping/output space: across participants MNI; per-session (bold or anat)
• scope of signal cleaning: minimal (fmriprep, ABCD), maximal (xcpd, hallquist)