FSL MEDx Menu
The FMRIB Software Library (FSL) is a collection of analysis tools. Many of these can be accessed by the user via extensions of the MEDx menu system, under the FSL menu.
BET - Brain Extraction
, segments brain from non-brain; aids registration etc.
FLIRT Linear Registration
, automatic, accurate, robust registration.
SUSAN Nonlinear Noise Reduction
, structure-preserving image noise reduction.
FEAT
, FMRIB's Easy Analysis Tool.