LIST OF TOOLS IN FSL

CL=command-line tool     GUI=graphical user interfaceCLGUI
        Functional tools
FEAT
Version 5
Model-based FMRI analysis with straightforward but powerful GUI: data preprocessing (including slice timing correction and MCFLIRT motion correction); first-level FILM GLM analysis with time-series prewhitening; registration to structural and standard space; and fully generalised mixed-effects group analysis using advanced Bayesian estimation techniques.
MELODIC
Version 2
Model-free FMRI analysis using Probabilistic Independent Component Analysis (PICA). MELODIC automatically estimates the number of interesting noise and signal sources in the data and because of the associated "noise model", is able to assign significances ("p-values") to the output spatial maps.
        Structural tools
BETBrain Extraction Tool - segments brain from non-brain in structural and functional data.
SUSANNonlinear noise reduction.
FASTFMRIB's Automated Segmentation Tool - brain segmentation (into different tissue types) and bias field correction.
FLIRTFMRIB's Linear Image Registration Tool - linear inter- and intra-modal registration.
FUGUEUnwarps geometric distortion in EPI images using B0 field maps.
SIENAStructural brain change analysis, for estimating brain atrophy.
        Other tools
AVWUTILSMisc utils for converting and processing images.
MISCVISSimple (non-interactive) image display utilities and a stats overlay utility
IRVASemi-model-free FMRI time-series analysis