FMRIB Software Library
FMRIB Software LibraryFSL is a comprehensive library of image analysis and statistical tools for FMRI, MRI and DTI brain imaging data. FSL is written mainly by members of the Analysis Group, FMRIB, Oxford, UK.
Software
FSL runs on Apple, PCs (Linux and Windows) and Sun, and is very easy to install. Most of the tools can be run both from the command line and as GUIs ("point-and-click" graphical user interfaces). See FSL screenshots and videos. There is also an evaluation and example data package available to accompany FSL.
[img]http://mail.fmrib.ox.ac.uk/fsl/screenshots/scranim.gif[/img]
FSL TOOLS
Functional
FEAT 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 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.
FLOBS Generation of optimal HRF basis functions and Bayesian activation estimation.
SMM Spatial mixture modelling - alternative hypothesis testing using histogram mixture modelling with spatial regularisation of the voxel classification into activation and non-activation.
Structural
BET / BET2 Brain Extraction Tool - segments brain from non-brain in structural and functional data, and models skull and scalp surfaces.
SUSAN Nonlinear noise reduction.
FAST FMRIB's Automated Segmentation Tool - brain segmentation (into different tissue types) and bias field correction.
FLIRT FMRIB's Linear Image Registration Tool - linear inter- and intra-modal registration.
FUGUE Unwarps geometric distortion in EPI images using B0 field maps.
SIENA Structural brain change analysis, for estimating brain atrophy.
FDT FMRIB's Diffusion Toolbox - tools for low-level diffusion parameter reconstruction and probabilistic tractography.
TBSS Tract-Based Spatial Statistics (part of FMRIB's Diffusion Toolbox) - voxelwise analysis of multi-subject diffusion data.
Other tools
Inference Various inference/thresholding tools, including: Randomise (permutation-based inference tool for nonparametric statistical thresholding), cluster (cluster-based thresholding using GRF theory for inference), FDR (false discovery rate inference) and Glm (a GUI for creating model design matrices).
FSLView Interactive display tool for 3D and 4D data.
AVWUTILS Misc utils for converting and processing images.
MISCVIS Simple (non-interactive) image display utilities and a stats overlay utility.
More detail and software download can be found :
[url]http://mail.fmrib.ox.ac.uk/fsl/[/url]
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