FSL WITH OTHER SOFTWARE
FreeSurfer - Cortical flattening and modelling
FreeSurfer is a
set of semi-automated tools for reconstruction of the brain's cortical
surface and overlay of functional data onto the reconstructed surface,
produced at MGH, Boston. We have worked together to make
interoperation of the two packages as easy as possible.
AFNI - Freeware display and analysis
AFNI is a package for
processing, analyzing, and displaying FMRI data. One of AFNI's
particular strengths is that it is a powerful display tool. Recent
changes to AFNI make it very easy to view FSL output, in particular,
FEAT output.
MEDx - Commercial display and analysis
MEDx is a GUI-driven commercial image analysis and display package,
available from Sensor
Systems. The latest version of MEDx (3.4) comes with FSL
release 1.2a built in. Alternatively, you can easily configure
MEDx to seamlessly access the GUIs that come with the latest version
of FSL: Set environment variable FSLDIR to the full path name of the
top level FSL directory (fsl). You also need to install a few files
into the standard MEDx distribution: see file
fsl/etc/medx_customisation/README. If you integrate this release of
FSL into MEDx (to take advantage of newer FSL features) then this will
not interfere with the bundled older version of FSL. The bundled FSL
is accessed through the MEDx Toolbox whilst this version will appear
on the main (small) MEDx window.