Software for imaging at the CBU

• [wiki:LearningMatlab Matlab]. Useful for advanced work with SPM, and in understanding how SPM analyses neuroimaging data. Useful also for custom analyses with image data

• [wiki:UsingSpm SPM] - Various guides on the theory and practice of SPM.

• [wiki:UsingAnalyze AnalyzeAVW] - a comprehensive commercial program for viewing neuroimaging data. Particularly useful for rendering. It will only run on the Solaris machines, if atall. Please contact MatthewBrett if you need this program.

• Anchor(mricro) Chris Rorden's [http://www.psychology.nottingham.ac.uk/staff/cr1/mricro.html MRIcro] - an excellent free, functional, and simple program for viewing neuroimages. Download to a windows machine to run locally. To start on the linux systems, use:

startmricro

• [http://www.psychology.nottingham.ac.uk/staff/cr1/mritut.html MRIcro tutorial], with instructions on creating a region of interest, and prepare scans of damaged brains for spatial normalisation.

• Krish Singh's [http://www.psychology.nottingham.ac.uk/staff/cr1/mri3dtut.html mri3d] - an excellent display tool, particularly for rendering of results onto brain surfaces.

• [http://www.psychology.nottingham.ac.uk/staff/cr1/dicom.html freeware DICOM viewer and information], again for Windows, again by Chris Rorden

• [wiki:ImageViewer Viewer] - a simple matlab image viewer - now very old

• [wiki:Ana4Dto3D ana4dto3d] - a tiny command line utility to convert Analyze 4D files to a series of 3D files, as well as byte swapping as required

• [http://www.sourceforge.net pvconv] - a perl command line utility to convert [wiki:FormatBruker Bruker data format] to [wiki:FormatAnalyze Analyze image format]

• [http://www.fmrib.ox.ac.uk/fsl FSL] - the Oxford FMRIB software library for analyzing functional MRI and diffusion images.

• See also [wiki:ReadingOnlineDocs Software and help on reading documents online] - such as Adobe Acrobat for pdf files and Ghostview for reading postcript (.ps) files.