MEG Freeware Packages

This is a list of freeware packages more frequently used at the CBU:

SPM5

Advantages:

• Much experience at CBU, integrated with fMRI analysis
• Matlab, so readable and extendable
• Advanced statistical methods (e.g, for multiple comparisons across space or time),
• Novel variants of the L2-norm approach to the inverse problem
• Group-based analysis (eg in MNI/Talairach space).

Disadvantages:

• Slow graphics
• No ECD for MEG (yet)

Official website: http://www.fil.ion.ucl.ac.uk/spm/

Currently installed on all Linux Boxes (lowest load box selected by spm 5 eeg at linux prompt)

For more details, see here SpmAnalysis

MNE (Minimum Norm Estimates)

Advantages:

• Minimum Norm Estimation relying on minimal modeling assumptions, i.e. applicable to complex source configurations and high noise levels (by Matti Hämäläinen, a long-standing expert with strong links to Neuromag)
• Excellent, fast graphics

• Linked with Free Surfer http://imaging.mrc-cbu.cam.ac.uk/imaging/FreesurferInformation (advanced software for MRI segmentation, extraction of cortical surfaces, and inflation/normalisation)

• Matlab Toolbox for exporting and importing data
• Comprehensive documentation

Disadvantages:

• Compiled code, so difficult to extend (though it does come with an extensive MATLAB toolbox, which is arguably the best way to read FIF data).
• No statistics and time-frequency analysis (yet)

Official website: http://www.nmr.mgh.harvard.edu/martinos/userInfo/data/sofMNE.php

Installed on Linux Boxes. All Graphical tools must be used in the computing room on lws001, lws002, lws004, lws005, lws006 or using a vncserver.glx session (see http://imaging.mrc-cbu.cam.ac.uk/imaging/ImagingComputingDevelopments).

For more details, see here MneAnalysis

FieldTrip

Advantages:

• Strong in oscillatory analysis (time-frequency, coherence) and beamformers (eg DICS)
• In Matlab, so easily readable and extendable

Official website: http://www.ru.nl/fcdonders/fieldtrip/

Multiple Linear Regression of EEG/MEG data

Matlab tools for applying multiple linear regression to EEG/MEG data. More here: LinearRegression You may want to follow the following AnalysisPath

Data Screening Tool

Matlab utilities for quality control of your data prior to further processing. More here: DataScreeiningTool

Yet Others

• FIFFACCESS for simply reading FIF data into Matlab, more here: ReadingDataInMatlab

• EEGLAB (good for ICA) http://www.sccn.ucsd.edu/eeglab/

• Brainstorm (good for forward models) http://neuroimage.usc.edu/brainstorm/

• ...