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| These are the most intensively used freeware software packages for EEG/MEG analysis at the CBU: | |
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| '''[http://imaging.mrc-cbu.cam.ac.uk/meg/SpmAnalysis SPM]''', developed at the [http://www.fil.ion.ucl.ac.uk/spm/ FIL] and at the [http://imaging.mrc-cbu.cam.ac.uk/meg/SpmAnalysis CBU]. | ||'''[[http://imaging.mrc-cbu.cam.ac.uk/meg/SpmAnalysis|SPM]]''' ||'''[[http://imaging.mrc-cbu.cam.ac.uk/meg/AnalyzingData/MNE_overview|MNE]]''' ||'''[[http://fieldtrip.fcdonders.nl/|Fieldtrip]]''', '''[[http://imaging.mrc-cbu.cam.ac.uk/imaging/FieldtripAnalysis|Fieldtrip at CBU]]''' || ||developed at the [[http://www.fil.ion.ucl.ac.uk/spm/|FIL]] and at the [[http://imaging.mrc-cbu.cam.ac.uk/meg/SpmAnalysis|CBU]]. ||developed at [[http://www.nmr.mgh.harvard.edu/martinos/userInfo/data/sofMNE.php|MGH]] ||developed at the [[http://www.ru.nl/neuroimaging/|Donders centre]]. || For some more details look [[http://imaging.mrc-cbu.cam.ac.uk/meg/FreewarePackages|here]]. For an introduction and overview to different analysis approaches see our [[http://imaging.mrc-cbu.cam.ac.uk/meg/MEGday29Jan10|"MEG day" presentations]]. |
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| '''[http://imaging.mrc-cbu.cam.ac.uk/meg/DansPage MNE]''', developed at [http://www.nmr.mgh.harvard.edu/martinos/userInfo/data/sofMNE.php MGH] | Other options are: |
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| '''[http://fieldtrip.fcdonders.nl/ Fieldtrip]''', developed at the Donders centre. | ||'''[[http://sccn.ucsd.edu/eeglab|EEGLAB]]''' ||'''[[http://nutmeg.berkeley.edu|NUTMEG]]''' || ||Matlab toolbox for EEG analysis (incl. ICA) || MEG/EEG analysis toolbox in conjunction with SPM8 || |
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| ||[[http://www.neuroscan.com/curry.cfm|CURRY]] || [[http://www.besa.de/|BESA]] || [[http://www.ant-neuro.com/products/asa|ASA]] || [[http://www.sourcesignal.com/|EMSE]] || [[http://www.brainproducts.com/productdetails.php?id=17|BrainVision Analyzer ]] || | |
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| [http://www.neuroscan.com/curry.cfm CURRY], [http://www.besa.de/ BESA], [http://www.ant-neuro.com/products/asa ASA], [http://www.sourcesignal.com/ EMSE], [http://www.brainproducts.com/productdetails.php?id=17 BrainVision Analyzer ] | |
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The [http://imaging.mrc-cbu.cam.ac.uk/meg/NeuromagSoftware Neuromag software] is part of the Neuromag MEG system. You can get a general idea about the analysis pathway from the [attachment:MEGAnalysisLectureJan07CBU.pdf CBU introductory lecture into MEG analysis] (the slides do not include the live software demos given at the lecture). |
The [[http://imaging.mrc-cbu.cam.ac.uk/meg/NeuromagSoftware|Neuromag software]] is part of the [[http://www.elekta.com/healthcare_international_elekta_neuromag.php|Elekta Neuromag MEG system]] ([[http://imaging.mrc-cbu.cam.ac.uk/meg/VectorviewDescription|Vectorview configuration]]). You can get a general idea about the analysis pathway from the [[attachment:MEGAnalysisLectureJan07CBU.pdf|CBU introductory lecture into MEG analysis]] (the slides do not include the live software demos given at the lecture). |
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| [[http://imaging.mrc-cbu.cam.ac.uk/meg/Maxfilter|MaxFilter]] is an essential pre-processing tool for MEG data, in order to remove noise sources likely to originate from outside the sensor array. | |
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| [http://imaging.mrc-cbu.cam.ac.uk/meg/Maxfilter MaxFilter] is a pre-processing tool for MEG data, in order to remove noise sources likely to originate from outside the sensor array. == More info on on pre-processing (e.g. trigger coding) == [http://imaging.mrc-cbu.cam.ac.uk/meg/preprocessing Pre-processing pages] |
== More info on pre-processing (e.g. trigger coding) == [[http://imaging.mrc-cbu.cam.ac.uk/meg/preprocessing|Pre-processing pages]] |
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| You may want to start with a basic [http://www.mrc-cbu.cam.ac.uk/research/eeg/eeg_intro.html introduction to EEG and MEG analysis]. | ...you should start on our [[http://imaging.mrc-cbu.cam.ac.uk/meg/Beginners|Beginners' Pages]], with links to tutorials and more information on Matlab, Linux, Python etc. |
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| Your life as a neuroimager will be much easier if you have a good grasp on Linux (Unix) and Matlab. In general, I would recommend "learning by doing", but the following links will get you on your way, and will serve as useful references when you get stuck. '''Matlab: ''' You can look at [http://www.mathworks.com/academia/student_center/tutorials/launchpad.html tutorials and demos] offered by Matlab itself. This site also contains links to Matlab tutorials at some universities. You may want to start with the [http://www.mathworks.com/access/helpdesk/help/pdf_doc/matlab/getstart.pdf Getting Started] section. The short introduction to [http://imaging.mrc-cbu.cam.ac.uk/imaging/LearningMatlab Matlab for psychologists] from the University of York is also useful. '''Linux (Unix): ''' This is a systemtic and well-illustrated [http://www.ee.surrey.ac.uk/Teaching/Unix/ introduction to linux]. '''Other sofware:''' Most software packages will offer tutorials and demos. They will familiarise you with basic analysis principles, visualisation options, and give you an overview of what's available to you. It makes sense to do the tutorials of software packages even if you are not planning to use them routinely. For example, MNE includes an example data set (tutorial in the manual), and there is a [http://imaging.mrc-cbu.cam.ac.uk/meg/SpmDemo demo analysis pipeline for SPM5]. And finally one last piece of advice: Talk to people! Ask questions! Try things out! And never give up... |
== Literature, Mailing Lists, Web-Sites and Events around MEG == Here you can find [[http://imaging.mrc-cbu.cam.ac.uk/meg/MEGpapers|a list of papers]] and [[http://imaging.mrc-cbu.cam.ac.uk/meg/MailingLists|of mailing lists, web-sites and events]] for various MEG-related topics. |
Analysing data
There are several options for analysing MEG and EEG data from the Neuromag machine at the CBU:
FreewarePackages
These are the most intensively used freeware software packages for EEG/MEG analysis at the CBU:
developed at MGH |
developed at the Donders centre. |
For some more details look here. For an introduction and overview to different analysis approaches see our "MEG day" presentations.
Other options are:
Matlab toolbox for EEG analysis (incl. ICA) |
MEG/EEG analysis toolbox in conjunction with SPM8 |
CommercialPackages
We've got one or more licenses for the following software packages:
Neuromag Software
The Neuromag software is part of the Elekta Neuromag MEG system (Vectorview configuration). You can get a general idea about the analysis pathway from the CBU introductory lecture into MEG analysis (the slides do not include the live software demos given at the lecture).
MaxFilter
MaxFilter is an essential pre-processing tool for MEG data, in order to remove noise sources likely to originate from outside the sensor array.
More info on pre-processing (e.g. trigger coding)
If all this is new to you...
...you should start on our Beginners' Pages, with links to tutorials and more information on Matlab, Linux, Python etc.
Literature, Mailing Lists, Web-Sites and Events around MEG
Here you can find a list of papers and of mailing lists, web-sites and events for various MEG-related topics.