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| '''Preparing the subject''' | <<HTML(<TABLE id="tuto-table"><TR><TD>)>> |
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| 1. [[Tutorials/CreateProtocol|Create a new protocol]] 1. [[Tutorials/ImportAnatomy|Import the subject anatomy]] 1. [[Tutorials/ExploreAnatomy|Explore the anatomy]] |
'''Starting a new study''' <<HTML( )>>1. [[Tutorials/CreateProtocol|Create a new protocol]] <<HTML( )>>2. [[Tutorials/ImportAnatomy|Import the subject anatomy]] <<HTML( )>>3. [[Tutorials/ExploreAnatomy|Explore the anatomy]] |
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| 1. [[Tutorials/ChannelFile|Coregistration MEG-MRI]] [Under construction] 1. [[Tutorials/ReviewRaw|Review continuous files]] [Under construction] 1. [[Tutorials/MontageEditor|Montage editor]] [Under construction] 1. [[Tutorials/Desktop|Desktop]] 1. [[Tutorials/EventMarkers|Edit event markers]] 1. [[Tutorials/StimDelays|Fixing stimulation delays]] 1. [[Tutorials/ArtifactsFilter|Frequency filters]] 1. Detecting artifacts 1. [[Tutorials/ArtifactsSsp|Cleaning artifacts with SSP]] 1. [[Tutorials/BadChannels|Bad channels and bad segments]] |
<<HTML( )>>4. [[Tutorials/ChannelFile|Channel file & MRI coregistration]] <<HTML( )>>5. [[Tutorials/ReviewRaw|Continuous recordings]] <<HTML( )>>6. [[Tutorials/MultipleWindows|Multiple windows]] <<HTML( )>>7. [[Tutorials/EventMarkers|Event markers]] <<HTML( )>>8. [[Tutorials/StimDelays|Stimulation delays]] [Under construction] <<HTML( )>>9. [[Tutorials/ArtifactsFilter|Frequency filters]] [Under construction] <<HTML( )>>10. [[Tutorials/BadChannels|Bad channels]] [Under construction] <<HTML( )>>11. [[Tutorials/ArtifactsDetect|Artifact detection]] [Under construction] <<HTML( )>>12. [[Tutorials/ArtifactsSsp|Artifact cleaning with SSP]] [Under construction] <<HTML( )>>13. [[Tutorials/BadSegments|Additional bad segments]] [Under construction] |
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| 1. [[Tutorials/Epoching|Epoching]] 1. [[Tutorials/Averaging|Averaging trials]] 1. [[Tutorials/ExploreRecordings|Explore the average response]] 1. [[Tutorials/Colormaps|Colormaps]] |
<<HTML( )>>14. [[Tutorials/Epoching|Import epochs]] <<HTML( )>>15. [[Tutorials/Averaging|Average response]] <<HTML( )>>16. [[Tutorials/ExploreRecordings|Exploring the average response]] <<HTML( )>>17. 2D/3D topography <<HTML( )>>18. [[Tutorials/Colormaps|Colormaps]] <<HTML(</TD><TD>)>> |
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| 1. [[Tutorials/HeadModel|Head model]] 1. [[Tutorials/NoiseCovariance|Noise covariance]] 1. [[Tutorials/SourceEstimation|Source estimation]] 1. [[Tutorials/Scouts|Scouts]] |
<<HTML( )>>19. [[Tutorials/HeadModel|Head model]] <<HTML( )>>20. [[Tutorials/NoiseCovariance|Noise covariance]] <<HTML( )>>21. [[Tutorials/SourceEstimation|Source estimation]] <<HTML( )>>22. [[Tutorials/Scouts|Scouts]] |
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| 1. [[Tutorials/TimeFrequency|Time-frequency]] 1. [[Tutorials/Statistics|Statistics]] 1. [[Tutorials/Connectivity|Connectivity]] 1. [[Tutorials/Scripting|Advanced scripting]] |
<<HTML( )>>23. [[Tutorials/TimeFrequency|Time-frequency]] <<HTML( )>>24. [[Tutorials/Statistics|Statistics]] <<HTML( )>>25. [[Tutorials/Connectivity|Connectivity]] <<HTML( )>>26. Phase-amplitude coupling <<HTML( )>>27. [[Tutorials/Scripting|Advanced scripting]] <<HTML( )>>28. Complete tutorial script <<HTML( )>>29. Summary <<HTML(</TD></TR></TABLE>)>> |
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| 1. [[http://neuroimage.usc.edu/brainstorm/Tutorials/Auditory|MEG auditory tutorial (CTF)]] | 1. [[http://neuroimage.usc.edu/brainstorm/Tutorials/Auditory|MEG auditory tutorial]] 1. [[Tutorials/MedianNerveCtf|MEG median nerve (CTF)]] [Under construction] |
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| 1. [[http://neuroimage.usc.edu/brainstorm/Tutorials/TutMindNeuromag|MEG median nerve (Elekta-Neuromag)]] 1. [[http://neuroimage.usc.edu/brainstorm/Tutorials/Resting|MEG resting state (CTF)]] |
1. [[http://neuroimage.usc.edu/brainstorm/Tutorials/TutMindNeuromag|MEG median nerve (Elekta-Neuromag)]] [Under construction] 1. [[http://neuroimage.usc.edu/brainstorm/Tutorials/Resting|MEG resting state]] |
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| === Interface === 1. [[Tutorials/MontageEditor|Montage editor]] [Under construction] |
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| 1. [[Tutorials/DefaultAnatomy|Using the anatomy templates]] | 1. [[Tutorials/DefaultAnatomy|Using the anatomy templates]] [Under construction] |
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| 1. [[Tutorials/MegCoreg|Co-registration of MEG runs]] [Under construction] | 1. Group studies: Averaging |
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| === Graphical scripting === | === Scripting === |
Tutorials
These tutorial pages suppose you are comfortable with the basic concepts of MEG/EEG analysis and source imaging. If you're not, we encourage you to read some background literature.
Get started
The easiest way to get started with Brainstorm is to read and follow carefully these introduction tutorials. In just a few hours, you will be introduced to the essential features of the application.
| Starting a new study Reviewing and pre-processing 4. Channel file & MRI coregistration 8. Stimulation delays [Under construction] 9. Frequency filters [Under construction] 10. Bad channels [Under construction] 11. Artifact detection [Under construction] 12. Artifact cleaning with SSP [Under construction] 13. Additional bad segments [Under construction] Epoching and averaging [Under construction] 14. Import epochs 15. Average response 16. Exploring the average response 17. 2D/3D topography 18. Colormaps | Source modeling [Under construction] 19. Head model 20. Noise covariance 22. Scouts Advanced topics [Under construction] 23. Time-frequency 24. Statistics 25. Connectivity 26. Phase-amplitude coupling 28. Complete tutorial script 29. Summary |
Complete analysis of other datasets
MEG median nerve (CTF) [Under construction]
MEG median nerve (Elekta-Neuromag) [Under construction]
Advanced tutorials
Interface
Montage editor [Under construction]
Anatomy and registration
MRI segmentation: FreeSurfer, BrainVISA, BrainSuite, CIVET
Using the anatomy templates [Under construction]
- Group studies: Averaging
Scripting
Source modeling
Beamforming methods [Under construction]
Maximum Entropy on the Mean (MEM) [Under construction]
Functional connectivity
Statistics
Other useful how-to's
?MEG analysis guidelines for McGill
Examples
This video illustrates how Brainstorm can be used for studying amygdala activity:
How to Detect Amygdala Activity with Magnetoencephalography using Source Imaging
Authors: Balderston NL, Schultz DH, Baillet S, Helmstetter FJ
Background readings
These tutorial pages suppose you are comfortable with the basic concepts of MEG and EEG source imaging. If you're not, we engage you to read some background information, which will quickly help you getting up to speed with this field:
A non-technical overview of MEG and EEG, with an emphasis on source modeling:
Canada MEG ConsortiumSlides from a selection of educational courses:
megcommunity.org- Reference books:
MEG: An Introduction to Methods
Editors: P Hansen, M Kringelbach, R Salmelin, Oxford University Press, 2010, 448 pagesThe Oxford Handbook of Social Neuroscience
Editors: J Decety, JT Cacioppo, Oxford University Press, 2011, 1128 pages
A draft version of the MEG chapter by Sylvain Baillet can be found here.
Good practice for conducting and reporting MEG research, Gross et al, Neuroimage, 2013
You can also ask us to come and organize a training session at your institution, or visit us to obtain training (McGill's Montreal Neurological Institute).
Now you are well equipped to go through the software tutorial, Enjoy!