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| 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 [[http://neuroimage.usc.edu/brainstorm/TutorialsNew#Background_readings|background information]]. | 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 [[http://neuroimage.usc.edu/brainstorm/TutorialsNew#Background_readings|background literature]]. |
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| The easiest way to get started with Brainstorm is to follow carefully those introduction tutorials. In just a few hours, you will be introduced to the essential features of the application. | 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. |
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| 1. [[Tutorials/BstFolders|Brainstorm architecture]] ''[10 min] '' 1. [[Tutorials/TutFirstSteps|First steps]] ''[30 min]'' 1. [[Tutorials/TutImportAnatomy|Importing individual anatomy]] ''[30 min]'' 1. [[Tutorials/TutImportRecordings|Importing MEG recordings]] ''[30 min]'' 1. [[Tutorials/TutExploreRecodings|Exploring the recordings]] ''[60 min]'' 1. [[Tutorials/TutHeadModel|Head model]] ''[30 min]'' 1. [[Tutorials/TutNoiseCov|Noise covariance]] ''[30 min]'' 1. [[Tutorials/TutSourceEstimation|Source estimation]] ''[45 min]'' 1. [[Tutorials/TutScouts|Scouts]] ''[45 min]'' 1. [[Tutorials/TutProcesses|Graphical scripting]] ''[45 min]'' 1. [[Tutorials/TutStat|Statistics]] ''[30 min]'' 1. [[Tutorials/TutTimefreq|Time-frequency]] ''[1:30 hr''] |
'''Starting a new study''' |
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| 1. [[Tutorials/TutRawViewer|Review continuous recordings and edit markers]] ''[2:00 hr]'' 1. [[Tutorials/TutRawSsp|Detect and remove artifacts]] ''[2:00 hr]'' 1. [[Tutorials/TutRawAvg|Epoching and averaging]] ''[1:30 hr]'' |
<<HTML( )>>1. [[Tutorials/CreateProtocol|Create a new protocol]] <<HTML( )>>2. [[Tutorials/ImportAnatomy|Import the subject anatomy]] <<HTML( )>>3. [[Tutorials/ExploreAnatomy|Explore the anatomy]] '''Reviewing and pre-processing''' <<HTML( )>>4. [[Tutorials/ChannelFile|Channel file and coregistration MEG-MRI]] <<HTML( )>>5. [[Tutorials/ReviewRaw|Continuous recordings]] <<HTML( )>>6. [[Tutorials/Desktop|Multiple windows]] [Under construction] <<HTML( )>>7. [[Tutorials/EventMarkers|Event markers]] [Under construction] <<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] '''Epoching and averaging''' [Under construction] <<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]] '''Source modeling''' [Under construction] <<HTML( )>>19. [[Tutorials/HeadModel|Head model]] <<HTML( )>>20. [[Tutorials/NoiseCovariance|Noise covariance]] <<HTML( )>>21. [[Tutorials/SourceEstimation|Source estimation]] <<HTML( )>>22. [[Tutorials/Scouts|Scouts]] '''Advanced topics''' [Under construction] <<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 == Complete analysis of other datasets == 1. [[http://neuroimage.usc.edu/brainstorm/Tutorials/Epilepsy|EEG and epilepsy]] 1. [[http://neuroimage.usc.edu/brainstorm/Tutorials/Auditory|MEG auditory tutorial]] 1. [[Tutorials/MedianNerveCtf|MEG median nerve (CTF)]] [Under construction] 1. [[http://neuroimage.usc.edu/brainstorm/Tutorials/Yokogawa|MEG median nerve (Yokogawa/KIT)]] 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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| === Complete analysis of other datasets === 1. [[Tutorials/Epilepsy|EEG and epilepsy]] 1. [[Tutorials/Resting|Resting state MEG]] 1. [[Tutorials/Yokogawa|Yokogawa/KIT MEG recordings]] 1. [[Tutorials/TutMindNeuromag|Elekta-Neuromag recordings]] 1. [[Tutorials/Auditory|Brainstorm-FieldTrip auditory tutorial]] [Under construction] 1. [[Tutorials/RatPac|Rat electrophysiology]] [Under construction] |
=== Interface === 1. [[Tutorials/MontageEditor|Montage editor]] [Under construction] |
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| 1. [[Tutorials/DefaultAnatomy|Using the anatomy templates]] [Under construction] | |
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| 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 and coregistration MEG-MRI
6. ?Multiple windows [Under construction]
7. Event markers [Under construction]
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!