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| 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/Tutorials#Background_readings|background literature]].<<BR>>To get a quick overview of the software interface, you can watch this [[Screenshots|introduction video]].<<BR>><<HTML(<FONT color="#C0C0C0" >)>>If you are looking for the old tutorials, they are still available [[TutorialsOld|here]]. <<HTML(</FONT>)>> | 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/Tutorials#Background_readings|background literature]].<<BR>>To get a quick overview of the software interface, you can watch this [[Screenshots|introduction video]]. |
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| '''Advanced processing''' | '''Advanced processes''' |
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| * [[Tutorials/Epileptogenicity|SEEG epileptogenicity maps]] | * Intracranial EEG: iEEG/[[Tutorials/Epileptogenicity|SEEG epileptogenicity maps]] |
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| * [[https://neuroimage.usc.edu/brainstorm/Tutorials/CorticomuscularCoherence|MEG corticomuscular coherence (CTF)]] | |
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| * MRI segmentation: [[https://neuroimage.usc.edu/brainstorm/Tutorials/SegCAT12|CAT12]], [[Tutorials/LabelFreeSurfer|FreeSurfer]], <<BR>>[[Tutorials/SegBrainSuite|BrainSuite]], [[Tutorials/SegBrainVisa|BrainVISA]], [[Tutorials/SegCIVET|CIVET]] | * MRI segmentation: [[https://neuroimage.usc.edu/brainstorm/Tutorials/SegCAT12|CAT12]], [[Tutorials/LabelFreeSurfer|FreeSurfer]], <<BR>>[[Tutorials/SegBrainSuite|BrainSuite]], [[Tutorials/SegBrainVisa|BrainVISA]], [[Tutorials/SegFastSurfer|FastSurfer]], [[Tutorials/SegCIVET|CIVET]] |
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| * [[MnePython|MNE-Python]] | |
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| * [[Tutorials/Duneuro|Realistic head model: FEM with DUNEuro]] * [[Tutorials/FemMesh|FEM mesh generation]] * [[https://neuroimage.usc.edu/brainstorm/FemTensors|FEM tensors estimation]] |
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| '''Finite Element Modeling''' * [[Tutorials/Duneuro|Realistic head model: FEM with DUNEuro]] * [[Tutorials/FemMesh|FEM mesh generation]] * [[Tutorials/FemTensors|FEM tensors estimation]] * [[Tutorials/FemMedianNerveCharm|FEM median nerve example]] |
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| * [[Tutorials/Connectivity|Functional connectivity]] [TODO] | * [[Tutorials/EZFingerprint|Epileptogenic Zone Fingerprint]] * [[https://neuroimage.usc.edu/brainstorm/Tutorials/Fooof|FOOOF: Fitting Oscillations & One-Over-F]] * [[https://neuroimage.usc.edu/brainstorm/Tutorials/SPRiNT|SPRiNT: Spectral Param. Resolved in Time]] '''Connectivity''' * [[Tutorials/Connectivity|Functional connectivity]] * [[https://neuroimage.usc.edu/brainstorm/Tutorials/CorticomuscularCoherence|Corticomuscular coherence]] * [[https://neuroimage.usc.edu/brainstorm/Tutorials/ConnectivityGraph|Connectivity graphs]] |
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* [[Tutorials/EZFingerprint|Epileptogenic Zone Fingerprint]] * [[https://neuroimage.usc.edu/brainstorm/Tutorials/Fooof|FOOOF: Fitting Oscillations & One-Over-F]] * [[MnePython|MNE-Python]] '''Deprecated documentation''' * [[Tutorials/VisualSingleOrig|MEG visual: single subject (Elekta/Orig)]] * [[Tutorials/VisualGroupOrig|MEG visual: group study (Elekta/Orig)]] <<HTML(</TD></TR></TABLE>)>> == Multiunit electrophysiology == Learn how to use Brainstorm for studying single & multiunit activity. |
* [[https://neuroimage.usc.edu/brainstorm/GrangerCausality|Granger causality]] <<HTML(</TD></TR></TABLE>)>> == Electrophysiology == Learn how to use Brainstorm for analyzing single/multi-unit electrophysiological data in a variety of preparations: |
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| * [[https://neuroimage.usc.edu/brainstorm/e-phys/SpikeSorting#Supervised_Spike_Sorting|Spike-sorting]] | * [[https://neuroimage.usc.edu/brainstorm/e-phys/SpikeSorting|Spike-sorting]] |
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| * [[https://neuroimage.usc.edu/brainstorm/e-phys/functions|Tuning Curves]] * [[https://neuroimage.usc.edu/brainstorm/e-phys/functions#Noise_Correlation|Noise Correlation]] * [[https://neuroimage.usc.edu/brainstorm/e-phys/functions#Spike_Field_Coherence|Spike Field Coherence]] * [[https://neuroimage.usc.edu/brainstorm/e-phys/functions#Raster_Plots|Raster Plots]] * [[https://neuroimage.usc.edu/brainstorm/e-phys/functions#Spike_triggered_Average|Spike Triggered Average]] |
* [[https://neuroimage.usc.edu/brainstorm/e-phys/functions|Tuning curves]] * [[https://neuroimage.usc.edu/brainstorm/e-phys/functions#Noise_correlation|Noise correlation]] * [[https://neuroimage.usc.edu/brainstorm/e-phys/functions#Spike_field_coherence|Spike field coherence]] * [[https://neuroimage.usc.edu/brainstorm/e-phys/functions#Raster_plots|Raster plots]] * [[https://neuroimage.usc.edu/brainstorm/e-phys/functions#Spike_triggered_average|Spike triggered average]] |
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| * [[http://rdcu.be/pydB|Nature Neuroscience review paper on MEG for Human Electrophysiology and Imaging]] (Baillet S, 2017) | * [[http://rdcu.be/pydB|MEG for Human Electrophysiology and Imaging]] (Baillet S, Nature Neuroscience, 2017) * [[https://doi.org/10.1016/j.neuroimage.2021.118788|Connectomics of Human Electrophysiology]] (Sadaghiani S, Brookes M, Baillet S, Neuroimage, 2022) |
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| * [[https://mitpress.mit.edu/books/matlab-brain-and-cognitive-scientists|MATLAB for Brain and Cognitive Scientists]], Mike X Cohen, MIT press, 2017 |
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.
To get a quick overview of the software interface, you can watch this introduction video.
Get started
The easiest way to get started with Brainstorm is to read and follow carefully these introduction tutorials. They can be separately consulted (links below), or all in one page.
| Starting a new study Reviewing 4. Channel file / MRI registration Pre-processing 9. Select files / Run processes 10. Power spectrum / Frequency filters 11. Bad channels | Epoching and averaging 15. Import epochs 16. Average response 18. Colormaps Source modeling 20. Head model 23. Scouts Advanced processes 24. Time-frequency 25. Difference 26. Statistics 27. Workflows 28. Scripting |
Other analysis scenarios
Advanced tutorials
| Anatomy and registration
Recordings Scripting Software | Source modeling Finite Element Modeling Signal processing Connectivity |
Electrophysiology
Learn how to use Brainstorm for analyzing single/multi-unit electrophysiological data in a variety of preparations:
Background readings
These tutorial pages suppose you are comfortable with the basic concepts of MEG and EEG source imaging. If you're not, we encourage you to read some background information, which will quickly help you getting up to speed with this field:
MEG for Human Electrophysiology and Imaging (Baillet S, Nature Neuroscience, 2017)
Connectomics of Human Electrophysiology (Sadaghiani S, Brookes M, Baillet S, Neuroimage, 2022)
Introduction to MEG (Medical College of Wisconsin)
A non-technical overview of MEG and EEG, with an emphasis on source modeling.MEG: An Introduction to Methods
Editors: P Hansen, M Kringelbach, R Salmelin, Oxford University Press, 2010, 448 pages.The 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.
MATLAB for Brain and Cognitive Scientists, Mike X Cohen, MIT press, 2017
Slides from a selection of educational courses: megcommunity.org
We can also come and organize a training session at your institution, or visit us at the MNI.
Now you are well equipped to go through the software tutorial, Enjoy!