Tutorials

[UNDER CONSTRUCTION]

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. In just a few hours, you will be introduced to the essential features of the application.

Starting a new study     1. Create a new protocol     2. Import the subject anatomy     3. Explore the anatomy Reviewing     4. Channel file | MRI registration     5. Continuous recordings     6. Multiple windows     7. Event markers Pre-processing     8. Stimulation delays     9. Select files | Run processes     10. Power spectrum | Frequency filters     11. Artifact detection [Under construction]     12. Artifact cleaning with SSP [Under construction]     13. Bad channels [Under construction]     14. Additional bad segments [Under construction] Epoching and averaging [Under construction]     15. Import epochs [Under construction]     16. Average response [Under construction]     17. Exploring the average response     18. 2D/3D topography     19. Colormaps

Source modeling [Under construction]     20. Head model     21. Noise covariance     22. Source estimation     23. Scouts Advanced signal processing [Under construction]     24. Time-frequency     25. Statistics     26. Connectivity     27. Phase-amplitude coupling Scripting [Under construction]     28. Complete tutorial script     29. All the tutorials on the same page

Complete analysis of other datasets

1. EEG and epilepsy

2. MEG auditory tutorial

3. MEG median nerve (CTF) [Under construction]

4. MEG median nerve (Yokogawa/KIT)

5. MEG median nerve (Elekta-Neuromag) [Under construction]

6. MEG resting state

Advanced tutorials

Interface

1. Montage editor [Under construction]

Anatomy and registration

1. Brainstorm coordinate systems

2. MRI segmentation: FreeSurfer, BrainSuite, BrainVISA, CIVET

3. Using the anatomy templates [Under construction]

4. Warping default anatomy

5. Group analysis: Subjects coregistration

6. Group analysis: Averaging [Under construction]

7. Digitize EEG electrodes and head shape

8. Real-time head positioning in the CTF MEG system

Scripting

1. How to write your own process

Source modeling

1. BEM with OpenMEEG

2. Volume source estimation

3. Computing and displaying dipoles

4. Beamforming methods [Under construction]

5. Maximum Entropy on the Mean (MEM) [Under construction]

Functional connectivity

1. Phase-amplitude coupling

Statistics

1. Export volume source maps to SPM8 / SPM12

2. Export surface source maps to SPM12

Other useful how-to's

1. How to cite Brainstorm in your publications

2. Known bugs

3. ?MEG analysis guidelines for McGill

4. Cleaning artifacts using SSP: examples

5. ?Detecting bad segments in continuous recordings

6. Detect subject movements

7. Real-time head-tracking for adjusting head position

8. A tutorial in Japanese (click on the menu "Brainstorm")

Examples

1. 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 Consortium

• Slides 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 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

• 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!