Los Angeles, CA, USA: December 5th, 2024

Register Now: seats are very limited!

This full-day workshop will take place at the University of Southern California on Dec 5th, immediately prior to the American Epilepsy Society Meeting (AES 2024). This session will highlight Brainstorm's unique features for multimodal scalp electrophysiology data analysis (EEG/MEG), with a second focus on intracranial recordings (iEEG).

Participants are invited to their personal laptops for a unique hands-on experience (data will be provided).

Registration is now open via this page.

General information

Where	University of Southern California
When	Thursday December 5th, 2024, 8:30-17:30
Instructor	Brainstorm team
Registration	Registration is now open.
Audience	Users interested in analyzing iEEG recordings using Brainstorm. Teaching in English.
Documents	Introduction slides | Walkthrough |Survey

Requirements

In order to make the workshop as efficient as possible, we ask all the attendees to: download, install and test the software and download the workshop dataset on their laptops prior to the workshop.

Installing Brainstorm

Please read carefully the following instructions on:
preparing your laptop for the training

Workshop dataset

In this workshop, we will be working on a multimodal data. In the morning session we will work on combined EEG/MEG data sets. In the afternoon we will use SEEG dataset recorded at the Epilepsy Monitoring Unit at UTHealth Houston.

Morning Session (EEG and MEG Analysis)

The workshop dataset for this session is a pre-processed version of the dataset used in the Brainstorm tutorial on median nerve stimulation. It consists of simultaneous EEG and MEG recordings during a median nerve stimulation experiment (right arm). A full description of the dataset can be found here.

Once you have successfully installed and tested Brainstorm (see previous section), proceed to download the dataset for the workshop.

1. Download the tutorial dataset (360 MB):

   • workshopLaxMorning.zip

2. Unzip the downloaded file on your desktop: it will create a new folder named workshopLaxMorning

3. Final check: after following the steps above, you should have 3 folders on your desktop:

   • brainstorm3: the software folder, containing the source code and the compiled executable

   • brainstorm_db: your Brainstorm database (which should be empty for now)

   • workshopLaxMorning.zip: Dataset used during the workshop session

Afternoon Session (SEEG Analysis)

In this session of the workshop, we will be working on a SEEG dataset recorded at the Epilepsy Monitoring Unit at UTHealth Houston.

The data is distributed as raw and pre-processed data.

1. raw data is located in the file workshopLaxAfternoon_raw.zip which contains raw SEEG recordings (in EDF format), T1 MRI and CT scan (both in NIfTI format). The raw SEEG recordings correspond to:

   1. Two files containing seizure onset:
      1. Seizure onset with Low-voltage-fast-activity
      2. Seizure with Ictal repetitive spiking
   2. One file with interictal spike, and
   3. One file containing baseline recordings

2. pre-processed data is located in the file workshopLaxAfternoon_precomputed.zip, which contains a Brainstorm protocol with the raw data already pre-processed.

Once you have successfully installed and tested Brainstorm (see previous section), proceed to download the data to be used in the workshop.

1. Download the raw data:

   • workshopLaxAfternoon_raw.zip

2. Unzip the downloaded raw data on your desktop: it will create a new folder named workshopLaxAfternoon_raw

3. Download the pre-processed data. Do not unzip this file:

   • workshopLaxAfternoon_precomputed.zip

4. Final check: after following the steps above, you should have 3 folders on your desktop:

   • brainstorm3: the software folder, containing the source code and the compiled executable

   • brainstorm_db: your Brainstorm database (which should be empty for now)

   • workshopLaxAfternoon_raw.zip: Raw data, for SEEG localization demonstration

   • workshopLaxAfternoon_precomputed.zip: Pre-processed Brainstorm protocol for workshop session

Program

Thursday, December 5, 2024

08:30-09:00	Registration & Check in
09:00-09:05	Introduction to the Workshop - Richard Leahy, USC, USA
09:05-09:35	BioPhysics of MEG/EEG/SEEG - John Mosher, UTH, USA
09:35-10:00	Brainstorm Overview - Takfarinas Medani, USC, USA
10:00-10:15	Coffee Break Onsite assistance in installing the material for the training session
10:15-10:45	Tutorial – Hands-On Brainstorm 1/5 - Y.Vakilna, C.Chinara, & T.Medani Introduction to Brainstorm Interface Database explorer Loading anatomy and recordings Review MRI volumes, surfaces, Anatomical parcellations Review raw data, event markers, EEG/MEG sensors
10:45-12:15	Tutorial – Hands-On Brainstorm 2/5 - Y.Vakilna, C.Chinara, & T.Medani EEG and MEG Analysis Review RAW recordings & events Frequency filters Artifact detection & correction Analysis sensor level Import recordings Review trials Trial averages Source estimation Forward model (aka Head model) Noise covariance matrix Source estimation
12:15-13:00	Lunch Break (Provided)
13:00-14:00	Tutorial – Hands-On Brainstorm 3/5 - Y.Vakilna, C.Chinara, & T.Medani SEEG: Anatomy Data CT volumes Coregistration: pre- / post-implantation images SEEG: Functional Data Manual marking of SEEG contacts on post-implantation image Automatic marking of SEEG contacts on post-implantation image Automatic anatomical labeling of SEEG contacts Reviewing continuous SEEG recordings Montages and management of event markers
14:00-15:30	Tutorial – Hands-On Brainstorm 4/5 - Y.Vakilna, C.Chinara, & T.Medani SEEG Analysis ==>Import precomputed Brainstorm protocol<== sEEG Montage Configuration sEEG Frequency Analysis and Filtering Compute Forward Model (aka the Head or Lead Field Model) Compute Noise Covariance Matrix Compute Inverse Model View Source Results Atlases and Scouts
15:30-15:45	Coffee Break
15:45-17:00	Tutorial – Hands-On Brainstorm 5/5 - Y.Vakilna, C.Chinara, & T.Medani Advanced topics - SEEG Analysis Modeling interictal spikes Modeling ictal wave within the seizure window
17:00	End of the workshop

We will provide a detailed step-by-step walkthrough of the data analyses performed at the training. In addition, results obtained in this workshop can be replicated with this script (to be updated).

Troubleshooting

For any technical problem, please contact Takfarinas Medani ( medani@usc.edu )