SEEG electrode placement with Brainstorm

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3D visualization of SEEG electrodes. SEEG electrodes have been generated and placed using Brainstorm .

Disclaimer

The methods and software used in this tutorial have not been certified for clinical practice and should be considered for research purposes only.

About this tutorial

The objective of this tutorial is to guide HIP users in placing SEEG electrodes on a post-implantation volume using Brainstorm. It primarily consists of a video demonstration and should be viewed as an introductory tutorial because it does not go into all the intricacies of the placement of SEEG electrodes.

For more in-depth information regarding the placement of SEEG electrodes using Brainstorm, please refer to the following official tutorials:

Requirements

There are no technical requirements to follow this tutorial because the dataset and software are available on the HIP.

HIP software used in this tutorial:

HIP dataset used in this tutorial:

Prepare the working environment

This tutorial relies on data available in the Epimap tutorial dataset, and the following file will be used:

  • anat/MRI/3DT1post_deface.nii

Copy this file into your private space so that it can be processed. Please, refer to the How to use the HIP spaces guide if you need help with this step. It is also advised to initiate a new Desktop. Pleases refer to the How to use Desktops and run applications from the App Catalog guide if you need help with this step.

Place SEEG electrodes with Brainstorm

Important

Applications running in a Desktop environment have access to your Private Space data under the /home/<HIP_USER>/nextcloud directory. Any data and/or configuration file outside of this directory will be lost when the application or desktop are closed. This is the only persistent directory as it is tied to the HIP user’s Private Space at application startup. Make sure you are always working within the /home/<HIP_USER>/nextcloud directory when using applications.

The accurate placement of SEEG electrodes requires some knowledge and a good understanding of the implantation procedure (an implantation scheme or equivalent) and of the type of material that has been implanted (SEEG electrode type/characteristics) and some expertise in brain anatomy. It is also important to work on a high-resolution CT scan or T1 MRI scan acquired after the implantation of the depth electrodes so that the recording contacts appear either in hypersignal or in hyposignal.

For confidentiality reasons, the implantation scheme will not be disclosed for this tutorial and the video demonstration focuses on the technical procedure to place SEEG electrodes and generate a standardized implantation file using Brainstorm.