Project: epiSTIM as 3d slicer extension

MartBony commented 1 month ago

Draft Status

Draft - team will hold off on page creation

Presenter Location

Online

Key Investigators

Carole-Anne COS (ICM, France)
Martin GREGORIO (ICM, France)
Sara FERNANDEZ VIDAL (ICM, France)

Project Description

We are proposing a new extension to 3D Slicer designed to help clinicians and researchers to manage neuroimaging data needed for SEEG procedures. This is a 3d slicer extension that is based on former code from the epiSTIM project by Sara Fernandez Vidal.

SEEG Introduction : Intracerebral electrodes are used in the context of stereo-electroencephalography (SEEG) recordings in patients with pharmacoresistant epilepsy. SEEG is an invasive method used to determine which anatomical structures of the brain generate epileptic seizures. SEEG is usually used when non-invasive explorations are inconclusive. A precise localization and 3D visualization of brain anatomy is crucial to precisely plan intracerebral electrode trajectories and then localize the origine and spreading of the seizures.

Objective

Bundle all our previous sparse code into a self-contained slicer extension that works with docker.

Approach and Plan

Our previous work focused on converting existing code (epiSTIM) into user friendly slicer modules that loosely work with each other. We used the software docker to bundle parts of the processing to improve portability and version handling. Docker images were used to run Brainvisa, Freesurfer and Fastsurfer, sMRIprep, and more.

Plan

Clean up the current code and create a general repo of all our individual modules.
Research the process of bundling our modules into an extension.
Build the extension.
Determine a platform for the application to run on : Personal computers of clinicians or a server.

Progress and Next Steps

Several key modules have already been written for the SEEG pipeline. Some are to be finished before the week so that we can concentrate on the extension.

Illustrations

SEEGetEpiSTIM EN

Background and References

No response

sjh26 commented 1 month ago

Hi @MartBony , this is currently marked as a draft. If it is ready to go please let us know in a comment and we will get the page created.

MartBony commented 1 month ago

Hi @sjh26, we're done, you can create the page !

github-actions[bot] commented 1 month ago

Project Page Pull Request Creation

:white_check_mark: COMPLETED: See https://github.com/NA-MIC/ProjectWeek/pull/1184

NA-MIC / ProjectWeek