MEG/EEG-pipeline documentation page

Status of the documentation build

MEG/EEG-pipeline provides documentation for the Magnetoencephalography (MEG) and ElectroEncephaloGraphy (EEG) systems in the MEG laboratory and EEG setup within Brain Imaging Core Technology Platform. It offers a simple and intuitive overview on how MEG machines work, the specification of the system, what kind of data are generated and how to process them using ready-to-use pipelines. This documentation additionally provides a guide to build your own MEG-system experiment and what is required to successfully execute the experiment.

If you like to get a .PDF document of this website, click here Download PDF

Check out the MEG System description: KIT Machine section for further information, including how to Data preparation the project.

Note

This project is under active development.

Systems Overview

• MEG System description: KIT Machine
  • System Overview
  • LAB setup
  • MEG-Channels
  • MEG-Racks
  • Contact
  • References
• MEG System description: OPM-MEG Machine
  • System Overview
• EEG System setup
• MEG Quizz

Operation Protocol

• Operation Protocol
  • Stylus location and markers

Experiments Design

• Implementing your experiment
  • Purpose
  • Definning the hardware needs for your experiment
  • Hardware involved in experiment
  • Files produced by the experiment design
  • Experiments example 1: Resting state
  • Experiments example 2: Triggering all channels on KIT
  • Experiments example 3: Response buttons experiment
• Building the requirement of your experiment

Pipelines and Data

• Pipeline Description
  • General overview
  • Data preparation
  • Installation
  • Reading the Raw Data
• Data storage
• Data naming and uploading protocol
  • Laser scan files
  • KIT-MEG files
  • OPM files
  • Data uploading
• Setting up your environment for processing
• Installing freesurfer on windows
• Kit2Fiff Tutorial
  • Kit2Fiff
  • Coreg without native MRI
• Software stack
  • Example:
  • Generic processing pipeline
  • Manual labelling of “bad” channels
  • Denoising
  • Independent component analysis
  • Frequency Analysis
  • Brain Source Estimate
  • Code Overview
• Pipeline Notebooks
  • Resting State Processing Pipeline
  • Data preparation and coregistration after data acquisition

Maintenance

• Maintenance of MEG system
  • Checks to be made
  • Data retrieval from ATP and ATL for diagnostic
  • Contacts table

Emergency and Risk Asessment

• Emergency procedures

Glossary and API

• Glossary
• API documentation of MEG-Pipeline
  • megpipeline