Machine Learning of Brain-specific Biomarkers from EEG

This repository contains the research code from Bomatter et al 2024, eBioMedicine.

For the software library please checkout the meeglet package.

Install Instructions

1. Create a conda environment from the environment.yml file: conda env create -f environment.yml
2. Activate the environment: conda activate eeg-biomaker-paper
3. Install the core package: pip install -e .

Configuration

1. Create a copy of config.example.yml and rename it to config.yml
2. Adjust the configurations to specify the paths to the datasets in BIDS format as well as output paths where results should be saved.

Replication of Paper Results

1. Request access and download the TUAB and TDBRAIN datasets. Configure the DATASETS.TUAB.source_root and the DATASETS.TDBRAIN.bids_root directories in your config.yml file accordingly. Note that TDBRAIN is provided in BIDS format whereas the TUAB dataset will be converted to BIDS format using a script in the next step.
2. Run through the notebooks in the scripts folder in the order indicated by the file names to reproduce the paper results.