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README.md

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Scripts for computing multivariate, state-space Granger causality.

Used in the manuscript: Köhler et al. (Pre-print). Dopamine and neuromodulation accelerate the neural dynamics of volitional action in Parkinson’s disease. DOI: 10.1101/2023.10.30.564700.

Relies on a modified version of the MNE-Connectivity package, available here: github.com/neuromodulation/mne-connectivity_tsbinns

Use

  1. Preprocessed data can be converted from an MNE Epochs object to the custom Signal object using the script epochs_to_signal.py.
  2. Granger causality can be computed from the Signal objects using the scripts in the processing folder, e.g. data_processing_granger_causality_preset_hpc.py and run_gc.sh for computing connectivity on a high performance cluster.