Studying network variants with electroencephalography

This repository contains the materials and source code for my Master's thesis:

McCarthy, M. (2024). Studying network variants with electroencephalography [Master's thesis, University of Calgary]. PRISM Open Theses and Dissertations. https://hdl.handle.net/1880/118186

This project uses the targets R package to maintain a reproducible, end-to-end workflow for the entire computational pipeline. The configuration and computational steps in this pipeline can be found in _targets.R.

Repository Overview

• manuscripts/ contains all source files and rendered documents made by our targets pipeline, including the thesis document and supplementary materials.

• figures/ contains all figures made by our targets pipeline.

• _targets.R contains the target script file to configure and define our targets pipeline. This is executed using the run.R or run.sh scripts.

• _targets/ contains, locally, the data store of our targets pipeline; in addition to metadata on the status of each target, which is included online.

• data/ contains, locally, the raw and cleaned EEG and functional connectivity data, participant descriptive data; in addition to the data file used to handle EEG preprocessing for each recording, which is included online.

• R/ contains the custom user-defined functions used in our targets pipeline.

• python/ contains the scripts we used interactively during the initial EEG preprocessing stages of the project, which were later refactored into our targets pipeline using the reticulate R package.

• LICENSE.md contains a copy of the content and code licenses for this repository.

License

Content License

Except where otherwise noted, this project is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License. Please see LICENSE.md for a copy of this license.

You are free to:

Share---copy and redistribute the material in any medium or format.

Under the following terms:

Attribution---You must give appropriate credit, provide a link to the license, and indicate if changes were made. You may do so in any reasonable manner, but not in any way that suggests the licensor endorses you or your use.

NonCommercial---You may not use the material for commercial purposes.

NoDerivatives---If you remix, transform, or build upon the material, you may not distribute the modified material.

Code License

All source code in this project is licensed under the MIT License. Please see LICENSE.md for a copy of this license.

You are free to use, copy, modify, merge, publish, distribute, sublicense, and/or sell copies of the Software, and to permit persons to whom the Software is furnished to do so.

Under the following terms:

Attribution---You must include the following copyright notice "Copyright (c) 2024 Michael McCarthy" and provide a link to the license in all copies or substantial portions of the Software.