MEP Variability Analysis

This repository contains a notebook for loading EMG .mat files from the ds002094 dataset and analyzing trial-by-trial MEP variability from the article https://www.nature.com/articles/s41598-022-10239-3#Sec2 from the dataset https://openneuro.org/datasets/ds002094/versions/1.0.0 .

The main notebook is:

variability_code.ipynb

Data Location

You need to download the data locally:

1. Open your git bash and go to your dir with the data (cd ...\mep_variability\data <- put here your real path)
2. Then clone the repo $ git clone https://github.com/OpenNeuroDatasets/ds002094.git
3. There will be some .mat files (but their size will be 1 kb - like an empty)
4. Than you will need annex https://downloads.kitenet.net/git-annex/windows/current/ (download and install git-annex-installer.exe )
5. Then return to your git bash and $ git annex get sourcedata/emg - bcs basically we need only this files with emg data

you need to change the path in the notebook

EMG_ROOT = Path(r"C:\path\to\ds002094\sourcedata\emg")

Each subject has six files to six blocks of 100 pulses (100X6 = 600 pulses per participant).

Setup With uv

Install uv if you need it :

powershell -ExecutionPolicy ByPass -c "irm https://astral.sh/uv/install.ps1 | iex"

Go to the folder with files from this repo and create or update the environment (this command will get the data about packages from the pyproject file):

uv sync

Then open:

variability_code.ipynb

Notes

Do not commit raw .mat files or generated CSV outputs. They are intentionally excluded by .gitignore.

The notebook is need to be run cell-by-cell, starting from the imports and EMG loading cells.

Gleb Perevoznyuk, Gotlibb