kerseviciute / spontaneous-movement

Spontaneous movement

How to run this analysis

The data should be available under the raw directory in this repository root (create a symbolic link).

1. Install conda and mamba. Create the snakemake (env/snakemake.yml) conda environment (required to run the analysis) and the spontaneous-movement-mne (env/mne.yml) conda environment (required to generate the reports).

mamba env create -f env/snakemake.yml
mamba env create -f env/mne.yml

2. Activate the snakemake environment.

conda activate snakemake

3. Run snakemake:

snakemake --conda-frontend mamba --use-conda --cores 1 -p all

TODO

• Go through the movement detection and update / make sure everything works as expected.
• Update the pipeline to use .csv whenever possible and update integration with R
• Generate figures in the pipeline
• Create reports for all performed analyses
• Does the frequency of action potentials increase during movement/rest? during various phases of the movement onset?
• Wavelet transform during onset