This repository contains codes for the MNI ET data set analysis. Matching and confounder are the 2 main tools used in this analysis.
Pre-registration report: -------------
Pre-registration report on OSF.
Dependencies :
Installation (need update) ------------
First, make sure you have installed all the dependencies listed above. Then you can install cog-align by running the following commands:
git clone https://github.com/neurodatascience/ET_biomarker
cd ET_biomarker
pip install -e .
You can confirm that the package has successfully installed by opening a Python terminal and running the following commands:
import ET_biomarker
The main analysis codes are organized as jupyter notebooks located in the root folder of ET_biomarker, and they are:
- 0_power_analysis.ipynb: The power analysis for this project;
- 1_cohort_matching.ipynb: The matching procedure to make sure that the ET and control groups are sex and age matched;
- 2_analysis_cerebellar_roi.ipynb: The freesurfer and SUIT results analysis;
- TBD...
-1) Execute a file directly in shell, codes are located in experiments
folder (which includes code to re-execute all of the main and supplemental experiments included in the manuscript):
python experiments/exp1.py