YOUNG RESEARCHERS EVENT 2022 🏝

New digital tools to study the brain

Introduction to the ENIGMA and BrainStat Toolboxes | 🧰 | Surface data visualisation and multiscale neural contextualisation

• ENIGMA Toolbox

  Larivière S, Paquola C, Park BY, Royer J, Wang Y, Benkarim O, Vos de Wael R, Valk SL, Thomopoulos SI, Kirschner M, Lewis LB. The ENIGMA Toolbox: multiscale neural contextualization of multisite neuroimaging datasets. Nature Methods. 2021 Jul;18(7):698-700.

• BrainStat

  Larivière S, Bayrak Ş, Vos de Wael R, Benkarim O, Herholz P, Rodriguez-Cruces R, Paquola C, Hong SJ, Misic B, Evans A, Valk S. BrainStat: A toolbox for brain-wide statistics and neuroscientific contextualization. Under review (NeuroImage).

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🐍 Python installation

To do the tutorials in python, clone and install the ENIGMA Toolbox repository:

git clone https://github.com/MICA-MNI/ENIGMA.git
pip install /path/to/<ENIGMA>

Also clone the current repository and install the requirements:

git clone https://github.com/saratheriver/YRE-2022.git

cd /path/to/<YRE-2022>/
python -m pip install -r requirements.txt

🌋 Matlab installation

To do the tutorials in matlab, clone the current repository:

git clone https://github.com/saratheriver/YRE-2022.git

Also clone the ENIGMA Toolbox and BrainStat repositories and add their paths in matlab:

git clone https://github.com/MICA-MNI/BrainStat.git
git clone https://github.com/MICA-MNI/ENIGMA.git

addpath(genpath('/path/to/<ENIGMA>/matlab/'))
addpath(genpath('/path/to/<BRAINSTAT>/brainstat_matlab/'))

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🔗 Tutorial links

🐍 Python

| 1 | ENIGMA Toolbox tutorial
| 2 | BrainStat tutorial

🌋 Matlab

| 1 | ENIGMA Toolbox tutorial
| 2 | BrainStat tutorial