OpenNeuro#
Overview#
OpenNeuro is a free and open platform for sharing MRI, MEG, EEG, iEEG, ECoG, ASL, and PET data. Below, we describe how to integrate OpenNeuro data with DataLad and AWS.
DataLad#
Installation#
Install datalad using conda :
source miniconda3/etc/profile.d/conda.sh
# TO DO ONLY ONCE:
conda create -y -n venv3.7 python=3.7
# TO ACTIVATE:
conda activate venv3.7
pip install datalad
su
apt-get install git-annex
Install datalad using conda :
source miniconda3/etc/profile.d/conda.sh
# TO DO ONLY ONCE:
conda create -y -n venv3.7 python=3.7
# TO ACTIVATE:
conda activate venv3.7
pip install datalad
# first, install brew: https://brew.sh/
brew install git-annex
Usage#
Install dataset from OpenNeuro:
datalad install https://github.com/OpenNeuroDatasets/ds001919.git
Get one subject:
datalad get sub-unf01
Get all subjects:
datalad get .
Update dataset:
datalad update -r —merge
AWS#
Installation#
Follow the AWS Installation Instructions for Linux.
Follow the AWS Installation Instructions for MacOS.
Follow the AWS Installation Instructions for Windows.
Download OpenNeuro Dataset#
Download dataset from openneuro by running this command:
/usr/local/bin/aws s3 sync --no-sign-request s3://openneuro.org/ds001919 ds001919-dwld/