A database of the healthy human spinal cord morphometry in the PAM50 template space

Published October 14, 2023 | Version v1

Software Open

1. NeuroPoly Lab, Institute of Biomedical Engineering, Polytechnique Montreal, Montreal, QC, Canada
2. Department of Radiology and Nuclear Medicine, University Hospital Brno and Masaryk University, Brno, Czechia

Docker image built from the reference repository/commit by roboneuro, based on the latest change by the author, using repo2docker (through BinderHub).
To run locally, first download this tar.gz file, then:

docker load < DockerImage_10.55458_NeuroLibre_00017_5694fa.tar.gz
Download the dataset from https://neurolibre.org/papers/10.55458/neurolibre.00017 and unzip the folder (to Dataset_10.55458_NeuroLibre_00017_5694fa). From the same directory where this folder is located, run the following docker command
docker run -it --rm -p 8888:8888 -v $PWD/Dataset_10.55458_NeuroLibre_00017_5694fa:/home/jovyan/data DOCKER_IMAGE_ID jupyter lab --ip 0.0.0.0
Copy paste the URL that starts with http://127.0.0.1:8888/lab?token=######### to your web browser to access the Jupyter Lab running in the container.
In the notebook update the data directory respectively (to `../data/PAM50-normalized-metrics-neurolibre/file...` instead of `../data/PAM50-normalized-metrics-neurolibre/PAM50-normalized-metrics-neurolibre/file...`)

please replace DOCKER_IMAGE_ID above with the respective ID of the Docker image loaded from the zip file.

For details, please visit the corresponding NeuroLibre technical screening.

Files

Name	Size	Download all
DockerImage_10.55458_NeuroLibre_00017_5694fa.tar.gz md5:1d5a494c83563f0c622b0c9a063d2b67	685.1 MB	Download