Published October 14, 2023 | Version v1
Software Open

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

  • 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

Contributors

Contact person:

  • 1. NeuroLibre

Description

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: 

  1. docker load < DockerImage_10.55458_NeuroLibre_00017_5694fa.tar.gz
  2. 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
  3. 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
  4. 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.
  5. 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.

https://neurolibre.org

Files

Files (685.1 MB)

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md5:1d5a494c83563f0c622b0c9a063d2b67
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Additional details

Related works

Is part of
Preprint: 10.55458/neurolibre.00017 (DOI)