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Binder All Contributors

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BioSimulators tutorials

This repository contains Jupyter notebooks with tutorials for the Python APIs for the simulation tools registered with BioSimulators and a Jupyter notebook server for running the notebooks.

The tutorials are located in the tutorials subdirectory. The README in this directory summarizes the content of the tutorials.

Getting started

Running the tutorials online with Binder

The easiest way to run the tutorials is with Binder. Simply open https://tutorial.biosimulators.org/ in your browser.

Running the tutorials on your own machine

Run the following command to download the tutorials:

docker pull ghcr.io/biosimulators/tutorials

Run the following command to launch a Jupyter notebook server at http://localhost:8888 for the tutorials in this repository:

docker run -it --rm -p 8888:8888 ghcr.io/biosimulators/tutorials jupyter notebook --ip=0.0.0.0 --port=8888

Alternatively, run the following command to launch a Jupyter lab server at http://localhost:8888 for the tutorials in this repository:

docker run -it --rm -p 8888:8888 ghcr.io/biosimulators/tutorials jupyter lab --ip=0.0.0.0 --port=8888

License

This package is released under the MIT license.

Development team

This package was developed by the Karr Lab at the Icahn School of Medicine at Mount Sinai in New York as part of the Center for Reproducible Biomodeling Modeling with assistance from the contributors listed here.

Funding

This package was developed with support from the National Institute for Bioimaging and Bioengineering (award P41EB023912).

Questions and comments

Please contact us at info@biosimulators.org with any questions or comments.