Workshop on refineGEMs & SPECIMEN

This repository contains the data, Jupyter Notebooks and setup for a workshop on the toolbox refineGEMs and the workflow collection SPECIMEN.

License

• Code (Python scripts, Jupyter notebooks, shell pipelines) is released under the MIT License. See the LICENSE file.
• Tutorial text, figures, slides, and other non‑code material are released under Creative Commons Attribution 4.0 International (CC‑BY‑4.0). See LICENSE-CC-BY.txt.
• This tutorial uses data from UniProt (see folder ./data/Uniprot) (The UniProt Consortium, licensed under CC-BY 4.0).
• This tutorial also uses data from the National Center for Biotechnology Information (NCBI), which is in the public domain (see folder ./data/ and ./data/template/).

This tutorial uses models from the BioModels Database (see folder ./data/template).
Models are released under the Creative Commons Attribution 4.0 International (CC-BY-4.0) license.
Please cite the original model authors as indicated on the BioModels entry pages.

Feel free to reuse, remix, and redistribute as long as you give appropriate credit.