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richel

Welcome to MHCnuggets! Presumably you're here to do some peptide-MHC prediction and not because you were hungry.

For an overview of how to use MHCnuggets please refer to the Jupyter notebook called user_guide.ipynb in the repository

If you would like to use MHCnuggets as a docker container, there are several options:

1. MHCnuggets with command line interface

2. MHCnuggets with Jupyter Notebook interface

3. MHCnuggets container for batch operations

MHCnuggets is pip installable as:

pip install mhcnuggets

Required pacakges:

• numpy
• scipy
• scikit-learn
• pandas
• keras
• tensorflow
• varcode

You might want to check if the Keras backend is configured to use the Tensorflow backend.