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DynamicGut: Host-microbiome metabolic interactions

Project description

Please use the cobrapy Google Group for help. Alternatively, you can use for quick questions and discussions (faster response times).

More information about opencobra is available at the website.


Use pip to install DynamicGut from PyPI (we recommend doing this inside a virtual environment):

pip install dynamicgut

Direct installation in virtual environment

  1. If virtualenvwrapper is not installed, follow the directions to install virtualenvwrapper.

Run examples in a notebook

An example of how to use DynamicGut is provided in a notebook. Here’s how to start Jupyter and run the notebook from the virtualenv.


  1. cobrapy doi:10.1186/1752-0509-7-74

  2. ModelSEED doi:10.1038/nbt.1672

  3. PATRIC doi:10.1093/nar/gkt1099

Project details

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