Refactored version of the PhD code using a MongoDB backend to store the generated data, providing the Python module "proteinnetworks".
This assumes that:
- There is a MongoDB instance in the default place
- The "Infomap" community detection is in the system path.
This repo stores the source code, any required database initialisation/configuration scripts, and the associated tests and documentation. For examples and IPython Notebooks see protein-networks-scaffolding