Design the Network object together

[deeenes]

This is a really critical part, we should talk a lot about how the Network object should look like

[deeenes]

Before and after the retreat, we had 2-3 discussions about the Network object; then, until Sept 10 we completed the followings:

• We decided to implement our own Network object that ensures interoperability with all the related third party objects (networkx, igraph, corneto, graph-tool, etc)
• We implemented a biology agnostic base class and defined the data structures that store the network and its attributes
• We designed a hypergraph with edge, node and node-edge attributes, following the example of corneto; the attributes are stored in pandas data frames, the adjacency information in dicts
• We implemented a module for bootstrapping the Network from various data structures; we validated this module with extensive unit testing