Fig. 1

Overall workflow of ScoreNet.R. The ScoreNet.R script’s workflow takes two main inputs: a rxncon model, here pictured by its regulatory graph (reactions [light-red nodes] produce [blue arrows] states [light-blue nodes]; these states serve as positive [green arrow] or negative [red arrows, not shown] regulators of reactions, and as inputs [black arrows] to Boolean gates [white diamonds]) and a database of experimental data. The model is compiled to a Boolean network and simulated under the same stimulus/inhibitor combinations as applied in the experiments in the database. This produces a set of response predictions which is then compared to the experimental database to give a score for the model