Before revision:  We present a  framework for the construction and analysis of metabolic reaction networksthat can be tailored to reflect different environmental conditions . Using context-dependent flux distributions from Flux Balance Analysis (FBA), we produce directed networks with weighted links representing the amount of metabolite flowing from a source reaction to a target reaction per unit time.
After revision:  We present a framework for the construction of graphs to URLanism-wide metabolic networks. Our graphs encode the directionality of metabolic fluxes via links that represent the flow of metabolites from source to target reactions. The methodology can be applied in the absence of a specific biological context by modelling fluxes as probabilities, or tailored to different environmental conditions . Using context-dependent flux distributions from Flux Balance Analysis (FBA), we produce directed networks with weighted links representing the amount of metabolite flowing from a source reaction to a target reaction per unit time.