Table 2. A summarized comparison of JacLy with GGM.

	JacLy	GGM
Computational time versus network size	NP-hard problem Computational time increases exponentially by increasing the network size	No sensible change in the computational time from very small to very large networks
Accuracy versus number of data replicates	Accuracy is a moderate function of number of data replicates For lower number of data replicates, it outperforms correlation based methods	Accuracy is a very strong function of number of data replicates Reduction in the number of data replicates has a very high negative impact on the quality of inferred network
Directionality of inferred network	Directed	Undirected
Meaningfulness of inferred edge’s weights	Mechanistically meaningful Inferred values for the Jacobian elements are measures of interaction strengths and their sign (positive/negative) points into the nature of interaction	Correlation values cannot be used as any physical or mechanistical parameter of the system