Fig. 6

Intersection of learned networks from single cell methods and the reference network highlights the differences between the edges that are uniquely detected by each method. Although single cell methods detected a common set of interactions, there was far more inconsistency in their detections, compared to the results of general methods. Each method, however, was able to detect some ‘correct’ edges that are unique to each method (as indicated from the overlap between each colored ellipse and the white ellipse, also see Results). Similarly, only a handful of edges were commonly detected by all three methods for the HSC and Sim2 datasets (b & d), and no single edge was commonly detected for the ESC and Sim1 datasets (a & c)