The topological distance (pink) between sampled networks and true network, and the Robinson-Foulds distance (orange) between sampled trees and true backbone tree, under different simulation settings and violation in the different assumptions.

<p>In each panel at most one condition is violated. (a) Mean of 1.0 is used for the Poisson prior on the number of reticulations. (b) Mean of 3.0 is used for the Poisson prior on the number of reticulations. (c) Linked loci: 10 sites are generated per gene tree. (d) Linked loci: 100 sites are generated per gene tree. (e) Rate variation across lineages with 0.1 of invariable sites and 3.0 as shape of gamma rate heterogeneity. (f) Rate variation across lineages with 0.2 of invariable sites and 5.0 as shape of gamma rate heterogeneity. (g) Rate variation across markers with 0.1 of invariable sites and 3.0 as shape of gamma rate heterogeneity. (h) Rate variation across markers with 0.2 of invariable sites and 5.0 as shape of gamma rate heterogeneity.