Inferring Phylogenetic Networks with Maximum Pseudolikelihood under Incomplete Lineage Sorting
from 1183 genes, h = 2, rooted with the southern swordtails outgroup clade (SS). NS: northern swordtails, SP: southern platyfishes, NP: northern platyfishes. Black edges: major tree (including hybrid edges with γ > 0.5). Colored solid arrows: minor hybrid edges, annotated by their estimated γ. Black numbers: bootstrap support for edges in the major tree, if different from 100%. Colored numbers: bootstrap support for the placement of minor hybrid edges. One reticulation had 75% support for a different donor lineage (dotted arrow) than inferred from the original data.