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Inferring Phylogenetic Networks with Maximum Pseudolikelihood under Incomplete Lineage Sorting

Fig 5

Networks with k nodes in a hybridization cycle: k = 2, 3, 4 and 5 from left to right.

When k = 3, parameters are not identifiable. A good triangle corresponds to n1, n2, n3 ≥ 2, in which case setting t12 = 0 makes the other parameters identifiable. When k = 4, parameters are not all identifiable for the bad diamond I (n0 = n2 = n3 = 1 but n1 ≥ 2) and for the bad diamond II (n0 = n1 = n2 = 1 but n3 ≥ 2).

Fig 5

doi: https://doi.org/10.1371/journal.pgen.1005896.g005