no code implementations • 18 Feb 2024 • John A. Rhodes, Hector Banos, Jingcheng Xu, Cécile Ané
We consider the identifiability of the circular order in which subnetworks attach to a blob, first proving that this order is well-defined for outer-labeled planar blobs.
no code implementations • 11 Jan 2024 • Elizabeth S. Allman, Hector Baños, Marina Garrote-Lopez, John A. Rhodes
When hybridization or other forms of lateral gene transfer have occurred, evolutionary relationships of species are better represented by phylogenetic networks than by trees.
no code implementations • 13 Mar 2023 • Elizabeth A. Allman, Colby Long, John A. Rhodes
A model of genomic sequence evolution on a species tree should include not only a sequence substitution process, but also a coalescent process, since different sites may evolve on different gene trees due to incomplete lineage sorting.
no code implementations • 6 May 2022 • Elizabeth S. Allman, Hector Baños, Jonathan D. Mitchell, John A. Rhodes
The arguments for this theoretical result suggest a practical algorithm for tree of blobs inference, to be fully developed in a subsequent work.
no code implementations • 3 Aug 2021 • Elizabeth S. Allman, Hector Baños, John A. Rhodes
Inference of network-like evolutionary relationships between species from genomic data must address the interwoven signals from both gene flow and incomplete lineage sorting.
