5 citations · 10 across the 9 of their papers we have counts for
6 papers · 1 filter
Dimensions of Group-based Phylogenetic Mixtures
Hector Baños, Nathaniel Bushek, Ruth Davidson +6
In this paper we study group-based Markov models of evolution and their mixtures. In the algebreo-geometric setting, group-based phylogenetic tree models correspond to toric variet…
Phylogenetic trees
Hector Baños, Nathaniel Bushek, Ruth Davidson +6
We introduce the package PhylogeneticTrees for Macaulay2 which allows users to compute phylogenetic invariants for group-based tree models. We provide some background information o…
Modeling the distribution of distance data in Euclidean space
Ruth Davidson, Joseph Rusinko, Zoe Vernon +1
Phylogenetic inference-the derivation of a hypothesis for the common evolutionary history of a group of species- is an active area of research at the intersection of biology, compu…
Efficient Quartet Representations of Trees and Applications to Supertree and Summary Methods
Ruth Davidson, MaLyn Lawhorn, Joseph Rusinko +1
Quartet trees displayed by larger phylogenetic trees have long been used as inputs for species tree and supertree reconstruction. Computational constraints prevent the use of all d…
Distance-based phylogenetic methods around a polytomy
Ruth Davidson, Seth Sullivant
Distance-based phylogenetic algorithms attempt to solve the NP-hard least squares phylogeny problem by mapping an arbitrary dissimilarity map representing biological data to a tree…
Polyhedral Combinatorics of UPGMA Cones
Ruth Davidson, Seth Sullivant
Distance-based methods such as UPGMA (Unweighted Pair Group Method with Arithmetic Mean) continue to play a significant role in phylogenetic research. We use polyhedral combinatori…