Related papers: Point configurations, phylogenetic trees, and diss…
The problem of maintaining scale and conformal invariance in Maxwell and general N-form gauge theories away from their critical dimension d=2(N+1) is analyzed.We first exhibit the underlying group-theoretical clash between…
The reconstruction of phylogenetic trees from molecular sequence data relies on modelling site substitutions by a Markov process, or a mixture of such processes. In general, allowing mixed processes can result in different tree topologies…
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 metric. The set of all dissimilarity maps is a Euclidean…
We introduce a scheme-theoretic enrichment of the principal objects of tropical geometry. Using a category of semiring schemes, we construct tropical hypersurfaces as schemes over idempotent semirings such as $\mathbb{T} = (\mathbb{R}\cup…
Let $\mathscr{C}$ be a $2$-Calabi-Yau triangulated category with two cluster tilting subcategories $\mathscr{T}$ and $\mathscr{U}$. Results by Demonet-Iyama-Jasso and J{\o}rgensen-Yakimov known as tropical duality says that the index with…
We introduce a new extragradient iterative process, motivated and inspired by [S. H. Khan, A Picard-Mann Hybrid Iterative Process, Fixed Point Theory and Applications, doi:10.1186/1687-1812-2013-69], for finding a common element of the set…
We find presentations for subalgebras of invariants of the coordinate algebras of binary symmetric models of phylogenetic trees studied by Buczynska and Wisniewski in \cite{BW}. These algebras arise as toric degenerations of rings of global…
Motivation: The construction of statistics for summarizing posterior samples returned by a Bayesian phylogenetic study has so far been hindered by the poor geometric insights available into the space of phylogenetic trees, and ad hoc…
A theoretical framework is presented for a (copula-based) notion of dissimilarity between continuous random vectors and its main properties are studied. The proposed dissimilarity assigns the smallest value to a pair of random vectors that…
Tree shape statistics, particularly measures of tree (im)balance, play an important role in the analysis of the shape of phylogenetic trees. With applications ranging from testing evolutionary models to studying the impact of fertility…
Mathematical modeling is a standard approach to solve many real-world problems and {\em diversity} of solutions is an important issue, emerging in applying solutions obtained from mathematical models to real-world problems. Many studies…
Species trees represent the historical divergences of populations or species, while gene trees trace the ancestry of individual gene copies sampled within those populations. In cases involving rapid speciation, gene trees with topologies…
Tree Containment is a fundamental problem in phylogenetics useful for verifying a proposed phylogenetic network, representing the evolutionary history of certain species. Tree Containment asks whether the given phylogenetic tree (for…
We investigate location problems whose optimum lies in the tropical convex hull of the input points. Firstly, we study geodesically star-convex sets under the asymmetric tropical distance and introduce the class of tropically quasiconvex…
Deciding whether there is a single tree -a supertree- that summarizes the evolutionary information in a collection of unrooted trees is a fundamental problem in phylogenetics. We consider two versions of this question: agreement and…
Using the theory of Properly Embedded Graphs developed in an earlier work we define an involutory duality on the set labeled non-crossing trees that lifts the obvious duality in the set of unlabeled non-crossing trees. The set of…
In this announcement, we deal with the Orthogonal Procrustes Problem, in which two point configurations are compared in order to construct a map to optimally align the two sets. This extends this to $\varepsilon$-diffeomorphisms, introduced…
Non-Hermitian systems have been widely explored in platforms ranging from photonics to electric circuits. A defining feature of non-Hermitian systems is exceptional points (EPs), where both eigenvalues and eigenvectors coalesce. Tropical…
Statistically consistent estimation of phylogenetic trees or gene trees is possible if pairwise sequence dissimilarities can be converted to a set of distances that are proportional to the true evolutionary distances. Susko et al. (2004)…
Treewidth is a well-known graph invariant with multiple interesting applications in combinatorics. On the practical side, many NP-complete problems are polynomial-time (sometimes even linear-time) solvable on graphs of bounded treewidth. On…