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Phylogenetic networks generalise phylogenetic trees and allow for the accurate representation of the evolutionary history of a set of present-day species whose past includes reticulate events such as hybridisation and lateral gene transfer.…

Populations and Evolution · Quantitative Biology 2018-09-05 Joan Carles Pons , Charles Semple , Mike Steel

We generalize the tree-confluent graphs to a broader class of graphs called Delta-confluent graphs. This class of graphs and distance-hereditary graphs, a well-known class of graphs, coincide. Some results about the visualization of…

Computational Geometry · Computer Science 2007-05-23 David Eppstein , Michael T. Goodrich , Jeremy Yu Meng

A decision tree looks like a simple directed acyclic computational graph, where only the leaf nodes specify the output values and the non-terminals specify their tests or split conditions. From the numerical perspective, we express decision…

Machine Learning · Computer Science 2024-11-07 Jinxiong Zhang

Phylogenetic networks which are, as opposed to trees, suitable to describe processes like hybridization and horizontal gene transfer, play a substantial role in evolutionary research. However, while non-treelike events need to be taken into…

Populations and Evolution · Quantitative Biology 2022-07-06 Mareike Fischer , Tom Niklas Hamann , Kristina Wicke

The distribution of distances in the star graph $ST_n$, ($1<n\in\Z$), is established, and subsequently a threaded binary tree is obtained that realizes an orientation of $ST_n$ whose levels are given by the distances to the identity…

Combinatorics · Mathematics 2010-11-16 Italo J. Dejter

We provide a general framework for analyzing degree correlations between nodes separated by more than one step (i.e., beyond nearest neighbors) in complex networks. One probability and four conditional probabilities are introduced to fully…

Physics and Society · Physics 2018-06-20 Yuka Fujiki , Taro Takaguchi , Kousuke Yakubo

We show that large subsets of vector spaces over finite fields determine certain point configurations with prescribed distance structure. More specifically, we consider the complete graph with vertices as the points of $A \subseteq…

Combinatorics · Mathematics 2018-02-20 Alex Iosevich , Hans Parshall

We determine the tree which maximizes the distance between characteristic set and subtree core over all trees on $n$ vertices. The asymptotic nature of this distance is also discussed. The problem of extremizing the distance between…

Combinatorics · Mathematics 2020-04-07 Dinesh Pandey , Kamal Lochan Patra

We focus on strongly connected, strong for short, digraphs since in this setting distance is defined for every pair of vertices. Distance ideals generalize the spectrum and Smith normal form of several distance matrices associated with…

There have lately been several suggestions for parametrized distances on a graph that generalize the shortest path distance and the commute time or resistance distance. The need for developing such distances has risen from the observation…

Machine Learning · Statistics 2015-03-17 Ilkka Kivimäki , Masashi Shimbo , Marco Saerens

The rotor walk on a graph is a deterministic analogue of random walk. Each vertex is equipped with a rotor, which routes the walker to the neighbouring vertices in a fixed cyclic order on successive visits. We consider rotor walk on an…

Combinatorics · Mathematics 2010-09-27 Omer Angel , Alexander E. Holroyd

The necessary and sufficient conditions under which a given family $\mathcal{F}$ of subsets of finite set $X$ coincides with the family $\mathbf{B}_X$ of all balls generated by some ultrametric $d$ on $X$ are found. It is shown that the…

Metric Geometry · Mathematics 2019-03-26 O. Dovgoshey

In this paper we give a new family of complete intersections which have the strong Lefschetz property. The family consists of (Artinian algebras defined by) ideals generated by power sum symmetric polynomials of consecutive degrees and of…

Commutative Algebra · Mathematics 2024-03-05 Tadahito Harima , Satoru Isogawa , Junzo Watanabe

We introduce a new family of models for growing networks. In these networks new edges are attached preferentially to vertices with higher number of connections, and new vertices are created by already existing ones, inheriting part of their…

Statistical Mechanics · Physics 2009-11-07 S. N. Dorogovtsev , A. N. Samukhin , J. F. F. Mendes

We study the following problem that is motivated by demand-aware network design: Given a tree~$G$, the task is to find a binary tree~$H$ on the same vertex set. The objective is to minimize the sum of distances in~$H$ between vertex pairs…

Data Structures and Algorithms · Computer Science 2026-04-23 Leon Kellerhals , Mitja Krebs , André Nichterlein , Stefan Schmid

Phylogenetic trees are binary nonplanar trees with labelled leaves, and plane oriented recursive trees are planar trees with an increasing labelling. Both families are enumerated by double factorials. A bijection is constructed, using the…

Combinatorics · Mathematics 2017-09-19 Helmut Prodinger

The comprehensive characterization of the structure of complex networks is essential to understand the dynamical processes which guide their evolution. The discovery of the scale-free distribution and the small world property of real…

Computational Physics · Physics 2009-11-13 Paulino R. Villas Boas , Francisco A. Rodrigues , Gonzalo Travieso , Luciano da F. Costa

In Francis and Steel (2015), it was shown that there exists non-trivial networks on $4$ leaves upon which the distance metric affords a metric on a tree which is not the base tree of the network. In this paper we extend this result in two…

Populations and Evolution · Quantitative Biology 2019-06-06 Michael Hendriksen

The depth-weighted tree DWT($f$) with weight function $f:\{0,1,2,\ldots\}\to (0,\infty)$ is a dynamic random tree grown from a root $r$ where vertices arrive consecutively and every new vertex attaches to a parent $u$ with probability…

Probability · Mathematics 2026-02-18 Lyuben Lichev , Amitai Linker , Bas Lodewijks , Dieter Mitsche

Any function can be constructed using a hierarchy of simpler functions through compositions. Such a hierarchy can be characterized by a binary rooted tree. Each node of this tree is associated with a function which takes as inputs two…

Machine Learning · Computer Science 2019-10-23 Roozbeh Farhoodi , Khashayar Filom , Ilenna Simone Jones , Konrad Paul Kording