Related papers: On the Extremal Maximum Agreement Subtree Problem
A rearrangement operation makes a small graph-theoretical change to a phylogenetic network to transform it into another one. For unrooted phylogenetic trees and networks, popular rearrangement operations are tree bisection and reconnection…
We develop and analyze methods for computing provably optimal {\em maximum a posteriori} (MAP) configurations for a subclass of Markov random fields defined on graphs with cycles. By decomposing the original distribution into a convex…
In this paper, we lay the groundwork on the comparison of phylogenetic networks based on edge contractions and expansions as edit operations, as originally proposed by Robinson and Foulds to compare trees. We prove that these operations…
In the Maximum-size Properly Colored Forest problem, we are given an edge-colored undirected graph and the goal is to find a properly colored forest with as many edges as possible. We study this problem within a broader framework by…
The supertree construction problem is about combining several phylogenetic trees with possibly conflicting information into a single tree that has all the leaves of the source trees as its leaves and the relationships between the leaves are…
Given a compact $E \subset \mathbb{R}^n$ and $s > 0$, the maximum distance problem seeks a compact and connected subset of $\mathbb{R}^n$ of smallest one dimensional Hausdorff measure whose $s$-neighborhood covers $E$. For $E\subset…
We investigate the complexity of finding a transformation from a given spanning tree in a graph to another given spanning tree in the same graph via a sequence of edge flips. The exchange property of the matroid bases immediately yields…
A matching is compatible to two or more labeled point sets of size $n$ with labels $\{1,\dots,n\}$ if its straight-line drawing on each of these point sets is crossing-free. We study the maximum number of edges in a matching compatible to…
Maximum parsimony distance is a measure used to quantify the dissimilarity of two unrooted phylogenetic trees. It is NP-hard to compute, and very few positive algorithmic results are known due to its complex combinatorial structure. Here we…
This paper tightens the best known analysis of Hein's 1989 algorithm to infer the topology of a weighted tree based on the lengths of paths between its leaves. It shows that the number of length queries required for a degree-$k$ tree of $n$…
Let $\mathcal{A}_1,\ldots,\mathcal{A}_m$ be families of $k$-subsets of an $n$-set. Suppose that one cannot choose pairwise disjoint edges from $s+1$ distinct families. Subject to this condition we investigate the maximum of…
In analogy to a concept of Fibonacci trees, we define the leaf-Fibonacci tree of size $n$ and investigate its number of nonisomorphic leaf-induced subtrees. Denote by $f_0$ the one vertex tree and $f_1$ the tree that consists of a root with…
A linear forest is a collection of vertex-disjoint paths. The Linear Arboricity Conjecture states that every graph of maximum degree $\Delta$ can be decomposed into at most $\lceil(\Delta+1)/2\rceil$ linear forests. We prove that $\Delta/2…
In the area of evolutionary computation the calculation of diverse sets of high-quality solutions to a given optimization problem has gained momentum in recent years under the term evolutionary diversity optimization. Theoretical insights…
In this paper, we address the problem of packing large trees in $G_{n,p}$. In particular, we prove the following result. Suppose that $T_1, \dotsc, T_N$ are $n$-vertex trees, each of which has maximum degree at most $(np)^{1/6} / (\log…
We discuss a notion of convergence for binary trees that is based on subtree sizes. In analogy to recent developments in the theory of graphs, posets and permutations we investigate some general aspects of the topology, such as a…
A compacted binary tree is a directed acyclic graph encoding a binary tree in which common subtrees are factored and shared, such that they are represented only once. We show that the number of compacted binary trees of size $n$ grows…
The sigma-irregularity index $\sigma(G) = \sum_{uv \in E(G)} (d_G(u) - d_G(v))^2$ measures the total degree imbalance along the edges of a graph. We study extremal problems for $\sigma(T)$ within the class of trees of fixed order $n$ and…
We consider a subcritical Galton--Watson tree conditioned on having $n$ vertices with outdegree in a fixed set $\Omega$. Under mild regularity assumptions we prove various limits related to the maximal offspring of a vertex as $n$ tends to…
A Supertree synthesizes the topologies of a set of phylogenetic trees carrying overlapping taxa set. In process, conflicts in the tree topologies are aimed to be resolved with the consensus clades. Such a problem is proved to be NP-hard.…