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The Rooted Maximum Leaf Outbranching problem consists in finding a spanning directed tree rooted at some prescribed vertex of a digraph with the maximum number of leaves. Its parameterized version asks if there exists such a tree with at…
We study three different kinds of embeddings of tree patterns: weakly-injective, ancestor-preserving, and lca-preserving. While each of them is often referred to as injective embedding, they form a proper hierarchy and their computational…
Three standard subtree transfer operations for binary trees, used in particular for phylogenetic trees, are: tree bisection and reconnection ($TBR$), subtree prune and regraft ($SPR$) and rooted subtree prune and regraft ($rSPR$). For a…
We prove that finding a rooted subtree with at least $k$ leaves in a digraph is a fixed parameter tractable problem. A similar result holds for finding rooted spanning trees with many leaves in digraphs from a wide family $\cal L$ that…
In this article, we introduce a formal definition of the concept of probability tree and conduct a detailed and comprehensive study of its fundamental structural properties. In particular, we define what we term an inductive probability…
We define the induced arboricity of a graph $G$, denoted by ${\rm ia}(G)$, as the smallest $k$ such that the edges of $G$ can be covered with $k$ induced forests in $G$. This notion generalizes the classical notions of the arboricity and…
Denote by $p_m$ the $m$-th prime number ($p_1=2,~p_2=3,~p_3=5,~ p_4=7,~\ldots$). Let $T$ be a rooted tree with branches $T_1,T_2,\ldots,T_r$. The Matula number $M(T)$ of $T$ is $p_{M(T_1)}\cdot p_{M(T_2)}\cdot \ldots \cdot p_{M(T_r)}$,…
Asymptotic behaviour of maximum sizes of induced trees and forests has been studied extensively in last decades, though the overall picture is far from being complete. In this paper, we close several significant gaps: 1) We prove $2$-point…
It is proved that the average number of segments on the right branch of a binary tree of size n tends to 3 as n tends to $\infty$. Also the fraction of trees with k segments on the right branch from all trees of size n tends to…
Topologically constrained genome-like polymers often double-fold into tree-like configurations, which can be modelled on the level of folded (ring) polymers or on the level of the underlying random trees. For both descriptions, we have…
Construction of phylogenetic trees and networks for extant species from their characters represents one of the key problems in phylogenomics. While solution to this problem is not always uniquely defined and there exist multiple methods for…
In Chapter 1 we fully characterise pairs of finite graphs which form a gap in the full homomorphism order. This leads to a simple proof of the existence of generalised duality pairs. We also discuss how such results can be carried to…
We call a pair of vertex-disjoint, induced subtrees of a rooted trees twins if they have the same counts of vertices by out-degrees. The likely maximum size of twins in a uniformly random, rooted Cayley tree of size $n\to\infty$ is studied.…
We prove that every simple polygon contains a degree 3 tree encompassing a prescribed set of vertices. We give tight bounds on the minimal number of degree 3 vertices. We apply this result to reprove a result from Bose et al. that every set…
It is known that all but finitely many leaves of a measured foliated 2-complex of thin type are quasi-isometric to an infinite tree with at most two topological ends. We show that if the foliation is cooriented, and the associated R-tree is…
The purpose of this paper is to analyze certain statistics of a recently introduced non-uniform random tree model, biased recursive trees. This model is based on constructing a random tree by establishing a correspondence with non-uniform…
Binary jumbled pattern matching asks to preprocess a binary string $S$ in order to answer queries $(i,j)$ which ask for a substring of $S$ that is of length $i$ and has exactly $j$ 1-bits. This problem naturally generalizes to…
Quasi-trees generalize trees in that the unique "path" between two nodes may be infinite and have any countable order type. They are used to define the rank-width of a countable graph in such a way that it is equal to the least upper-bound…
An automaton is called reachable if every state is reachable from the initial state. This notion has been generalized coalgebraically in two ways: first, via a universal property on pointed coalgebras, namely, that a reachable coalgebra has…
Rooted, weighted continuum random trees are used to describe limits of sequences of random discrete trees. Formally, they are random quadruples $(\mathcal{T},d,r,p)$, where $(\mathcal{T},d)$ is a tree-like metric space, $r\in\mathcal{T}$ is…