Related papers: Treewidth distance on phylogenetic trees
The problem of deciding the validity (QSAT) of quantified Boolean formulas (QBF) is a vivid research area in both theory and practice. In the field of parameterized algorithmics, the well-studied graph measure treewidth turned out to be a…
Phylogenetic networks generalize phylogenetic trees by allowing the modelization of events of reticulate evolution. Among the different kinds of phylogenetic networks that have been proposed in the literature, the subclass of binary…
Tree-width and path-width are well-known graph parameters. Many NP-hard graph problems allow polynomial-time solutions, when restricted to graphs of bounded tree-width or bounded path-width. In this work, we study the behavior of tree-width…
Let $H=(V,F)$ be a simple hypergraph without loops. $H$ is called linear if $|f\cap g|\le 1$ for any $f,g\in F$ with $f\not=g$. The $2$-section of $H$, denoted by $[H]_2$, is a graph with $V([H]_2)=V$ and for any $ u,v\in V([H]_2)$, $uv\in…
Over the last 30 years, researchers have investigated connections between dimension for posets and planarity for graphs. Here we extend this line of research to the structural graph theory parameter tree-width by proving that the dimension…
Attempting to recognize a tree inside a phylogenetic network is a fundamental undertaking in evolutionary analysis. In the last few years, therefore, tree-based phylogenetic networks, which are defined by a spanning tree called a…
Diestel and M\"uller showed that the connected tree-width of a graph $G$, i.e., the minimum width of any tree-decomposition with connected parts, can be bounded in terms of the tree-width of $G$ and the largest length of a geodesic cycle in…
A witness drawing of a graph is a visualization that clearly shows a given property of a graph. We study and implement various drawing paradigms for witness drawings to clearly show that graphs have bounded pathwidth or treewidth. Our…
In recent years, there has been significant interest in characterizing the induced subgraph obstructions to bounded treewidth and pathwidth. While this has recently been resolved for pathwidth, the case of treewidth remains open, and prior…
In phylogenetics, evolution is traditionally represented in a tree-like manner. However, phylogenetic networks can be more appropriate for representing evolutionary events such as hybridization, horizontal gene transfer, and others. In…
We continue the study of graph classes in which the treewidth can only be large due to the presence of a large clique, and, more specifically, of graph classes with bounded tree-independence number. In [Dallard, Milani\v{c}, and…
Rearrangement operations transform a phylogenetic tree into another one and hence induce a metric on the space of phylogenetic trees. Popular operations for unrooted phylogenetic trees are NNI (nearest neighbour interchange), SPR (subtree…
In phylogenetics, a central problem is to infer the evolutionary relationships between a set of species $X$; these relationships are often depicted via a phylogenetic tree -- a tree having its leaves univocally labeled by elements of $X$…
Many hard algorithmic problems dealing with graphs, circuits, formulas and constraints admit polynomial-time upper bounds if the underlying graph has small treewidth. The same problems often encourage reducing the maximal degree of vertices…
For a tree decomposition $\mathcal{T}$ of a graph $G$, let $\mu(\mathcal{T})$ denote the maximum size of an induced matching in $G$ with the property that some bag of $\mathcal{T}$ contains at least one endpoint of every edge of the…
Recently there has been considerable interest in the problem of finding a phylogenetic network with a minimum number of reticulation vertices which displays a given set of phylogenetic trees, that is, a network with minimum hybrid number.…
Tree-based networks are a class of phylogenetic networks that attempt to formally capture what is meant by "tree-like" evolution. A given non-tree-based phylogenetic network, however, might appear to be very close to being tree-based, or…
Phylogenetic trees summarize evolutionary relationships between organisms, and tools to analyze collections of phylogenetic trees enable contrasts between different genes' ancestry. The BHV metric space has enabled the analysis of…
We here investigate on the complexity of computing the \emph{tree-length} and the \emph{tree-breadth} of any graph $G$, that are respectively the best possible upper-bounds on the diameter and the radius of the bags in a tree decomposition…
Recently it was shown that, if the subtree and chain reduction rules have been applied exhaustively to two unrooted phylogenetic trees, the reduced trees will have at most 15k-9 taxa where k is the TBR (Tree Bisection and Reconnection)…