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The tree-depth problem can be seen as finding an elimination tree of minimum height for a given input graph $G$. We introduce a bicriteria generalization in which additionally the width of the elimination tree needs to be bounded by some…
Unrooted phylogenetic networks are graphs used to represent evolutionary relationships. Accurately reconstructing such networks is of great relevance for evolutionary biology. It has recently been conjectured that all phylogenetic networks…
We present a conceptually clear and algorithmically useful framework for parameterizing the costs of tensor network contraction. Our framework is completely general, applying to tensor networks with arbitrary bond dimensions, open legs, and…
A double-arborescence is a treelike comparability graph with an all-adjacent vertex. In this paper, we first give a forbidden induced subgraph characterization of double-arborescences, where we prove that double-arborescences are precisely…
Phylogenetic networks are a generalization of phylogenetic trees that are used to represent non-tree-like evolutionary histories that arise in organisms such as plants and bacteria, or uncertainty in evolutionary histories. An…
The graph isomorphism (GI) problem, which asks whether two graphs are structurally identical, occupies a unique position in computational complexity -- it is neither known to be solvable in polynomial time, nor proven to be NP-complete. We…
We exhibit the joint symmetric distribution of the following two parameters on the set of unlabeled, simple, connected graphs with $n$ vertices. The first parameter is the maximal number of leaves attached to a vertex. The second parameter…
We investigate decompositions of Betti diagrams over a polynomial ring within the framework of Boij--Soederberg theory. That is, given a Betti diagram, we decompose it into pure diagrams. Relaxing the requirement that the degree sequences…
A multicomplex structure is defined from an ordered lattice of multigraphs. This structure will help us to observe the features of Persistent Homology in this context, its interaction with the ordering and the repercussions of the process…
We consider the Bernoulli bond percolation process (with parameter $p$) on infinite graphs and we give a general criterion for bounded degree graphs to exhibit a non-trivial percolation threshold based either on a single isoperimetric…
Good representations for phylogenetic trees and networks are important for optimizing storage efficiency and implementation of scalable methods for the inference and analysis of evolutionary trees for genes, genomes and species. We…
The maximum/minimum bisection problems are, given an edge-weighted graph, to find a bipartition of the vertex set into two sets whose sizes differ by at most one, such that the total weight of edges between the two sets is…
We present the first fixed-parameter algorithm for constructing a tree-child phylogenetic network that displays an arbitrary number of binary input trees and has the minimum number of reticulations among all such networks. The algorithm…
We connect several notions relating the structural and dynamical properties of a graph. Among them are the topological entropy coming from the vertex shift, which is related to the spectral radius of the graph's adjacency matrix, the…
We consider hereditary classes of graphs equipped with a total order. We provide multiple equivalent characterisations of those classes which have bounded twin-width. In particular, we prove a grid theorem for classes of ordered graphs…
We identify a sufficient condition, treewidth-pliability, that gives a polynomial-time algorithm for an arbitrarily good approximation of the optimal value in a large class of Max-2-CSPs parameterised by the class of allowed constraint…
Hybridization networks are representations of evolutionary histories that allow for the inclusion of reticulate events like recombinations, hybridizations, or lateral gene transfers. The recent growth in the number of hybridization network…
We develop a time-optimal $O(mn^2)$-time algorithm to construct the subtree prune-regraft (SPR) graph on a collection of m phylogenetic trees with n leaves. This improves on the previous bound of $O(mn^3)$. Such graphs are used to better…
In this paper, we build on recent results by Chauve et al. (2014) and Bahrani and Lumbroso (2017), which combined the split-decomposition, as exposed by Gioan and Paul, with analytic combinatorics, to produce new enumerative results on…
We study the parameterized complexity of the Cograph Deletion problem, which asks whether one can delete at most $k$ edges from a graph to make it $P_4$-free. This is a well-known graph modification problem with applications in computation…