Related papers: Arc-Completion of 2-Colored Best Match Graphs to B…
Given a digraph $G = (V_G, A_G)$, a \emph{branching} in $G$ is a set of arcs $B \subseteq A_G$ such that the underlying undirected graph spanned by $B$ is acyclic and each node in $G$ is entered (\emph{covered}) by at most one arc from $B$.…
Evolutionary scenarios displaying reticulation events are often represented by rooted phylogenetic networks. Due to biological reasons, those events occur very rarely, and, thus, networks containing a minimum number of such events,…
A geophylogeny is a phylogenetic tree (or dendrogram) where each leaf (e.g. biological taxon) has an associated geographic location (site). To clearly visualize a geophylogeny, the tree is typically represented as a crossing-free drawing…
Let $R$ and $B$ be two disjoint sets of points in the plane where the points of $R$ are colored red and the points of $B$ are colored blue, and let $n=|R\cup B|$. A bichromatic spanning tree is a spanning tree in the complete bipartite…
A chief problem in phylogenetics and database theory is the computation of a maximum consistent tree from a set of rooted or unrooted trees. A standard input are triplets, rooted binary trees on three leaves, or quartets, unrooted binary…
Motivated by the exact weight perfect matching problem and recent parameterized algorithms for finding an $\ell$-th smallest perfect matching, we study structural properties of edge-weight symmetries in graphs. Recent work by El Maalouly et…
Within the field of phylogenetics there is growing interest in measures for summarising the dissimilarity, or 'incongruence', of two or more phylogenetic trees. Many of these measures are NP-hard to compute and this has stimulated a…
We improve the lower bound on the extremal version of the Maximum Agreement Subtree problem. Namely we prove that two binary trees on the same $n$ leaves have subtrees with the same $\geq c\log\log n$ leaves which are homeomorphic, such…
For an edge-colored graph $G$, we call an edge-cut $M$ of $G$ monochromatic if the edges of $M$ are colored with the same color. The graph $G$ is called monochromatic disconnected if any two distinct vertices of $G$ are separated by a…
Cographs are exactly the hereditarily well-colored graphs, i.e., the graphs for which a greedy vertex coloring of every induced subgraph uses only the minimally necessary number of colors $\chi(G)$. We show that greedy colorings are a…
We investigate the space complexity of certain perfect matching problems over bipartite graphs embedded on surfaces of constant genus (orientable or non-orientable). We show that the problems of deciding whether such graphs have (1) a…
The minimum height of vertex and edge partition trees are well-studied graph parameters known as, for instance, vertex and edge ranking number. While they are NP-hard to determine in general, linear-time algorithms exist for trees.…
Optimal Morse matchings reveal essential structures of cell complexes which lead to powerful tools to study discrete geometrical objects, in particular discrete 3-manifolds. However, such matchings are known to be NP-hard to compute on…
Let $R$ and $B$ be two disjoint sets of points in the plane such that $|B|\leqslant |R|$, and no three points of $R\cup B$ are collinear. We show that the geometric complete bipartite graph $K(R,B)$ contains a non-crossing spanning tree…
The identification of cancer genes is a critical yet challenging problem in cancer genomics research. Existing computational methods, including deep graph neural networks, fail to exploit the multilayered gene-gene interactions or provide…
Graph clustering is a challenging pattern recognition problem whose goal is to identify vertex partitions with high intra-group connectivity. This paper investigates a bi-objective problem that maximizes the number of intra-cluster edges of…
Let $G$ be a finite or infinite graph and $m(G)$ the minimum number of vertices moved by the non-identity automorphisms of $G$. We are interested in bounds on the supremum $\Delta(G)$ of the degrees of the vertices of $G$ that assure the…
Phylogenetic networks are a flexible model of evolution that can represent reticulate evolution and handle complex data. Tree-based networks, which are phylogenetic networks that have a spanning tree with the same root and leaf-set as the…
The best-performing models in ML are not interpretable. If we can explain why they outperform, we may be able to replicate these mechanisms and obtain both interpretability and performance. One example are decision trees and their…
We study the problem of determining whether a given graph~$G=(V,E)$ admits a matching~$M$ whose removal destroys all odd cycles of~$G$ (or equivalently whether~$G-M$ is bipartite). This problem is equivalent to determine whether~$G$ admits…