Related papers: Reconstructing Metric Trees from Order Information…

We prove that deciding whether the edge set of a graph can be partitionned into two spanning trees with orientation constraints is NP-complete. If P $\neq$ NP then this disproves a conjecture of Recski.

The class of self-nested trees presents remarkable compression properties because of the systematic repetition of subtrees in their structure. In this paper, we provide a better combinatorial characterization of this specific family of…

Let $G$ be a $3$-connected ordered graph with $n$ vertices and $m$ edges. Let $\mathbf{p}$ be a randomly chosen mapping of these $n$ vertices to the integer range $\{1, 2,3, \ldots, 2^b\}$ for $b\ge m^2$. Let $\ell$ be the vector of $m$…

We address an open question of Francis and Steel about phylogenetic networks and trees. They give a polynomial time algorithm to decide if a phylogenetic network, N, is tree-based and pose the problem: given a fixed tree T and network N, is…

Deciding whether a graph can be embedded in a grid using only unit-length edges is NP-complete, even when restricted to binary trees. However, it is not difficult to devise a number of graph classes for which the problem is polynomial, even…

Reconstruction of family trees, or pedigree reconstruction, for a group of individuals is a fundamental problem in genetics. The problem is known to be NP-hard even for datasets known to only contain siblings. Some recent methods have been…

The problem of reconstructing evolutionary trees or phylogenies is of great interest in computational biology. A popular model for this problem assumes that we are given the set of leaves (current species) of an unknown binary tree and the…

It is a classical result that any finite tree with positively weighted edges, and without vertices of degree 2, is uniquely determined by the weighted path distance between each pair of leaves. Moreover, it is possible for a (small) strict…

Arboreal networks are multi-rooted phylogenetic networks whose underlying graph is a tree. We give an encoding of stack-free arboreal networks in terms of triplets and the novel concept of a duet. This yields a polynomial time algorithm to…

The problem of comparing trees representing the evolutionary histories of cancerous tumors has turned out to be crucial, since there is a variety of different methods which typically infer multiple possible trees. A departure from the…

In 2011, Harrigan and Healy published a polynomial-time algorithm for one-sided crossing minimization for trees. We point out a counterexample to that algorithm, and show that one-sided crossing minimization is NP-hard for trees.

Given a vertex-weighted tree T, the split of an edge xy in T is min{s_x(xy), s_y(xy)} where s_u(uv) is the sum of all weights of vertices that are closer to u than to v in T. Given a set of weighted vertices V and a multiset of splits S, we…

Polytrees are a subclass of Bayesian networks that seek to capture the conditional dependencies between a set of $n$ variables as a directed forest and are motivated by their more efficient inference and improved interpretability. Since the…

In the Metric Dimension problem, one asks for a minimum-size set $R$ of vertices such that for any pair of vertices of the graph, there is a vertex from $R$ whose two distances to the vertices of the pair are distinct. This problem has…

We present a comprehensive classical and parameterized complexity analysis of decision tree pruning operations, extending recent research on the complexity of learning small decision trees. Thereby, we offer new insights into the…

A resolving set $S$ of a graph $G$ is a subset of its vertices such that no two vertices of $G$ have the same distance vector to $S$. The Metric Dimension problem asks for a resolving set of minimum size, and in its decision form, a…

Inferring probabilistic networks from data is a notoriously difficult task. Under various goodness-of-fit measures, finding an optimal network is NP-hard, even if restricted to polytrees of bounded in-degree. Polynomial-time algorithms are…

Comparative analyses of phylogenetic trees typically require identical taxon sets, however, in practice, trees often include distinct but overlapping taxa. Pruning non-shared leaves discards phylogenetic signal, whereas tree completion can…

Reconciling gene trees with a species tree is a fundamental problem to understand the evolution of gene families. Many existing approaches reconcile each gene tree independently. However, it is well-known that the evolution of gene families…

It is well-known that the Vertex Cover problem is in P on bipartite graphs, however; the computational complexity of the Partial Vertex Cover problem on bipartite graphs is open. In this paper, we first show that the Partial Vertex Cover…