Related papers: Basis sequence reconfiguration in the union of mat…
A tree t-spanner of an unweighted graph G is a spanning tree T such that for every two vertices their distance in T is at most t times their distance in G. Given an unweighted graph G and a positive integer t as input, the tree t-spanner…
Treewidth is a graph parameter that plays a fundamental role in several structural and algorithmic results. We study the problem of decomposing a given graph $G$ into node-disjoint subgraphs, where each subgraph has sufficiently large…
One strategy for reconstruction of phylogenetic networks is to solve the phylogenetic network problem, which involves inferring phylogenetic trees first and subsequently computing the smallest phylogenetic network that displays all the…
We introduce and study the {\em orderly spanning trees} of plane graphs. This algorithmic tool generalizes {\em canonical orderings}, which exist only for triconnected plane graphs. Although not every plane graph admits an orderly spanning…
Motivated by adjacency in perfect matching polytopes, we study the shortest reconfiguration problem of perfect matchings via alternating cycles. Namely, we want to find a shortest sequence of perfect matchings which transforms one given…
Given a rooted tree and a ranking of its leaves, what is the minimum number of inversions of the leaves that can be attained by ordering the tree? This variation of the problem of counting inversions in arrays originated in mathematical…
This paper give a simple linear-time algorithm that, given a weighted digraph, finds a spanning tree that simultaneously approximates a shortest-path tree and a minimum spanning tree. The algorithm provides a continuous trade-off: given the…
Given $n$ subspaces of a finite-dimensional vector space over a fixed finite field $\mathbb F$, we wish to find a "branch-decomposition" of these subspaces of width at most $k$ that is a subcubic tree $T$ with $n$ leaves mapped bijectively…
Phylogenetic networks are rooted directed acyclic graphs that represent evolutionary relationships between species whose past includes reticulation events such as hybridisation and horizontal gene transfer. To search the space of…
We consider the well-studied problem of finding a spanning tree with minimum average distance between vertex pairs (called a MAD tree). This is a classic network design problem which is known to be NP-hard. While approximation algorithms…
The maximum common subtree isomorphism problem asks for the largest possible isomorphism between subtrees of two given input trees. This problem is a natural restriction of the maximum common subgraph problem, which is ${\sf NP}$-hard in…
We show that finding lexicographically minimal $n$ bases in a matroid can be done in polynomial time in the oracle model. This follows from a more general result that the shifted problem over a matroid can be solved in polynomial time as…
The problem of covering minimum cost common bases of two matroids is NP-complete, even if the two matroids coincide, and the costs are all equal to 1. In this paper we show that the following special case is solvable in polynomial time:…
We study the problem of low-stretch spanning trees in graphs of bounded width: bandwidth, cutwidth, and treewidth. We show that any simple connected graph $G$ with a linear arrangement of bandwidth $b$ can be embedded into a distribution…
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…
We study the electrical distribution network reconfiguration problem, defined as follows. We are given an undirected graph with a root vertex, demand at each non-root vertex, and resistance on each edge. Then, we want to find a spanning…
The set of all permutations with $n$ symbols is a symmetric group denoted by $S_n$. A transposition tree, $T$, is a spanning tree over its $n$ vertices $V_T=${$1, 2, 3, \ldots n$} where the vertices are the positions of a permutation $\pi$…
Given an $H$-minor-free graph $G$ and an integer $k$, our main technical contribution is sampling in randomized polynomial time an induced subgraph $G'$ of $G$ and a tree decomposition of $G'$ of width $\widetilde{O}(k)$ such that for every…
Let $M=(m_{ij})$ be a symmetric matrix of order $n$ whose elements lie in an arbitrary field $\mathbb{F}$, and let $G$ be the graph with vertex set $\{1,\ldots,n\}$ such that distinct vertices $i$ and $j$ are adjacent if and only if $m_{ij}…
We consider the reconciliation problem, in which the task is to find a mapping of a gene tree into a species tree, so as to maximize the likelihood of such fitting, given the available data. We describe a model for the evolution of the…