相关论文: Unique Perfect Phylogeny Characterizations via Uni…

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 partition of graphs into "nice" subgraphs is a central algorithmic problem with strong ties to matching theory. We study the partitioning of undirected graphs into same-size stars, a problem known to be NP-complete even for the case of…

In this study we consider the problem of triangulated graphs. Precisely we give a necessary and sufficient condition for a graph to be triangulated. This give an alternative characterization of triangulated graphs. Our method is based on…

Partial graph matching extends traditional graph matching by allowing some nodes to remain unmatched, enabling applications in more complex scenarios. However, this flexibility introduces additional complexity, as both the subset of nodes…

Two fundamental algorithm-design paradigms are Tree Search and Dynamic Programming. The techniques used therein have been shown to complement one another when solving the complete set partitioning problem, also known as the coalition…

In phylogenetics, tree-based networks are used to model and visualize the evolutionary history of species where reticulate events such as horizontal gene transfer have occurred. Formally, a tree-based network $N$ consists of a phylogenetic…

Perfect phylogeny consisting of determining the compatibility of a set of characters is known to be NP-complete. We propose in this article a conjecture on the necessary and sufficient conditions of compatibility: Given a set $\mathcal{C}$…

Rooted binary perfect phylogenies provide a generalization of rooted binary unlabeled trees in which each leaf is assigned a positive integer value that corresponds in a biological setting to the count of the number of indistinguishable…

We derive a local criterion for a plane near-triangulated graph to be perfect. It is shown that a plane near-triangulated graph is perfect if and only if it does not contain either a vertex, an edge or a triangle, the neighbourhood of which…

Crossover is the process of recombining the genetic features of two parents. For many applications where crossover is applied to permutations, relevant genetic features are pairs of adjacent elements, also called edges in the permutation…

Matrix partition problems generalize a number of natural graph partition problems, and have been studied for several standard graph classes. We prove that each matrix partition problem has only finitely many minimal obstructions for split…

We study a character-based phylogeny reconstruction problem when an incomplete set of data is given. More specifically, we consider the situation under the directed perfect phylogeny assumption with binary characters in which for some…

Perfect Matching-Cut is the problem of deciding whether a graph has a perfect matching that contains an edge-cut. We show that this problem is NP-complete for planar graphs with maximum degree four, for planar graphs with girth five, for…

Recent investigations in computational biology have focused on a family of 2-colored digraphs, called 2-colored best match graphs, which naturally arise from rooted phylogenetic trees. Actually the defining properties of such graphs are…

Recently, Hajirasouliha and Raphael (WABI 2014) proposed a model for deconvoluting mixed tumor samples measured from a collection of high-throughput sequencing reads. This is related to understanding tumor evolution and critical cancer…

Tree-based phylogenetic networks, which may be roughly defined as leaf-labeled networks built by adding arcs only between the original tree edges, have elegant properties for modeling evolutionary histories. We answer an open question of…

The singularity degree of a semidefinite programming problem is the smallest number of facial reduction steps to make the problem strictly feasible. We introduce two new graph parameters, called the singularity degree and the nondegenerate…

The distinguishing result of this paper is a $\mathbf{P}$-time enumerable partition of all the potential perfect matchings in a bipartite graph. This partition is a set of equivalence classes induced by the missing edges in the potential…

Moral graphs were introduced in the 1980s as an intermediate step when transforming a Bayesian network to a junction tree, on which exact belief propagation can be efficiently done. The moral graph of a Bayesian network can be trivially…

A classical problem in phylogenetic tree analysis is to decide whether there is a phylogenetic tree $T$ that contains all information of a given collection $\cP$ of phylogenetic trees. If the answer is "yes" we say that $\cP$ is compatible…