Related papers: Comparing Pedigree Graphs
Grouping the nodes of a graph into clusters is a standard technique for studying networks. We study a problem where we are given a directed network and are asked to partition the graph into a sequence of coherent groups. We assume that…
One of the important problems in multiprocessor systems is Task Graph Scheduling. Task Graph Scheduling is an NP-Hard problem. Both learning automata and genetic algorithms are search tools which are used for solving many NP-Hard problems.…
A \emph{binary tanglegram} is a drawing of a pair of rooted binary trees whose leaf sets are in one-to-one correspondence; matching leaves are connected by inter-tree edges. For applications, for example, in phylogenetics, it is essential…
In the matching interdiction problem, we are given an undirected graph with weights and interdiction costs on the edges and seek to remove a subset of the edges constrained to some budget, such that the weight of a maximum weight matching…
Compatibility of unrooted phylogenetic trees is a well studied problem in phylogenetics. It asks to determine whether for a set of k input trees there exists a larger tree (called a supertree) that contains the topologies of all k input…
Phylogenetic trees are leaf-labelled trees used to model the evolution of species. In practice it is not uncommon to obtain two topologically distinct trees for the same set of species, and this motivates the use of distance measures to…
We develop a new framework for generalizing approximation algorithms from the structural graph algorithm literature so that they apply to graphs somewhat close to that class (a scenario we expect is common when working with real-world…
Many studies have been conducted on seeking the efficient solution for subgraph similarity search over certain (deterministic) graphs due to its wide application in many fields, including bioinformatics, social network analysis, and…
Graphs drawn in the plane are ubiquitous, arising from data sets through a variety of methods ranging from GIS analysis to image classification to shape analysis. A fundamental problem in this type of data is comparison: given a set of such…
Many discrete mathematics problems in phylogenetics are defined in terms of the relative labeling of pairs of leaf-labeled trees. These relative labelings are naturally formalized as tanglegrams, which have previously been an object of…
Motivation: Millions of genes in the modern species belong to only thousands of `gene families'. A gene family includes instances of the same gene in different species (orthologs) and duplicate genes in the same species (paralogs). Genes…
The problem of inferring unknown graph edges from numerical data at a graph's nodes appears in many forms across machine learning. We study a version of this problem that arises in the field of \emph{landscape genetics}, where genetic…
Representing graphs by their homomorphism counts has led to the beautiful theory of homomorphism indistinguishability in recent years. Moreover, homomorphism counts have promising applications in database theory and machine learning, where…
In this paper, we present two main results. First, by only one conjecture (Conjecture 2.9) for recognizing a vertex symmetric graph, which is the hardest task for our problem, we construct an algorithm for finding an isomorphism between two…
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…
As a fundamental problem in pattern recognition, graph matching has applications in a variety of fields, from computer vision to computational biology. In graph matching, patterns are modeled as graphs and pattern recognition amounts to…
A classical problem in comparative genomics is to compute the rearrangement distance, that is the minimum number of large-scale rearrangements required to transform a given genome into another given genome. While the most traditional…
The Surjective Homomorphism problem is to test whether a given graph G called the guest graph allows a vertex-surjective homomorphism to some other given graph H called the host graph. The bijective and injective homomorphism problems can…
In recent years, machine learning and deep learning approaches such as artificial neural networks have gained in popularity for the resolution of automatic puzzle resolution problems. Indeed, these methods are able to extract high-level…
Phylogenetic networks are a type of directed acyclic graph that represent how a set $X$ of present-day species are descended from a common ancestor by processes of speciation and reticulate evolution. In the absence of reticulate evolution,…