Related papers: An Improved FPT Algorithm for Computing the Interl…
Alternative unsplit-filed-based absorbing boundary condition (ABC) computation approach for the finite-difference time-domain (FDTD) is efficiently proposed based on the deep differentiable forest. The deep differentiable forest (DDF) model…
There is a rising interest in mapping trees using satellite or aerial imagery, but there is no standardized evaluation protocol for comparing and enhancing methods. In dense canopy areas, the high variability of tree sizes and their spatial…
Dual-tree algorithms are a widely used class of branch-and-bound algorithms. Unfortunately, developing dual-tree algorithms for use with different trees and problems is often complex and burdensome. We introduce a four-part logical split:…
We present a scalable approach for range and $k$ nearest neighbor queries under computationally expensive metrics, like the continuous Fr\'echet distance on trajectory data. Based on clustering for metric indexes, we obtain a dynamic tree…
Feature-mapping methods for topology optimization (FMTO) facilitate direct geometry extraction by leveraging high-level geometric descriptions of the designs. However, FMTO often relies solely on Boolean unions, which can restrict the…
This paper presents a linear FPT algorithm to find a tree decomposition with a 2-approximation of the treewidth with a significantly smaller exponential dependence on the treewidth. The algorithm runs in time $O(\text{poly}(k) 81^k n)$,…
We present approximation algorithms for the following NP-hard optimization problems related to bottleneck spanning trees in metric spaces. 1. The disjoint bottleneck spanning tree problem: Given $n$ pairs of points in a metric space, find…
The treedepth of a graph $G$ is the least possible depth of an elimination forest of $G$: a rooted forest on the same vertex set where every pair of vertices adjacent in $G$ is bound by the ancestor/descendant relation. We propose an…
Rotation distance between trees measures the number of simple operations it takes to transform one tree into another. There are no known polynomial-time algorithms for computing rotation distance. In the case of ordered rooted trees, we…
Bayesian Markov chain Monte Carlo explores tree space slowly, in part because it frequently returns to the same tree topology. An alternative strategy would be to explore tree space systematically, and never return to the same topology. In…
We show that for various classes C of sparse graphs, and several measures of distance to such classes (such as edit distance and elimination distance), the problem of determining the distance of a given graph G to C is fixed-parameter…
Comparative analysis of scalar fields in scientific visualization often involves distance functions on topological abstractions. This paper focuses on the merge tree abstraction (representing the nesting of sub- or superlevel sets) and…
Determining the interaction partners among protein/domain families poses hard computational problems, in particular in the presence of paralogous proteins. Available approaches aim to identify interaction partners among protein/domain…
In this thesis, Minimal Partitioning (MP) algorithm, an innovative algorithm for enumerating all the spanning trees in an undirected graph is presented. While MP algorithm uses a computational tree graph to traverse all possible spanning…
A metric phylogenetic tree relating a collection of taxa induces weighted rooted triples and weighted quartets for all subsets of three and four taxa, respectively. New intertaxon distances are defined that can be calculated from these…
We give algorithms for geometric graph problems in the modern parallel models inspired by MapReduce. For example, for the Minimum Spanning Tree (MST) problem over a set of points in the two-dimensional space, our algorithm computes a…
A tree $\sigma$-spanner of a positively real-weighted $n$-vertex and $m$-edge undirected graph $G$ is a spanning tree $T$ of $G$ which approximately preserves (i.e., up to a multiplicative stretch factor $\sigma$) distances in $G$. Tree…
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…
We consider the problem of augmenting an $n$-vertex tree with one shortcut in order to minimize the diameter of the resulting graph. The tree is embedded in an unknown space and we have access to an oracle that, when queried on a pair of…
Phylogenetic trees illustrate the evolutionary history of genes and species. In most cases, although genes evolve along with the species they belong to, a species tree and gene tree are not identical, because of evolutionary events at the…