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Motivated by comparative genomics, Chen et al. [9] introduced the Maximum Duo-preservation String Mapping (MDSM) problem in which we are given two strings $s_1$ and $s_2$ from the same alphabet and the goal is to find a mapping $\pi$…
Within the field of phylogenetics there is great interest in distance measures to quantify the dissimilarity of two trees. Recently, a new distance measure has been proposed: the Maximum Parsimony (MP) distance. This is based on the…
We propose an algorithm whose input are parameters $k$ and $r$ and a hypergraph $H$ of rank at most $r$. The algorithm either returns a tree decomposition of $H$ of generalized hypertree width at most $4k$ or 'NO'. In the latter case, it is…
This paper presents a novel algorithm, called MRRT, which uses multiple rapidly-exploring random trees for fast online replanning of autonomous vehicles in dynamic environments with moving obstacles. The proposed algorithm is built upon the…
We present an empirical analysis of data structures for approximate nearest neighbor searching. We compare the well-known optimized kd-tree splitting method against two alternative splitting methods. The first, called the sliding-midpoint…
We present Lower Bound Tree-RRT (LBT-RRT), a single-query sampling-based algorithm that is asymptotically near-optimal. Namely, the solution extracted from LBT-RRT converges to a solution that is within an approximation factor of 1+epsilon…
We address the problem of computing distances between rankings that take into account similarities between candidates. The need for evaluating such distances is governed by applications as diverse as rank aggregation, bioinformatics, social…
Computing an optimal classification tree that provably maximizes training performance within a given size limit, is NP-hard, and in practice, most state-of-the-art methods do not scale beyond computing optimal trees of depth three.…
The Metric Traveling Salesman Problem (TSP) is a classical NP-hard optimization problem. The double-tree shortcutting method for Metric TSP yields an exponentially-sized space of TSP tours, each of which approximates the optimal solution…
Rapidly Exploring Random Trees (RRT) is one of the most widely used algorithms for motion planning in the field of robotics. To reduce the exploration time, RRT-Connect was introduced where two trees are simultaneously formed and eventually…
Recovering a tree that represents the evolutionary history of a group of species is a key task in phylogenetics. Performing this task using sequence data from multiple genetic markers poses two key challenges. The first is the discordance…
Transfer learning is an increasingly common approach for developing performant RL agents. However, it is not well understood how to define the relationship between the source and target tasks, and how this relationship contributes to…
We propose a new modified primal-dual proximal best approximation method for solving convex not necessarily differentiable optimization problems. The novelty of the method relies on introducing memory by taking into account iterates…
In this work, a set reconciliation setting is considered in which two parties have similar sets that they would like to reconcile. In particular, we focus on a divide-and-conquer strategy known as partitioned set reconciliation (PSR), in…
The ancestral maximum-likelihood and phylogeography problems are two fundamental problems involving evolutionary studies. The ancestral maximum-likelihood problem involves identifying a rooted tree alongside internal node sequences that…
In this paper, we present a factor 16 approximation algorithm for the following NP-hard distance fitting problem: given a finite set X and a distance d on X, find a Robinsonian distance dR on X minimizing the l\infty-error ||d - dR||\infty…
In this paper, we study the prize-collecting rural postman problem (PCRPP), a variant of the rural postman problem. Given a PCRPP instance consisting of an undirected graph whose edges have nonnegative lengths and nonnegative profits,…
Sampling-based motion planning algorithms are widely used in robotics because they are very effective in high-dimensional spaces. However, the success rate and quality of the solutions are determined by an adequate selection of their…
We propose a novel method designed for large-scale regression problems, namely the two-stage best-scored random forest (TBRF). "Best-scored" means to select one regression tree with the best empirical performance out of a certain number of…
UPGMA is a heuristic method identifying the least squares equidistant phylogenetic tree given empirical distance data among $n$ taxa. We study this classic algorithm using the geometry of the space of all equidistant trees with $n$ leaves,…