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We present a linear programming based algorithm for computing a spanning tree $T$ of a set $P$ of $n$ points in $\Re^d$, such that its crossing number is $O(\min(t \log n, n^{1-1/d}))$, where $t$ the minimum crossing number of any spanning…
Dot plots are a standard method for local comparison of biological sequences. In a dot plot, a substring to substring distance is computed for all pairs of fixed-size windows in the input strings. Commonly, the Hamming distance is used…
It is well known that a binomial $(n,p)$ can be approximated by a Poisson distribution with parameter $np$. The typical approach in undergraduate probability texts is to show a convergence result for the distribution of the binomial as $n$…
In Pattern Matching with Weighted Edits (PMWED), we are given a pattern $P$ of length $m$, a text $T$ of length $n$, a positive threshold $k$, and oracle access to a weight function that specifies the costs of edits (depending on the…
We present a $(1- \varepsilon)$-approximation algorithms for maximum cardinality matchings in disk intersection graphs -- all with near linear running time. We also present estimation algorithm that returns $(1\pm…
A distance labeling scheme is an assignments of labels, that is binary strings, to all nodes of a graph, so that the distance between any two nodes can be computed from their labels and the labels are as short as possible. A major open…
Let $P$ and $Q$ be two simple polygons in the plane of total complexity $n$, each of which can be decomposed into at most $k$ convex parts. We present an $(1-\varepsilon)$-approximation algorithm, for finding the translation of $Q$, which…
The Fr\'echet distance is a commonly used similarity measure between curves. It is known how to compute the continuous Fr\'echet distance between two polylines with $m$ and $n$ vertices in $\mathbb{R}^d$ in $O(mn (\log \log n)^2)$ time;…
Optimal transport and its related problems, including optimal partial transport, have proven to be valuable tools in machine learning for computing meaningful distances between probability or positive measures. This success has led to a…
Dynamic Time Warping (DTW) is a widely used similarity measure for comparing strings that encode time series data, with applications to areas including bioinformatics, signature verification, and speech recognition. The standard…
In this note, we first introduce a new problem called the longest common subsequence and substring problem. Let $X$ and $Y$ be two strings over an alphabet $\Sigma$. The longest common subsequence and substring problem for $X$ and $Y$ is to…
In the field of topological data analysis, persistence modules are used to express geometrical features of data sets. The matching distance $d_\mathcal{M}$ measures the difference between $2$-parameter persistence modules by taking the…
The minimum distance of a code is an important concept in information theory. Hence, computing the minimum distance of a code with a minimum computational cost is a crucial process to many problems in this area. In this paper, we present…
In this paper, we design new sublinear-time algorithms for solving the gap edit distance problem and for embedding edit distance to Hamming distance. For the gap edit distance problem, we give an $\tilde{O}(\frac{n}{k}+k^2)$-time greedy…
In this paper we consider several variants of the pattern matching problem. In particular, we investigate the following problems: 1) Pattern matching with k mismatches; 2) Approximate counting of mismatches; and 3) Pattern matching with…
Within the field of phylogenetics there is great interest in distance measures to quantify the dissimilarity of two trees. Here, based on an idea of Bruen and Bryant, we propose and analyze a new distance measure: the Maximum Parsimony (MP)…
Given a set $\mathcal{P}$ of $h$ pairwise disjoint simple polygonal obstacles in $\mathbb{R}^2$ defined with $n$ vertices, we compute a sketch $\Omega$ of $\mathcal{P}$ whose size is independent of $n$, depending only on $h$ and the input…
Many combinatorial optimization problems can be formulated as the search for a subgraph that satisfies certain properties and minimizes the total weight. We assume here that the vertices correspond to points in a metric space and can take…
It is an open question whether there exists a polynomial-time algorithm for computing the rotation distances between pairs of extended ordered binary trees. The problem of computing the rotation distance between an arbitrary pair of trees,…
Given two distributions $P$ and $S$ of equal total mass, the Earth Mover's Distance measures the cost of transforming one distribution into the other, where the cost of moving a unit of mass is equal to the distance over which it is moved.…