Related papers: Faster algorithms for 1-mappability of a sequence
We study algorithms for solving three problems on strings. The first one is the Most Frequently String Search Problem. The problem is the following. Assume that we have a sequence of $n$ strings of length $k$. The problem is finding the…
We consider the problem of inserting a new item into an ordered list of N-1 items. The length of an algorithm is measured by the number of comparisons it makes between the new item and items already on the list. Classically, determining the…
We improve the running times of $O(1)$-approximation algorithms for the set cover problem in geometric settings, specifically, covering points by disks in the plane, or covering points by halfspaces in three dimensions. In the unweighted…
In 2013, Orlin proved that the max flow problem could be solved in $O(nm)$ time. His algorithm ran in $O(nm + m^{1.94})$ time, which was the fastest for graphs with fewer than $n^{1.06}$ arcs. If the graph was not sufficiently sparse, the…
The problem of finding \emph{distance} between \emph{pattern} of length $m$ and \emph{text} of length $n$ is a typical way of generalizing pattern matching to incorporate dissimilarity score. For both Hamming and $L_1$ distances only a…
We consider the (exact, minimum) $k$-cut problem: given a graph and an integer $k$, delete a minimum-weight set of edges so that the remaining graph has at least $k$ connected components. This problem is a natural generalization of the…
We present and analyze a wait-free deterministic algorithm for solving the at-most-once problem: how m shared-memory fail-prone processes perform asynchronously n jobs at most once. Our algorithmic strategy provides for the first time…
We study approximation algorithms for the following geometric version of the maximum coverage problem: Let $\mathcal{P}$ be a set of $n$ weighted points in the plane. Let $D$ represent a planar object, such as a rectangle, or a disk. We…
In the moldable job scheduling problem one has to assign a set of $n$ jobs to $m$ machines, in order to minimize the time it takes to process all jobs. Each job is moldable, so it can be assigned not only to one but any number of the equal…
We consider online algorithms for the $k$-server problem on trees. There is a $k$-competitive algorithm for this problem, and it is the best competitive ratio. M. Chrobak and L. Larmore provided it. At the same time, the existing…
We present three algorithms to compute the complexity $\Vert n\Vert$ of all natural numbers $ n\le N$. The first of them is a brute force algorithm, computing all these complexities in time $O(N^2)$ and space $O(N\log^2 N)$. The main…
We revisit the $k$-mismatch problem in the streaming model on a pattern of length $m$ and a streaming text of length $n$, both over a size-$\sigma$ alphabet. The current state-of-the-art algorithm for the streaming $k$-mismatch problem, by…
We consider the problem of computing a $(1+\epsilon)$-approximation of the Hamming distance between a pattern of length $n$ and successive substrings of a stream. We first look at the one-way randomised communication complexity of this…
Computing the LZ factorization (or LZ77 parsing) of a string is a computational bottleneck in many diverse applications, including data compression, text indexing, and pattern discovery. We describe new linear time LZ factorization…
Several biological problems require the identification of regions in a sequence where some feature occurs within a target density range: examples including the location of GC-rich regions, identification of CpG islands, and sequence…
N-fold integer programming is a fundamental problem with a variety of natural applications in operations research and statistics. Moreover, it is universal and provides a new, variable-dimension, parametrization of all of integer…
Given an LZW/LZ78 compressed text, we want to find an approximate occurrence of a given pattern of length m. The goal is to achieve time complexity depending on the size n of the compressed representation of the text instead of its length.…
In this paper we define a new problem, motivated by computational biology, $LCSk$ aiming at finding the maximal number of $k$ length $substrings$, matching in both input strings while preserving their order of appearance. The traditional…
We provide a new algorithm to determine stuttering equivalence with time complexity $O(m \log n)$, where $n$ is the number of states and $m$ is the number of transitions of a Kripke structure. This algorithm can also be used to determine…
We study the streaming complexity of the membership problem of 1-turn-Dyck2 and Dyck2 when there are a few errors in the input string. 1-turn-Dyck2 with errors: We prove that there exists a randomized one-pass algorithm that given x checks…