Related papers: A Space-Efficient Algorithm for Longest Common Alm…
We revisit the Subset Sum problem over the finite cyclic group $\mathbb{Z}_m$ for some given integer $m$. A series of recent works has provided near-optimal algorithms for this problem under the Strong Exponential Time Hypothesis. Koiliaris…
Given two strings $S$ and $P$, the Episode Matching problem is to find the shortest substring of $S$ that contains $P$ as a subsequence. The best known upper bound for this problem is $\tilde O(nm)$ by Das et al. (1997) , where $n,m$ are…
Given an input $x$, and a search problem $F$, local computation algorithms (LCAs) implement access to specified locations of $y$ in a legal output $y \in F(x)$, using polylogarithmic time and space. Mansour et al., (2012), had previously…
In this work, we consider a variant of the classical Longest Common Subsequence problem called Doubly-Constrained Longest Common Subsequence (DC-LCS). Given two strings s1 and s2 over an alphabet A, a set C_s of strings, and a function Co…
Recently, the predicate detection problem was shown to be in the parallel complexity class NC. In this paper, we give the first work-optimal parallel algorithm to solve the predicate detection problem on a distributed computation with $n$…
This paper is about the old Wahba problem in its more general form, which we call "simultaneous rotation and correspondence search". In this generalization we need to find a rotation that best aligns two partially overlapping $3$D point…
A lattice is a partially-ordered set in which every pair of elements has a unique meet (greatest lower bound) and join (least upper bound). We present new data structures for lattices that are simple, efficient, and nearly optimal in terms…
For a set of mulitple sequences, their patterns,Longest Common Subsequences (LCS) and Shortest Common Supersequences (SCS) represent different aspects of these sequences profile, and they can all be used for biological sequence comparisons…
The study of approximate matching in the Massively Parallel Computations (MPC) model has recently seen a burst of breakthroughs. Despite this progress, however, we still have a far more limited understanding of maximal matching which is one…
In the Max $r$-SAT problem, the input is a CNF formula with $n$ variables where each clause is a disjunction of at most $r$ literals. The objective is to compute an assignment which satisfies as many of the clauses as possible. While there…
We present an $O(1)$-round fully-scalable deterministic massively parallel algorithm for computing the min-plus matrix multiplication of unit-Monge matrices. We use this to derive a $O(\log n)$-round fully-scalable massively parallel…
In this paper we initiate the study of computing a maximal (not necessarily maximum) repeating pattern in a single input string, where the corresponding problems have been studied (e.g., a maximal common subsequence) only in two or more…
This study investigates whether reoptimization can help in solving the closest substring problem. We are dealing with the following reoptimization scenario. Suppose, we have an optimal l-length closest substring of a given set of sequences…
The classical 3SUM conjecture states that the class of 3SUM-hard problems does not admit a truly subquadratic $O(n^{2-\delta})$-time algorithm, where $\delta >0$, in classical computing. The geometric 3SUM-hard problems have widely been…
We study the classic problem of scheduling $n$ precedence constrained unit-size jobs on $m = O(1)$ machines so as to minimize the makespan. In a recent breakthrough, Levey and Rothvoss \cite{LR16} developed a $(1+\epsilon)$-approximation…
The length of the longest common subsequences (LCSs) is often used as a similarity measurement to compare two (or more) random words. Below we study its statistical behavior in mean and variance using a Monte-Carlo approach from which we…
The classical pattern matching asks for locating all occurrences of one string, called the pattern, in another, called the text, where a string is simply a sequence of characters. Due to the potential practical applications, it is desirable…
Given a string $T$ with length $n$ whose characters are drawn from an ordered alphabet of size $\sigma$, its longest Lyndon subsequence is a longest subsequence of $T$ that is a Lyndon word. We propose algorithms for finding such a…
Code embeddings capture the semantic representations of code and are crucial for various code-related large language model (LLM) applications, such as code search. Previous training primarily relies on optimizing the InfoNCE loss by…
The Average Common Substring (ACS) is a popular alignment-free distance measure for phylogeny reconstruction. The ACS can be computed in O(n) space and time, where n=x+y is the input size. The compressed string matching is the study of…