Related papers: Sublinear Space Algorithms for the Longest Common …

The Longest Common Subsequence (LCS) problem is a fundamental problem of sequence comparison. A natural approximation to this problem is a model in which every pairs of letters of two ``sequences'' are matched independently of the other…

Computation on compressed strings is one of the key approaches to processing massive data sets. We consider local subsequence recognition problems on strings compressed by straight-line programs (SLP), which is closely related to…

This study develops an algorithm to solve a variation of the Shortest Common Superstring (SCS) problem. There are two modifications to the base SCS problem. First, one string in the set S is allowed to have up to K mistakes, defined as not…

Longest common extension queries (often called longest common prefix queries) constitute a fundamental building block in multiple string algorithms, for example computing runs and approximate pattern matching. We show that a sequence of $q$…

We present space efficient Monte Carlo algorithms that solve Subset Sum and Knapsack instances with $n$ items using $O^*(2^{0.86n})$ time and polynomial space, where the $O^*(\cdot)$ notation suppresses factors polynomial in the input size.…

At CPM 2017, Castelli et al. define and study a new variant of the Longest Common Subsequence Problem, termed the Longest Filled Common Subsequence Problem (LFCS). For the LFCS problem, the input consists of two strings $A$ and $B$ and a…

For nearly six decades, the central open question in the study of hash tables has been to determine the optimal achievable tradeoff curve between time and space. State-of-the-art hash tables offer the following guarantee: If keys/values are…

Let us consider the Multiple String Matching Problem. In this problem, we consider a long string, denoted by $t$, of length $n$. This string is referred to as a text. We also consider a sequence of $m$ strings, denoted by $S$, which we…

In this work, we study the limits of compressed data structures, i.e., structures that support various queries on an input text $T\in\Sigma^n$ using space proportional to the size of $T$ in compressed form. Nearly all fundamental queries…

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…

A noticeable fraction of Algorithms papers in the last few decades improve the running time of well-known algorithms for fundamental problems by logarithmic factors. For example, the $O(n^2)$ dynamic programming solution to the Longest…

Given two equally long, uniformly random binary strings, the expected length of their longest common subsequence (LCS) is asymptotically proportional to the strings' length. Finding the proportionality coefficient $\gamma$, i.e. the limit…

In this paper, we study for the first time the Diverse Longest Common Subsequences (LCSs) problem under Hamming distance. Given a set of a constant number of input strings, the problem asks to decide if there exists some subset $\mathcal X$…

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 algorithm computing the longest periodic subsequence of a string of length $n$ in $O(n^7)$ time with $O(n^4)$ words of space. We obtain improvements when restricting the exponents or extending the search allowing the reported…

[See the paper for the full abstract.] We show tight upper and lower bounds for time-space trade-offs for the $c$-Approximate Near Neighbor Search problem. For the $d$-dimensional Euclidean space and $n$-point datasets, we develop a data…

Given a set of pattern strings $\mathcal{P}=\{P_1, P_2,\ldots P_k\}$ and a text string $S$, the classic dictionary matching problem is to report all occurrences of each pattern in $S$. We study the dictionary problem in the compressed…

In the problem of $\texttt{Generalised Pattern Matching}\ (\texttt{GPM})$ [STOC'94, Muthukrishnan and Palem], we are given a text $T$ of length $n$ over an alphabet $\Sigma_T$, a pattern $P$ of length $m$ over an alphabet $\Sigma_P$, and a…

We revisit the problem of longest common property preserving substring queries introduced by~Ayad et al. (SPIRE 2018, arXiv 2018). We consider a generalized and unified on-line setting, where we are given a set $X$ of $k$ strings of total…

Given $d$ strings over the alphabet $\{0,1,\ldots,\sigma{-}1\}$, the classical Aho--Corasick data structure allows us to find all $occ$ occurrences of the strings in any text $T$ in $O(|T| + occ)$ time using $O(m\log m)$ bits of space,…