Related papers: Longest Common Subsequence with Gap Constraints
Consider finite sequences $X_{[1,n]}=X_1\dots X_n$ and $Y_{[1,n]}=Y_1\dots Y_n$ of length $n$, consisting of i.i.d.\ samples of random letters from a finite alphabet, and let $S$ and $T$ be chosen i.i.d.\ randomly from the unit ball in the…
This paper addresses the Variable Gapped Longest Common Subsequence (VGLCS) problem, a generalization of the classical LCS problem involving flexible gap constraints between consecutive solutions' characters. The problem arises in molecular…
The Shortest Common Supersequence problem (SCS for short) consists in finding a shortest common supersequence of a finite set of words on a fixed alphabet Sigma. It is well-known that its decision version denoted [SR8] in [Garey and…
Frequency estimation in data streams is one of the classical problems in streaming algorithms. Following much research, there are now almost matching upper and lower bounds for the trade-off needed between the number of samples and the…
Consider the problem on sequential change-point detection on multiple data streams. We provide the asymptotic lower bounds of the detection delays at all levels of change-point sparsity and we derive a smaller asymptotic lower bound of the…
Many existing global constraints can be encoded as a conjunction of among constraints. An among constraint holds if the number of the variables in its scope whose value belongs to a prespecified set, which we call its range, is within some…
Counting substrings/subsequences that preserve some property (e.g., palindromes, squares) is an important mathematical interest in stringology. Recently, Glen et al. studied the number of Lyndon factors in a string. A string $w = uv$ is…
Multiple sequence alignment (MSA) has been one of the most important problems in bioinformatics for more decades and it is still heavily examined by many mathematicians and biologists. However, mostly because of the practical motivation of…
This paper addresses the Restricted Longest Common Subsequence (RLCS) problem, an extension of the well-known Longest Common Subsequence (LCS) problem. This problem has significant applications in bioinformatics, particularly for…
We give a near-optimal quantum algorithm for the longest common substring (LCS) problem between two run-length encoded (RLE) strings, with the assumption that the prefix-sums of the run-lengths are given. Our algorithm costs…
In this paper we present a method for obtaining tail-bounds for random variables satisfying certain probabilistic recurrences that arise in the analysis of randomized parallel divide and conquer algorithms. In such algorithms, some…
We consider the number of occurrences of subwords (non-consecutive sub-sequences) in a given word. We first define the notion of subword entropy of a given word that measures the maximal number of occurrences among all possible subwords. We…
Finding upper limits on the rate of events from a proposed process in the presence of unknown backgrounds is an often encountered problem in the search for rare processes. Methods based on unusually large "gaps", or spacings, in the event…
A superstring of a set of strings correspond to a string which contains all the other strings as substrings. The problem of finding the Shortest Linear Superstring is a well-know and well-studied problem in stringology. We present here a…
The rate vs. distance problem is a long-standing open problem in coding theory. Recent papers have suggested a new way to tackle this problem by appealing to a new hierarchy of linear programs. If one can find good dual solutions to these…
We study the longest increasing subsequence problem for random permutations avoiding the pattern $312$ and another pattern $\tau$ under the uniform probability distribution. We determine the exact and asymptotic formulas for the average…
The classic string indexing problem is to preprocess a string $S$ into a compact data structure that supports efficient subsequent pattern matching queries, that is, given a pattern string $P$, report all occurrences of $P$ within $S$. In…
This paper considers pairs of optimization problems that are defined from a single input and for which it is desired to find a good approximation to either one of the problems. In many instances, it is possible to efficiently find an…
We prove an optimal $\Omega(n)$ lower bound on the randomized communication complexity of the much-studied Gap-Hamming-Distance problem. As a consequence, we obtain essentially optimal multi-pass space lower bounds in the data stream model…
Measuring the distance between data points is fundamental to many statistical techniques, such as dimension reduction or clustering algorithms. However, improvements in data collection technologies has led to a growing versatility of…