Related papers: Palindromic Decompositions with Gaps and Errors
Due to its higher data density, longevity, energy efficiency, and ease of generating copies, DNA is considered a promising storage technology for satisfying future needs. However, a diverse set of errors including deletions, insertions,…
The 2-LCPS problem, first introduced by Chowdhury et al. [Fundam. Inform., 129(4):329-340, 2014], asks one to compute (the length of) a longest palindromic common subsequence between two given strings $A$ and $B$. We show that the 2-LCPS…
Exact pattern matching in labeled graphs is the problem of searching paths of a graph $G=(V,E)$ that spell the same string as the given pattern $P[1..m]$. This basic problem can be found at the heart of more complex operations on variation…
This paper addresses a class of problems under interval data uncertainty composed of min-max regret versions of classical 0-1 optimization problems with interval costs. We refer to them as interval 0-1 min-max regret problems. The…
We consider the problem of maintaining an approximate maximum integral matching in a dynamic graph $G$, while the adversary makes changes to the edges of the graph. The goal is to maintain a $(1+\epsilon)$-approximate maximum matching for…
A composition of a nonnegative integer (n) is a sequence of positive integers whose sum is (n). A composition is palindromic if it is unchanged when its terms are read in reverse order. We provide a generating function for the number of…
Lately, there is a growing interest in dynamic string matching problems. Specifically, the dynamic Longest Common Factor problem has been researched and some interesting results has been reached. In this paper we examine another classic…
We investigate the least number of palindromic factors in an infinite word. We first consider general alphabets, and give answers to this problem for periodic and non-periodic words, closed or not under reversal of factors. We then…
This paper presents significantly improved deterministic algorithms for some of the key problems in the area of distributed graph algorithms, including network decomposition, hitting sets, and spanners. As the main ingredient in these…
With the unprecedented growth of signal processing and machine learning application domains, there has been a tremendous expansion of interest in distributed optimization methods to cope with the underlying large-scale problems.…
A tandem duplication denotes the process of inserting a copy of a segment of DNA adjacent to its original position. More formally, a tandem duplication can be thought of as an operation that converts a string $S = AXB$ into a string $T =…
We present a new on-line algorithm for computing the Lempel-Ziv factorization of a string that runs in $O(N\log N)$ time and uses only $O(N\log\sigma)$ bits of working space, where $N$ is the length of the string and $\sigma$ is the size of…
Maximum-likelihood (ML) decoding can be used to obtain the optimal performance of error correction codes. However, the size of the search space and consequently the decoding complexity grows exponentially, making it impractical to be…
We consider the longest common subsequence problem in the context of subsequences with gap constraints. In particular, following Day et al. 2022, we consider the setting when the distance (i. e., the gap) between two consecutive symbols of…
Here we study the complexity of string problems as a function of the size of a program that generates input. We consider straight-line programs (SLP), since all algorithms on SLP-generated strings could be applied to processing…
Can we analyze data without decompressing it? As our data keeps growing, understanding the time complexity of problems on compressed inputs, rather than in convenient uncompressed forms, becomes more and more relevant. Suppose we are given…
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…
We consider the group isomorphism problem: given two finite groups G and H specified by their multiplication tables, decide if G cong H. For several decades, the n^(log_p n + O(1)) generator-enumeration bound (where p is the smallest prime…
A palindrome is a string that reads the same forward and backward. A palindromic substring $w$ of a string $T$ is called a minimal unique palindromic substring (MUPS) of $T$ if $w$ occurs only once in $T$ and any proper palindromic…
In this paper, we present improved decoding algorithms for expander-based Tanner codes. We begin by developing a randomized linear-time decoding algorithm that, under the condition that $ \delta d_0 > 2 $, corrects up to $ \alpha n $ errors…