Related papers: Faster subsequence recognition in compressed strin…
Longest common subsequence (LCS) is one of the most fundamental problems in combinatorial optimization. Apart from theoretical importance, LCS has enormous applications in bioinformatics, revision control systems, and data comparison…
Longest Run Subsequence is a problem introduced recently in the context of the scaffolding phase of genome assembly (Schrinner et al., WABI 2020). The problem asks for a maximum length subsequence of a given string that contains at most one…
We study the problem of enumerating results from a query over a compressed document. The model we use for compression are straight-line programs (SLPs), which are defined by a context-free grammar that produces a single string. For our…
We present a unified framework for accelerating edit-distance computation between two compressible strings using straight-line programs. For two strings of total length $N$ having straight-line program representations of total size $n$, we…
The problem of finding longest common subsequence (LCS) is one of the fundamental problems in computer science, which finds application in fields such as computational biology, text processing, information retrieval, data compression etc.…
The equidistant subsequence pattern matching problem is considered. Given a pattern string $P$ and a text string $T$, we say that $P$ is an \emph{equidistant subsequence} of $T$ if $P$ is a subsequence of the text such that consecutive…
Lempel-Ziv (LZ77 or, briefly, LZ) is one of the most effective and widely-used compressors for repetitive texts. However, the existing efficient methods computing the exact LZ parsing have to use linear or close to linear space to index the…
The complexity of computing the Lempel-Ziv factorization and the set of all runs (= maximal repetitions) is studied in the decision tree model of computation over ordered alphabet. It is known that both these problems can be solved by RAM…
The problem of finding a longest common subsequence of two main sequences with some constraint that must be a substring of the result (STR-IC-LCS) was formulated recently. It is a variant of the constrained longest common subsequence…
As large language models (LLMs) continue to be deployed and utilized across domains, the volume of LLM-generated data is growing rapidly. This trend highlights the increasing importance of effective and lossless compression for such data in…
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.…
Repeat finding in strings has important applications in subfields such as computational biology. Surprisingly, all prior work on repeat finding did not consider the constraint on the locality of repeats. In this paper, we propose and study…
In this article, an efficient sequential linear programming algorithm (SLP) for uncertainty analysis-based data-driven computational mechanics (UA-DDCM) is presented. By assuming that the uncertain constitutive relationship embedded behind…
This paper investigates the approximability of the Longest Common Subsequence (LCS) problem. The fastest algorithm for solving the LCS problem exactly runs in essentially quadratic time in the length of the input, and it is known that under…
Nowadays, with the rapid development of the Internet, the era of big data has come. The Internet generates huge amounts of data every day. However, extracting meaningful information from massive data is like looking for a needle in a…
In this paper, we consider the ``Shortest Superstring Problem''(SSP) or the ``Shortest Common Superstring Problem''(SCS). The problem is as follows. For a positive integer $n$, a sequence of n strings $S=(s^1,\dots,s^n)$ is given. We should…
Sequence processing has long been a central area of machine learning research. Recurrent neural nets have been successful in processing sequences for a number of tasks; however, they are known to be both ineffective and computationally…
Despite the recent success of Large Language Models (LLMs), it remains challenging to feed LLMs with long prompts due to the fixed size of LLM inputs. As a remedy, prompt compression becomes a promising solution by removing redundant tokens…
Linear computation coding is concerned with the compression of multidimensional linear functions, i.e. with reducing the computational effort of multiplying an arbitrary vector to an arbitrary, but known, constant matrix. This paper…
We show that both the Lempel Ziv 77- and the 78-factorization of a text of length $n$ on an integer alphabet of size $\sigma$ can be computed in $O(n \lg \lg \sigma)$ time (linear time if we allow randomization) using $O(n \lg \sigma)$ bits…