Related papers: Inverting Parameterized Burrows-Wheeler Transform
The suffix tree is arguably the most fundamental data structure on strings: introduced by Weiner (SWAT 1973) and McCreight (JACM 1976), it allows solving a myriad of computational problems on strings in linear time. Motivated by its large…
In highly repetitive strings, like collections of genomes from the same species, distinct measures of repetition all grow sublinearly in the length of the text, and indexes targeted to such strings typically depend only on one of these…
We show how to build several data structures of central importance to string processing, taking as input the Burrows-Wheeler transform (BWT) and using small extra working space. Let $n$ be the text length and $\sigma$ be the alphabet size.…
The timed pattern matching problem is formulated by Ulus et al. and has been actively studied since, with its evident application in monitoring real-time systems. The problem takes as input a timed word/signal and a timed pattern (specified…
We formulate and explain the extended Burrows-Wheeler transform of Mantaci et al from the viewpoint of permutations on a chain taken as a union of partial order-preserving mappings. In so doing we establish a link with syntactic semigroups…
The compact directed acyclic word graph (CDAWG) is the minimal compact automaton that recognizes all the suffixes of a string. Classically the CDAWG has been implemented as an index of the string it recognizes, requiring $o(n)$ space for a…
We revisit a graph width parameter that we dub bipartite treewidth (btw). Bipartite treewidth can be seen as a common generalization of treewidth and the odd cycle transversal number, and is closely related to odd-minors. Intuitively, a…
We consider the inverse problem of reconstructing an unknown function $u$ from a finite set of measurements, under the assumption that $u$ is the trajectory of a transport-dominated problem with unknown input parameters. We propose an…
The Extended Burrows Wheeler transform (EBWT) helps to find the distance between two sequences. Implementation of an existing algorithm takes considerable amount of time for small size sequences. In this paper, we give a parallel…
In this paper, we propose a novel feature weighting method to address the limitation of existing feature processing methods for tabular data. Typically the existing methods assume equal importance across all samples and features in one…
The rapid scaling of language models is motivating research using low-bitwidth quantization. In this work, we propose a novel binarization technique for Transformers applied to machine translation (BMT), the first of its kind. We identify…
Given a pattern $P$ and a text $T$, both strings over a binary alphabet, the binary jumbled string matching problem consists in telling whether any permutation of $P$ occurs in $T$. The indexed version of this problem, i.e., preprocessing a…
Permutation polynomials and their compositional inverses have wide applications in cryptography, coding theory, and combinatorial designs. Motivated by several previous results on finding compositional inverses of permutation polynomials of…
We propose a new technique for creating a space-efficient index for large repetitive text collections, such as pangenomic databases containing sequences of many individuals from the same species. We combine two recent techniques from this…
A self-index is a compressed data structure that supports locate queries -- reporting all positions where a given pattern occurs in a string while maintaining the string in compressed form. While many self-indexes have been proposed,…
A pattern p (i.e., a string of variables and terminals) matches a word w, if w can be obtained by uniformly replacing the variables of p by terminal words. The respective matching problem, i.e., deciding whether or not a given pattern…
A novel template matching algorithm that can incorporate the concept of deformable parts, is presented in this paper. Unlike the deformable part model (DPM) employed in object recognition, the proposed template-matching approach called…
The core-EP and BT inverses for rectangular matrices were studied recently in the literature. The main aim of this paper is to unify both concepts by means of a new kind of generalized inverse called $W$-weighted $q$-BT inverse. We analyze…
Given a text and a pattern over two types of symbols called constants and variables, the parameterized pattern matching problem is to find all occurrences of substrings of the text that the pattern matches by substituting a variable in the…
Ordering the collection of states of a given automaton starting from an order of the underlying alphabet is a natural move towards a computational treatment of the language accepted by the automaton. Along this path, Wheeler \emph{graphs}…