相关论文: Compressed Spaced Suffix Arrays

The suffix array is a data structure that finds numerous applications in string processing problems for both linguistic texts and biological data. It has been introduced as a memory efficient alternative for suffix trees. The suffix array…

A suffix tree is a data structure used mainly for pattern matching. It is known that the space complexity of simple suffix trees is quadratic in the length of the string. By a slight modification of the simple suffix trees one gets the…

In recent years, a lot of attention has been devoted to efficient nearest neighbor search by means of similarity-preserving hashing. One of the plights of existing hashing techniques is the intrinsic trade-off between performance and…

Supervised hashing aims to map the original features to compact binary codes that are able to preserve label based similarity in the Hamming space. Non-linear hash functions have demonstrated the advantage over linear ones due to their…

Suffix tree (and the closely related suffix array) are fundamental structures capturing all substrings of a given text essentially by storing all its suffixes in the lexicographical order. In some applications, we work with a subset of $b$…

The dictionary matching problem is to locate occurrences of any pattern among a set of patterns in a given text. Massive data sets abound and at the same time, there are many settings in which working space is extremely limited. We…

We present first algorithmic ideas for a practical and lightweight adaption of the DCX suffix array construction algorithm [Sanders et al., 2003] to the distributed-memory setting. Our approach relies on a bucketing technique which enables…

Given a string $S$ of length $n$, the classic string indexing problem is to preprocess $S$ into a compact data structure that supports efficient subsequent pattern queries. In this paper we consider the basic variant where the pattern is…

Text indexing is a classical algorithmic problem that has been studied for over four decades: given a text $T$, pre-process it off-line so that, later, we can quickly count and locate the occurrences of any string (the query pattern) in $T$…

An indexed sequence of strings is a data structure for storing a string sequence that supports random access, searching, range counting and analytics operations, both for exact matches and prefix search. String sequences lie at the core of…

Randomised algorithms often employ methods that can fail and that are retried with independent randomness until they succeed. Randomised data structures therefore often store indices of successful attempts, called seeds. If $n$ such seeds…

Compressed indexing is a powerful technique that enables efficient querying over data stored in compressed form, significantly reducing memory usage and often accelerating computation. While extensive progress has been made for…

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…

Recent advances in text representation have shown that training on large amounts of text is crucial for natural language understanding. However, models trained without predefined notions of topical interest typically require careful…

In this paper, we present a new data structure called the packed compact trie (packed c-trie) which stores a set $S$ of $k$ strings of total length $n$ in $n \log\sigma + O(k \log n)$ bits of space and supports fast pattern matching queries…

In deep learning inference, model parameters are pruned and quantized to reduce the model size. Compression methods and common subexpression (CSE) elimination algorithms are applied on sparse constant matrices to deploy the models on…

The suffix array and the suffix tree are the two most fundamental data structures for string processing. For a length-$n$ text, however, they use $\Theta(n \log n)$ bits of space, which is often too costly. To address this, Grossi and…

Indexed pattern search in text has been studied for many decades. For small alphabets, the FM-Index provides unmatched performance, in terms of both space required and search speed. For large alphabets -- for example, when the tokens are…

Suffix trees and suffix arrays are two of the most widely used data structures for text indexing. Each uses linear space and can be constructed in linear time for polynomially sized alphabets. However, when it comes to answering queries…

We study the problem of indexing text with wildcard positions, motivated by the challenge of aligning sequencing data to large genomes that contain millions of single nucleotide polymorphisms (SNPs)---positions known to differ between…