Related papers: Self-Index Based on LZ77
Computing the {\em matching statistics} of a string $P[1..m]$ with respect to a text $T[1..n]$ is a fundamental problem which has application to genome sequence comparison. In this paper, we study the problem of computing the matching…
In this paper, we propose a new \emph{dynamic compressed index} of $O(w)$ space for a dynamic text $T$, where $w = O(\min(z \log N \log^*M, N))$ is the size of the signature encoding of $T$, $z$ is the size of the Lempel-Ziv77 (LZ77)…
Finding desired information from large data set is a difficult problem. Information retrieval is concerned with the structure, analysis, organization, storage, searching, and retrieval of information. Index is the main constituent of an IR…
We consider the problem of decompressing the Lempel--Ziv 77 representation of a string $S$ of length $n$ using a working space as close as possible to the size $z$ of the input. The folklore solution for the problem runs in $O(n)$ time but…
We present a framework facilitating the implementation and comparison of text compression algorithms. We evaluate its features by a case study on two novel compression algorithms based on the Lempel-Ziv compression schemes that perform well…
Computing the LZ factorization (or LZ77 parsing) of a string is a computational bottleneck in many diverse applications, including data compression, text indexing, and pattern discovery. We describe new linear time LZ factorization…
We engineer a self-index based retrieval system capable of rank-safe evaluation of top-k queries. The framework generalizes the GREEDY approach of Culpepper et al. (ESA 2010) to handle multi-term queries, including over phrases. We propose…
While several self-indexes for highly repetitive texts exist, developing a practical self-index applicable to real world repetitive texts remains a challenge. ESP-index is a grammar-based self-index on the notion of edit-sensitive parsing…
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…
Technology progress in DNA sequencing boosts the genomic database growth at faster and faster rate. Compression, accompanied with random access capabilities, is the key to maintain those huge amounts of data. In this paper we present an…
Two decades ago, a breakthrough in indexing string collections made it possible to represent them within their compressed space while at the same time offering indexed search functionalities. As this new technology permeated through…
Countless variants of the Lempel-Ziv compression are widely used in many real-life applications. This paper is concerned with a natural modification of the classical pattern matching problem inspired by the popularity of such compression…
We describe a grammar for DNA sequencing reads from which we can compute the BWT directly. Our motivation is to perform in succinct space genomic analyses that require complex string queries not yet supported by repetition-based…
The pressing need for eficient compression schemes for XML documents has recently been focused on stack computation [6, 9], and in particular calls for a formulation of information-lossless stack or pushdown compressors that allows a formal…
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,…
Lossless data compression has been widely studied in computer science. One of the most widely used lossless data compressions is Lempel-Zip(LZ) 77 parsing, which achieves a high compression ratio. Bidirectional (a.k.a. macro) parsing is a…
A well-known fact in the field of lossless text compression is that high-order entropy is a weak model when the input contains long repetitions. Motivated by this, decades of research have generated myriads of so-called dictionary…
We raise the question of approximating the compressibility of a string with respect to a fixed compression scheme, in sublinear time. We study this question in detail for two popular lossless compression schemes: run-length encoding (RLE)…
Much research has been devoted to optimizing algorithms of the Lempel-Ziv (LZ) 77 family, both in terms of speed and memory requirements. Binary search trees and suffix trees (ST) are data structures that have been often used for this…
In this paper, we present the following results: (1) We propose a new \emph{dynamic compressed index} of $O(w)$ space, that supports searching for a pattern $P$ in the current text in $O(|P| f(M,w) + \log w \log |P| \log^* M (\log N + \log…