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In this paper we propose a flexible and lightweight technique for merging compressed indices based on variants of Burrows-Wheeler transform (BWT), thus addressing the need for algorithms that compute compressed indices over large…
In this paper we show how to use one or more assembled or partially assembled genome as the basis for a compressed full-text index of its readset. Specifically, we build a labelled tree by taking the assembled genome as a trunk and grafting…
We present efficient data structures for submatrix maximum queries in Monge matrices and Monge partial matrices. For $n\times n$ Monge matrices, we give a data structure that requires O(n) space and answers submatrix maximum queries in…
We revisit the problem of permuting an array of length $n$ according to a given permutation in place, that is, using only a small number of bits of extra storage. Fich, Munro and Poblete [FOCS 1990, SICOMP 1995] obtained an elegant…
Given an array of size $n$ from a total order, we consider the problem of constructing a data structure that supports various queries (range minimum/maximum queries with their variants and next/previous larger/smaller queries) efficiently.…
The $r$-index represented a breakthrough in compressed indexing of repetitive text collections, outperforming its alternatives by orders of magnitude in query time. Its space usage, $O(r)$ where $r$ is the number of runs in the…
In this paper, a new and novel data structure is proposed to dynamically insert and delete segments. Unlike the standard segment trees[3], the proposed data structure permits insertion of a segment with interval range beyond the interval…
We prove essentially optimal fine-grained lower bounds on the gap between a data structure and a partially retroactive version of the same data structure. Precisely, assuming any one of three standard conjectures, we describe a problem that…
Tree covering is a technique for decomposing a tree into smaller-sized trees with desirable properties, and has been employed in various succinct data structures. However, significant hurdles stand in the way of a practical implementation…
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…
The range-minimum query (RMQ) problem is a fundamental data structuring task with numerous applications. Despite the fact that succinct solutions with worst-case optimal $2n+o(n)$ bits of space and constant query time are known, it has been…
Cartesian tree matching is a form of generalized pattern matching where a substring of the text matches with the pattern if they share the same Cartesian tree. This form of matching finds application for time series of stock prices and can…
The Burrows-Wheeler Transform (BWT) is an important technique both in data compression and in the design of compact indexing data structures. It has been generalized from single strings to collections of strings and some classes of labeled…
In the last decades, the necessity to process massive amounts of textual data fueled the development of compressed text indexes: data structures efficiently answering queries on a given text while occupying space proportional to the…
A permutation $\pi: [n] \rightarrow [n]$ is a Baxter permutation if and only if it does not contain either of the patterns $2-41-3$ and $3-14-2$. Baxter permutations are one of the most widely studied subclasses of general permutation due…
Pattern-avoiding permutations are a central object of study in both combinatorics and theoretical computer science. In this paper we design a data structure that can store any size-$n$ permutation $\tau$ that avoids an arbitrary (and…
A lattice is a partially-ordered set in which every pair of elements has a unique meet (greatest lower bound) and join (least upper bound). We present new data structures for lattices that are simple, efficient, and nearly optimal in terms…
Permutation patterns and pattern avoidance have been intensively studied in combinatorics and computer science, going back at least to the seminal work of Knuth on stack-sorting (1968). Perhaps the most natural algorithmic question in this…
Nishimoto and Tabei [CPM, 2021] proposed r-enum, an algorithm to enumerate various characteristic substrings, including maximal repeats, in a string $T$ of length $n$ in $O(r)$ words of compressed working space, where $r \le n$ is the…
Range Minimum Query (RMQ) is an important building brick of many compressed data structures and string matching algorithms. Although this problem is essentially solved in theory, with sophisticated data structures allowing for constant time…