Abstract
We consider two closely related problems of text indexing in a sub-linear working space. The first problem is the Sparse Suffix Tree (SST) construction, where a text S is given in read-only memory, along with a set of suffixes B, and the goal is to construct the compressed trie of all these suffixes ordered lexicographically, using only O(|B|) words of space. The second problem is the Longest Common Extension (LCE) problem, where again a text S of length n is given in read-only memory with some parameter 1 ≤ τ ≤ n, and the goal is to construct a data structure that uses O(nτ ) words of space and can compute for any pair of suffixes their longest common prefix length. We show how to use ideas based on the Locally Consistent Parsing technique, that were introduced by Sahinalp and Vishkin [44], in some nontrivial ways in order to improve the known results for the above problems. We introduce new Las-Vegas and deterministic algorithms for both problems. For the randomized algorithms, we introduce the first Las-Vegas SST construction algorithm that takes O(n) time. This is an improvement over the last result of Gawrychowski and Kociumaka [22] who obtained O(n) time for Monte Carlo algorithm, and O(nplog |B|) time with hight probability for Las-Vegas algorithm. In addition, we introduce a randomized Las-Vegas construction for a data structure that uses O(nτ ) words of space, can be constructed in linear time with high probability and answers LCE queries in O(τ) time. For the deterministic algorithms, we introduce an SST construction algorithm that takes O(nlog |Bn|) time (for |B| = Ω(log n)). This is the first almost linear time, O(n · polylog n), deterministic SST construction algorithm, where all previous algorithms take at least Ω (min{n|B|, |nB2|}) time. For the LCE problem, we introduce a data structure that uses O(nτ ) words of space and answers LCE queries in O(τplog∗ n) time, with O(nlog τ) construction time (for τ = O(lognn)). This data structure improves both query time and construction time upon the results of Tanimura et al. [47].
Original language | English |
---|---|
Title of host publication | 31st Annual ACM-SIAM Symposium on Discrete Algorithms, SODA 2020 |
Editors | Shuchi Chawla |
Publisher | Association for Computing Machinery |
Pages | 607-626 |
Number of pages | 20 |
ISBN (Electronic) | 9781611975994 |
State | Published - 2020 |
Event | 31st Annual ACM-SIAM Symposium on Discrete Algorithms, SODA 2020 - Salt Lake City, United States Duration: 5 Jan 2020 → 8 Jan 2020 |
Publication series
Name | Proceedings of the Annual ACM-SIAM Symposium on Discrete Algorithms |
---|---|
Volume | 2020-January |
Conference
Conference | 31st Annual ACM-SIAM Symposium on Discrete Algorithms, SODA 2020 |
---|---|
Country/Territory | United States |
City | Salt Lake City |
Period | 5/01/20 → 8/01/20 |
Bibliographical note
Publisher Copyright:Copyright © 2020 by SIAM
Funding
This research is supported by ISF grant no. 1278/16, by a grant from the United States - Israel Binational Science Foundation (BSF) and by an ERC grant MPM under the European Union's Horizon 2020 research and innovation programme (grant no. 683064).
Funders | Funder number |
---|---|
United States - Israel Binational Science Foundation | |
European Commission | |
United States-Israel Binational Science Foundation | |
Israel Science Foundation | 1278/16 |
Horizon 2020 | 683064 |