Shortest unique palindromic substring queries on run-length encoded strings

Kiichi Watanabe; Yuto Nakashima; Shunsuke Inenaga; Hideo Bannai; Masayuki Takeda

doi:10.1007/978-3-030-25005-8_35

Shortest unique palindromic substring queries on run-length encoded strings

Kiichi Watanabe, Yuto Nakashima, Shunsuke Inenaga, Hideo Bannai, Masayuki Takeda

Mathematical Informatics

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

4 Citations (Scopus)

Abstract

For a string S, a palindromic substring S[i.j] is said to be a shortest unique palindromic substring (SUPS) for an interval [s, t] in S, if S[i.j] occurs exactly once in S, the interval [i, j] contains [s, t], and every palindromic substring containing [s, t] which is shorter than S[i.j] occurs at least twice in S. In this paper, we study the problem of answering SUPS queries on run-length encoded strings. We show how to preprocess a given run-length encoded string RLE_S of size m in O(m) space and O(mlog σRLE_S + m√log m/log logm) time so that all SUPSs for any subsequent query interval can be answered in O(√log m/log logm+ α) time, where α is the number of outputs, and σRLE_S is the number of distinct runs of RLE_S.

Original language	English
Title of host publication	Combinatorial Algorithms - 30th International Workshop, IWOCA 2019, Proceedings
Editors	Charles J. Colbourn, Roberto Grossi, Nadia Pisanti
Publisher	Springer Verlag
Pages	430-441
Number of pages	12
ISBN (Print)	9783030250041
DOIs	https://doi.org/10.1007/978-3-030-25005-8_35
Publication status	Published - 2019
Event	30th International Workshop on Combinatorial Algorithms, IWOCA 2019 - Pisa, Italy Duration: Jul 23 2019 → Jul 25 2019

Publication series

Name	Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Volume	11638 LNCS
ISSN (Print)	0302-9743
ISSN (Electronic)	1611-3349

Conference

Conference	30th International Workshop on Combinatorial Algorithms, IWOCA 2019
Country/Territory	Italy
City	Pisa
Period	7/23/19 → 7/25/19

All Science Journal Classification (ASJC) codes

Theoretical Computer Science
Computer Science(all)

Access to Document

10.1007/978-3-030-25005-8_35

Cite this

Watanabe, K., Nakashima, Y., Inenaga, S., Bannai, H., & Takeda, M. (2019). Shortest unique palindromic substring queries on run-length encoded strings. In C. J. Colbourn, R. Grossi, & N. Pisanti (Eds.), Combinatorial Algorithms - 30th International Workshop, IWOCA 2019, Proceedings (pp. 430-441). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 11638 LNCS). Springer Verlag. https://doi.org/10.1007/978-3-030-25005-8_35

Shortest unique palindromic substring queries on run-length encoded strings. / Watanabe, Kiichi; Nakashima, Yuto ; Inenaga, Shunsuke; Bannai, Hideo; Takeda, Masayuki.

Combinatorial Algorithms - 30th International Workshop, IWOCA 2019, Proceedings. ed. / Charles J. Colbourn; Roberto Grossi; Nadia Pisanti. Springer Verlag, 2019. p. 430-441 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 11638 LNCS).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

Watanabe, K, Nakashima, Y , Inenaga, S, Bannai, H & Takeda, M 2019, Shortest unique palindromic substring queries on run-length encoded strings. in CJ Colbourn, R Grossi & N Pisanti (eds), Combinatorial Algorithms - 30th International Workshop, IWOCA 2019, Proceedings. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), vol. 11638 LNCS, Springer Verlag, pp. 430-441, 30th International Workshop on Combinatorial Algorithms, IWOCA 2019, Pisa, Italy, 7/23/19. https://doi.org/10.1007/978-3-030-25005-8_35

Watanabe K, Nakashima Y , Inenaga S, Bannai H, Takeda M. Shortest unique palindromic substring queries on run-length encoded strings. In Colbourn CJ, Grossi R, Pisanti N, editors, Combinatorial Algorithms - 30th International Workshop, IWOCA 2019, Proceedings. Springer Verlag. 2019. p. 430-441. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)). https://doi.org/10.1007/978-3-030-25005-8_35

Watanabe, Kiichi ; Nakashima, Yuto ; Inenaga, Shunsuke ; Bannai, Hideo ; Takeda, Masayuki. / Shortest unique palindromic substring queries on run-length encoded strings. Combinatorial Algorithms - 30th International Workshop, IWOCA 2019, Proceedings. editor / Charles J. Colbourn ; Roberto Grossi ; Nadia Pisanti. Springer Verlag, 2019. pp. 430-441 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)).

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author = "Kiichi Watanabe and Yuto Nakashima and Shunsuke Inenaga and Hideo Bannai and Masayuki Takeda",

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N2 - For a string S, a palindromic substring S[i.j] is said to be a shortest unique palindromic substring (SUPS) for an interval [s, t] in S, if S[i.j] occurs exactly once in S, the interval [i, j] contains [s, t], and every palindromic substring containing [s, t] which is shorter than S[i.j] occurs at least twice in S. In this paper, we study the problem of answering SUPS queries on run-length encoded strings. We show how to preprocess a given run-length encoded string RLES of size m in O(m) space and O(mlog σRLES + m√log m/log logm) time so that all SUPSs for any subsequent query interval can be answered in O(√log m/log logm+ α) time, where α is the number of outputs, and σRLES is the number of distinct runs of RLES.

AB - For a string S, a palindromic substring S[i.j] is said to be a shortest unique palindromic substring (SUPS) for an interval [s, t] in S, if S[i.j] occurs exactly once in S, the interval [i, j] contains [s, t], and every palindromic substring containing [s, t] which is shorter than S[i.j] occurs at least twice in S. In this paper, we study the problem of answering SUPS queries on run-length encoded strings. We show how to preprocess a given run-length encoded string RLES of size m in O(m) space and O(mlog σRLES + m√log m/log logm) time so that all SUPSs for any subsequent query interval can be answered in O(√log m/log logm+ α) time, where α is the number of outputs, and σRLES is the number of distinct runs of RLES.

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Shortest unique palindromic substring queries on run-length encoded strings

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