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Compressed Suffix Array

  • Reference work entry
  • First Online:
Encyclopedia of Algorithms

Years and Authors of Summarized Original Work

  • 2000, 2003; Sadakane

  • 2000, 2005; Grossi, Vitter

  • 2000, 2005; Ferragina, Manzini

Problem Definition

Given a text string T = t1t2… t n over an alphabet \(\varSigma\) of size \(\sigma\), the suffix array A[1, n] is a permutation of the interval [1, n] that sorts the suffixes of T. More precisely, it satisfies T[A[i], n] < T[A[i + 1], n] for all 1 ≤ i < n, where “ < ” between strings is the lexicographical order. The suffix array is the canonical full-text index that allows to efficiently compute basic string matching queries on T.

The compressed suffix array (CSA) problem asks to replace A with a space-efficient data structure that is capable of efficiently computing A[i].

If a CSA does not require T to operate, and is capable of efficiently answering substring queries on T, it is called a self-index, as it can be seen as a replacement of T itself. Typical queries required from such an index are the following:

  • count(P): count how many times a...

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Recommended Reading

  1. Belazzougui D, Navarro G (2011) Alphabet-independent compressed text indexing. In: ESA, Saarbrücken, pp 748–759

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  2. Burrows M, Wheeler D (1994) A block sorting lossless data compression algorithm. Technical report 124, Digital Equipment Corporation

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  3. Ferragina P, Manzini G (2005) Indexing compressed texts. J ACM 52(4):552–581

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Author information

Authors and Affiliations

  1. Department of Computer Science, Helsinki Institute for Information Technology (HIIT), University of Helsinki, Helsinki, Finland

    Djamal Belazzougui

  2. Department of Computer Science, Helsinki Institute for Information Technology (HIIT), University of Helsinki, Helsinki, Finland

    Veli Mäkinen

  3. Department of Computer Science, Helsinki Institute for Information Technology (HIIT), University of Helsinki, Helsinki, Finland

    Daniel Valenzuela

Authors
  1. Djamal Belazzougui
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  2. Veli Mäkinen
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  3. Daniel Valenzuela
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Editor information

Editors and Affiliations

  1. Department of Electrical Engineering and Computer Science, Northwestern University, Evanston, IL, USA

    Ming-Yang Kao

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Belazzougui, D., Mäkinen, V., Valenzuela, D. (2016). Compressed Suffix Array. In: Kao, MY. (eds) Encyclopedia of Algorithms. Springer, New York, NY. https://doi.org/10.1007/978-1-4939-2864-4_82

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