A Faster Implementation of Online Run-Length Burrows-Wheeler Transform

  • Tatsuya Ohno
  • Yoshimasa Takabatake
  • Tomohiro I
  • Hiroshi Sakamoto
Conference paper
Part of the Lecture Notes in Computer Science book series (LNCS, volume 10765)


Run-length encoding Burrows-Wheeler Transformed strings, resulting in Run-Length BWT (RLBWT), is a powerful tool for processing highly repetitive strings. We propose a new algorithm for online RLBWT working in run-compressed space, which runs in \(O(n\lg r)\) time and \(O(r\lg n)\) bits of space, where n is the length of input string S received so far and r is the number of runs in the BWT of the reversed S. We improve the state-of-the-art algorithm for online RLBWT in terms of empirical construction time. Adopting the dynamic list for maintaining a total order, we can replace rank queries in a dynamic wavelet tree on a run-length compressed string by the direct comparison of labels in a dynamic list. The empirical result for various benchmarks show the efficiency of our algorithm, especially for highly repetitive strings.



This work was supported by JST CREST (Grant Number JPMJCR1402), and KAKENHI (Grant Numbers 17H01791 and 16K16009).


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Copyright information

© Springer International Publishing AG, part of Springer Nature 2018

Authors and Affiliations

  • Tatsuya Ohno
    • 1
  • Yoshimasa Takabatake
    • 1
  • Tomohiro I
    • 1
  • Hiroshi Sakamoto
    • 1
  1. 1.Kyushu Institute of TechnologyIizukaJapan

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