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arXiv · 2306.05684

Space-time Trade-offs for the LCP Array of Wheeler DFAs

Nicola Cotumaccio·Travis Gagie·Dominik Köppl·Nicola Prezza
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Abstract

Recently, Conte et al. generalized the longest-common prefix (LCP) array from strings to Wheeler DFAs, and they showed that it can be used to efficiently determine matching statistics on a Wheeler DFA [DCC 2023]. However, storing the LCP array requires $ O(n \log n) $ bits, $ n $ being the number of states, while the compact representation of Wheeler DFAs often requires much less space. In particular, the BOSS representation of a de Bruijn graph only requires a linear number of bits, if the size of alphabet is constant. In this paper, we propose a sampling technique that allows to access an entry of the LCP array in logarithmic time by only storing a linear number of bits. We use our technique to provide a space-time trade-off to compute matching statistics on a Wheeler DFA. In addition, we show that by augmenting the BOSS representation of a $ k $-th order de Bruijn graph with a linear number of bits we can navigate the underlying variable-order de Bruijn graph in time logarithmic in $ k $, thus improving a previous bound by Boucher et al. which was linear in $ k $ [DCC 2015].

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Nicola Cotumaccio, Travis Gagie, Dominik Köppl, Nicola Prezza. 2023-06-09. Space-time Trade-offs for the LCP Array of Wheeler DFAs. https://arxiv.org/abs/2306.05684

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