Wavelet Trees Meet Suffix Trees

We present an improved wavelet tree construction algorithm and discuss its applications to a number of rank/select problems for integer keys and strings. Given a string of length n over an alphabet of size $\sigma\leq n$, our method builds the wavelet tree in $O(n \log \sigma/ \sqrt{\log{n}})$ time, improving upon the state-of-the-art algorithm by a factor of $\sqrt{\log n}$. As a consequence, given an array of n integers we can construct in $O(n \sqrt{\log n})$ time a data structure consisting of $O(n)$ machine words and capable of answering rank/select queries for the subranges of the array in $O(\log n / \log \log n)$ time. This is a $\log \log n$-factor improvement in query time compared to Chan and P\u{a}tra\c{s}cu and a $\sqrt{\log n}$-factor improvement in construction time compared to Brodal et al. Next, we switch to stringological context and propose a novel notion of wavelet suffix trees. For a string w of length n, this data structure occupies $O(n)$ words, takes $O(n \sqrt{\log n})$ time to construct, and simultaneously captures the combinatorial structure of substrings of w while enabling efficient top-down traversal and binary search. In particular, with a wavelet suffix tree we are able to answer in $O(\log |x|)$ time the following two natural analogues of rank/select queries for suffixes of substrings: for substrings x and y of w count the number of suffixes of x that are lexicographically smaller than y, and for a substring x of w and an integer k, find the k-th lexicographically smallest suffix of x. We further show that wavelet suffix trees allow to compute a run-length-encoded Burrows-Wheeler transform of a substring x of w in $O(s \log |x|)$ time, where s denotes the length of the resulting run-length encoding. This answers a question by Cormode and Muthukrishnan, who considered an analogous problem for Lempel-Ziv compression.Comment: 33 pages, 5 figures; preliminary version published at SODA 201

Syntactic Complexity of Prefix-, Suffix-, Bifix-, and Factor-Free Regular Languages

The syntactic complexity of a regular language is the cardinality of its syntactic semigroup. The syntactic complexity of a subclass of the class of regular languages is the maximal syntactic complexity of languages in that class, taken as a function of the state complexity $n$ of these languages. We study the syntactic complexity of prefix-, suffix-, bifix-, and factor-free regular languages. We prove that $n^{n-2}$ is a tight upper bound for prefix-free regular languages. We present properties of the syntactic semigroups of suffix-, bifix-, and factor-free regular languages, conjecture tight upper bounds on their size to be $(n-1)^{n-2}+(n-2)$, $(n-1)^{n-3} + (n-2)^{n-3} + (n-3)2^{n-3}$, and $(n-1)^{n-3} + (n-3)2^{n-3} + 1$, respectively, and exhibit languages with these syntactic complexities.Comment: 28 pages, 6 figures, 3 tables. An earlier version of this paper was presented in: M. Holzer, M. Kutrib, G. Pighizzini, eds., 13th Int. Workshop on Descriptional Complexity of Formal Systems, DCFS 2011, Vol. 6808 of LNCS, Springer, 2011, pp. 93-106. The current version contains improved bounds for suffix-free languages, new results about factor-free languages, and new results about reversa

Managing Unbounded-Length Keys in Comparison-Driven Data Structures with Applications to On-Line Indexing

This paper presents a general technique for optimally transforming any dynamic data structure that operates on atomic and indivisible keys by constant-time comparisons, into a data structure that handles unbounded-length keys whose comparison cost is not a constant. Examples of these keys are strings, multi-dimensional points, multiple-precision numbers, multi-key data (e.g.~records), XML paths, URL addresses, etc. The technique is more general than what has been done in previous work as no particular exploitation of the underlying structure of is required. The only requirement is that the insertion of a key must identify its predecessor or its successor. Using the proposed technique, online suffix tree can be constructed in worst case time $O(\log n)$ per input symbol (as opposed to amortized $O(\log n)$ time per symbol, achieved by previously known algorithms). To our knowledge, our algorithm is the first that achieves $O(\log n)$ worst case time per input symbol. Searching for a pattern of length $m$ in the resulting suffix tree takes $O(\min(m\log |\Sigma|, m + \log n) + tocc)$ time, where $tocc$ is the number of occurrences of the pattern. The paper also describes more applications and show how to obtain alternative methods for dealing with suffix sorting, dynamic lowest common ancestors and order maintenance

New Algorithms for Position Heaps

We present several results about position heaps, a relatively new alternative to suffix trees and suffix arrays. First, we show that, if we limit the maximum length of patterns to be sought, then we can also limit the height of the heap and reduce the worst-case cost of insertions and deletions. Second, we show how to build a position heap in linear time independent of the size of the alphabet. Third, we show how to augment a position heap such that it supports access to the corresponding suffix array, and vice versa. Fourth, we introduce a variant of a position heap that can be simulated efficiently by a compressed suffix array with a linear number of extra bits

Streaming Property Testing of Visibly Pushdown Languages

In the context of language recognition, we demonstrate the superiority of streaming property testers against streaming algorithms and property testers, when they are not combined. Initiated by Feigenbaum et al., a streaming property tester is a streaming algorithm recognizing a language under the property testing approximation: it must distinguish inputs of the language from those that are $\varepsilon$-far from it, while using the smallest possible memory (rather than limiting its number of input queries). Our main result is a streaming $\varepsilon$-property tester for visibly pushdown languages (VPL) with one-sided error using memory space $\mathrm{poly}((\log n) / \varepsilon)$. This constructions relies on a (non-streaming) property tester for weighted regular languages based on a previous tester by Alon et al. We provide a simple application of this tester for streaming testing special cases of instances of VPL that are already hard for both streaming algorithms and property testers. Our main algorithm is a combination of an original simulation of visibly pushdown automata using a stack with small height but possible items of linear size. In a second step, those items are replaced by small sketches. Those sketches relies on a notion of suffix-sampling we introduce. This sampling is the key idea connecting our streaming tester algorithm to property testers.Comment: 23 pages. Major modifications in the presentatio