41 Search Results for "Lewenstein, Moshe"

Volume

LIPIcs, Volume 54

27th Annual Symposium on Combinatorial Pattern Matching (CPM 2016)

CPM 2016, June 27-29, 2016, Tel Aviv, Israel

Editors: Roberto Grossi and Moshe Lewenstein

Document
DOI: 10.4230/LIPIcs.SEA.2023.4
Subset Wavelet Trees

Authors: Jarno N. Alanko, Elena Biagi, Simon J. Puglisi, and Jaakko Vuohtoniemi

Published in: LIPIcs, Volume 265, 21st International Symposium on Experimental Algorithms (SEA 2023)

Abstract
Given an alphabet Σ of σ = |Σ| symbols, a degenerate (or indeterminate) string X is a sequence X = X[0],X[1]…, X[n-1] of n subsets of Σ. Since their introduction in the mid 70s, degenerate strings have been widely studied, with applications driven by their being a natural model for sequences in which there is a degree of uncertainty about the precise symbol at a given position, such as those arising in genomics and proteomics. In this paper we introduce a new data structural tool for degenerate strings, called the subset wavelet tree (SubsetWT). A SubsetWT supports two basic operations on degenerate strings: subset-rank(i,c), which returns the number of subsets up to the i-th subset in the degenerate string that contain the symbol c; and subset-select(i,c), which returns the index in the degenerate string of the i-th subset that contains symbol c. These queries are analogs of rank and select queries that have been widely studied for ordinary strings. Via experiments in a real genomics application in which degenerate strings are fundamental, we show that subset wavelet trees are practical data structures, and in particular offer an attractive space-time tradeoff. Along the way we investigate data structures for supporting (normal) rank queries on base-4 and base-3 sequences, which may be of independent interest. Our C++ implementations of the data structures are available at https://github.com/jnalanko/SubsetWT.
Cite as

Jarno N. Alanko, Elena Biagi, Simon J. Puglisi, and Jaakko Vuohtoniemi. Subset Wavelet Trees. In 21st International Symposium on Experimental Algorithms (SEA 2023). Leibniz International Proceedings in Informatics (LIPIcs), Volume 265, pp. 4:1-4:14, Schloss Dagstuhl - Leibniz-Zentrum für Informatik (2023)

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@InProceedings{alanko_et_al:LIPIcs.SEA.2023.4,
  author =	{Alanko, Jarno N. and Biagi, Elena and Puglisi, Simon J. and Vuohtoniemi, Jaakko},
  title =	{{Subset Wavelet Trees}},
  booktitle =	{21st International Symposium on Experimental Algorithms (SEA 2023)},
  pages =	{4:1--4:14},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-279-2},
  ISSN =	{1868-8969},
  year =	{2023},
  volume =	{265},
  editor =	{Georgiadis, Loukas},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.SEA.2023.4},
  URN =		{urn:nbn:de:0030-drops-183549},
  doi =		{10.4230/LIPIcs.SEA.2023.4},
  annote =	{Keywords: degenerate strings, compressed data structures, succinct data structures, string processing, data structures, efficient algorithms}
}
Document
DOI: 10.4230/LIPIcs.CPM.2023.19
String Factorization via Prefix Free Families

Authors: Matan Kraus, Moshe Lewenstein, Alexandru Popa, Ely Porat, and Yonathan Sadia

Published in: LIPIcs, Volume 259, 34th Annual Symposium on Combinatorial Pattern Matching (CPM 2023)

Abstract
A factorization of a string S is a partition of w into substrings u_1,… ,u_k such that S = u_1 u_2 ⋯ u_k. Such a partition is called equality-free if no two factors are equal: u_i ≠ u_j, ∀ i,j with i ≠ j. The maximum equality-free factorization problem is to find for a given string S, the largest integer k for which S admits an equality-free factorization with k factors. Equality-free factorizations have lately received attention because of their applications in DNA self-assembly. The best approximation algorithm known for the problem is the natural greedy algorithm, that chooses iteratively from left to right the shortest factor that does not appear before. This algorithm has a √n approximation ratio (SOFSEM 2020) and it is an open problem whether there is a better solution. Our main result is to show that the natural greedy algorithm is a Θ(n^{1/4}) approximation algorithm for the maximum equality-free factorization problem. Thus, we disprove one of the conjectures of Mincu and Popa (SOFSEM 2020) according to which the greedy algorithm is a Θ(√n) approximation. The most challenging part of the proof is to show that the greedy algorithm is an O(n^{1/4}) approximation. We obtain this algorithm via prefix free factor families, i.e. a set of non-overlapping factors of the string which are pairwise non-prefixes of each other. In the paper we show the relation between prefix free factor families and the maximum equality-free factorization. Moreover, as a byproduct we present another approximation algorithm that achieves an approximation ratio of O(n^{1/4}) that we believe is of independent interest and may lead to improved algorithms. We then show that the natural greedy algorithm has an approximation ratio that is Ω(n^{1/4}) via a clever analysis which shows that the greedy algorithm is Θ(n^{1/4}) for the maximum equality-free factorization problem.
Cite as

Matan Kraus, Moshe Lewenstein, Alexandru Popa, Ely Porat, and Yonathan Sadia. String Factorization via Prefix Free Families. In 34th Annual Symposium on Combinatorial Pattern Matching (CPM 2023). Leibniz International Proceedings in Informatics (LIPIcs), Volume 259, pp. 19:1-19:10, Schloss Dagstuhl - Leibniz-Zentrum für Informatik (2023)

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@InProceedings{kraus_et_al:LIPIcs.CPM.2023.19,
  author =	{Kraus, Matan and Lewenstein, Moshe and Popa, Alexandru and Porat, Ely and Sadia, Yonathan},
  title =	{{String Factorization via Prefix Free Families}},
  booktitle =	{34th Annual Symposium on Combinatorial Pattern Matching (CPM 2023)},
  pages =	{19:1--19:10},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-276-1},
  ISSN =	{1868-8969},
  year =	{2023},
  volume =	{259},
  editor =	{Bulteau, Laurent and Lipt\'{a}k, Zsuzsanna},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.CPM.2023.19},
  URN =		{urn:nbn:de:0030-drops-179738},
  doi =		{10.4230/LIPIcs.CPM.2023.19},
  annote =	{Keywords: string factorization, NP-hard problem, approximation algorithm}
}
Document
DOI: 10.4230/LIPIcs.ISAAC.2019.7
On the Hardness of Set Disjointness and Set Intersection with Bounded Universe

Authors: Isaac Goldstein, Moshe Lewenstein, and Ely Porat

Published in: LIPIcs, Volume 149, 30th International Symposium on Algorithms and Computation (ISAAC 2019)

Abstract
In the SetDisjointness problem, a collection of m sets S_1,S_2,...,S_m from some universe U is preprocessed in order to answer queries on the emptiness of the intersection of some two query sets from the collection. In the SetIntersection variant, all the elements in the intersection of the query sets are required to be reported. These are two fundamental problems that were considered in several papers from both the upper bound and lower bound perspective. Several conditional lower bounds for these problems were proven for the tradeoff between preprocessing and query time or the tradeoff between space and query time. Moreover, there are several unconditional hardness results for these problems in some specific computational models. The fundamental nature of the SetDisjointness and SetIntersection problems makes them useful for proving the conditional hardness of other problems from various areas. However, the universe of the elements in the sets may be very large, which may cause the reduction to some other problems to be inefficient and therefore it is not useful for proving their conditional hardness. In this paper, we prove the conditional hardness of SetDisjointness and SetIntersection with bounded universe. This conditional hardness is shown for both the interplay between preprocessing and query time and the interplay between space and query time. Moreover, we present several applications of these new conditional lower bounds. These applications demonstrates the strength of our new conditional lower bounds as they exploit the limited universe size. We believe that this new framework of conditional lower bounds with bounded universe can be useful for further significant applications.
Cite as

Isaac Goldstein, Moshe Lewenstein, and Ely Porat. On the Hardness of Set Disjointness and Set Intersection with Bounded Universe. In 30th International Symposium on Algorithms and Computation (ISAAC 2019). Leibniz International Proceedings in Informatics (LIPIcs), Volume 149, pp. 7:1-7:22, Schloss Dagstuhl - Leibniz-Zentrum für Informatik (2019)

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@InProceedings{goldstein_et_al:LIPIcs.ISAAC.2019.7,
  author =	{Goldstein, Isaac and Lewenstein, Moshe and Porat, Ely},
  title =	{{On the Hardness of Set Disjointness and Set Intersection with Bounded Universe}},
  booktitle =	{30th International Symposium on Algorithms and Computation (ISAAC 2019)},
  pages =	{7:1--7:22},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-130-6},
  ISSN =	{1868-8969},
  year =	{2019},
  volume =	{149},
  editor =	{Lu, Pinyan and Zhang, Guochuan},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ISAAC.2019.7},
  URN =		{urn:nbn:de:0030-drops-115036},
  doi =		{10.4230/LIPIcs.ISAAC.2019.7},
  annote =	{Keywords: set disjointness, set intersection, 3SUM, space-time tradeoff, conditional lower bounds}
}
Document
DOI: 10.4230/LIPIcs.ESA.2018.37
Improved Space-Time Tradeoffs for kSUM

Authors: Isaac Goldstein, Moshe Lewenstein, and Ely Porat

Published in: LIPIcs, Volume 112, 26th Annual European Symposium on Algorithms (ESA 2018)

Abstract
In the kSUM problem we are given an array of numbers a_1,a_2,...,a_n and we are required to determine if there are k different elements in this array such that their sum is 0. This problem is a parameterized version of the well-studied SUBSET-SUM problem, and a special case is the 3SUM problem that is extensively used for proving conditional hardness. Several works investigated the interplay between time and space in the context of SUBSET-SUM. Recently, improved time-space tradeoffs were proven for kSUM using both randomized and deterministic algorithms. In this paper we obtain an improvement over the best known results for the time-space tradeoff for kSUM. A major ingredient in achieving these results is a general self-reduction from kSUM to mSUM where m<k, and several useful observations that enable this reduction and its implications. The main results we prove in this paper include the following: (i) The best known Las Vegas solution to kSUM running in approximately O(n^{k-delta sqrt{2k}}) time and using O(n^{delta}) space, for 0 <= delta <= 1. (ii) The best known deterministic solution to kSUM running in approximately O(n^{k-delta sqrt{k}}) time and using O(n^{delta}) space, for 0 <= delta <= 1. (iii) A space-time tradeoff for solving kSUM using O(n^{delta}) space, for delta>1. (iv) An algorithm for 6SUM running in O(n^4) time using just O(n^{2/3}) space. (v) A solution to 3SUM on random input using O(n^2) time and O(n^{1/3}) space, under the assumption of a random read-only access to random bits.
Cite as

Isaac Goldstein, Moshe Lewenstein, and Ely Porat. Improved Space-Time Tradeoffs for kSUM. In 26th Annual European Symposium on Algorithms (ESA 2018). Leibniz International Proceedings in Informatics (LIPIcs), Volume 112, pp. 37:1-37:14, Schloss Dagstuhl - Leibniz-Zentrum für Informatik (2018)

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@InProceedings{goldstein_et_al:LIPIcs.ESA.2018.37,
  author =	{Goldstein, Isaac and Lewenstein, Moshe and Porat, Ely},
  title =	{{Improved Space-Time Tradeoffs for kSUM}},
  booktitle =	{26th Annual European Symposium on Algorithms (ESA 2018)},
  pages =	{37:1--37:14},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-081-1},
  ISSN =	{1868-8969},
  year =	{2018},
  volume =	{112},
  editor =	{Azar, Yossi and Bast, Hannah and Herman, Grzegorz},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ESA.2018.37},
  URN =		{urn:nbn:de:0030-drops-95000},
  doi =		{10.4230/LIPIcs.ESA.2018.37},
  annote =	{Keywords: kSUM, space-time tradeoff, self-reduction}
}
Document
DOI: 10.4230/LIPIcs.ISAAC.2017.40
Orthogonal Vectors Indexing

Authors: Isaac Goldstein, Moshe Lewenstein, and Ely Porat

Published in: LIPIcs, Volume 92, 28th International Symposium on Algorithms and Computation (ISAAC 2017)

Abstract
In the recent years, intensive research work has been dedicated to prove conditional lower bounds in order to reveal the inner structure of the class P. These conditional lower bounds are based on many popular conjectures on well-studied problems. One of the most heavily used conjectures is the celebrated Strong Exponential Time Hypothesis (SETH). It turns out that conditional hardness proved based on SETH goes, in many cases, through an intermediate problem - the Orthogonal Vectors (OV) problem. Almost all research work regarding conditional lower bound was concentrated on time complexity. Very little attention was directed toward space complexity. In a recent work, Goldstein et al.[WADS '17] set the stage for proving conditional lower bounds regarding space and its interplay with time. In this spirit, it is tempting to investigate the space complexity of a data structure variant of OV which is called OV indexing. In this problem n boolean vectors of size clogn are given for preprocessing. As a query, a vector v is given and we are required to verify if there is an input vector that is orthogonal to it or not. This OV indexing problem is interesting in its own, but it also likely to have strong implications on problems known to be conditionally hard, in terms of time complexity, based on OV. Having this in mind, we study OV indexing in this paper from many aspects. We give some space-efficient algorithms for the problem, show a tradeoff between space and query time, describe how to solve its reporting variant, shed light on an interesting connection between this problem and the well-studied SetDisjointness problem and demonstrate how it can be solved more efficiently on random input.
Cite as

Isaac Goldstein, Moshe Lewenstein, and Ely Porat. Orthogonal Vectors Indexing. In 28th International Symposium on Algorithms and Computation (ISAAC 2017). Leibniz International Proceedings in Informatics (LIPIcs), Volume 92, pp. 40:1-40:12, Schloss Dagstuhl - Leibniz-Zentrum für Informatik (2017)

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@InProceedings{goldstein_et_al:LIPIcs.ISAAC.2017.40,
  author =	{Goldstein, Isaac and Lewenstein, Moshe and Porat, Ely},
  title =	{{Orthogonal Vectors Indexing}},
  booktitle =	{28th International Symposium on Algorithms and Computation (ISAAC 2017)},
  pages =	{40:1--40:12},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-054-5},
  ISSN =	{1868-8969},
  year =	{2017},
  volume =	{92},
  editor =	{Okamoto, Yoshio and Tokuyama, Takeshi},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ISAAC.2017.40},
  URN =		{urn:nbn:de:0030-drops-82395},
  doi =		{10.4230/LIPIcs.ISAAC.2017.40},
  annote =	{Keywords: SETH, orthogonal vectors, space complexity}
}
Document
DOI: 10.4230/LIPIcs.CPM.2017.25
Can We Recover the Cover?

Authors: Amihood Amir, Avivit Levy, Moshe Lewenstein, Ronit Lubin, and Benny Porat

Published in: LIPIcs, Volume 78, 28th Annual Symposium on Combinatorial Pattern Matching (CPM 2017)

Abstract
Data analysis typically involves error recovery and detection of regularities as two different key tasks. In this paper we show that there are data types for which these two tasks can be powerfully combined. A common notion of regularity in strings is that of a cover. Data describing measures of a natural coverable phenomenon may be corrupted by errors caused by the measurement process, or by the inexact features of the phenomenon itself. Due to this reason, different variants of approximate covers have been introduced, some of which are NP-hard to compute. In this paper we assume that the Hamming distance metric measures the amount of corruption experienced, and study the problem of recovering the correct cover from data corrupted by mismatch errors, formally defined as the cover recovery problem (CRP). We show that for the Hamming distance metric, coverability is a powerful property allowing detecting the original cover and correcting the data, under suitable conditions. We also study a relaxation of another problem, which is called the approximate cover problem (ACP). Since the ACP is proved to be NP-hard [Amir,Levy,Lubin,Porat, CPM 2017], we study a relaxation, which we call the candidate-relaxation of the ACP, and show it has a polynomial time complexity. As a result, we get that the ACP also has a polynomial time complexity in many practical situations. An important application of our ACP relaxation study is also a polynomial time algorithm for the cover recovery problem (CRP).
Cite as

Amihood Amir, Avivit Levy, Moshe Lewenstein, Ronit Lubin, and Benny Porat. Can We Recover the Cover?. In 28th Annual Symposium on Combinatorial Pattern Matching (CPM 2017). Leibniz International Proceedings in Informatics (LIPIcs), Volume 78, pp. 25:1-25:15, Schloss Dagstuhl - Leibniz-Zentrum für Informatik (2017)

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@InProceedings{amir_et_al:LIPIcs.CPM.2017.25,
  author =	{Amir, Amihood and Levy, Avivit and Lewenstein, Moshe and Lubin, Ronit and Porat, Benny},
  title =	{{Can We Recover the Cover?}},
  booktitle =	{28th Annual Symposium on Combinatorial Pattern Matching (CPM 2017)},
  pages =	{25:1--25:15},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-039-2},
  ISSN =	{1868-8969},
  year =	{2017},
  volume =	{78},
  editor =	{K\"{a}rkk\"{a}inen, Juha and Radoszewski, Jakub and Rytter, Wojciech},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.CPM.2017.25},
  URN =		{urn:nbn:de:0030-drops-73190},
  doi =		{10.4230/LIPIcs.CPM.2017.25},
  annote =	{Keywords: periodicity, quasi-periodicity, cover, approximate cover, data recovery}
}
Document
DOI: 10.4230/DagRep.6.11.1
Structure and Hardness in P (Dagstuhl Seminar 16451)

Authors: Moshe Lewenstein, Seth Pettie, and Virginia Vassilevska Williams

Published in: Dagstuhl Reports, Volume 6, Issue 11 (2017)

Abstract
This document contains description of the talks at the Dagstuhl seminar 16451 "Structure and Hardness in P". The main goal of the seminar was to bring together researchers from several disciplines and connect those who work on proving conditional lower bounds with those who or may benefit from it. This resulted in an extensive list of open problems which is also provided.
Cite as

Moshe Lewenstein, Seth Pettie, and Virginia Vassilevska Williams. Structure and Hardness in P (Dagstuhl Seminar 16451). In Dagstuhl Reports, Volume 6, Issue 11, pp. 1-34, Schloss Dagstuhl - Leibniz-Zentrum für Informatik (2017)

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@Article{lewenstein_et_al:DagRep.6.11.1,
  author =	{Lewenstein, Moshe and Pettie, Seth and Vassilevska Williams, Virginia},
  title =	{{Structure and Hardness in P (Dagstuhl Seminar 16451)}},
  pages =	{1--34},
  journal =	{Dagstuhl Reports},
  ISSN =	{2192-5283},
  year =	{2017},
  volume =	{6},
  number =	{11},
  editor =	{Lewenstein, Moshe and Pettie, Seth and Vassilevska Williams, Virginia},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/DagRep.6.11.1},
  URN =		{urn:nbn:de:0030-drops-70373},
  doi =		{10.4230/DagRep.6.11.1},
  annote =	{Keywords: Algorithmic equivalences, Classifying P, Hardness assumptions, Lower bounds}
}
Document
DOI: 10.4230/LIPIcs.ESA.2016.45
How Hard is it to Find (Honest) Witnesses?

Authors: Isaac Goldstein, Tsvi Kopelowitz, Moshe Lewenstein, and Ely Porat

Published in: LIPIcs, Volume 57, 24th Annual European Symposium on Algorithms (ESA 2016)

Abstract
In recent years much effort has been put into developing polynomial-time conditional lower bounds for algorithms and data structures in both static and dynamic settings. Along these lines we introduce a framework for proving conditional lower bounds based on the well-known 3SUM conjecture. Our framework creates a compact representation of an instance of the 3SUM problem using hashing and domain specific encoding. This compact representation admits false solutions to the original 3SUM problem instance which we reveal and eliminate until we find a true solution. In other words, from all witnesses (candidate solutions) we figure out if an honest one (a true solution) exists. This enumeration of witnesses is used to prove conditional lower bounds on reporting problems that generate all witnesses. In turn, these reporting problems are then reduced to various decision problems using special search data structures which are able to enumerate the witnesses while only using solutions to decision variants. Hence, 3SUM-hardness of the decision problems is deduced. We utilize this framework to show conditional lower bounds for several variants of convolutions, matrix multiplication and string problems. Our framework uses a strong connection between all of these problems and the ability to find witnesses. Specifically, we prove conditional lower bounds for computing partial outputs of convolutions and matrix multiplication for sparse inputs. These problems are inspired by the open question raised by Muthukrishnan 20 years ago. The lower bounds we show rule out the possibility (unless the 3SUM conjecture is false) that almost linear time solutions to sparse input-output convolutions or matrix multiplications exist. This is in contrast to standard convolutions and matrix multiplications that have, or assumed to have, almost linear solutions. Moreover, we improve upon the conditional lower bounds of Amir et al. for histogram indexing, a problem that has been of much interest recently. The conditional lower bounds we show apply for both reporting and decision variants. For the well-studied decision variant, we show a full tradeoff between preprocessing and query time for every alphabet size > 2. At an extreme, this implies that no solution to this problem exists with subquadratic preprocessing time and ~O(1) query time for every alphabet size > 2, unless the 3SUM conjecture is false. This is in contrast to a recent result by Chan and Lewenstein for a binary alphabet. While these specific applications are used to demonstrate the techniques of our framework, we believe that this novel framework is useful for many other problems as well.
Cite as

Isaac Goldstein, Tsvi Kopelowitz, Moshe Lewenstein, and Ely Porat. How Hard is it to Find (Honest) Witnesses?. In 24th Annual European Symposium on Algorithms (ESA 2016). Leibniz International Proceedings in Informatics (LIPIcs), Volume 57, pp. 45:1-45:16, Schloss Dagstuhl - Leibniz-Zentrum für Informatik (2016)

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@InProceedings{goldstein_et_al:LIPIcs.ESA.2016.45,
  author =	{Goldstein, Isaac and Kopelowitz, Tsvi and Lewenstein, Moshe and Porat, Ely},
  title =	{{How Hard is it to Find (Honest) Witnesses?}},
  booktitle =	{24th Annual European Symposium on Algorithms (ESA 2016)},
  pages =	{45:1--45:16},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-015-6},
  ISSN =	{1868-8969},
  year =	{2016},
  volume =	{57},
  editor =	{Sankowski, Piotr and Zaroliagis, Christos},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ESA.2016.45},
  URN =		{urn:nbn:de:0030-drops-63575},
  doi =		{10.4230/LIPIcs.ESA.2016.45},
  annote =	{Keywords: 3SUM, convolutions, matrix multiplication, histogram indexing}
}
Document
Complete Volume
DOI: 10.4230/LIPIcs.CPM.2016
LIPIcs, Volume 54, CPM'16, Complete Volume

Authors: Roberto Grossi and Moshe Lewenstein

Published in: LIPIcs, Volume 54, 27th Annual Symposium on Combinatorial Pattern Matching (CPM 2016)

Abstract
LIPIcs, Volume 54, CPM'16, Complete Volume
Cite as

Roberto Grossi and Moshe Lewenstein. LIPIcs, Volume 54, CPM'16, Complete Volume. In 27th Annual Symposium on Combinatorial Pattern Matching (CPM 2016). Leibniz International Proceedings in Informatics (LIPIcs), Volume 54, Schloss Dagstuhl - Leibniz-Zentrum für Informatik (2016)

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@Proceedings{grossi_et_al:LIPIcs.CPM.2016,
  title =	{{LIPIcs, Volume 54, CPM'16, Complete Volume}},
  booktitle =	{27th Annual Symposium on Combinatorial Pattern Matching (CPM 2016)},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-012-5},
  ISSN =	{1868-8969},
  year =	{2016},
  volume =	{54},
  editor =	{Grossi, Roberto and Lewenstein, Moshe},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.CPM.2016},
  URN =		{urn:nbn:de:0030-drops-60935},
  doi =		{10.4230/LIPIcs.CPM.2016},
  annote =	{Keywords: Data Structures, Data Storage Representations, Coding and Information Theory, Theory of Computation Discrete Mathematics, Information Systems}
}
Document
Front Matter
DOI: 10.4230/LIPIcs.CPM.2016.0
Front Matter, Table of Contents, Preface

Authors: Roberto Grossi and Moshe Lewenstein

Published in: LIPIcs, Volume 54, 27th Annual Symposium on Combinatorial Pattern Matching (CPM 2016)

Abstract
Front Matter, Table of Contents, Preface, List of Authors
Cite as

Roberto Grossi and Moshe Lewenstein. Front Matter, Table of Contents, Preface. In 27th Annual Symposium on Combinatorial Pattern Matching (CPM 2016). Leibniz International Proceedings in Informatics (LIPIcs), Volume 54, pp. 0:i-0:x, Schloss Dagstuhl - Leibniz-Zentrum für Informatik (2016)

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@InProceedings{grossi_et_al:LIPIcs.CPM.2016.0,
  author =	{Grossi, Roberto and Lewenstein, Moshe},
  title =	{{Front Matter, Table of Contents, Preface}},
  booktitle =	{27th Annual Symposium on Combinatorial Pattern Matching (CPM 2016)},
  pages =	{0:i--0:x},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-012-5},
  ISSN =	{1868-8969},
  year =	{2016},
  volume =	{54},
  editor =	{Grossi, Roberto and Lewenstein, Moshe},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.CPM.2016.0},
  URN =		{urn:nbn:de:0030-drops-60916},
  doi =		{10.4230/LIPIcs.CPM.2016.0},
  annote =	{Keywords: Front Matter, Table of Contents, Preface, List of Authors}
}
Document
DOI: 10.4230/LIPIcs.CPM.2016.1
Deterministic Sub-Linear Space LCE Data Structures With Efficient Construction

Authors: Yuka Tanimura, Tomohiro I, Hideo Bannai, Shunsuke Inenaga, Simon J. Puglisi, and Masayuki Takeda

Published in: LIPIcs, Volume 54, 27th Annual Symposium on Combinatorial Pattern Matching (CPM 2016)

Abstract
Given a string S of n symbols, a longest common extension query LCE(i,j) asks for the length of the longest common prefix of the $i$th and $j$th suffixes of S. LCE queries have several important applications in string processing, perhaps most notably to suffix sorting. Recently, Bille et al. (J. Discrete Algorithms 25:42-50, 2014, Proc. CPM 2015:65-76) described several data structures for answering LCE queries that offers a space-time trade-off between data structure size and query time. In particular, for a parameter 1 <= tau <= n, their best deterministic solution is a data structure of size O(n/tau) which allows LCE queries to be answered in O(tau) time. However, the construction time for all deterministic versions of their data structure is quadratic in n. In this paper, we propose a deterministic solution that achieves a similar space-time trade-off of O(tau * min(log(tau),log(n/tau)) query time using O(n/tau) space, but significantly improve the construction time to O(n*tau).
Cite as

Yuka Tanimura, Tomohiro I, Hideo Bannai, Shunsuke Inenaga, Simon J. Puglisi, and Masayuki Takeda. Deterministic Sub-Linear Space LCE Data Structures With Efficient Construction. In 27th Annual Symposium on Combinatorial Pattern Matching (CPM 2016). Leibniz International Proceedings in Informatics (LIPIcs), Volume 54, pp. 1:1-1:10, Schloss Dagstuhl - Leibniz-Zentrum für Informatik (2016)

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@InProceedings{tanimura_et_al:LIPIcs.CPM.2016.1,
  author =	{Tanimura, Yuka and I, Tomohiro and Bannai, Hideo and Inenaga, Shunsuke and Puglisi, Simon J. and Takeda, Masayuki},
  title =	{{Deterministic Sub-Linear Space LCE Data Structures With Efficient Construction}},
  booktitle =	{27th Annual Symposium on Combinatorial Pattern Matching (CPM 2016)},
  pages =	{1:1--1:10},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-012-5},
  ISSN =	{1868-8969},
  year =	{2016},
  volume =	{54},
  editor =	{Grossi, Roberto and Lewenstein, Moshe},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.CPM.2016.1},
  URN =		{urn:nbn:de:0030-drops-60655},
  doi =		{10.4230/LIPIcs.CPM.2016.1},
  annote =	{Keywords: longest common extension, longest common prefix, sparse suffix array}
}
Document
DOI: 10.4230/LIPIcs.CPM.2016.2
Space-Efficient Dictionaries for Parameterized and Order-Preserving Pattern Matching

Authors: Arnab Ganguly, Wing-Kai Hon, Kunihiko Sadakane, Rahul Shah, Sharma V. Thankachan, and Yilin Yang

Published in: LIPIcs, Volume 54, 27th Annual Symposium on Combinatorial Pattern Matching (CPM 2016)

Abstract
Let S and S' be two strings of the same length.We consider the following two variants of string matching. * Parameterized Matching: The characters of S and S' are partitioned into static characters and parameterized characters. The strings are parameterized match iff the static characters match exactly and there exists a one-to-one function which renames the parameterized characters in S to those in S'. * Order-Preserving Matching: The strings are order-preserving match iff for any two integers i,j in [1,|S|], S[i] <= S[j] iff S'[i] <= S'[j]. Let P be a collection of d patterns {P_1, P_2, ..., P_d} of total length n characters, which are chosen from an alphabet Sigma. Given a text T, also over Sigma, we consider the dictionary indexing problem under the above definitions of string matching. Specifically, the task is to index P, such that we can report all positions j where at least one of the patterns P_i in P is a parameterized-match (resp. order-preserving match) with the same-length substring of $T$ starting at j. Previous best-known indexes occupy O(n * log(n)) bits and can report all occ positions in O(|T| * log(|Sigma|) + occ) time. We present space-efficient indexes that occupy O(n * log(|Sigma|+d) * log(n)) bits and reports all occ positions in O(|T| * (log(|Sigma|) + log_{|Sigma|}(n)) + occ) time for parameterized matching and in O(|T| * log(n) + occ) time for order-preserving matching.
Cite as

Arnab Ganguly, Wing-Kai Hon, Kunihiko Sadakane, Rahul Shah, Sharma V. Thankachan, and Yilin Yang. Space-Efficient Dictionaries for Parameterized and Order-Preserving Pattern Matching. In 27th Annual Symposium on Combinatorial Pattern Matching (CPM 2016). Leibniz International Proceedings in Informatics (LIPIcs), Volume 54, pp. 2:1-2:12, Schloss Dagstuhl - Leibniz-Zentrum für Informatik (2016)

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@InProceedings{ganguly_et_al:LIPIcs.CPM.2016.2,
  author =	{Ganguly, Arnab and Hon, Wing-Kai and Sadakane, Kunihiko and Shah, Rahul and Thankachan, Sharma V. and Yang, Yilin},
  title =	{{Space-Efficient Dictionaries for Parameterized and Order-Preserving Pattern Matching}},
  booktitle =	{27th Annual Symposium on Combinatorial Pattern Matching (CPM 2016)},
  pages =	{2:1--2:12},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-012-5},
  ISSN =	{1868-8969},
  year =	{2016},
  volume =	{54},
  editor =	{Grossi, Roberto and Lewenstein, Moshe},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.CPM.2016.2},
  URN =		{urn:nbn:de:0030-drops-60736},
  doi =		{10.4230/LIPIcs.CPM.2016.2},
  annote =	{Keywords: Parameterized Matching, Order-preserving Matching, Dictionary Indexing, Aho-Corasick Automaton, Sparsification}
}
Document
DOI: 10.4230/LIPIcs.CPM.2016.3
Encoding Two-Dimensional Range Top-k Queries

Authors: Seungbum Jo, Rahul Lingala, and Srinivasa Rao Satti

Published in: LIPIcs, Volume 54, 27th Annual Symposium on Combinatorial Pattern Matching (CPM 2016)

Abstract
We consider various encodings that support range top-k queries on a two-dimensional array containing elements from a total order. For an m x n array, we first propose an almost optimal encoding for answering one-sided top-k queries, whose query range is restricted to [1 ... m][1 .. a], for 1 <= a <= n. Next, we propose an encoding for the general top-k queries that takes m^2 * lg(binom((k+1)n)(n)) + m * lg(m) + o(n) bits. This generalizes the one-dimensional top-k encoding of Gawrychowski and Nicholson [ICALP, 2015]. Finally, for a 2 x n array, we obtain a 2 lg(binom(3n)(n)) + 3n + o(n)-bit encoding for answering top-2 queries.
Cite as

Seungbum Jo, Rahul Lingala, and Srinivasa Rao Satti. Encoding Two-Dimensional Range Top-k Queries. In 27th Annual Symposium on Combinatorial Pattern Matching (CPM 2016). Leibniz International Proceedings in Informatics (LIPIcs), Volume 54, pp. 3:1-3:11, Schloss Dagstuhl - Leibniz-Zentrum für Informatik (2016)

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@InProceedings{jo_et_al:LIPIcs.CPM.2016.3,
  author =	{Jo, Seungbum and Lingala, Rahul and Satti, Srinivasa Rao},
  title =	{{Encoding Two-Dimensional Range Top-k Queries}},
  booktitle =	{27th Annual Symposium on Combinatorial Pattern Matching (CPM 2016)},
  pages =	{3:1--3:11},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-012-5},
  ISSN =	{1868-8969},
  year =	{2016},
  volume =	{54},
  editor =	{Grossi, Roberto and Lewenstein, Moshe},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.CPM.2016.3},
  URN =		{urn:nbn:de:0030-drops-60704},
  doi =		{10.4230/LIPIcs.CPM.2016.3},
  annote =	{Keywords: Encoding model, top-k query, range minimum query}
}
Document
DOI: 10.4230/LIPIcs.CPM.2016.4
Efficient Index for Weighted Sequences

Authors: Carl Barton, Tomasz Kociumaka, Solon P. Pissis, and Jakub Radoszewski

Published in: LIPIcs, Volume 54, 27th Annual Symposium on Combinatorial Pattern Matching (CPM 2016)

Abstract
The problem of finding factors of a text string which are identical or similar to a given pattern string is a central problem in computer science. A generalised version of this problem consists in implementing an index over the text to support efficient on-line pattern queries. We study this problem in the case where the text is weighted: for every position of the text and every letter of the alphabet a probability of occurrence of this letter at this position is given. Sequences of this type, also called position weight matrices, are commonly used to represent imprecise or uncertain data. A weighted sequence may represent many different strings, each with probability of occurrence equal to the product of probabilities of its letters at subsequent positions. Given a probability threshold 1/z, we say that a pattern string P matches a weighted text at position i if the product of probabilities of the letters of P at positions i,...,i+|P|-1 in the text is at least 1/z. In this article, we present an O(nz)-time construction of an O(nz)-sized index that can answer pattern matching queries in a weighted text in optimal time improving upon the state of the art by a factor of z log z. Other applications of this data structure include an O(nz)-time construction of the weighted prefix table and an O(nz)-time computation of all covers of a weighted sequence, which improve upon the state of the art by the same factor.
Cite as

Carl Barton, Tomasz Kociumaka, Solon P. Pissis, and Jakub Radoszewski. Efficient Index for Weighted Sequences. In 27th Annual Symposium on Combinatorial Pattern Matching (CPM 2016). Leibniz International Proceedings in Informatics (LIPIcs), Volume 54, pp. 4:1-4:13, Schloss Dagstuhl - Leibniz-Zentrum für Informatik (2016)

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@InProceedings{barton_et_al:LIPIcs.CPM.2016.4,
  author =	{Barton, Carl and Kociumaka, Tomasz and Pissis, Solon P. and Radoszewski, Jakub},
  title =	{{Efficient Index for Weighted Sequences}},
  booktitle =	{27th Annual Symposium on Combinatorial Pattern Matching (CPM 2016)},
  pages =	{4:1--4:13},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-012-5},
  ISSN =	{1868-8969},
  year =	{2016},
  volume =	{54},
  editor =	{Grossi, Roberto and Lewenstein, Moshe},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.CPM.2016.4},
  URN =		{urn:nbn:de:0030-drops-60807},
  doi =		{10.4230/LIPIcs.CPM.2016.4},
  annote =	{Keywords: weighted sequence, position weight matrix, indexing, weighted suffix tree}
}
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