18 Search Results for "Clifford, Raphaël"

Document
DOI: 10.4230/LIPIcs.CPM.2026.1
Hamming Distance Oracles

Authors: Itai Boneh, Dvir Fried, Shay Golan, Matan Kraus, and Ely Porat

Published in: LIPIcs, Volume 369, 37th Annual Symposium on Combinatorial Pattern Matching (CPM 2026)

Abstract
In this paper, we present and study the Hamming distance oracle problem. In this problem, the task is to preprocess two strings S and T of lengths n and m, respectively, to obtain a data structure that is able to return the Hamming distance between a substring of S and a substring of T. For strings over a constant-size alphabet, we show that for every x ≤ min{n,m} there is a data structure with Õ(nm/x) preprocessing time and O(x) query time. We also provide a conditional lower bound, showing that for every ε > 0 there is no combinatorial data structure with query time O(x) and preprocessing time O((nm/x)^{1-ε}) unless combinatorial fast matrix multiplication is possible. For strings over a general alphabet, we present a data structure with Õ(nm/√x) pre-processing time and O(x) query time for every x ≤ min {n,m}. Moreover, for every ε > 0 we provide a data structure with a preprocessing time of Õ((n+m)/ε³) that returns with high probability a (1±ε) approximation of the Hamming distance of two input substrings. The query time of the approximation data structure is Õ(1/ε²).
Cite as

Itai Boneh, Dvir Fried, Shay Golan, Matan Kraus, and Ely Porat. Hamming Distance Oracles. In 37th Annual Symposium on Combinatorial Pattern Matching (CPM 2026). Leibniz International Proceedings in Informatics (LIPIcs), Volume 369, pp. 1:1-1:12, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2026)

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@InProceedings{boneh_et_al:LIPIcs.CPM.2026.1,
  author =	{Boneh, Itai and Fried, Dvir and Golan, Shay and Kraus, Matan and Porat, Ely},
  title =	{{Hamming Distance Oracles}},
  booktitle =	{37th Annual Symposium on Combinatorial Pattern Matching (CPM 2026)},
  pages =	{1:1--1:12},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-420-8},
  ISSN =	{1868-8969},
  year =	{2026},
  volume =	{369},
  editor =	{Bille, Philip and Prezza, Nicola},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.CPM.2026.1},
  URN =		{urn:nbn:de:0030-drops-259278},
  doi =		{10.4230/LIPIcs.CPM.2026.1},
  annote =	{Keywords: Hamming distance, Fine-grained complexity, Data structure, Oracle}
}
Document
DOI: 10.4230/LIPIcs.CPM.2026.19
Asymmetric Streaming Approximate Pattern Matching

Authors: Wojciech Janczewski and Tatiana Starikovskaya

Published in: LIPIcs, Volume 369, 37th Annual Symposium on Combinatorial Pattern Matching (CPM 2026)

Abstract
We study the space complexity of pattern matching in the asymmetric streaming model, focusing on approximate pattern matching under the Hamming and edit distances. In this problem, we are given an m-length pattern and an n-length text and must compute, for every position of the text, the smallest distance between the pattern and a substring of the text which ends at this position. In the asymmetric streaming model, we assume to have constant-time random access to the pattern, while the text arrives as a stream, one letter at a time. It is known that computing all distances exactly in the asymmetric streaming model requires Ω(m) space (for the edit distance see Li and Zheng [FSTTCS 2021]). Hence, to achieve sublinear space, a relaxation of the problem is necessary. One possible variant is to consider the small distance regime, where the algorithm must compute only those distances that are bounded by a small integer parameter k. In this case, existing algorithms in a more restrictive fully streaming model (Kociumaka, Clifford, Porat [SODA'19], Bhattacharya, Koucký [ICALP'23]) straightforwardly imply the existence of poly(k, log n)-space asymmetric streaming algorithms. Another possible relaxation is computing all distances approximately. For this variant, we don't have small-space algorithms in the fully streaming model: the best known algorithm solves pattern matching under the Hamming distance (1+ε)-approximately using 𝒪̃(ε^{-2}√m) space (Starikovskaya, Svagerka, Uznański [APPROX'20]). For the edit distance, no efficient approximation algorithms are known. In this work, we show approximation algorithms for pattern matching under the Hamming and edit distances in the asymmetric streaming model for any constant ε > 0: 1) We show that there is a simple randomised asymmetric streaming algorithm that solves approximate pattern matching under the Hamming distance (1+ε)-approximately using 𝒪(ε^{-3}log³n) bits. 2) As our second and main contribution, we extend the result of Cheng et al. [ICALP 2021] and show that for any integer k there is a deterministic asymmetric streaming algorithm that solves pattern matching under the edit distance (2^k-1+ε)-approximately using 𝒪̃(m^{1/k}) space.
Cite as

Wojciech Janczewski and Tatiana Starikovskaya. Asymmetric Streaming Approximate Pattern Matching. In 37th Annual Symposium on Combinatorial Pattern Matching (CPM 2026). Leibniz International Proceedings in Informatics (LIPIcs), Volume 369, pp. 19:1-19:15, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2026)

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@InProceedings{janczewski_et_al:LIPIcs.CPM.2026.19,
  author =	{Janczewski, Wojciech and Starikovskaya, Tatiana},
  title =	{{Asymmetric Streaming Approximate Pattern Matching}},
  booktitle =	{37th Annual Symposium on Combinatorial Pattern Matching (CPM 2026)},
  pages =	{19:1--19:15},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-420-8},
  ISSN =	{1868-8969},
  year =	{2026},
  volume =	{369},
  editor =	{Bille, Philip and Prezza, Nicola},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.CPM.2026.19},
  URN =		{urn:nbn:de:0030-drops-259458},
  doi =		{10.4230/LIPIcs.CPM.2026.19},
  annote =	{Keywords: Asymmetric streaming, Pattern matching, Approximation, Edit distance, Hamming distance}
}
Document
DOI: 10.4230/LIPIcs.CPM.2026.26
The Communication Complexity of Pattern Matching with Edits Revisited

Authors: Tomasz Kociumaka, Jakob Nogler, and Philip Wellnitz

Published in: LIPIcs, Volume 369, 37th Annual Symposium on Combinatorial Pattern Matching (CPM 2026)

Abstract
The decades-old Pattern Matching with Edits problem, given a length-n string T (the text), a length-m string P (the pattern), and a positive integer k (the threshold), asks to list the k-error occurrences of P in T, that is, all fragments of T whose edit distance to P is at most k. The one-way communication complexity of this problem is the minimum number of bits that Alice, given an instance (P,T,k) of the problem, must send to Bob so that Bob can reconstruct the answer solely from that message. In recent work [STOC'24], we showed that, in the natural parameter regime 0 < k < m < n/2, Ω(n/m ⋅ k log(m/k)) bits are necessary and 𝒪(n/m ⋅ k log² m) bits are sufficient for this problem. More generally, for strings over an alphabet Σ, we gave an 𝒪(n/m ⋅ k log m log(m|Σ|))-bit encoding that allows one to recover a shortest sequence of edits for every k-error occurrence of P in T. In this paper, we revisit the original proof and improve the encoding size to 𝒪(n/m ⋅ k log (m|Σ|/k)), which matches the lower bound for constant-sized alphabets. We further establish a new tight lower bound of Ω(n/m ⋅ k log(m|Σ|/k)) for the edit sequence reporting variant we solve. Our encoding size also matches the communication complexity established for the simpler Pattern Matching with Mismatches problem in the context of streaming algorithms [Clifford, Kociumaka, Porat; SODA'19].
Cite as

Tomasz Kociumaka, Jakob Nogler, and Philip Wellnitz. The Communication Complexity of Pattern Matching with Edits Revisited. In 37th Annual Symposium on Combinatorial Pattern Matching (CPM 2026). Leibniz International Proceedings in Informatics (LIPIcs), Volume 369, pp. 26:1-26:15, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2026)

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@InProceedings{kociumaka_et_al:LIPIcs.CPM.2026.26,
  author =	{Kociumaka, Tomasz and Nogler, Jakob and Wellnitz, Philip},
  title =	{{The Communication Complexity of Pattern Matching with Edits Revisited}},
  booktitle =	{37th Annual Symposium on Combinatorial Pattern Matching (CPM 2026)},
  pages =	{26:1--26:15},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-420-8},
  ISSN =	{1868-8969},
  year =	{2026},
  volume =	{369},
  editor =	{Bille, Philip and Prezza, Nicola},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.CPM.2026.26},
  URN =		{urn:nbn:de:0030-drops-259525},
  doi =		{10.4230/LIPIcs.CPM.2026.26},
  annote =	{Keywords: Edit distance, Pattern matching, Communication complexity}
}
Document
DOI: 10.4230/LIPIcs.SoCG.2026.42
Compressed Data Structures for Heegaard Splitting

Authors: Henrique Ennes and Clément Maria

Published in: LIPIcs, Volume 367, 42nd International Symposium on Computational Geometry (SoCG 2026)

Abstract
Heegaard splittings provide a natural representation of closed 3-manifolds by gluing handlebodies along a common surface. These splittings can be equivalently given by two finite sets of meridians lying on the surface, which define a Heegaard diagram. We present a data structure to effectively represent Heegaard diagrams as normal curves with respect to triangulations of a surface of complexity measured by the space required to express the normal coordinates' vectors in binary. This structure can be significantly more compressed than triangulations of 3-manifolds, giving exponential gains for some families. Even with this succinct definition of complexity, we establish polynomial-time algorithms for comparing and manipulating diagrams, performing stabilizations, detecting trivial stabilizations and reductions, and computing topological invariants of the underlying manifolds, such as their fundamental and homology groups. We also contrast early implementations of our techniques with standard software programs for 3-manifolds, achieving faster algorithms for the average cases and exponential gains in speed for some particular presentations of the inputs.
Cite as

Henrique Ennes and Clément Maria. Compressed Data Structures for Heegaard Splitting. In 42nd International Symposium on Computational Geometry (SoCG 2026). Leibniz International Proceedings in Informatics (LIPIcs), Volume 367, pp. 42:1-42:15, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2026)

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@InProceedings{ennes_et_al:LIPIcs.SoCG.2026.42,
  author =	{Ennes, Henrique and Maria, Cl\'{e}ment},
  title =	{{Compressed Data Structures for Heegaard Splitting}},
  booktitle =	{42nd International Symposium on Computational Geometry (SoCG 2026)},
  pages =	{42:1--42:15},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-418-5},
  ISSN =	{1868-8969},
  year =	{2026},
  volume =	{367},
  editor =	{Ahn, Hee-Kap and Hoffmann, Michael and Nayyeri, Amir},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.SoCG.2026.42},
  URN =		{urn:nbn:de:0030-drops-258484},
  doi =		{10.4230/LIPIcs.SoCG.2026.42},
  annote =	{Keywords: 3-manifold, Heegaard splitting, curves on surfaces, surface theory, data structure, computational topology}
}
Document
DOI: 10.4230/LIPIcs.STACS.2026.68
Dynamic Pattern Matching with Wildcards

Authors: Arshia Ataee Naeini, Amir-Parsa Mobed, Masoud Seddighin, and Saeed Seddighin

Published in: LIPIcs, Volume 364, 43rd International Symposium on Theoretical Aspects of Computer Science (STACS 2026)

Abstract
We study the fully dynamic pattern matching problem where the pattern may contain up to k wildcard symbols, each matching any symbol of the alphabet. Both the text and the pattern are subject to updates (insert, delete, change). We design an algorithm with 𝒪(n log² n) preprocessing and update/query time 𝒪̃(kn^{k/{k+1}} + k² log n). The bound is truly sublinear for a constant k, and sublinear when k = o(log n). We further complement our results with a conditional lower bound: assuming subquadratic preprocessing time, achieving truly sublinear update time for the case k = Ω(log n) would contradict the Strong Exponential Time Hypothesis (SETH). Finally, we develop sublinear algorithms for two special cases: - If the pattern contains w non-wildcard symbols, we give an algorithm with preprocessing time 𝒪(nw) and update time 𝒪(w + log n), which is truly sublinear whenever w is truly sublinear. - Using FFT technique combined with block decomposition, we design a deterministic truly sublinear algorithm with preprocessing time 𝒪(n^{1.8}) and update time 𝒪(n^{0.8} log n) for the case that there are at most two non-wildcards.
Cite as

Arshia Ataee Naeini, Amir-Parsa Mobed, Masoud Seddighin, and Saeed Seddighin. Dynamic Pattern Matching with Wildcards. In 43rd International Symposium on Theoretical Aspects of Computer Science (STACS 2026). Leibniz International Proceedings in Informatics (LIPIcs), Volume 364, pp. 68:1-68:20, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2026)

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@InProceedings{naeini_et_al:LIPIcs.STACS.2026.68,
  author =	{Naeini, Arshia Ataee and Mobed, Amir-Parsa and Seddighin, Masoud and Seddighin, Saeed},
  title =	{{Dynamic Pattern Matching with Wildcards}},
  booktitle =	{43rd International Symposium on Theoretical Aspects of Computer Science (STACS 2026)},
  pages =	{68:1--68:20},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-412-3},
  ISSN =	{1868-8969},
  year =	{2026},
  volume =	{364},
  editor =	{Mahajan, Meena and Manea, Florin and McIver, Annabelle and Thắng, Nguy\~{ê}n Kim},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.STACS.2026.68},
  URN =		{urn:nbn:de:0030-drops-255579},
  doi =		{10.4230/LIPIcs.STACS.2026.68},
  annote =	{Keywords: pattern matching, wildcards, dynamic algorithms, string algorithms, data structures}
}
Document
DOI: 10.4230/LIPIcs.ITCS.2026.102
Smoothed Analysis of Dynamic Graph Algorithms

Authors: Uri Meir and Ami Paz

Published in: LIPIcs, Volume 362, 17th Innovations in Theoretical Computer Science Conference (ITCS 2026)

Abstract
Recent years have seen significant progress in the study of dynamic graph algorithms, and most notably, the introduction of strong lower bound techniques for them (e.g., Henzinger, Krinninger, Nanongkai and Saranurak, STOC 2015; Larsen and Yu, FOCS 2023). As worst-case analysis (adversarial inputs) may lead to the necessity of high running times, a natural question arises: in which cases are high running times really necessary, and in which cases these inputs merely manifest unique pathological cases? Early attempts to tackle this question were made by Nikoletseas, Reif, Spirakis and Yung (ICALP 1995) and by Alberts and Henzinger (Algorithmica 1998), who considered models with very little adversarial control over the inputs, and showed fast algorithms exist for them. The question was then overlooked for decades, until Henzinger, Lincoln and Saha (SODA 2022) recently addressed uniformly random inputs, and presented algorithms and impossibility results for several subgraph counting problems. To tackle the above question more thoroughly, we employ smoothed analysis, a celebrated framework introduced by Spielman and Teng (J. ACM, 2004). An input is proposed by an adversary but then a noisy version of it is processed by the algorithm instead. This model of inputs is parameterized by the amount of adversarial control, and fully interpolates between worst-case inputs and a uniformly random input. Doing so, we extend impossibility results for some problems to the smoothed model with only a minor quantitative loss. That is, we show that partially-adversarial inputs suffice to impose high running times for certain problems. In contrast, we show that other problems become easy even with the slightest amount of noise. In addition, we study the interplay between the adversary and the noise, leading to three natural models of smoothed inputs, for which we show a hierarchy of increasing difficulty stretching between the average-case and the worst-case complexities.
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Uri Meir and Ami Paz. Smoothed Analysis of Dynamic Graph Algorithms. In 17th Innovations in Theoretical Computer Science Conference (ITCS 2026). Leibniz International Proceedings in Informatics (LIPIcs), Volume 362, pp. 102:1-102:20, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2026)

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@InProceedings{meir_et_al:LIPIcs.ITCS.2026.102,
  author =	{Meir, Uri and Paz, Ami},
  title =	{{Smoothed Analysis of Dynamic Graph Algorithms}},
  booktitle =	{17th Innovations in Theoretical Computer Science Conference (ITCS 2026)},
  pages =	{102:1--102:20},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-410-9},
  ISSN =	{1868-8969},
  year =	{2026},
  volume =	{362},
  editor =	{Saraf, Shubhangi},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ITCS.2026.102},
  URN =		{urn:nbn:de:0030-drops-253896},
  doi =		{10.4230/LIPIcs.ITCS.2026.102},
  annote =	{Keywords: Dynamic graph algorithms, Smoothed analysis, Shortest paths}
}
Document
DOI: 10.4230/LIPIcs.IPEC.2025.3
Parameterized Maximum Node-Disjoint Paths

Authors: Michael Lampis and Manolis Vasilakis

Published in: LIPIcs, Volume 358, 20th International Symposium on Parameterized and Exact Computation (IPEC 2025)

Abstract
We revisit the Maximum Node-Disjoint Paths problem, the natural optimization version of the famous Node-Disjoint Paths problem, where we are given an undirected graph G, k (demand) pairs of vertices (s_i, t_i), and an integer 𝓁, and are asked whether there exist at least 𝓁 vertex-disjoint paths in G whose endpoints are given pairs. This problem has been intensely studied from both the approximation and parameterized complexity point of view and is notably known to be intractable by standard structural parameters, such as tree-depth, as well as the combined parameter 𝓁 plus pathwidth. We present several results improving and clarifying this state of the art, with an emphasis towards FPT approximation. Our main positive contribution is to show that the problem’s intractability can be overcome using approximation: We show that for several of the structural parameters for which the problem is hard, most notably tree-depth, the problem admits an efficient FPT approximation scheme, returning a (1-ε)-approximate solution in time f(td,ε)n^𝒪(1). We manage to obtain these results by comprehensively mapping out the structural parameters for which the problem is FPT if 𝓁 is also a parameter, hence showing that understanding 𝓁 as a parameter is key to the problem’s approximability. This, in turn, is a problem we are able to solve via a surprisingly simple color-coding algorithm, which relies on identifying an insightful problem-specific variant of the natural parameter, namely the number of vertices used in the solution. The results above are quite encouraging, as they indicate that in some situations where the problem does not admit an FPT algorithm, it is still solvable almost to optimality in FPT time. A natural question is whether the FPT approximation algorithm we devised for tree-depth can be extended to pathwidth. We resolve this negatively, showing that under the Parameterized Inapproximability Hypothesis no FPT approximation scheme for this parameter is possible, even in time f(pw,ε)n^g(ε). We thus precisely determine the parameter border where the problem transitions from "hard but approximable" to "inapproximable". Lastly, we strengthen existing lower bounds by replacing W[1]-hardness by XNLP-completeness for parameter pathwidth, and improving the n^o(√{td}) ETH-based lower bound for tree-depth to (the optimal) n^o(td).
Cite as

Michael Lampis and Manolis Vasilakis. Parameterized Maximum Node-Disjoint Paths. In 20th International Symposium on Parameterized and Exact Computation (IPEC 2025). Leibniz International Proceedings in Informatics (LIPIcs), Volume 358, pp. 3:1-3:15, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2025)

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@InProceedings{lampis_et_al:LIPIcs.IPEC.2025.3,
  author =	{Lampis, Michael and Vasilakis, Manolis},
  title =	{{Parameterized Maximum Node-Disjoint Paths}},
  booktitle =	{20th International Symposium on Parameterized and Exact Computation (IPEC 2025)},
  pages =	{3:1--3:15},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-407-9},
  ISSN =	{1868-8969},
  year =	{2025},
  volume =	{358},
  editor =	{Agrawal, Akanksha and van Leeuwen, Erik Jan},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.IPEC.2025.3},
  URN =		{urn:nbn:de:0030-drops-251357},
  doi =		{10.4230/LIPIcs.IPEC.2025.3},
  annote =	{Keywords: ETH, Maximum Node-Disjoint Paths, Parameterized Complexity, PIH}
}
Document
DOI: 10.4230/LIPIcs.ISAAC.2025.36
Streaming Periodicity with Mismatches, Wildcards, and Edits

Authors: Taha El Ghazi and Tatiana Starikovskaya

Published in: LIPIcs, Volume 359, 36th International Symposium on Algorithms and Computation (ISAAC 2025)

Abstract
In this work, we study the problem of detecting periodic trends in strings. While detecting exact periodicity has been studied extensively, real-world data is often noisy, where small deviations or mismatches occur between repetitions. This work focuses on a generalized approach to period detection that efficiently handles noise. Given a string S of length n, the task is to identify integers p such that the prefix and the suffix of S, each of length n-p+1, are similar under a given distance measure. Ergün et al. [APPROX-RANDOM 2017] were the first to study this problem in the streaming model under the Hamming distance. In this work, we combine, in a non-trivial way, the Hamming distance sketch of Clifford et al. [SODA 2019] and the structural description of the k-mismatch occurrences of a pattern in a text by Charalampopoulos et al. [FOCS 2020] to present a more efficient streaming algorithm for period detection under the Hamming distance. As a corollary, we derive a streaming algorithm for detecting periods of strings which may contain wildcards, a special symbol that match any character of the alphabet. Our algorithm is not only more efficient than that of Ergün et al. [TCS 2020], but it also operates without their assumption that the string must be free of wildcards in its final characters. Additionally, we introduce the first two-pass streaming algorithm for computing periods under the edit distance by leveraging and extending the Bhattacharya-Koucký’s grammar decomposition technique [STOC 2023].
Cite as

Taha El Ghazi and Tatiana Starikovskaya. Streaming Periodicity with Mismatches, Wildcards, and Edits. In 36th International Symposium on Algorithms and Computation (ISAAC 2025). Leibniz International Proceedings in Informatics (LIPIcs), Volume 359, pp. 36:1-36:20, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2025)

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@InProceedings{elghazi_et_al:LIPIcs.ISAAC.2025.36,
  author =	{El Ghazi, Taha and Starikovskaya, Tatiana},
  title =	{{Streaming Periodicity with Mismatches, Wildcards, and Edits}},
  booktitle =	{36th International Symposium on Algorithms and Computation (ISAAC 2025)},
  pages =	{36:1--36:20},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-408-6},
  ISSN =	{1868-8969},
  year =	{2025},
  volume =	{359},
  editor =	{Chen, Ho-Lin and Hon, Wing-Kai and Tsai, Meng-Tsung},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ISAAC.2025.36},
  URN =		{urn:nbn:de:0030-drops-249446},
  doi =		{10.4230/LIPIcs.ISAAC.2025.36},
  annote =	{Keywords: approximate periods, pattern matching, streaming algorithms}
}
Document
DOI: 10.4230/LIPIcs.CPM.2025.18
Improved Circular Dictionary Matching

Authors: Nicola Cotumaccio

Published in: LIPIcs, Volume 331, 36th Annual Symposium on Combinatorial Pattern Matching (CPM 2025)

Abstract
The circular dictionary matching problem is an extension of the classical dictionary matching problem where every string in the dictionary is interpreted as a circular string: after reading the last character of a string, we can move back to its first character. The circular dictionary matching problem is motivated by applications in bioinformatics and computational geometry. In 2011, Hon et al. [ISAAC 2011] showed how to efficiently solve circular dictionary matching queries within compressed space by building on Mantaci et al.’s eBWT and Sadakane’s compressed suffix tree. The proposed solution is based on the assumption that the strings in the dictionary are all distinct and non-periodic, no string is a circular rotation of some other string, and the strings in the dictionary have similar lengths. In this paper, we consider arbitrary dictionaries, and we show how to solve circular dictionary matching queries in O((m + occ) log n) time within compressed space using n log σ (1 + o(1)) + O(n) + O(d log n) bits, where n is the total length of the dictionary, m is the length of the pattern, occ is the number of occurrences, d is the number of strings in the dictionary and σ is the size of the alphabet. Our solution is based on an extension of the suffix array to arbitrary dictionaries and a sampling mechanism for the LCP array of a dictionary inspired by recent results in graph indexing and compression.
Cite as

Nicola Cotumaccio. Improved Circular Dictionary Matching. In 36th Annual Symposium on Combinatorial Pattern Matching (CPM 2025). Leibniz International Proceedings in Informatics (LIPIcs), Volume 331, pp. 18:1-18:17, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2025)

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@InProceedings{cotumaccio:LIPIcs.CPM.2025.18,
  author =	{Cotumaccio, Nicola},
  title =	{{Improved Circular Dictionary Matching}},
  booktitle =	{36th Annual Symposium on Combinatorial Pattern Matching (CPM 2025)},
  pages =	{18:1--18:17},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-369-0},
  ISSN =	{1868-8969},
  year =	{2025},
  volume =	{331},
  editor =	{Bonizzoni, Paola and M\"{a}kinen, Veli},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.CPM.2025.18},
  URN =		{urn:nbn:de:0030-drops-231122},
  doi =		{10.4230/LIPIcs.CPM.2025.18},
  annote =	{Keywords: Circular pattern matching, dictionary matching, suffix tree, compressed suffix tree, suffix array, LCP array, Burrows-Wheeler Transform, FM-index}
}
Document
DOI: 10.4230/LIPIcs.CPM.2025.21
Compressed Dictionary Matching on Run-Length Encoded Strings

Authors: Philip Bille, Inge Li Gørtz, Simon J. Puglisi, and Simon R. Tarnow

Published in: LIPIcs, Volume 331, 36th Annual Symposium on Combinatorial Pattern Matching (CPM 2025)

Abstract
Given a set of pattern strings 𝒫 = {P₁, P₂,… P_k} and a text string S, the classic dictionary matching problem is to report all occurrences of each pattern in S. We study the dictionary problem in the compressed setting, where the pattern strings and the text string are compressed using run-length encoding, and the goal is to solve the problem without decompression and achieve efficient time and space in the size of the compressed strings. Let m and n be the total length of the patterns 𝒫 and the length of the text string S, respectively, and let ̅m and ̅n be the total number of runs in the run-length encoding of the patterns in 𝒫 and S, respectively. Our main result is an algorithm that achieves O(( ̅m + ̅n)log log m + occ) expected time, and O( ̅m) space, where occ is the total number of occurrences of patterns in S. This is the first non-trivial solution to the problem. Since any solution must read the input, our time bound is optimal within an log log m factor. We introduce several new techniques to achieve our bounds, including a new compressed representation of the classic Aho-Corasick automaton and a new efficient string index that supports fast queries in run-length encoded strings.
Cite as

Philip Bille, Inge Li Gørtz, Simon J. Puglisi, and Simon R. Tarnow. Compressed Dictionary Matching on Run-Length Encoded Strings. In 36th Annual Symposium on Combinatorial Pattern Matching (CPM 2025). Leibniz International Proceedings in Informatics (LIPIcs), Volume 331, pp. 21:1-21:16, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2025)

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@InProceedings{bille_et_al:LIPIcs.CPM.2025.21,
  author =	{Bille, Philip and G{\o}rtz, Inge Li and Puglisi, Simon J. and Tarnow, Simon R.},
  title =	{{Compressed Dictionary Matching on Run-Length Encoded Strings}},
  booktitle =	{36th Annual Symposium on Combinatorial Pattern Matching (CPM 2025)},
  pages =	{21:1--21:16},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-369-0},
  ISSN =	{1868-8969},
  year =	{2025},
  volume =	{331},
  editor =	{Bonizzoni, Paola and M\"{a}kinen, Veli},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.CPM.2025.21},
  URN =		{urn:nbn:de:0030-drops-231158},
  doi =		{10.4230/LIPIcs.CPM.2025.21},
  annote =	{Keywords: Dictionary matching, run-length encoding, compressed pattern matching}
}
Document
DOI: 10.4230/LIPIcs.STACS.2025.17
Tight Approximation and Kernelization Bounds for Vertex-Disjoint Shortest Paths

Authors: Matthias Bentert, Fedor V. Fomin, and Petr A. Golovach

Published in: LIPIcs, Volume 327, 42nd International Symposium on Theoretical Aspects of Computer Science (STACS 2025)

Abstract
We examine the possibility of approximating Maximum Vertex-Disjoint Shortest Paths. In this problem, the input is an edge-weighted (directed or undirected) n-vertex graph G along with k terminal pairs (s_1,t_1),(s_2,t_2),…,(s_k,t_k). The task is to connect as many terminal pairs as possible by pairwise vertex-disjoint paths such that each path is a shortest path between the respective terminals. Our work is anchored in the recent breakthrough by Lochet [SODA '21], which demonstrates the polynomial-time solvability of the problem for a fixed value of k. Lochet’s result implies the existence of a polynomial-time ck-approximation for Maximum Vertex-Disjoint Shortest Paths, where c ≤ 1 is a constant. (One can guess 1/c terminal pairs to connect in k^O(1/c) time and then utilize Lochet’s algorithm to compute the solution in n^f(1/c) time.) Our first result suggests that this approximation algorithm is, in a sense, the best we can hope for. More precisely, assuming the gap-ETH, we exclude the existence of an o(k)-approximation within f(k) ⋅ poly(n) time for any function f that only depends on k. Our second result demonstrates the infeasibility of achieving an approximation ratio of m^{1/2-ε} in polynomial time, unless P = NP. It is not difficult to show that a greedy algorithm selecting a path with the minimum number of arcs results in a ⌈√𝓁⌉-approximation, where 𝓁 is the number of edges in all the paths of an optimal solution. Since 𝓁 ≤ n, this underscores the tightness of the m^{1/2-ε}-inapproximability bound. Additionally, we establish that Maximum Vertex-Disjoint Shortest Paths is fixed-parameter tractable when parameterized by 𝓁 but does not admit a polynomial kernel. Our hardness results hold for undirected graphs with unit weights, while our positive results extend to scenarios where the input graph is directed and features arbitrary (non-negative) edge weights.
Cite as

Matthias Bentert, Fedor V. Fomin, and Petr A. Golovach. Tight Approximation and Kernelization Bounds for Vertex-Disjoint Shortest Paths. In 42nd International Symposium on Theoretical Aspects of Computer Science (STACS 2025). Leibniz International Proceedings in Informatics (LIPIcs), Volume 327, pp. 17:1-17:17, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2025)

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@InProceedings{bentert_et_al:LIPIcs.STACS.2025.17,
  author =	{Bentert, Matthias and Fomin, Fedor V. and Golovach, Petr A.},
  title =	{{Tight Approximation and Kernelization Bounds for Vertex-Disjoint Shortest Paths}},
  booktitle =	{42nd International Symposium on Theoretical Aspects of Computer Science (STACS 2025)},
  pages =	{17:1--17:17},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-365-2},
  ISSN =	{1868-8969},
  year =	{2025},
  volume =	{327},
  editor =	{Beyersdorff, Olaf and Pilipczuk, Micha{\l} and Pimentel, Elaine and Thắng, Nguy\~{ê}n Kim},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.STACS.2025.17},
  URN =		{urn:nbn:de:0030-drops-228422},
  doi =		{10.4230/LIPIcs.STACS.2025.17},
  annote =	{Keywords: Inapproximability, Fixed-parameter tractability, Parameterized approximation}
}
Document
DOI: 10.4230/LIPIcs.ITCS.2025.43
Space Complexity of Minimum Cut Problems in Single-Pass Streams

Authors: Matthew Ding, Alexandro Garces, Jason Li, Honghao Lin, Jelani Nelson, Vihan Shah, and David P. Woodruff

Published in: LIPIcs, Volume 325, 16th Innovations in Theoretical Computer Science Conference (ITCS 2025)

Abstract
We consider the problem of finding a minimum cut of a weighted graph presented as a single-pass stream. While graph sparsification in streams has been intensively studied, the specific application of finding minimum cuts in streams is less well-studied. To this end, we show upper and lower bounds on minimum cut problems in insertion-only streams for a variety of settings, including for both randomized and deterministic algorithms, for both arbitrary and random order streams, and for both approximate and exact algorithms. One of our main results is an Õ(n/ε) space algorithm with fast update time for approximating a spectral cut query with high probability on a stream given in an arbitrary order. Our result breaks the Ω(n/ε²) space lower bound required of a sparsifier that approximates all cuts simultaneously. Using this result, we provide streaming algorithms with near optimal space of Õ(n/ε) for minimum cut and approximate all-pairs effective resistances, with matching space lower-bounds. The amortized update time of our algorithms is Õ(1), provided that the number of edges in the input graph is at least (n/ε²)^{1+o(1)}. We also give a generic way of incorporating sketching into a recursive contraction algorithm to improve the post-processing time of our algorithms. In addition to these results, we give a random-order streaming algorithm that computes the exact minimum cut on a simple, unweighted graph using Õ(n) space. Finally, we give an Ω(n/ε²) space lower bound for deterministic minimum cut algorithms which matches the best-known upper bound up to polylogarithmic factors.
Cite as

Matthew Ding, Alexandro Garces, Jason Li, Honghao Lin, Jelani Nelson, Vihan Shah, and David P. Woodruff. Space Complexity of Minimum Cut Problems in Single-Pass Streams. In 16th Innovations in Theoretical Computer Science Conference (ITCS 2025). Leibniz International Proceedings in Informatics (LIPIcs), Volume 325, pp. 43:1-43:23, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2025)

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@InProceedings{ding_et_al:LIPIcs.ITCS.2025.43,
  author =	{Ding, Matthew and Garces, Alexandro and Li, Jason and Lin, Honghao and Nelson, Jelani and Shah, Vihan and Woodruff, David P.},
  title =	{{Space Complexity of Minimum Cut Problems in Single-Pass Streams}},
  booktitle =	{16th Innovations in Theoretical Computer Science Conference (ITCS 2025)},
  pages =	{43:1--43:23},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-361-4},
  ISSN =	{1868-8969},
  year =	{2025},
  volume =	{325},
  editor =	{Meka, Raghu},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ITCS.2025.43},
  URN =		{urn:nbn:de:0030-drops-226714},
  doi =		{10.4230/LIPIcs.ITCS.2025.43},
  annote =	{Keywords: minimum cut, approximate, random order, lower bound}
}
Document
DOI: 10.4230/LIPIcs.CPM.2022.18
The Dynamic k-Mismatch Problem

Authors: Raphaël Clifford, Paweł Gawrychowski, Tomasz Kociumaka, Daniel P. Martin, and Przemysław Uznański

Published in: LIPIcs, Volume 223, 33rd Annual Symposium on Combinatorial Pattern Matching (CPM 2022)

Abstract
The text-to-pattern Hamming distances problem asks to compute the Hamming distances between a given pattern of length m and all length-m substrings of a given text of length n ≥ m. We focus on the well-studied k-mismatch version of the problem, where a distance needs to be returned only if it does not exceed a threshold k. Moreover, we assume n ≤ 2m (in general, one can partition the text into overlapping blocks). In this work, we develop data structures for the dynamic version of the k-mismatch problem supporting two operations: An update performs a single-letter substitution in the pattern or the text, whereas a query, given an index i, returns the Hamming distance between the pattern and the text substring starting at position i, or reports that the distance exceeds k. First, we describe a simple data structure with 𝒪̃(1) update time and 𝒪̃(k) query time. Through considerably more sophisticated techniques, we show that 𝒪̃(k) update time and 𝒪̃(1) query time is also achievable. These two solutions likely provide an essentially optimal trade-off for the dynamic k-mismatch problem with m^{Ω(1)} ≤ k ≤ √m: we prove that, in that case, conditioned on the 3SUM conjecture, one cannot simultaneously achieve k^{1-Ω(1)} time for all operations (updates and queries) after n^{𝒪(1)}-time initialization. For k ≥ √m, the same lower bound excludes achieving m^{1/2-Ω(1)} time per operation. This is known to be essentially tight for constant-sized alphabets: already Clifford et al. (STACS 2018) achieved 𝒪̃(√m) time per operation in that case, but their solution for large alphabets costs 𝒪̃(m^{3/4}) time per operation. We improve and extend the latter result by developing a trade-off algorithm that, given a parameter 1 ≤ x ≤ k, achieves update time 𝒪̃(m/k +√{mk/x}) and query time 𝒪̃(x). In particular, for k ≥ √m, an appropriate choice of x yields 𝒪̃(∛{mk}) time per operation, which is 𝒪̃(m^{2/3}) when only the trivial threshold k = m is provided.
Cite as

Raphaël Clifford, Paweł Gawrychowski, Tomasz Kociumaka, Daniel P. Martin, and Przemysław Uznański. The Dynamic k-Mismatch Problem. In 33rd Annual Symposium on Combinatorial Pattern Matching (CPM 2022). Leibniz International Proceedings in Informatics (LIPIcs), Volume 223, pp. 18:1-18:15, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2022)

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@InProceedings{clifford_et_al:LIPIcs.CPM.2022.18,
  author =	{Clifford, Rapha\"{e}l and Gawrychowski, Pawe{\l} and Kociumaka, Tomasz and Martin, Daniel P. and Uzna\'{n}ski, Przemys{\l}aw},
  title =	{{The Dynamic k-Mismatch Problem}},
  booktitle =	{33rd Annual Symposium on Combinatorial Pattern Matching (CPM 2022)},
  pages =	{18:1--18:15},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-234-1},
  ISSN =	{1868-8969},
  year =	{2022},
  volume =	{223},
  editor =	{Bannai, Hideo and Holub, Jan},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.CPM.2022.18},
  URN =		{urn:nbn:de:0030-drops-161454},
  doi =		{10.4230/LIPIcs.CPM.2022.18},
  annote =	{Keywords: Pattern matching, Hamming distance, dynamic algorithms}
}
Document
DOI: 10.4230/LIPIcs.MFCS.2019.66
RLE Edit Distance in Near Optimal Time

Authors: Raphaël Clifford, Paweł Gawrychowski, Tomasz Kociumaka, Daniel P. Martin, and Przemysław Uznański

Published in: LIPIcs, Volume 138, 44th International Symposium on Mathematical Foundations of Computer Science (MFCS 2019)

Abstract
We show that the edit distance between two run-length encoded strings of compressed lengths m and n respectively, can be computed in O(mn log(mn)) time. This improves the previous record by a factor of O(n/log(mn)). The running time of our algorithm is within subpolynomial factors of being optimal, subject to the standard SETH-hardness assumption. This effectively closes a line of algorithmic research first started in 1993.
Cite as

Raphaël Clifford, Paweł Gawrychowski, Tomasz Kociumaka, Daniel P. Martin, and Przemysław Uznański. RLE Edit Distance in Near Optimal Time. In 44th International Symposium on Mathematical Foundations of Computer Science (MFCS 2019). Leibniz International Proceedings in Informatics (LIPIcs), Volume 138, pp. 66:1-66:13, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2019)

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@InProceedings{clifford_et_al:LIPIcs.MFCS.2019.66,
  author =	{Clifford, Rapha\"{e}l and Gawrychowski, Pawe{\l} and Kociumaka, Tomasz and Martin, Daniel P. and Uzna\'{n}ski, Przemys{\l}aw},
  title =	{{RLE Edit Distance in Near Optimal Time}},
  booktitle =	{44th International Symposium on Mathematical Foundations of Computer Science (MFCS 2019)},
  pages =	{66:1--66:13},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-117-7},
  ISSN =	{1868-8969},
  year =	{2019},
  volume =	{138},
  editor =	{Rossmanith, Peter and Heggernes, Pinar and Katoen, Joost-Pieter},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.MFCS.2019.66},
  URN =		{urn:nbn:de:0030-drops-110109},
  doi =		{10.4230/LIPIcs.MFCS.2019.66},
  annote =	{Keywords: String algorithms, Compression, Pattern matching, Run-length encoding}
}
Document
DOI: 10.4230/LIPIcs.STACS.2018.22
Upper and Lower Bounds for Dynamic Data Structures on Strings

Authors: Raphaël Clifford, Allan Grønlund, Kasper Green Larsen, and Tatiana Starikovskaya

Published in: LIPIcs, Volume 96, 35th Symposium on Theoretical Aspects of Computer Science (STACS 2018)

Abstract
We consider a range of simply stated dynamic data structure problems on strings. An update changes one symbol in the input and a query asks us to compute some function of the pattern of length m and a substring of a longer text. We give both conditional and unconditional lower bounds for variants of exact matching with wildcards, inner product, and Hamming distance computation via a sequence of reductions. As an example, we show that there does not exist an O(m^{1/2-epsilon}) time algorithm for a large range of these problems unless the online Boolean matrix-vector multiplication conjecture is false. We also provide nearly matching upper bounds for most of the problems we consider.
Cite as

Raphaël Clifford, Allan Grønlund, Kasper Green Larsen, and Tatiana Starikovskaya. Upper and Lower Bounds for Dynamic Data Structures on Strings. In 35th Symposium on Theoretical Aspects of Computer Science (STACS 2018). Leibniz International Proceedings in Informatics (LIPIcs), Volume 96, pp. 22:1-22:14, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2018)

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@InProceedings{clifford_et_al:LIPIcs.STACS.2018.22,
  author =	{Clifford, Rapha\"{e}l and Gr{\o}nlund, Allan and Larsen, Kasper Green and Starikovskaya, Tatiana},
  title =	{{Upper and Lower Bounds for Dynamic Data Structures on Strings}},
  booktitle =	{35th Symposium on Theoretical Aspects of Computer Science (STACS 2018)},
  pages =	{22:1--22:14},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-062-0},
  ISSN =	{1868-8969},
  year =	{2018},
  volume =	{96},
  editor =	{Niedermeier, Rolf and Vall\'{e}e, Brigitte},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.STACS.2018.22},
  URN =		{urn:nbn:de:0030-drops-85088},
  doi =		{10.4230/LIPIcs.STACS.2018.22},
  annote =	{Keywords: exact pattern matching with wildcards, hamming distance, inner product, conditional lower bounds}
}
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