166 Search Results for "Farach-Colton, Martin"

Volume

LIPIcs, Volume 274

31st Annual European Symposium on Algorithms (ESA 2023)

ESA 2023, September 4-6, 2023, Amsterdam, The Netherlands

Editors: Inge Li Gørtz, Martin Farach-Colton, Simon J. Puglisi, and Grzegorz Herman

Volume

LIPIcs, Volume 157

10th International Conference on Fun with Algorithms (FUN 2021)

FUN 2021, May 30 to June 1, 2021, Favignana Island, Sicily, Italy

Editors: Martin Farach-Colton, Giuseppe Prencipe, and Ryuhei Uehara

Document
APPROX
DOI: 10.4230/LIPIcs.APPROX/RANDOM.2024.9
On the Generalized Mean Densest Subgraph Problem: Complexity and Algorithms

Authors: Karthekeyan Chandrasekaran, Chandra Chekuri, Manuel R. Torres, and Weihao Zhu

Published in: LIPIcs, Volume 317, Approximation, Randomization, and Combinatorial Optimization. Algorithms and Techniques (APPROX/RANDOM 2024)

Abstract
Dense subgraph discovery is an important problem in graph mining and network analysis with several applications. Two canonical polynomial-time solvable problems here are to find a maxcore (subgraph of maximum min degree) and to find a densest subgraph (subgraph of maximum average degree). Both of these problems can be solved in polynomial time. Veldt, Benson, and Kleinberg [Veldt et al., 2021] introduced the generalized p-mean densest subgraph problem which captures the maxcore problem when p = -∞ and the densest subgraph problem when p = 1. They observed that for p ≥ 1, the objective function is supermodular and hence the problem can be solved in polynomial time. In this work, we focus on the p-mean densest subgraph problem for p ∈ (-∞, 1). We prove that for every p ∈ (-∞,1), the problem is NP-hard, thus resolving an open question from [Veldt et al., 2021]. We also show that for every p ∈ (0,1), the weighted version of the problem is APX-hard. On the algorithmic front, we describe two simple 1/2-approximation algorithms for every p ∈ (-∞, 1). We complement the approximation algorithms by exhibiting non-trivial instances on which the algorithms simultaneously achieve an approximation factor of at most 1/2.
Cite as

Karthekeyan Chandrasekaran, Chandra Chekuri, Manuel R. Torres, and Weihao Zhu. On the Generalized Mean Densest Subgraph Problem: Complexity and Algorithms. In Approximation, Randomization, and Combinatorial Optimization. Algorithms and Techniques (APPROX/RANDOM 2024). Leibniz International Proceedings in Informatics (LIPIcs), Volume 317, pp. 9:1-9:21, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@InProceedings{chandrasekaran_et_al:LIPIcs.APPROX/RANDOM.2024.9,
  author =	{Chandrasekaran, Karthekeyan and Chekuri, Chandra and Torres, Manuel R. and Zhu, Weihao},
  title =	{{On the Generalized Mean Densest Subgraph Problem: Complexity and Algorithms}},
  booktitle =	{Approximation, Randomization, and Combinatorial Optimization. Algorithms and Techniques (APPROX/RANDOM 2024)},
  pages =	{9:1--9:21},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-348-5},
  ISSN =	{1868-8969},
  year =	{2024},
  volume =	{317},
  editor =	{Kumar, Amit and Ron-Zewi, Noga},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.APPROX/RANDOM.2024.9},
  URN =		{urn:nbn:de:0030-drops-210025},
  doi =		{10.4230/LIPIcs.APPROX/RANDOM.2024.9},
  annote =	{Keywords: Densest subgraph problem, Hardness of approximation, Approximation algorithms}
}
Document
APPROX
DOI: 10.4230/LIPIcs.APPROX/RANDOM.2024.12
Universal Optimization for Non-Clairvoyant Subadditive Joint Replenishment

Authors: Tomer Ezra, Stefano Leonardi, Michał Pawłowski, Matteo Russo, and Seeun William Umboh

Published in: LIPIcs, Volume 317, Approximation, Randomization, and Combinatorial Optimization. Algorithms and Techniques (APPROX/RANDOM 2024)

Abstract
The online joint replenishment problem (JRP) is a fundamental problem in the area of online problems with delay. Over the last decade, several works have studied generalizations of JRP with different cost functions for servicing requests. Most prior works on JRP and its generalizations have focused on the clairvoyant setting. Recently, Touitou [Noam Touitou, 2023] developed a non-clairvoyant framework that provided an O(√{n log n}) upper bound for a wide class of generalized JRP, where n is the number of request types. We advance the study of non-clairvoyant algorithms by providing a simpler, modular framework that matches the competitive ratio established by Touitou for the same class of generalized JRP. Our key insight is to leverage universal algorithms for Set Cover to approximate arbitrary monotone subadditive functions using a simple class of functions termed disjoint. This allows us to reduce the problem to several independent instances of the TCP Acknowledgement problem, for which a simple 2-competitive non-clairvoyant algorithm is known. The modularity of our framework is a major advantage as it allows us to tailor the reduction to specific problems and obtain better competitive ratios. In particular, we obtain tight O(√n)-competitive algorithms for two significant problems: Multi-Level Aggregation and Weighted Symmetric Subadditive Joint Replenishment. We also show that, in contrast, Touitou’s algorithm is Ω(√{n log n})-competitive for both of these problems.
Cite as

Tomer Ezra, Stefano Leonardi, Michał Pawłowski, Matteo Russo, and Seeun William Umboh. Universal Optimization for Non-Clairvoyant Subadditive Joint Replenishment. In Approximation, Randomization, and Combinatorial Optimization. Algorithms and Techniques (APPROX/RANDOM 2024). Leibniz International Proceedings in Informatics (LIPIcs), Volume 317, pp. 12:1-12:24, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@InProceedings{ezra_et_al:LIPIcs.APPROX/RANDOM.2024.12,
  author =	{Ezra, Tomer and Leonardi, Stefano and Paw{\l}owski, Micha{\l} and Russo, Matteo and Umboh, Seeun William},
  title =	{{Universal Optimization for Non-Clairvoyant Subadditive Joint Replenishment}},
  booktitle =	{Approximation, Randomization, and Combinatorial Optimization. Algorithms and Techniques (APPROX/RANDOM 2024)},
  pages =	{12:1--12:24},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-348-5},
  ISSN =	{1868-8969},
  year =	{2024},
  volume =	{317},
  editor =	{Kumar, Amit and Ron-Zewi, Noga},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.APPROX/RANDOM.2024.12},
  URN =		{urn:nbn:de:0030-drops-210050},
  doi =		{10.4230/LIPIcs.APPROX/RANDOM.2024.12},
  annote =	{Keywords: Set Cover, Joint Replenishment, TCP-Acknowledgment, Subadditive Function Approximation, Multi-Level Aggregation}
}
Document
DOI: 10.4230/LIPIcs.WABI.2024.14
A Unifying Taxonomy of Pattern Matching in Degenerate Strings and Founder Graphs

Authors: Rocco Ascone, Giulia Bernardini, Alessio Conte, Massimo Equi, Esteban Gabory, Roberto Grossi, and Nadia Pisanti

Published in: LIPIcs, Volume 312, 24th International Workshop on Algorithms in Bioinformatics (WABI 2024)

Abstract
Elastic Degenerate (ED) strings and Elastic Founder (EF) graphs are two versions of acyclic components of pangenomes. Both ED strings and EF graphs (which we collectively name variable strings) extend the well-known notion of indeterminate string. Recent work has extensively investigated algorithmic tasks over these structures, and over several other variable strings notions that they generalise. Among such tasks, the basic operation of matching a pattern into a text, which can serve as a toolkit for many pangenomic data analyses using these data structures, deserves special attention. In this paper we: (1) highlight a clear taxonomy within both ED strings and EF graphs ranging through variable strings of all types, from the linear string up to the most general one; (2) investigate the problem PvarT(X,Y) of matching a solid or variable pattern of type X into a variable text of type Y; (3) using as a reference the quadratic conditional lower bounds that are known for PvarT(solid,ED) and PvarT(solid,EF), for all possible types of variable strings X and Y we either prove the quadratic conditional lower bound for PvarT(X,Y), or provide non-trivial, often sub-quadratic, upper bounds, also exploiting the above-mentioned taxonomy.
Cite as

Rocco Ascone, Giulia Bernardini, Alessio Conte, Massimo Equi, Esteban Gabory, Roberto Grossi, and Nadia Pisanti. A Unifying Taxonomy of Pattern Matching in Degenerate Strings and Founder Graphs. In 24th International Workshop on Algorithms in Bioinformatics (WABI 2024). Leibniz International Proceedings in Informatics (LIPIcs), Volume 312, pp. 14:1-14:21, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@InProceedings{ascone_et_al:LIPIcs.WABI.2024.14,
  author =	{Ascone, Rocco and Bernardini, Giulia and Conte, Alessio and Equi, Massimo and Gabory, Esteban and Grossi, Roberto and Pisanti, Nadia},
  title =	{{A Unifying Taxonomy of Pattern Matching in Degenerate Strings and Founder Graphs}},
  booktitle =	{24th International Workshop on Algorithms in Bioinformatics (WABI 2024)},
  pages =	{14:1--14:21},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-340-9},
  ISSN =	{1868-8969},
  year =	{2024},
  volume =	{312},
  editor =	{Pissis, Solon P. and Sung, Wing-Kin},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2024.14},
  URN =		{urn:nbn:de:0030-drops-206586},
  doi =		{10.4230/LIPIcs.WABI.2024.14},
  annote =	{Keywords: Pangenomics, pattern matching, degenerate string, founder graph, fine-grained complexity}
}
Document
DOI: 10.4230/LIPIcs.WABI.2024.20
The Path-Label Reconciliation (PLR) Dissimilarity Measure for Gene Trees

Authors: Alitzel López Sánchez, José Antonio Ramírez-Rafael, Alejandro Flores-Lamas, Maribel Hernández-Rosales, and Manuel Lafond

Published in: LIPIcs, Volume 312, 24th International Workshop on Algorithms in Bioinformatics (WABI 2024)

Abstract
In this study, we investigate the problem of comparing gene trees reconciled with the same species tree using a novel semi-metric, called the Path-Label Reconciliation (PLR) dissimilarity measure. This approach not only quantifies differences in the topology of reconciled gene trees, but also considers discrepancies in predicted ancestral gene-species maps and speciation/duplication events, offering a refinement of existing metrics such as Robinson-Foulds (RF) and their labeled extensions LRF and ELRF. A tunable parameter α also allows users to adjust the balance between its species map and event labeling components. We show that PLR can be computed in linear time and that it is a semi-metric. We also discuss the diameters of reconciled gene tree measures, which are important in practice for normalization, and provide initial bounds on PLR, LRF, and ELRF. To validate PLR, we simulate reconciliations and perform comparisons with LRF and ELRF. The results show that PLR provides a more evenly distributed range of distances, making it less susceptible to overestimating differences in the presence of small topological changes, while at the same time being computationally efficient. Our findings suggest that the theoretical diameter is rarely reached in practice. The PLR measure advances phylogenetic reconciliation by combining theoretical rigor with practical applicability. Future research will refine its mathematical properties, explore its performance on different tree types, and integrate it with existing bioinformatics tools for large-scale evolutionary analyses. The open source code is available at: https://pypi.org/project/parle/.
Cite as

Alitzel López Sánchez, José Antonio Ramírez-Rafael, Alejandro Flores-Lamas, Maribel Hernández-Rosales, and Manuel Lafond. The Path-Label Reconciliation (PLR) Dissimilarity Measure for Gene Trees. In 24th International Workshop on Algorithms in Bioinformatics (WABI 2024). Leibniz International Proceedings in Informatics (LIPIcs), Volume 312, pp. 20:1-20:21, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@InProceedings{lopezsanchez_et_al:LIPIcs.WABI.2024.20,
  author =	{L\'{o}pez S\'{a}nchez, Alitzel and Ram{\'\i}rez-Rafael, Jos\'{e} Antonio and Flores-Lamas, Alejandro and Hern\'{a}ndez-Rosales, Maribel and Lafond, Manuel},
  title =	{{The Path-Label Reconciliation (PLR) Dissimilarity Measure for Gene Trees}},
  booktitle =	{24th International Workshop on Algorithms in Bioinformatics (WABI 2024)},
  pages =	{20:1--20:21},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-340-9},
  ISSN =	{1868-8969},
  year =	{2024},
  volume =	{312},
  editor =	{Pissis, Solon P. and Sung, Wing-Kin},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2024.20},
  URN =		{urn:nbn:de:0030-drops-206645},
  doi =		{10.4230/LIPIcs.WABI.2024.20},
  annote =	{Keywords: Reconciliation, gene trees, species trees, evolutionary scenarios}
}
Document
DOI: 10.4230/LIPIcs.MFCS.2024.85
Approximate Suffix-Prefix Dictionary Queries

Authors: Wiktor Zuba, Grigorios Loukides, Solon P. Pissis, and Sharma V. Thankachan

Published in: LIPIcs, Volume 306, 49th International Symposium on Mathematical Foundations of Computer Science (MFCS 2024)

Abstract
In the all-pairs suffix-prefix (APSP) problem [Gusfield et al., Inf. Process. Lett. 1992], we are given a dictionary R of r strings, S₁,…,S_r, of total length n, and we are asked to find the length SPL_{i,j} of the longest string that is both a suffix of S_i and a prefix of S_j, for all i,j ∈ [1..r]. APSP is a classic problem in string algorithms with applications in bioinformatics, especially in sequence assembly. Since r = |R| is typically very large in real-world applications, considering all r² pairs of strings explicitly is prohibitive. This is when the data structure variant of APSP makes sense; in the same spirit as distance oracles computing shortest paths between any two vertices given online. We show how to quickly locate k-approximate matches (under the Hamming or the edit distance) in R using a version of the k-errata tree [Cole et al., STOC 2004] that we introduce. Let SPL^k_{i,j} be the length of the longest suffix of S_i that is at distance at most k from a prefix of S_j. In particular, for any k = 𝒪(1), we show an 𝒪(nlog^k n)-sized data structure to support the following queries: - One-to-One^k(i,j): output SPL^k_{i,j} in 𝒪(log^k nlog log n) time. - Report^k(i,d): output all j ∈ [1..r], such that SPL^k_{i,j} ≥ d, in 𝒪(log^{k}n(log n/log log n+output)) time, where output denotes the size of the output. In fact, our algorithms work for any value of k not just for k = 𝒪(1), but the formulas bounding the complexities get much more complicated for larger values of k.
Cite as

Wiktor Zuba, Grigorios Loukides, Solon P. Pissis, and Sharma V. Thankachan. Approximate Suffix-Prefix Dictionary Queries. In 49th International Symposium on Mathematical Foundations of Computer Science (MFCS 2024). Leibniz International Proceedings in Informatics (LIPIcs), Volume 306, pp. 85:1-85:18, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@InProceedings{zuba_et_al:LIPIcs.MFCS.2024.85,
  author =	{Zuba, Wiktor and Loukides, Grigorios and Pissis, Solon P. and Thankachan, Sharma V.},
  title =	{{Approximate Suffix-Prefix Dictionary Queries}},
  booktitle =	{49th International Symposium on Mathematical Foundations of Computer Science (MFCS 2024)},
  pages =	{85:1--85:18},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-335-5},
  ISSN =	{1868-8969},
  year =	{2024},
  volume =	{306},
  editor =	{Kr\'{a}lovi\v{c}, Rastislav and Ku\v{c}era, Anton{\'\i}n},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.MFCS.2024.85},
  URN =		{urn:nbn:de:0030-drops-206416},
  doi =		{10.4230/LIPIcs.MFCS.2024.85},
  annote =	{Keywords: all-pairs suffix-prefix, suffix-prefix queries, suffix tree, k-errata tree}
}
Document
DOI: 10.4230/LIPIcs.SAT.2024.12
SAT Encoding of Partial Ordering Models for Graph Coloring Problems

Authors: Daniel Faber, Adalat Jabrayilov, and Petra Mutzel

Published in: LIPIcs, Volume 305, 27th International Conference on Theory and Applications of Satisfiability Testing (SAT 2024)

Abstract
In this paper, we revisit SAT encodings of the partial-ordering based ILP model for the graph coloring problem (GCP) and suggest a generalization for the bandwidth coloring problem (BCP). The GCP asks for the minimum number of colors that can be assigned to the vertices of a given graph such that each two adjacent vertices get different colors. The BCP is a generalization, where each edge has a weight that enforces a minimal "distance" between the assigned colors, and the goal is to minimize the "largest" color used. For the widely studied GCP, we experimentally compare the partial-ordering based SAT encoding to the state-of-the-art approaches on the DIMACS benchmark set. Our evaluation confirms that this SAT encoding is effective for sparse graphs and even outperforms the state-of-the-art on some DIMACS instances. For the BCP, our theoretical analysis shows that the partial-ordering based SAT and ILP formulations have an asymptotically smaller size than that of the classical assignment-based model. Our practical evaluation confirms not only a dominance compared to the assignment-based encodings but also to the state-of-the-art approaches on a set of benchmark instances. Up to our knowledge, we have solved several open instances of the BCP from the literature for the first time.
Cite as

Daniel Faber, Adalat Jabrayilov, and Petra Mutzel. SAT Encoding of Partial Ordering Models for Graph Coloring Problems. In 27th International Conference on Theory and Applications of Satisfiability Testing (SAT 2024). Leibniz International Proceedings in Informatics (LIPIcs), Volume 305, pp. 12:1-12:20, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@InProceedings{faber_et_al:LIPIcs.SAT.2024.12,
  author =	{Faber, Daniel and Jabrayilov, Adalat and Mutzel, Petra},
  title =	{{SAT Encoding of Partial Ordering Models for Graph Coloring Problems}},
  booktitle =	{27th International Conference on Theory and Applications of Satisfiability Testing (SAT 2024)},
  pages =	{12:1--12:20},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-334-8},
  ISSN =	{1868-8969},
  year =	{2024},
  volume =	{305},
  editor =	{Chakraborty, Supratik and Jiang, Jie-Hong Roland},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.SAT.2024.12},
  URN =		{urn:nbn:de:0030-drops-205340},
  doi =		{10.4230/LIPIcs.SAT.2024.12},
  annote =	{Keywords: Graph coloring, bandwidth coloring, SAT encodings, ILP formulations}
}
Document
DOI: 10.4230/LIPIcs.CCC.2024.7
Polynomial Pass Semi-Streaming Lower Bounds for K-Cores and Degeneracy

Authors: Sepehr Assadi, Prantar Ghosh, Bruno Loff, Parth Mittal, and Sagnik Mukhopadhyay

Published in: LIPIcs, Volume 300, 39th Computational Complexity Conference (CCC 2024)

Abstract
The following question arises naturally in the study of graph streaming algorithms: Is there any graph problem which is "not too hard", in that it can be solved efficiently with total communication (nearly) linear in the number n of vertices, and for which, nonetheless, any streaming algorithm with Õ(n) space (i.e., a semi-streaming algorithm) needs a polynomial n^Ω(1) number of passes? Assadi, Chen, and Khanna [STOC 2019] were the first to prove that this is indeed the case. However, the lower bounds that they obtained are for rather non-standard graph problems. Our first main contribution is to present the first polynomial-pass lower bounds for natural "not too hard" graph problems studied previously in the streaming model: k-cores and degeneracy. We devise a novel communication protocol for both problems with near-linear communication, thus showing that k-cores and degeneracy are natural examples of "not too hard" problems. Indeed, previous work have developed single-pass semi-streaming algorithms for approximating these problems. In contrast, we prove that any semi-streaming algorithm for exactly solving these problems requires (almost) Ω(n^{1/3}) passes. The lower bound follows by a reduction from a generalization of the hidden pointer chasing (HPC) problem of Assadi, Chen, and Khanna, which is also the basis of their earlier semi-streaming lower bounds. Our second main contribution is improved round-communication lower bounds for the underlying communication problems at the basis of these reductions: - We improve the previous lower bound of Assadi, Chen, and Khanna for HPC to achieve optimal bounds for this problem. - We further observe that all current reductions from HPC can also work with a generalized version of this problem that we call MultiHPC, and prove an even stronger and optimal lower bound for this generalization. These two results collectively allow us to improve the resulting pass lower bounds for semi-streaming algorithms by a polynomial factor, namely, from n^{1/5} to n^{1/3} passes.
Cite as

Sepehr Assadi, Prantar Ghosh, Bruno Loff, Parth Mittal, and Sagnik Mukhopadhyay. Polynomial Pass Semi-Streaming Lower Bounds for K-Cores and Degeneracy. In 39th Computational Complexity Conference (CCC 2024). Leibniz International Proceedings in Informatics (LIPIcs), Volume 300, pp. 7:1-7:16, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@InProceedings{assadi_et_al:LIPIcs.CCC.2024.7,
  author =	{Assadi, Sepehr and Ghosh, Prantar and Loff, Bruno and Mittal, Parth and Mukhopadhyay, Sagnik},
  title =	{{Polynomial Pass Semi-Streaming Lower Bounds for K-Cores and Degeneracy}},
  booktitle =	{39th Computational Complexity Conference (CCC 2024)},
  pages =	{7:1--7:16},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-331-7},
  ISSN =	{1868-8969},
  year =	{2024},
  volume =	{300},
  editor =	{Santhanam, Rahul},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.CCC.2024.7},
  URN =		{urn:nbn:de:0030-drops-204035},
  doi =		{10.4230/LIPIcs.CCC.2024.7},
  annote =	{Keywords: Graph streaming, Lower bounds, Communication complexity, k-Cores and degeneracy}
}
Document
DOI: 10.4230/LIPIcs.SEA.2024.12
Streaming Matching and Edge Cover in Practice

Authors: S M Ferdous, Alex Pothen, and Mahantesh Halappanavar

Published in: LIPIcs, Volume 301, 22nd International Symposium on Experimental Algorithms (SEA 2024)

Abstract
Graph algorithms with polynomial space and time requirements often become infeasible for massive graphs with billions of edges or more. State-of-the-art approaches therefore employ approximate serial, parallel, and distributed algorithms to tackle these challenges. However, such approaches require storing the entire graph in memory and thus need access to costly computing resources such as clusters and supercomputers. In this paper, we present practical streaming approaches for solving massive graph problems using limited memory for two prototypical graph problems: maximum weighted matching and minimum weighted edge cover. For matching, we conduct a thorough computational study on two of the semi-streaming algorithms including a recent breakthrough result that achieves a 1/(2+ε)-approximation of the weight while using O(n log W /ε) memory (here n is the number of vertices and W is the maximum edge weight), designed by Paz and Schwartzman [SODA, 2017]. Empirically, we show that the semi-streaming algorithms produce matchings whose weight is close to the best 1/2-approximate offline algorithm while requiring less time and an order-of-magnitude less memory. For minimum weighted edge cover, we develop three novel semi-streaming algorithms. Two of these algorithms require a single pass through the input graph, require O(n log n) memory, and provide a 2-approximation guarantee on the objective. We also leverage a relationship between approximate maximum weighted matching and approximate minimum weighted edge cover to develop a two-pass 3/2+ε-approximate algorithm with the memory requirement of Paz and Schwartzman’s semi-streaming matching algorithm. These streaming approaches are compared against the state-of-the-art 3/2-approximate offline algorithm. The semi-streaming matching and the novel edge cover algorithms proposed in this paper can process graphs with several billions of edges in under 30 minutes using 6 GB of memory, which is at least an order of magnitude improvement from the offline (non-streaming) algorithms. For the largest graph, the best alternative offline parallel approximation algorithm (GPA+ROMA) could not finish in three hours even while employing hundreds of processors and 1 TB of memory. We also demonstrate an application of semi-streaming algorithm by computing a matching using linearly bounded memory on intersection graphs derived from three machine learning datasets, while the existing offline algorithms could not complete on one of these datasets since its memory requirement exceeded 1TB.
Cite as

S M Ferdous, Alex Pothen, and Mahantesh Halappanavar. Streaming Matching and Edge Cover in Practice. In 22nd International Symposium on Experimental Algorithms (SEA 2024). Leibniz International Proceedings in Informatics (LIPIcs), Volume 301, pp. 12:1-12:22, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@InProceedings{ferdous_et_al:LIPIcs.SEA.2024.12,
  author =	{Ferdous, S M and Pothen, Alex and Halappanavar, Mahantesh},
  title =	{{Streaming Matching and Edge Cover in Practice}},
  booktitle =	{22nd International Symposium on Experimental Algorithms (SEA 2024)},
  pages =	{12:1--12:22},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-325-6},
  ISSN =	{1868-8969},
  year =	{2024},
  volume =	{301},
  editor =	{Liberti, Leo},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.SEA.2024.12},
  URN =		{urn:nbn:de:0030-drops-203773},
  doi =		{10.4230/LIPIcs.SEA.2024.12},
  annote =	{Keywords: Matching, Edge Cover, Semi-Streaming Algorithm, Parallel Algorithms, Algorithm Engineering}
}
Document
Track A: Algorithms, Complexity and Games
DOI: 10.4230/LIPIcs.ICALP.2024.39
Optimal Bounds for Distinct Quartics

Authors: Panagiotis Charalampopoulos, Paweł Gawrychowski, and Samah Ghazawi

Published in: LIPIcs, Volume 297, 51st International Colloquium on Automata, Languages, and Programming (ICALP 2024)

Abstract
A fundamental concept related to strings is that of repetitions. It has been extensively studied in many versions, from both purely combinatorial and algorithmic angles. One of the most basic questions is how many distinct squares, i.e., distinct strings of the form UU, a string of length n can contain as fragments. It turns out that this is always 𝒪(n), and the bound cannot be improved to sublinear in n [Fraenkel and Simpson, JCTA 1998]. Several similar questions about repetitions in strings have been considered, and by now we seem to have a good understanding of their repetitive structure. For higher-dimensional strings, the basic concept of periodicity has been successfully extended and applied to design efficient algorithms - it is inherently more complex than for regular strings. Extending the notion of repetitions and understanding the repetitive structure of higher-dimensional strings is however far from complete. Quartics were introduced by Apostolico and Brimkov [TCS 2000] as analogues of squares in two dimensions. Charalampopoulos, Radoszewski, Rytter, Waleń, and Zuba [ESA 2020] proved that the number of distinct quartics in an n×n 2D string is 𝒪(n²log²n) and that they can be computed in 𝒪(n²log²n) time. Gawrychowski, Ghazawi, and Landau [SPIRE 2021] constructed an infinite family of n×n 2D strings with Ω(n²log n) distinct quartics. This brings the challenge of determining asymptotically tight bounds. Here, we settle both the combinatorial and the algorithmic aspects of this question: the number of distinct quartics in an n×n 2D string is 𝒪(n²log n) and they can be computed in the worst-case optimal 𝒪(n²log n) time. As expected, our solution heavily exploits the periodic structure implied by occurrences of quartics. However, the two-dimensional nature of the problem introduces some technical challenges. Somewhat surprisingly, we overcome the final challenge for the combinatorial bound using a result of Marcus and Tardos [JCTA 2004] for permutation avoidance on matrices.
Cite as

Panagiotis Charalampopoulos, Paweł Gawrychowski, and Samah Ghazawi. Optimal Bounds for Distinct Quartics. In 51st International Colloquium on Automata, Languages, and Programming (ICALP 2024). Leibniz International Proceedings in Informatics (LIPIcs), Volume 297, pp. 39:1-39:17, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@InProceedings{charalampopoulos_et_al:LIPIcs.ICALP.2024.39,
  author =	{Charalampopoulos, Panagiotis and Gawrychowski, Pawe{\l} and Ghazawi, Samah},
  title =	{{Optimal Bounds for Distinct Quartics}},
  booktitle =	{51st International Colloquium on Automata, Languages, and Programming (ICALP 2024)},
  pages =	{39:1--39:17},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-322-5},
  ISSN =	{1868-8969},
  year =	{2024},
  volume =	{297},
  editor =	{Bringmann, Karl and Grohe, Martin and Puppis, Gabriele and Svensson, Ola},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ICALP.2024.39},
  URN =		{urn:nbn:de:0030-drops-201823},
  doi =		{10.4230/LIPIcs.ICALP.2024.39},
  annote =	{Keywords: 2D strings, quartics, repetitions, periodicity}
}
Document
Track A: Algorithms, Complexity and Games
DOI: 10.4230/LIPIcs.ICALP.2024.42
Path-Reporting Distance Oracles with Logarithmic Stretch and Linear Size

Authors: Shiri Chechik and Tianyi Zhang

Published in: LIPIcs, Volume 297, 51st International Colloquium on Automata, Languages, and Programming (ICALP 2024)

Abstract
Given an undirected graph G = (V, E, 𝐰) on n vertices with positive edge weights, a distance oracle is a space-efficient data structure that answers pairwise distance queries in fast runtime. The quality of a distance oracle is measured by three parameters: space, query time, and stretch. In a landmark paper by [Thorup and Zwick, 2001], they showed that for any integer parameter k ≥ 1, there exists a distance oracle with size O(kn^{1+1/k}), O(k) query time, and (2k-1)-stretch error on the approximate distances. After that, there has been a line of subsequent improvements which culminated in the optimal trade-off of O(n^{1+1/k}) space, O(1) query time, and (2k-1)-stretch [Chechik, 2015]. However, these line of constructions did not require that the distance oracle is capable of printing an actual path besides an approximate distance estimate, and there has been a performance gap between path-reporting distance oracles and ones that are not path-reporting. It is known that the earliest construction by [Thorup and Zwick, 2001] is path-reporting, but the parameters are worse by a factor of k. In a later construction by [Wulff-Nilsen, 2013], the query time was improved from O(k) to O(log k). Better trade-offs were discovered in [Elkin and Pettie, 2015] where the authors broke the O(kn^{1+1/k}) space barrier and achieved O(n^{1+1/k}log k) space with O(log k) query time, but their stretch was blown up to a polynomial O(k^{log_{4/3}7}); they also gave an alternative choice of O(n^{1+1/k}) space which is optimal, and O(k)-stretch which is also optimal up to a constant factor, but their query time rose exponentially to O(n^ε). In a recent work [Elkin and Shabat, 2023], the authors obtained significant improvements of O(n^{1+1/k}log k) space, O(k)-stretch, and O(log log k) query time, or O(n^{1+1/k}) space, O(klog k)-stretch, and O(log log k) query time. All the above constructions of path-reporting distance oracles share a common barrier; that is, they could not achieve optimal space O(n^{1+1/k}) and stretch O(k) simultaneously within logarithmic query time; for example, in the natural regime where k = ⌈log n⌉, previous distance oracles had to pay an extra factor of log log n either in the space or stretch. As our result, we bypass this barrier by a new construction of path-reporting distance oracles with O(n^{1+1/k}) space and O(k)-stretch and O(log log k) query time.
Cite as

Shiri Chechik and Tianyi Zhang. Path-Reporting Distance Oracles with Logarithmic Stretch and Linear Size. In 51st International Colloquium on Automata, Languages, and Programming (ICALP 2024). Leibniz International Proceedings in Informatics (LIPIcs), Volume 297, pp. 42:1-42:18, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@InProceedings{chechik_et_al:LIPIcs.ICALP.2024.42,
  author =	{Chechik, Shiri and Zhang, Tianyi},
  title =	{{Path-Reporting Distance Oracles with Logarithmic Stretch and Linear Size}},
  booktitle =	{51st International Colloquium on Automata, Languages, and Programming (ICALP 2024)},
  pages =	{42:1--42:18},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-322-5},
  ISSN =	{1868-8969},
  year =	{2024},
  volume =	{297},
  editor =	{Bringmann, Karl and Grohe, Martin and Puppis, Gabriele and Svensson, Ola},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ICALP.2024.42},
  URN =		{urn:nbn:de:0030-drops-201859},
  doi =		{10.4230/LIPIcs.ICALP.2024.42},
  annote =	{Keywords: graph algorithms, shortest paths, distance oracles}
}
Document
Track A: Algorithms, Complexity and Games
DOI: 10.4230/LIPIcs.ICALP.2024.17
Vital Edges for (s,t)-Mincut: Efficient Algorithms, Compact Structures, & Optimal Sensitivity Oracles

Authors: Surender Baswana and Koustav Bhanja

Published in: LIPIcs, Volume 297, 51st International Colloquium on Automata, Languages, and Programming (ICALP 2024)

Abstract
Let G be a directed weighted graph on n vertices and m edges with designated source and sink vertices s and t. An edge in G is vital if its removal reduces the capacity of (s,t)-mincut. Since the seminal work of Ford and Fulkerson [CJM 1956], a long line of work has been done on computing the most vital edge and all vital edges of G. However, even after 60 years, the existing results are for either undirected or unweighted graphs. We present the following result for directed weighted graphs that also solves an open problem by Ausiello, Franciosa, Lari, and Ribichini [NETWORKS 2019]. 1. Algorithmic Results: There is an algorithm that computes all vital edges as well as the most vital edge of G using {O}(n) maximum (s,t)-flow computations. Vital edges play a crucial role in the design of sensitivity oracle for (s,t)-mincut - a compact data structure for reporting (s,t)-mincut after insertion/failure of any edge. For directed graphs, the only existing sensitivity oracle is for unweighted graphs by Picard and Queyranne [MPS 1982]. We present the first and optimal sensitivity oracle for directed weighted graphs as follows. 2. Sensitivity Oracles: a) There is an optimal O(n²) space data structure that can report an (s,t)-mincut C in O(|C|) time after the failure/insertion of any edge. b) There is an O(n) space data structure that can report the capacity of (s,t)-mincut after failure or insertion of any edge e in O(1) time if the capacity of edge e is known. A mincut for a vital edge e is an (s,t)-cut of the least capacity in which edge e is outgoing. For unweighted graphs, in a classical work, Picard and Queyranne [MPS 1982] designed an O(m) space directed acyclic graph (DAG) that stores and characterizes all mincuts for all vital edges. Conversely, there is a set containing at most n-1 (s,t)-cuts such that at least one mincut for every vital edge belongs to the set. We generalize these results for directed weighted graphs as follows. 3. Structural & Combinatorial Results: a) There is a set M containing at most n-1 (s,t)-cuts such that at least one mincut for every vital edge belongs to the set. This bound is tight as well. We also show that set M can be computed using O(n) maximum (s,t)-flow computations. b) We design two compact structures for storing and characterizing all mincuts for all vital edges - (i) an O(m) space DAG for partial and (ii) an O(mn) space structure for complete characterization. To arrive at our results, we develop new techniques, especially a generalization of maxflow-mincut Theorem by Ford and Fulkerson [CJM 1956], which might be of independent interest.
Cite as

Surender Baswana and Koustav Bhanja. Vital Edges for (s,t)-Mincut: Efficient Algorithms, Compact Structures, & Optimal Sensitivity Oracles. In 51st International Colloquium on Automata, Languages, and Programming (ICALP 2024). Leibniz International Proceedings in Informatics (LIPIcs), Volume 297, pp. 17:1-17:20, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@InProceedings{baswana_et_al:LIPIcs.ICALP.2024.17,
  author =	{Baswana, Surender and Bhanja, Koustav},
  title =	{{Vital Edges for (s,t)-Mincut: Efficient Algorithms, Compact Structures, \& Optimal Sensitivity Oracles}},
  booktitle =	{51st International Colloquium on Automata, Languages, and Programming (ICALP 2024)},
  pages =	{17:1--17:20},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-322-5},
  ISSN =	{1868-8969},
  year =	{2024},
  volume =	{297},
  editor =	{Bringmann, Karl and Grohe, Martin and Puppis, Gabriele and Svensson, Ola},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ICALP.2024.17},
  URN =		{urn:nbn:de:0030-drops-201601},
  doi =		{10.4230/LIPIcs.ICALP.2024.17},
  annote =	{Keywords: maxflow, vital edges, graph algorithms, structures, st-cuts, sensitivity oracle}
}
Document
Track A: Algorithms, Complexity and Games
DOI: 10.4230/LIPIcs.ICALP.2024.29
A Tight Monte-Carlo Algorithm for Steiner Tree Parameterized by Clique-Width

Authors: Narek Bojikian and Stefan Kratsch

Published in: LIPIcs, Volume 297, 51st International Colloquium on Automata, Languages, and Programming (ICALP 2024)

Abstract
Given a graph G = (V,E), a set T ⊆ V, and an integer b, the Steiner Tree problem asks whether G has a connected subgraph H with at most b vertices that spans all of T. This work presents a 3^k⋅ n^𝒪(1) time one-sided Monte-Carlo algorithm for solving Steiner Tree when additionally a clique-expression of width k is provided. Known lower bounds for less expressive parameters imply that this dependence on the clique-width of G is optimal assuming the Strong Exponential-Time Hypothesis (SETH). Indeed our work establishes that the parameter dependence of Steiner Tree is the same for any graph parameter between cutwidth and clique-width, assuming SETH. Our work contributes to the program of determining the exact parameterized complexity of fundamental hard problems relative to structural graph parameters such as treewidth, which was initiated by Lokshtanov et al. [SODA 2011 & TALG 2018] and which by now has seen a plethora of results. Since the cut-and-count framework of Cygan et al. [FOCS 2011 & TALG 2022], connectivity problems have played a key role in this program as they pose many challenges for developing tight upper and lower bounds. Recently, Hegerfeld and Kratsch [ESA 2023] gave the first application of the cut-and-count technique to problems parameterized by clique-width and obtained tight bounds for Connected Dominating Set and Connected Vertex Cover, leaving open the complexity of other benchmark connectivity problems such as Steiner Tree and Feedback Vertex Set. Our algorithm for Steiner Tree does not follow the cut-and-count technique and instead works with the connectivity patterns of partial solutions. As a first technical contribution we identify a special family of so-called complete patterns that has strong (existential) representation properties, and using these at least one solution will be preserved. Furthermore, there is a family of 3^k basis patterns that (parity) represents the complete patterns, i.e., it has the same number of solutions modulo two. Our main technical contribution, a new technique called "isolating a representative," allows us to leverage both forms of representation (existential and parity). Both complete patterns and isolation of a representative will likely be applicable to other (connectivity) problems.
Cite as

Narek Bojikian and Stefan Kratsch. A Tight Monte-Carlo Algorithm for Steiner Tree Parameterized by Clique-Width. In 51st International Colloquium on Automata, Languages, and Programming (ICALP 2024). Leibniz International Proceedings in Informatics (LIPIcs), Volume 297, pp. 29:1-29:18, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@InProceedings{bojikian_et_al:LIPIcs.ICALP.2024.29,
  author =	{Bojikian, Narek and Kratsch, Stefan},
  title =	{{A Tight Monte-Carlo Algorithm for Steiner Tree Parameterized by Clique-Width}},
  booktitle =	{51st International Colloquium on Automata, Languages, and Programming (ICALP 2024)},
  pages =	{29:1--29:18},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-322-5},
  ISSN =	{1868-8969},
  year =	{2024},
  volume =	{297},
  editor =	{Bringmann, Karl and Grohe, Martin and Puppis, Gabriele and Svensson, Ola},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ICALP.2024.29},
  URN =		{urn:nbn:de:0030-drops-201728},
  doi =		{10.4230/LIPIcs.ICALP.2024.29},
  annote =	{Keywords: Parameterized complexity, Steiner tree, clique-width}
}
Document
Track A: Algorithms, Complexity and Games
DOI: 10.4230/LIPIcs.ICALP.2024.61
Parameterized Algorithms for Steiner Forest in Bounded Width Graphs

Authors: Andreas Emil Feldmann and Michael Lampis

Published in: LIPIcs, Volume 297, 51st International Colloquium on Automata, Languages, and Programming (ICALP 2024)

Abstract
In this paper we reassess the parameterized complexity and approximability of the well-studied Steiner Forest problem in several graph classes of bounded width. The problem takes an edge-weighted graph and pairs of vertices as input, and the aim is to find a minimum cost subgraph in which each given vertex pair lies in the same connected component. It is known that this problem is APX-hard in general, and NP-hard on graphs of treewidth 3, treedepth 4, and feedback vertex set size 2. However, Bateni, Hajiaghayi and Marx [JACM, 2011] gave an approximation scheme with a runtime of n^O(k²/ε) on graphs of treewidth k. Our main result is a much faster efficient parameterized approximation scheme (EPAS) with a runtime of 2^O(k²/ε log k/ε)⋅n^O(1). If k instead is the vertex cover number of the input graph, we show how to compute the optimum solution in 2^O(k log k)⋅n^O(1) time, and we also prove that this runtime dependence on k is asymptotically best possible, under ETH. Furthermore, if k is the size of a feedback edge set, then we obtain a faster 2^O(k)⋅n^O(1) time algorithm, which again cannot be improved under ETH.
Cite as

Andreas Emil Feldmann and Michael Lampis. Parameterized Algorithms for Steiner Forest in Bounded Width Graphs. In 51st International Colloquium on Automata, Languages, and Programming (ICALP 2024). Leibniz International Proceedings in Informatics (LIPIcs), Volume 297, pp. 61:1-61:20, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@InProceedings{feldmann_et_al:LIPIcs.ICALP.2024.61,
  author =	{Feldmann, Andreas Emil and Lampis, Michael},
  title =	{{Parameterized Algorithms for Steiner Forest in Bounded Width Graphs}},
  booktitle =	{51st International Colloquium on Automata, Languages, and Programming (ICALP 2024)},
  pages =	{61:1--61:20},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-322-5},
  ISSN =	{1868-8969},
  year =	{2024},
  volume =	{297},
  editor =	{Bringmann, Karl and Grohe, Martin and Puppis, Gabriele and Svensson, Ola},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ICALP.2024.61},
  URN =		{urn:nbn:de:0030-drops-202048},
  doi =		{10.4230/LIPIcs.ICALP.2024.61},
  annote =	{Keywords: Steiner Forest, Approximation Algorithms, FPT algorithms}
}
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