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Documents authored by Wang, Qi

Found 5 Possible Name Variants:

Wang, Qi

Document
DOI: 10.4230/LIPIcs.WABI.2019.19
Faster Pan-Genome Construction for Efficient Differentiation of Naturally Occurring and Engineered Plasmids with Plaster

Authors: Qi Wang, R. A. Leo Elworth, Tian Rui Liu, and Todd J. Treangen

Published in: LIPIcs, Volume 143, 19th International Workshop on Algorithms in Bioinformatics (WABI 2019)

Abstract
As sequence databases grow, characterizing diversity across extremely large collections of genomes requires the development of efficient methods that avoid costly all-vs-all comparisons [Marschall et al., 2018]. In addition to exponential increases in the amount of natural genomes being sequenced, improved techniques for the creation of human engineered sequences is ushering in a new wave of synthetic genome sequence databases that grow alongside naturally occurring genome databases. In this paper, we analyze the full diversity of available sequenced natural and synthetic plasmid genome sequences. This diversity can be represented by a data structure that captures all presently available nucleotide sequences, known as a pan-genome. In our case, we construct a single linear pan-genome nucleotide sequence that captures this diversity. To process such a large number of sequences, we introduce the plaster algorithmic pipeline. Using plaster we are able to construct the full synthetic plasmid pan-genome from 51,047 synthetic plasmid sequences as well as a natural pan-genome from 6,642 natural plasmid sequences. We demonstrate the efficacy of plaster by comparing its speed against another pan-genome construction method as well as demonstrating that nearly all plasmids align well to their corresponding pan-genome. Finally, we explore the use of pan-genome sequence alignment to distinguish between naturally occurring and synthetic plasmids. We believe this approach will lead to new techniques for rapid characterization of engineered plasmids. Applications for this work include detection of genome editing, tracking an unknown plasmid back to its lab of origin, and identifying naturally occurring sequences that may be of use to the synthetic biology community. The source code for fully reconstructing the natural and synthetic plasmid pan-genomes as well for plaster are publicly available and can be downloaded at https://gitlab.com/qiwangrice/plaster.git.
Cite as

Qi Wang, R. A. Leo Elworth, Tian Rui Liu, and Todd J. Treangen. Faster Pan-Genome Construction for Efficient Differentiation of Naturally Occurring and Engineered Plasmids with Plaster. In 19th International Workshop on Algorithms in Bioinformatics (WABI 2019). Leibniz International Proceedings in Informatics (LIPIcs), Volume 143, pp. 19:1-19:12, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2019)

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@InProceedings{wang_et_al:LIPIcs.WABI.2019.19,
  author =	{Wang, Qi and Elworth, R. A. Leo and Liu, Tian Rui and Treangen, Todd J.},
  title =	{{Faster Pan-Genome Construction for Efficient Differentiation of Naturally Occurring and Engineered Plasmids with Plaster}},
  booktitle =	{19th International Workshop on Algorithms in Bioinformatics (WABI 2019)},
  pages =	{19:1--19:12},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-123-8},
  ISSN =	{1868-8969},
  year =	{2019},
  volume =	{143},
  editor =	{Huber, Katharina T. and Gusfield, Dan},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2019.19},
  URN =		{urn:nbn:de:0030-drops-110492},
  doi =		{10.4230/LIPIcs.WABI.2019.19},
  annote =	{Keywords: comparative genomics, sequence alignment, pan-genome, engineered plasmids}
}

Wang, Qing

Document
DOI: 10.4230/LIPIcs.SWAT.2022.7
On the Visibility Graphs of Pseudo-Polygons: Recognition and Reconstruction

Authors: Safwa Ameer, Matt Gibson-Lopez, Erik Krohn, and Qing Wang

Published in: LIPIcs, Volume 227, 18th Scandinavian Symposium and Workshops on Algorithm Theory (SWAT 2022)

Abstract
We give polynomial-time algorithms that solve the pseudo-polygon visibility graph recognition and reconstruction problems. Our algorithms are based on a new characterization of the visibility graphs of pseudo-polygons.
Cite as

Safwa Ameer, Matt Gibson-Lopez, Erik Krohn, and Qing Wang. On the Visibility Graphs of Pseudo-Polygons: Recognition and Reconstruction. In 18th Scandinavian Symposium and Workshops on Algorithm Theory (SWAT 2022). Leibniz International Proceedings in Informatics (LIPIcs), Volume 227, pp. 7:1-7:13, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2022)

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@InProceedings{ameer_et_al:LIPIcs.SWAT.2022.7,
  author =	{Ameer, Safwa and Gibson-Lopez, Matt and Krohn, Erik and Wang, Qing},
  title =	{{On the Visibility Graphs of Pseudo-Polygons: Recognition and Reconstruction}},
  booktitle =	{18th Scandinavian Symposium and Workshops on Algorithm Theory (SWAT 2022)},
  pages =	{7:1--7:13},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-236-5},
  ISSN =	{1868-8969},
  year =	{2022},
  volume =	{227},
  editor =	{Czumaj, Artur and Xin, Qin},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.SWAT.2022.7},
  URN =		{urn:nbn:de:0030-drops-161673},
  doi =		{10.4230/LIPIcs.SWAT.2022.7},
  annote =	{Keywords: Pseudo-Polygons, Visibility Graph Recognition, Visibility Graph Reconstruction}
}
Document
DOI: 10.4230/LIPIcs.SoCG.2020.6
Terrain Visibility Graphs: Persistence Is Not Enough

Authors: Safwa Ameer, Matt Gibson-Lopez, Erik Krohn, Sean Soderman, and Qing Wang

Published in: LIPIcs, Volume 164, 36th International Symposium on Computational Geometry (SoCG 2020)

Abstract
In this paper, we consider the Visibility Graph Recognition and Reconstruction problems in the context of terrains. Here, we are given a graph G with labeled vertices v₀, v₁, …, v_{n-1} such that the labeling corresponds with a Hamiltonian path H. G also may contain other edges. We are interested in determining if there is a terrain T with vertices p₀, p₁, …, p_{n-1} such that G is the visibility graph of T and the boundary of T corresponds with H. G is said to be persistent if and only if it satisfies the so-called X-property and Bar-property. It is known that every "pseudo-terrain" has a persistent visibility graph and that every persistent graph is the visibility graph for some pseudo-terrain. The connection is not as clear for (geometric) terrains. It is known that the visibility graph of any terrain T is persistent, but it has been unclear whether every persistent graph G has a terrain T such that G is the visibility graph of T. There actually have been several papers that claim this to be the case (although no formal proof has ever been published), and recent works made steps towards building a terrain reconstruction algorithm for any persistent graph. In this paper, we show that there exists a persistent graph G that is not the visibility graph for any terrain T. This means persistence is not enough by itself to characterize the visibility graphs of terrains, and implies that pseudo-terrains are not stretchable.
Cite as

Safwa Ameer, Matt Gibson-Lopez, Erik Krohn, Sean Soderman, and Qing Wang. Terrain Visibility Graphs: Persistence Is Not Enough. In 36th International Symposium on Computational Geometry (SoCG 2020). Leibniz International Proceedings in Informatics (LIPIcs), Volume 164, pp. 6:1-6:13, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2020)

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@InProceedings{ameer_et_al:LIPIcs.SoCG.2020.6,
  author =	{Ameer, Safwa and Gibson-Lopez, Matt and Krohn, Erik and Soderman, Sean and Wang, Qing},
  title =	{{Terrain Visibility Graphs: Persistence Is Not Enough}},
  booktitle =	{36th International Symposium on Computational Geometry (SoCG 2020)},
  pages =	{6:1--6:13},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-143-6},
  ISSN =	{1868-8969},
  year =	{2020},
  volume =	{164},
  editor =	{Cabello, Sergio and Chen, Danny Z.},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.SoCG.2020.6},
  URN =		{urn:nbn:de:0030-drops-121640},
  doi =		{10.4230/LIPIcs.SoCG.2020.6},
  annote =	{Keywords: Terrains, Visibility Graph Characterization, Visibility Graph Recognition}
}
Document
DOI: 10.4230/DagSemProc.08181.3
Composing Personalised Services on top of Abstract State Services

Authors: Hui Ma, Klaus-Dieter Schewe, Bernhard Thalheim, and Qing Wang

Published in: Dagstuhl Seminar Proceedings, Volume 8181, The Evolution of Conceptual Modeling (2008)

Abstract
We introduce Abstract State Services (ASSs) as an abstraction of data-intensive services that can be made available for use by other systems, e.g. via the web. An ASS combines a hidden database layer with an operation-equipped view layer, and can be anything from a simple function to a full-fledged Web Information System or a Data Warehouse. We adopt the fundamental approach of Abstract State Machines to model ASSs. Then we show how tailored services can be extracted from available ASSs, integrated with other ASSs and personalised to user preferences.
Cite as

Hui Ma, Klaus-Dieter Schewe, Bernhard Thalheim, and Qing Wang. Composing Personalised Services on top of Abstract State Services. In The Evolution of Conceptual Modeling. Dagstuhl Seminar Proceedings, Volume 8181, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2008)

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@InProceedings{ma_et_al:DagSemProc.08181.3,
  author =	{Ma, Hui and Schewe, Klaus-Dieter and Thalheim, Bernhard and Wang, Qing},
  title =	{{Composing Personalised Services on top of Abstract State Services}},
  booktitle =	{The Evolution of Conceptual Modeling},
  series =	{Dagstuhl Seminar Proceedings (DagSemProc)},
  ISSN =	{1862-4405},
  year =	{2008},
  volume =	{8181},
  editor =	{Lois Delcambre and Roland H. Kaschek and Heinrich C. Mayr},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops-dev.dagstuhl.de/entities/document/10.4230/DagSemProc.08181.3},
  URN =		{urn:nbn:de:0030-drops-15975},
  doi =		{10.4230/DagSemProc.08181.3},
  annote =	{Keywords: Abstract State Machines, services, integration, composition}
}

Wang, Qiang

Document
DOI: 10.4230/LIPIcs.CONCUR.2016.30
Parameterized Systems in BIP: Design and Model Checking

Authors: Igor Konnov, Tomer Kotek, Qiang Wang, Helmut Veith, Simon Bliudze, and Joseph Sifakis

Published in: LIPIcs, Volume 59, 27th International Conference on Concurrency Theory (CONCUR 2016)

Abstract
BIP is a component-based framework for system design that has important industrial applications. BIP is built on three pillars: behavior, interaction, and priority. In this paper, we introduce first-order interaction logic (FOIL) that extends BIP to systems parameterized in the number of components. We show that FOIL captures classical parameterized architectures such as token-passing rings, cliques of identical components communicating with rendezvous or broadcast, and client-server systems. Although the BIP framework includes efficient verification tools for statically-defined systems, none are available for parameterized systems with an unbounded number of components. The parameterized model checking literature contains a wealth of techniques for systems of classical architectures. However, application of these results requires a deep understanding of parameterized model checking techniques and their underlying mathematical models. To overcome these difficulties, we introduce a framework that automatically identifies parameterized model checking techniques applicable to a BIP design. To our knowledge, it is the first framework that allows one to apply prominent parameterized model checking results in a systematic way.
Cite as

Igor Konnov, Tomer Kotek, Qiang Wang, Helmut Veith, Simon Bliudze, and Joseph Sifakis. Parameterized Systems in BIP: Design and Model Checking. In 27th International Conference on Concurrency Theory (CONCUR 2016). Leibniz International Proceedings in Informatics (LIPIcs), Volume 59, pp. 30:1-30:16, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2016)

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@InProceedings{konnov_et_al:LIPIcs.CONCUR.2016.30,
  author =	{Konnov, Igor and Kotek, Tomer and Wang, Qiang and Veith, Helmut and Bliudze, Simon and Joseph Sifakis},
  title =	{{Parameterized Systems in BIP: Design and Model Checking}},
  booktitle =	{27th International Conference on Concurrency Theory (CONCUR 2016)},
  pages =	{30:1--30:16},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-017-0},
  ISSN =	{1868-8969},
  year =	{2016},
  volume =	{59},
  editor =	{Desharnais, Jos\'{e}e and Jagadeesan, Radha},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.CONCUR.2016.30},
  URN =		{urn:nbn:de:0030-drops-61670},
  doi =		{10.4230/LIPIcs.CONCUR.2016.30},
  annote =	{Keywords: Rigorous system design, BIP, verification, parameterized model checking}
}
Document
DOI: 10.4230/LIPIcs.TQC.2013.192
Symmetries of Codeword Stabilized Quantum Codes

Authors: Salman Beigi, Jianxin Chen, Markus Grassl, Zhengfeng Ji, Qiang Wang, and Bei Zeng

Published in: LIPIcs, Volume 22, 8th Conference on the Theory of Quantum Computation, Communication and Cryptography (TQC 2013)

Abstract
Symmetry is at the heart of coding theory. Codes with symmetry, especially cyclic codes, play an essential role in both theory and practical applications of classical error-correcting codes. Here we examine symmetry properties for codeword stabilized (CWS) quantum codes, which is the most general framework for constructing quantum error-correcting codes known to date. A CWS code Q can be represented by a self-dual additive code S and a classical code C, i.e., Q=(S,C), however this representation is in general not unique. We show that for any CWS code Q with certain permutation symmetry, one can always find a self-dual additive code S with the same permutation symmetry as Q such that Q=(S,C). As many good CWS codes have been found by starting from a chosen S, this ensures that when trying to find CWS codes with certain permutation symmetry, the choice of S with the same symmetry will suffice. A key step for this result is a new canonical representation for CWS codes, which is given in terms of a unique decomposition as union stabilizer codes. For CWS codes, so far mainly the standard form (G,C) has been considered, where G is a graph state. We analyze the symmetry of the corresponding graph of G, which in general cannot possess the same permutation symmetry as Q. We show that it is indeed the case for the toric code on a square lattice with translational symmetry, even if its encoding graph can be chosen to be translational invariant.
Cite as

Salman Beigi, Jianxin Chen, Markus Grassl, Zhengfeng Ji, Qiang Wang, and Bei Zeng. Symmetries of Codeword Stabilized Quantum Codes. In 8th Conference on the Theory of Quantum Computation, Communication and Cryptography (TQC 2013). Leibniz International Proceedings in Informatics (LIPIcs), Volume 22, pp. 192-206, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2013)

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@InProceedings{beigi_et_al:LIPIcs.TQC.2013.192,
  author =	{Beigi, Salman and Chen, Jianxin and Grassl, Markus and Ji, Zhengfeng and Wang, Qiang and Zeng, Bei},
  title =	{{Symmetries of Codeword Stabilized Quantum Codes}},
  booktitle =	{8th Conference on the Theory of Quantum Computation, Communication and Cryptography (TQC 2013)},
  pages =	{192--206},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-939897-55-2},
  ISSN =	{1868-8969},
  year =	{2013},
  volume =	{22},
  editor =	{Severini, Simone and Brandao, Fernando},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.TQC.2013.192},
  URN =		{urn:nbn:de:0030-drops-43129},
  doi =		{10.4230/LIPIcs.TQC.2013.192},
  annote =	{Keywords: CWS Codes, Union Stabilizer Codes, Permutation Symmetry, Toric Code}
}

Wang, Qian

Document
DOI: 10.4230/LIPIcs.CSL.2013.653
Semantics of Intensional Type Theory extended with Decidable Equational Theories

Authors: Qian Wang and Bruno Barras

Published in: LIPIcs, Volume 23, Computer Science Logic 2013 (CSL 2013)

Abstract
Incorporating extensional equality into a dependent intensional type system such as the Calculus of Constructions (CC) provides with stronger type-checking capabilities and makes the proof development closer to intuition. Since strong forms of extensionality generally leads to undecidable type-checking, it seems a reasonable trade-off to extend intensional equality with a decidable first-order theory, as experimented in earlier work on CoqMTU and its implementation CoqMT. In this work, CoqMTU is extended with strong eliminations. The meta-theoretical study, particularly the part relying on semantic arguments, is more complex. A set-theoretical model of the equational theory is the key ingredient to derive the logical consistency of the formalism. Strong normalization, the main lemma from which type-decidability follows, is proved by attaching realizability information to the values of the model. The approach we have followed is to first consider an abstract notion of first-order equational theory, and then instantiate it with a particular instance, Presburger Arithmetic. These results have been formalized using Coq.
Cite as

Qian Wang and Bruno Barras. Semantics of Intensional Type Theory extended with Decidable Equational Theories. In Computer Science Logic 2013 (CSL 2013). Leibniz International Proceedings in Informatics (LIPIcs), Volume 23, pp. 653-667, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2013)

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@InProceedings{wang_et_al:LIPIcs.CSL.2013.653,
  author =	{Wang, Qian and Barras, Bruno},
  title =	{{Semantics of Intensional Type Theory extended with Decidable Equational Theories}},
  booktitle =	{Computer Science Logic 2013 (CSL 2013)},
  pages =	{653--667},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-939897-60-6},
  ISSN =	{1868-8969},
  year =	{2013},
  volume =	{23},
  editor =	{Ronchi Della Rocca, Simona},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.CSL.2013.653},
  URN =		{urn:nbn:de:0030-drops-42241},
  doi =		{10.4230/LIPIcs.CSL.2013.653},
  annote =	{Keywords: Calculus of Constructions, Extensional Type Theory, Intensional Type Theory, Model, Meta-theory, Consistency, Strong Normalization, Presburger Arithme}
}

Wang, Yiqiu

Document
DOI: 10.4230/LIPIcs.ESA.2022.88
ParGeo: A Library for Parallel Computational Geometry

Authors: Yiqiu Wang, Rahul Yesantharao, Shangdi Yu, Laxman Dhulipala, Yan Gu, and Julian Shun

Published in: LIPIcs, Volume 244, 30th Annual European Symposium on Algorithms (ESA 2022)

Abstract
This paper presents ParGeo, a multicore library for computational geometry. ParGeo contains modules for fundamental tasks including kd-tree based spatial search, spatial graph generation, and algorithms in computational geometry. We focus on three new algorithmic contributions provided in the library. First, we present a new parallel convex hull algorithm based on a reservation technique to enable parallel modifications to the hull. We also provide the first parallel implementations of the randomized incremental convex hull algorithm as well as a divide-and-conquer convex hull algorithm in ℝ³. Second, for the smallest enclosing ball problem, we propose a new sampling-based algorithm to quickly reduce the size of the data set. We also provide the first parallel implementation of Welzl’s classic algorithm for smallest enclosing ball. Third, we present the BDL-tree, a parallel batch-dynamic kd-tree that allows for efficient parallel updates and k-NN queries over dynamically changing point sets. BDL-trees consist of a log-structured set of kd-trees which can be used to efficiently insert, delete, and query batches of points in parallel. On 36 cores with two-way hyper-threading, our fastest convex hull algorithm achieves up to 44.7x self-relative parallel speedup and up to 559x speedup against the best existing sequential implementation. Our smallest enclosing ball algorithm using our sampling-based algorithm achieves up to 27.1x self-relative parallel speedup and up to 178x speedup against the best existing sequential implementation. Our implementation of the BDL-tree achieves self-relative parallel speedup of up to 46.1x. Across all of the algorithms in ParGeo, we achieve self-relative parallel speedup of 8.1-46.61x.
Cite as

Yiqiu Wang, Rahul Yesantharao, Shangdi Yu, Laxman Dhulipala, Yan Gu, and Julian Shun. ParGeo: A Library for Parallel Computational Geometry. In 30th Annual European Symposium on Algorithms (ESA 2022). Leibniz International Proceedings in Informatics (LIPIcs), Volume 244, pp. 88:1-88:19, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2022)

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@InProceedings{wang_et_al:LIPIcs.ESA.2022.88,
  author =	{Wang, Yiqiu and Yesantharao, Rahul and Yu, Shangdi and Dhulipala, Laxman and Gu, Yan and Shun, Julian},
  title =	{{ParGeo: A Library for Parallel Computational Geometry}},
  booktitle =	{30th Annual European Symposium on Algorithms (ESA 2022)},
  pages =	{88:1--88:19},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-247-1},
  ISSN =	{1868-8969},
  year =	{2022},
  volume =	{244},
  editor =	{Chechik, Shiri and Navarro, Gonzalo and Rotenberg, Eva and Herman, Grzegorz},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.ESA.2022.88},
  URN =		{urn:nbn:de:0030-drops-170265},
  doi =		{10.4230/LIPIcs.ESA.2022.88},
  annote =	{Keywords: Computational Geometry, Parallel Algorithms, Libraries}
}
Document
DOI: 10.4230/LIPIcs.SoCG.2021.60
A Parallel Batch-Dynamic Data Structure for the Closest Pair Problem

Authors: Yiqiu Wang, Shangdi Yu, Yan Gu, and Julian Shun

Published in: LIPIcs, Volume 189, 37th International Symposium on Computational Geometry (SoCG 2021)

Abstract
We propose a theoretically-efficient and practical parallel batch-dynamic data structure for the closest pair problem. Our solution is based on a serial dynamic closest pair data structure by Golin et al., and supports batches of insertions and deletions in parallel. For a data set of size n, our data structure supports a batch of insertions or deletions of size m in O(m(1+log ((n+m)/m))) expected work and O(log (n+m)log^*(n+m)) depth with high probability, and takes linear space. The key techniques for achieving these bounds are a new work-efficient parallel batch-dynamic binary heap, and careful management of the computation across sets of points to minimize work and depth. We provide an optimized multicore implementation of our data structure using dynamic hash tables, parallel heaps, and dynamic k-d trees. Our experiments on a variety of synthetic and real-world data sets show that it achieves a parallel speedup of up to 38.57x (15.10x on average) on 48 cores with hyper-threading. In addition, we also implement and compare four parallel algorithms for static closest pair problem, for which we are not aware of any existing practical implementations. On 48 cores with hyper-threading, the static algorithms achieve up to 51.45x (29.42x on average) speedup, and Rabin’s algorithm performs the best on average. Comparing our dynamic algorithm to the fastest static algorithm, we find that it is advantageous to use the dynamic algorithm for batch sizes of up to 20% of the data set. As far as we know, our work is the first to experimentally evaluate parallel closest pair algorithms, in both the static and the dynamic settings.
Cite as

Yiqiu Wang, Shangdi Yu, Yan Gu, and Julian Shun. A Parallel Batch-Dynamic Data Structure for the Closest Pair Problem. In 37th International Symposium on Computational Geometry (SoCG 2021). Leibniz International Proceedings in Informatics (LIPIcs), Volume 189, pp. 60:1-60:16, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2021)

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@InProceedings{wang_et_al:LIPIcs.SoCG.2021.60,
  author =	{Wang, Yiqiu and Yu, Shangdi and Gu, Yan and Shun, Julian},
  title =	{{A Parallel Batch-Dynamic Data Structure for the Closest Pair Problem}},
  booktitle =	{37th International Symposium on Computational Geometry (SoCG 2021)},
  pages =	{60:1--60:16},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-184-9},
  ISSN =	{1868-8969},
  year =	{2021},
  volume =	{189},
  editor =	{Buchin, Kevin and Colin de Verdi\`{e}re, \'{E}ric},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.SoCG.2021.60},
  URN =		{urn:nbn:de:0030-drops-138594},
  doi =		{10.4230/LIPIcs.SoCG.2021.60},
  annote =	{Keywords: Closest Pair, Parallel Algorithms, Dynamic Algorithms, Experimental Algorithms}
}
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