17 Search Results for "Ren, Michael"


Document
Position
Grounding Stream Reasoning Research

Authors: Pieter Bonte, Jean-Paul Calbimonte, Daniel de Leng, Daniele Dell'Aglio, Emanuele Della Valle, Thomas Eiter, Federico Giannini, Fredrik Heintz, Konstantin Schekotihin, Danh Le-Phuoc, Alessandra Mileo, Patrik Schneider, Riccardo Tommasini, Jacopo Urbani, and Giacomo Ziffer

Published in: TGDK, Volume 2, Issue 1 (2024): Special Issue on Trends in Graph Data and Knowledge - Part 2. Transactions on Graph Data and Knowledge, Volume 2, Issue 1


Abstract
In the last decade, there has been a growing interest in applying AI technologies to implement complex data analytics over data streams. To this end, researchers in various fields have been organising a yearly event called the "Stream Reasoning Workshop" to share perspectives, challenges, and experiences around this topic. In this paper, the previous organisers of the workshops and other community members provide a summary of the main research results that have been discussed during the first six editions of the event. These results can be categorised into four main research areas: The first is concerned with the technological challenges related to handling large data streams. The second area aims at adapting and extending existing semantic technologies to data streams. The third and fourth areas focus on how to implement reasoning techniques, either considering deductive or inductive techniques, to extract new and valuable knowledge from the data in the stream. This summary is written not only to provide a crystallisation of the field, but also to point out distinctive traits of the stream reasoning community. Moreover, it also provides a foundation for future research by enumerating a list of use cases and open challenges, to stimulate others to join this exciting research area.

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Pieter Bonte, Jean-Paul Calbimonte, Daniel de Leng, Daniele Dell'Aglio, Emanuele Della Valle, Thomas Eiter, Federico Giannini, Fredrik Heintz, Konstantin Schekotihin, Danh Le-Phuoc, Alessandra Mileo, Patrik Schneider, Riccardo Tommasini, Jacopo Urbani, and Giacomo Ziffer. Grounding Stream Reasoning Research. In Special Issue on Trends in Graph Data and Knowledge - Part 2. Transactions on Graph Data and Knowledge (TGDK), Volume 2, Issue 1, pp. 2:1-2:47, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)


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@Article{bonte_et_al:TGDK.2.1.2,
  author =	{Bonte, Pieter and Calbimonte, Jean-Paul and de Leng, Daniel and Dell'Aglio, Daniele and Della Valle, Emanuele and Eiter, Thomas and Giannini, Federico and Heintz, Fredrik and Schekotihin, Konstantin and Le-Phuoc, Danh and Mileo, Alessandra and Schneider, Patrik and Tommasini, Riccardo and Urbani, Jacopo and Ziffer, Giacomo},
  title =	{{Grounding Stream Reasoning Research}},
  journal =	{Transactions on Graph Data and Knowledge},
  pages =	{2:1--2:47},
  ISSN =	{2942-7517},
  year =	{2024},
  volume =	{2},
  number =	{1},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/TGDK.2.1.2},
  URN =		{urn:nbn:de:0030-drops-198597},
  doi =		{10.4230/TGDK.2.1.2},
  annote =	{Keywords: Stream Reasoning, Stream Processing, RDF streams, Streaming Linked Data, Continuous query processing, Temporal Logics, High-performance computing, Databases}
}
Document
Recent Trends in Graph Decomposition (Dagstuhl Seminar 23331)

Authors: George Karypis, Christian Schulz, Darren Strash, Deepak Ajwani, Rob H. Bisseling, Katrin Casel, Ümit V. Çatalyürek, Cédric Chevalier, Florian Chudigiewitsch, Marcelo Fonseca Faraj, Michael Fellows, Lars Gottesbüren, Tobias Heuer, Kamer Kaya, Jakub Lacki, Johannes Langguth, Xiaoye Sherry Li, Ruben Mayer, Johannes Meintrup, Yosuke Mizutani, François Pellegrini, Fabrizio Petrini, Frances Rosamond, Ilya Safro, Sebastian Schlag, Roohani Sharma, Blair D. Sullivan, Bora Uçar, and Albert-Jan Yzelman

Published in: Dagstuhl Reports, Volume 13, Issue 8 (2024)


Abstract
This report documents the program and the outcomes of Dagstuhl Seminar 23331 "Recent Trends in Graph Decomposition", which took place from 13. August to 18. August, 2023. The seminar brought together 33 experts from academia and industry to discuss graph decomposition, a pivotal technique for handling massive graphs in applications such as social networks and scientific simulations. The seminar addressed the challenges posed by contemporary hardware designs, the potential of deep neural networks and reinforcement learning in developing heuristics, the unique optimization requirements of large sparse data, and the need for scalable algorithms suitable for emerging architectures. Through presentations, discussions, and collaborative sessions, the event fostered an exchange of innovative ideas, leading to the creation of community notes highlighting key open problems in the field.

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George Karypis, Christian Schulz, Darren Strash, Deepak Ajwani, Rob H. Bisseling, Katrin Casel, Ümit V. Çatalyürek, Cédric Chevalier, Florian Chudigiewitsch, Marcelo Fonseca Faraj, Michael Fellows, Lars Gottesbüren, Tobias Heuer, Kamer Kaya, Jakub Lacki, Johannes Langguth, Xiaoye Sherry Li, Ruben Mayer, Johannes Meintrup, Yosuke Mizutani, François Pellegrini, Fabrizio Petrini, Frances Rosamond, Ilya Safro, Sebastian Schlag, Roohani Sharma, Blair D. Sullivan, Bora Uçar, and Albert-Jan Yzelman. Recent Trends in Graph Decomposition (Dagstuhl Seminar 23331). In Dagstuhl Reports, Volume 13, Issue 8, pp. 1-45, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)


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@Article{karypis_et_al:DagRep.13.8.1,
  author =	{Karypis, George and Schulz, Christian and Strash, Darren and Ajwani, Deepak and Bisseling, Rob H. and Casel, Katrin and \c{C}ataly\"{u}rek, \"{U}mit V. and Chevalier, C\'{e}dric and Chudigiewitsch, Florian and Faraj, Marcelo Fonseca and Fellows, Michael and Gottesb\"{u}ren, Lars and Heuer, Tobias and Kaya, Kamer and Lacki, Jakub and Langguth, Johannes and Li, Xiaoye Sherry and Mayer, Ruben and Meintrup, Johannes and Mizutani, Yosuke and Pellegrini, Fran\c{c}ois and Petrini, Fabrizio and Rosamond, Frances and Safro, Ilya and Schlag, Sebastian and Sharma, Roohani and Sullivan, Blair D. and U\c{c}ar, Bora and Yzelman, Albert-Jan},
  title =	{{Recent Trends in Graph Decomposition (Dagstuhl Seminar 23331)}},
  pages =	{1--45},
  journal =	{Dagstuhl Reports},
  ISSN =	{2192-5283},
  year =	{2024},
  volume =	{13},
  number =	{8},
  editor =	{Karypis, George and Schulz, Christian and Strash, Darren},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/DagRep.13.8.1},
  URN =		{urn:nbn:de:0030-drops-198114},
  doi =		{10.4230/DagRep.13.8.1},
  annote =	{Keywords: combinatorial optimization, experimental algorithmics, parallel algorithms}
}
Document
Invited Talk
Interactive and Automated Proofs in Modal Separation Logic (Invited Talk)

Authors: Robbert Krebbers

Published in: LIPIcs, Volume 268, 14th International Conference on Interactive Theorem Proving (ITP 2023)


Abstract
In program verification, it is common to embed a high-level object logic into the meta logic of a proof assistant to hide low-level aspects of the verification. To verify imperative and concurrent programs, separation logic hides explicit reasoning about heaps and pointer disjointness. To verify programs with cyclic features such as modules or higher-order state, modal logic provides modalities to hide explicit reasoning about step-indices that are used to stratify recursion. The meta logic of proof assistants such as Coq is well suited to embed high-level object logics and prove their soundness. However, proof assistants such as Coq do not have native infrastructure to facilitate proofs in embedded logics - their proof contexts and built-in tactics for interactive and automated proofs are tailored to the connectives of the meta logic, and do not extend to those of the object logic. This results in proofs that are at a too low level of abstraction because they are cluttered with bookkeeping code related to manipulating the object logic. In this talk I will describe our work in the Iris project to address this problem - first for interactive proofs, and then for semi-automated proofs. The Iris Proof Mode provides high-level tactics for interactive proofs in higher-order concurrent separation logic with modalities. Recent work on RefinedC and Diaframe have built on top of the Iris Proof Mode to obtain proof automation for low-level C programs and fine-grained concurrent programs.

Cite as

Robbert Krebbers. Interactive and Automated Proofs in Modal Separation Logic (Invited Talk). In 14th International Conference on Interactive Theorem Proving (ITP 2023). Leibniz International Proceedings in Informatics (LIPIcs), Volume 268, p. 2:1, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2023)


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@InProceedings{krebbers:LIPIcs.ITP.2023.2,
  author =	{Krebbers, Robbert},
  title =	{{Interactive and Automated Proofs in Modal Separation Logic}},
  booktitle =	{14th International Conference on Interactive Theorem Proving (ITP 2023)},
  pages =	{2:1--2:1},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-284-6},
  ISSN =	{1868-8969},
  year =	{2023},
  volume =	{268},
  editor =	{Naumowicz, Adam and Thiemann, Ren\'{e}},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ITP.2023.2},
  URN =		{urn:nbn:de:0030-drops-183770},
  doi =		{10.4230/LIPIcs.ITP.2023.2},
  annote =	{Keywords: Program Verification, Separation Logic, Step-Indexing, Modal Logic, Interactive Theorem Proving, Proof Automation, Iris, Coq}
}
Document
An Elementary Formal Proof of the Group Law on Weierstrass Elliptic Curves in Any Characteristic

Authors: David Kurniadi Angdinata and Junyan Xu

Published in: LIPIcs, Volume 268, 14th International Conference on Interactive Theorem Proving (ITP 2023)


Abstract
Elliptic curves are fundamental objects in number theory and algebraic geometry, whose points over a field form an abelian group under a geometric addition law. Any elliptic curve over a field admits a Weierstrass model, but prior formal proofs that the addition law is associative in this model involve either advanced algebraic geometry or tedious computation, especially in characteristic two. We formalise in the Lean theorem prover, the type of nonsingular points of a Weierstrass curve over a field of any characteristic and a purely algebraic proof that it forms an abelian group.

Cite as

David Kurniadi Angdinata and Junyan Xu. An Elementary Formal Proof of the Group Law on Weierstrass Elliptic Curves in Any Characteristic. In 14th International Conference on Interactive Theorem Proving (ITP 2023). Leibniz International Proceedings in Informatics (LIPIcs), Volume 268, pp. 6:1-6:19, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2023)


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@InProceedings{angdinata_et_al:LIPIcs.ITP.2023.6,
  author =	{Angdinata, David Kurniadi and Xu, Junyan},
  title =	{{An Elementary Formal Proof of the Group Law on Weierstrass Elliptic Curves in Any Characteristic}},
  booktitle =	{14th International Conference on Interactive Theorem Proving (ITP 2023)},
  pages =	{6:1--6:19},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-284-6},
  ISSN =	{1868-8969},
  year =	{2023},
  volume =	{268},
  editor =	{Naumowicz, Adam and Thiemann, Ren\'{e}},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ITP.2023.6},
  URN =		{urn:nbn:de:0030-drops-183817},
  doi =		{10.4230/LIPIcs.ITP.2023.6},
  annote =	{Keywords: formal math, algebraic geometry, elliptic curve, group law, Lean, mathlib}
}
Document
Dependently Sorted Theorem Proving for Mathematical Foundations

Authors: Yiming Xu and Michael Norrish

Published in: LIPIcs, Volume 268, 14th International Conference on Interactive Theorem Proving (ITP 2023)


Abstract
We describe a new meta-logical system for mechanising foundations of mathematics. Using dependent sorts and first order logic, our system (implemented as an LCF-style theorem-prover) improves on the state-of-the-art by providing efficient type-checking, convenient automatic rewriting and interactive proof support. We assess our implementation by axiomatising Lawvere’s Elementary Theory of the Category of Sets (ETCS) [F. William Lawvere, 1964], and Shulman’s Sets, Elements and Relations (SEAR) [Michael Shulman, 2022]. We then demonstrate our system’s ability to perform some basic mathematical constructions such as quotienting, induction and coinduction by constructing integers, lists and colists. We also compare with some existing work on modal model theory done in HOL4 [Yiming Xu and Michael Norrish, 2020]. Using the analogue of type-quantification, we are able to prove a theorem that this earlier work could not. Finally, we show that SEAR can construct sets that are larger than any finite iteration of the power set operation. This shows that SEAR, unlike HOL, can construct sets beyond V_{ω+ω}.

Cite as

Yiming Xu and Michael Norrish. Dependently Sorted Theorem Proving for Mathematical Foundations. In 14th International Conference on Interactive Theorem Proving (ITP 2023). Leibniz International Proceedings in Informatics (LIPIcs), Volume 268, pp. 33:1-33:18, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2023)


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@InProceedings{xu_et_al:LIPIcs.ITP.2023.33,
  author =	{Xu, Yiming and Norrish, Michael},
  title =	{{Dependently Sorted Theorem Proving for Mathematical Foundations}},
  booktitle =	{14th International Conference on Interactive Theorem Proving (ITP 2023)},
  pages =	{33:1--33:18},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-284-6},
  ISSN =	{1868-8969},
  year =	{2023},
  volume =	{268},
  editor =	{Naumowicz, Adam and Thiemann, Ren\'{e}},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ITP.2023.33},
  URN =		{urn:nbn:de:0030-drops-184085},
  doi =		{10.4230/LIPIcs.ITP.2023.33},
  annote =	{Keywords: first order logic, sorts, structural set theory, mechanised mathematics, foundation of mathematics, category theory}
}
Document
A Branch-And-Bound Algorithm for Cluster Editing

Authors: Thomas Bläsius, Philipp Fischbeck, Lars Gottesbüren, Michael Hamann, Tobias Heuer, Jonas Spinner, Christopher Weyand, and Marcus Wilhelm

Published in: LIPIcs, Volume 233, 20th International Symposium on Experimental Algorithms (SEA 2022)


Abstract
The cluster editing problem asks to transform a given graph into a disjoint union of cliques by inserting and deleting as few edges as possible. We describe and evaluate an exact branch-and-bound algorithm for cluster editing. For this, we introduce new reduction rules and adapt existing ones. Moreover, we generalize a known packing technique to obtain lower bounds and experimentally show that it contributes significantly to the performance of the solver. Our experiments further evaluate the effectiveness of the different reduction rules and examine the effects of structural properties of the input graph on solver performance. Our solver won the exact track of the 2021 PACE challenge.

Cite as

Thomas Bläsius, Philipp Fischbeck, Lars Gottesbüren, Michael Hamann, Tobias Heuer, Jonas Spinner, Christopher Weyand, and Marcus Wilhelm. A Branch-And-Bound Algorithm for Cluster Editing. In 20th International Symposium on Experimental Algorithms (SEA 2022). Leibniz International Proceedings in Informatics (LIPIcs), Volume 233, pp. 13:1-13:19, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2022)


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@InProceedings{blasius_et_al:LIPIcs.SEA.2022.13,
  author =	{Bl\"{a}sius, Thomas and Fischbeck, Philipp and Gottesb\"{u}ren, Lars and Hamann, Michael and Heuer, Tobias and Spinner, Jonas and Weyand, Christopher and Wilhelm, Marcus},
  title =	{{A Branch-And-Bound Algorithm for Cluster Editing}},
  booktitle =	{20th International Symposium on Experimental Algorithms (SEA 2022)},
  pages =	{13:1--13:19},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-251-8},
  ISSN =	{1868-8969},
  year =	{2022},
  volume =	{233},
  editor =	{Schulz, Christian and U\c{c}ar, Bora},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.SEA.2022.13},
  URN =		{urn:nbn:de:0030-drops-165473},
  doi =		{10.4230/LIPIcs.SEA.2022.13},
  annote =	{Keywords: cluster editing}
}
Document
PACE Solver Description
PACE Solver Description: The KaPoCE Exact Cluster Editing Algorithm

Authors: Thomas Bläsius, Philipp Fischbeck, Lars Gottesbüren, Michael Hamann, Tobias Heuer, Jonas Spinner, Christopher Weyand, and Marcus Wilhelm

Published in: LIPIcs, Volume 214, 16th International Symposium on Parameterized and Exact Computation (IPEC 2021)


Abstract
The cluster editing problem is to transform an input graph into a cluster graph by performing a minimum number of edge editing operations. A cluster graph is a graph where each connected component is a clique. An edit operation can be either adding a new edge or removing an existing edge. In this write-up we outline the core techniques used in the exact cluster editing algorithm of the KaPoCE framework (contains also a heuristic solver), submitted to the exact track of the 2021 PACE challenge.

Cite as

Thomas Bläsius, Philipp Fischbeck, Lars Gottesbüren, Michael Hamann, Tobias Heuer, Jonas Spinner, Christopher Weyand, and Marcus Wilhelm. PACE Solver Description: The KaPoCE Exact Cluster Editing Algorithm. In 16th International Symposium on Parameterized and Exact Computation (IPEC 2021). Leibniz International Proceedings in Informatics (LIPIcs), Volume 214, pp. 27:1-27:3, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2021)


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@InProceedings{blasius_et_al:LIPIcs.IPEC.2021.27,
  author =	{Bl\"{a}sius, Thomas and Fischbeck, Philipp and Gottesb\"{u}ren, Lars and Hamann, Michael and Heuer, Tobias and Spinner, Jonas and Weyand, Christopher and Wilhelm, Marcus},
  title =	{{PACE Solver Description: The KaPoCE Exact Cluster Editing Algorithm}},
  booktitle =	{16th International Symposium on Parameterized and Exact Computation (IPEC 2021)},
  pages =	{27:1--27:3},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-216-7},
  ISSN =	{1868-8969},
  year =	{2021},
  volume =	{214},
  editor =	{Golovach, Petr A. and Zehavi, Meirav},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.IPEC.2021.27},
  URN =		{urn:nbn:de:0030-drops-154109},
  doi =		{10.4230/LIPIcs.IPEC.2021.27},
  annote =	{Keywords: cluster editing}
}
Document
PACE Solver Description
PACE Solver Description: KaPoCE: A Heuristic Cluster Editing Algorithm

Authors: Thomas Bläsius, Philipp Fischbeck, Lars Gottesbüren, Michael Hamann, Tobias Heuer, Jonas Spinner, Christopher Weyand, and Marcus Wilhelm

Published in: LIPIcs, Volume 214, 16th International Symposium on Parameterized and Exact Computation (IPEC 2021)


Abstract
The cluster editing problem is to transform an input graph into a cluster graph by performing a minimum number of edge editing operations. A cluster graph is a graph where each connected component is a clique. An edit operation can be either adding a new edge or removing an existing edge. In this write-up we outline the core techniques used in the heuristic cluster editing algorithm of the Karlsruhe and Potsdam Cluster Editing (KaPoCE) framework, submitted to the heuristic track of the 2021 PACE challenge.

Cite as

Thomas Bläsius, Philipp Fischbeck, Lars Gottesbüren, Michael Hamann, Tobias Heuer, Jonas Spinner, Christopher Weyand, and Marcus Wilhelm. PACE Solver Description: KaPoCE: A Heuristic Cluster Editing Algorithm. In 16th International Symposium on Parameterized and Exact Computation (IPEC 2021). Leibniz International Proceedings in Informatics (LIPIcs), Volume 214, pp. 31:1-31:4, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2021)


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@InProceedings{blasius_et_al:LIPIcs.IPEC.2021.31,
  author =	{Bl\"{a}sius, Thomas and Fischbeck, Philipp and Gottesb\"{u}ren, Lars and Hamann, Michael and Heuer, Tobias and Spinner, Jonas and Weyand, Christopher and Wilhelm, Marcus},
  title =	{{PACE Solver Description: KaPoCE: A Heuristic Cluster Editing Algorithm}},
  booktitle =	{16th International Symposium on Parameterized and Exact Computation (IPEC 2021)},
  pages =	{31:1--31:4},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-216-7},
  ISSN =	{1868-8969},
  year =	{2021},
  volume =	{214},
  editor =	{Golovach, Petr A. and Zehavi, Meirav},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.IPEC.2021.31},
  URN =		{urn:nbn:de:0030-drops-154147},
  doi =		{10.4230/LIPIcs.IPEC.2021.31},
  annote =	{Keywords: cluster editing, local search, variable neighborhood search}
}
Document
Computing the Multicover Bifiltration

Authors: René Corbet, Michael Kerber, Michael Lesnick, and Georg Osang

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


Abstract
Given a finite set A ⊂ ℝ^d, let Cov_{r,k} denote the set of all points within distance r to at least k points of A. Allowing r and k to vary, we obtain a 2-parameter family of spaces that grow larger when r increases or k decreases, called the multicover bifiltration. Motivated by the problem of computing the homology of this bifiltration, we introduce two closely related combinatorial bifiltrations, one polyhedral and the other simplicial, which are both topologically equivalent to the multicover bifiltration and far smaller than a Čech-based model considered in prior work of Sheehy. Our polyhedral construction is a bifiltration of the rhomboid tiling of Edelsbrunner and Osang, and can be efficiently computed using a variant of an algorithm given by these authors as well. Using an implementation for dimension 2 and 3, we provide experimental results. Our simplicial construction is useful for understanding the polyhedral construction and proving its correctness.

Cite as

René Corbet, Michael Kerber, Michael Lesnick, and Georg Osang. Computing the Multicover Bifiltration. In 37th International Symposium on Computational Geometry (SoCG 2021). Leibniz International Proceedings in Informatics (LIPIcs), Volume 189, pp. 27:1-27:17, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2021)


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@InProceedings{corbet_et_al:LIPIcs.SoCG.2021.27,
  author =	{Corbet, Ren\'{e} and Kerber, Michael and Lesnick, Michael and Osang, Georg},
  title =	{{Computing the Multicover Bifiltration}},
  booktitle =	{37th International Symposium on Computational Geometry (SoCG 2021)},
  pages =	{27:1--27:17},
  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.dagstuhl.de/entities/document/10.4230/LIPIcs.SoCG.2021.27},
  URN =		{urn:nbn:de:0030-drops-138260},
  doi =		{10.4230/LIPIcs.SoCG.2021.27},
  annote =	{Keywords: Bifiltrations, nerves, higher-order Delaunay complexes, higher-order Voronoi diagrams, rhomboid tiling, multiparameter persistent homology, denoising}
}
Document
Circular Trace Reconstruction

Authors: Shyam Narayanan and Michael Ren

Published in: LIPIcs, Volume 185, 12th Innovations in Theoretical Computer Science Conference (ITCS 2021)


Abstract
Trace reconstruction is the problem of learning an unknown string x from independent traces of x, where traces are generated by independently deleting each bit of x with some deletion probability q. In this paper, we initiate the study of Circular trace reconstruction, where the unknown string x is circular and traces are now rotated by a random cyclic shift. Trace reconstruction is related to many computational biology problems studying DNA, which is a primary motivation for this problem as well, as many types of DNA are known to be circular. Our main results are as follows. First, we prove that we can reconstruct arbitrary circular strings of length n using exp(Õ(n^{1/3})) traces for any constant deletion probability q, as long as n is prime or the product of two primes. For n of this form, this nearly matches what was the best known bound of exp(O(n^{1/3})) for standard trace reconstruction when this paper was initially released. We note, however, that Chase very recently improved the standard trace reconstruction bound to exp(Õ(n^{1/5})). Next, we prove that we can reconstruct random circular strings with high probability using n^O(1) traces for any constant deletion probability q. Finally, we prove a lower bound of Ω̃(n³) traces for arbitrary circular strings, which is greater than the best known lower bound of Ω̃(n^{3/2}) in standard trace reconstruction.

Cite as

Shyam Narayanan and Michael Ren. Circular Trace Reconstruction. In 12th Innovations in Theoretical Computer Science Conference (ITCS 2021). Leibniz International Proceedings in Informatics (LIPIcs), Volume 185, pp. 18:1-18:18, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2021)


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@InProceedings{narayanan_et_al:LIPIcs.ITCS.2021.18,
  author =	{Narayanan, Shyam and Ren, Michael},
  title =	{{Circular Trace Reconstruction}},
  booktitle =	{12th Innovations in Theoretical Computer Science Conference (ITCS 2021)},
  pages =	{18:1--18:18},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-177-1},
  ISSN =	{1868-8969},
  year =	{2021},
  volume =	{185},
  editor =	{Lee, James R.},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ITCS.2021.18},
  URN =		{urn:nbn:de:0030-drops-135573},
  doi =		{10.4230/LIPIcs.ITCS.2021.18},
  annote =	{Keywords: Trace Reconstruction, Deletion Channel, Cyclotomic Integers}
}
Document
Engineering Exact Quasi-Threshold Editing

Authors: Lars Gottesbüren, Michael Hamann, Philipp Schoch, Ben Strasser, Dorothea Wagner, and Sven Zühlsdorf

Published in: LIPIcs, Volume 160, 18th International Symposium on Experimental Algorithms (SEA 2020)


Abstract
Quasi-threshold graphs are {C₄, P₄}-free graphs, i.e., they do not contain any cycle or path of four nodes as an induced subgraph. We study the {C₄, P₄}-free editing problem, which is the problem of finding a minimum number of edge insertions or deletions to transform an input graph into a quasi-threshold graph. This problem is NP-hard but fixed-parameter tractable (FPT) in the number of edits by using a branch-and-bound algorithm and admits a simple integer linear programming formulation (ILP). Both methods are also applicable to the general ℱ-free editing problem for any finite set of graphs ℱ. For the FPT algorithm, we introduce a fast heuristic for computing high-quality lower bounds and an improved branching strategy. For the ILP, we engineer several variants of row generation. We evaluate both methods for quasi-threshold editing on a large set of protein similarity graphs. For most instances, our optimizations speed up the FPT algorithm by one to three orders of magnitude. The running time of the ILP, that we solve using Gurobi, becomes only slightly faster. With all optimizations, the FPT algorithm is slightly faster than the ILP, even when listing all solutions. Additionally, we show that for almost all graphs, solutions of the previously proposed quasi-threshold editing heuristic QTM are close to optimal.

Cite as

Lars Gottesbüren, Michael Hamann, Philipp Schoch, Ben Strasser, Dorothea Wagner, and Sven Zühlsdorf. Engineering Exact Quasi-Threshold Editing. In 18th International Symposium on Experimental Algorithms (SEA 2020). Leibniz International Proceedings in Informatics (LIPIcs), Volume 160, pp. 10:1-10:14, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2020)


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@InProceedings{gottesburen_et_al:LIPIcs.SEA.2020.10,
  author =	{Gottesb\"{u}ren, Lars and Hamann, Michael and Schoch, Philipp and Strasser, Ben and Wagner, Dorothea and Z\"{u}hlsdorf, Sven},
  title =	{{Engineering Exact Quasi-Threshold Editing}},
  booktitle =	{18th International Symposium on Experimental Algorithms (SEA 2020)},
  pages =	{10:1--10:14},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-148-1},
  ISSN =	{1868-8969},
  year =	{2020},
  volume =	{160},
  editor =	{Faro, Simone and Cantone, Domenico},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.SEA.2020.10},
  URN =		{urn:nbn:de:0030-drops-120849},
  doi =		{10.4230/LIPIcs.SEA.2020.10},
  annote =	{Keywords: Edge Editing, Integer Linear Programming, FPT algorithm, Quasi-Threshold Editing}
}
Document
Advanced Flow-Based Multilevel Hypergraph Partitioning

Authors: Lars Gottesbüren, Michael Hamann, Sebastian Schlag, and Dorothea Wagner

Published in: LIPIcs, Volume 160, 18th International Symposium on Experimental Algorithms (SEA 2020)


Abstract
The balanced hypergraph partitioning problem is to partition a hypergraph into k disjoint blocks of bounded size such that the sum of the number of blocks connected by each hyperedge is minimized. We present an improvement to the flow-based refinement framework of KaHyPar-MF, the current state-of-the-art multilevel k-way hypergraph partitioning algorithm for high-quality solutions. Our improvement is based on the recently proposed HyperFlowCutter algorithm for computing bipartitions of unweighted hypergraphs by solving a sequence of incremental maximum flow problems. Since vertices and hyperedges are aggregated during the coarsening phase, refinement algorithms employed in the multilevel setting must be able to handle both weighted hyperedges and weighted vertices - even if the initial input hypergraph is unweighted. We therefore enhance HyperFlowCutter to handle weighted instances and propose a technique for computing maximum flows directly on weighted hypergraphs. We compare the performance of two configurations of our new algorithm with KaHyPar-MF and seven other partitioning algorithms on a comprehensive benchmark set with instances from application areas such as VLSI design, scientific computing, and SAT solving. Our first configuration, KaHyPar-HFC, computes slightly better solutions than KaHyPar-MF using significantly less running time. The second configuration, KaHyPar-HFC*, computes solutions of significantly better quality and is still slightly faster than KaHyPar-MF. Furthermore, in terms of solution quality, both configurations also outperform all other competing partitioners.

Cite as

Lars Gottesbüren, Michael Hamann, Sebastian Schlag, and Dorothea Wagner. Advanced Flow-Based Multilevel Hypergraph Partitioning. In 18th International Symposium on Experimental Algorithms (SEA 2020). Leibniz International Proceedings in Informatics (LIPIcs), Volume 160, pp. 11:1-11:15, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2020)


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@InProceedings{gottesburen_et_al:LIPIcs.SEA.2020.11,
  author =	{Gottesb\"{u}ren, Lars and Hamann, Michael and Schlag, Sebastian and Wagner, Dorothea},
  title =	{{Advanced Flow-Based Multilevel Hypergraph Partitioning}},
  booktitle =	{18th International Symposium on Experimental Algorithms (SEA 2020)},
  pages =	{11:1--11:15},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-148-1},
  ISSN =	{1868-8969},
  year =	{2020},
  volume =	{160},
  editor =	{Faro, Simone and Cantone, Domenico},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.SEA.2020.11},
  URN =		{urn:nbn:de:0030-drops-120859},
  doi =		{10.4230/LIPIcs.SEA.2020.11},
  annote =	{Keywords: Hypergraph Partitioning, Maximum Flows, Refinement}
}
Document
Constructing Light Spanners Deterministically in Near-Linear Time

Authors: Stephen Alstrup, Søren Dahlgaard, Arnold Filtser, Morten Stöckel, and Christian Wulff-Nilsen

Published in: LIPIcs, Volume 144, 27th Annual European Symposium on Algorithms (ESA 2019)


Abstract
Graph spanners are well-studied and widely used both in theory and practice. In a recent breakthrough, Chechik and Wulff-Nilsen [Shiri Chechik and Christian Wulff-Nilsen, 2018] improved the state-of-the-art for light spanners by constructing a (2k-1)(1+epsilon)-spanner with O(n^(1+1/k)) edges and O_epsilon(n^(1/k)) lightness. Soon after, Filtser and Solomon [Arnold Filtser and Shay Solomon, 2016] showed that the classic greedy spanner construction achieves the same bounds. The major drawback of the greedy spanner is its running time of O(mn^(1+1/k)) (which is faster than [Shiri Chechik and Christian Wulff-Nilsen, 2018]). This makes the construction impractical even for graphs of moderate size. Much faster spanner constructions do exist but they only achieve lightness Omega_epsilon(kn^(1/k)), even when randomization is used. The contribution of this paper is deterministic spanner constructions that are fast, and achieve similar bounds as the state-of-the-art slower constructions. Our first result is an O_epsilon(n^(2+1/k+epsilon')) time spanner construction which achieves the state-of-the-art bounds. Our second result is an O_epsilon(m + n log n) time construction of a spanner with (2k-1)(1+epsilon) stretch, O(log k * n^(1+1/k) edges and O_epsilon(log k * n^(1/k)) lightness. This is an exponential improvement in the dependence on k compared to the previous result with such running time. Finally, for the important special case where k=log n, for every constant epsilon>0, we provide an O(m+n^(1+epsilon)) time construction that produces an O(log n)-spanner with O(n) edges and O(1) lightness which is asymptotically optimal. This is the first known sub-quadratic construction of such a spanner for any k = omega(1). To achieve our constructions, we show a novel deterministic incremental approximate distance oracle. Our new oracle is crucial in our construction, as known randomized dynamic oracles require the assumption of a non-adaptive adversary. This is a strong assumption, which has seen recent attention in prolific venues. Our new oracle allows the order of the edge insertions to not be fixed in advance, which is critical as our spanner algorithm chooses which edges to insert based on the answers to distance queries. We believe our new oracle is of independent interest.

Cite as

Stephen Alstrup, Søren Dahlgaard, Arnold Filtser, Morten Stöckel, and Christian Wulff-Nilsen. Constructing Light Spanners Deterministically in Near-Linear Time. In 27th Annual European Symposium on Algorithms (ESA 2019). Leibniz International Proceedings in Informatics (LIPIcs), Volume 144, pp. 4:1-4:15, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2019)


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@InProceedings{alstrup_et_al:LIPIcs.ESA.2019.4,
  author =	{Alstrup, Stephen and Dahlgaard, S{\o}ren and Filtser, Arnold and St\"{o}ckel, Morten and Wulff-Nilsen, Christian},
  title =	{{Constructing Light Spanners Deterministically in Near-Linear Time}},
  booktitle =	{27th Annual European Symposium on Algorithms (ESA 2019)},
  pages =	{4:1--4:15},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-124-5},
  ISSN =	{1868-8969},
  year =	{2019},
  volume =	{144},
  editor =	{Bender, Michael A. and Svensson, Ola and Herman, Grzegorz},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ESA.2019.4},
  URN =		{urn:nbn:de:0030-drops-111255},
  doi =		{10.4230/LIPIcs.ESA.2019.4},
  annote =	{Keywords: Spanners, Light Spanners, Efficient Construction, Deterministic Dynamic Distance Oracle}
}
Document
Evaluation of a Flow-Based Hypergraph Bipartitioning Algorithm

Authors: Lars Gottesbüren, Michael Hamann, and Dorothea Wagner

Published in: LIPIcs, Volume 144, 27th Annual European Symposium on Algorithms (ESA 2019)


Abstract
In this paper, we propose HyperFlowCutter, an algorithm for balanced hypergraph bipartitioning that is based on minimum S-T hyperedge cuts and maximum flows. It computes a sequence of bipartitions that optimize cut size and balance in the Pareto sense, being able to trade one for the other. HyperFlowCutter builds on the FlowCutter algorithm for partitioning graphs. We propose additional features, such as handling disconnected hypergraphs, novel methods for obtaining starting S,T pairs as well as an approach to refine a given partition with HyperFlowCutter. Our main contribution is ReBaHFC, a new algorithm which obtains an initial partition with the fast multilevel hypergraph partitioner PaToH and then improves it using HyperFlowCutter as a refinement algorithm. ReBaHFC is able to significantly improve the solution quality of PaToH at little additional running time. The solution quality is only marginally worse than that of the best-performing hypergraph partitioners KaHyPar and hMETIS, while being one order of magnitude faster. Thus ReBaHFC offers a new time-quality trade-off in the current spectrum of hypergraph partitioners. For the special case of perfectly balanced bipartitioning, only the much slower plain HyperFlowCutter yields slightly better solutions than ReBaHFC, while only PaToH is faster than ReBaHFC.

Cite as

Lars Gottesbüren, Michael Hamann, and Dorothea Wagner. Evaluation of a Flow-Based Hypergraph Bipartitioning Algorithm. In 27th Annual European Symposium on Algorithms (ESA 2019). Leibniz International Proceedings in Informatics (LIPIcs), Volume 144, pp. 52:1-52:17, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2019)


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@InProceedings{gottesburen_et_al:LIPIcs.ESA.2019.52,
  author =	{Gottesb\"{u}ren, Lars and Hamann, Michael and Wagner, Dorothea},
  title =	{{Evaluation of a Flow-Based Hypergraph Bipartitioning Algorithm}},
  booktitle =	{27th Annual European Symposium on Algorithms (ESA 2019)},
  pages =	{52:1--52:17},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-124-5},
  ISSN =	{1868-8969},
  year =	{2019},
  volume =	{144},
  editor =	{Bender, Michael A. and Svensson, Ola and Herman, Grzegorz},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ESA.2019.52},
  URN =		{urn:nbn:de:0030-drops-111730},
  doi =		{10.4230/LIPIcs.ESA.2019.52},
  annote =	{Keywords: Hypergraph Partitioning, Maximum Flows, Algorithm Engineering}
}
Document
On the Hardness of Partially Dynamic Graph Problems and Connections to Diameter

Authors: Søren Dahlgaard

Published in: LIPIcs, Volume 55, 43rd International Colloquium on Automata, Languages, and Programming (ICALP 2016)


Abstract
Conditional lower bounds for dynamic graph problems has received a great deal of attention in recent years. While many results are now known for the fully-dynamic case and such bounds often imply worst-case bounds for the partially dynamic setting, it seems much more difficult to prove amortized bounds for incremental and decremental algorithms. In this paper we consider partially dynamic versions of three classic problems in graph theory. Based on popular conjectures we show that: - No algorithm with amortized update time O(n^{1-epsilon}) exists for incremental or decremental maximum cardinality bipartite matching. This significantly improves on the O(m^{1/2-epsilon}) bound for sparse graphs of Henzinger et al. [STOC'15] and O(n^{1/3-epsilon}) bound of Kopelowitz, Pettie and Porat. Our linear bound also appears more natural. In addition, the result we present separates the node-addition model from the edge insertion model, as an algorithm with total update time O(m*sqrt(n)) exists for the former by Bosek et al. [FOCS'14]. - No algorithm with amortized update time O(m^{1-epsilon}) exists for incremental or decremental maximum flow in directed and weighted sparse graphs. No such lower bound was known for partially dynamic maximum flow previously. Furthermore no algorithm with amortized update time O(n^{1-epsilon}) exists for directed and unweighted graphs or undirected and weighted graphs. - No algorithm with amortized update time O(n^{1/2-epsilon}) exists for incremental or decremental (4/3 - epsilon')-approximating the diameter of an unweighted graph. We also show a slightly stronger bound if node additions are allowed. The result is then extended to the static case, where we show that no O((n*sqrt(m))^{1-epsilon}) algorithm exists. We also extend the result to the case when an additive error is allowed in the approximation. While our bounds are weaker than the already known bounds of Roditty and Vassilevska Williams [STOC'13], it is based on a weaker conjecture of Abboud et al. [STOC'15] and is the first known reduction from the 3SUM and APSP problems to diameter. Showing an equivalence between APSP and diameter is a major open problem in this area (Abboud et al. [SODA'15]), and thus showing even a weak connection in this direction is of interest.

Cite as

Søren Dahlgaard. On the Hardness of Partially Dynamic Graph Problems and Connections to Diameter. In 43rd International Colloquium on Automata, Languages, and Programming (ICALP 2016). Leibniz International Proceedings in Informatics (LIPIcs), Volume 55, pp. 48:1-48:14, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2016)


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@InProceedings{dahlgaard:LIPIcs.ICALP.2016.48,
  author =	{Dahlgaard, S{\o}ren},
  title =	{{On the Hardness of Partially Dynamic Graph Problems and Connections to Diameter}},
  booktitle =	{43rd International Colloquium on Automata, Languages, and Programming (ICALP 2016)},
  pages =	{48:1--48:14},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-013-2},
  ISSN =	{1868-8969},
  year =	{2016},
  volume =	{55},
  editor =	{Chatzigiannakis, Ioannis and Mitzenmacher, Michael and Rabani, Yuval and Sangiorgi, Davide},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ICALP.2016.48},
  URN =		{urn:nbn:de:0030-drops-63289},
  doi =		{10.4230/LIPIcs.ICALP.2016.48},
  annote =	{Keywords: Conditional lower bounds, Maximum cardinality matching, Diameter in graphs, Hardness in P, Partially dynamic problems, Maximum flow}
}
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