4 Search Results for "Robinson, Thomas"

Document
DOI: 10.4230/LIPIcs.SEA.2023.7
Simple Runs-Bounded FM-Index Designs Are Fast

Authors: Diego Díaz-Domínguez, Saska Dönges, Simon J. Puglisi, and Leena Salmela

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

Abstract
Given a string X of length n on alphabet σ, the FM-index data structure allows counting all occurrences of a pattern P of length m in O(m) time via an algorithm called backward search. An important difficulty when searching with an FM-index is to support queries on L, the Burrows-Wheeler transform of X, while L is in compressed form. This problem has been the subject of intense research for 25 years now. Run-length encoding of L is an effective way to reduce index size, in particular when the data being indexed is highly-repetitive, which is the case in many types of modern data, including those arising from versioned document collections and in pangenomics. This paper takes a back-to-basics look at supporting backward search in FM-indexes, exploring and engineering two simple designs. The first divides the BWT string into blocks containing b symbols each and then run-length compresses each block separately, possibly introducing new runs (compared to applying run-length encoding once, to the whole string). Each block stores counts of each symbol that occurs before the block. This method supports the operation rank_c(L, i) (i.e., count the number of times c occurs in the prefix L[1..i]) by first determining the block i/b in which i falls and scanning the block to the appropriate position counting occurrences of c along the way. This partial answer to rank_c(L, i) is then added to the stored count of c symbols before the block to determine the final answer. Our second design has a similar structure, but instead divides the run-length-encoded version of L into blocks containing an equal number of runs. The trick then is to determine the block in which a query falls, which is achieved via a predecessor query over the block starting positions. We show via extensive experiments on a wide range of repetitive text collections that these FM-indexes are not only easy to implement, but also fast and space efficient in practice.
Cite as

Diego Díaz-Domínguez, Saska Dönges, Simon J. Puglisi, and Leena Salmela. Simple Runs-Bounded FM-Index Designs Are Fast. In 21st International Symposium on Experimental Algorithms (SEA 2023). Leibniz International Proceedings in Informatics (LIPIcs), Volume 265, pp. 7:1-7:16, Schloss Dagstuhl - Leibniz-Zentrum für Informatik (2023)

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@InProceedings{diazdominguez_et_al:LIPIcs.SEA.2023.7,
  author =	{D{\'\i}az-Dom{\'\i}nguez, Diego and D\"{o}nges, Saska and Puglisi, Simon J. and Salmela, Leena},
  title =	{{Simple Runs-Bounded FM-Index Designs Are Fast}},
  booktitle =	{21st International Symposium on Experimental Algorithms (SEA 2023)},
  pages =	{7:1--7:16},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-279-2},
  ISSN =	{1868-8969},
  year =	{2023},
  volume =	{265},
  editor =	{Georgiadis, Loukas},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.SEA.2023.7},
  URN =		{urn:nbn:de:0030-drops-183579},
  doi =		{10.4230/LIPIcs.SEA.2023.7},
  annote =	{Keywords: data structures, efficient algorithms}
}
Document
Introduction
DOI: 10.4230/LITES.8.1.0
Introduction to the Special Issue on Embedded Systems for Computer Vision

Authors: Samarjit Chakraborty and Qing Rao

Published in: LITES, Volume 8, Issue 1 (2022): Special Issue on Embedded Systems for Computer Vision. Leibniz Transactions on Embedded Systems, Volume 8, Issue 1

Abstract
We provide a broad overview of some of the current research directions at the intersection of embedded systems and computer vision, in addition to introducing the papers appearing in this special issue. Work at this intersection is steadily growing in importance, especially in the context of autonomous and cyber-physical systems design. Vision-based perception is almost a mandatory component in any autonomous system, but also adds myriad challenges like, how to efficiently implement vision processing algorithms on resource-constrained embedded architectures, and how to verify the functional and timing correctness of these algorithms. Computer vision is also crucial in implementing various smart functionality like security, e.g., using facial recognition, or monitoring events or traffic patterns. Some of these applications are reviewed in this introductory article. The remaining articles featured in this special issue dive into more depth on a few of them.
Cite as

LITES, Volume 8, Issue 1: Special Issue on Embedded Systems for Computer Vision, pp. 0:i-0:viii, Schloss Dagstuhl - Leibniz-Zentrum für Informatik (2022)

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@Article{chakraborty_et_al:LITES.8.1.0,
  author =	{Chakraborty, Samarjit and Rao, Qing},
  title =	{{Introduction to the Special Issue on Embedded Systems for Computer Vision}},
  journal =	{Leibniz Transactions on Embedded Systems},
  pages =	{00:1--00:8},
  ISSN =	{2199-2002},
  year =	{2022},
  volume =	{8},
  number =	{1},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LITES.8.1.0},
  doi =		{10.4230/LITES.8.1.0},
  annote =	{Keywords: Embedded systems, Computer vision, Cyber-physical systems, Computer architecture}
}
Document
APPROX
DOI: 10.4230/LIPIcs.APPROX-RANDOM.2019.11
Approximating the Norms of Graph Spanners

Authors: Eden Chlamtáč, Michael Dinitz, and Thomas Robinson

Published in: LIPIcs, Volume 145, Approximation, Randomization, and Combinatorial Optimization. Algorithms and Techniques (APPROX/RANDOM 2019)

Abstract
The l_p-norm of the degree vector was recently introduced by [Chlamtáč, Dinitz, Robinson ICALP '19] as a new cost metric for graph spanners, as it interpolates between two traditional notions of cost (the sparsity l_1 and the max degree l_infty) and is well-motivated from applications. We study this from an approximation algorithms point of view, analyzing old algorithms and designing new algorithms for this new context, as well as providing hardness results. Our main results are for the l_2-norm and stretch 3, where we give a tight analysis of the greedy algorithm and a new algorithm specifically tailored to this setting which gives an improved approximation ratio.
Cite as

Eden Chlamtáč, Michael Dinitz, and Thomas Robinson. Approximating the Norms of Graph Spanners. In Approximation, Randomization, and Combinatorial Optimization. Algorithms and Techniques (APPROX/RANDOM 2019). Leibniz International Proceedings in Informatics (LIPIcs), Volume 145, pp. 11:1-11:22, Schloss Dagstuhl - Leibniz-Zentrum für Informatik (2019)

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@InProceedings{chlamtac_et_al:LIPIcs.APPROX-RANDOM.2019.11,
  author =	{Chlamt\'{a}\v{c}, Eden and Dinitz, Michael and Robinson, Thomas},
  title =	{{Approximating the Norms of Graph Spanners}},
  booktitle =	{Approximation, Randomization, and Combinatorial Optimization. Algorithms and Techniques (APPROX/RANDOM 2019)},
  pages =	{11:1--11:22},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-125-2},
  ISSN =	{1868-8969},
  year =	{2019},
  volume =	{145},
  editor =	{Achlioptas, Dimitris and V\'{e}gh, L\'{a}szl\'{o} A.},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.APPROX-RANDOM.2019.11},
  URN =		{urn:nbn:de:0030-drops-112261},
  doi =		{10.4230/LIPIcs.APPROX-RANDOM.2019.11},
  annote =	{Keywords: Spanners, Approximations}
}
Document
Track A: Algorithms, Complexity and Games
DOI: 10.4230/LIPIcs.ICALP.2019.40
The Norms of Graph Spanners

Authors: Eden Chlamtáč, Michael Dinitz, and Thomas Robinson

Published in: LIPIcs, Volume 132, 46th International Colloquium on Automata, Languages, and Programming (ICALP 2019)

Abstract
A t-spanner of a graph G is a subgraph H in which all distances are preserved up to a multiplicative t factor. A classical result of Althöfer et al. is that for every integer k and every graph G, there is a (2k-1)-spanner of G with at most O(n^{1+1/k}) edges. But for some settings the more interesting notion is not the number of edges, but the degrees of the nodes. This spurred interest in and study of spanners with small maximum degree. However, this is not necessarily a robust enough objective: we would like spanners that not only have small maximum degree, but also have "few" nodes of "large" degree. To interpolate between these two extremes, in this paper we initiate the study of graph spanners with respect to the l_p-norm of their degree vector, thus simultaneously modeling the number of edges (the l_1-norm) and the maximum degree (the l_{infty}-norm). We give precise upper bounds for all ranges of p and stretch t: we prove that the greedy (2k-1)-spanner has l_p norm of at most max(O(n), O(n^{{k+p}/{kp}})), and that this bound is tight (assuming the Erdős girth conjecture). We also study universal lower bounds, allowing us to give "generic" guarantees on the approximation ratio of the greedy algorithm which generalize and interpolate between the known approximations for the l_1 and l_{infty} norm. Finally, we show that at least in some situations, the l_p norm behaves fundamentally differently from l_1 or l_{infty}: there are regimes (p=2 and stretch 3 in particular) where the greedy spanner has a provably superior approximation to the generic guarantee.
Cite as

Eden Chlamtáč, Michael Dinitz, and Thomas Robinson. The Norms of Graph Spanners. In 46th International Colloquium on Automata, Languages, and Programming (ICALP 2019). Leibniz International Proceedings in Informatics (LIPIcs), Volume 132, pp. 40:1-40:15, Schloss Dagstuhl - Leibniz-Zentrum für Informatik (2019)

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@InProceedings{chlamtac_et_al:LIPIcs.ICALP.2019.40,
  author =	{Chlamt\'{a}\v{c}, Eden and Dinitz, Michael and Robinson, Thomas},
  title =	{{The Norms of Graph Spanners}},
  booktitle =	{46th International Colloquium on Automata, Languages, and Programming (ICALP 2019)},
  pages =	{40:1--40:15},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-109-2},
  ISSN =	{1868-8969},
  year =	{2019},
  volume =	{132},
  editor =	{Baier, Christel and Chatzigiannakis, Ioannis and Flocchini, Paola and Leonardi, Stefano},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ICALP.2019.40},
  URN =		{urn:nbn:de:0030-drops-106163},
  doi =		{10.4230/LIPIcs.ICALP.2019.40},
  annote =	{Keywords: spanners, approximations}
}
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