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Documents authored by Cannon, Sarah

Document
RANDOM
DOI: 10.4230/LIPIcs.APPROX/RANDOM.2022.4
Fast and Perfect Sampling of Subgraphs and Polymer Systems

Authors: Antonio Blanca, Sarah Cannon, and Will Perkins

Published in: LIPIcs, Volume 245, Approximation, Randomization, and Combinatorial Optimization. Algorithms and Techniques (APPROX/RANDOM 2022)

Abstract
We give an efficient perfect sampling algorithm for weighted, connected induced subgraphs (or graphlets) of rooted, bounded degree graphs. Our algorithm utilizes a vertex-percolation process with a carefully chosen rejection filter and works under a percolation subcriticality condition. We show that this condition is optimal in the sense that the task of (approximately) sampling weighted rooted graphlets becomes impossible in finite expected time for infinite graphs and intractable for finite graphs when the condition does not hold. We apply our sampling algorithm as a subroutine to give near linear-time perfect sampling algorithms for polymer models and weighted non-rooted graphlets in finite graphs, two widely studied yet very different problems. This new perfect sampling algorithm for polymer models gives improved sampling algorithms for spin systems at low temperatures on expander graphs and unbalanced bipartite graphs, among other applications.
Cite as

Antonio Blanca, Sarah Cannon, and Will Perkins. Fast and Perfect Sampling of Subgraphs and Polymer Systems. In Approximation, Randomization, and Combinatorial Optimization. Algorithms and Techniques (APPROX/RANDOM 2022). Leibniz International Proceedings in Informatics (LIPIcs), Volume 245, pp. 4:1-4:18, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2022)

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@InProceedings{blanca_et_al:LIPIcs.APPROX/RANDOM.2022.4,
  author =	{Blanca, Antonio and Cannon, Sarah and Perkins, Will},
  title =	{{Fast and Perfect Sampling of Subgraphs and Polymer Systems}},
  booktitle =	{Approximation, Randomization, and Combinatorial Optimization. Algorithms and Techniques (APPROX/RANDOM 2022)},
  pages =	{4:1--4:18},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-249-5},
  ISSN =	{1868-8969},
  year =	{2022},
  volume =	{245},
  editor =	{Chakrabarti, Amit and Swamy, Chaitanya},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.APPROX/RANDOM.2022.4},
  URN =		{urn:nbn:de:0030-drops-171261},
  doi =		{10.4230/LIPIcs.APPROX/RANDOM.2022.4},
  annote =	{Keywords: Random Sampling, perfect sampling, graphlets, polymer models, spin systems, percolation}
}
Document
RANDOM
DOI: 10.4230/LIPIcs.APPROX-RANDOM.2019.54
A Local Stochastic Algorithm for Separation in Heterogeneous Self-Organizing Particle Systems

Authors: Sarah Cannon, Joshua J. Daymude, Cem Gökmen, Dana Randall, and Andréa W. Richa

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

Abstract
We present and rigorously analyze the behavior of a distributed, stochastic algorithm for separation and integration in self-organizing particle systems, an abstraction of programmable matter. Such systems are composed of individual computational particles with limited memory, strictly local communication abilities, and modest computational power. We consider heterogeneous particle systems of two different colors and prove that these systems can collectively separate into different color classes or integrate, indifferent to color. We accomplish both behaviors with the same fully distributed, local, stochastic algorithm. Achieving separation or integration depends only on a single global parameter determining whether particles prefer to be next to other particles of the same color or not; this parameter is meant to represent external, environmental influences on the particle system. The algorithm is a generalization of a previous distributed, stochastic algorithm for compression (PODC '16) that can be viewed as a special case of separation where all particles have the same color. It is significantly more challenging to prove that the desired behavior is achieved in the heterogeneous setting, however, even in the bichromatic case we focus on. This requires combining several new techniques, including the cluster expansion from statistical physics, a new variant of the bridging argument of Miracle, Pascoe and Randall (RANDOM '11), the high-temperature expansion of the Ising model, and careful probabilistic arguments.
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Sarah Cannon, Joshua J. Daymude, Cem Gökmen, Dana Randall, and Andréa W. Richa. A Local Stochastic Algorithm for Separation in Heterogeneous Self-Organizing Particle Systems. In Approximation, Randomization, and Combinatorial Optimization. Algorithms and Techniques (APPROX/RANDOM 2019). Leibniz International Proceedings in Informatics (LIPIcs), Volume 145, pp. 54:1-54:22, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2019)

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@InProceedings{cannon_et_al:LIPIcs.APPROX-RANDOM.2019.54,
  author =	{Cannon, Sarah and Daymude, Joshua J. and G\"{o}kmen, Cem and Randall, Dana and Richa, Andr\'{e}a W.},
  title =	{{A Local Stochastic Algorithm for Separation in Heterogeneous Self-Organizing Particle Systems}},
  booktitle =	{Approximation, Randomization, and Combinatorial Optimization. Algorithms and Techniques (APPROX/RANDOM 2019)},
  pages =	{54:1--54:22},
  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.2019.54},
  URN =		{urn:nbn:de:0030-drops-112696},
  doi =		{10.4230/LIPIcs.APPROX-RANDOM.2019.54},
  annote =	{Keywords: Markov chains, Programmable matter, Cluster expansion}
}
Document
DOI: 10.4230/LIPIcs.APPROX-RANDOM.2017.34
Polynomial Mixing of the Edge-Flip Markov Chain for Unbiased Dyadic Tilings

Authors: Sarah Cannon, David A. Levin, and Alexandre Stauffer

Published in: LIPIcs, Volume 81, Approximation, Randomization, and Combinatorial Optimization. Algorithms and Techniques (APPROX/RANDOM 2017)

Abstract
We give the first polynomial upper bound on the mixing time of the edge-flip Markov chain for unbiased dyadic tilings, resolving an open problem originally posed by Janson, Randall, and Spencer in 2002. A dyadic tiling of size n is a tiling of the unit square by n non-overlapping dyadic rectangles, each of area 1/n, where a dyadic rectangle is any rectangle that can be written in the form [a2^{-s}, (a+1)2^{-s}] x [b2^{-t}, (b+1)2^{-t}] for a,b,s,t nonnegative integers. The edge-flip Markov chain selects a random edge of the tiling and replaces it with its perpendicular bisector if doing so yields a valid dyadic tiling. Specifically, we show that the relaxation time of the edge-flip Markov chain for dyadic tilings is at most O(n^{4.09}), which implies that the mixing time is at most O(n^{5.09}). We complement this by showing that the relaxation time is at least Omega(n^{1.38}), improving upon the previously best lower bound of Omega(n*log n) coming from the diameter of the chain.
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Sarah Cannon, David A. Levin, and Alexandre Stauffer. Polynomial Mixing of the Edge-Flip Markov Chain for Unbiased Dyadic Tilings. In Approximation, Randomization, and Combinatorial Optimization. Algorithms and Techniques (APPROX/RANDOM 2017). Leibniz International Proceedings in Informatics (LIPIcs), Volume 81, pp. 34:1-34:21, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2017)

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@InProceedings{cannon_et_al:LIPIcs.APPROX-RANDOM.2017.34,
  author =	{Cannon, Sarah and Levin, David A. and Stauffer, Alexandre},
  title =	{{Polynomial Mixing of the Edge-Flip Markov Chain for Unbiased Dyadic Tilings}},
  booktitle =	{Approximation, Randomization, and Combinatorial Optimization. Algorithms and Techniques (APPROX/RANDOM 2017)},
  pages =	{34:1--34:21},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-044-6},
  ISSN =	{1868-8969},
  year =	{2017},
  volume =	{81},
  editor =	{Jansen, Klaus and Rolim, Jos\'{e} D. P. and Williamson, David P. and Vempala, Santosh S.},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.APPROX-RANDOM.2017.34},
  URN =		{urn:nbn:de:0030-drops-75830},
  doi =		{10.4230/LIPIcs.APPROX-RANDOM.2017.34},
  annote =	{Keywords: Random dyadic tilings, spectral gap, rapid mixing}
}
Document
DOI: 10.4230/LIPIcs.STACS.2013.172
Two Hands Are Better Than One (up to constant factors): Self-Assembly In The 2HAM vs. aTAM

Authors: Sarah Cannon, Erik D. Demaine, Martin L. Demaine, Sarah Eisenstat, Matthew J. Patitz, Robert T. Schweller, Scott M Summers, and Andrew Winslow

Published in: LIPIcs, Volume 20, 30th International Symposium on Theoretical Aspects of Computer Science (STACS 2013)

Abstract
We study the difference between the standard seeded model (aTAM) of tile self-assembly, and the "seedless" two-handed model of tile self-assembly (2HAM). Most of our results suggest that the two-handed model is more powerful. In particular, we show how to simulate any seeded system with a two-handed system that is essentially just a constant factor larger. We exhibit finite shapes with a busy-beaver separation in the number of distinct tiles required by seeded versus two-handed, and exhibit an infinite shape that can be constructed two-handed but not seeded. Finally, we show that verifying whether a given system uniquely assembles a desired supertile is co-NP-complete in the two-handed model, while it was known to be polynomially solvable in the seeded model.
Cite as

Sarah Cannon, Erik D. Demaine, Martin L. Demaine, Sarah Eisenstat, Matthew J. Patitz, Robert T. Schweller, Scott M Summers, and Andrew Winslow. Two Hands Are Better Than One (up to constant factors): Self-Assembly In The 2HAM vs. aTAM. In 30th International Symposium on Theoretical Aspects of Computer Science (STACS 2013). Leibniz International Proceedings in Informatics (LIPIcs), Volume 20, pp. 172-184, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2013)

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@InProceedings{cannon_et_al:LIPIcs.STACS.2013.172,
  author =	{Cannon, Sarah and Demaine, Erik D. and Demaine, Martin L. and Eisenstat, Sarah and Patitz, Matthew J. and Schweller, Robert T. and Summers, Scott M and Winslow, Andrew},
  title =	{{Two Hands Are Better Than One (up to constant factors): Self-Assembly In The 2HAM vs. aTAM}},
  booktitle =	{30th International Symposium on Theoretical Aspects of Computer Science (STACS 2013)},
  pages =	{172--184},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-939897-50-7},
  ISSN =	{1868-8969},
  year =	{2013},
  volume =	{20},
  editor =	{Portier, Natacha and Wilke, Thomas},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.STACS.2013.172},
  URN =		{urn:nbn:de:0030-drops-39321},
  doi =		{10.4230/LIPIcs.STACS.2013.172},
  annote =	{Keywords: abstract tile assembly model, hierarchical tile assembly model, two-handed tile assembly model, algorithmic self-assembly, DNA computing, biocomputing}
}
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