8 Search Results for "Edelsbrunner, Herbert"

Document
DOI: 10.4230/LIPIcs.SoCG.2023.60
Slice, Simplify and Stitch: Topology-Preserving Simplification Scheme for Massive Voxel Data

Authors: Hubert Wagner

Published in: LIPIcs, Volume 258, 39th International Symposium on Computational Geometry (SoCG 2023)

Abstract
We focus on efficient computations of topological descriptors for voxel data. This type of data includes 2D greyscale images, 3D medical scans, but also higher-dimensional scalar fields arising from physical simulations. In recent years we have seen an increase in applications of topological methods for such data. However, computational issues remain an obstacle. We therefore propose a streaming scheme which simplifies large 3-dimensional voxel data - while provably retaining its persistent homology. We combine this scheme with an efficient boundary matrix reduction implementation, obtaining an end-to-end tool for persistent homology of large data. Computational experiments show its state-of-the-art performance. In particular, we are now able to robustly handle complex datasets with several billions voxels on a regular laptop. A software implementation called Cubicle is available as open-source: https://bitbucket.org/hubwag/cubicle.
Cite as

Hubert Wagner. Slice, Simplify and Stitch: Topology-Preserving Simplification Scheme for Massive Voxel Data. In 39th International Symposium on Computational Geometry (SoCG 2023). Leibniz International Proceedings in Informatics (LIPIcs), Volume 258, pp. 60:1-60:16, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2023)

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@InProceedings{wagner:LIPIcs.SoCG.2023.60,
  author =	{Wagner, Hubert},
  title =	{{Slice, Simplify and Stitch: Topology-Preserving Simplification Scheme for Massive Voxel Data}},
  booktitle =	{39th International Symposium on Computational Geometry (SoCG 2023)},
  pages =	{60:1--60:16},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-273-0},
  ISSN =	{1868-8969},
  year =	{2023},
  volume =	{258},
  editor =	{Chambers, Erin W. and Gudmundsson, Joachim},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.SoCG.2023.60},
  URN =		{urn:nbn:de:0030-drops-179107},
  doi =		{10.4230/LIPIcs.SoCG.2023.60},
  annote =	{Keywords: Computational topology, topological data analysis, topological image analysis, persistent homology, persistence diagram, discrete Morse theory, algorithm engineering, implementation, voxel data, volume data, image data}
}
Document
DOI: 10.4230/LIPIcs.SoCG.2021.16
Counting Cells of Order-k Voronoi Tessellations in ℝ³ with Morse Theory

Authors: Ranita Biswas, Sebastiano Cultrera di Montesano, Herbert Edelsbrunner, and Morteza Saghafian

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

Abstract
Generalizing Lee’s inductive argument for counting the cells of higher order Voronoi tessellations in ℝ² to ℝ³, we get precise relations in terms of Morse theoretic quantities for piecewise constant functions on planar arrangements. Specifically, we prove that for a generic set of n ≥ 5 points in ℝ³, the number of regions in the order-k Voronoi tessellation is N_{k-1} - binom(k,2)n + n, for 1 ≤ k ≤ n-1, in which N_{k-1} is the sum of Euler characteristics of these function’s first k-1 sublevel sets. We get similar expressions for the vertices, edges, and polygons of the order-k Voronoi tessellation.
Cite as

Ranita Biswas, Sebastiano Cultrera di Montesano, Herbert Edelsbrunner, and Morteza Saghafian. Counting Cells of Order-k Voronoi Tessellations in ℝ³ with Morse Theory. In 37th International Symposium on Computational Geometry (SoCG 2021). Leibniz International Proceedings in Informatics (LIPIcs), Volume 189, pp. 16:1-16:15, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2021)

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@InProceedings{biswas_et_al:LIPIcs.SoCG.2021.16,
  author =	{Biswas, Ranita and Cultrera di Montesano, Sebastiano and Edelsbrunner, Herbert and Saghafian, Morteza},
  title =	{{Counting Cells of Order-k Voronoi Tessellations in \mathbb{R}³ with Morse Theory}},
  booktitle =	{37th International Symposium on Computational Geometry (SoCG 2021)},
  pages =	{16:1--16:15},
  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.2021.16},
  URN =		{urn:nbn:de:0030-drops-138152},
  doi =		{10.4230/LIPIcs.SoCG.2021.16},
  annote =	{Keywords: Voronoi tessellations, Delaunay mosaics, arrangements, convex polytopes, Morse theory, counting}
}
Document
DOI: 10.4230/LIPIcs.SoCG.2021.32
The Density Fingerprint of a Periodic Point Set

Authors: Herbert Edelsbrunner, Teresa Heiss, Vitaliy Kurlin, Philip Smith, and Mathijs Wintraecken

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

Abstract
Modeling a crystal as a periodic point set, we present a fingerprint consisting of density functions that facilitates the efficient search for new materials and material properties. We prove invariance under isometries, continuity, and completeness in the generic case, which are necessary features for the reliable comparison of crystals. The proof of continuity integrates methods from discrete geometry and lattice theory, while the proof of generic completeness combines techniques from geometry with analysis. The fingerprint has a fast algorithm based on Brillouin zones and related inclusion-exclusion formulae. We have implemented the algorithm and describe its application to crystal structure prediction.
Cite as

Herbert Edelsbrunner, Teresa Heiss, Vitaliy Kurlin, Philip Smith, and Mathijs Wintraecken. The Density Fingerprint of a Periodic Point Set. In 37th International Symposium on Computational Geometry (SoCG 2021). Leibniz International Proceedings in Informatics (LIPIcs), Volume 189, pp. 32:1-32:16, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2021)

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@InProceedings{edelsbrunner_et_al:LIPIcs.SoCG.2021.32,
  author =	{Edelsbrunner, Herbert and Heiss, Teresa and Kurlin, Vitaliy and Smith, Philip and Wintraecken, Mathijs},
  title =	{{The Density Fingerprint of a Periodic Point Set}},
  booktitle =	{37th International Symposium on Computational Geometry (SoCG 2021)},
  pages =	{32:1--32:16},
  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.2021.32},
  URN =		{urn:nbn:de:0030-drops-138310},
  doi =		{10.4230/LIPIcs.SoCG.2021.32},
  annote =	{Keywords: Lattices, periodic sets, isometries, Dirichlet-Voronoi domains, Brillouin zones, bottleneck distance, stability, continuity, crystal database}
}
Document
DOI: 10.4230/LIPIcs.SoCG.2020.20
The Topological Correctness of PL-Approximations of Isomanifolds

Authors: Jean-Daniel Boissonnat and Mathijs Wintraecken

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

Abstract
Isomanifolds are the generalization of isosurfaces to arbitrary dimension and codimension, i.e. manifolds defined as the zero set of some multivariate vector-valued smooth function f: ℝ^d → ℝ^(d-n). A natural (and efficient) way to approximate an isomanifold is to consider its Piecewise-Linear (PL) approximation based on a triangulation 𝒯 of the ambient space ℝ^d. In this paper, we give conditions under which the PL-approximation of an isomanifold is topologically equivalent to the isomanifold. The conditions are easy to satisfy in the sense that they can always be met by taking a sufficiently fine triangulation 𝒯. This contrasts with previous results on the triangulation of manifolds where, in arbitrary dimensions, delicate perturbations are needed to guarantee topological correctness, which leads to strong limitations in practice. We further give a bound on the Fréchet distance between the original isomanifold and its PL-approximation. Finally we show analogous results for the PL-approximation of an isomanifold with boundary.
Cite as

Jean-Daniel Boissonnat and Mathijs Wintraecken. The Topological Correctness of PL-Approximations of Isomanifolds. In 36th International Symposium on Computational Geometry (SoCG 2020). Leibniz International Proceedings in Informatics (LIPIcs), Volume 164, pp. 20:1-20:18, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2020)

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@InProceedings{boissonnat_et_al:LIPIcs.SoCG.2020.20,
  author =	{Boissonnat, Jean-Daniel and Wintraecken, Mathijs},
  title =	{{The Topological Correctness of PL-Approximations of Isomanifolds}},
  booktitle =	{36th International Symposium on Computational Geometry (SoCG 2020)},
  pages =	{20:1--20:18},
  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.2020.20},
  URN =		{urn:nbn:de:0030-drops-121787},
  doi =		{10.4230/LIPIcs.SoCG.2020.20},
  annote =	{Keywords: PL-approximations, isomanifolds, solution manifolds, topological correctness}
}
Document
DOI: 10.4230/LIPIcs.SoCG.2019.31
Topological Data Analysis in Information Space

Authors: Herbert Edelsbrunner, Žiga Virk, and Hubert Wagner

Published in: LIPIcs, Volume 129, 35th International Symposium on Computational Geometry (SoCG 2019)

Abstract
Various kinds of data are routinely represented as discrete probability distributions. Examples include text documents summarized by histograms of word occurrences and images represented as histograms of oriented gradients. Viewing a discrete probability distribution as a point in the standard simplex of the appropriate dimension, we can understand collections of such objects in geometric and topological terms. Importantly, instead of using the standard Euclidean distance, we look into dissimilarity measures with information-theoretic justification, and we develop the theory needed for applying topological data analysis in this setting. In doing so, we emphasize constructions that enable the usage of existing computational topology software in this context.
Cite as

Herbert Edelsbrunner, Žiga Virk, and Hubert Wagner. Topological Data Analysis in Information Space. In 35th International Symposium on Computational Geometry (SoCG 2019). Leibniz International Proceedings in Informatics (LIPIcs), Volume 129, pp. 31:1-31:14, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2019)

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@InProceedings{edelsbrunner_et_al:LIPIcs.SoCG.2019.31,
  author =	{Edelsbrunner, Herbert and Virk, \v{Z}iga and Wagner, Hubert},
  title =	{{Topological Data Analysis in Information Space}},
  booktitle =	{35th International Symposium on Computational Geometry (SoCG 2019)},
  pages =	{31:1--31:14},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-104-7},
  ISSN =	{1868-8969},
  year =	{2019},
  volume =	{129},
  editor =	{Barequet, Gill and Wang, Yusu},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.SoCG.2019.31},
  URN =		{urn:nbn:de:0030-drops-104357},
  doi =		{10.4230/LIPIcs.SoCG.2019.31},
  annote =	{Keywords: Computational topology, persistent homology, information theory, entropy}
}
Document
DOI: 10.4230/LIPIcs.SoCG.2018.34
The Multi-cover Persistence of Euclidean Balls

Authors: Herbert Edelsbrunner and Georg Osang

Published in: LIPIcs, Volume 99, 34th International Symposium on Computational Geometry (SoCG 2018)

Abstract
Given a locally finite X subseteq R^d and a radius r >= 0, the k-fold cover of X and r consists of all points in R^d that have k or more points of X within distance r. We consider two filtrations - one in scale obtained by fixing k and increasing r, and the other in depth obtained by fixing r and decreasing k - and we compute the persistence diagrams of both. While standard methods suffice for the filtration in scale, we need novel geometric and topological concepts for the filtration in depth. In particular, we introduce a rhomboid tiling in R^{d+1} whose horizontal integer slices are the order-k Delaunay mosaics of X, and construct a zigzag module from Delaunay mosaics that is isomorphic to the persistence module of the multi-covers.
Cite as

Herbert Edelsbrunner and Georg Osang. The Multi-cover Persistence of Euclidean Balls. In 34th International Symposium on Computational Geometry (SoCG 2018). Leibniz International Proceedings in Informatics (LIPIcs), Volume 99, pp. 34:1-34:14, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2018)

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@InProceedings{edelsbrunner_et_al:LIPIcs.SoCG.2018.34,
  author =	{Edelsbrunner, Herbert and Osang, Georg},
  title =	{{The Multi-cover Persistence of Euclidean Balls}},
  booktitle =	{34th International Symposium on Computational Geometry (SoCG 2018)},
  pages =	{34:1--34:14},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-066-8},
  ISSN =	{1868-8969},
  year =	{2018},
  volume =	{99},
  editor =	{Speckmann, Bettina and T\'{o}th, Csaba D.},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.SoCG.2018.34},
  URN =		{urn:nbn:de:0030-drops-87471},
  doi =		{10.4230/LIPIcs.SoCG.2018.34},
  annote =	{Keywords: Delaunay mosaics, hyperplane arrangements, discrete Morse theory, zigzag modules, persistent homology}
}
Document
DOI: 10.4230/LIPIcs.SoCG.2018.35
Smallest Enclosing Spheres and Chernoff Points in BregmanGeometry

Authors: Herbert Edelsbrunner, Ziga Virk, and Hubert Wagner

Published in: LIPIcs, Volume 99, 34th International Symposium on Computational Geometry (SoCG 2018)

Abstract
Smallest enclosing spheres of finite point sets are central to methods in topological data analysis. Focusing on Bregman divergences to measure dissimilarity, we prove bounds on the location of the center of a smallest enclosing sphere. These bounds depend on the range of radii for which Bregman balls are convex.
Cite as

Herbert Edelsbrunner, Ziga Virk, and Hubert Wagner. Smallest Enclosing Spheres and Chernoff Points in BregmanGeometry. In 34th International Symposium on Computational Geometry (SoCG 2018). Leibniz International Proceedings in Informatics (LIPIcs), Volume 99, pp. 35:1-35:13, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2018)

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@InProceedings{edelsbrunner_et_al:LIPIcs.SoCG.2018.35,
  author =	{Edelsbrunner, Herbert and Virk, Ziga and Wagner, Hubert},
  title =	{{Smallest Enclosing Spheres and Chernoff Points in BregmanGeometry}},
  booktitle =	{34th International Symposium on Computational Geometry (SoCG 2018)},
  pages =	{35:1--35:13},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-066-8},
  ISSN =	{1868-8969},
  year =	{2018},
  volume =	{99},
  editor =	{Speckmann, Bettina and T\'{o}th, Csaba D.},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.SoCG.2018.35},
  URN =		{urn:nbn:de:0030-drops-87487},
  doi =		{10.4230/LIPIcs.SoCG.2018.35},
  annote =	{Keywords: Bregman divergence, smallest enclosing spheres, Chernoff points, convexity, barycenter polytopes}
}
Document
DOI: 10.4230/LIPIcs.SoCG.2017.39
Topological Data Analysis with Bregman Divergences

Authors: Herbert Edelsbrunner and Hubert Wagner

Published in: LIPIcs, Volume 77, 33rd International Symposium on Computational Geometry (SoCG 2017)

Abstract
We show that the framework of topological data analysis can be extended from metrics to general Bregman divergences, widening the scope of possible applications. Examples are the Kullback-Leibler divergence, which is commonly used for comparing text and images, and the Itakura-Saito divergence, popular for speech and sound. In particular, we prove that appropriately generalized Cech and Delaunay (alpha) complexes capture the correct homotopy type, namely that of the corresponding union of Bregman balls. Consequently, their filtrations give the correct persistence diagram, namely the one generated by the uniformly growing Bregman balls. Moreover, we show that unlike the metric setting, the filtration of Vietoris-Rips complexes may fail to approximate the persistence diagram. We propose algorithms to compute the thus generalized Cech, Vietoris-Rips and Delaunay complexes and experimentally test their efficiency. Lastly, we explain their surprisingly good performance by making a connection with discrete Morse theory.
Cite as

Herbert Edelsbrunner and Hubert Wagner. Topological Data Analysis with Bregman Divergences. In 33rd International Symposium on Computational Geometry (SoCG 2017). Leibniz International Proceedings in Informatics (LIPIcs), Volume 77, pp. 39:1-39:16, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2017)

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@InProceedings{edelsbrunner_et_al:LIPIcs.SoCG.2017.39,
  author =	{Edelsbrunner, Herbert and Wagner, Hubert},
  title =	{{Topological Data Analysis with Bregman Divergences}},
  booktitle =	{33rd International Symposium on Computational Geometry (SoCG 2017)},
  pages =	{39:1--39:16},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-038-5},
  ISSN =	{1868-8969},
  year =	{2017},
  volume =	{77},
  editor =	{Aronov, Boris and Katz, Matthew J.},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.SoCG.2017.39},
  URN =		{urn:nbn:de:0030-drops-71985},
  doi =		{10.4230/LIPIcs.SoCG.2017.39},
  annote =	{Keywords: Topological data analysis, Bregman divergences, persistent homology, proximity complexes, algorithms}
}
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