Vines and vineyards by updating persistence in linear time

  • Authors:
  • David Cohen-Steiner;Herbert Edelsbrunner;Dmitriy Morozov

  • Affiliations:
  • INRIA, Sophia-Antipolis, France;Duke University, Durham, NC;Duke University, Durham, NC

  • Venue:
  • Proceedings of the twenty-second annual symposium on Computational geometry
  • Year:
  • 2006

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Abstract

Persistent homology is the mathematical core of recent work on shape, including reconstruction, recognition, and matching. Its pertinent information is encapsulated by a pairing of the critical values of a function, visualized by points forming a diagram in the plane. The original algorithm in [10] computes the pairs from an ordering of the simplices in a triangulation and takes worst-case time cubic in the number of simplices. The main result of this paper is an algorithm that maintains the pairing in worst-case linear time per transposition in the ordering. A side-effect of the algorithm's analysis is an elementary proof of the stability of persistence diagrams [7] in the special case of piecewise-linear functions. We use the algorithm to compute 1-parameter families of diagrams which we apply to the study of protein folding trajectories.