R-universe search: topic:topological-data-analysis

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rrrlw

TDAstats:Pipeline for Topological Data Analysis

A comprehensive toolset for any useR conducting topological data analysis, specifically via the calculation of persistent homology in a Vietoris-Rips complex. The tools this package currently provides can be conveniently split into three main sections: (1) calculating persistent homology; (2) conducting statistical inference on persistent homology calculations; (3) visualizing persistent homology and statistical inference. The published form of TDAstats can be found in Wadhwa et al. (2018) <doi:10.21105/joss.00860>. For a general background on computing persistent homology for topological data analysis, see Otter et al. (2017) <doi:10.1140/epjds/s13688-017-0109-5>. To learn more about how the permutation test is used for nonparametric statistical inference in topological data analysis, read Robinson & Turner (2017) <doi:10.1007/s41468-017-0008-7>. To learn more about how TDAstats calculates persistent homology, you can visit the GitHub repository for Ripser, the software that works behind the scenes at <https://github.com/Ripser/ripser>. This package has been published as Wadhwa et al. (2018) <doi:10.21105/joss.00860>.

Maintained by Raoul Wadhwa. Last updated 3 years ago.

data-science ggplot2 homology homology-calculations homology-computation joss persistent-homology pipeline ripser tda topological-data-analysis topology topology-visualization visualization cpp

40 stars 8.30 score 46 scripts 4 dependents

tdaverse

ripserr:Calculate Persistent Homology with Ripser-Based Engines

Ports the Ripser <arxiv:1908.02518> and Cubical Ripser <arxiv:2005.12692> persistent homology calculation engines from C++. Can be used as a rapid calculation tool in topological data analysis pipelines.

Maintained by Jason Cory Brunson. Last updated 16 hours ago.

algebraic-topology cohomology cpp cubical-complex persistent-homology pixel point-cloud r-language r-programming rcpp rips-complex ripser simplicial-complex simplicial-homology topological-data-analysis topology vietoris-complex voxel cpp

8 stars 6.16 score 6 scripts

tdaverse

tdaunif:Uniform Manifold Samplers for Topological Data Analysis

Uniform random samples from simple manifolds, sometimes with noise, are commonly used to test topological data analytic (TDA) tools. This package includes samplers powered by two techniques: analytic volume-preserving parameterizations, as employed by Arvo (1995) <doi:10.1145/218380.218500>, and rejection sampling, as employed by Diaconis, Holmes, and Shahshahani (2013) <doi:10.1214/12-IMSCOLL1006>.

Maintained by Jason Cory Brunson. Last updated 10 months ago.

manifolds sampler tda topological-data-analysis topological-statistics

3 stars 4.95 score 8 scripts

peekxc

simplextree:Provides Tools for Working with General Simplicial Complexes

Provides an interface to a Simplex Tree data structure, which is a data structure aimed at enabling efficient manipulation of simplicial complexes of any dimension. The Simplex Tree data structure was originally introduced by Jean-Daniel Boissonnat and Clément Maria (2014) <doi:10.1007/s00453-014-9887-3>.

Maintained by Matt Piekenbrock. Last updated 1 years ago.

rcpp simplicial-complex topological-data-analysis topology cpp

15 stars 4.56 score 16 scripts 1 dependents