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TDA (version 1.6.2)

Statistical Tools for Topological Data Analysis

Description

Tools for the statistical analysis of persistent homology and for density clustering. For that, this package provides an R interface for the efficient algorithms of the C++ libraries 'GUDHI' , 'Dionysus' , and 'PHAT' . This package also implements the methods in Fasy et al. (2014) and Chazal et al. (2014) for analyzing the statistical significance of persistent homology features.

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Version

Install

install.packages('TDA')

Monthly Downloads

488

Version

1.6.2

License

GPL-3

Maintainer

Jisu Kim

Last Published

April 28th, 2018

Functions in TDA (1.6.2)

gridDiag

Persistence Diagram of a function over a Grid
wasserstein

Wasserstein distance between two persistence diagrams
summary.diagram

print and summary for diagram
TDA-package

Statistical Tools for Topological Data Analysis
maxPersistence

Maximal Persistence Method
sphereUnif

Uniform Sample From The Sphere \(S^d\)
distFct

Distance function
plot.maxPersistence

Summary plot for the maxPersistence function
clusterTree

Density clustering: the cluster tree
multipBootstrap

Multiplier Bootstrap for Persistence Landscapes and Silhouettes
ripsDiag

Rips Persistence Diagram
bootstrapDiagram

Bootstrapped Confidence Set for a Persistence Diagram, using the Bottleneck Distance (or the Wasserstein distance).
dtm

Distance to Measure Function
silhouette

The Persistence Silhouette Function
filtrationDiag

Persistence Diagram of Filtration
ripsFiltration

Rips Filtration
circleUnif

Uniform Sample From The Circle
bottleneck

Bottleneck distance between two persistence diagrams
alphaComplexDiag

Alpha Complex Persistence Diagram
alphaComplexFiltration

Alpha Complex Filtration
kde

Kernel Density Estimator over a Grid of Points
kernelDist

Kernel distance over a Grid of Points
bootstrapBand

Bootstrap Confidence Band
alphaShapeDiag

Persistence Diagram of Alpha Shape in 3d
torusUnif

Uniform Sample From The 3D Torus
alphaShapeFiltration

Alpha Shape Filtration in 3d
plot.clusterTree

Plots the Cluster Tree
funFiltration

Filtration from function values
plot.diagram

Plot the Persistence Diagram
TDA-internal

Internal TDA functions
gridFiltration

Persistence Diagram of a function over a Grid
hausdInterval

Subsampling Confidence Interval for the Hausdorff Distance between a Manifold and a Sample
knnDE

k Nearest Neighbors Density Estimator over a Grid of Points
landscape

The Persistence Landscape Function