disentangle {RPointCloud}

Disentangling Rips Diagrams From Their Initial Data Coordinates

Description

The ripsDiag function in the TDA package produces very different results depending on whether you invoke it on a data matrix (expressed in terms of specific data coordinates) or a distance matrix (expressed as abstract indices). This function converts the specific coordinates into indices, allowing one to more easily plot different views of the data structures.

Usage

disentangle(rips, dataset)

Arguments

rips

A Rips diagram produced from a data matrix using the TDA package.

dataset

The original dataset used to create the rips object.

Details

The core algorithm is, quite simply, to recombine the coordinates of a point in the Rips diagram in a manner consistent with their storage in the original data set, and find the index (i.e., row number) of that point.

Value

Returns a Rips diagram nearly identical to the one that would be produced if the ripsDiag function had been invoked instead on the Euclidean distance matrix.

Author(s)

Kevin R. Coombes <[e-mail]>

Examples

data(cytof)
fixed <- disentangle(Arip, AML10.node287)