cutoff_first_threshold: cutoff_first_threshold

In peekxc/Mapper: Topological Data Analysis using Mapper

Description

Uses a heuristic similar to the one described in Section 3.1 of the original Mapper paper to cut a given hierarchical tree to produce a partitioning of the data.

Usage

cutoff_first_threshold(hcl, threshold = 0, ...)

Arguments

hcl	hierarchical clustering in the form an 'hclust' object.
threshold	density threshold.
...	Additional parameters passed to density.

Details

The cut value is chosen as the lowest (interpolated) height value where the density of linkage distances is lower than or equal to a given threshold value. Note that while this method offers a smooth alternative to cutoff_first_bin and may provide empirically better clusterings, it's noticeably slower due to the call the density.

Value

The cut-off value to use with cutree.

peekxc/Mapper documentation built on June 12, 2020, 2:14 a.m.