mappeR (version 2.4.0)

local_hierarchical_clusterer: Local Longevity Clusterer

Description

Create a dude to perform hierarchical clustering in a local context using the hclust package.

Usage

local_hierarchical_clusterer(method)

Value

A function that inputs a list of distance matrices and returns a list containing one vector per matrix, whose element names are data point names and whose values are cluster labels (within each patch).

Arguments

method

A string to pass to hclust to tell it what kind of clustering to do.

Details

This clusterer determines cutting heights for dendrograms by cutting them individually, 5% above the merge point with the longest unbroken gap until the next merge point.

Examples

data = data.frame(x = sapply(1:1000, function(x) cos(x)) + runif(1000, 0, .25),
y = sapply(1:1000, function(x) sin(x)) + runif(1000, 0, .25))
projx = data$x
names(projx) = row.names(data)

dists = dist(data)

num_bins = 10
percent_overlap = 25

cover = create_width_balanced_cover(min(projx), max(projx), num_bins, percent_overlap)

create_1D_mapper_object(data, dists, projx, cover, local_hierarchical_clusterer("mcquitty"))