optpart: disdiam – R documentation

Become an expert in R — Interactive courses, Cheat Sheets, certificates and more!

disdiam

Dissimilarity Diameters of a Partition

Description

Calculates the diameter (maximum within-cluster dissimilarity) of all clusters in a partition, as well as the average diameter across all clusters.

Usage

disdiam(x,dist,digits)
## S3 method for class 'stride'
disdiam(x,dist,digits=3)
## S3 method for class 'disdiam'
print(x, ...)

Arguments

`x`	a vector of integers or an object of class ‘clustering’, ‘partition’, ‘partana’, or ‘stride’
`dist`	an object of class ‘dist’ from `dist`, `dsvdis`, or `vegdist`
`digits`	the number of significant digits reported in the output
`...`	ancillary arguments to the print function

Details

disdiam is a cluster validation routine, and calculates the diameter (maximum within-cluster dissimilarity) of each cluster, as well as the average diameter of across all clusters of size greater than one.

Value

A list with components:

`diameters`	a data.frame with clusters as rows, and cluster ID, cluster size, and diameter as cols
`mean`	the weighted mean diameter of clusters of size greater than one. The mean is weighted for cluster size.

Author(s)

David W. Roberts droberts@montana.edu

Examples

data(shoshveg)
dis.bc <- dsvdis(shoshveg,'bray')
opt.5 <- optpart(5,dis.bc)
disdiam(opt.5,dis.bc)

optpart

Optimal Partitioning of Similarity Relations

v3.0-3

GPL (>= 2)

Authors

David W. Roberts <droberts@montana.edu>

Initial release