silhouette.profile: Silhouette profile
In SOMMD: Self Organising Maps for the Analysis of Molecular Dynamics Data

silhouette.profile

R Documentation

Silhouette profile

Description

Function to compute the silhouette profile for the Nclus cluster of the SOM neurons

Usage

silhouette.profile(
  SOM,
  Nclus,
  dist_clust = "euclidean",
  clust_method = "complete"
)

Arguments

`SOM`	the SOM object to cluster
`Nclus`	the cluster number on which the silhouette profile will be computed
`dist_clust`	the metric for the distance calculation
`clust_method`	the method for the clustering (passed to the hclust function

Value

A vector of silhouette profile computed with the cluster package

Author(s)

Stefano Motta stefano.motta@unimib.it

Examples

#Read example SOM data
som_model <- readRDS(system.file("extdata", "SOM_HIFa.rds", package = "SOMMD"))
#Compute the silhouette profile
sil_pro <- silhouette.profile(som_model, Nclus=5, clust_method="complete")

SOMMD documentation built on Oct. 2, 2024, 5:07 p.m.