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

silhouette.score

R Documentation

Silhouette score

Description

Function to compute the silhouette score for the clustering of SOM neurons

Usage

silhouette.score(
  SOM,
  dist_clust = "euclidean",
  clust_method = "complete",
  interval = seq(2, 30)
)

Arguments

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

Value

A vector with the silhouette scores for all the frames

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_score <- silhouette.score(som_model, clust_method="complete", interval=seq(2,8))

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