Cluster prototypes

Cluster the prototypes from the Self Organizing Map Clustering is done using hierarchical clustering with the average linkage function

Usage

clusterPrototypes(somModel, numClusters = NULL)

Arguments

somModel

the self organizing map

numClusters

the number of clusters to generate

Value

the cluster labels

Examples

data("risom_dat")
risomMarkers <- c(
  "CD45", "SMA", "CK7", "CK5", "VIM", "CD31", "PanKRT", "ECAD"
)
prototypes <- generatePrototypes(risom_dat[, risomMarkers])
#> Now Generating the Self Organizing Map Grid
#> Optimal Grid Size is: 5
#> Now Running the Self Organizing Map Model
clusters <- clusterPrototypes(prototypes, 23)
#> Now Clustering the Prototypes
#> Loading required namespace: fastcluster
#> Now Mapping Clusters to the Original Data
#> The Prototypes have been Clustered and Mapped Successfully