Screeplot of GeoSOM superclasses — geosom

The screeplot, helps deciding the optimal number of superclasses. Available for both PAM(pam) and hierarchical clustering(hclust).

Usage

geosom_bestsuperclass(
  gsom,
  nclass = 2,
  method = "pam",
  hmethod = "complete",
  bindcoord = FALSE
)

Arguments

gsom: kohonen object, a SOM created by the spEcula::geosom function.
nclass: number of superclasses to be visualized in the screeplot. Default is 2.
method: Method used for clustering. Hierarchical clustering ("hclust") and Partitioning around medoids ("pam") can be used. Default is Partitioning around medoids.
hmethod: For hierarchicical clustering, the clustering method, by default "complete". See the stats::hclust documentation for more details.
bindcoord: Does the cluster of superclass in GeoSOM consider spatial coordination. Defaul is FALSE.

Value

No return value, called for side effects.

Examples

if (FALSE) {
data(pmc)
set.seed(2004)
g = geosom(data = pmc, coords = c("centroidx","centroidy"),
wt = 3,grid = geosomgrid(6,10),normalize = TRUE)
geosom_bestsuperclass(g)
}