runClara {flowSpy}R Documentation

runClara

Description

Clustering a data matrix into k clusters

Usage

runClara(
  object,
  k = 25,
  metric = c("euclidean", "manhattan", "jaccard"),
  stand = FALSE,
  samples = 5,
  scale = TRUE,
  trace = 0,
  verbose = FALSE,
  ...
)

Arguments

object

an FSPY object

k

numeric. The number of clusters. It is required that 0 < k < n where n is the number of observations (i.e., n = nrow(x)).

metric

character. string specifying the metric to be used for calculating dissimilarities between observations.

stand

logical. Indicating if the measurements in x are standardized before calculating the dissimilarities.

samples

numeric. Say N, the number of samples to be drawn from the dataset. The default is N = 5,

scale

logical. Whether to use scaled data in kmeans.

trace

numberic. Indicating a trace level for diagnostic output during the algorithm

verbose

logical. Whether to print calculation progress.

...

Parameters passing to clara function

Value

an FSPY object with clara.id in meta.data

See Also

clara

Examples

if (FALSE) {
fspy <- runClara(fspy, k = 25, verbose = TRUE)
}
[Package flowSpy version 1.0.4 Index]