Cluster a omics_array object: performs the clustering. — unsupervised_clustering,omics

Based on soft clustering performed by the Mfuzz package.

# S4 method for omics_array,numeric,numeric
unsupervised_clustering(
  M1,
  clust,
  mestim,
  M2 = NULL,
  data_log = TRUE,
  screen = NULL,
  heatmap = TRUE,
  new.window = TRUE
)

Arguments

M1: Object of omics_array class.
clust: Number of clusters.
mestim: Fuzzification parameter.
M2: [NULL] Object of omics_array class,
data_log: [TRUE] Should data be logged?
screen: [NULL] Specify `mfrow` parameter.
heatmap: [TRUE] Plot heatmaps?
new.window: [TRUE] Use new window?

Value

An object of class omics_array with the group slot updated by groups deduced from the soft clustering result.

Author

Bertrand Frederic, Myriam Maumy-Bertrand.

Examples


if(require(CascadeData)){
data(micro_S, package="CascadeData")
M<-as.omics_array(micro_S[51:100,],1:4,6)
mc<-unsupervised_clustering_auto_m_c(M)
MwithGrp=unsupervised_clustering(M, 4, mc$m, screen=NULL, heatmap=FALSE, new.window = FALSE)
# Other options
unsupervised_clustering(M, 4, mc$m, screen=c(2,2), heatmap=TRUE, new.window = FALSE)
# Plot the clusters
plot(MwithGrp)
}







#> 
#> Attaching package: ‘gplots’
#> The following object is masked from ‘package:plotrix’:
#> 
#>     plotCI
#> The following object is masked from ‘package:stats’:
#> 
#>     lowess