Description Usage Arguments Details Value See Also Examples
This function plots the silhouette
values of successive clusterings.
1 | plot.ORdensity(object, k = object@bestKclustering, ...)
|
object |
An object of |
K |
Integer value to indicate the maximum number of partitions to check
along the successive clusterings. By default |
Once the potential DE genes are identified, the real DE genes and the not real DE genes or
false positives must be distinguished and it is carried out clustering all the potential DE genes
(see findDEgenes
). The clustering algorithm is pam
and by default
the number of clusters in the partition is obtained by silhouette
.
Nevertheless, silhouetteAnalysis
allows to check whether there is a clear best number for the partition
or the average silhouettes values are
rather similar.
#' @references Rousseeuw, P. J. (1987). Silhouettes: a graphical aid to the interpretation and validation of cluster analysis. Journal of computational and applied mathematics, 20, 53-65.
Displays a plot of the average silhouette width along with the number of clusters in the partition.
If assigned to an object, it returns a vector of length K
with the average
silhouette values.
summary.ORdensity
, preclusteredData
,
silhouetteAnalysis
,
findDEgenes
, ORdensity
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