ClusterComp-class: Class "ClusterComp" a class for testing the stability of...

In clusterStab: Compute cluster stability scores for microarray data

Description

A specialized class representation used for testing the stability of clusters in microarray data.

Objects from the Class

Objects are usually created by a call to clusterComp, although technically objects can be created by calls of the form new("ClusterComp", ...). However, the latter is probably not worth doing.

Slots

clusters:

Object of class "vector" showing the cluster membership for each sample when using all the data.

percent:

Object of class "vector" containing the percentage of subsamples that resulted in the same class membership for all samples.

freq:

Object of class "vector" containing the subsampling percentage used. Defaults to 0.8.

clusternum:

Object of class "vector" containing the number of clusters tested.

iterations:

Object of class "vector" containing the number of iterations performed. Defaults to 100.

method:

Object of class "vector" containing the agglomerative method used. Options include "average", "centroid", "ward", "single", "mcquitty", or "median".

Methods

show

signature(object = "ClusterComp"): Give a nice summary of results.

Author(s)

James W. MacDonald <[e-mail]>

References

A. Ben-Hur, A. Elisseeff and I. Guyon. A stability based method for discovering structure in clustered data. Pacific Symposium on Biocomputing, 2002. Smolkin, M. and Ghosh, D. (2003). Cluster stability scores for microarray data in cancer studies. BMC Bioinformatics 4, 36 - 42.

clusterStab documentation built on Nov. 8, 2020, 8:23 p.m.