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