expressionCluster | R Documentation |
Perform cluster analysis on gene expression data, usually transcriptomes.
expressionCluster(x, useLog = TRUE, normalize = TRUE, FUN = diana)
x |
numeric matrix of gene expression data, with a row for each gene/oligo and a column for each sample |
useLog |
logical, should the data be log transformed before clustering |
normalize |
logical, should the data be normalize before clustering, by scaling to make all columns have equal total expression. |
FUN |
clustering function to use |
Uses the cluster
package, to perform a hierarchical clustering of the
given samples.
a cluster object of type dependent on the FUN
provided, suitable for
plotting, etc.
agnes
, diana
, for clustering methods.
expressionFileSetToMatrix
, for turning sets of transcript files into one matrix.
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