expressionCluster: Clustering of Gene Expression Data

Description Usage Arguments Details Value See Also

Description

Perform cluster analysis on gene expression data, usually transcriptomes.

Usage

1
expressionCluster(x, useLog = TRUE, normalize = TRUE, FUN = diana)

Arguments

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

Details

Uses the cluster package, to perform a hierarchical clustering of the given samples.

Value

a cluster object of type dependent on the FUN provided, suitable for plotting, etc.

See Also

agnes, diana, for clustering methods. expressionFileSetToMatrix, for turning sets of transcript files into one matrix.


robertdouglasmorrison/DuffyTools documentation built on Dec. 14, 2018, 3:05 p.m.