designMatrix {limma} | R Documentation |
Construct a design matrix from the data.frame of target information. Currently only for two color array experiments using a common reference.
designMatrix(targets, ref)
targets |
data.frame with columns Cy3 and Cy5 specifying which RNA was hybridized to each array |
ref |
character string giving name of reference RNA |
There is a need for design matrices for direct two-color design and for single-channel experiments but, this version is only for reference designs.
The design matrix.
Gordon Smyth
An overview of linear model functions in limma is given by 5.LinearModels.
targets <- data.frame(Cy3=c("Ref","Control","Ref","Treatment"),Cy5=c("Control","Ref","Treatment","Ref")) designMatrix(targets, "Ref")