| designMatrix-deprecated {limma} | R Documentation |
Construct design matrix from RNA target information.
designMatrix(targets, parameters, ref, verbose=TRUE)
targets |
matrix or data.frame with columns Cy3 and Cy5 specifying which RNA was hybridized to each array |
parameters |
matrix specifying contrasts between RNA samples which should correspond to regression coefficients.
Row names should correspond to unique RNA sample names found in targets. |
ref |
character string giving name of common reference RNA if such exists.
Exactly one argument of parameters or ref should be specified. |
verbose |
logical, if TRUE then unique names found in targets will be printed to standard output |
This function is intended to produce a design matrix for use in functions lmFit etc for two-color microarray experiments.
designMatrix produces a design matrix with row names as in targets and column names as in parameters.
uniqueTargets produces a character vector of unique target names from the columns Cy3 and Cy5 of targets.
Gordon Smyth
model.matrix in the base package.
An overview of linear model functions in limma is given by 5.LinearModels.