oligo (version 1.36.1)

basicRMA: Simplified interface to RMA.

Description

Simple interface to RMA.

Usage

basicRMA(pmMat, pnVec, normalize = TRUE, background = TRUE, bgversion = 2, destructive = FALSE, verbose = TRUE, ...)

Arguments

pmMat

Matrix of intensities to be processed.

pnVec

Probeset names.

normalize

Logical flag: normalize?

background

Logical flag: background adjustment?

bgversion

Version of background correction.

destructive

Logical flag: use destructive methods?

verbose

Logical flag: verbose.

...

Not currently used.

Value

• Matrix.

Examples

set.seed(1)
pms <- 2^matrix(rnorm(1000), nc=20)
colnames(pms) <- paste("sample", 1:20, sep="")
pns <- rep(letters[1:10], each=5)
res <- basicRMA(pms, pns, TRUE, TRUE)
res[, 1:3]