basicRMA: Simplified interface to RMA.

In jmacdon/oligo: Preprocessing tools for oligonucleotide arrays

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]

jmacdon/oligo documentation built on Aug. 11, 2020, 12:32 a.m.