affy: normalize.constant – R documentation

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normalize.constant

Scale probe intensities

Scale array intensities in a AffyBatch.

normalize.AffyBatch.constant(abatch, refindex=1, FUN=mean, na.rm=TRUE)
normalize.constant(x, refconstant, FUN=mean, na.rm=TRUE)

`abatch`	an instance of the `AffyBatch-class`.
`x`	a vector of intensities on a chip (to normalize to the reference).
`refindex`	the index of the array used as a reference.
`refconstant`	the constant used as a reference.
`FUN`	a function generating a value from the intensities on an array. Typically `mean` or `median`.
`na.rm`	parameter passed to the function FUN.

An AffyBatch with an attribute "constant" holding the value of the factor used for scaling.

L. Gautier <laurent@cbs.dtu.dk>