backgroundCorrect.SNP {beadarraySNP} | R Documentation |
Perform background correction on Illumina Golden Gate bead arrays
backgroundCorrect.SNP(object,method=c("none", "subtract", "half", "minimum", "edwards", "normexp", "rma"),offset = 0)
object |
SnpSetIllumina object |
method |
character, method of correction |
offset |
numeric, constant to add after correction |
Code has been ported from the limma
package. The matrices Gb
and
Rb
should be available in the arrayData
slot of the object.
This function returns an SnpSetIllumina
object with background
corrected values in the G
and R
.
Jan Oosting, based on limma
package by G. Smyth
SnpSetIllumina-class
, backgroundCorrect
,
backgroundEstimate
, normalizeBetweenAlleles.SNP
,
normalizeWithinArrays.SNP
## Not run: data.bg<-backgroundCorrect.SNP(data.raw,"subtract")