tgsNormalization {AgiMicroRna} | R Documentation |
Normalization between arrays of the Total Gene Signal. The function is a wrapper of the 'limma' 'normalizeBetweenArrays' with ('none','quantile','scale') methods
tgsNormalization(ddTGS, NORMmethod = "quantile", makePLOTpre = FALSE, makePLOTpost = FALSE, targets,verbose=FALSE)
ddTGS |
uRNAList, containing the output from |
NORMmethod |
character specifying the normalization method, 'none','quantile','scale'. The
default is |
makePLOTpre |
logical, if |
makePLOTpost |
logical, if |
targets |
data.frame with the target structure |
verbose |
logical, if |
A uRNAList object containing the Normalized Total Gene Signal in log 2 scale
Pedro Lopez-Romero
Smyth, G. K. (2005). Limma: linear models for microarray data. In: 'Bioinformatics and Computational Biology Solutions Using R and Bioconductor'. R. Gentleman, V. Carey, S. Dudoit, R. Irizarry, W. Huber (eds), Springer, New York, pages 397 - 420
Smyth, G. K., and Speed, T. P. (2003). Normalization of cDNA microarray data. Methods 31, 265-273.
## Not run: data(dd.micro) data(targets.micro) ddTGS=tgsMicroRna(dd.micro,half=TRUE,makePLOT=FALSE,verbose=FALSE) ddNORM=tgsNormalization(ddTGS,'quantile', makePLOTpre=FALSE,makePLOTpost=TRUE,targets.micro,verbose=TRUE) graphics.off() ## End(Not run)