ZScorePerScreen {RNAither} | R Documentation |
ZScore normalization not per plate, but per experiment (see Value and References)
ZScorePerScreen(header, dataset, listOfArgs)
header |
the header of a dataset file generated with generateDatasetFile |
dataset |
an R data frame generated with generateDatasetFile |
listOfArgs |
a list containing:
- a character string specifying the column whose values will be used for normalization - a flag specifying whether controls should be excluded for the computation of the median and median absolute deviation (1) or not (0). |
The ZScore is defined as the quotient of the difference between an intensity value and the median of the experiment, and of the median absolute deviation.
Returns a list containing:
header |
The new header (with an added entry about the normalization procedure in the comments) |
dataset |
The new dataset with normalized values. The old values are saved in an extra column of the dataset with the suffix ".old" |
N. Malo et al. Statistical practice in high-throughput screening data analysis. Nature Biotech, 24(2): 167-175, 2006.
data(exampleHeader, package="RNAither") data(exampleDataset, package="RNAither") normres <- ZScorePerScreen(header, dataset, list("SigIntensity", 1)) newheader <- normres[[1]] newdataset <- normres[[2]]