Description Usage Arguments Value Examples
create_assay makes a new object of class assay. You should pass this object to
create_assay(m, ctrl = NA)
The assay you want to be corrected
An optional boolean array of the same dimensions as
assay The created assay object. It containts the following fields:
n The HTS matrix of raw measurements
ctrl The binary matrix of control wells
biasPositions The binary matrix where 1:well is biased, 0:well is unbiased, as suggested by Mann-Whitney test
mCorrected The HTS matrix of corrected measurements, initilized to a zero array, and subsequently storing the corrected version of
biasType Vector of length p, where p is the number of plates. It tells, for each plate of the assay, A:Additive trend, M:Multiplicative trend, U:Undetermined trend and C:Error-free plate.
biasModel Vector of length p, where p is the number of plates. It tells, for each plate of the assay, the most likely spatial bias model (1 through 6)
biasConf Vector of length p, where p is the number of plates. It tells, for each plate of the assay, the confidence in the model, (0 - lowest to 3- highest). It is computed by counting the number of bias models (additive or mutliplicative) which agree together.
1 2 3 4
# Fictive 8x12x5 assay assay<-create_assay(m) # Plate 7 taken from Carralot et al. 2012 assay<-create_assay(plate7)
Loading required package: RColorBrewer Loading required package: lattice Loading required package: latticeExtra Loading required package: kSamples Loading required package: SuppDists Loading required package: RVAideMemoire *** Package RVAideMemoire v 0.9-73 ***
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