anovaplate {OLIN} | R Documentation |
This function performs an one-factorial analysis of variance assessing microtiter plate-dependent bias for a single array
anovaplate(obj,index)
obj |
object of class “marrayRaw” or “marrayNorm” |
index |
index of array to be tested |
The function anovapin
performs a one-factorial ANOVA for objects of class “marrayRaw” or
“marrayNorm”. The predictor variable is the corresponding plate index as stored in the maPlate
slot of obj
;
the response variable is the logged fold-change M=(log2(Ch2)-log2(Ch1))
.
The null hypothesis is equal mean(M)
of groups of spots derived from the same microtiter plate i.e.
a spot's M does not dependent on the plate of origin.
The model formula used is M ~ (plate.index - 1) (without an intercept term).
The return value is a list of summary statistics of the fitted model as produced by summary.lm
.
For example, the squared multiple correlation coefficient R-square equals the proportion
of the variation of M
that can be explained by the variation of plate index (based on the chosen
ANOVA model.)
Matthias E. Futschik (http://itb.biologie.hu-berlin.de/~futschik)
# CHECK RAW DATA FOR INTENSITY-DEPENDENT BIAS data(sw) print(anovapin(sw,index=1)) # CHECK DATA NORMALISED BY OLIN FOR INTENSITY-DEPENDENT BIAS data(sw.olin) print(anovapin(sw.olin,index=1))