I am currently reading a paper of Bolstad "A comparison of normalization nethods for high density oligonucleotide array data based on variance and bias: and I have some questions about the result-section.
Plotting the log of the ratio of variances versus the average of the log of the mean (expression measure across arrays)..
"the log of the ratio of variances" is then log[ Variance(Quantil) / Variance(unnormalized) ]
"the average of the log of the mean" is then 0.5 [log (Mean(Quantil) Mean(unnormalized) ]
Is it right? Because a few lines later he mentions: ...the first method ib the ratio has the smaller ratio...
has the smaller ration of what? reatio of variance(Qunatil) and mean(Quantil)? but we did not compare that.