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Phguardiol@aol.com
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@phguardiolaolcom-152
Last seen 9.6 years ago
Hi,
few questions:
1- could it be possible to get the IQR values separately when using
the mva.pairs function ? That would be useful if a large number of
chips are run at the same time and one wants to compare the different
normalization methods ?
2- is there a way to modify the name of the chip inside the MA plot ?
3- should I care about getting with loess normalization the following
warning message: k-d tree limited by memory . ncmax=5002 9exact
process was: data2 <- expresso(data, normalize.method="loess",
bgcorrect.method="rma", summary.method="medianpolish",
pmcorrect.method="pmonly")
4- where can I find more informaiton about the different
summary.method available in affy ? some are completely unkown to me
and I d like to learn about these
5- about normalization what I have understood is that some tools like
MA plots can tell you that you have not "normalized enough" your data,
but is there a way to see that you have gone too far with the process
? Maybe that s a stupid question....sorry !
thanks for your help anyway
Philippe