[BioC] vsn procedure error

[Isaac Neuhaus]

You have to add the following line before you can use vsn as a 
normalization method.

normalize.AffyBatch.methods <- c(normalize.AffyBatch.methods, "vsn")

Isaac


Edmund Chang wrote:

> Hi all,
> I'm trying out the vsn procedure instead of rma. But i got the 
> following error message. What does "ARG" mean?
> Must the VSN procedure be used with no background correction?  and why 
> is there a warning saying that "multiget is deprecated?
> I installed the R vers.1.9.0 and BioC 1.4.
>
> I appreciate all the help that you can give me,
> Edmund
>
> > eset <- expresso(Data, bgcorrect.method = "mas", normalize.method = 
> "vsn", pmcorrect.method = "pmonly", summary.method = "medianpolish")
> background correction: mas
> normalization: vsn
> PM/MM correction : pmonly
> expression values: medianpolish
> background correcting...done.
> normalizing...Error in match.arg(method, normalize.AffyBatch.methods) :
>        ARG should be one of constant, contrasts, invariantset, loess, 
> qspline, quantiles, quantiles.robust
> In addition: Warning messages:
> 1: 'multiget' is deprecated.
> Use 'mget' instead.
> See help("Deprecated") and help("base-deprecated").
> 2: 'multiget' is deprecated.
> Use 'mget' instead.
> See help("Deprecated") and help("base-deprecated").
> >
>
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