Hi,

I am using affypdnn to obtain estimates of GSB and NSB from a HGU95av2 chip.
While using the function pmcorrect.pdnn and pmcorrect.pdnnpredict in a for
loop on all the genes for which energy parameters are available in
hgu95av2.pdnn.params, I encountered the following error:
At one particular gene ("1153_f_at") and for all other genes beyond this for
which I tried to calculate GSB and GSB+NSB+Background, it says

Error in sum((Ntop/lambda[[gene.i]][, cel.i])/sum(1/Sg.gene/lambda[[gene.i]][,
:
        dim<- : dims [product 16] do not match the length of object [0]
In addition: There were 50 or more warnings (use warnings() to see the first
50)


Can you please tell me what could be the reason for this error? I am using
the energy parameters file "hgu95av2.pdnn.params" and the
RIri-BA-YCB617-1a-U95Av2 CEL file.

Also for the genes for which these values are computed, I get the estimates
along with a lot of attributes. Which particular value would be an estimate
of the GSB and the total intensity?

Thanks,
Kathakali

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