[BioC] best package for cDNA single channel microarrays

[Naomi Altman]

For some things you might want to do, putting a matrix of 1's in R 
will solve the problem.  But this will not work for 
normalization.  If the array manufacturer does not provide a 
normalization routine, I usually use quantile normalization which is 
available in limma.  You probably want to look at the background 
correction methods, to see what might be right for your array.

--Naomi

At 10:33 AM 3/2/2007, Artur Veloso wrote:
>Hi All,
>
>I am working with cDNA microarrays that were run only on one channel and I
>have been trying to analyze them using the limma package. By changing the
>read.maimages fucntion I was able to upload my data, but most functions
>won't work with that RGList created due to the absence of a red component.
>
>Is there a package that is more fit for such an analyses? Am I overlooking
>an important function? Any ideas on how should I get past this?
>
>Thanks very much and sorry for such a basic question.
>Artur
>
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>
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Naomi S. Altman                                814-865-3791 (voice)
Associate Professor
Dept. of Statistics                              814-863-7114 (fax)
Penn State University                         814-865-1348 (Statistics)
University Park, PA 16802-2111