Hello Bioconductors- 

My apologies for the basic nature of this question.  

In reviewing the archives on dye bias, it was mentioned (Nov. 2005) 
that the simplest way to detect dye effects is to plot M vs. M for the 
dye-swapped arrays.  I have not been able to locate a command line for 
plotting "M vs. M" in limma and am wondering if anyone could 
point me in the right direction?

Thanks in advance,
Heather

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