I have more information on this question:

I was able to access previous version of R2.7.2/BioConductor2.2 and  
used the same code in the vignette of "gcrma" with the "Dilution"  
data, the expression values were different between versions of R/BioC.

Anybody knows anything about it?

Thank you,
Wen

Begin forwarded message:

> From: Wen Huang <whuang.ustc@gmail.com>
> Date: December 22, 2008 1:18:29 PM CST
> To: bioconductor@stat.math.ethz.ch
> Subject: discrepancies using different gcRMA
>
> Hi,
>
> I have a question about the difference between different versions of  
> gcRMA.
>
> I recently (a couple weeks ago) updated R and Bioconductor and tried  
> to reproduce some analysis I have done back in the summer. I found  
> that the expression values I got using simply the function "gcrma()"  
> were different. I checked the documentation and it says a few  
> options were added but not really helpful to my question.
>
> I just wonder if anybody knows a quick way to add some options to  
> the new version of gcRMA and reproduce what the old gcRMA did before.
>
> Thanks a lot,
> Wen


	[[alternative HTML version deleted]]

