[BioC] Using different processed data in limma package

Mari Miyamoto mmiyamoto_bc at yahoo.co.jp
Tue Dec 21 13:22:30 CET 2004

Hello again,

I could manage to give the color for the MA plot using

If possible I still want to know how to obtain those
values used in plotMA.


--- Mari Miyamoto <mmiyamoto_bc at yahoo.co.jp> 
Hi all,
> I've been using limma with Agilent data.
> By following the user guide, I could make MA plot
> with
> color based on information of the Spot Types File
> (STF). 
> I'd like to import data which use different data
> processing and give them color using the STF.
> When I import those value just using read.table, I
> miss
> the STF information and can
> ’t give the color to the MA plot. 
> If I can convert value of M and A those are used in
> plotMA
> in limma, I will be able to replace them but I don't
> know
> how to obtain M and A value which are used for
> plotMA.
> If I can use rProcessedSignal and gProcessedSignal
> which
> are originally in the output of the Feature
> Extraction
> software, that would be fine. 
> If anyone has any idea, that would be great helpful.
> Thank you.
> Mari
> __________________________________
> Upgrade Your Life
> _______________________________________________
> Bioconductor mailing list
> Bioconductor at stat.math.ethz.ch
> https://stat.ethz.ch/mailman/listinfo/bioconductor


Upgrade Your Life

More information about the Bioconductor mailing list