[BioC] Could limma be as good as GeneSpring in nomalization?

Adaikalavan Ramasamy ramasamy at cancer.org.uk
Fri Nov 26 13:41:12 CET 2004

Someone once demonstrated the normalisation procedures in GeneSpring. I
think they had MAS 4.0, MAS 5.0 and RMA at the time. However what was
interesting is that all of this were (visibly) calling R scripts to
BioConductor packages to perform the normalisation.

If the trend continues, then I believe their normalisation procedures
will be a subset of those available in R/BioConductor.

My perception is that people mainly use GeneSpring for graphical
purposes and normalisation is seen as "do once and forget about it".

Others can correct me if I am wrong in my opinion of GeneSpring and

Regards, Adai

On Thu, 2004-11-25 at 08:44, xpzhang wrote:
> Hi,
> Today I read a paper in Plant Cell, and the researcheres used GeneSpring
> 4.2 software (Silicon Genetics, Redwood, CA) to nomalize their data. I
> wonder if anyone here knows something about the software, and if this
> software has more function than limma.
> Thank you very much!

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