[BioC] difference between affy package v1.2.13 and v1.3.28

Ben Bolstad bolstad at stat.berkeley.edu
Thu Oct 7 05:20:42 CEST 2004

There should be no difference in the RMA expression measures produced by
expresso(), rma() or RMAExpress in current versions and in all versions
of the affy package since 1.2.13. ie the claim would also hold true for

On Wed, 2004-10-06 at 08:04, Nissa Boucherot wrote:
> Dear Bioconductor-user and developers,
> I have used  the software RMAexpress (version 0.2)
> written by Ben Bolstad
> (http://www.stat.berkeley.edu/users/bolstad/RMAExpress/RMAExpress.html)
> and normalized with it Affymetrix HG-U133A chips. In
> the RMAexpress -homepage is written, that I should get
> the same result as the “expresso” and “rma” from
> Bioconductor-affy-package version 1.2.13. Does anyone
> knows, if there is a difference between the “expresso”
> and “rma” from affy-package version 1.2.13 and the
> version 1.3.28?  And if yes, what kind of difference?
> Will I obtain than complete different expression
> value?
> I have to analyze my normalized data (with RMAexpress)
> with data normalized with the affy-package version
> 1.3.28. And I am afraid, I am not obtaining the same
> expression value. Which one are the “right“ one?
> Thank you for any kind of help!
> nissa
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Ben Bolstad <bolstad at stat.berkeley.edu>

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