[BioC] Different results Limma vs LimmaGUI?

J.delasHeras at ed.ac.uk J.delasHeras at ed.ac.uk
Wed Apr 12 13:36:27 CEST 2006

Quoting Gordon Smyth <smyth at wehi.edu.au>:

> limma 2.2.0 was the version of limma at the time of last Bioconductor
> release, but it is not the latest version of limma. Actually limma
> 2.4.13 is available for R 2.2.0. Please read Section 2.2
> (Installation) of the Limma User's Guide for why this is so.

ah! you are right, of course.
Thanks for pointing that out. I now have the latest versions running, 
downloaded from

> There is no reason that I know of that should cause limma 2.02 and
> limma 2.2.0 to give different results for the B-statistic. There was
> a small change made in limma 2.4.0, and another in limma 2.4.13.
> You should probably become familiar with the limma change log. Type
> changeLog(n=280) at the command line, and you'll see an entry for
> limma 2.4.0 dated 11 Nov 2005.

Thank you.

I'll triple-check carefully to see if I am specifying anything 
differently on my limma or
limmaGUI procedures...


Dr. Jose I. de las Heras                      Email: J.delasHeras at ed.ac.uk
The Wellcome Trust Centre for Cell Biology    Phone: +44 (0)131 6513374
Institute for Cell & Molecular Biology        Fax:   +44 (0)131 6507360
Swann Building, Mayfield Road
University of Edinburgh
Edinburgh EH9 3JR

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