[BioC] 2x2 factorial in Limma

[Mark W Kimpel]

Dermot,

The limma users guide has really been expanded over the years and 
contains an excellent example of just what you need.

In R, do:
library(limma)
limmaUsersGuide()

then go to page 45 of the guide and read the whole section. I use the 
treatment-contrast parameterization presented on page 47.

Good luck,

Mark




---

Mark W. Kimpel MD  ** Neuroinformatics ** Dept. of Psychiatry
Indiana University School of Medicine

15032 Hunter Court, Westfield, IN  46074

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Dermot Morris wrote:
> Hi Mark,
> 
>  
> 
> I came across a message you posed in the Bioconductor archives 
> requesting info on 2 x2 factorial designs in limma.
> 
> I am trying to use limma in a 2x2 factorial using proteomic data also. 
> Have you come up with a satisfactory design in limma. I would be 
> interested in
> 
> Using design matrix or similar for my work.
> 
>  
> 
> Regards, Dermot
> 
>  
> 
> Dr. Dermot Morris,
> 
> Principal Research Officer,
> 
> Teagasc,
> 
> Animal Production Research Centre,
> 
> Mellows Campus,
> 
> Athenry,
> 
> Co. Galway,
> 
> Ireland.
> 
> TEL: +353 91 845839
> 
> FAX :+353 91 845847
> 
> CEL :+353 87 2206113
> 
> email: dermot.morris at teagasc.ie <mailto:dermot.morris at teagasc.ie>
> 
>  
>