[BioC] Limma Factorial design for two color data
naomi at stat.psu.edu
Sun Nov 2 16:23:20 CET 2008
I generally find it easier to do a single channel analysis for these
more complicated designs. Just follow the manual for single channel
and you can then use the treatments directly to form the contrasts.
At 12:14 PM 10/31/2008, Adrian Johnson wrote:
>sorry for re-sending the my question. Lookinf forward for some help. thanks.
>I searched bioconductor list archive and could not find appropriate
>modelmatrix and contrast matrix fitting
>for the following type of data from two color.
> > targets
> Array Cy3 Cy5 Treatment Shock
>1 Array1 WT MU Y H
>2 Array2 WT MU N C
>3 Array3 WT MU Y H
>4 Array4 MU WT N C
>5 Array5 WT MU Y C
>6 Array6 WT MU Y C
>I want to compare (MU.WT-Y) - (MU.WT-N)
>How can I design my model matrix and fit contrasts.
>Could some one help me please.
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Naomi S. Altman 814-865-3791 (voice)
Dept. of Statistics 814-863-7114 (fax)
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