[BioC] overall p-value for multilevel factor in 2 way ANOVA

[James W. MacDonald]

Hi Bernard,

bernard north wrote:
> Dear Bioconductor
> 
> 
> 
> if I had a 2 way ANOVA to analyse, say gender and treatment, where
> treatment had 3 or more levels (eg placebo, drug1 and drug2)
> 
> would there be anu way using the limma output object of obtaining the
> overall p-value for an effect of treatment (as you'd get from an
> ANOVA table as an F statistic with 2 df )- or can we only obtain
> p-values for contrasts eg each drug vs placebo

Have you read the limma User's Guide? I believe section 8.7 is directly 
concerned with this issue.

Best,

Jim


> 
> 
> 
> many thanks in advance
> 
> _________________________________________________________________ 
> Celebrate a decade of Messenger with free winks, emoticons, display
> pics, and more. http://clk.atdmt.com/UKM/go/157562755/direct/01/ 
> [[alternative HTML version deleted]]
> 
> _______________________________________________ Bioconductor mailing
> list Bioconductor at stat.math.ethz.ch 
> https://stat.ethz.ch/mailman/listinfo/bioconductor Search the
> archives:
> http://news.gmane.org/gmane.science.biology.informatics.conductor

-- 
James W. MacDonald, M.S.
Biostatistician
Douglas Lab
University of Michigan
Department of Human Genetics
5912 Buhl
1241 E. Catherine St.
Ann Arbor MI 48109-5618
734-615-7826