[BioC] limma question: lmFit with continuous predictor

Gordon K Smyth smyth at wehi.EDU.AU
Sat Jul 9 23:51:12 CEST 2011

Dear Bonnie,

The issue isn't so much between linear and logistic regression, as between 
differential expression (in the outcome is used to explain expression, as 
in limma) and prediction (in which expression is used to explain the 

I don't work in the prediction and can't recommend packages.

Best wishes

Professor Gordon K Smyth,
Bioinformatics Division,
Walter and Eliza Hall Institute of Medical Research,
1G Royal Parade, Parkville, Vic 3052, Australia.
smyth at wehi.edu.au

On Sat, 9 Jul 2011, Joubert, Bonnie (NIH/NIEHS) [E] wrote:

> I have a related question to limma .  I would like to run a logistic 
> model with my data where I have a dichotomous outcome and the predictor 
> variables are the methylation values (exprs(mldat)).  LmFit is for a 
> linear model only.  Is there a related package for performing logistic 
> regression?
> Thanks,
> Bonnie

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