Thx a lot, Steve! I thought I saw this somwhere before. Best Ming
 

> Date: Wed, 19 Feb 2014 09:01:11 -0800
> Subject: Re: [BioC] Problem in limma-voom
> From: lianoglou.steve@gene.com
> To: yi02@hotmail.com
> CC: smyth@wehi.edu.au; bioconductor@r-project.org
> 
> Hi,
> 
> On Wed, Feb 19, 2014 at 7:13 AM, Ming Yi <yi02@hotmail.com> wrote:
> > By the way, a small quick question: in the topTable result of limma, the logFC is base 2 or is natural base (2.71828 etc)? I though was base 2, just want to confirm.
> 
> Take a look at the help file from ?topTable under the Value section,
> which is where the output is described.
> 
> Specifically, for the logFC output:
> 
> """
> estimate of the log2-fold-change corresponding to the effect or
> contrast (for topTableF there may be several columns of
> log-fold-changes)
> """
> 
> -steve
> 
> -- 
> Steve Lianoglou
> Computational Biologist
> Genentech
 		 	   		  
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