[BioC] time series analysis with limma package

Heidi Dvinge heidi at ebi.ac.uk
Tue Jul 19 11:29:48 CEST 2011

On 18 Jul 2011, at 18:23, Xiaokuan Wei wrote:

> Dear List,
> I have been thinking with using limma package to perform some time  
> series
> analysis. There is a simple example in limma's manual. However, it  
> seems that
> the analysis in the manual does not consider the repeated  
> measurement effect for
> time series data.

Hi Xiaokuan,

this doesn't answer your question directly, but depending on how many  
time points you have, you might want to consider using the package  
"timecourse" instead. It's using similar principles to limma, and  
allows for repeat measurement of one/multi-sample longitudinal data.


> I am wondering if limma has developed any method to deal with such  
> time series
> data. Or I have to manually add random effects term in the model.  
> But I really
> don't know how to do this. Could some one or Gordon clarify on this  
> topic?
> My apology first, if this topic has been intensively discussed.
> Thank you.
> Xiaokuan
> 	[[alternative HTML version deleted]]
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