[BioC] EdgeR- how to work PARTIALLY without replicates

[Gordon K Smyth]

Dear Teresa,

edgeR handles the situation that you describe automatically without any 
need for special action on your behalf.  It has always done so, going back 
before DESeq and other similar packages existed.

This situation is not mentioned specifically in the edgeR user's guide 
because there is no need for any special consideration.  It is just 
handled organically by the edgeR approach.  You just proceed as for any 
edgeR analysis.

Best wishes
Gordon

> Date: Fri, 12 Apr 2013 18:01:32 -0400
> From: Teresa <t.davoli at gmail.com>
> To: bioconductor at r-project.org
> Subject: [BioC] EdgeR- how to work PARTIALLY without replicates
>
> I am relatively new to R and EdgeR.
> In the similar package DEseq, there is the possibility of analyzing a dataset containing replicates only for one condition, but not for the other.
> In this DEseq case only the condition with replicates is considered to compute the dispersion.
> In the part of the User Guide of EdgeR regarding "working without duplicates" this is not mentioned.
> I am asking if something similar is possible with EdgeR and how I should proceed.
> Thanks,
> Teresa

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