Question: GLM common and trended dispersion EdgeR.
5.9 years ago by
Reema Singh • 570
Reema Singh • 570 wrote:
Dear All, I have a query regarding using estimateGLMCommonDisp and estimateGLMTrendedDisp. It has been mentioned in the EdgeR manual[*Section 2.8.2 :- Estimating Dispersion*] "Note that we need to estimate either common dispersion or trended dispersions prior to the estimation of tagwise dispersions" and "If both exist, the default is to use the trended dispersions". Whereas in case study 4.4[*Section 4.4.4- Estimating the dispersion*] dispersion has been estimated using both common and Trended before computing the tagwise dispersion. Here my queries are:- 1) Is it fine to use both common and trended dispersion? 2) is there any specific conditions to use common or trended dispersion estimation? Kind Regards -- Reema Singh Postdoctoral Research Assistant College of Life Sciences University of Dundee, Dundee DD1 4HN, Scotland United Kingdom http://www.compbio.dundee.ac.uk/people.html [[alternative HTML version deleted]]
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