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

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