[BioC] edgeR dispersion value

[Tiago Jesus [guest]]

Hi,

I am a PhD student the University of Lisbon and I am performing several analysis of differential expression (using edgeR). Reading edgeR manual I am not sure about the dispersion value that I should use. I am comparing libraries of the same species (non model species) subjected to different experimental conditions. 

In the manual you say that "Typical values for the common BCV (square-root-dispersion) for datasets arising from well-controlled experiments are 0.4 for human data, 0.1 for data on genetically identical model organisms or 0.01 for technical replicates."

The species that I am studying is not Homo sapiens and despite it is the same species (and then genetically identical), individuals to be compared are not clones of each other. Can you please help me so I can decide which dispersion value to use.

Thank you for your attention,

Tiago Jesus

 -- output of sessionInfo(): 

none

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