[BioC] [combat] par.priot=FALSE

[Johnson, William Evan]

In practice, you only need to use the non-parameteric prior when you have a very large deviation from the parametric prior. In most cases, the results are nearly identical within a 1-2% difference in the expression values. 

In your case, I would recommend just trying it and seeing if it makes a difference. If it does, trust the non-parametric.

Evan


On Jun 13, 2013, at 6:32 AM, Arne Müller wrote:

> Hello,
> 
> I've a  bias of the delta.hat parameter when looking at the prior density plots (par.prior = T). The empirical data has a long tail and therefore deviates from the normal data. Would it make sense to use par.prior=F in this case? When is the nonparametric estimate recommended?
> 
>     thanks a lot,
> 
>    Arne
>  
>