> Dear Robert,
>
> It seem to me that the specification of the annotation name is not  
> consistent in functions getHapmapProbabilities and callEmission:
>
> In callEmiision one condition is about the annotation name  
> "mapping250k.Nsp"
> while in the function getHapmapProbabilities is about  
> "pd.mapping250k.Nsp".

Hi Olivier,

Agree that the naming should be consistent, but since neither of  
these functions are exported  (and are not really meant to be called  
by the user) I just haven't got around to making the internal naming  
consistent.

I'd like to try to help you figure out what is causing the error (I  
think I have an idea), but I'll need more information than what  
you've provided here.  I suggest sending the relevant part of your  
analysis off-list.  Once we get a handle on what is causing the  
problem, we can post the error and the fix.

Best wishes,

Rob


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