[BioC] DESeq error with glm.fit during estimateDispersions

[Wolfgang Huber]

Hi Chris

thank you. What's your output of sessionInfo()? Are you using the most 
recent release version?

	Best wishes
	Wolfgang
	

May/24/12 10:15 PM, chris_utah scripsit::
> Hi,
>
> I am working on a multifactor analysis using DESeq.  When I call estimateDispersions I get the following error:
>
> cdsFull<- estimateDispersions( cdsFull, method="pooled-CR", modelFormula = count ~ sample+allele+allele:diet)
> Error in glm.fit(mm, y, family = MASS::negative.binomial(initialGuess),  :
>    NA/NaN/Inf in foreign function call (arg 1)
>
> Could someone please tell me what the meaning of this error is.  My design works well on my mock dataset, but with other experimental datasets having the same structure as the mock it throughs this error.  Thus, it must result from something in the data.
>
> Thank you for your help.
>
> best wishes,
> Chris
>
>
>
>
>
>
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>
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-- 
Best wishes
	Wolfgang

Wolfgang Huber
EMBL
http://www.embl.de/research/units/genome_biology/huber