[BioC] gcrma

[Rafael A. Irizarry]

crispin and chris,

this was a bug. jean wu (the author of the package) found it and 
fixed it. the fix  is in version 0.4.0.

because hgu95a has probes with no sequence the code assumed this was true
for other chips. its not! 

thanks for the bug report. keep em coming.
-r


On Sun, 3 Aug 2003, Rafael A. Irizarry wrote:

> what is the class of eset? gcrma operates on instances of class AffyBatch.
> 
> On Fri, 1 Aug 2003, Crispin Miller wrote:
> 
> > Hi,
> > I've been trying to play with gcrma...
> > When I chuck an affyBatch object, eset,  at it (containing 25 U133A arrays) as follows:
> > 
> > > normalised <- gcrma(eset)
> > It gets as far as background correcting and then dies with:
> > 
> > Error in tmp[1, ] : incorrect number of dimensions
> > and then a few warning messages:
> > 
> > NaNs produced in log(x)
> > 
> > I get the same if I try different normalisation techniques or mle instead of eb...
> > 
> >  I have installled both the hgu133aprobe and the matchprobes libraries...
> > 
> > I was wondering if anyone can help?
> > 
> > Cheers,
> > Crispin
> >  
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