[BioC] MAS problem

[Adaikalavan Ramasamy]

You affy package is fairly outdated. Try upgrading this (there might be
other dependencies as well).

How many arrays are you trying to normalise ? IMHO, I do not think this
could be a problem because ReadAffy() works, but since MAS 5.0 does not
rely on other array information you could do this array by array and
combine them. There is also a function called justMAS() in package
simpleaffy that you might want to try out.

Regards, Adai



On Fri, 2004-09-10 at 14:37, Michael Barnes wrote:
> I am encountering trouble with the mas implementation in the affy
> package.
> 
> > eset<-mas5(Data)
> background correction:mas
> PM/MM correction:mas
> expression values:mas
> background correcting...done.
> 22283 ids to be processed
> |                                          |
> |##########
> 
> Then it hangs.  I let it go for about 20 minutes but nothing has
> happened.  According to task manager, R is still functioning.  Any
> suggestions?
> 
> I get the same response when I use 
> 
> eset<-expresso(Data,normalize=FALSE,bgcorrect.method="mas",pmcorrect.method="mas",summary.method="mas")
> 
> 
> 
> R1.9.1
> Windows XP Pro
> affy 1.2.64
> 
> 
> Mike
> 
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