Entering edit mode
Marcelo Pereira
▴
70
@marcelo-pereira-6541
Last seen 8.7 years ago
Hello,
I have been trying to use the package *[pd.mapping250k.sty]*, but
Iâm might
be missing something.
This is my procedure:
> myData <- ReadAffy()
> myData@cdfName
[1] "Mapping250K_Sty"
The CEL fled are loaded okay!! Then we proceed with the normalization
procedure, and this is where the problem is:
> eset <- rma(myData)
*Error in getCdfInfo(object) :*
* Could not obtain CDF environment, problems encountered: Specified
environment does not contain Mapping250K_Sty*
*Library - package mapping250kstycdf not installed*
*Bioconductor - mapping250kstycdf not available*
Then, I tried installing it:
> biocLite(âpd.mapping250k.styâ)
> library(âpd.mapping250k.styâ)
The package installs okay (it is a ~350Mb package), and it DOES load
properly, but when I tried to run rma(myData) again I get the same
problem
as above:
*Error in getCdfInfo(object) :*
* Could not obtain CDF environment, problems encountered:
Specified environment does not contain Mapping250K_Sty*
*Library - package mapping250kstycdf not installed*
*Bioconductor - mapping250kstycdf not available*
I CAN rma normalize other CEL files using hgu133plus2cdf, or
hgu133acdf,
but NOT with Mapping250K_Sty.
Any suggestions?
Thanks,
Marcelo
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