[BioC] Error "Specified environment does not contain MoGene-1_0-st-v1"

James W. MacDonald jmacdon at med.umich.edu
Wed Jul 22 20:48:54 CEST 2009

Hi Peng,

Peng Yu wrote:
> Hi,
> I have some .cel files and MoGene-1_0-st-v1,r3.cdf in the current
> directory. The .cel files are generated from the Mouse Gene 1.0 ST
> Array.
> I run the following command. But it generate an error message. Can
> somebody let me know what the problem is?
> Regards,
> Peng
>> setwd(".")
>> library(makecdfenv)
>> data<-ReadAffy()
>> eset<-rma(data)
> Error in getCdfInfo(object) :
>   Could not obtain CDF environment, problems encountered:
> Specified environment does not contain MoGene-1_0-st-v1
> Library - package mogene10stv1cdf not installed
> Bioconductor - mogene10stv1cdf not available

Although the affy package can read these data in, it won't be able to 
process the data without extra (unnecessary) work from you, as the affy 
package wasn't designed to analyze these chips. Please see here:


For a listing of packages that are designed for this chip.



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James W. MacDonald, M.S.
Douglas Lab
University of Michigan
Department of Human Genetics
5912 Buhl
1241 E. Catherine St.
Ann Arbor MI 48109-5618

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