[aroma.affymetrix] Discussion on creating-cdf-files-from-scratch

Dear Mark, I am using the HuGene-1_0-st-v1.r4 clf and pgf files. When I run the script it just returns a stream of repeated errors, until terminated: >\\ANNOTATION\AffyAnnotation\Human\HuGene-1_0-st-v1>perl combineProbeInfo.pl >HuGene-1_0-st-v1.r4 Use of uninitialized value in exists at combine

[aroma.affymetrix] Help with creating a CDF from PDInfoBuilder Library

I'm having some trouble creating a CDF file from the PDInforBuilder library for the "HuGene-1_0-st-v1". I want to use the latest "r4" pgf and clf files, and the "r3" CEL file available from Affy does not have the non-genomic probes. I attempted to follow the instructions at http://www.aroma-project

Re: [aroma.affymetrix] Re: can't load CDF file

Hi. On Wed, Mar 10, 2010 at 7:23 PM, dkny169 wrote: > Hi Henrik, > The upload of the cdf file worked now perfectly. Thanks for pointing > out the right version of the supplementary file. > Unfortunately, the upload of the .CEL files still doesn't work? Any > ideas? > > cs<-AffymetrixCelSet$byName

[aroma.affymetrix] Re: can't load CDF file

Hi Henrik, The upload of the cdf file worked now perfectly. Thanks for pointing out the right version of the supplementary file. Unfortunately, the upload of the .CEL files still doesn't work? Any ideas? cs<-AffymetrixCelSet$byName("tissues",cdf=cdf) Error in list(`AffymetrixCelSet$byName("tissues