Dear Christian, I am following the script4exon you provide to process HuEx-1_0-st-v2 data. When exporting after processing and making MAS5 calls: > export.expr(data.x.mas5, varlist="fUnitName:fTranscriptID",outfile="MAS5EXPRLEVELS.txt") The command replies with: NULL , and then exports the text file However instead of having a transcript ID field(label) it has a ProbesetID field. Is this the transcript ID? Also a general question. Is your transcript ID referring to the transcript_cluster_id in affymetrix annotation? Best regards, Addiel de Alba

Dear Addiel, Yes, it is the transcript_cluster_id in the Affymetrix annotation, assuming that you have used mas5(...,option = "transcript",..). If you have used mas5(...,option = "probeset",..) then it will be the probeset_id, see ?mas5. BTW, can you please always supply your sessionInfo(). Best regards Christian On 1/30/11 12:28 AM, Addiel U. de Alba Solis wrote: > > Dear Christian, > > I am following the script4exon you provide to process HuEx-1_0-st-v2 data. > When exporting after processing and making MAS5 calls: > >> export.expr(data.x.mas5, > varlist="fUnitName:fTranscriptID",outfile="MAS5EXPRLEVELS.txt") > > The command replies with: > > NULL , and then exports the text file > > However instead of having a transcript ID field(label) it has a ProbesetID > field. Is this the transcript ID? > > Also a general question. Is your transcript ID referring to the > transcript_cluster_id in affymetrix annotation? > > Best regards, > > Addiel de Alba > > _______________________________________________ > Bioconductor mailing list > Bioconductor at r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor >