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Hi Zhongzhong I don't know the hthgu133a set, but have you looked at https:// stat.ethz.ch/pipermail/bioconductor/2006-August/014113.html ? It sounds like you can maybe just use hgu133aprobe? Cheers \Heidi On 2 Aug 2007, at 09:40, chen zhong wrote: > Dear bioconductor, > > I am using gcrma to analyze a bunch of Affy arrays and have the > following > error: > > Computing affinities[1] "Checking to see if your internet > connection works..." > [1] "Environment hthgu133acdf was not found in the Bioconductor > repository." > [1] "Checking to see if your internet connection works..." > [1] "Environment hthgu133aprobe was not found in the Bioconductor > repository." > Error in get(x, envir, mode, inherits) : variable "hthgu133aprobe" > was not found > > > I did not find hthgu133aprobe package in bioconductor. So could > you give me the package or suggest me to do another way to do it. > Thanks. > > Sincerely, > Zhongzhong > > 2007-08-02 > > > --------------------------------- > ????????????????3.5G??????20M?????? > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/ > gmane.science.biology.informatics.conductor

Hi Zhongzhong, Last time I checked Affy wasn't distributing the probe_tab files for the HT assays. However, I just checked today and they are on the website, so I built the probe packages for both the hthgu133a and hthgu133b plates. You don't say what OS you are on. If you are on *nix, or on another OS and have the ability to build packages from source, I can send you the source package. If not, I am going to be sending the packages to the folks in Seattle and depending on build times and what OS you are on, they should be available in the next few days or so. Best, Jim chen zhong wrote: > Dear bioconductor, > > I am using gcrma to analyze a bunch of Affy arrays and have the following > error: > > Computing affinities[1] "Checking to see if your internet connection works..." > [1] "Environment hthgu133acdf was not found in the Bioconductor repository." > [1] "Checking to see if your internet connection works..." > [1] "Environment hthgu133aprobe was not found in the Bioconductor repository." > Error in get(x, envir, mode, inherits) : variable "hthgu133aprobe" was not found > > > I did not find hthgu133aprobe package in bioconductor. So could you give me the package or suggest me to do another way to do it. Thanks. > > Sincerely, > Zhongzhong > > 2007-08-02 > > > --------------------------------- > ????????????????3.5G??????20M?????? > [[alternative HTML version deleted]] > > > > -------------------------------------------------------------------- ---- > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor -- James W. MacDonald, M.S. Biostatistician Affymetrix and cDNA Microarray Core University of Michigan Cancer Center 1500 E. Medical Center Drive 7410 CCGC Ann Arbor MI 48109 734-647-5623