Hi, I have CEL files from custom array (affy chip from Consortium for Functional Glycomics) - GLYCOv3. When analysing the data using BRB Array Tools (R-bioconductor), I am getting error message - Data for package affy did not contain glycov3hscdf. Please let me know how to install the same. Appreciate your early response. Best regards / Harmeet [[alternative HTML version deleted]]

Hi Harmeet, You need to build and install a cdfenv. To do so, you will need the makecdfenv package, specifically the function makecdfpackage(), and you will also need to get set up to install packages on windows. To do so, please see the R Installation and Administration manual, specifically the part about getting set up to build R. Really the only part you will need is to get the Rtools installer and run that. Remember to allow the installer to modify your path. After installing the Rtools installer and building the package you can then do R CMD INSTALL <thepackagename> at a command prompt. Note that you will need to do this from within R_HOME/bin unless you put that in your path as well. In addition, this won't like paths with spaces, so if you have the package somewhere that has spaces, you will need to use windows short names like /docume~1/ for Documents and Settings, etc. Best, Jim Harmeet singh wrote: > Hi, > > I have CEL files from custom array (affy chip from Consortium for Functional > Glycomics) - GLYCOv3. When analysing the data using BRB Array Tools > (R-bioconductor), I am getting error message - Data for package affy did not > contain glycov3hscdf. Please let me know how to install the same. > > Appreciate your early response. > > Best regards / Harmeet > > [[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 Hildebrandt Lab 8220D MSRB III 1150 W. Medical Center Drive Ann Arbor MI 48109-0646 734-936-8662