Hello, I would like to apply gcrma to a custom chip for which I have the probe sequence information. gcrma appears to automatically go to the Internet to search for the appropriate probe package. How do I override this behavior to look for a ProbePackage built and installed locally? Dan

Daniel Pick wrote: > Hello, > I would like to apply gcrma to a custom chip for which I have the probe > sequence information. gcrma appears to automatically go to the Internet to > search for the appropriate probe package. How do I override this behavior > to look for a ProbePackage built and installed locally? Did you give the probe package a name, or did you accept the default one? If you didn't give the probe package the expected name, gcrma() is not going to be able to find it. If you passed a name to makeProbePackage(), your best bet is to uninstall the existing package, and re-make the probe package without passing a name. This will give it the default name, which gcrma() will then be able to find. HTH, Jim > > Dan > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor -- James W. MacDonald Affymetrix and cDNA Microarray Core University of Michigan Cancer Center 1500 E. Medical Center Drive 7410 CCGC Ann Arbor MI 48109 734-647-5623