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Tillinghast, Guy, M.D. wrote: > Is this an appropriate place to email my questions regarding affy? Yes, but a more accurate subject line would be 'help with ReadAffy()'. > > I have used the function "file" to retrieve a CEL file from by Windows platform C drive. > > x<-file(description="C:\ etc") That doesn't retrieve a file - it opens a connection to a file, which is quite a different thing. > > However, when using ReadAffy, my generated file appears to read as a symbol. > > data<-ReadAffy(x) Exactly, because that is what you are passing. According to the help page for ReadAffy(), you want to pass a character vector: Arguments: ...: file names separated by comma. filenames: file names in a character vector. In addition, if your files aren't in the working directory, you can use the celfile.path argument. Again, from the help page: celfile.path: a character denoting the path 'ReadAffy' should look for cel files So you can pass a character vector that includes the path, or just point ReadAffy() to a directory that contains your celfiles and it will load them all in. Best, Jim > > Error message: VECTOR_ELT() can only be applied to a 'list' not a 'symbol' > > Also, I cannot find documentation on VECTOR_ELT(). I have looked in read.affybatch in R documentation. > > Do I need an argument which will convince ReadAffy that x is indeed a list and not a symbol? > Would a widget help? > > Many thanks, > Guy Tillinghast, MD > > > CONFIDENTIALITY NOTICE: This e-mail message, including any a...{{dropped}} > > _______________________________________________ > 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 ********************************************************** Electronic Mail is not secure, may not be read every day, and should not be used for urgent or sensitive issues.