Dear Bioconductors, I have been experimenting with various ways of scripting the analysis of affymetrix data with bioconductor and perl. I would like to more or less automatically create a set of HTML pages with summary data and images of the chips, RNA degradation plots etc. I would like to use a perl module such as Statistics::R to send commands that the perl script generates based on file names of the CEL files and some parameters. Has anyone on the list experience with doing things like that? Would anybody be willing to share some examples? (Googling turned up nothing...). Thanks Peter

Thanks. I have been making a summary HTML page for QC for all Chips in an experiment by extracting salient features from the RPT files with Perl and displaying them as a table and creating images such as RNAdeg plots in R. This page is linked to other pages with expression data/differentially regulated genes from the Chips. I will look into RSPerl (thanks for the tip!). Peter Wednesday 05 May 2004 02:13, you wrote: > Why not just do it with R? Or if you really insist on perl then you > might want to look at RSPerl (from www.omegahat.org) > > On Tue, May 04, 2004 at 11:55:10PM +0200, peter robinson wrote: > > Dear Bioconductors, > > > > I have been experimenting with various ways of scripting the analysis of > > affymetrix data with bioconductor and perl. I would like to more or less > > automatically create a set of HTML pages with summary data and images of > > the chips, RNA degradation plots etc. I would like to use a perl module > > such as Statistics::R to send commands that the perl script generates > > based on file names of the CEL files and some parameters. > > > > Has anyone on the list experience with doing things like that? Would > > anybody be willing to share some examples? (Googling turned up > > nothing...). > > > > Thanks > > > > Peter > > > > _______________________________________________ > > Bioconductor mailing list > > Bioconductor@stat.math.ethz.ch > > https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor