For both release and devel, the pdf and R script associated with the Biostrings topic Efficient genome searching with Biostrings and the BSgenome data package seem to be not quite right. The pdf link gets me a document titled 'Using oligonucleotide microarray reporter sequence information for preprocessing and quality assessment', and the GeneomeSearching.R script turns out to be empty. I'll be sheepish if I have misconstrued this... - Paul

On Thu, Sep 30, 2010 at 12:05 PM, Paul Shannon <pshannon@systemsbiology.org>wrote: > For both release and devel, the pdf and R script associated with the > Biostrings topic > > Efficient genome searching with Biostrings and the BSgenome data package > > seem to be not quite right. > > The pdf link gets me a document titled 'Using oligonucleotide microarray > reporter sequence information for preprocessing and quality assessment', and > the GeneomeSearching.R script turns out to be empty. > > Hi Paul, I think this is my fault! I'll fix it as soon as possible. In the meantime, you can take a look at the "old" package detail pages: http://bioconductor.org/packages/2.6/bioc/html/Biostrings.html http://bioconductor.org/packages/2.7/bioc/html/Biostrings.html ...which seem to have somewhat better links. (By the way, this PDF will simply tell you to look in the BSgenome package for the updated vignette.) The R script is still empty though and I'm not sure what that's about. I'll check into it and get back to you. Dan [[alternative HTML version deleted]]