Dear all, I have been using the bioMart and DAVIDQuery R-packages to convert gene identifiers into different formats. Unfortunately, both of these packages require direct internet access for every conversion. Is anybody aware of an R-package or script which supports "offline" gene name conversion, i.e. based on previously downloaded gene name database files (disk space is no problem)? Many thanks, Rainer __________________________________________________ Do You Yahoo!? Sie sind Spam leid? Yahoo! Mail verf?gt ?ber einen herausragenden Schutz gegen Massenmails. http://mail.yahoo.com

Hi Ranier, Rainer Tischler wrote: > Dear all, > > I have been using the bioMart and DAVIDQuery R-packages to convert > gene identifiers into different formats. Unfortunately, both of these > packages require direct internet access for every conversion. Is > anybody aware of an R-package or script which supports "offline" gene > name conversion, i.e. based on previously downloaded gene name > database files (disk space is no problem)? It's not clear what you mean by 'gene name conversion', nor do you mention the species you are working with, so this is just a stab in the dark. But the org.Xx.eg.db packages might be what you are after. For instance, if you are working with human samples, the org.Hs.eg.db package maps Entrez Gene IDs to various other things including both gene names and symbols. Best, Jim > > Many thanks, Rainer > > __________________________________________________ Do You Yahoo!? Sie > sind Spam leid? Yahoo! Mail verf?gt ?ber einen herausragenden Schutz > gegen Massenmails. http://mail.yahoo.com > > _______________________________________________ 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 Douglas Lab University of Michigan Department of Human Genetics 5912 Buhl 1241 E. Catherine St. Ann Arbor MI 48109-5618 734-615-7826 ********************************************************** Electronic Mail is not secure, may not be read every day, and should not be used for urgent or sensitive issues