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A complication is that the chrObj.band contains information for not only which genes map to each chromosome, but also which genes map to each band. In addition, the object holds chromosome location information as well. A mentioned earlier it may be easier to get this information from the annotation environment directly (i.e. using mget() or contents() from the hgu133plus2MAP environment) However, this code will construct the desired matrix using chrObj.band object. ## get the chromLoc object that holds just band information cL <- chrObj.bands at chromLocs ix <- which(names(cL) %in% cL$bandList) cL <- cL[ix] ## Extract the data probe <- c() band <- c() for(i in 1:length(cL)) { p <- names(cL[[i]]) probe <- c(probe,p) band <- c(band,rep(names(cL)[i],length(p))) } ## make a matrix m <- cbind(probe,band) -kyle > From: "Beth Wilmot" <wilmotb at="" ohsu.edu=""> > Date: Fri, 06 Jan 2006 19:27:45 -0800 > To: bioconductor at stat.math.ethz.ch > Subject: [BioC] chromLocation > > Hello, > > I have created a chromLocation object by: > > chrObj.bands<-buildChromLocation.2("hgu133plus2",major=c("arms","ban ds") > > I have a list of probe IDs for which I would like only the cytoband > information. I am having trouble separating the genome position from the probe > id and then matching the probe id to the cytoband information. I would like a > matrix: > > Probe Id cytoband > xxxxx xxxxx > > Any help would be appreciated. > > Thanks, > Beth > > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > This email message, including any attachments, is for the so...{{dropped}}