> -----Original Message----- > I have a list with gene names, fold changes (=expression > level) and chromosomes. > > Names fold change chromosome > hz 1.5 2 > > > If I plot fold change versus chromosome (or vice versa): > > plot (ch, fc) > > I see only the chromosomes with numbers but not those with > letter (x and y). What can I do?
Make sure your chromosome column is a factor or character vector. >From your description so far, I deduce that it is numeric (you can check by >saying class(chromosome) ). I am guessing that R has been told to convert >chromosome to numeric. If so, R would convert X and Y to NA (that is, missing) >in the process - with a warning that ought to have been obvious - because they >are not numbers. That would explain why you aren't seeing them in the plot. How you got that I don't know; the default would be to import as factor. Anyway, once you have chromosome properly imported as character or factor you can use barplot with chromosome used as labels, or plot(1:length(fc), axes=FALSE) and then add axes using axis(1, at=1:length(fc)), labels=chromosome) #or similar and axis(2) > How can I add a single line in that plot at a certain y-level. see ?abline > > Thanks > Hermann > > [[alternative HTML version deleted]] > > ______________________________________________ > R-help@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide > http://www.R-project.org/posting-guide.html > and provide commented, minimal, self-contained, reproducible code. > ******************************************************************* This email and any attachments are confidential. Any use...{{dropped:8}} ______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
