Error: Error in plot.window(xlim = xlim, ylim = ylim, log = log, yaxs = pars $yaxs) : NAs not allowed in 'ylim'
On Feb 24, 10:19 am, zaid <z...@genomedx.com> wrote: > I was doing QC analysis in aroma in R on HuEx chip but got an error > while trying to plot NUSE. > ylim contains NA. > > I'm running R 2.10(32bit) on a windows 7(64bit). > > my command: > library(aroma.affymetrix) > verbose <- Arguments$getVerbose(-8, timestamp=TRUE) > chipType <- "HuEx-1_0-st-v2" > cdf <- AffymetrixCdfFile$byChipType(chipType) > print(cdf) > cs <- AffymetrixCelSet$byName("tissues", cdf=cdf) > bc <- RmaBackgroundCorrection(cs) > csBC <- process(bc,verbose=verbose) > qn <- QuantileNormalization(csBC, typesToUpdate="pm") > csN <- process(qn, verbose=verbose) > plmTr <- ExonRmaPlm(csN, mergeGroups=TRUE) > fit(plmTr, verbose=verbose) > qamTr <- QualityAssessmentModel(plmTr) > plotNuse(qamTr) > plotRle(qamTr) > <<End of command > > I was able to run the previous on U95A data and Plus 2 data. Also, in > the past I was able to run that on HuEx data. > The cdf file I'm using is binary and used multiples ones (HuEx-1_0- > st- > v2,core,A20071112,EP.cdf, HuEx-1_0-st- > v2,control,A20071112,EP.cdf, HuEx-1_0-st- > v2,extended,A20071112,EP.cdf etc offered on Elizabeth's > Columnhttp://groups.google.com/group/aroma-affymetrix/web/affymetrix-define... > ) > > Could you please point me how to fix this problem? > > Thanks in advance -- When reporting problems on aroma.affymetrix, make sure 1) to run the latest version of the package, 2) to report the output of sessionInfo() and traceback(), and 3) to post a complete code example. You received this message because you are subscribed to the Google Groups "aroma.affymetrix" group. To post to this group, send email to firstname.lastname@example.org To unsubscribe from this group, send email to aroma-affymetrix-unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/aroma-affymetrix?hl=en