function (input, array = 1, naut = 22, Y = FALSE, X = FALSE, main = NA, status, values, pch, cex, col, chrominfo = chrominfo.Mb, ylim = c(-2, 2), ylb = "Log2Ratio", chrom.to.plot = NA, xlim = c(0, NA), ...) ma2 <- processCGH(ma1) seginfo.dna <- runDNAcopy(ma2) genomePlot(seginfo.dna.merged, array=1, chrom.to.plot=8, chrominfo=1000) fails. Error in attr(status, status.attr[ii]) : 'which' must be of mode character I can remove the status lines from the code but I am still getting an error on chrominfo What is expected in the parameter ? Chris [[alternative HTML version deleted]]

On Fri, Apr 23, 2010 at 8:44 AM, Chris Fenton <chrisf at="" fagmed.uit.no=""> wrote: > function (input, array = 1, naut = 22, Y = FALSE, X = FALSE, > ? ?main = NA, status, values, pch, cex, col, chrominfo = chrominfo.Mb, > ? ?ylim = c(-2, 2), ylb = "Log2Ratio", chrom.to.plot = NA, xlim = c(0, > ? ? ? ?NA), ...) > > > ma2 ? ? ? ? ? ? ? ?<- processCGH(ma1) > seginfo.dna ? ? ? ?<- runDNAcopy(ma2) > genomePlot(seginfo.dna.merged, array=1, chrom.to.plot=8, > chrominfo=1000) > > fails. > > Error in attr(status, status.attr[ii]) : 'which' must be of mode > character > > I can remove the status lines from the code but I am still getting an > error on chrominfo > What is expected in the parameter ? It isn't entirely clear from the help for genomePlot, but a little digging turns up: help(chrominfo.Mb) This help page describes the format for the data frame that is meant to be passed into the chrominfo parameter. Sean