Hello, I'm using the mArray package and I would like to make MA plots WITHOUT background correction. I tested the following R code : xma<-log2(maRf(christian.raw[,1])/maGf(christian.raw[,1])) yma<-0.5*log2(maGf(christian.raw[,1])+maRf(christian.raw[,1])) maPlot (christian.raw[,1], x=yma, y=yma, text.func = blanks.spots) I obtained this error : Error in strsplit(x, as.character(split), as.logical(extended)) : non-character argument in strsplit() Does anybody know how to handle this problem? I would really like to use the function maPlot because I would like to keep the 'highlighted spots' on the graph(nonrealizable (?) thing with the function plot) Best regards, Francis

The quick way to do MA-plots with no background subtraction is to remove the background values from marrayRaw object e.g. maRb(christian.raw) <- maGb(christian.raw) <- matrix(0,0,0) maPlot(christian.raw[,1]) Jean On Mon, 8 Dec 2003, Foata,Francis,LAUSANNE,NRC/N&H wrote: > Hello, I'm using the mArray package and I would like to make MA plots > WITHOUT background correction. I tested the following R code : > > xma<-log2(maRf(christian.raw[,1])/maGf(christian.raw[,1])) > yma<-0.5*log2(maGf(christian.raw[,1])+maRf(christian.raw[,1])) > maPlot (christian.raw[,1], x=yma, y=yma, text.func = blanks.spots) > > I obtained this error : > Error in strsplit(x, as.character(split), as.logical(extended)) : > non-character argument in strsplit() > > Does anybody know how to handle this problem? > I would really like to use the function maPlot because I would like to keep > the 'highlighted spots' on the graph(nonrealizable (?) thing with the > function plot) > > > Best regards, > > > Francis > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor >