Hello I ran this code and got an error: >genepixFiles <- targets$Name >read.series(genepixFiles, suffix=NULL,skip=26, sep="\t") >layout <- RG$printer >RGmodel <- kooperberg(genepixFiles, layout=layout) Error in integrate(.numeratorBayesianAdjustedFG, ifelse((fg - bg - 4 * : a limit is missing I guess this may be related to my earlier problem, where I have BG estimates = zero for one of my arrays, but this is a little trickier to solve as the data is in data.frames, and I cannot so easily add a small value to Rb and Gb.... Mick

Dear Mick, Yes, a 0 value for the background intensity will cause this error. I have modified the code in the latest version of limma (1.7.7) to handle 0's, so hopefully this is no longer a problem. Best wishes, Matt Ritchie michael watson (IAH-C) wrote: >Hello > >I ran this code and got an error: > >>genepixFiles <- targets$Name >>read.series(genepixFiles, suffix=NULL,skip=26, sep="\t") >>layout <- RG$printer >>RGmodel <- kooperberg(genepixFiles, layout=layout) >> >Error in integrate(.numeratorBayesianAdjustedFG, ifelse((fg - bg - 4 * >: > a limit is missing > >I guess this may be related to my earlier problem, where I have BG >estimates = zero for one of my arrays, but this is a little trickier to >solve as the data is in data.frames, and I cannot so easily add a small >value to Rb and Gb.... > >Mick > [[alternative HTML version deleted]]