1. Please don't double post. 2. You probably have some "synthesized" values that are 0 and so get -Inf for their logs, which is NaN, thereby producing the error messages.
Failing that, your data may be messed up in some way (character values, stray non-characters, ...) -- Bert Gunter -----Original Message----- From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] On Behalf Of [EMAIL PROTECTED] Sent: Friday, May 30, 2008 7:32 AM To: r-help@r-project.org Subject: [R] loess plot I was trying to plot some data in R. I used the following code to draw a loess fit and got the output as >?lines(lowess(log(abs(t(res))), log(abs(t(synthesised)))), col="red") Error in lowess(log(abs(t(res))), log(abs(t(synthesised)))) :?? NA/NaN/Inf in foreign function call (arg 1) Then I thought to use your Limma package for background correction. Do you think it's a right choice ? However, I installed Limma using > source("http://www.bioconductor.org/biocLite.R";) > biocLite("limma") > biocLite("statmod") > library(limma) and then used the commands which generated the error as follows -- > system.time(fit <- loessFit( log(abs(t(res))), log(abs(t(synthesised))))) Error in loessFit(log(abs(t(res))), log(abs(t(synthesised)))) : ? binary operation on non-conformable arrays Timing stopped at: 0.57 0.06 0.64 NA NA > system.time(fit <- plotPrintTipLoess( log(abs(t(res))), log(abs(t(synthesised))))) Error in 1:layout$ngrid.c : NA/NaN argument In addition: Warning messages: 1: In object$printer : ? $ operator is invalid for atomic vectors, returning NULL 2: In object$M : $ operator is invalid for atomic vectors, returning NULL 3: In object$A : $ operator is invalid for atomic vectors, returning NULL 4: In object$M : $ operator is invalid for atomic vectors, returning NULL 5: In object$A : $ operator is invalid for atomic vectors, returning NULL 6: In layout$ngrid.c : ? $ operator is invalid for atomic vectors, returning NULL Timing stopped at: 0.66 0.01 0.67 NA NA Can someone please?tell me where the problem is and?what could be the right?command to use ? [[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. ______________________________________________ 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.
