From: <shetumi_at_aim.com>

Date: Fri, 30 May 2008 10:32:07 -0400

? $ operator is invalid for atomic vectors, returning NULL Timing stopped at: 0.66 0.01 0.67 NA NA

R-help_at_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. Received on Mon 02 Jun 2008 - 03:34:05 GMT

Date: Fri, 30 May 2008 10:32:07 -0400

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 ?

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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. Received on Mon 02 Jun 2008 - 03:34:05 GMT

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