[BioC] error in Loess normalization

Jean Yee Hwa Yang jean at biostat.ucsf.edu
Wed Nov 3 21:41:23 CET 2004


The new version of marray have included some sampling procedure to speed
up the global loess code.  I can test out your problem if you placed the
.RData somewhere I can download.



> I am doing a loess normalization using a subset of genes that don’t change.
> I get the following errors.
> > test2CLoess <- maNorm (test2Raw, norm = "loess", subset = nonDE, Mloc = 
> TRUE, mscale = TRUE, echo = TRUE)
> Normalization method: loess.
> Normalizing array 1.
> Error in simpleLoess(y, x, w, span, degree, parametric, drop.square, 
> normalize,  : 
>         invalid `x'
> >
> I had used the same commands and set of data with the previous version of R 
> and marray and limma package, I was trying to check that everything was 
> working the same way with the new versions. But the problem may not be related 
> to the new versions but to some thing else.
> Where can I find the documentation for what in “simpleLoess(y, x, w, span, 
> degree, parametric, drop.square, normalize”  is expecting for x?
> Thanks a lot
> Inma
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