Hi all, Could anyone give a hint on where to look to solve this problem? 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

Hi, 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. Cheers Jean > 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 > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor >