[BioC] Limma coerce error

utepandragon at tiscali.it utepandragon at tiscali.it
Sun Nov 30 17:00:11 MET 2003

I use Limma Dev. Package and i'd like output my normalized data, but i have a problem:

> library(limma)
> library(sma)
> YourSample
  SlideNamber  FileNameCy3          FileNameCy5     Cy3        Cy5
1           1 slide1_1_Cy3.txt slide1_0_Cy5.txt Treated  Untreated
2           2 slide2_1_Cy3.txt slide2_0_Cy5.txt Treated  Untreated
3           3 slide3_1_Cy3.txt slide3_0_Cy5.txt Treated  Untreated
> slides<-cbind(YourSample$FileNameCy3, YourSample$FileNameCy5)
> RG<-read.maimages(slides, source="imagene")
> RG<-read.maimages(slides, source="imagene")
Read header information
Read slide1_1_Cy3.txt
Read slide1_0_Cy5.txt
Read slide2_1_Cy3.txt
Read slide2_0_Cy5.txt
Read slide3_1_Cy3.txt
Read slide3_0_Cy5.txt
> layout<-RG$printer
> genes<-RG$genes
> plot.print.tip.lowess(RG,layout,pch=16,cex=0.1,image=3)
> plot.print.tip.lowess(RG,layout,pch=16,cex=0.1,image=3,norm="p")
> MAraw <- MA.RG(RG)
> abline(0,0)
> MA <- normalizeWithinArrays(RG,layout)
> write.table(MA, file="your_file.txt",sep="\t")
Error in as.data.frame.default(x[[i]], optional = TRUE) : 
        can't coerce MAList into a data.frame

Can you help me? Thanks
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