[BioC] Error with ImaGene out put file in limma
Marcelo Luiz de Laia
mlaia at fcav.unesp.br
Tue Oct 21 23:34:08 MEST 2003
Hi people,
I execute this step in limma and I have a error below:
> RegianeSample <-
read.table("regianeRicoPobre.txt",header=TRUE,sep="\t",as.is=TRUE)
> RegianeSample
SlideNamber FileNameCy3 FileNameCy5 Cy3 Cy5
1 1 lamina1BCYE.txt lamina1XDM.txt BCYE XDM
2 2 lamina2BCYE.txt lamina2XDM.txt BCYE XDM
3 3 lamina3BCYE.txt lamina3XDM.txt BCYE XDM
> slides <- RegianeSample$FileName
> RG <- read.maimages(slides, source="imagene")
Error in array(x, c(length(x), 1), if (!is.null(names(x))) list(names(x), :
attempt to set an attribute on NULL
Our out put file is like this (in the original file, lines not is broken and
names of fields is separated with tab):
Field Meta Row Meta Column Row Column
XDM/BCYE 1 1 1 1
Gene ID Flag Signal Mean Background Mean
Cal 1 1 3.5E+16 8.5E+02
Signal Median Background Median
3.6E+04 8.3E+02
Meta Row range of 1 to 4;
Meta Column range of 1 to 2
Row range of 1 to 32;
Column range of 1 to 24;
Flag is 1, 2 or 3;
Please, any tip are welcome and/or one step by step to analyze imagene out
put file in limma is very apreciate!
Thanks
Marcelo
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