[BioC] Error with ImaGene out put file in limma

[Pete]

Hi Marcelo
Having briefly looked through your script below i think what you need to do
is change


>slides <- RegianeSample$FileName

to something like

>slides<-cbind(RegianeSample$FileNameCy3, RegianeSample$FileNameCy5)

this should give you a list of the filenames of both the cy3 and cy5
samples. I hope this helps


Pete Underhill

Microarray Facility
MRC Harwell


----- Original Message ----- 
From: "Marcelo Luiz de Laia" <mlaia at fcav.unesp.br>
To: "Gordon Smyth" <smyth at wehi.edu.au>; <bioconductor at stat.math.ethz.ch>
Sent: Wednesday, October 22, 2003 4:36 PM
Subject: RE: [BioC] Error with ImaGene out put file in limma


> Hi Gordon,
>
> You are correct! That file was not the real file of the imagene. However,
I
> made the same steps with the real file of the imagene and it happens the
> same errors. What can be? I use R 1.8.0 and limma 1.2.8
>
> > library(limma)
> > RegianeSample <-
> read.table("regianeRicoPobre.txt",header=TRUE,sep="\t",as.is=TRUE)
> > RegianeSample
>   SlideNamber            FileNameCy3            FileNameCy5 Cy3  Cy5
> 1           1 lamina1_0_selected.txt lamina1_1_selected.txt XDM BCYE
> 2           2 lamina2_0_selected.txt lamina2_1_selected.txt XDM BCYE
> 3           3 lamina3_0_selected.txt lamina3_1_selected.txt XDM BCYE
> > 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
>
> Marcelo
> ---
>
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