[Fwd: loading SPOT file]

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Subject:
loading SPOT file
From:
Barbara Cegielska <barceg at ibch.poznan.pl>
Date:
Wed, 06 May 2009 16:48:35 +0200
To:
r-help-bounces at r-project.org

To:
r-help-bounces at r-project.org


I have problem with loading SPOT files.

Sample of my operations in R object

 > fromfile=TRUE
 > fext="spot"
 > rawboxplot=TRUE
 > flagi="Flags"
 >
 > f<-function(x) as.numeric(x$Flags > -99)
 > targets<-readTargets("ApoAITargets.txt")
 >
 > if (fromfile){

+ files<-dir(pattern=fext)
+ } else {
+ dane.maTargets<-read.marrayInfo(filename=targets)
+ phenoData<-read.AnnotatedDataFrame(filename=targets)
+ files<-targets$FileName
+ }

 >
 >
 > RG <- readSpot(files, as.is = TRUE, galfile="ApoAI.gal", DEBUG=FALSE, 

skip=-1,  quote = "\"",
+ fill = TRUE)
Error in readLines(f, n = skip + 1) : invalid 'n' argument

I would like to loead Apo.AI data from: 
http://bioinf.wehi.edu.au/limmaGUI/DataSets.html

Thank you in advance.

Regards,
B.




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