Hi John,
I had asked you of some questions regarding cghMCR.
Before my data use to give a SGOL plot.
I am not sure if there is any little change that I am doing.
Code:
>source("http://bioconductor.org/biocLite.R")
>biocLite(c("CNTools","cghMCR"))
> library(CNTools)
>require(CNTools, quietly = TRUE)
>data2<-read.table("Goutput_chr_1.txt",sep='\t',header=TRUE,colClasses=c('character','character','numeric','numeric','numeric',
'numeric'))
>head(data2)
                  ID chrom loc.start loc.end num.mark   seg.mean
1 G20020876     1    604268  797005        6  0.0000000
2 G20020876     1    807922 1145639       46  0.5746844
3 G20020876     1   1149781 3558855      256  0.9192132
4 G20020876     1   3563712 3563759        1 -1.1201798
5 G20020876     1   3568451 3981215       44   0.9192132
6 G20020876     1   3988891 4769811       60  0.5746844
> data(geneInfo)
>set.seed(1234)
> convertedData<-getRS(CNSeg(data2[which(is.element(data2[,"ID"],sample(unique(data2[,"ID"]),10))),]),by
= "gene", imput=FALSE,XY=FALSE,geneMap=geneInfo)

Error in match.arg(what) : 'arg' must be of length 1

I am not able to understand what is this error and how to execute to
finally get sgol plot.
If you could figure out what is the issue that would be grateful.
waiting for your reply,
Thanks,

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