thank u so much for ur help,,i have tried it before,,and succeded to do
so,,the problem is that, in the next stage of the package i am facing a
problem which i dont know how to fix,,,i am useing cnvpack (
http://www.meb.ki.se/~yudpaw/) and in the following command i get an
error,,which is..


> cnvr<-setreg(out,anno.list= myann,pheno.data= mypheno,high.conf= NA,LIM=
2,method= "COVER", cnv.abnormality= "both")
Error in setreg(out, anno.list = myann, pheno.data = mypheno, high.conf =
NA,  :
  NAs in foreign function call (arg 4)

i then manipulate my data (out) and made "high.conf=0", then it shows me
this error...

> cnvr<-setreg(out,anno.list= myann,pheno.data= mypheno,high.conf=0,LIM=
2,method= "COVER", cnv.abnormality= "both")
Error in st[ii]:en[ii] : NA/NaN argument


----------------
Ilyas


On Tue, Oct 13, 2009 at 1:32 AM, joris meys <jorismeys@gmail.com> wrote:

> As the error says, you have different row numbers in your variables.
> The variable $Chromosome has no values.
>
> try :
> ann <- data.frame( ann [-3] )
>
> Cheers
> Joris
>
> On Mon, Oct 12, 2009 at 8:29 AM, Ilyas . <mykhwab@gmail.com> wrote:
> > i have two RData files,,i want to print them to check the format of the
> > tables in these files,,,i can load both the files and can read it as well
> >
> >> load('ann.RData')
> >> str(ann)
> > List of 4
> >  $ Name      : chr [1:561466] "rs3094315" "rs12562034" "rs3934834"
> > "rs9442372" ...
> >  $ Position  : int [1:561466] 742429 758311 995669 1008567 1011278
> 1011521
> > 1020428 1021403 1038818 1039813 ...
> >  $ Chromosome: chr(0)
> >  $ Chr.num   : num [1:561466] 1 1 1 1 1 1 1 1 1 1 ...
> >
> > but when i try to display all the table by using the R commander.i have
> got
> > the display of 'pheno.RData' file,,but the other file 'ann.RData' show me
> an
> > error i.e.
> >
> >> ann <- as.data.frame(ann)
> > Error in data.frame(Name = c("rs3094315", "rs12562034", "rs3934834",
> > "rs9442372",  :
> >  arguments imply differing number of rows: 561466, 0
> >
> >
> >
> > i am sending you both files,,,hope u will help me solve this problm....
> >
> >
> > Ilyas
> >
>  > ______________________________________________
> > R-help@r-project.org mailing list
> > https://stat.ethz.ch/mailman/listinfo/r-help
> > PLEASE do read the posting guide
> http://www.R-project.org/posting-guide.html<http://www.r-project.org/posting-guide.html>
> > and provide commented, minimal, self-contained, reproducible code.
> >
> >
>

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