R help - Jun 2012 - Error in sort(abs(diff(genomdat)))[1:n.keep] : only 0's may be mixed with negative subscripts

Hello everyone,

I`m trying to normalize and analize an illumina SNP array.
But when i`m trying to segmentate i`m getting an error:
Error in sort(abs(diff(genomdat)))[1:n.keep] : 
  only 0's may be mixed with negative subscripts.
I`ve tried everything to fix this but the error still occours.

Can anybody give me a tip?

Thanks in advance!


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Hello, sanshine,

maybe you should check the value of n.keep and make sure that it is 
non-negative.

Hth  --  Gerrit

On Tue, 12 Jun 2012, sanshine wrote:
> Hello everyone,
>
> I`m trying to normalize and analize an illumina SNP array.
> But when i`m trying to segmentate i`m getting an error:
> Error in sort(abs(diff(genomdat)))[1:n.keep] :
>  only 0's may be mixed with negative subscripts.
> I`ve tried everything to fix this but the error still occours.
>
> Can anybody give me a tip?
>
> Thanks in advance!
>
>
> --
> View this message in context:
http://r.789695.n4.nabble.com/Error-in-sort-abs-diff-genomdat-1-n-keep-only-0-s-may-be-mixed-with-negative-subscripts-tp4633091.html
> Sent from the R help mailing list archive at Nabble.com.
>
> ______________________________________________
> R-help at 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
> and provide commented, minimal, self-contained, reproducible code.

Your problem is that n.keep is less than 0. Why that is I cannot tell
without appropriate context.

E.g.,

x <- 1:10

x[2:5]

x[0:1]

x[(-3):1]

Michael

On Tue, Jun 12, 2012 at 6:01 AM, sanshine <S.A.J.van_der_Zeeuw at lumc.nl>
wrote:
> Hello everyone,
>
> I`m trying to normalize and analize an illumina SNP array.
> But when i`m trying to segmentate i`m getting an error:
> Error in sort(abs(diff(genomdat)))[1:n.keep] :
> ?only 0's may be mixed with negative subscripts.
> I`ve tried everything to fix this but the error still occours.
>
> Can anybody give me a tip?
>
> Thanks in advance!
>
>
> --
> View this message in context:
http://r.789695.n4.nabble.com/Error-in-sort-abs-diff-genomdat-1-n-keep-only-0-s-may-be-mixed-with-negative-subscripts-tp4633091.html
> Sent from the R help mailing list archive at Nabble.com.
>
> ______________________________________________
> R-help at 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
> and provide commented, minimal, self-contained, reproducible code.