[BioC] plotMDS error

[Steve Lianoglou]

Hi,

On Wed, Nov 14, 2012 at 5:37 PM, Nicolas Devos <nicolasdevos at mac.com> wrote:
> Hi,
>
> I ve been trying to use edgeR for RNA-Seq Dierential Expression and I am trying to use in R the plotMDS function but I get the following cryptic error message
>
>> plotMDS( cds , main = "MDS Plot for Count Data", labels = colnames( cds$counts ))
> Error in cmdscale(as.dist(dd), k = ndim) :
>   'k' must be in {1, 2, ..  n - 1}
>
> Would any of you have an idea what this error  mean.

Could you provide the output of `class(cds)` and `sessionInfo()`, please?

Thanks,
-steve

-- 
Steve Lianoglou
Graduate Student: Computational Systems Biology
 | Memorial Sloan-Kettering Cancer Center
 | Weill Medical College of Cornell University
Contact Info: http://cbio.mskcc.org/~lianos/contact