[BioC] Cluster stability/robustness

[James W. MacDonald]

Hi Rafi,

How about the clusterStab package?

Best,

Jim


On 1/16/2014 11:03 AM, Rafi [guest] wrote:
> Hello,
>
> I have used hclust to cluster a large data of 10K genes and 800 conditions and got 150 clusters as output.
>
> How can I show that these clusters are stable?
>
> What are the common metrics or parameters that are used to show that we have got a stable/robust cluster?
>
> Is there any package that will do this?
>
> Your reply will be very helpful. Thank you for your time in advance.
>
> Thanks
> Rafi
>
>   -- output of sessionInfo():
>
> R version 3.0.2 (2013-09-25)
> Platform: x86_64-w64-mingw32/x64 (64-bit)
>
> locale:
> [1] LC_COLLATE=English_United States.1252  LC_CTYPE=English_United States.1252    LC_MONETARY=English_United States.1252
> [4] LC_NUMERIC=C                           LC_TIME=English_United States.1252
>
> attached base packages:
> [1] stats     graphics  grDevices utils     datasets  methods   base
>
> loaded via a namespace (and not attached):
> [1] tools_3.0.2
>
> --
> Sent via the guest posting facility at bioconductor.org.
>
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-- 
James W. MacDonald, M.S.
Biostatistician
University of Washington
Environmental and Occupational Health Sciences
4225 Roosevelt Way NE, # 100
Seattle WA 98105-6099