[R] splitting clusters

[Subramanian Karthikeyan]

I am really wondering if there is a way of exporting the names of the
samples/variables clustered within a dendrogram object into a TEXT file.
Any ideas?

Thanks,
Karthi.




                                                                                                                                       
                      "Liaw, Andy"                                                                                                     
                      <andy_liaw at merck.        To:       "'Subramanian Karthikeyan'" <Subramanian_Karthikeyan at hc-sc.gc.ca>             
                      com>                     cc:                                                                                     
                                               Subject:  RE: [R] splitting clusters                                                    
                      2003-09-25 03:10                                                                                                 
                      PM                                                                                                               
                                                                                                                                       
                                                                                                                                       




As Robert Gentleman pointed out to you on the BioC list, cutree() gives you
the cluster membership.

Andy

> -----Original Message-----
> From: Subramanian Karthikeyan
> [mailto:Subramanian_Karthikeyan at hc-sc.gc.ca]
> Sent: Thursday, September 25, 2003 1:10 PM
> To: Martin Maechler; r-help at stat.math.ethz.ch
> Subject: Re: [R] splitting clusters
>
>
>
> Thanks Martin,
>
> Cutting the dendrogram as you suggested solved the problem.   I have
> another question along the same lines... If samples x1, x2,
> y4,y5, z6 are clustered together, is there a way of
> extracting this information (i.e. name of the samples
> clustered together) and saving it in a file?
>
> Thanks again,
> Karthi.
>
>
>
>
>
>
>
>
>
>                       Martin Maechler
>
>
>                       <maechler at stat.ma        To:
> "Subramanian Karthikeyan"
> <Subramanian_Karthikeyan at hc-sc.gc.ca>
>                       th.ethz.ch>              cc:
> r-help at stat.math.ethz.ch
>
>                                                Subject:  Re:
> [R] splitting clusters
>
>                       2003-09-25 03:56
>
>
>                       AM
>
>
>                       Please respond to
>
>
>                       Martin Maechler
>
>
>
>
>
>
>
>
>
>
>
>
> >>>>> "KarthiS" == Subramanian Karthikeyan
> <Subramanian_Karthikeyan at hc-sc.gc.ca>
> >>>>>     on Wed, 24 Sep 2003 13:04:04 -0400 writes:
>
>     KarthiS> Hi All: I am clustering 500 genes using hclust of
>     KarthiS> R.  Visualizing cluster membership becomes
>     KarthiS> difficult with so many genes in each cluster...Is
>     KarthiS> there a way of printing the dendrogram in multiple
>     KarthiS> pages so that I can clearly see what is in each
>     KarthiS> cluster?
>
> - Use dd <- as.dendrogram(hc) on your hclust result `hc',
>   then dd[1] gives the first branch, dd[1][2] the 2nd sub-branch of
>   the first branch, etc., see the examples on
>   ?dendrogram.
>
> - The package "maptree" has also tools for this,
>   particularly  prune.clust()
>
>     KarthiS> Thanks in advance.
>
> you're welcome.
> --
> Martin Maechler <maechler at stat.math.ethz.ch>
> http://stat.ethz.ch/~maechler/
> Seminar fuer Statistik,
> ETH-Zentrum  LEO C16    Leonhardstr. 27
> ETH (Federal Inst. Technology)      8092 Zurich SWITZERLAND
> phone: x-41-1-632-3408        fax: ...-1228                 <><
>
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