R help - Mar 2007 - CLUSTER Package

Hi Martin,

 

In using the Cluster Package, I have results for PAM and DIANA
clustering algorithms (below "part" and "hier" objects):

                                                                        

part <- pam(trout, bestk)
# PAM results


hier <- diana(trout)
# DIANA results

GeneNames <- show(RG$genes)
# Gene Names are in this object             

 

But I would like also to know what genes (NAMES) are included in each
cluster. I tried unsuccessfully to send these results to output files
(clusters with gene Names). This must be an easy task for a good R
programmer. I will appreciate very much directions or R code on how to
send the PAM and DIANA results to output files including information on
genes (Names) per each cluster.

 

Thank you very much.

Roger

 

 

Roger L. Vallejo, Ph.D.

Computational Biologist & Geneticist

U.S. Department of Agriculture, ARS          

National Center for Cool & Cold Water Aquaculture

11861 Leetown Road

Kearneysville, WV 25430

Voice:    (304) 724-8340 Ext. 2141

Email:   roger.vallejo@ars.usda.gov <mailto:roger.vallejo@ars.usda.gov> 

 


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Hi Vallejo,

I'm pretty busy currently, and feel your question has much more
to do with how to use R more generally than with using the
functions from the  cluster package.

So you may get help from other R-help readers,
but maybe only after you have followed the posting-guide
and give a reproducible example as you're asked there.

Regards,
Martin Maechler
>>>>> "VallejoR" == Vallejo, Roger <Roger.Vallejo at
ARS.USDA.GOV>
>>>>>     on Mon, 12 Mar 2007 10:28:01 -0400 writes:
    VallejoR> Hi Martin,
    VallejoR> In using the Cluster Package, I have results for PAM and DIANA
    VallejoR> clustering algorithms (below "part" and
"hier" objects):

                                                                        

    VallejoR> part <- pam(trout, bestk)
    VallejoR> # PAM results


    VallejoR> hier <- diana(trout)
    VallejoR> # DIANA results

    VallejoR> GeneNames <- show(RG$genes)
    VallejoR> # Gene Names are in this object             

 

    VallejoR> But I would like also to know what genes (NAMES) are included
in each
    VallejoR> cluster. I tried unsuccessfully to send these results to output
files
    VallejoR> (clusters with gene Names). This must be an easy task for a
good R
    VallejoR> programmer. I will appreciate very much directions or R code on
how to
    VallejoR> send the PAM and DIANA results to output files including
information on
    VallejoR> genes (Names) per each cluster.

 

    VallejoR> Thank you very much.

    VallejoR> Roger

 

 

    VallejoR> Roger L. Vallejo, Ph.D.

    VallejoR> Computational Biologist & Geneticist

    VallejoR> U.S. Department of Agriculture, ARS          

    VallejoR> National Center for Cool & Cold Water Aquaculture

    VallejoR> 11861 Leetown Road

    VallejoR> Kearneysville, WV 25430

    VallejoR> Voice:    (304) 724-8340 Ext. 2141

    VallejoR> Email:   roger.vallejo at ars.usda.gov <mailto:roger.vallejo
at ars.usda.gov>

 


    VallejoR> [[alternative HTML version deleted]]