# [R] How to make a Cluster of Clusters

Michael Bedward michael.bedward at gmail.com
Fri Jan 7 03:44:07 CET 2011

```Hello Diego,

This might not be relevant, but on reading your question the first
idea that struck me was that ordination trajectories of your lakes

Michael

On 5 January 2011 01:31, Diego Pujoni <diegopujoni at gmail.com> wrote:
> Dear R-help,
>
> In my Master thesis I measured 10 variables from 18 lakes. These
> measurements were taken 4 times a year in 3 depths, so I have 12
> samples from each lake. I know that 12 samples can not be treated as
> replications, since they don't correspond to the same environmental
> characteristics and are not statistically independent, but I want to
> use these 12 samples as an estimate of an annual range the 18 lakes
> have of the 10 variables.
>
> I want to make a cluster analysis of the 18 lakes and my known
> possibilities were:
> 1- Make an average of the 12 samples from each lake and make the
> cluster (Using ward's method);
> 2- Use all 216 samples (18*12) to make the cluster (Which yields a mess).
>
> But I thought I could begin the cluster algorithm already with 18
> clusters (Lakes) each with 12 individuals (samples) and normally
> proceed with the calculations (using ward's method). So I will obtain
> a cluster of the 18 lakes, but using the 12 samples.
>
> I got the cluster Fortran algorithm and I'm trying to translate it to
> the R language to see how it works and maybe implement this kind of
> cluster of cluster analysis.
>
> Does anyone knows if there is an algorithm that does this? Actually I
> did it by hand and got very good and meaningful results, but I want to
> implement it to try another merging criterias.
>
> Thanks
>
> Diego Pujoni
> Zooplankton Ecology Laboratory
> Biological Sciences Institute
> Federal University of Minas Gerais
> Brazil
>
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