Re: [R] Help with 2-D plot of k-mean clustering analysis

From: Albyn Jones <jones_at_reed.edu>
Date: Wed, 18 May 2011 10:26:42 -0700

One idea: Pick the three largest clusters, their centers determine a plane. project your data into that plane.

albyn

On Wed, May 18, 2011 at 06:55:39PM +0200, Claudia Beleites wrote:
> Hi Meng,
>
> > I would like to use R to perform k-means clustering on my data which
> >included 33 samples measured with ~1000 variables. I have already used
> >kmeans package for this analysis, and showed that there are 4 clusters in my
> >data. However, it's really difficult to plot this cluster in 2-D format
> >since the "huge" number of variables. One possible way is to project the
> >multidimensional space into 2-D platform, but I could not find any good way
> >to do that. Any suggestions or comments will be really helpful!
> For suggestions it would be extremely helpful to tell us what kind
> of variables your 1000 variables are.
>
> Parallel coordinate plots plot values over (many) variables. Whether
> this is useful, depends very much on your variables: E.g. I have
> spectral channels, they have an intrinsic order and the values have
> physically the same meaning (and almost the same range), so the
> parallel coordinate plot comes naturally (it produces in fact the
> spectra).
>
> Claudia
>
>
> >
> >Thanks,
> >
> >Meng
> >
> > [[alternative HTML version deleted]]
> >
> >______________________________________________
> >R-help_at_r-project.org mailing list
> >https://stat.ethz.ch/mailman/listinfo/r-help
> >PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
> >and provide commented, minimal, self-contained, reproducible code.
>
>
> --
> Claudia Beleites
> Spectroscopy/Imaging
> Institute of Photonic Technology
> Albert-Einstein-Str. 9
> 07745 Jena
> Germany
>
> email: claudia.beleites_at_ipht-jena.de
> phone: +49 3641 206-133
> fax: +49 2641 206-399
>
> ______________________________________________
> R-help_at_r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
>

-- 
Albyn Jones
Reed College
jones_at_reed.edu

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Received on Wed 18 May 2011 - 17:29:45 GMT

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