[R] [dist]how to analise a large matrix?

[Charles C. Berry]

On Thu, 21 Aug 2008, mcnda839 at mncn.csic.es wrote:

> Hi all,
>
> I have a matrix of about 100.000 x 4 that I need to classify using
> euclidean metric. For that I am using dist or daisy functions, but I
> am afraid that the message: Error in vector("double", length) : vector
> size specified is too large, means too much lines.
>

Yes, your distance matrix will take dozens of Gigabytes to store.


> Can anyone suggest me how should I analyse this matrix?

Try something other than 'hierarchical clustering'.

See
 	http://cran.r-project.org/web/views/Cluster.html

for some suggestions.

kmeans(), perhaps ?

HTH,

Chuck

>
> Thanks in advance,
>
> Diogo André Alagador
> MNCN,CSIC, Madrid, Spain
> ISA, Lisbon, Portugal
>    
>
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Charles C. Berry                            (858) 534-2098
                                             Dept of Family/Preventive Medicine
E mailto:cberry at tajo.ucsd.edu	            UC San Diego
http://famprevmed.ucsd.edu/faculty/cberry/  La Jolla, San Diego 92093-0901