[pymvpa] SOM with custom distance metric

Michael Hanke mih at debian.org
Sat Aug 11 19:01:38 UTC 2012


On Fri, Aug 10, 2012 at 11:45:57AM -0400, Alan Johnson wrote:
> I'd like to use the PyMVPA self-organizing map module, but with a
> different distance metric for input vectors besides Euclidean.
> Looking at the source code of som.py, can I subclass SimpleSOMMapper,
> just changing _get_bmu()?  On a more theoretical note, does the metric
> need to strictly be a metric, as opposed to a dissimilarity measure?

This code is still from the early days. Instead of subclassing it just
for your needs, I'd like to encourage you to extent it with the
necessary flexibility that you need and send us a patch or a pull
request. Your effort would be most welcome!


Michael Hanke

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