[pymvpa] Pymvpa help

[Michael Hanke]

Hi Preeti,

[on-list reply with your permission]

On Wed, Jun 24, 2009 at 02:31:26PM -0500, Preeti Bais wrote:
> Dear Michael,
> 
> I am a graduate student in Bioinformatics at Iowa State University. I came
> across PyMVPA and was quite impressed with it. I am trying to develop a GUI
> based system (using PYQt) with machine learning capabilities (using PYMVPA) for
> metabolomics data. I am new to pyton programming and was wondering if you have
> any examples of PYQT and PYmvPA collaboration. Also, do you have any example
> scripts for clustering (hierarchical) using PyMVPA.
> 
> In general, the documentation is very good but I am looking for more examples
> and would it would be really great if you could direct me to some more examples.

There's currently no GUI-code that I would know of. This issue was
raised a couple of times, but so far we considered having a GUI less
important than developing all the features we already know that we want
to have -- but simply did not have the time to implement.

However, I have a good feeling that implementing a PyQt-based frontend to
some functionality of PyMVPA should be pretty straightforward. To give
more detailed (and useful) advice we would need a bit more information
what kind of analysis you are aiming at. Or do you intent to provide a
GUI that includes PyMVPA's ability to develop new analysis strategies
itself? I guess that would make the GUI a lot different.

Probably, it would also be useful to implement support for the
dataformats you typically work with. If you start using that, please
consider submitting that code for inclusion into PyMVPA (with proper
unit tests), so we can make sure it evolves together with the rest of
the package in the future.

Per clustering analysis: There is some code that uses the hcluster
package to do cluster analysis in the supplementary material of the
Frontiers in Neuroinformatics paper (cannot include a link, since I am
sitting in a train being offline, but it is available on http://www.pymvpa.org).

Thanks for your interest,

Michael

-- 
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