in reply to Perl for science

I'm one of the creators of machetEC2, the Amazon Machine Image designed for working with data on Amazon's EC2 platform.

machetEC2 comes with Perl but no Perl modules. The reason for this is simple: I'm not a Perl hacker and I didn't know which ones to include!

@punkish (or anyone else), I'd LOVE to get an email with a list of the best packages/modules Perl has for doing science. We'll bundle them into the next version of machetEC2. (If you're feeling lazy, just leave a list of them in the comments to this node -- I'll check it later...)

Even better: check out the build scripts for machetEC2 at the Infochimps GitHub page and add whatever packages you think are necessary to config/packages.yaml. Send Infochimps a pull request and we'll include your changes!

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Re^2: Perl for science
by bruno (Friar) on Feb 13, 2009 at 10:25 UTC
    These are the ones that I've used for science:

    PerlMol (Chemistry)
    BioPerl (Bioinformatics)
    PDL (Numerical computation)
    AI::Genetic::Pro (Genetic Algorithm)

    I haven't been able to build it yet, but I'm also looking forward to using Math::GSL, a Perl wrapper for the Gnu Scientific Library. It looks very promising.
    Update: I just did. Apparently, the module doesn't like libgsl 1.10 (a lower or higher version will do).

[reply]

      @bruno, thanks! i'll put those into the next build of machetEC2.

      any other suggestions?

[reply]
        Come to think about it, Algorithm::Cluster is also a great choice for clustering (duh!) data; it's a wrapper for the Clustering C library, has superb documentation (POD and a PDF manual) and it's blazingly fast.
[reply]

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