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Submission + - SciRuby: science and matrix libraries for Ruby (

Aciel writes: "Ruby has long been popular in the web/business community, while Python dominates the scientific community. One new project seeks to bring balance to the force: SciRuby. We've already introduced a linear algebra library called NMatrix (currently alpha status). There's at least one fellowship available for students interested in working on the project this summer."

Comment Ruby on Rails (Score 1) 235

I write a Rails server for each of my experiments. Rake tasks are GREAT for bioinformatics pipelines, and migrations and database backups make it incredibly easy to save old experiments.

Plus, various Ruby gems (starling, workling) enable me to farm out long-running experiments to a variety of lab machines. I can use Rice to write C++ Ruby extensions that are compiled individually on different machines.

And all of this is stored in a PostgreSQL database. (MySQL is slow for complex joins, which you sometimes have to write in bioinformatics.)

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