Comments on: Scala for bioinformatics http://tiago.org/ps/2007/10/26/scala-for-bioinformatics/ Computational Biology, Epidemiology, Infectious diseases, Open Science Mon, 02 Nov 2009 14:07:57 +0000 http://wordpress.org/?v=2.8.5 hourly 1 By: Coast to Coast Bio Podcast » Blog Archive » Episode 16: Crowdsourcing and scaling http://tiago.org/ps/2007/10/26/scala-for-bioinformatics/comment-page-1/#comment-40738 Coast to Coast Bio Podcast » Blog Archive » Episode 16: Crowdsourcing and scaling Fri, 27 Mar 2009 06:26:39 +0000 http://tiago.org/ps/2007/10/26/scala-for-bioinformatics/#comment-40738 [...] Tiago on using Scala for Bioinformatics [...] [...] Tiago on using Scala for Bioinformatics [...]

]]> By: ketil http://tiago.org/ps/2007/10/26/scala-for-bioinformatics/comment-page-1/#comment-7830 ketil Sat, 17 May 2008 11:20:06 +0000 http://tiago.org/ps/2007/10/26/scala-for-bioinformatics/#comment-7830 ...uh, available from: http://malde.org/~ketil/biohaskell -k …uh, available from:
http://malde.org/~ketil/biohaskell

-k

]]> By: ketil http://tiago.org/ps/2007/10/26/scala-for-bioinformatics/comment-page-1/#comment-7829 ketil Sat, 17 May 2008 11:18:57 +0000 http://tiago.org/ps/2007/10/26/scala-for-bioinformatics/#comment-7829 I have been using Haskell for bioinformatics the last few years, with, I would claim, some degree of success. There's a fair-sized and growing library available from my web site, should you be interested. -k I have been using Haskell for bioinformatics the last few years, with, I would claim, some degree of success. There’s a fair-sized and growing library available from my web site, should you be interested.

-k

]]> By: Greg M http://tiago.org/ps/2007/10/26/scala-for-bioinformatics/comment-page-1/#comment-2721 Greg M Sat, 05 Jan 2008 08:27:03 +0000 http://tiago.org/ps/2007/10/26/scala-for-bioinformatics/#comment-2721 I actually think Haskell is about as practically-oriented as a lazy pure functional language can be (Clean is no less practical, but it fails some of your other criteria). You might think referential transparency is a research experiment rather than a truly fantastic language feature, but many would differ. Of course the JVM can't implement it, but the same limitations prevent Scala being half the language it ought to be. :( I actually think Haskell is about as practically-oriented as a lazy pure functional language can be (Clean is no less practical, but it fails some of your other criteria). You might think referential transparency is a research experiment rather than a truly fantastic language feature, but many would differ. Of course the JVM can’t implement it, but the same limitations prevent Scala being half the language it ought to be. :(

]]> By: Bioinformatics » Blog Archive » FOXO factor promotes survival of oxygen-deprived cancer cells http://tiago.org/ps/2007/10/26/scala-for-bioinformatics/comment-page-1/#comment-2506 Bioinformatics » Blog Archive » FOXO factor promotes survival of oxygen-deprived cancer cells Fri, 28 Dec 2007 00:29:15 +0000 http://tiago.org/ps/2007/10/26/scala-for-bioinformatics/#comment-2506 [...] Scala for bioinformaticsI am seriously considering doing the core of my work (at least when I have the freedom to decide) in Scala. The reasons? Well, I can give them in the form of requirements:. Domain Specific Language support, that is: … [...] [...] Scala for bioinformaticsI am seriously considering doing the core of my work (at least when I have the freedom to decide) in Scala. The reasons? Well, I can give them in the form of requirements:. Domain Specific Language support, that is: … [...]

]]> By: Bio::Blogs #16 - Halloween edition « Freelancing science http://tiago.org/ps/2007/10/26/scala-for-bioinformatics/comment-page-1/#comment-532 Bio::Blogs #16 - Halloween edition « Freelancing science Thu, 01 Nov 2007 00:25:11 +0000 http://tiago.org/ps/2007/10/26/scala-for-bioinformatics/#comment-532 [...] From Neil Saunders we have an excellent tutorial (part I and part II) about setting up and using SVN and Trac for tracking bioinformatics projects. In theory, scientists should be able to trace anything they release (not only source code) back to its origins and Neil has ready to implement solution. As Paulo Nuin from Blind.Scientist found Trac a little bit clumsy, he recommended svn-time-lapse instead, since it’s easier to compare two versions of the file (see part I and part II). You can test both approaches with your new project inspired by Tiago from Perfect Storm - he started an interesting journey with Scala for bioinformatics. [...] [...] From Neil Saunders we have an excellent tutorial (part I and part II) about setting up and using SVN and Trac for tracking bioinformatics projects. In theory, scientists should be able to trace anything they release (not only source code) back to its origins and Neil has ready to implement solution. As Paulo Nuin from Blind.Scientist found Trac a little bit clumsy, he recommended svn-time-lapse instead, since it’s easier to compare two versions of the file (see part I and part II). You can test both approaches with your new project inspired by Tiago from Perfect Storm – he started an interesting journey with Scala for bioinformatics. [...]

]]> By: Steve Piccolo http://tiago.org/ps/2007/10/26/scala-for-bioinformatics/comment-page-1/#comment-512 Steve Piccolo Tue, 30 Oct 2007 20:48:53 +0000 http://tiago.org/ps/2007/10/26/scala-for-bioinformatics/#comment-512 Would be interesting if you could discuss the tradeoffs between Scala and JRuby. Would be interesting if you could discuss the tradeoffs between Scala and JRuby.

]]> By: Fabrice http://tiago.org/ps/2007/10/26/scala-for-bioinformatics/comment-page-1/#comment-453 Fabrice Sat, 27 Oct 2007 16:30:19 +0000 http://tiago.org/ps/2007/10/26/scala-for-bioinformatics/#comment-453 and you can add the Actor-based concurrent programming and the ability to match objects with patterns. I starting scala too. I'm waiting your next posts ... Your blog is really interesting and you can add the Actor-based concurrent programming and the ability to match objects with patterns.
I starting scala too. I’m waiting your next posts …
Your blog is really interesting

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