From: "Ramon Diaz-Uriarte" <rdiaz02@gmail.com>
To: "Jon Harrop" <jon@ffconsultancy.com>
Cc: caml-list@yquem.inria.fr
Subject: Re: [Caml-list] Bioinformatics + OCaml
Date: Thu, 29 Mar 2007 12:23:52 +0200 [thread overview]
Message-ID: <624934630703290323l68039b3qf6c489d674872e65@mail.gmail.com> (raw)
In-Reply-To: <200703290131.05083.jon@ffconsultancy.com>
On 3/29/07, Jon Harrop <jon@ffconsultancy.com> wrote:
> On Saturday 10 March 2007 21:15, Oliver Bandel wrote:
> > Look for Perl & Bioinformatics at O'Reilly#s Homepage
> > and rewrite the examples in Ocaml or F# ;-)
>
> I already did that but OCaml and F# have very different strengths compared to
> Perl (and all other languages currently used in bioinformatics). So I really
> need fresh examples that leverage these languages more, which typically means
> rewriting research that is currently almost impossible to code in Perl/Python
> as an easy ML program.
>
Not sure this adds anything, but the kind of bioinformatics I do is
mostly statistics and similar with genomic/proteomic data sets. And
many (most ?) people seem to do that via R (and maybe C, and to a
lesser extent Fortran, called from R). We also tend to use
parallelization quite a bit via MPI (from this list, I understand some
of the latter might fit some of F#'s strengths).
Python usage, for us, is limited to some initial data cleaning, error
checking, etc, (we also use some sed and awk) and the CGI interfaces.
I am not sure how OCaml would fit here but it'd be great to see
examples of usage.
Best,
R.
> --
> Dr Jon D Harrop, Flying Frog Consultancy Ltd.
> OCaml for Scientists
> http://www.ffconsultancy.com/products/ocaml_for_scientists
>
> _______________________________________________
> Caml-list mailing list. Subscription management:
> http://yquem.inria.fr/cgi-bin/mailman/listinfo/caml-list
> Archives: http://caml.inria.fr
> Beginner's list: http://groups.yahoo.com/group/ocaml_beginners
> Bug reports: http://caml.inria.fr/bin/caml-bugs
>
--
Ramon Diaz-Uriarte
Statistical Computing Team
Structural Biology and Biocomputing Programme
Spanish National Cancer Centre (CNIO)
http://ligarto.org/rdiaz
prev parent reply other threads:[~2007-03-29 10:23 UTC|newest]
Thread overview: 5+ messages / expand[flat|nested] mbox.gz Atom feed top
2007-03-09 19:08 Martin Jambon
2007-03-10 14:57 ` [Caml-list] " Jon Harrop
2007-03-10 21:15 ` Oliver Bandel
2007-03-29 0:31 ` Jon Harrop
2007-03-29 10:23 ` Ramon Diaz-Uriarte [this message]
Reply instructions:
You may reply publicly to this message via plain-text email
using any one of the following methods:
* Save the following mbox file, import it into your mail client,
and reply-to-all from there: mbox
Avoid top-posting and favor interleaved quoting:
https://en.wikipedia.org/wiki/Posting_style#Interleaved_style
* Reply using the --to, --cc, and --in-reply-to
switches of git-send-email(1):
git send-email \
--in-reply-to=624934630703290323l68039b3qf6c489d674872e65@mail.gmail.com \
--to=rdiaz02@gmail.com \
--cc=caml-list@yquem.inria.fr \
--cc=jon@ffconsultancy.com \
/path/to/YOUR_REPLY
https://kernel.org/pub/software/scm/git/docs/git-send-email.html
* If your mail client supports setting the In-Reply-To header
via mailto: links, try the mailto: link
Be sure your reply has a Subject: header at the top and a blank line
before the message body.
This is a public inbox, see mirroring instructions
for how to clone and mirror all data and code used for this inbox;
as well as URLs for NNTP newsgroup(s).