From: "Ara.T.Howard" <Ara.T.Howard@...>
Date: 2005-09-01T21:51:25+09:00
Subject: Re: Good code examples

On Thu, 1 Sep 2005, Barbier de Reuille wrote:

>> can you elaborate?  i'm not biologist ;-)
>
> Well, I'm working on some tissue growth. Tissues are here represented as
> graph with nodes being cells and edges beeing the neighborhood relationship.
> Computing the evoluation of this graph is largely symbolic. However, you
> need to solve some ODE on this graph. Most of the case these ODEs rule the
> concentrations of different proteins. Solving these ODEs involve numerical
> computation.
>
> Also, to study the structure of real tissues we extract quantitative data
> from graph constructed using existing tissues. Once extracted we can get
> some hundred or thousand data. We need statistical tools to study them. And
> they're not easy (cyclic, spatial, ...) so we need tools like GNU R and the
> big number of statistic libraries available.

these may be helpful, if the sovlers can be used.  there are some good graph
libs out there too.

   http://ruby-gsl.sourceforge.net/
   http://alcaraz.home.cern.ch/alcaraz/RubyRoot/

cheers.

-a
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