Forums

Ciao,
this initiative is great for me.
Some collegues and I have already started working in such direction.

We implemented Snazer (The simulations and networks analyzer): a newly
released prototype designed both to depict interaction graphs (if
provided) and to statistically analyze simulation traces. Its MVC
architectural logics is based on a floating XML token moving between
the statistics and graph panels. Such xml incapsulates
meta-information about the interactions and interactive objects of a
system as well as about their simulated traces. Snazer compresses such
traces into litteral strings and uses them to decorate each species.
It uses a pipeline of semantic and structural compressors to reach
extraordinary compression levels and make easy the storing and sharing
process.

If you think something about this could be interesting, please let me know.

ciao
Tommaso



Quoting Pedro Mendes <pedro.mendes@manchester.ac.uk>:

> Dear all,
>
> It has become clear with the success of SBML that we need
> also a good representation to communicate *results* of
> operations done with models (eg simulation), in a way that
> makes those results clearly associated with the model. (The
> same applies to experimental data.)
>
> After some considerable brainstorming and lots of
> prototyping, we have now created a draft specification for
> a Systems Biology Results Markup Language (SBRML). This
> draft is now open for comments from the community in the
> hope that we will be able to get sufficient feedback to
> allow a serious improvement of this specification and be
> able to agree (at some SBML forum) to use it as a standard.
>
> We will present this draft at the upcoming SBML Forum, and
> open it for discussion there. In the interest of sparing
> some trees, we are *not* going to bring hard copies - if
> you want to have a hardcopy in Gothenburg, you should print
> the PDF in the link below and bring it with you to the
> meeting.
>
> The draft document and the corresponding XML schema
> definition are available at
> http://comp-sys-bio.org/tiki-index.php?page=SBRML
> Please have a look!
>
> Joseph Dada, Norman Paton & Pedro Mendes
> The Universtity of Manchester
>
> --
> Pedro Mendes
> Chair in Computational Systems Biology
> University of Manchester
>
> School of Computer Science
> Manchester Centre for Integrative Systems Biology
> 131 Princess St., Manchester, M1 7DN, UK
> ____________________________________________________________
> To manage your sbml-discuss list subscription, visit
> https://utils.its.caltech.edu/mailman/listinfo/sbml-discuss
>
> For a web interface to the sbml-discuss mailing list, visit
> http://sbml.org/Forums/
>
> For questions or feedback about the sbml-discuss list,
> contact sbml-team@caltech.edu
>



____________________________________________________________
To manage your sbml-discuss list subscription, visit
https://utils.its.caltech.edu/mailman/listinfo/sbml-discuss

For a web interface to the sbml-discuss mailing list, visit
http://sbml.org/Forums/

For questions or feedback about the sbml-discuss list,
contact sbml-team@caltech.edu