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Thursday, February 14, 2013

SBML Level 3 Package for Flux Balance Constraints

It is official, the SBML Level 3 Package for Flux Balance Constraints has been released! In its first version it allows to efficiently store constraints of Flux Balance models along with objectives to be met.


You can find the full specification online under:

As of today the next release of libSBML (5.8.0) has gone into code freeze, that will include the FBC package, along with full validation and conversions from SBML Levels that use the COBRA annotations to SBML Level 3 models with the FBC package. This new version is bound to be released by the end of the month. In the meantime nightly windows builds can be found on our build server.

With this release I’ve also made a new version of my FluxBalance tool available. Version 1.7 now already uses the COBRA importer, and has been redesigned to efficiently compute flux balance solutions for even genome scale models (albeit the loading of these models still takes a while).

A big thanks to the SBML editors and the community to make this possible!

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