Antimony

Antimony plugin

Antimony plugin for BioUML 0.9.6 aims to combine two representations of mathematical model (particularly - SBML model):

• visual representation as BioUML-diagram using extended SBGN notation
• text-based representation using Antimony language.

Plguin allows user to edit model both visually and as text. If visual repesentation is changed - antimony text is updated on the fly. Text changes are applyed to the diagram on demand. Besides model representations syncrhonisation, we also try to presereve user diagram layout as well as antimony text format (spaces, comments, etc.)

Visual (SBGN) and text-based (Antimony) representations of SBML model in BioUML

Antimony Tutorial

Scheme for compartment adding via Antimony

File:Species.png

Scheme for species adding via Antimony