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  • Title: GraphML-SBGN bidirectional converter for metabolic networks.
    Author: Balaur I, Roy L, Touré V, Mazein A, Auffray C.
    Journal: J Integr Bioinform; 2022 Dec 01; 19(4):. PubMed ID: 36563404.
    Abstract:
    Systems biology researchers need feasible solutions for editing and visualisation of large biological diagrams. Here, we present the ySBGN bidirectional converter that translates metabolic pathways, developed in the general-purpose yEd Graph Editor (using the GraphML format) into the Systems Biology Graphical Notation Markup Language (SBGN-ML) standard format and vice versa. We illustrate the functionality of this converter by applying it to the translation of the ReconMap resource (available in the SBGN-ML format) to the yEd-specific GraphML and back. The ySBGN tool makes possible to draw extensive metabolic diagrams in a powerful general-purpose graph editor while providing results in the standard SBGN format.
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