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Chemical Organization Theory

Basic Tools

  • Tool to find cycles (so far only Linux) ("Cycles and the Qualitative Evolution of Chemical Systems")

Examples and Data

  • Data and Supplement
    Reaction networks (SBML) and organizations from: F. Centler, C. Kaleta, P. Speroni d. F., P. Dittrich; Computing Chemical Organizations]{Computing Chemical Organizations in Biological Networks; Bioinformatics, 24(14), 1611 - 1618

Rule-based Simulation in Space

biosys  SRSim: rule-based simulation of reaction networks in 3d space (based on the LAMMPS molecular dynamics simulator)


Software from the HIERATIC Project