The following is a list of software packages and applications for biocybernetics research.

Data formats and specifications

• Systems Biology Markup Language (SBML)
• Biological Pathway Exchange (BioPAX)
• CellML
• Minimum Information About a Simulation Experiment (MIASE)
• Minimum information required in the annotation of models (MIRIAM)
• Systems Biology Ontology (SBO)
• Systems Biology Graphical Notation (SBGN)

Libraries for software development

• CyberUnits, a class library for computer simulations in life sciences^[1]

Software products

• SimThyr – Simulation system for thyroid homeostasis