Dies ist eine alte Version des Dokuments!

Already Included

• semanticSBML (wrapper needed for KEGG license)
• libSBML 3 (deb repo)
• Python 2.5, IPython
• CellDesigner (IMPORTANT: bug fix needed for use within ubuntu: Tools/ )
• Biomodels
• COPASI (wrapper needed for restricting access to non-commercial use)
• gtk-recordMyDesktop
• a simple XML editor (kxml, eclipse, XML Copy Editor)
• Xppaut
• SciPy
• NumPy

We are also allowed to include (less Important, can be included later)

• SBMLSqueezer (plugin for celldesigner)
• latex2sbml
• ModelMage (wrapper needed for COPASI non-commercial use)
• TIde (also needs a wrapper for COPASI) (Download and installation instructions)
• SBML-PET
• R 2.8
• SBMLeditor
• Cytoscape
• E-cell System
• Meso-RD
• epydoc
• Dizzy
• protege
• SBML ODE Solver (Christoph Flamm University of Vienna, Austria www die haben auch iher eigene LiveCD gemacht, Debian based, mit tutorials, emial kontakt aufnehmen)

SBML/BIOPax Models

• BioModels (curated already included)
• yeast jamboree
• BioCyc, EcoCyc, …
• JWS Online

We have to check the legal restrictions for:

• Vanted
• Binom (plugin to connect celldesigner and cytoscape)