A Blogger's Guide to Systems Biology-1
Resources Directory
| Desktop applications | Web applications | Model repositories | Formats |
| JSim | JWS online | BioModels | SBML |
| CompuCell3D | Virtual cell | DOQCS | CellML |
| CellDesigner | PyBios | JWS Online | BioPAX |
| E-Cell | WebCell | NSR | CSML |
| CADLIVE | Cellucidate | CellML | SED-ML |
| SBW | SYCAMORE | insilicoML | |
| JDesigner | BASIS | Notations | |
| BioNessie | Process Diagram | Guidelines | |
| JACOBIAN | MATLAB Tools | MIM | MIRIAM |
| Gepasi | PottersWheel | PATIKA | MIASE |
| PCEnv | SBMLToolbox | EPN | |
| BioUML | SBTOOLBOX2 | BioD | Ontologies |
| Jarnac | SBPD | SBO | |
| Copasi | SimBiology | Converters | KiSAO |
| ProcessDB | SBML-SAT | CellML2SBML | CSO |
| ByoDyn | SBML2CellML | ||
| insilicoIDE | APIs | SBML2CSML | Others |
| Cell Illustrator | CellML | CellML2CSML | SBML Sh |
| Insilico Discovery | CSML | KEGG2SBML | Little b |
| Dizzy | libSBML | SBML2LaTeX | SBMM |
| ProMoT | pysbml | ||
| SynBioSS | Standards | ||
| Oscill8 |
Mathematica | SBGN | |
| CESE | MathSBML | ||
| XPPAUT | Cellerator | ||
| PathwayLab | xCellerator | ||
| SBMLsqueezer |
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