Tools Comparison
From BioUML platform
Revision as of 22:30, 2 May 2019 by Ilya Kiselev (Talk | contribs)
Here we collect information about similar software and their features in comparison with BioUML.
| BioUML | COPASI | iBioSim | CellDesigner | Tellurium | Morpheus | |||||||||
| Capabilities | ||||||||||||||
| Model creation | visual\text-based | via tables | ||||||||||||
| Simulation | + | + | + | + | + | |||||||||
| Parameter fitting | + | + | ||||||||||||
| Model analysis | + | + | + | - | + | |||||||||
| Database access | + | - | + | - | ||||||||||
| Formalism | ||||||||||||||
| ODE | + | + | + | + | + | + | ||||||||
| Stochastic | + | + | + | + | ||||||||||
| Algebraic | + | - | + | |||||||||||
| Discrete | + | + | + | |||||||||||
| Modular modeling | + | - | + | - | + | |||||||||
| Agent-based | + | - | + | - | ? | - | ||||||||
| Rule-based | + | - | - | - | - | - | ||||||||
| Population-based | + | - | - | - | - | - | ||||||||
| Standards | ||||||||||||||
| SBML | l3v1 import\export, all tests passed | l3v1 import\export partially | l3v1 import\export | |||||||||||
| SBML comp | import\export, all tests passed | - | import\export, all tests passed | - | ||||||||||
| SBGN | + | export | - | |||||||||||
| SedML | + | - | - | |||||||||||
| SBOL | - | - | + | - | - | - | _ | Antimony | + (in standalone) | - | - | - | + | |
| Bionetgen | + (in standalone) | - | - | - | ||||||||||
| BioPAX | + | - | - | ? | ||||||||||
| Availability | ||||||||||||||
| Windows | + | + | + | + | ||||||||||
| Linux | + | + | + | + | ||||||||||
| MacOS | + | + | + | + | ||||||||||
| Web application | + | - | - | - | ||||||||||
| Programming Language | Java | C | Java | Java |
