| |
URDME 1.1
|
MesoRD 1.0
|
STEPS 1.3
|
|---|
|
Interface
|
Matlab & Comsol
|
Command line
|
Python
|
| | |
Simple GUI (Windows)
| |
|
Visualization
|
Matlab & Comsol
|
OpenGL tool
|
PyOpenGL tool
|
| | |
Matlab toolbox
| |
|
Post-processing
|
Matlab
|
3rd party
|
Python
|
|
SBML support
|
Conversion tool
|
SBML L2v4
|
Import module
|
| |
(no geometry)
|
+ CSG geometry
|
(no geometry)
|
|
Edit Geometry
|
Comsol
|
SBML
|
3rd party
|
|
Mesh Type
|
Vertex centered
|
Uniform Cartesian
|
Body centered
|
| |
Tetrahedrons
| |
Tetrahedrons
|
|
Algorithms
|
NSM, DFSP
|
NSM
|
Spatial-SSA
|
| |
+ extendable
|
+non-local extension
| |
|
Propensity types
|
All
|
SBML (MathML)
|
Mass-action
|
|
Model Features
|
compartments
|
compartments
|
compartments
|
| |
surfaces
| |
surfaces
|
| |
volume diffusion
|
volume diffusion
|
volume diffusion
|
| |
surface diffusion
| | |
| |
directed transport
| | |
- This table summarizes the main differences and similarities between the software packages URDME, MesoRD and STEPS.
