*Import for Process Diagrams in CellDesigner 4.0/4.1 format
*Data analysis
- a lot of new methods for analyses of microarray data
- import data in different formats
- JavaScript API to work with models and simulation engine (JavaScript host objects model and simulationEngine)
*Workflow support
- improved graphic editor
- cycles
- patterns for input/output parameters
- automatic orthogonal layout for edges
*Simulation engine
- composite models (beta version): graphic notation improvements, special preprocessor to generate flat model
- agent based models - improved, new elements
*User interface improvements
- a lot of new icons
- drag & drop support
- improved filter for tables(user can filter rows using some expression)
- improved graph layout: hierarchical layout, orthogonal layout
*Mathematical expressions:
- special editor for all mathematical expressions
- user can use node title (instead of its name/identifier) in math expressions
- different modes to show variable names (using id or title)
*Coloring diagram using omics data (redesigned)
*BioUML server:
- PantherDB pathways in CellDesigner 4.1 format
- Reactome database: direct access using SQL, display diagrams in SBGN graphic notation
- security improvements
If you will have any questions or problems with BioUML workbench/web edition please contact fedor@biouml.org