Release of BioUML 2020.4

[Ilya Kiselev]

Dear all!

We are glad to announce that new 2020.4 version of BioUML was released and can be downloaded from bio-store.org. Web version is available at https://ict.biouml.org/.

New features and improvements include

• Simulation:
  
  • New simulation document allowing user to vary model parameters and immediately observe changes in simulation results.
• Diagrams:
  
  • Reaction creation dialog is more compact with a separate tab for reaction law editing.
  • Export\Import enhanced. Models can be exported along with all its submodels and related data tables in one archive. In future it will be developed into full-fledged Combine archives support.
    
  • New tab to edit all variables of the model.
  • Species can be renamed.
  • Nodes movement improved.
  • Initial variable values can be set to diagrams from external tables (e.g. parameter fitting result).
• Parameter fitting
  
  • Optimization can use table data (e.g. result of another parameter fitting) as a starting point.
  • During parameter fitting intermediate results (a table with the current best fitted parameter values) can be saved without stopping the process.
  • Results of parameter fitting can be saved as autogenerated plot.
• Web
  
  • Improved integration with Jupyter.
  • Default project can be set.
  • Variables to plot during model simulation can be edited through more convenient dialog.
  • Complex can be more easily selected with all its elements by double click.
  • New tab to work with Flux Balance Analysis.

We also would like to take this opportunity to wish everyone in SBML community Merry Christmas and a Happy new Year!

On the behalf of the BioUML team,

Ilya