COPASI

COPASI: Biochemical System Simulator

COPASI is a software application for simulation and analysis of biochemical networks and their dynamics.

COPASI is a stand-alone program that supports models in the SBML standard and can simulate their behavior using ODEs, SDEs, or Gillespie's stochastic simulation algorithm. Arbitrary discrete events can be included in such simulations. COPASI provides a set analysis methods and parameter estimation, a list of all features can be found here.

Most recent News

Release

COPASI 4.39 (Build 272) Released

Stefan Hoops: 2023-01-31 01:00:00 +0000

The COPASI team announces the immediate availability of the stable release COPASI 4.39 (Build 272).

A new release of COPASI has been made available. Please visit our free download page to retrieve this latest development release. Please note this version is released under the Artistic License 2.0, which is an OSI approved license. This license allows non-commercial and commercial use free of charge.

Release Date: January 31, 2024

New Features

  • Graphical User Interface (CopasiUI)
    • Implement the creation of expressions for sum, sum of squares, sum of absolute, and product for a selected class of objects in expression widgets.
  • Simulation Engine
    • Added irreversible uni-molecular and bimolecular Arrhenius kinetic functions to build in functions.

Bug Fixes

  • Graphical User Interface (CopasiUI)
    • Fix possible crash when clicking the revert button in the parameter estimation task.
    • Improved plotting of parameter estimation results for steady-state experiments.
  • Simulation Engine
    • Fixed possible crash when running optimization or parameter fitting using the optimization method Praxis.

More information can be found in the changelog.

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Release

COPASI 4.38 (Build 268) Released

Stefan Hoops: 2022-11-30 01:00:00 +0000

The COPASI team announces the immediate availability of the stable release COPASI 4.38 (Build 268).

A new release of COPASI has been made available. Please visit our free download page to retrieve this latest development release. Please note this version is released under the Artistic License 2.0, which is an OSI approved license. This license allows non-commercial and commercial use free of charge.

Release Date: November 30, 2022

Bug Fixes

  • Graphical User Interface (CopasiUI)
    • Improved import von Combine Archives containing multiple SED-ML files and task.
    • Improved display of the Fischer Information Matrix (FIM) and it’s analysis supporting unscaled and scaled results in different tabs.
    • Fixed editing of function parameters under Mac OS Big-sur and Monterrey caused by switch to Qt 6.
    • Fixed editing of the weight in the experimental data for parameter fitting when using multiple experiments.
  • Simulation Engine
    • Optimization and Parameter Fitting deal now properly with invalid start values for the optimization parameters.
  • Standards
    • Support export to SBML of mathematical expression containing initial values.
    • When exporting to SBML all COPASI annotations are now prefixed.
    • Fixed SBML import of units using multipliers different from 1 to encode scaled units.
    • Improved Combine archive export by adding the master flag to SED-ML files.
    • Fixed Combine archive export of old COPASI files created with COPASI prior to COPASI 4.6 (Build 32).
    • Implemented SED-ML import of scan tasks using functional ranges.

More information can be found in the changelog.

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Release

COPASI 4.37 (Build 264) Released

Stefan Hoops: 2022-10-05 01:00:00 +0000

The COPASI team announces the immediate availability of the stable release COPASI 4.37 (Build 264).

A new release of COPASI has been made available. Please visit our free download page to retrieve this latest development release. Please note this version is released under the Artistic License 2.0, which is an OSI approved license. This license allows non-commercial and commercial use free of charge.

Release Date: October 5, 2022

New Features

  • Graphical User Interface (CopasiUI)
    • Import dialogs for COMBINE archives or SED-ML files with importable entities like SBML models, SED-ML files, or SED-ML tasks.
  • Command Line (CopasiSE)
    • Support for handling COMBINE archives or SED-ML files with importable entities like SBML models, SED-ML files, or SED-ML tasks.
  • Installation
    • Installation package for Mac OS Big Sur and later on Intel platform
  • Language Bindings
    • Java bindings for Mac OSC package on Arm platform
  • Standards
    • Enhanced interfacing with COMBINE archives and SED-ML files in CopasiUI and CopasiSE

More information can be found in the changelog.

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Release

COPASI 4.36 (Build 260) Released

Stefan Hoops: 2022-05-16 01:00:00 +0000

The COPASI team announces the immediate availability of the stable release COPASI 4.36 (Build 260).

A new release of COPASI has been made available. Please visit our free download page to retrieve this latest development release. Please note this version is released under the Artistic License 2.0, which is an OSI approved license. This license allows non-commercial and commercial use free of charge. This bug fix release addresses a possible vulnerability in XML parsing through the billion laughs attack:

Release Date: May 16, 2022

More information can be found in the changelog.

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Release

COPASI 4.35 (Build 258) Released

Stefan Hoops: 2022-03-15 01:00:00 +0000

The COPASI team announces the immediate availability of the stable release COPASI 4.35 (Build 258).

A new release of COPASI has been made available. Please visit our free download page to retrieve this latest development release. Please note this version is released under the Artistic License 2.0, which is an OSI approved license. This license allows non-commercial and commercial use free of charge. This is mainly bug fix release addressing some issues in COPASI 4.34 (Build 251):

Release Date: March 15, 2022

More information can be found in the changelog.

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