New Version of COPASI Released (4.44 build 295)
. A new version of COPASI has been released (4.44 build 295). The new version of COPASI has numerous bug fixes.
News and Releases
New Version of COPASI Released (4.43 build 288)
. A new version of COPASI has been released (4.43 build 288). COPASI now supports SBML L3V2 and has numerous bug fixes.
New Version of VCell 7.5
. Some of the new VCell features include:
- Increased quotas for ODE and PDE jobs.
- Allow parameter scans on local client-side simulation runs.
- Improved BioModel units system transformation
Please see VCell Release History. for a comprehensive list of the new features.
New Version of COPASI Released (4.39 build 272)
. New features:
- Easy way to create sums, sums of squares, sums of absolute values, and products for a selected class of objects in expression widgets.
- Added irreversible uni-molecular and bimolecular Arrhenius kinetic rate laws as built-in functions.
- Several bug fixes
New Version of COPASI Released (v. 4.38 build 268)
. A new version of COPASI has been released (4.38 build 268). Major bug fixes for OS X, improved handling of OMEX files, improved handling of units from SBML files, and other bug fixes.
SpringSaLaD used for Coarse-Grained Molecular Modeling in Publication
. SpringSaLaD software was used to model contractility kits, complexes in the cytoplasm of Dictyostelium cells consisting of myosin II and cortexillin I in the publication, Particle-based model of mechanosensory contractility kit assembly.
New Version of COPASI is Now Available (v. 4.37)
. This update improves support for SED-ML processing and a new installation package for OS X Big Sur or later on Intel platform. Please see the Changelog and Download pages for more information.
VCell Tutorial at ICSB 2022, Berlin Germany
. Michael Blinov and Ion Moraru will gave a VCell tutorial at the 21st International Conference on Systems Biology - the premier meeting on systems studies in biology, human evolution disease and planetary health. The meeting took place in Berlin, Germany on October 8th-12th. The tutorial was on October 9th at 12:30 pm local time. Visit Satellite Events.
23rd Annual Workshop on Computational Cell Biology
. The 23rd Computational Cell Biology Workshop took place at R. D. Berlin Center for Cell Analysis and Modeling (CCAM) on May 23-25th. For 3 days, more than 40 online participants learned how to use VCell, COPASI and SpringSalad software tools for modeling of cell biology systems. 16 participants participated in the “project track”, working individually with CCAM staff on developing their modeling projects.
COPASI 4.36 (Build 260) Released
. A new stable release of COPASI, 4.36 (Build 260), is now available. This update addresses a vulnerability in the XML parsing through the billion laughs attack. Please see the changelog and download pages for more information.
COPASI 4.35 (Build 258) Released
. A new release of COPASI has been made available. Please visit the download page to retrieve this latest stable release. This mainly bug fix release some issue in COPASI 4.34 (Build 251). More information can be found in the changelog.
Slepchenko Publication
. Congratulations to Boris Slepchenko on his latest publication with CCAM alumnus Masoud Nickaeen, A model of actin-driven endocytosis explains differences of endocytic motility in budding and fission yeast. In this article they showed that a molecularly explicit model of forces exerted by actin filaments on endocytic invaginations explains the differences in endocytic invaginations between budding and fission yeast.
Cowan and Loew Publication
. Ann Cowan and Les Loew are authors on another paper with the Carlier lab. This paper was published in The Biophysicist, Teaching Mathematical Modeling of Cellular Systems with the VCell MathModel. Congratulations on this paper and their continued collaborative work.
Loew is Co-author on Paper
. The paper was published with collaborators from the Pollard lab at Yale, published online in the Biophysical Journal (PMID 34509503). The work was started by Les some time ago to computationally explore molecular details of actin assembly and was recently revived by a graduate student in the Pollard lab.
COPASI 4.34 Release!
. The COPASI team announces the immediate availability of the stable release COPASI 4.34 (Build 251).
Blinov and Moraru Publication
. Michael Blinov and Ion Moraru are co-authors on a paper introducing RunBioSimulations, a single web application for running a broad range of models. (PMID 34019658)
Cowan and Loew Publication
. Ann Cowan and Les Loew are authors on a paper from the Carlier lab published in PLOS Computational Biology, Ten steps to investigate a cellular system with mathematical modeling. (PMID 33983922)
Congratulations to Les Loew!
Les Loew recognized as Board of Trustees Distinguished Professor.
COPASI New Release!
The COPASI team announces the immediate availability of the stable release COPASI 4.30 (Build 240).