COPASI swMATH ID: 12253 Software Authors: S. Hoops, S. Sahle, R. Gauges, C. Lee, J. Pahle, N. Simus, M. Singhal, L. Xu, P. Mendes, U. Kummer Description: COPASI: biochemical network 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 or Gillespie’s stochastic simulation algorithm; arbitrary discrete events can be included in such simulations. COPASI carries out several analyses of the network and its dynamics and has extensive support for parameter estimation and optimization. COPASI provides means to visualize data in customizable plots, histograms and animations of network diagrams. (list of features). Homepage: https://academic.oup.com/bioinformatics/article/22/24/3067/208398 Related Software: BioModels; R; BioNetGen; KEGG; Python; SUNDIALS; Matlab; Data2Dynamics; BioGRID; Bio-PEPA; Bio-SPICE; PottersWheel; Celldesigner; tellurium; PEtab; libSBML; WGCNA; AMIGO; CellML; MEIGO Cited in: 59 Publications all top 5 Cited by 139 Authors 3 Sveshnikova, Anastasia N. 2 Banga, Julio R. 2 Cucinotta, Francis A. 2 Hinze, Thomas 2 Hsu, David Y. 2 Li, Yongfeng 2 Marchetti, Luca 2 Mizera, Andrzej 2 Petre, Ion 2 Priami, Corrado 2 Sanguinetti, Guido 2 Thiagarajan, Pazhamaneri Subramaniam 1 Abbruzzo, Antonino 1 Aguilera, Luis U. 1 Allart, Emilie 1 Alvarez, Robinson F. 1 Augugliaro, Luigi 1 Bacic, Antony 1 Back, Ralph-Johan 1 Balabin, Fedor A. 1 Ballarini, Paolo 1 Banks, C. J. 1 Bannink, Andre 1 Barbuto, José A. M. 1 Bassaganya-Riera, Josep 1 Bridge, Lloyd J. 1 Calder, Muffy 1 Cantrell, Doreen A. 1 Cao, Yang 1 Carra, Claudio 1 Castiglione, Filippo 1 Chelushkin, M. 1 Chen, Ming 1 Chen, Minghan 1 Ciocchetta, Federica 1 Clayton, Richard H. 1 Cravo, Fabricio 1 Daas, Johanna C. J. 1 Degasperi, Andrea 1 Delgado, Alberto Santos 1 Dell’Acqua, Guido 1 Dimitrov, Stanko 1 Doyle, Francis Joseph III 1 Eftimie, Raluca 1 Eubank, Stephen G. 1 Förster, Jonas D. 1 Fröhlich, Holger 1 Függer, Matthias 1 Gábor, Attila 1 Galochkina, Tatiana 1 Gambin, Barbara 1 Gilbert, David 1 Gillard, Joseph J. 1 Goussis, Dimitris A. 1 Gratie, Diana-Elena 1 Grigor’ev, Dmitriĭ Yur’evich 1 Grima, Ramon 1 Gutierrez, Juan B. 1 Hangos, Katalin Mária 1 Hariharaputran, Sridhar 1 Hasenauer, Jan 1 Heath, Allison P. 1 Heiner, Monika 1 Hillston, Jane 1 Hofestädt, Ralf 1 Hontecillas, Raquel 1 Houston, Matthew T. 1 Huynh-Thu, Vân Anh 1 Iancu, Bogdan 1 Ironi, Liliana 1 Jack, John 1 Kasabov, Nikola K. 1 Kavraki, Lydia E. 1 Kell, Douglas B. 1 Kircheis, Robert 1 Koh, Geoffrey 1 Kormeier, Benjamin 1 Kos, Martin 1 Kourdis, Panayotis D. 1 Kraikivski, Pavel 1 Kyurkchiev, Nikolaĭ Veselinov 1 Landmane, Katrina 1 Leyser, Ottoline 1 Likić, Vladimir A. 1 Lithgow, Trevor 1 Liu, Bing 1 Lombardo, Rosario 1 Mardare, Radu 1 Markov, Svetoslav Marinovich 1 Mcconville, Malcolm J. 1 Mura, Ivan 1 Niehren, Joachim 1 Nowak, Thomas 1 Pahle, Jürgen 1 Panteleev, Mikhail A. 1 Păun, Andrei 1 Prakash, Gayathri 1 Purutçuoğlu, Vilda 1 Radulescu, Ovidiu 1 Rebel, J. M. J. ...and 39 more Authors all top 5 Cited in 21 Serials 10 Journal of Theoretical Biology 6 Mathematical Biosciences 5 Bulletin of Mathematical Biology 4 Theoretical Computer Science 2 Mathematics and Computers in Simulation 2 Complexity 2 Journal of Mathematical Chemistry 2 Mathematical Modelling of Natural Phenomena 2 Methods in Molecular Biology 1 Journal of Computational Physics 1 Journal of Mathematical Biology 1 Information and Computation 1 International Journal of Robust and Nonlinear Control 1 Natural Computing 1 Proceedings of the Jangjeon Mathematical Society 1 Statistical Applications in Genetics and Molecular Biology 1 Journal of Physics A: Mathematical and Theoretical 1 1 Computer Science Review 1 Chapman & Hall/CRC Mathematical and Computational Biology Series 1 Journal of Membrane Computing all top 5 Cited in 20 Fields 54 Biology and other natural sciences (92-XX) 12 Computer science (68-XX) 7 Ordinary differential equations (34-XX) 5 Probability theory and stochastic processes (60-XX) 5 Statistics (62-XX) 5 Numerical analysis (65-XX) 4 Systems theory; control (93-XX) 3 Dynamical systems and ergodic theory (37-XX) 2 Combinatorics (05-XX) 1 General and overarching topics; collections (00-XX) 1 History and biography (01-XX) 1 Mathematical logic and foundations (03-XX) 1 Partial differential equations (35-XX) 1 Calculus of variations and optimal control; optimization (49-XX) 1 Fluid mechanics (76-XX) 1 Classical thermodynamics, heat transfer (80-XX) 1 Geophysics (86-XX) 1 Operations research, mathematical programming (90-XX) 1 Game theory, economics, finance, and other social and behavioral sciences (91-XX) 1 Information and communication theory, circuits (94-XX) Citations by Year