AMICI: high-performance sensitivity analysis for large ordinary differential equation models

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Fabian Frohlich D Weindl Y Schälte D Pathirana Ł Paszkowski GT Lines P Stapor J Hasenauer
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Abstract

Ordinary differential equation models facilitate the understanding of cellular signal transduction and other biological processes. However, for large and comprehensive models, the computational cost of simulating or calibrating can be limiting. AMICI is a modular toolbox implemented in C++/Python/MATLAB that provides efficient simulation and sensitivity analysis routines tailored for scalable, gradient-based parameter estimation and uncertainty quantification.

Journal details

Journal Bioinformatics
Volume 37
Issue number 20
Pages 3676-3677
Available online
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Publisher website (DOI) 10.1093/bioinformatics/btab227
Europe PubMed Central 33821950
Pubmed 33821950

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