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bioRxiv · 10.1101/2020.11.15.383703

LoopDetect: Comprehensive feedback loop detection in ordinary differential equation models

Baum, K.·Wolf, J.
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Abstract

SummaryThe dynamics of ordinary differential equation (ODE) models strongly depend on the model structure, in particular the existence of positive and negative feedback loops. LoopDetect offers user-friendly detection of all feedback loops in ODE models in three programming languages frequently used to solve and analyze them: MATLAB, Python, and R. The developed toolset accounts for user-defined model parametrizations and states of the modelled variables and supports feedback loop detection over ranges of values. It generates output in an easily adaptable format for further investigation. Availability and ImplementationLoopDetect is implemented in R, Python 3 and MATLAB. It is freely available at https://cran.r-project.org/web/packages/LoopDetectR/, https://pypi.org/project/loopdetect/, https://de.mathworks.com/matlabcentral/fileexchange/81928-loopdetect/ (GPLv3 or BSD license). Contactkatharina.baum@hpi.de

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Baum, K., Wolf, J.. 2020-11-17. LoopDetect: Comprehensive feedback loop detection in ordinary differential equation models. https://doi.org/10.1101/2020.11.15.383703

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