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RTF: an R package for modelling time course data
Eva Brombacher1,2,3,4, Clemens Kreutz1,2
1Institute of Medical Biometry and Statistics, Faculty of Medicine and Medical Center-University of Freiburg, 79104 Freiburg, Germany.
Summary:
The retarded transient function (RTF) approach serves as a complementary method to ordinary differential equations (ODEs) for modelling dynamics typically observed in cellular signalling processes. We introduce an R package that implements the RTF approach, originally implemented within the MATLAB-based Data2Dynamics modelling framework. This package facilitates the modelling of time and dose dependencies, and it includes the possibility of model reduction to minimize overfitting. It can be applied to experimental data or trajectories of ODE models to characterize their dynamics. Additionally, it can generate a low-dimensional representation based on the fitted RTF parameters of a set of time-resolved data, aiding in the identification of key targets of experimental perturbations.
Availability And Implementation:
The R package RTF is available at https://github.com/kreutz-lab/RTF.
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