This is an R package that performs parameter estimation, uncertainty quantification, and global sensitivity analysis using Bayesian methods and ABC-MCMC sampling (UQ) and variance decomposition methods (GSA). It is primarily designed for biochemical reaction networks describing intracellular cellular pathways and similar. All information about the model as well as the experimental data used for parameter estimation and uncertainty quantification is stored in the SBtab table format for Systems Biology projects [1].
- Source code: https://github.com/icpm-kth/uqsa/
- Documentation https://icpm-kth.github.io/uqsa/
- Examples: https://icpm-kth.github.io/uqsa/articles/examples_overview.html
- Cite: https://icpm-kth.github.io/uqsa/articles/cite.html
[1] Lubitz, T., Hahn, J., Bergmann, F.T., Noor, E.,. Klipp, E, Liebermeister, W. (2016). SBtab: A flexible table format for data exchange in systems biology. Bioinformatics, 15;32(16), 2559-61
This open source software code was developed with support from the Swedish e-Science Research Centre (SeRC) as well as within the Human Brain Project, funded from the European Union’s Horizon 2020 Framework Programme for Research and Innovation (945539) (Human Brain Project SGA1, SGA2 and SGA3).