SoBioS

SoBioS: Sobol’ Indices for Biological Systems is an easy-to-run Matlab code used for Sobol’ indices-based global sensitivity analysis of Biological Systems. The implementation follows an educational style, to make its use very intuitive.

This package includes the following modules:

SoBioS_CaseName.m - main file for the simulation (use servaral resourses from UQLab package);
QoI_CaseName.m - function to compute the Quantity of Interest (QoI).

Software History

This code was developed as a pedagogical tool to teach the basics of global sensitivity analysis of biological systems via Sobol’ indices. A tutorial explaining the theory and practical aspects behind SoBioS package is provided in the following book chapter:

Tosin M., Côrtes A.M.A., Cunha A. (2020) A Tutorial on Sobol’ Global Sensitivity Analysis Applied to Biological Models. In: da Silva F.A.B., Carels N., Trindade dos Santos M., Lopes F.J.P. (eds) Networks in Systems Biology: Applications for Disease Modeling. Computational Biology, vol 32. Springer, Cham https://doi.org/10.1007/978-3-030-51862-2_6

UQLab dependency

In order to use the SoBioS code, it is necessary to have UQLab package installed: https://www.uqlab.com

This external package is free for academic use.

Authors

Michel Tosin
Adriano Côrtes
Americo Cunha

Citing SoBioS

We kindly ask users to cite the following reference in any publications reporting work done with SoBioS:

Tosin M., Côrtes A.M.A., Cunha A. (2020) A Tutorial on Sobol’ Global Sensitivity Analysis Applied to Biological Models. In: da Silva F.A.B., Carels N., Trindade dos Santos M., Lopes F.J.P. (eds) Networks in Systems Biology: Applications for Disease Modeling. Computational Biology, vol 32. Springer, Cham https://doi.org/10.1007/978-3-030-51862-2_6

@incollection{Tosin2020SoBioS,
   author    = {M. Tosin and A. M. A. C\ˆ{o}rtes and A. {Cunha~Jr}},
   title     = {A {T}utorial on {S}obol’ {G}lobal {S}ensitivity {A}nalysis {A}pplied to {B}iological {M}odels},
   editor    = {F.A.B. {da Silva} and N. Carels and M. {Trindade dos Santos} and F.J.P. Lopes},
   booktitle = {Networks in Systems Biology: Applications for Disease Modeling},
   publisher = {Springer International Publishing},
   address   = {Cham},
   year      = {2020},
   pages     = {93-118},
   doi       = {https://doi.org/10.1007/978-3-030-51862-2_6},
}

License

SoBioS is released under the MIT license. See the LICENSE file for details. All new contributions must be made under the MIT license.