About StrikePy
StrikePy is a Python toolbox that analyses nonlinear models of ordinary differential equations. It performs a simultaneous assessment of:
- state observability,
- parameter structural identifiability,
- unknown input observability
The analysis is performed symbolically, and yields results that are valid locally for all values of the variables, except for a set of measure zero.
StrikePy implements the FISPO algorithm from the MATLAB toolbox STRIKE-GOLDD. The motivation behind StrikePy is to provide a Python alternative to MATLAB. That said, it should be noted that STRIKE-GOLDD is computationally more efficient and includes more features than StrikePy.
StrikePy was created by David Rey Rostro, davidreyrostro@gmail.com, under the supervision of Alejandro F. Villaverde, afvillaverde@uvigo.gal.
Installation and requirements
StrikePy requires Python 3.9.
The required packages can be installed using pip: pip install numpy sympy symbtools
Getting started
To use StrikePy you just need to follow these 3 steps:
- download the toolbox and install the required packages (see above),
- define the problem by editing 'options.py', or by creating a custom options file inside the 'custom_options' folder,
- run the file 'RunModels.py' for a test, or follow the instructions in the file to analyse other models.
A number of examples are provided in the models folder.
Results
The results of the analysed models as well as the observability/identifiability matrix will be saved in a .txt file in the results folder.
More information about StrikePy can be found in the StrikePy manual
Disclaimer
This program is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, version 3 of the License.
This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
See the GNU General Public License for more details.
You should have received a copy of the GNU General Public License along with this program. If not, see http://www.gnu.org/licenses/.
