StrikePy 1.0

A package for observability and identifiability analysis of non-linear systems

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, [e-mail], under the supervision of Alejandro F. Villaverde, [e-mail].

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:

1. download the toolbox and install the required packages (see above),
2. define the problem by editing 'options.py', or by creating a custom options file inside the 'custom_options' folder,
3. 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/.