Simplified COPASI interface for python
Project description
BasiCO
This project hosts a simplified python interface to COPASI. While all functionality from COPASI is exposed via automatically generated SWIG wrappers, this package aims to add a layer on top of that, to hide most of the complexity away when calling COPASI functions.
Installation
The package works with python 2.x and python 3.x, provided the following packages are installed:
- python-copasi
- pandas
pandas and python-copasi are freely available on pypi. Once done, just have the basico directory in the PYTHONPATH or sys.path.
Or you could directly install everything you need right from pypi
pip install copasi-basico
from this git repo:
pip install git+https://github.com/copasi/basico.git
Usage
The following modules are available:
model_io: functionality, for creating / loading / saving models.model_info: functionality to getting / setting model elements from pandas dataframestask_timecourse: a wrapper for running time course simulationsarray_tools: utility for plotting and the like
Documentation is work in progress, but you can find the start under: https://basico.readthedocs.org/
Acknowledgements
This project has been possible thanks to the BMBF funded de.NBI initiative (031L0104A):
License
The packages available on this page are provided under the Artistic License 2.0, which is an OSI approved license. This license allows non-commercial and commercial use free of charge.
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