sbmlsim are utilities for simulation of SBML.
sbmlsim: SBML simulation made easy
sbmlsim is a collection of python utilities to simulate to simplify simulations with SBML models implemented on top of roadrunner. Source code is available from https://github.com/matthiaskoenig/sbmlsim.
Features include among others
- simulation experiments
- simulation reports
- parameter fitting
The sbmlsim source is released under both the GPL and LGPL licenses version 2 or later. You may choose which license you choose to use the software under.
This program is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License or the GNU Lesser General Public License as published by the Free Software Foundation, either version 2 of the License, or (at your option) any later version.
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.
Matthias König is supported by the Federal Ministry of Education and Research (BMBF, Germany) within the research network Systems Medicine of the Liver (LiSyM, grant number 031L0054).
sbmlsim is available from pypi and can be installed via:
pip install sbmlsim
HDF5 support is required which can be installed on linux via:
sudo apt-get install -y libhdf5-serial-dev
The latest develop version can be installed via:
pip install git+https://github.com/matthiaskoenig/sbmlsim.git@develop
Or via cloning the repository and installing via:
git clone https://github.com/matthiaskoenig/sbmlsim.git cd sbmlsim pip install -e .
To install for development use:
pip install -e .[development]
© 2019-2020 Matthias König
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