Analyze SBML kinetics.
Project description
SBMLKinetics
SBMLKinetics is a package of tests to analyze kinetics expressions in SBML models. If you are using any of the code, please cite the PYPI web page (https://pypi.org/project/SBMLKinetics/).
For users
Installation
pip install SBMLKinetics
Documentation
Please see the documentation at https://modelengineering.github.io/kinetics_validator/ for details.
For developers
Setup environment
- Install spyder3
- Clone the
kinetics_validator
repository usinggit clone https://github.com/ModelEngineering/kinetics_validator
- Create a virtual environment for the project.
cd kinetics_validator
python -m venv kv
source kv/Scripts/activate
(Use "\" in windows.)pip install -r requirements.txt
deactivate
To verify the setup:
- Return to the
kinetics_evaluator
directory. source kv/Scripts/activate
(Use "\" in windows.)export PYTHONPATH=`pwd`
python tests/test_simple_sbml.py
. The tests should run without error. (Use "\" in windows.)
Running Codes
cd kinetics_validator
source kv/bin/activate
(Use "\" in windows.) When you're done, usedeactivate
.
Documentation
examples/tutorial.py
has code illustrating usageSBMLKinetics/common/*.py
has codes for the SmpleSBML (simple_sbml.py
), Reaction (reaction.py
), and KineticLaw (kinetic_law.py
).
Project details
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