CRNT4SBML
CRNT4SBML is an easily installable Python based package available on MacOS and Windows. CRNT4SBML is concentrated on providing a simple workflow for the testing of core CRNT methods directed at detecting bistability in cell signaling pathways endowed with mass action kinetics.
Free software: Apache Software License 2.0
Documentation: https://crnt4sbml.readthedocs.io.
Features
Routine for testing of the Deficiency Zero and One Theorems.
Routine for running the mass conservation approach.
Routine for running the semi-diffusive approach.
Citing CRNT4SBML
If you use CRNT4SBML in your research, we would appreciate it if you use the following citation in any works you publish:
Brandon C Reyes, Irene Otero-Muras, Michael T Shuen, Alexandre M Tartakovsky, Vladislav A Petyuk, CRNT4SBML: a Python package for the detection of bistability in biochemical reaction networks, Bioinformatics.
Credits
This package was created with Cookiecutter and the audreyr/cookiecutter-pypackage project template.
History
0.0.1 (08-22-2019)
First release on PyPI.
0.0.2 (08-23-2019)
Addition of Cytoscape functionality.
0.0.3 (08-26-2019)
Improvements to the plots produced by the continuity analysis.
0.0.4 (09-5-2019)
Addition of safety precautions for numerical continuation.
0.0.5 (09-16-2019)
Addition of routines to parse catalysis in SBML.
Addition of routines to automatically generate physiological bounds.
0.0.6 (09-23-2019)
Updating safety wrapper to smoothly work on Windows and Mac.
0.0.7 (10-11-2019)
Adding output to continuity routine to make post-processing simpler.
0.0.8 (10-23-2019)
Adding functionality to allow use of Jupyter notebooks.
0.0.9 (11-6-2019)
Improving stability when creating the equilibrium manifold in the mass conservation approach.
0.0.10 (11-6-2019)
Adding routine for an exhaustive equilibrium manifold creation in the mass conservation approach.
0.0.11 (4-23-2020)
Adding a general approach for mass conserving systems.
0.0.12 (5-21-2020)
Adding a different layout for installation of package.
0.0.13 (8-10-2020)
Improving usability on Windows machines.
0.0.14 (1-28-2021)
Improving the output of plots produced by direct simulation.
0.0.15 (8-25-2021)
Updated tolerances for Bayesian stopping rule to 0.1.
2 maintainers
Metadata
2 maintainers
Release files for crnt4sbml 0.0.15
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Source distribution (sdist)
| File | Size | Uploaded | Provenance | Actions |
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| crnt4sbml-0.0.15.tar.gz | 7.3 MB | Without provenance | Details for crnt4sbml-0.0.15.tar.gz |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Actions Reset |
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| crnt4sbml-0.0.15-py2.py3-none-any.whl | Python 2, Python 3 | none | any | Details for crnt4sbml-0.0.15-py2.py3-none-any.whl |
Total release size: 7.4 MB
Release files / crnt4sbml-0.0.15.tar.gz
| Download URL | crnt4sbml-0.0.15.tar.gz |
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Release files / crnt4sbml-0.0.15-py2.py3-none-any.whl
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