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.

## 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.

### 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.

## History

### 0.0.1 (08-22-2019)

• First release on PyPI.

### 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.

## Project details

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