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Mechanism of Action Generation involving Network Analysis
JNK3 activation reaction model
HypBuilder is software for the large scale construction of physicochemical models in the format of PySB.
Tool that uses tropical algebra concepts to 'decompose' species trajectories in the protein-protein interactions that drive changes of concentration in time
analysis of earm using pydrone
Python code for parallel simulation of Logic models.
Python framework for Systems Biology modeling [Lopez Lab Mods]
Cytoscapejs visualization of pysb models
segment polarity network
PySB tutorials and examples for IPython (Jupyter) notebook
Nested sampling based PySB model calibration.
A nested sampling algorithm for PySB model selection.
EARM V2.0 FILES
Scripts, templates, etc. for AWS
New PySB website (beta version)
Binding reactions of MMP2, TIMP2, and MT1-MMP
Variance Based Sensitivity Analysis by the method of Saltelli
COX2 Reaction Model
For Incyte project and Melissa's data
A BioNetGen to PySB converter. Currently in development
PyMC version 3 (PyMC 2 is in branch 2.3)
cupSODA is CUDA-powered coarse-grain deterministic simulator of mass-action kinetics models