Lopez Lab at Vanderbilt University

pyvipr Public
Jupyter widget for the dynamic and static visualizations of systems biology models written in PySB, BNGL, and SBML

Jupyter Notebook 24 MIT 4 4 10 Updated Apr 9, 2022
NERM Public

Jupyter Notebook 0 0 0 0 Updated Apr 8, 2022
pydyno Public
Tool that uses tropical algebra concepts to 'decompose' species trajectories in the protein-protein interactions that drive changes of concentration in time

Jupyter Notebook 8 1 6 5 Updated Mar 21, 2022
MAGINE Public
Mechanism of Action Generation involving Network Analysis

Jupyter Notebook 8 GPL-3.0 5 0 1 Updated Jan 21, 2022
simplePSO Public
Particle Swarm Optimization algorithm in Python

Python 11 4 0 0 Updated Dec 3, 2021
pysb Public
Python framework for Systems Biology modeling [Lopez Lab Mods]

Python 6 BSD-2-Clause 61 11 0 Updated Nov 30, 2021
PyDREAM Public
MT-DREAM(ZS) algorithm for model optimization, calibration, selection

Python 42 GPL-3.0 28 9 3 Updated Sep 23, 2021
pysb-tutorials Public
PySB tutorials and examples for IPython (Jupyter) notebook

Jupyter Notebook 9 6 0 0 Updated Sep 13, 2021
zombie-apocalypse Public
Modeling a Zombie Apocalypse using ODEs and PySB

Jupyter Notebook 0 0 0 0 Updated Aug 3, 2021
PyBILT Public
Toolkit to aid in the analysis of lipid bilayer molecular simulation trajectories.

Python 17 MIT 10 7 (3 issues need help) 0 Updated May 12, 2021

Pinned