Supplementary code for "Energy-based Modelling of an Actin Filament Using Bond Graphs"

Notebook

The nbviewer link will display the notebook containing the code. This notebook can be interactively run online using the Binder links.

Notebook	nbviewer	Binder	PDF
ActinRod			PDF

LIST OF FILES

Main Programs

• ActinRod.ipynb Jupyter (Python) notebook
• ActinRod.pdf printable version

Bond Graph Utilities

• stoich.py Stoichiometric analysis
• svgBondGraph.py Scaleable Vector Graphics (SVG) to BondGraphTools
• stoichBondGraph.py Stoichiometry to BondGraphTools
• modularBondGraph.py Modular BondGraphs

Bond Graphs in Scaleable Vector Graphics (SVG) format

• ActinRod_abg.svg
• ActinRodTheta_abg.svg
• ActinRodThetaFlex_abg.svg

Configuration

• environment.yml