pytpt 0.0.1

Implementation of Transition Path Theory for stationary, periodically varying, and finite-time Markov chains.

PyTPT

Implementation of Transition Path Theory for:

• stationary Markov chains (pytpt/stationary.py),
• for periodically varying Markov chains (pytpt/periodic.py),
• for time-inhomogenous Markov chains over finite time intervals (pytpt/finite.py).

Based on: Helfmann, L., Ribera Borrell, E., Schütte, C., & Koltai, P. (2020). Extending Transition Path Theory: Periodically-Driven and Finite-Time Dynamics. arXiv preprint arXiv:2002.07474.

PyTPT Package Installation

1. Clone the project in a local repository: git clone https://github.com/LuzieH/pytpt.git
2. Add the package to your local python library: pip install -e.

Quick Start (run examples)

1. Clone the project in a local repository git clone https://github.com/LuzieH/pytpt.git
   and install pytpt: pip install -e.
2. Install project requirements: pip install -r requirements
3. Run small network example

python examples/small_network_construction.py
python examples/small_network_example.py
python examples/small_network_plotting.py

4. Run triplewell example

python examples/triplewell_construction.py
python examples/triplewell_example.py
python examples/triplewell_plotting.py