Chemical-Baum-Welch-Algorithm

This repository provides the code used for simulations in our paper "A reaction network scheme for Hidden Markov Model parameter learning".

In this repository 2 different source codes are provided for producing the same results:

Python_I

1. The jupyter notebook Python_I/Main.ipynb can be run, which contains the simulation for Example-1a and Example-2.
2. The dependencies are mentioned in Python_I/requirements.txt (other than hmmlearn package at version 0.2.8 the other dependencies are not critical and a different version of the package may also work).
3. Other necessary code are included in the sub-folders of Python_II

Python_II

1. The jupyter notebook Python_II/Main.ipynb can be run, which contains the simulations for Example-1a and Example-1b.
2. The dependencies are mentioned in Python_II/requirements.txt (other than crnsimulator package at version v0.9 and hmmlearn package at version 0.2.8 the other dependencies are not critical and a different version of the package may also work).
3. Other necessary code are included in the sub-folders of Python_II