Master Thesis Scripts

This repository contains the code used to reproduce the results from my Master's thesis. Implementations of any example or analysis using Particle Marginal Metropolis-Hastings (PMMH) include precomputed results stored in .rds files. You can load these files directly without rerunning the simulations.

The PMMH code is built on my R package bayesSSM, which I developed alongside this thesis.

A renv lock file is included to ensure consistent package versions. Additionally, a Dockerfile is provided to build a container and run the scripts in a controlled environment.

Running the R scripts locally

1. Clone the repository:

git clone https://github.com/BjarkeHautop/master-thesis
cd master-thesis/R

2. Restore the renv environment:

# install.packages("renv")
renv::restore()

3. Run a specific script (e.g., Example 3.1/Example 3.1.R) in R:

source("Example 3.1/Example 3.1.R")

Replace Example 3.1/Example 3.1.R with the path to any other script you wish to run.

Running the R scripts using Docker

1. Clone the repository:

git clone https://github.com/BjarkeHautop/master-thesis
cd master-thesis/R

2. Build the Docker image (if not already built):

docker build -t master-thesis .

3. Run a specific script (e.g. Example 3.1/Example 3.1.R) like this:

docker run --rm -v /full/path/to/repo/R:/project master-thesis Rscript "/project/Example 3.1/Example 3.1.R"

Replace the path with the actual path to the cloned repository on your machine. Replace Example 3.1/Example 3.1.R with any other script you wish to run.