azharhsain / tti-explorer

Simulation software for exploring test, trace and isolate strategies

tti-explorer

This is a repository for tti-explorer, a library for simulating infection spread. This library is built to explore the impact of various test-trace-isolate strategies and social distancing measures on the spread of COVID-19 in the UK.

Our model builds upon the model of Kucharski et al. (2020). We use the BBC Pandemic dataset (Klepac et al. (2018)).

This work was conducted for the Test, Trace, Isolate project as part of the Royal Society's DELVE initiative. This repository facilitiates simulations for a technical report which can be found here. These simulations inform the report for the Test, Trace, Isolate project which can be found here. Exact version of this repo used in the report is available as a tag.

Introductory notebook:

For an introduction to the functionality offered by tti-explorer, start with the tti-experiment notebook.

Requirements:

tti_explorer

• Python 3.6+
• numpy
• scipy
• pandas
• matplotlib
• dataclasses (for Python 3.6)

scripts, tests and notebooks

• jupyter
• tqdm
• pytest

Setup:

git clone https://github.com/rs-delve/tti-explorer
cd tti-explorer
pip install -r requirements.txt
pip install .