Explore projects

Scripts for reproducing the results in our paper on high-dimensional prediction over subgroups.

Code for clustering of binary symptom data.

Analysis of PHE covid19 data for weekly SPI-M reports

This project contains the Python code for the PhD thesis titled "Joint epidemic and spatio-temporal approach for modelling disease outbreaks" at Lancaster University supervised by Dr. Chris Jewell and Prof. Dr. Peter Neal.

It provides an extension to the Python probabilistic programming library PyMC3 with a sampler to effectively impute missing infection and removal time data. Furthermore, it integrates a mechanistic modeling approach into an epidemiological modeling setting.

Making Uber H3 hexagons for polygon areas, with sample UK data.

Note on DataOps for CHICAS

Grabs ISO8601 date-named folders from an SFTP server.

Discrete time Markov epidemic model for COVID-19. This paper describes the MCMC sampler we use to impute censored event times.

Pseudomarginal inference on SIR and SIS models, motivated by Rebecca Lester's community study...hence the package name.