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GPU implementation of a variogram, wrapped as an R package.

sourceR R package to fit source attribution models

Experiments with ZigZag on SIR epidemic models.

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.

The DRUM agent-based model.

This is the repository for the main InFER (Inference for Epidemic Risk) package.

BIOL132 Introductory Biostats for 1st year biology students.

A Bayesian ZIP model which uses covariates on both the Poisson and Binomial parts.

GEM epidemic modelling software base -- https://gem.readthedocs.io/en/latest/

Network epidemic package.

Repository containing the Covid19UK pipeline

Algorithm examples for GEM project

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

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