GitLab

Experiments with ZigZag on SIR epidemic models.

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

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

sourceR R package to fit source attribution models

sourceR R package to fit source attribution models

Sequential testing study for COVID-19

Notes from a seminar on RHDF5.

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.

Analysis of PHE covid19 data for weekly SPI-M reports

Note on DataOps for CHICAS

Network epidemic package.

Language examples for epidemic modelling language

R package to read InFER HDF5-format MCMC output files

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