Stars
Package for nowcasting the number of cases of an infectious disease when test results are lagged
This repository contains the dataset, code, and codebook for the paper, "Nowcasting to Monitor Real-Time Mpox Trends During the 2022 Outbreak in New York City: Evaluation Using Reportable Disease D…
Data associated with the timeline of events during the 2024 H5N1 outbreak in the United States
Friends don't let friends make certain types of data visualization - What are they and why are they bad.
Guide, reference and cheatsheet on web scraping using rvest, httr and Rselenium.
R package for Bayesian multi-state modelling of chronic disease burden data
Repository containing stan models for estimating delay distributions in the presence of right-truncation, epidemic phase, and interval-censoring biases
Analyzing the spread of SARS-CoV-2 variants Alpha in Switzerland and Beta in South Africa
Implementations of the models from the Statistical Rethinking book with Turing.jl
Bayesian SEIR model to estimate the effects of social-distancing on COVID-19
Local Epidemic Modeling for Management & Action (LEMMA)
COVID-19 Agent-based Simulator (Covasim): a model for exploring coronavirus dynamics and interventions
Optimised estimates of reproduction numbers over time, which extract more information from an incidence curve than many conventional approaches
R package for maximum likelihood estimation of delay distributions for right-truncated data (as during COVID-19)
R package to calculate generation interval distributions
Resistance Gene Identifier (RGI). Software to predict resistomes from protein or nucleotide data, including metagenomics data, based on homology and SNP models.
Pathogen evolution, selection and immunity