sbfnk/dynmod

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Language
R
Created over 9 years ago
Updated over 7 years ago

sbfnk/dynmod

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Stuff for modelling infectious disease dynamics

rbi

R package for Bayesian inference with state-space models using LibBi.

mfiidd

Model fitting and inference for infectious disease dynamics

modelling

Introduction to infectious disease modelling in R

fitR

Functions for model fitting and inference

rbi.helpers

Helper functions for inference with LibBi. Building on the rbi library.

R2C3

Create C3 graphics with R

nbbpchainsizes

Code to compare different models for branching processes with negative binomial offspring distribution

epimixr

Epidemiological analysis using social mixing matrices

ebola.forecast.wa.sl

Code accompanying the manuscript "Assessing the performance of real-time epidemic forecasts: A case study of Ebola in the Western Area region of Sierra Leone, 2014-15"

ebola_lofa

Code for analysing Ebola in Lofa County

inference_pomp_rbi

Source code for the example given in the article "Choices and trade-offs in inference with infectious disease models"

sk_covid_19

measles.katanga

Code accompanying the manuscript "The impact of reactive mass vaccination campaigns on measles outbreaks in the Katanga region, Democratic Republic of Congo" (doi:10.1101/201574).

fluclade

Flu clade frequency model implemented in libbi

vbd

Vector-bourne disease models

flusurvey

code for flusurvey analysis

sk.measles

Code accompanying the manuscript "Estimating contact-adjusted immunity levels against measles in South Korea and prospects for maintaining elimination status".

ebola_forecasting_challenge

Code for the Ebola forecasting challenge

immunity.thresholds

Code accompanying the manuscript "Combining serological and contact data to derive target immunity levels for achieving and maintaining measles elimination".