sbfnk

rbi

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

mfiidd

Model fitting and inference for infectious disease dynamics

fitR

Functions for model fitting and inference

rbi.helpers

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

epimixr

Epidemiological analysis using social mixing matrices

epinowcast

Tools to enable flexible and efficient hierarchical nowcasting of epidemiological time-series using a semi-mechanistic Bayesian model with support for a range of reporting and generative processes.

flusurvey

code for flusurvey analysis

statistical-probabilistic-programming-r

Introduction to Probabilistic Programming

100days_group3

allcontributors

all-contributions as an R package

Applications-Epiverse-pipelines

cmdstanr

CmdStanR: the R interface to CmdStan

d12frosted.io

Personal site

dev_guide

rOpenSci Packages: Development, Maintenance, and Peer Review

dotfiles

My personal configuration

dotfiles_old

@sbfnk does dotfiles

ebola-cfr

Accompanying code for: Kucharski et al, Lancet, 2014

ecdc-weekly-growth-forecasts

COVID-19 cases forecasts for the ECDC Forecast Hub

Epidemiology

CRAN Task View: Epidemiology

EpiNow2_backup

Estimate Realtime Case Counts and Time-varying Epidemiological Parameters

flusurvey_contacts

homebrew-core

🍻 Default formulae for the missing package manager for macOS

homebrew-formulae

Homebrew formulae for libbi

hubEnsemblesManuscript

oauth2ms

regional-secondary

Prototype function for forecasting a secondary observation from a primary observation across multiple regions. An example application of this function can be found here: https://github.com/epiforecasts/covid-german-forecasts/blob/master/rt-forecast/update-death-from-cases.R. See the documentation of EpiNow2 for more details: https://epiforecasts.io/EpiNow2/dev/

reveal.js

The HTML Presentation Framework

roweb3

rOpenSci website source

rstan

RStan, the R interface to Stan

touchstone

Smart benchmarking of pull requests with statistical confidence