Sam Abbott's repositories
TweetRstudioCheatsheets
A Twitter bots which tweets a randomly selected Rstudio cheatsheet each day
blogdown-site
Source code for my old personal website
exploreidmodels
A shiny app which allows the exploration of the dynamics of a range of simple infectious disease models
badtobetter
Better computational practice - Bad to better
cste-forecasting-workshop
An approachable introduction to estimating the effective reproduction number. It's meant for any and all levels of comfort with writing code
ecdc-weekly-growth-forecasts
COVID-19 cases forecasts for the ECDC Forecast Hub
epinowcast-fixed-reporting-example
An example of how to modify epinowcast to work with fixed reporting schedules.
presentations
A repository containing presentations that I have given or that I am in the process of writing
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/
80-percent-good-enough
What is 80% good enough for real-time analyses during the COVID-19 pandemic
covid19-forecast-hub-de
German and Polish COVID-19 Forecast Hub
EpiLine
Bayesian Modelling in Epidemiology Case Line Lists
epinowcast-MLGHW-2023
Abstract for MLGH workshop 2023
hhh4-workshop
Workshop on hhh4 and the endemic-epidemic framework
hospitalization-nowcast-hub
Collecting nowcasts of the 7-day hospitalization incidence in Germany.
ici3d-pkg
R package for DAIDD and MMED clinics
ICI3D.github.io
International Clinics on Infectious Disease Dynamics and Data (ICI3D) Program
ICRTC-methods
Methods for correcting the interval censoring and right truncation in time delays data
provoc
PROportions of Variants of Concern using counts, coverage, and a variant matrix.
RPkg.jl
Julia Style Package Manager for RCall users
seabbs.github.io
Personal website
Term.jl
Julia library for stylized terminal output
touchstone
Smart benchmarking of pull requests with statistical confidence