seabbs/cmmid.stan.seir

Stars
2
Language Stan
License
MIT License
Created over 3 years ago
Updated over 3 years ago

seabbs/cmmid.stan.seir

seabbs

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An example SEIR model implemented in stan

cv

Sam Abbott's Curriculum Vitae

getTBinR

An R package for accessing and summarising the World Health Organisation Tuberculosis data.

idmodelr

Infectious disease model library and utilities

TweetRstudioCheatsheets

A Twitter bots which tweets a randomly selected Rstudio cheatsheet each day

thesis

PhD thesis submitted to the University of Bristol. Title: Modelling BCG vaccination in the UK: What is the impact of changing policy?

SpeedyMarkov

Speed up Discrete Markov Model Simulations.

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

fcdashboard

Shiny dashboard for exploratory data analysis of the funding circle loanbook

blogdown-site

Source code for my old personal website

tidyverse-gpu

Adding in support for GPU acceleration via CUDA to rocker/tidyverse

CovidInterventionReview

Adoption and impact of non-pharmaceutical interventions for COVID-19

personal-server

Setup for my personal server

DirectEffBCGPolicyChange

Estimating the effect of the 2005 change in BCG policy in England: A retrospective cohort study

prettypublisher

R package to help in formatting R markdown documents into a publishable format

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

seabbs

Personal repository

backup

Code to automate local backups of remote code

ModelTBBCGEngland

Modelling Tuberculosis, including BCG vaccination, in England

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.

StackTweetBot

Tools for quickly and easily creating twitter StackOverflow bots

ExploreBCGOnOutcomes

Analysis to explore the association of BCG vaccination and TB outcomes.

epict

ceplotr

Model agnostic cost effectiveness plotting

ETSMissing

Explore and evaluate the mechanisms for missing data in the Enhanced Tuberculosis Surveillance system.

ShowMePerseus

A shiny app aiming to remove some of the potential friction for users of the rperseus package

covid-climate-rt

Covid Rt estimates for evaluating the role of climate

thepebblegame

The pebble game: A simple game that can be used to understand epidemics and vaccination

presentations

A repository containing presentations that I have given or that I am in the process of writing

tbinenglanddataclean

Cleans and Munges Tuberculosis and Demographic Data for England

EstZoonoticTB

Explore, Visualise and Estimate the Global Zoonotic Tuberculosis Burden

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/