2019ncov

analysis of 2019-nCoV outbreak

adventofcode2021

Advent of Code 2021

akira-endo.github.io

Akira Endo, MD

cmmid.github.io

covid19_backwardtracing

Implication of overdispersed transmission of COVID-19 on the effectiveness of contact tracing

covid19_clustersize

Analysis of COVID-19 transmission using cluster size distribution

epiforecasts-distill

Distill website for EpiForecasts (beta)

epinow

Estimate Realtime Case Counts and Time-varying Epidemiological Parameters

hhstudy_flumatsumoto2014-15

Household study on influenza outbreak in primary schools in Matsumoto city, Japan, 2014-15

idmodelr

Infectious disease model library and utilities

intro-pmcmc

Endo A. et al., "Introduction to the particle Markov-chain Monte Carlo." Epidemics, 2019.

juliasandbox

Sandbox for Julia programming

jupyter_docker_codespaces_template

A repository template for Jupyter Lab + Docker + Codespaces

mathepidrill

Quick training set for mathematical epidemiology (infectious disease modeling)

monkeypox_heavytail

Underlying code for Endo et al. "Heavy-tailed sexual contact networks and the epidemiology of monkeypox outbreak in non-endemic regions, May 2022."

mpox_emergencejapan

mpoxlinelist_jpn

Mpox cases linelist in Japan

reanalysis_fukumoto2021

Reanalysis of Fukumoto et al. (2021)

reanalysis_yokota2020

Reanalysis of PCR sensitivity estimation in Yokota et al. (2020)

rocker_codespaces_template

Template for rocker integrated with codespaces

schooldynamics_flumatsumoto14-15

Transmission patterns of seasonal influenza and pandemic management strategies

softwarechatter

Software engineering discussion group resources

tnd-biascorrection

Bias correction methods for test-negative design in the presence of misclassification

us-mpx

Tracking Monkeypox Virus (MPX) infections reported in the United States