Pinned Repositories
COVID-19_Piedmont
COVID-19 Surveillance Data Modelling and Management Pipeline in Piedmont.
COVID19-Italy-Integrated-Surveillance-Data
COVID-19 integrated surveillance data provided by the Italian Institute of Health and deconvolved via UnrollingAverages.jl.
kenya-covid-three-waves
Model supporting "COVID-19 Transmission Dynamics Underlying Epidemic Waves in Kenya"
Mathepia.jl
Spatial and temporal epidemiology data mining flow tools including data processing and analysis, model setup and simulation, inference and evaluation. Focusing on state-of-the-art methods such as universal differential equations, epidemiology-informed deep learning methods.
MathepiaModels.jl
Epidemic spatial and temporal model setup and simulation. Focusing on state of the art epidemiology models such as universal differential equations, epidemiology-informed deep learning models. Part of Mathepia.jl
MathEpiDeepLearning
Awesome-spatial-temporal-data-mining-packages. Julia and Python resources on spatial and temporal data mining. Mathematical epidemiology as an application. Most about package information. Data Sources Links and Epidemic Repos are also included. Keep updating.
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."
monkeypox_UK
Some code for monkeypox
RSV-seasonality-public
UnrollingAverages.jl
A Julia package to deconvolve ("unroll") moving averages of time series.
Julia Epi's Repositories
JuliaEpi/MathEpiDeepLearning
Awesome-spatial-temporal-data-mining-packages. Julia and Python resources on spatial and temporal data mining. Mathematical epidemiology as an application. Most about package information. Data Sources Links and Epidemic Repos are also included. Keep updating.
JuliaEpi/.github
Special repository containing the profile directory of JuliaEpi.
JuliaEpi/EpiSciML-Tutorials
Julia for Epidemiology - With a Scientific Machine Learning Perspective.
JuliaEpi/BayesFitR_Halle
Teaching material for Halle Summer School 2022: Bayesian inference of infectious disease ODE models in R
JuliaEpi/COVID19-Italy-Integrated-Surveillance-Data
COVID-19 integrated surveillance data provided by the Italian Institute of Health and deconvolved via UnrollingAverages.jl.
JuliaEpi/Discussions
Repository hosting organisation-level discussions for JuliaEpi to broadcast news, create conversation in the community, answer questions, and share ideas.
JuliaEpi/ICD_GEMs.jl
ICD_GEMs.jl is a Julia package that allows to translate ICD-9 codes in ICD-10 and viceversa via the General Equivalence Mappings (GEMs) of the International Classification of Diseases (ICD).
JuliaEpi/monkeypox_UK
Some code for monkeypox
JuliaEpi/COVID-19_Piedmont
COVID-19 Surveillance Data Modelling and Management Pipeline in Piedmont.
JuliaEpi/agent-based-epidemic-sim
JuliaEpi/CANMOD-2022
Materials for 2022 CANMOD Workshop on Compositional Methods for Health Modeling
JuliaEpi/ColPrac
Contributor's Guide on Collaborative Practices for Community Packages
JuliaEpi/concRt.jl
JuliaEpi/CoronaNetR
R package that offers access to the CoronaNet policy database of government responses to COVID-19.
JuliaEpi/covid-19-in-households-public
JuliaEpi/COVID19_Spatial_Model
This repository contains the implementation of the model described in the paper "Predicting the impact of COVID-19 vaccination campaigns - a flexible age-dependent spatially-stratified predictive model, accounting for multiple viral variants and vaccines".
JuliaEpi/COVIDPoliticalEvents.jl
Paper replication package.
JuliaEpi/COVIDScenarioPipeline
Public shared code for doing scenario forecasting and creating reports for various governmental entities.
JuliaEpi/EasyModelAnalysis.jl
High level functions for analyzing the output of simulations
JuliaEpi/epi_impacts_NHS_COVID-19_app_first_year
Code to support the paper "Epidemiological impacts of the NHS COVID-19 app in England and Wales throughout its first year"
JuliaEpi/EpiNow2
Estimate Realtime Case Counts and Time-varying Epidemiological Parameters
JuliaEpi/EpiSimulator
EpiSimulator: A Data-Driven Stochastic Hybrid Model for COVID-19 in Italy.
JuliaEpi/estimate-emergence-from-data
Code for reproducing the results from the preprint "Estimating the date of emergence of an epidemic outbreak from detection data: Applications to COVID-19".
JuliaEpi/FEED_farmer_disease_management_heterogeneity
JuliaEpi/Flusight-forecast-data
JuliaEpi/linelist
R package for handing linelist data
JuliaEpi/nowcasting_covid19
Bayesian Nowcasting with application to COVID-19 fatalities in Sweden
JuliaEpi/NZWastewaterModelling
JuliaEpi/Rt-without-renewal
JuliaEpi/tutorials_julia
This is the official repository for the "doggo dot jl" YouTube channel (fka "julia for talented amateurs").