epidemics

There are 2 repositories under epidemics topic.

seirsplus
ryansmcgee / seirsplus
Models of SEIRS epidemic dynamics with extensions, including network-structured populations, testing, contact tracing, and social distancing.
epidemiology epidemiology-analysis epidemic-model epidemic-simulations epidemics covid-19 covid sars-cov-2 coronavirus
Language:Python 652
SORMAS-Project
SORMAS-Foundation / SORMAS-Project
SORMAS (Surveillance, Outbreak Response Management and Analysis System) is an early warning and management system to fight the spread of infectious diseases.
surveillance infectious-diseases diseases outbreak android web offline-first low-bandwidth covid-19 epidemics contact-tracing sdg-3
Language:Java 291
GiulioRossetti / ndlib
Network Diffusion Library - (for NetworkX and iGraph)
complex-networks epidemics opinion-dynamics simulation
Language:Python 269
EpiModel
EpiModel / EpiModel
Mathematical Modeling of Infectious Disease Dynamics
epidemics agent-based-modeling network-graph epidemiology infectious-diseases
Language:R 236
CodeForPhilly / chime
COVID-19 Hospital Impact Model for Epidemics
code-for-philly epidemiology epidemics penn covid-19 code-for-america
Language:Python 205
safreita1 / TIGER
Python toolbox to evaluate graph vulnerability and robustness (CIKM 2021)
adversarial-attacks attack cascading-failures data-mining data-science defense diffusion epidemics graph graph-attack graph-mining machine-learning netshield network-attack networks robustness simulation vulnerability
Language:Python 144
benmaier / tacoma
Temporal networks in Python. Provides fast tools to analyze temporal contact networks and simulate dynamic processes on them using Gillespie's SSA.
networks network-visualization epidemics temporal-networks face2face face-to-face contact-networks
Language:C++ 99
imdevskp / covid_19_jhu_data_web_scrap_and_cleaning
This repository contains data and code used to get and clean data from https://github.com/CSSEGISandData/COVID-19 and https://www.worldometers.info/coronavirus/
covid-19 webscraping datacleaning python pandas beatifulsoup pandemic epidemics outbreak
Language:Jupyter Notebook 93
covid19-model / simulator
Spatiotemporal epidemic model introduced in the context of COVID-19, ACM TSAS, 2022
epidemics covid-19 infection-hotspots hotspots epidemiology coronavirus coronavirus-analysis points-of-interest superspreaders superspreading-events point-process
Language:Python 75
jangevaare / Pathogen.jl
Simulation, visualization, and inference of individual level infectious disease models with Julia
julia infectious-diseases evolution epidemics mcmc transmission-network
Language:Julia 71
seandavi / sars2pack
An R package with over 50 highly cited, read-to-use, up-to-date COVID-19 pandemic data resources
rstats-package rstats data-science datascience data-visualization covid-19 datasets coronavirus coronavirus-tracking biomedical-data epidemiology epidemics geospatial public-health
Language:R 59
cognizant-ai-labs / covid-xprize
Open-source repository containing examples and documentation for the Cognizant XPRIZE Pandemic Response Challenge
covid x-prize xprize pandemic response challenge covid19 covid-19 ai machine-learning artificial-intelligence reinforcement-learning competition-guidelines epidemics optimization
Language:Python 37
metalcorebear / COVID-Agent-Based-Model
Disease propagation ABM generating SIR, severe cases, and R0 over quasi-time.
agent-based-modeling agent-based-simulation epidemiology epidemics covid-19 mesa covid project-mesa
Language:Python 37
jstockwin / EpiEstimApp
Source code for the EpiEstim app.
r epidemiology epidemics transmission modelling disease disease-spread
Language:R 31
pennsignals / bayes-chime
Bayesian fit to SEIR model. An extension to Penn Medicine's CHIME tool.
covid covid-19 covid19 epidemics epidemiology penn
Language:Jupyter Notebook 28
PetoLau / CoronaDash
COVID-19 spread shiny dashboard with a forecasting model, countries' trajectories graphs, and cluster analysis tools
covid-19 covid-virus coronavirus-tracking coronavirus forecasting forecasting-covid-19 rstats shiny shinydashboard time-series time-series-forecasting time-series-analysis clustering cluster-analysis epidemic-data epidemics forecasting-model time-series-clustering
Language:R 22
jerr-it / SpreadSimulator
Epidemics simulation
simulation epidemics go golang hacktoberfest
Language:Go 21
lo-hfk / epyestim
Python package to estimate the time-varying effective reproduction number of an epidemic from reported case numbers
reproduction-number epidemics epiestim
Language:Jupyter Notebook 20
jtmatamalas / MMCAcovid19.jl
Microscopic Markov Chain Approach to model the spreading of COVID-19
epidemics covid-19 probabilistic-models disease markov-chain
Language:Julia 17
MohamedHmini / D-PandiSIM
distributed pandemics simulator, uses the power of spark to generate huge bulks of contact-tracing data.
big-data distributed-programming epidemic-simulations epidemics graph-algorithms markov-chain pandemic-simulator pyspark spark
Language:Jupyter Notebook 17
wangxianghust / SIS-SIR-Simulation
Epidemic simulation models of complex network.
epidemics simulation sir sis
Language:C++ 17
wcota / dynSIS-networkx
Networkx implementation of the SIS epidemic model for large and heterogeneous networks
complex-networks markovian-epidemic-processes gillespie-algorithm networkx markovian-processes epidemics computational-physics stochastic-processes stochastic-simulation-algorithm
Language:Python 15
EPIDEMIC
americocunhajr / EPIDEMIC
EPIDEMIC is an easy-to-run educational toolkit for epidemiological analysis.
epidemics computational-biology mathematical-modelling mathematical-biology bioinformatics uerj
Language:MATLAB 14
MetaWards
metawards / MetaWards
MetaWards disease metapopulation analysis and modelling software. Professional geographical SIR model with a flexible plugin architecture to support complex scenario modelling
epidemiology epidemic-simulations sir-model epidemiology-analysis epidemic-model epidemics covid-19 covid coronavirus
Language:Python 13
GiulioRossetti / ndlib-rest
Network Diffusion Library REST Service
complex-networks epidemics opinion-dynamics simulator rest-api
Language:Python 12
junhua / EPIC
EPIC: a large collection of over 30 million epidemic-related tweets
dataset epidemics
12
ContentMine / FutureTDM
Materials of FutureTDM project
tdm text-mining contentmine eupmc jupyter-notebook network-analysis tutorial zika data-mining open-access open-data pandemic epidemics usutu-virus aedes futuretdm workshop oer
Language:Jupyter Notebook 11
temp3rr0r / CellularAutomataEpidemicModels
Stochastic Cellular Automata epidemic models in Python with 2D simulations
epidemics sir ode cellular-automata python simulation modelling numpy pygame sis seis sirs moore-neighborhoods forrest-fire stochastic animation
Language:Python 11
nwlandry / hypercontagion
Library for epidemics on hypergraphs
contagion epidemic-simulations epidemics hypergraphs
Language:Python 10
COVID19RJ
americocunhajr / COVID19RJ
Repositório da iniciativa COVID19: Observatório Fluminense, com dados, gráficos e relatórios sobre a evolução pandemia de COVID-19, com especial interesse no Estado do RJ.
covid-19 epidemics mathematical-biology epidemiology statistical-analysis sars-cov-2 covid covid19-data covid-brazil covid-reports covid19-brazil covid19-graph covid19-tracker
Language:Jupyter Notebook 8
edoardottt / COVID-19
Info/Data (global/italy) about COVID-19. PR welcome for other countries.
covid-19 coronavirus coronavirus-tracking coronavirus-real-time coronavirus-info data data-visualization disease coronavirus-disease virus symptoms droplets pandemic spread epidemiology epidemics covid-data sars-cov-2 data-science epidemiology-analysis
Language:Python 8
wcota / dynSIS
Implementation of SIS epidemic model for large and heterogeneous networks using Fortran.
complex-networks markovian-epidemic-processes gillespie-algorithm networkx markovian-processes epidemics computational-physics stochastic-processes stochastic-simulation-algorithm fortran
Language:Fortran 8
adbecker / tsiR
tsiR: An R package for time-series Susceptible-Infected-Recovered models of epidemics
difference-equations epidemic-model epidemics infectious-disease model-fitting sir-model
Language:R 7
sibyl-team / sib
Sibilla
sibyl inference epidemics belief-propagation covid19
Language:C++ 7
FeiGSSS / NEDMP
Official PyTorch implementation of Neural Enhanced Dynamic Message Passing in AISTATS 2022
deep-learning dynamic-message-passing epidemics graph-neural-networks message-passing pytorch sir
Language:Jupyter Notebook 6
geon0325 / covid_segmentation
Source code for the PLOS ONE (2022) and epiDAMIK@KDD 2021 paper "Simple Epidemic Models with Segmentation can be Better than Complex Ones."
covid-19 epidemics segmentation
Language:Python 6