Estimate Realtime Case Counts and Time-varying Epidemiological Parameters
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Jul 22, 2026 - R
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reproduction-number
Here are 27 public repositories matching this topic...
National and subnational estimates of the time-varying reproduction number for Covid-19
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Nov 26, 2025 - R
Python package to estimate the time-varying effective reproduction number of an epidemic from reported case numbers
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Dec 12, 2020 - Jupyter Notebook
Real time estimation of epidemic Effective Reproduction Number for Luxembourg
algorithm pipeline notebook julia julia-language estimation luxembourg ministry covid-19 covid reproduction-number epidemic-outbreaks spqeir-model
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Oct 24, 2022 - Julia
COVIDHunter 🦠:construction:: An accurate and flexible COVID-19 outbreak simulation model that forecasts the strength of future mitigation measures and the numbers of cases, hospitalizations, and deaths for a given day, while considering the potential effect of environmental conditions. Described by Alser et al. (preliminary version at https://ar…
simulation epidemiology covid-19 covid-19-data covid-19-tracker reproduction-number covidhunter oxford-stringency-index switzerland-case-study
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Dec 22, 2021 - Swift
A GitHub repo for the generation of a network model to represent society with various components, the spread of the disease on this network, and the calculation of reproduction number on these simulation results.
social-network network disease-spread lockdown sir-model disease-prediction coronavirus covid-19 social-distancing reproduction-number
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Jun 24, 2020 - Python
Local area reproduction numbers and S-gene target failure.
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Dec 11, 2021 - R
Estimating the effective reproduction number Re(t) for COVID19 in GTA, Canada
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Jun 23, 2021 - R
Estimates of COVID-19 R_t in Real-Time.
python jupyter-notebook open-access open-science epidemiology covid-19 covid-19-italy covid19-data reproduction-number computational-epidemiology
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May 7, 2020 - Jupyter Notebook
Evaluating the use of the reproduction number as an epidemiological tool, using spatio-temporal trends of the Covid-19 outbreak in England.
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May 12, 2021 - R
Tutorials to learn real-time analysis that includes accessing epidemiological delays, estimating transmission metrics, forecasting, and severity from aggregated incidence data, superspreading from line list and contact data, and simulating transmission chains.
forecasting rstats english-language real-time-analysis outbreak-severity reproduction-number superspreading-events transmission-chain carpentries-workbench epiverse outbreak-analysis
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Jul 24, 2026 - R
📈 Real-time effective reproduction number for COVID-19 in the Netherlands
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Feb 11, 2022 - Python
Subregional estimates of Rt for Covid-19 in Brazil
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Nov 24, 2020 - R
Source code of covid-india-analysis, a project to keep track of covid19 in India
java jsp chartjs data-visualization servlet states data-analysis epidemiology india predictions heroku-deployment districts pandemic growth-rate arima-model coronavirus-real-time covid-19 reproduction-number cumulative-trends r0-graph
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Jun 16, 2021 - Java
Compute the effective reproduction number for an epidemic based on positive test ratio or absolute number of cases.
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Dec 11, 2022 - Python
summrt: Processing tools for working with Rt estimates
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Nov 16, 2024 - R
Dashboard for tracking and analyzing the COVID-19 outbreak in Bulgaria
smoothing disease bulgaria vaccines arima pandemic coronavirus coronavirus-real-time covid covid19 reproduction-number infections
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Mar 8, 2025 - Python
O índice de contágio do COVID-19 regionalizado, por estados, municípios e até bairros, em tempo real, pode apoiar a tomada de decisões do poder público sobre como conter o contágio e como conduzir a retomada da atividade econômica de forma segura.
python data-science jupyter-notebook epidemiology volunteer covid-19 covid covid-19-brazil reproduction-number computational-epidemiology
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Sep 30, 2022 - Jupyter Notebook
Source code of covid-india-analysis, a project to keep track of covid19 in India
java jsp chartjs servlet data-viz states data-analysis epidemiology india predictions heroku-deployment districts pandemic growth-rate arima-model coronavirus-real-time covid-19 reproduction-number cumulative-trends r0-graph
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May 7, 2020 - Java
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