Analyzing demographic data with epiCoUpdated 2 days ago

Juan D. Umaña

Rendered from demographic_vignette.Rmd in epiCo 1.0.1.
Building an Endemic Channel with epiCoUpdated 2 days ago

Juan D. Umaña

Rendered from endemic_channel.Rmd in epiCo 1.0.1.
Spatiotemporal analyses with epiCoUpdated 2 days ago

Juan D. Umaña

Rendered from spatiotemporal_vignette.Rmd in epiCo 1.0.1.
Calculating the final size of an epidemicUpdated 4 days ago

Rosalind Eggo

Rendered from finalsize.Rmd in finalsize 0.2.1.9000.
Age structured populationUpdated 7 days ago

Joshua W. Lambert

Rendered from age-struct-pop.Rmd in simulist 0.4.0.9000.
Design Principles for {simulist}Updated 7 days ago

Joshua W. Lambert

Rendered from design-principles.Rmd in simulist 0.4.0.9000.
Visualising simulated dataUpdated 7 days ago

Joshua W. Lambert

Rendered from vis-linelist.Rmd in simulist 0.4.0.9000.
Data Collation and Synthesis ProtocolUpdated 9 days ago

Joshua W. Lambert

Rendered from data_protocol.Rmd in epiparameter 0.4.0.9000.
{epiparameter} Extraction Bias AnalysisUpdated 9 days ago

Joshua W. Lambert

Rendered from extract-bias.Rmd in epiparameter 0.4.0.
Current databaseUpdated 9 days ago

Joshua W. Lambert

Rendered from database.Rmd in epiparameter 0.4.0.
Data Collation and Synthesis ProtocolUpdated 9 days ago

Joshua W. Lambert

Rendered from data_protocol.Rmd in epiparameter 0.4.0.
Design Principles for {epiparameter}Updated 9 days ago

Joshua W. Lambert

Rendered from design_principles.Rmd in epiparameter 0.4.0.
Getting Started with {epiparameter}Updated 9 days ago

Joshua W. Lambert

Rendered from epiparameter.Rmd in epiparameter 0.4.0.
Parameter extraction and conversion in {epiparameter}Updated 9 days ago

Joshua W. Lambert

Rendered from extract_convert.Rmd in epiparameter 0.4.0.
Estimating fatality risk from individual level dataUpdated 27 days ago

Adam Kucharski

Rendered from estimate_from_individual_data.Rmd in cfr 0.1.3.
An introduction to serofoiUpdated 1 months ago

Zulma M. Cucunubá

Rendered from serofoi.Rmd in serofoi 1.0.2.
A primer on working with delay distributionsUpdated 1 months ago

Adam Kucharski

Rendered from delay_distributions.Rmd in cfr 0.1.3.
sivirepUpdated 1 months ago

Geraldine Gómez-Millán

Rendered from sivirep.Rmd in sivirep 1.0.1.
Introduction to cohort design with vaccineffUpdated 2 months ago

Zulma M. Cucunubá

Rendered from cohort_design.Rmd in vaccineff 1.0.0.9000.
vaccineffUpdated 2 months ago

Zulma M. Cucunubá

Rendered from vaccineff.Rmd in vaccineff 1.0.0.9000.
Design Principles for {epiparameter}Updated 2 months ago

Joshua W. Lambert

Rendered from design_principles.Rmd in epiparameter 0.4.0.9000.
Design Principles for {superspreading}Updated 3 months ago

Joshua W. Lambert

Rendered from design-principles.Rmd in superspreading 0.2.0.9000.
A Deep Dive into Colombian Demographics Using ColOpenDataUpdated 3 months ago

Maria Camila Tavera-Cifuentes

Rendered from demographic_data.Rmd in ColOpenData 0.3.1.
Documentation and DictionariesUpdated 3 months ago

Maria Camila Tavera-Cifuentes

Rendered from documentation_and_dictionaries.Rmd in ColOpenData 0.3.1.
How to download climate data using ColOpenDataUpdated 3 months ago

Maria Camila Tavera-Cifuentes

Rendered from climate_data.Rmd in ColOpenData 0.3.1.
Integration of Geospatial and Demographic dataUpdated 3 months ago

Maria Camila Tavera-Cifuentes

Rendered from merge_geo_demographic.Rmd in ColOpenData 0.3.1.
Maps and plots with ColOpenDataUpdated 3 months ago

Maria Camila Tavera-Cifuentes

Rendered from geospatial_data.Rmd in ColOpenData 0.3.1.
Population Projections with ColOpenDataUpdated 3 months ago

Maria Camila Tavera-Cifuentes

Rendered from population_projections.Rmd in ColOpenData 0.3.1.
Current databaseUpdated 3 months ago

Joshua W. Lambert

Rendered from database.Rmd in epiparameterDB 0.1.0.9000.
Design Principles for {epiparameterDB}Updated 3 months ago

Joshua W. Lambert

Rendered from design-principles.Rmd in epiparameterDB 0.1.0.9000.
Introduction to cleanepiUpdated 3 months ago

Karim Mané

Rendered from cleanepi.Rmd in cleanepi 1.0.2.9000.
Package Design vignette for {cleanepi}Updated 3 months ago

Karim Mané

Rendered from design_principle.Rmd in cleanepi 1.0.2.9000.
Getting Started with {simulist}Updated 3 months ago

Joshua W. Lambert

Rendered from simulist.Rmd in simulist 0.4.0.9000.
Time-varying case fatality riskUpdated 3 months ago

Joshua W. Lambert

Rendered from time-varying-cfr.Rmd in simulist 0.4.0.9000.
Age-stratified hospitalisation and death risksUpdated 3 months ago

Joshua W. Lambert

Rendered from age-strat-risks.Rmd in simulist 0.4.0.9000.
Wrangling simulated outbreak dataUpdated 3 months ago

Joshua W. Lambert

Rendered from wrangling-linelist.Rmd in simulist 0.4.0.9000.
Design Principles for {epichains}Updated 3 months ago

James M. Azam

Rendered from design-principles.Rmd in epichains 0.1.1.9000.
Modelling disease control interventionsUpdated 3 months ago

Sebastian Funk and James M. Azam

Rendered from interventions.Rmd in epichains 0.1.1.9000.
Projecting infectious disease incidence: a COVID-19 exampleUpdated 3 months ago

James Azam, Sebastian Funk

Rendered from projecting_incidence.Rmd in epichains 0.1.1.9000.
Other study designsUpdated 3 months ago

Zulma M. Cucunubá

Rendered from other_designs.Rmd in vaccineff 1.0.0.9000.
Getting started with {superspreading}Updated 3 months ago

Joshua W. Lambert

Rendered from superspreading.Rmd in superspreading 0.2.0.9000.
Methods for calculating the proportion of transmissionUpdated 3 months ago

Joshua W. Lambert

Rendered from proportion_transmission.Rmd in superspreading 0.2.0.9000.
Current databaseUpdated 3 months ago

Joshua W. Lambert

Rendered from database.Rmd in epiparameter 0.4.0.9000.
Getting Started with {epiparameter}Updated 3 months ago

Joshua W. Lambert

Rendered from epiparameter.Rmd in epiparameter 0.4.0.9000.
Parameter extraction and conversion in {epiparameter}Updated 3 months ago

Joshua W. Lambert

Rendered from extract_convert.Rmd in epiparameter 0.4.0.9000.
Building an Endemic Channel with epiCoUpdated 3 months ago

Juan D. Umaña

Rendered from endemic_channel.Rmd in epiCo 1.0.1.
Analyzing demographic data with epiCoUpdated 3 months ago

Juan D. Umaña

Rendered from demographic_vignette.Rmd in epiCo 1.0.1.
Epidemic RiskUpdated 3 months ago

Joshua W. Lambert

Rendered from epidemic_risk.Rmd in superspreading 0.2.0.9000.
Estimate individual-level transmissionUpdated 3 months ago

Joshua W. Lambert

Rendered from estimate_individual_level_transmission.Rmd in superspreading 0.2.0.9000.
Outbreaks in heterogeneous networksUpdated 3 months ago

Joshua W. Lambert

Rendered from heterogeneous_network_outbreaks.Rmd in superspreading 0.2.0.9000.
Spatiotemporal analyses with epiCoUpdated 5 months ago

Juan D. Umaña

Rendered from spatiotemporal_vignette.Rmd in epiCo 1.0.1.
Calculating a static, delay-adjusted estimate of disease severityUpdated 6 months ago

Adam Kucharski

Rendered from estimate_static_severity.Rmd in cfr 0.1.3.
Estimating disease severity while correcting for reporting delaysUpdated 6 months ago

Adam Kucharski

Rendered from cfr.Rmd in cfr 0.1.3.
Estimating how disease severity varies over the course of an outbreakUpdated 6 months ago

Adam Kucharski

Rendered from estimate_time_varying_severity.Rmd in cfr 0.1.3.
Estimating the proportion of cases that are ascertained during an outbreakUpdated 6 months ago

Adam Kucharski

Rendered from estimate_ascertainment.Rmd in cfr 0.1.3.
Handling data from {incidence2}Updated 6 months ago

Adam Kucharski

Rendered from data_from_incidence2.Rmd in cfr 0.1.3.
Compatibility with dplyrUpdated 6 months ago

Hugo Gruson

Rendered from compat-dplyr.Rmd in linelist 1.1.4.9000.
{epiparameter} Extraction Bias AnalysisUpdated 6 months ago

Joshua W. Lambert

Rendered from extract-bias.Rmd in epiparameter 0.4.0.9000.
Theoretical background for epichainsUpdated 6 months ago

Sebastian Funk and James Azam

Rendered from theoretical_background.Rmd in epichains 0.1.1.9000.
An introduction to linelistUpdated 7 months ago

Hugo Gruson

Rendered from linelist.Rmd in linelist 1.1.4.9000.
Design Principles for linelistUpdated 7 months ago

Hugo Gruson

Rendered from design-principles.Rmd in linelist 1.1.4.9000.
Literature on branching process applicationsUpdated 7 months ago

James M. Azam

Rendered from branching_process_literature.Rmd in epichains 0.1.1.9000.
Modelling uncertainty in R₀Updated 7 months ago

Rosalind Eggo

Rendered from uncertainty_params.Rmd in finalsize 0.2.1.9000.
Projecting re-emergence risk after waning or new birthsUpdated 7 months ago

Rosalind Eggo

Rendered from demographic_turnover.Rmd in finalsize 0.2.1.9000.
Package Design vignette for {readepi}Updated 7 months ago

Karim Mané

Rendered from design_principle.Rmd in readepi 0.1.0.
Design principles for epidemicsUpdated 8 months ago

Rosalind Eggo

Rendered from design-principles.Rmd in epidemics 0.4.0.9000.
Guide to developing epidemics featuresUpdated 8 months ago

Rosalind Eggo

Rendered from developer-walkthrough.Rmd in epidemics 0.4.0.9000.
Modelling the effect of a vaccination campaignUpdated 8 months ago

Rosalind Eggo

Rendered from modelling_vaccination.Rmd in epidemics 0.4.0.9000.
Getting started with epichainsUpdated 8 months ago

James M. Azam and Sebastian Funk

Rendered from epichains.Rmd in epichains 0.1.1.9000.
readepi: Reading data from health information systemsUpdated 8 months ago

Karim Mané

Rendered from readepi.Rmd in readepi 0.1.0.
Modelling intervention scenariosUpdated 9 months ago

Rosalind Eggo

Rendered from modelling_scenarios.Rmd in epidemics 0.4.0.9000.
Modelling interventions that change infection parametersUpdated 9 months ago

Rosalind Eggo

Rendered from modelling_rate_interventions.Rmd in epidemics 0.4.0.9000.
Modelling parameter uncertaintyUpdated 9 months ago

Rosalind Eggo

Rendered from modelling_param_uncertainty.Rmd in epidemics 0.4.0.9000.
Getting started with epidemic scenario modelling componentsUpdated 9 months ago

Rosalind Eggo

Rendered from epidemics.Rmd in epidemics 0.4.0.9000.
Getting started with modelling interventions targeting social contactsUpdated 9 months ago

Rosalind Eggo

Rendered from modelling_interventions.Rmd in epidemics 0.4.0.9000.
Modelling leaky vaccination and hospitalisation outcomes with VacamoleUpdated 9 months ago

Rosalind Eggo

Rendered from model_vacamole.Rmd in epidemics 0.4.0.9000.
Modelling responses to a stochastic Ebola virus epidemicUpdated 9 months ago

Rosalind Eggo

Rendered from model_ebola.Rmd in epidemics 0.4.0.9000.
Modelling time-dependence and seasonality in transmission dynamicsUpdated 9 months ago

Rosalind Eggo

Rendered from modelling_time_dependence.Rmd in epidemics 0.4.0.9000.
Guidelines for VisualisationsUpdated 9 months ago

Hugo Gruson

Rendered from guidelines.Rmd in tracetheme 0.1.0.9000.
Modelling heterogeneous susceptibilityUpdated 9 months ago

Rosalind Eggo

Rendered from varying_susceptibility.Rmd in finalsize 0.2.1.9000.
Theoretical backgroundUpdated 9 months ago

Adam Kucharski

Rendered from theoretical_background.Rmd in finalsize 0.2.1.9000.
Design Principles for tracethemeUpdated 10 months ago

Hugo Gruson

Rendered from design-principles.Rmd in tracetheme 0.1.0.9000.
Epiverse-TRACE ggplot2 theme and scale demoUpdated 10 months ago

Hugo Gruson

Rendered from demo.Rmd in tracetheme 0.1.0.9000.
Software permissions and regulationsUpdated 10 months ago

Hugo Gruson

Rendered from software-permissions.Rmd in linelist 1.1.4.9000.
Modelling a diphtheria outbreak in a humanitarian camp settingUpdated 10 months ago

Rosalind Eggo

Rendered from model_diphtheria.Rmd in epidemics 0.4.0.9000.
Reducing parameters required for final size estimationUpdated 10 months ago

Rosalind Eggo

Rendered from finalsize_comparison.Rmd in epidemics 0.4.0.9000.
Modelling overlapping and sequential interventions targeting social contactsUpdated 10 months ago

Rosalind Eggo

Rendered from modelling_multiple_interventions.Rmd in epidemics 0.4.0.9000.
Software permissions and regulationsUpdated 11 months ago

Adam Kucharski

Rendered from software-permissions.Rmd in cfr 0.1.3.
Guide to constructing susceptibility matricesUpdated 1 years ago

Rosalind Eggo

Rendered from susceptibility_matrices.Rmd in finalsize 0.2.1.9000.
Modelling heterogeneous social contactsUpdated 1 years ago

Rosalind Eggo

Rendered from varying_contacts.Rmd in finalsize 0.2.1.9000.
Comparison with a compartmental modelUpdated 2 years ago

Rosalind Eggo

Rendered from compare_sir_model.Rmd in finalsize 0.2.1.9000.