Introduction to cohort design with vaccineffUpdated 9 days ago

Zulma M. Cucunubá

Rendered from cohort_design.Rmd in vaccineff 0.0.4.9000.
vaccineffUpdated 18 days ago

Zulma M. Cucunubá

Rendered from vaccineff.Rmd in vaccineff 0.0.4.9000.
Design Principles for {superspreading}Updated 20 days ago

Joshua W. Lambert

Rendered from design-principles.Rmd in superspreading 0.2.0.9000.
A Deep Dive into Colombian Demographics Using ColOpenDataUpdated 21 days ago

Maria Camila Tavera-Cifuentes

Rendered from demographic_data.Rmd in ColOpenData 0.3.1.
Documentation and DictionariesUpdated 21 days ago

Maria Camila Tavera-Cifuentes

Rendered from documentation_and_dictionaries.Rmd in ColOpenData 0.3.1.
How to download climate data using ColOpenDataUpdated 21 days ago

Maria Camila Tavera-Cifuentes

Rendered from climate_data.Rmd in ColOpenData 0.3.1.
Integration of Geospatial and Demographic dataUpdated 21 days ago

Maria Camila Tavera-Cifuentes

Rendered from merge_geo_demographic.Rmd in ColOpenData 0.3.1.
Maps and plots with ColOpenDataUpdated 21 days ago

Maria Camila Tavera-Cifuentes

Rendered from geospatial_data.Rmd in ColOpenData 0.3.1.
Population Projections with ColOpenDataUpdated 21 days ago

Maria Camila Tavera-Cifuentes

Rendered from population_projections.Rmd in ColOpenData 0.3.1.
sivirepUpdated 23 days ago

Geraldine Gómez-Millán

Rendered from sivirep.Rmd in sivirep 1.0.0.
Introduction to cleanepiUpdated 27 days ago

Karim Mané

Rendered from cleanepi.Rmd in cleanepi 1.0.2.9000.
Package Design vignette for {cleanepi}Updated 27 days ago

Karim Mané

Rendered from design_principle.Rmd in cleanepi 1.0.2.9000.
Getting Started with {simulist}Updated 1 months ago

Joshua W. Lambert

Rendered from simulist.Rmd in simulist 0.3.0.9000.
Time-varying case fatality riskUpdated 1 months ago

Joshua W. Lambert

Rendered from time-varying-cfr.Rmd in simulist 0.3.0.9000.
Age structured populationUpdated 1 months ago

Joshua W. Lambert

Rendered from age-struct-pop.Rmd in simulist 0.3.0.9000.
Age-stratified hospitalisation and death risksUpdated 1 months ago

Joshua W. Lambert

Rendered from age-strat-risks.Rmd in simulist 0.3.0.9000.
Visualising simulated dataUpdated 1 months ago

Joshua W. Lambert

Rendered from vis-linelist.Rmd in simulist 0.3.0.9000.
Wrangling simulated outbreak dataUpdated 1 months ago

Joshua W. Lambert

Rendered from wrangling-linelist.Rmd in simulist 0.3.0.9000.
Design Principles for {epichains}Updated 1 months ago

James M. Azam

Rendered from design-principles.Rmd in epichains 0.1.1.9000.
Modelling disease control interventionsUpdated 1 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 1 months ago

James Azam, Sebastian Funk

Rendered from projecting_incidence.Rmd in epichains 0.1.1.9000.
Other study designsUpdated 1 months ago

Zulma M. Cucunubá

Rendered from other_designs.Rmd in vaccineff 0.0.4.9000.
Getting started with {superspreading}Updated 1 months ago

Joshua W. Lambert

Rendered from superspreading.Rmd in superspreading 0.2.0.9000.
Methods for calculating the proportion of transmissionUpdated 1 months ago

Joshua W. Lambert

Rendered from proportion_transmission.Rmd in superspreading 0.2.0.9000.
Current databaseUpdated 1 months ago

Joshua W. Lambert

Rendered from database.Rmd in epiparameter 0.2.0.9000.
Data Collation and Synthesis ProtocolUpdated 1 months ago

Joshua W. Lambert

Rendered from data_protocol.Rmd in epiparameter 0.2.0.9000.
Getting Started with {epiparameter}Updated 1 months ago

Joshua W. Lambert

Rendered from epiparameter.Rmd in epiparameter 0.2.0.9000.
Parameter extraction and conversion in {epiparameter}Updated 1 months ago

Joshua W. Lambert

Rendered from extract_convert.Rmd in epiparameter 0.2.0.9000.
Building an Endemic Channel with epiCoUpdated 1 months ago

Juan D. Umaña

Rendered from endemic_channel.Rmd in epiCo 1.0.0.
Design Principles for {epiparameter}Updated 1 months ago

Joshua W. Lambert

Rendered from design_principles.Rmd in epiparameter 0.2.0.9000.
Analyzing demographic data with epiCoUpdated 1 months ago

Juan D. Umaña

Rendered from demographic_vignette.Rmd in epiCo 1.0.0.
Epidemic RiskUpdated 1 months ago

Joshua W. Lambert

Rendered from epidemic_risk.Rmd in superspreading 0.2.0.9000.
Estimate individual-level transmissionUpdated 1 months ago

Joshua W. Lambert

Rendered from estimate_individual_level_transmission.Rmd in superspreading 0.2.0.9000.
Outbreaks in heterogeneous networksUpdated 1 months ago

Joshua W. Lambert

Rendered from heterogeneous_network_outbreaks.Rmd in superspreading 0.2.0.9000.
Spatiotemporal analyses with epiCoUpdated 3 months ago

Juan D. Umaña

Rendered from spatiotemporal_vignette.Rmd in epiCo 1.0.0.
Design Principles for {simulist}Updated 4 months ago

Joshua W. Lambert

Rendered from design-principles.Rmd in simulist 0.3.0.9000.
A primer on working with delay distributionsUpdated 4 months ago

Adam Kucharski

Rendered from delay_distributions.Rmd in cfr 0.1.2.
Calculating a static, delay-adjusted estimate of disease severityUpdated 4 months ago

Adam Kucharski

Rendered from estimate_static_severity.Rmd in cfr 0.1.2.
Estimating disease severity while correcting for reporting delaysUpdated 4 months ago

Adam Kucharski

Rendered from cfr.Rmd in cfr 0.1.2.
Estimating how disease severity varies over the course of an outbreakUpdated 4 months ago

Adam Kucharski

Rendered from estimate_time_varying_severity.Rmd in cfr 0.1.2.
Estimating the proportion of cases that are ascertained during an outbreakUpdated 4 months ago

Adam Kucharski

Rendered from estimate_ascertainment.Rmd in cfr 0.1.2.
Handling data from {incidence2}Updated 4 months ago

Adam Kucharski

Rendered from data_from_incidence2.Rmd in cfr 0.1.2.
Compatibility with dplyrUpdated 4 months ago

Hugo Gruson

Rendered from compat-dplyr.Rmd in linelist 1.1.4.9000.
{epiparameter} Extraction Bias AnalysisUpdated 4 months ago

Joshua W. Lambert

Rendered from extract-bias.Rmd in epiparameter 0.2.0.9000.
Theoretical background for epichainsUpdated 4 months ago

Sebastian Funk and James Azam

Rendered from theoretical_background.Rmd in epichains 0.1.1.9000.
An introduction to linelistUpdated 5 months ago

Hugo Gruson

Rendered from linelist.Rmd in linelist 1.1.4.9000.
Design Principles for linelistUpdated 5 months ago

Hugo Gruson

Rendered from design-principles.Rmd in linelist 1.1.4.9000.
Literature on branching process applicationsUpdated 5 months ago

James M. Azam

Rendered from branching_process_literature.Rmd in epichains 0.1.1.9000.
Calculating the final size of an epidemicUpdated 5 months ago

Rosalind Eggo

Rendered from finalsize.Rmd in finalsize 0.2.1.9000.
Modelling uncertainty in R₀Updated 5 months ago

Rosalind Eggo

Rendered from uncertainty_params.Rmd in finalsize 0.2.1.9000.
Projecting re-emergence risk after waning or new birthsUpdated 5 months ago

Rosalind Eggo

Rendered from demographic_turnover.Rmd in finalsize 0.2.1.9000.
Package Design vignette for {readepi}Updated 5 months ago

Karim Mané

Rendered from design_principle.Rmd in readepi 0.1.0.
Design principles for epidemicsUpdated 6 months ago

Rosalind Eggo

Rendered from design-principles.Rmd in epidemics 0.4.0.9000.
Guide to developing epidemics featuresUpdated 6 months ago

Rosalind Eggo

Rendered from developer-walkthrough.Rmd in epidemics 0.4.0.9000.
Modelling the effect of a vaccination campaignUpdated 6 months ago

Rosalind Eggo

Rendered from modelling_vaccination.Rmd in epidemics 0.4.0.9000.
Getting started with epichainsUpdated 6 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 6 months ago

Karim Mané

Rendered from readepi.Rmd in readepi 0.1.0.
Modelling intervention scenariosUpdated 7 months ago

Rosalind Eggo

Rendered from modelling_scenarios.Rmd in epidemics 0.4.0.9000.
Modelling interventions that change infection parametersUpdated 7 months ago

Rosalind Eggo

Rendered from modelling_rate_interventions.Rmd in epidemics 0.4.0.9000.
Modelling parameter uncertaintyUpdated 7 months ago

Rosalind Eggo

Rendered from modelling_param_uncertainty.Rmd in epidemics 0.4.0.9000.
An introduction to Force-of-Infection (FoI) ModelsUpdated 7 months ago

Zulma M. Cucunubá

Rendered from foi_models.Rmd in serofoi 0.1.0.
An introduction to serofoiUpdated 7 months ago

Zulma M. Cucunubá

Rendered from serofoi.Rmd in serofoi 0.1.0.
Real-life use cases for serofoiUpdated 7 months ago

Zulma M. Cucunubá

Rendered from use_cases.Rmd in serofoi 0.1.0.
Getting started with epidemic scenario modelling componentsUpdated 7 months ago

Rosalind Eggo

Rendered from epidemics.Rmd in epidemics 0.4.0.9000.
Getting started with modelling interventions targeting social contactsUpdated 7 months ago

Rosalind Eggo

Rendered from modelling_interventions.Rmd in epidemics 0.4.0.9000.
Modelling leaky vaccination and hospitalisation outcomes with VacamoleUpdated 7 months ago

Rosalind Eggo

Rendered from model_vacamole.Rmd in epidemics 0.4.0.9000.
Modelling responses to a stochastic Ebola virus epidemicUpdated 7 months ago

Rosalind Eggo

Rendered from model_ebola.Rmd in epidemics 0.4.0.9000.
Modelling time-dependence and seasonality in transmission dynamicsUpdated 7 months ago

Rosalind Eggo

Rendered from modelling_time_dependence.Rmd in epidemics 0.4.0.9000.
Guidelines for VisualisationsUpdated 7 months ago

Hugo Gruson

Rendered from guidelines.Rmd in tracetheme 0.1.0.9000.
Modelling heterogeneous susceptibilityUpdated 8 months ago

Rosalind Eggo

Rendered from varying_susceptibility.Rmd in finalsize 0.2.1.9000.
Theoretical backgroundUpdated 8 months ago

Adam Kucharski

Rendered from theoretical_background.Rmd in finalsize 0.2.1.9000.
Design Principles for tracethemeUpdated 8 months ago

Hugo Gruson

Rendered from design-principles.Rmd in tracetheme 0.1.0.9000.
Epiverse-TRACE ggplot2 theme and scale demoUpdated 8 months ago

Hugo Gruson

Rendered from demo.Rmd in tracetheme 0.1.0.9000.
Software permissions and regulationsUpdated 8 months ago

Hugo Gruson

Rendered from software-permissions.Rmd in linelist 1.1.4.9000.
Modelling a diphtheria outbreak in a humanitarian camp settingUpdated 8 months ago

Rosalind Eggo

Rendered from model_diphtheria.Rmd in epidemics 0.4.0.9000.
Reducing parameters required for final size estimationUpdated 8 months ago

Rosalind Eggo

Rendered from finalsize_comparison.Rmd in epidemics 0.4.0.9000.
Modelling overlapping and sequential interventions targeting social contactsUpdated 8 months ago

Rosalind Eggo

Rendered from modelling_multiple_interventions.Rmd in epidemics 0.4.0.9000.
Software permissions and regulationsUpdated 9 months ago

Adam Kucharski

Rendered from software-permissions.Rmd in cfr 0.1.2.
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.