Function Reference¶

# CovidSEIR.countrymodel — Function.

 countrymodel(data::CountryData, priors=defaultcountrypriors(),
              ::Type{R}=Float64) where {R <: Real} = begni

Returns Turing model for single country

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# CovidSEIR.covidjhudata — Method.

covidjhudata()

Downloads most recent JHU CSSE data on covid cases, deaths, and recoveries.

Returns a DataFrame

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# CovidSEIR.plotvars — Method.

plotvars(simdf::DataFrames.AbstractDataFrame,
         data::CountryData;
         dayt0=Dates.Date("2020-01-21"), # one day before JHU data begins
         colors=ColorSchemes.colorschemes[:Set1_9])

Create plots showing fit and implications of simulated trajectories.

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# CovidSEIR.priorreport — Function.

priorreport((priors=defaultcountrypriors(), T=100, population=1e7)

Create tables and figures summarizing priors.

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# CovidSEIR.simtrajectories — Method.

simtrajectories(cc::AbstractMCMC.AbstractChains,
                     data::CountryData, ts;
                     ic=Iterators.product(StatsBase.sample(1:size(cc,1),300, replace=false),
                                          1:size(cc,3)))

Simulate trajectories based on parameter values in chain cc.

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# CovidSEIR.odeSEIR — Method.

odeSEIR()

Sets up ODE for SEIR model with unconfirmed cases.

Returns an ODEProblem

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# CovidSEIR.paramvars — Method.