mio::osecirvvs::Simulation< FP, BaseT > Class Template Reference

specialization of compartment model simulation for the SECIRVVS model. More...

#include <model.h>

Inheritance diagram for mio::osecirvvs::Simulation< FP, BaseT >:

Collaboration diagram for mio::osecirvvs::Simulation< FP, BaseT >:

Public Member Functions
Eigen::Ref< Eigen::VectorX< FP > >	advance (FP tmax)
	advance simulation to tmax. More...
void	apply_vaccination (FP t)
void	apply_variant (const FP t, const CustomIndexArray< UncertainValue< FP >, AgeGroup > base_infectiousness)
	Applies the effect of a new variant of a disease to the transmission probability of the model. More...
	Simulation (mio::osecirvvs::Model< FP > const &model, FP t0=0., FP dt=0.1)
	construct a simulation. More...

Private Attributes
std::pair< FP, SimulationTime< FP > >	m_dynamic_npi = {-std::numeric_limits<FP>::max(), SimulationTime<FP>(0)}
FP	m_t_last_npi_check

Detailed Description

template<typename FP, class BaseT>
class mio::osecirvvs::Simulation< FP, BaseT >

specialization of compartment model simulation for the SECIRVVS model.

Template Parameters

FP	floating point type, e.g., double.
BaseT	simulation type, default mio::Simulation. For testing purposes only!

Constructor & Destructor Documentation

Simulation()

template<typename FP , class BaseT >

mio::osecirvvs::Simulation< FP, BaseT >::Simulation ( mio::osecirvvs::Model< FP > const &  model, FP  t0 = 0., FP  dt = 0.1  )

inline

construct a simulation.

Parameters

model	the model to simulate.
t0	start time
dt	time steps

Member Function Documentation

advance()

template<typename FP , class BaseT >

Eigen::Ref<Eigen::VectorX<FP> > mio::osecirvvs::Simulation< FP, BaseT >::advance ( FP  tmax )

inline

advance simulation to tmax.

Overwrites Simulation::advance and includes a check for dynamic NPIs in regular intervals.

See also

Simulation::advance

Parameters

tmax	next stopping point of simulation

Returns

value at tmax

apply_vaccination()

template<typename FP , class BaseT >

void mio::osecirvvs::Simulation< FP, BaseT >::apply_vaccination ( FP  t )

inline

apply_variant()

template<typename FP , class BaseT >

void mio::osecirvvs::Simulation< FP, BaseT >::apply_variant ( const FP  t, const CustomIndexArray< UncertainValue< FP >, AgeGroup >  base_infectiousness  )

inline

Applies the effect of a new variant of a disease to the transmission probability of the model.

This function adjusts the transmission probability of the disease for each age group based on the share of the new variant. The share of the new variant is calculated based on the time t and the start day of the new variant. The transmission probability is then updated for each age group in the model.

Based on Equation (35) and (36) in doi.org/10.1371/journal.pcbi.1010054

Parameters

[in]	t	The current time.
[in]	base_infectiousness	The base infectiousness of the old variant for each age group.

Member Data Documentation

m_dynamic_npi

template<typename FP , class BaseT >

std::pair<FP, SimulationTime<FP> > mio::osecirvvs::Simulation< FP, BaseT >::m_dynamic_npi = {-std::numeric_limits<FP>::max(), SimulationTime<FP>(0)}

private

m_t_last_npi_check

template<typename FP , class BaseT >

FP mio::osecirvvs::Simulation< FP, BaseT >::m_t_last_npi_check

private