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neherlab / covid19_scenarios

Models of COVID-19 outbreak trajectories and hospital demand
https://covid19-scenarios.org
MIT License
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Palliative flux added #752

Closed tiagoandresvaz closed 4 years ago

tiagoandresvaz commented 4 years ago

Related issues and PRs

Description

To implement the new proposed flux in the model and interfaces according to the discussion above.

Impacted Areas in the application

Model changes highlights:

severity.forEach(({ ageGroup, confirmed, critical, isolated, fatal, severe, palliative}, i) => { const freq = (1.0 ageDistribution[i].population) / total sim.ageDistribution[i].population = freq sim.frac.severe[i] = (severe / 100) (confirmed / 100) sim.frac.critical[i] = sim.frac.severe[i] (critical / 100) sim.frac.fatal[i] = sim.frac.critical[i] (fatal / 100) NEW> sim.frac.palliative[i] = sim.frac.severe[i] * (palliative / 100) ...

 NEW> const dPalliative = palliative / 100

// Age specific rates
sim.frac.isolated[i] = isolated / 100
sim.rate.recovery[i] = (1 - dHospital) / infectiousPeriodDays
sim.rate.severe[i] = dHospital / infectiousPeriodDays
OLD>sim.rate.discharge[i] = (1 - dCritical) / hospitalStayDays
NEW> sim.rate.discharge[i] = (1 - dCritical - dPalliative) / hospitalStayDays
NEW> sim.rate.palliative[i] = dPalliative / hospitalStayDays
sim.rate.critical[i] = dCritical / hospitalStayDays
sim.rate.stabilize[i] = (1 - dFatal) / icuStayDays
sim.rate.fatality[i] = dFatal / icuStayDays

...

grad.cumulative.recovered[age] = flux.infectious.recovered[age] + flux.severe.recovered[age] grad.cumulative.hospitalized[age] = flux.infectious.severe[age] grad.cumulative.critical[age] = flux.severe.critical[age] OLD grad.cumulative.fatality[age] = flux.critical.fatality[age] + flux.overflow.fatality[age] NEW grad.cumulative.fatality[age] = flux.critical.fatality[age] + flux.overflow.fatality[age] + flux.severe.palliative[age]

Testing

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