About lab
Malkov2020 - SEIRS model of COVID-19 transmission with time-varying R values and reinfection
This Biosimulant lab wraps Malkov2020 - SEIRS model of COVID-19 transmission with time-varying R values and reinfection as a runnable epidemiology model with a companion visualization module.
Epidemiological models of COVID-19 transmission assume that recovered individuals have a fully pro- tected immunity. To date, there is no definite answer about whether people who recover from COVID-19.
What You'll See
The lab asks: Does time-varying reproduction behavior alter COVID-19 peak timing? It runs for 10.0 time units with a communication step of 0.1. The run uses the model defaults declared by the curated SBML wrapper. The generated visualizations focus on Exposed, Infected, Susceptible, Recovered, and Total population, combining trajectory, endpoint-comparison, and summary-table views from one completed dark-mode run.
Output Visualizations
Time-series view for Malkov2020 - SEIRS model of COVID-19 transmission with time-varying R values and reinfection, showing selected epidemiology state trajectories across the 10.0 simulation. The card is useful for reading peak timing, depletion, recovery, and persistence across Exposed, Infected, Susceptible, Recovered, and Total population.
Latest-value comparison for Malkov2020 - SEIRS model of COVID-19 transmission with time-varying R values and reinfection, ranking the finite end-of-run values for the selected epidemiology observables. This makes the dominant compartments and residual states easier to compare at the simulation endpoint.
Summary table for Malkov2020 - SEIRS model of COVID-19 transmission with time-varying R values and reinfection, collecting the run diagnostics reported by the visualization model, including duration simulated, observable coverage, largest change, and peak observable when available.
Model Context
- Core model:
models/core - Visualization model:
models/visualisation - Standard:
sbml - Upstream source:
biomodels_ebi:BIOMD0000000980 - License:
CC0
Inputs
| Input | Maps To | Notes |
|---|---|---|
| Transmission Rate | epidemiology_sbml_malkov2020_seirs_model_of_covid_19_transmission_biomd0000000980_model.transmission_rate | Uses the model default unless overridden at run time. |
| Recovery Rate | epidemiology_sbml_malkov2020_seirs_model_of_covid_19_transmission_biomd0000000980_model.recovery_rate | Uses the model default unless overridden at run time. |
| Incubation Rate | epidemiology_sbml_malkov2020_seirs_model_of_covid_19_transmission_biomd0000000980_model.incubation_rate | Uses the model default unless overridden at run time. |
Outputs
| Output | Maps To | Role |
|---|---|---|
| Model state | state | Available to the visualization model and downstream workflows. |
| Simulation summary | summary | Available to the visualization model and downstream workflows. |
| Species labels | species_labels | Available to the visualization model and downstream workflows. |
| Exposed | Exposed | Available to the visualization model and downstream workflows. |
| Infected | Infected | Available to the visualization model and downstream workflows. |
| Susceptible | Susceptible | Available to the visualization model and downstream workflows. |
| Recovered | Recovered | Available to the visualization model and downstream workflows. |
| Total population | Total_population | Available to the visualization model and downstream workflows. |
Runtime
- Duration:
10.0 - Communication step:
0.1 - Capture run ID:
496c87cc-4230-4076-aa51-9f329201c806
Running Locally
biosimulant labs serve .
Single-model lab wrapper for Malkov2020 - SEIRS model of COVID-19 transmission with time-varying R values and reinfection. Epidemiological models of COVID-19 transmission assume that recovered individuals have a fully pro- tected immunity. To date, there is no definite answer about whether people who recover from COVID-19.
Runtime
Runs
Metadata
Manifest
{
"io": {
"inputs": [
{
"name": "transmission_rate",
"label": "Transmission Rate",
"maps_to": "epidemiology_sbml_malkov2020_seirs_model_of_covid_19_transmission_biomd0000000980_model.transmission_rate"
},
{
"name": "recovery_rate",
"label": "Recovery Rate",
"maps_to": "epidemiology_sbml_malkov2020_seirs_model_of_covid_19_transmission_biomd0000000980_model.recovery_rate"
},
{
"name": "incubation_rate",
"label": "Incubation Rate",
"maps_to": "epidemiology_sbml_malkov2020_seirs_model_of_covid_19_transmission_biomd0000000980_model.incubation_rate"
}
],
"outputs": [
{
"name": "state",
"label": "Model state",
"maps_to": "epidemiology_sbml_malkov2020_seirs_model_of_covid_19_transmission_biomd0000000980_model.state"
},
{
"name": "summary",
"label": "Simulation summary",
"maps_to": "epidemiology_sbml_malkov2020_seirs_model_of_covid_19_transmission_biomd0000000980_model.summary"
},
{
"name": "species_labels",
"label": "Species labels",
"maps_to": "epidemiology_sbml_malkov2020_seirs_model_of_covid_19_transmission_biomd0000000980_model.species_labels"
},
{
"name": "exposed",
"label": "Exposed",
"maps_to": "epidemiology_sbml_malkov2020_seirs_model_of_covid_19_transmission_biomd0000000980_model.exposed"
},
{
"name": "infected",
"label": "Infected",
"maps_to": "epidemiology_sbml_malkov2020_seirs_model_of_covid_19_transmission_biomd0000000980_model.infected"
},
{
"name": "susceptible",
"label": "Susceptible",
"maps_to": "epidemiology_sbml_malkov2020_seirs_model_of_covid_19_transmission_biomd0000000980_model.susceptible"
},
{
"name": "recovered",
"label": "Recovered",
"maps_to": "epidemiology_sbml_malkov2020_seirs_model_of_covid_19_transmission_biomd0000000980_model.recovered"
},
{
"name": "total_population",
"label": "Total population",
"maps_to": "epidemiology_sbml_malkov2020_seirs_model_of_covid_19_transmission_biomd0000000980_model.total_population"
}
]
},
"title": "Malkov2020 - SEIRS model of COVID-19 transmission with time-varying R values and reinfection Lab",
"models": [
{
"path": "owned/models/epidemiology_sbml_malkov2020_seirs_model_of_covid_19_transmission_biomd0000000980_model",
"alias": "epidemiology_sbml_malkov2020_seirs_model_of_covid_19_transmission_biomd0000000980_model",
"parameters": {
"model_path": "data/BIOMD0000000980.xml",
"integration_step": 0.1
},
"provenance": {
"owned_path": "owned/models/epidemiology_sbml_malkov2020_seirs_model_of_covid_19_transmission_biomd0000000980_model"
}
},
{
"path": "owned/models/visualisation",
"alias": "visualisation",
"provenance": {
"owned_path": "owned/models/visualisation"
}
}
],
"wiring": [
{
"to": [
"visualisation.epidemiology_sbml_malkov2020_seirs_model_of_covid_19_transmission_biomd0000000980_model_state"
],
"from": "epidemiology_sbml_malkov2020_seirs_model_of_covid_19_transmission_biomd0000000980_model.state"
},
{
"to": [
"visualisation.epidemiology_sbml_malkov2020_seirs_model_of_covid_19_transmission_biomd0000000980_model_summary"
],
"from": "epidemiology_sbml_malkov2020_seirs_model_of_covid_19_transmission_biomd0000000980_model.summary"
},
{
"to": [
"visualisation.epidemiology_sbml_malkov2020_seirs_model_of_covid_19_transmission_biomd0000000980_model_species_labels"
],
"from": "epidemiology_sbml_malkov2020_seirs_model_of_covid_19_transmission_biomd0000000980_model.species_labels"
}
],
"runtime": {
"duration": 10,
"initial_inputs": {},
"communication_step": 0.1
},
"description": "Single-model lab wrapper for Malkov2020 - SEIRS model of COVID-19 transmission with time-varying R values and reinfection. Epidemiological models of COVID-19 transmission assume that recovered individuals have a fully pro- tected immunity. To date, there is no definite answer about whether people who recover from COVID-19.",
"schema_version": "2.0"
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