Chitnis2008 - Mathematical model of malaria transmission Lab

About lab

Chitnis2008 - Mathematical model of malaria transmission

This Biosimulant lab wraps Chitnis2008 - Mathematical model of malaria transmission as a runnable epidemiology model with a companion visualization module. Mathematical model of malaria transmission for low and high transmission rates. It can be used to explore transmission dynamics and compare scenario outcomes across conditions.

What You'll See

The lab asks: Which human and mosquito compartments carry malaria persistence in the baseline run? 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 Human, Infected Human, Exposed Mosquito, Infected Mosquito, Susceptible Human, and Susceptible Mosquito, and related outputs, combining trajectory, endpoint-comparison, and summary-table views from one completed dark-mode run.

Output Visualizations

Chitnis2008 - Mathematical model of malaria transmission - timeseries visualization

Time-series view for Chitnis2008 - Mathematical model of malaria transmission, showing selected epidemiology state trajectories across the 10.0 simulation. The card is useful for reading peak timing, depletion, recovery, and persistence across Exposed Human, Infected Human, Exposed Mosquito, Infected Mosquito, Susceptible Human, and Susceptible Mosquito, and related outputs.

Chitnis2008 - Mathematical model of malaria transmission - bar visualization

Latest-value comparison for Chitnis2008 - Mathematical model of malaria transmission, 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.

Chitnis2008 - Mathematical model of malaria transmission - table visualization

Summary table for Chitnis2008 - Mathematical model of malaria transmission, 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:BIOMD0000000949
License: CC0

Inputs

Input	Maps To	Notes
Human To Mosquito Transmission	`epidemiology_sbml_chitnis2008_mathematical_model_of_malaria_transm_biomd0000000949_model.human_to_mosquito_transmission`	Uses the model default unless overridden at run time.
Mosquito To Human Transmission	`epidemiology_sbml_chitnis2008_mathematical_model_of_malaria_transm_biomd0000000949_model.mosquito_to_human_transmission`	Uses the model default unless overridden at run time.
Human Recovery Rate	`epidemiology_sbml_chitnis2008_mathematical_model_of_malaria_transm_biomd0000000949_model.human_recovery_rate`	Uses the model default unless overridden at run time.
Mosquito Mortality Rate	`epidemiology_sbml_chitnis2008_mathematical_model_of_malaria_transm_biomd0000000949_model.mosquito_mortality_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 Human	`Exposed_Human`	Available to the visualization model and downstream workflows.
Infected Human	`Infected_Human`	Available to the visualization model and downstream workflows.
Exposed Mosquito	`Exposed_Mosquito`	Available to the visualization model and downstream workflows.
Infected Mosquito	`Infected_Mosquito`	Available to the visualization model and downstream workflows.
Susceptible Human	`Susceptible_Human`	Available to the visualization model and downstream workflows.
Susceptible Mosquito	`Susceptible_Mosquito`	Available to the visualization model and downstream workflows.
Recovered	`Recovered`	Available to the visualization model and downstream workflows.

Runtime

Duration: 10.0
Communication step: 0.1
Capture run ID: 964fe409-bb4d-432e-a2e3-8e658724a426

Running Locally

biosimulant labs serve .

Single-model lab wrapper for Chitnis2008 - Mathematical model of malaria transmission. Mathematical model of malaria transmission for low and high transmission rates. It can be used to explore transmission dynamics and compare scenario outcomes across conditions.

Runtime

Duration10

Comms Step0.1

Runs

Total0

Completed0

Failed0

Metadata

Packagechitnis2008-mathematical-model-of-malaria-transmission-lab

Created2026-05-15

Updated2026-05-15

biomodels_ebicuratedepidemiologyfaithfulsbmltelluriumvisualisation

Manifest

{
  "io": {
    "inputs": [
      {
        "name": "human_to_mosquito_transmission",
        "label": "Human To Mosquito Transmission",
        "maps_to": "epidemiology_sbml_chitnis2008_mathematical_model_of_malaria_transm_biomd0000000949_model.human_to_mosquito_transmission"
      },
      {
        "name": "mosquito_to_human_transmission",
        "label": "Mosquito To Human Transmission",
        "maps_to": "epidemiology_sbml_chitnis2008_mathematical_model_of_malaria_transm_biomd0000000949_model.mosquito_to_human_transmission"
      },
      {
        "name": "human_recovery_rate",
        "label": "Human Recovery Rate",
        "maps_to": "epidemiology_sbml_chitnis2008_mathematical_model_of_malaria_transm_biomd0000000949_model.human_recovery_rate"
      },
      {
        "name": "mosquito_mortality_rate",
        "label": "Mosquito Mortality Rate",
        "maps_to": "epidemiology_sbml_chitnis2008_mathematical_model_of_malaria_transm_biomd0000000949_model.mosquito_mortality_rate"
      }
    ],
    "outputs": [
      {
        "name": "state",
        "label": "Model state",
        "maps_to": "epidemiology_sbml_chitnis2008_mathematical_model_of_malaria_transm_biomd0000000949_model.state"
      },
      {
        "name": "summary",
        "label": "Simulation summary",
        "maps_to": "epidemiology_sbml_chitnis2008_mathematical_model_of_malaria_transm_biomd0000000949_model.summary"
      },
      {
        "name": "species_labels",
        "label": "Species labels",
        "maps_to": "epidemiology_sbml_chitnis2008_mathematical_model_of_malaria_transm_biomd0000000949_model.species_labels"
      },
      {
        "name": "exposed_human",
        "label": "Exposed Human",
        "maps_to": "epidemiology_sbml_chitnis2008_mathematical_model_of_malaria_transm_biomd0000000949_model.exposed_human"
      },
      {
        "name": "infected_human",
        "label": "Infected Human",
        "maps_to": "epidemiology_sbml_chitnis2008_mathematical_model_of_malaria_transm_biomd0000000949_model.infected_human"
      },
      {
        "name": "exposed_mosquito",
        "label": "Exposed Mosquito",
        "maps_to": "epidemiology_sbml_chitnis2008_mathematical_model_of_malaria_transm_biomd0000000949_model.exposed_mosquito"
      },
      {
        "name": "infected_mosquito",
        "label": "Infected Mosquito",
        "maps_to": "epidemiology_sbml_chitnis2008_mathematical_model_of_malaria_transm_biomd0000000949_model.infected_mosquito"
      },
      {
        "name": "susceptible_human",
        "label": "Susceptible Human",
        "maps_to": "epidemiology_sbml_chitnis2008_mathematical_model_of_malaria_transm_biomd0000000949_model.susceptible_human"
      },
      {
        "name": "susceptible_mosquito",
        "label": "Susceptible Mosquito",
        "maps_to": "epidemiology_sbml_chitnis2008_mathematical_model_of_malaria_transm_biomd0000000949_model.susceptible_mosquito"
      },
      {
        "name": "recovered",
        "label": "Recovered",
        "maps_to": "epidemiology_sbml_chitnis2008_mathematical_model_of_malaria_transm_biomd0000000949_model.recovered"
      }
    ]
  },
  "title": "Chitnis2008 - Mathematical model of malaria transmission Lab",
  "models": [
    {
      "path": "owned/models/epidemiology_sbml_chitnis2008_mathematical_model_of_malaria_transm_biomd0000000949_model",
      "alias": "epidemiology_sbml_chitnis2008_mathematical_model_of_malaria_transm_biomd0000000949_model",
      "parameters": {
        "model_path": "data/BIOMD0000000949.xml",
        "integration_step": 0.1
      },
      "provenance": {
        "owned_path": "owned/models/epidemiology_sbml_chitnis2008_mathematical_model_of_malaria_transm_biomd0000000949_model"
      }
    },
    {
      "path": "owned/models/visualisation",
      "alias": "visualisation",
      "provenance": {
        "owned_path": "owned/models/visualisation"
      }
    }
  ],
  "wiring": [
    {
      "to": [
        "visualisation.epidemiology_sbml_chitnis2008_mathematical_model_of_malaria_transm_biomd0000000949_model_state"
      ],
      "from": "epidemiology_sbml_chitnis2008_mathematical_model_of_malaria_transm_biomd0000000949_model.state"
    },
    {
      "to": [
        "visualisation.epidemiology_sbml_chitnis2008_mathematical_model_of_malaria_transm_biomd0000000949_model_summary"
      ],
      "from": "epidemiology_sbml_chitnis2008_mathematical_model_of_malaria_transm_biomd0000000949_model.summary"
    },
    {
      "to": [
        "visualisation.epidemiology_sbml_chitnis2008_mathematical_model_of_malaria_transm_biomd0000000949_model_species_labels"
      ],
      "from": "epidemiology_sbml_chitnis2008_mathematical_model_of_malaria_transm_biomd0000000949_model.species_labels"
    }
  ],
  "runtime": {
    "duration": 10,
    "initial_inputs": {},
    "communication_step": 0.1
  },
  "description": "Single-model lab wrapper for Chitnis2008 - Mathematical model of malaria transmission. Mathematical model of malaria transmission for low and high transmission rates. It can be used to explore transmission dynamics and compare scenario outcomes across conditions.",
  "schema_version": "2.0"
}

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