A flexible scenario modeling pipeline that tailors models for decision makers seeking to compare projections of epidemic trajectories and healthcare impacts from multiple intervention scenarios in different locations. It projects epidemic trajectories and healthcare impacts under different suites of interventions in order to aid in scenario planning. The model is generic enough to be applied to different spatial scales given shapefiles, population data, and COVID-19 confirmed case data.
Schema.org vocabulary for structured data on the web
Dublin Core Metadata Initiative Terms - refined elements for precise resource description
Provenance, Authoring and Versioning ontology for metadata about web resources
W3C Provenance Ontology for describing provenance information
Custom MIDAS vocabulary for epidemiological data and modeling
Health Level 7 Fast Healthcare Interoperability Resources
Systematized Nomenclature of Medicine Clinical Terms
Logical Observation Identifiers Names and Codes
LOINC database for laboratory and clinical observations
OBO Foundry ontologies for life sciences and biomedical research
JSON Schema (Draft 2020-12) defining the structure of MIDAS Catalog JSON-LD metadata records
A data set that is about either some mortality rate or the death events themselves of some individuals of a given population of a particular biological taxon.
A disease whose physical basis is an infectious disorder
Severe acute respiratory syndrome coronavirus 2
A species of BETACORONAVIRUS causing atypical respiratory disease (COVID-19) in humans. The organism was first identified in 2019 in Wuhan, China. The natural host is the Chinese intermediate horseshoe bat, RHINOLOPHUS affinis.
The goal or purpose of a modeling study.
A respiratory tract infection caused by a virus. Viruses represent the most common causes of upper and lower respiratory tract infections and include rhinoviruses, influenza viruses, parainfluenza viruses, and respiratory syncytial virus.
An organism of a particular biological taxon that is the bearer of an infectious dispositions towards an organism of a different particular biological taxon.
Minute infectious agents whose genomes are composed of DNA or RNA, but not both. They are characterized by a lack of independent metabolism and the inability to replicate outside living host cells.
Forecasts based on SIR (Susceptible, Infected, Recovered) models or any of the many variants of this basic famework.
Vaccine preventable diseases are those infectious diseases that can be prevented by vaccination
a dataset that is about two or more hospital stays involving two or more patients.
An organism of a particular biological taxon that is the site of reproduction of an organism of a different taxon.
A method that tries to describe logical and internally consistent sequences of events to explore how the future might, could or should evolve from the past and present.
A count of hospital stays in a population that is the number of hospital stays that occurred during a proper part of a reference temporal interval.
Actions of groups of people in response to outbreaks.
A disease is a disposition (i) to undergo pathological processes that (ii) exists in an organism because of one or more disorders in that organism.
Information about capacity, including hospital beds, PPE supplies, nursing home capacity, testing sites, therapeutics, etc.
The method or type of model used to achieve the purpose.
a census of infectious disease control strategies put into place to reduce infection acquisitions that are part of an infection in an ecosystem.
A Coronavirus infection that is characterized by fever, cough and shortness of breath and that has_material_basis_in SARS-CoV-2.
Descriptors of the behavior of an outbreak
a data set that is about the human daily movement behavior of the individual huamns in a given population.
A count of simulated or physical individuals in a population.
Software is a plan specification composed of a series of instructions that can be interpreted by or directly executed by a processing unit.
Landing page where users can browse and download dataset files in various formats.
Johns Hopkins University Infectious Disease Dynamics - COVID-19
National Institute of General Medical Sciences
A minimal repository that contains everything needed to run the COVIDScenarioPipeline on fake data. The wiki contains information on how to get started with the model.
A scenario modeling pipeline for COVID-19 emergency planning
An article containing the methods and features of the model.
Johns Hopkins University Infectious Disease Dynamics - COVID-19. COVID Scenario Pipeline. 2021. Available from: https://github.com/HopkinsIDD/COVIDScenarioPipeline
Python is a high-level, interpreted programming language known for its readability and broad applicability in web development, data science, and automation.
R is a programming language and software environment for statistical computing and graphics, widely used among statisticians and data miners.
The 'about' property contains mixed types: DefinedTerm objects represent subject matter/topics, while Place objects represent geographical scope or applicability