Database field options

Latest update: June 2023

The field options for each table can be retrieved from get_table_field_options(table_type = "model", field = 'Model type') which would return the available options for the model type field in the Models dataset. Below we display all options for all table types.

Model field options

Model type	Stochastic or deterministic	Transmission route	Compartment type	Assumptions	Interventions
Compartmental	Stochastic	Airborne or close contact	SIS	Homogeneous mixing	Vaccination
Branching process	Deterministic	Human to human (direct non-sexual contact)	SIR	Latent period is same as incubation period	Quarantine
Agent / Individual based		Vector to human	SEIR	Heterogenity in transmission rates - between groups	Vector Control
Other		Animal reservoir to human	Other compartmental	Heterogenity in transmission rates - over time	Treatment
Unspecified		Sexual	Not compartmental	Age dependent susceptibility	Contact tracing
		Unspecified		Unspecified	Hospitals
					Treatment Centres
					Safe burials
					Behaviour changes
					Other
					Unspecified

Parameter field options

Population Country	Parameter type	Units	Parameter uncertainty - single type	Parameter uncertainty - paired type	Distribution type	Distribution parameter 1 - type	Distribution parameter 2 - type	Disaggregated by	Sex	Setting	Group	Timing	Reproduction number method	Time from	Time to	IFR_CFR_method	Riskfactor outcome	Riskfactor name	Riskfactor occupation	Riskfactor significant	Riskfactor adjusted
Afghanistan	Mutations - mutation rate	Percentage (%)	Standard Error (SE)	CI90%	Bernoulli	Shape	Shape	Age	Female	Community based	Healthcare workers	Start outbreak	Renewal equations / Branching process	Exposure/Infection	Exposure/Infection	Naive	Infection	Age	Abattoir services	Significant	Adjusted
Albania	Mutations - evolutionary rate	Per hour	Standard deviation (Sd)	CI95%	Beta	Scale	Scale	Disease generation	Male	Hospital based	Farmers	Mid outbreak	Growth rate	Infectiousness	Infectiousness	Adjusted	Severe disease	Close contact	Correctional facilities	Not significant	Not adjusted
Algeria	Mutations - substitution rate	Per day	Variance	CRI90%	Beta-Binomial	Mean	Mean	Level of exposure	Both	Household based	Outdoor workers	End outbreak	Compartmental model	Symptom Onset/Fever	Symptom Onset/Fever	Unspecified	Death	Contact with animal	Education	Unspecified	Unspecified
American Samoa	Growth rate (r)	Per week	Coefficient of variation	CRI95%	Cauchy	Coefficient of variation	Coefficient of variation	Occupation	Unspecified	Housing estate based	Animal workers	Post outbreak	Next generation matrix	Seeking Care	Seeking Care		Recovery	Cormobidity	Funeral and burial services
Andorra	Doubling time	Per month	Other	Range	Cauchy-half	Variance	Variance	Region		Population based	Butchers	Endemic	Empirical (contact tracing)	Admission to Care/Hospitalisation	Admission to Care/Hospitalisation		Serology	Funeral	Healthcare
Angola	Halving time	Per year		Inter Quartile Range (IQR)	Chi-Square-Inverse	Meanlog	Meanlog	Sex		School based	Abattoir workers	Unspecified	Genomics	Admission to Critical Care/ICU	Admission to Critical Care/ICU		Other	Hospitalisation	Laboratory
Antigua and Barbuda	Attack rate	Hours		Highest Posterior Density Interval 95%	Dirichlet	Mean sd	Mean sd	Symptoms		Travel based	Pregnant women		Other	Death	Death			Household contact	Livestock and animal herders
Argentina	Reproduction number (Basic R0)	Days		Other	Exponential			Time		Trade / business based	Sex workers		Unspecified	Discharge from Critical Care/ICU	Discharge from Critical Care/ICU			Non-household contact	Public Transport
Armenia	Reproduction number (Effective, Re)	Weeks			Gamma			Other		Contact based	People who inject drugs			Discharge from Care/Hospital	Discharge from Care/Hospital			Occupation	Quarantine facilities
Aruba	Overdispersion	Months			Gamma-Inverse					Other	Household contacts of survivors			Recovery/non-Infectiousness	Recovery/non-Infectiousness			Sex	Veterinary
Australia	Relative contribution - human to human	Max. nr. of cases superspreading (related to case)			LKJ					Unspecified	Persons under investigation			Symptom Resolution	Symptom Resolution			Social gathering	Other
Austria	Relative contribution - zoonotic to human	Max. nr. of cases superspreading (in environment)			Multinomial						General population			Other: Enter Timepoint in Text Box	Other: Enter Timepoint in Text Box			Other	Unspecified
Azerbaijan	Human delay - generation time	Substitutions/site/year			Negative-Binomial						Other
Bahamas, The	Human delay - serial interval	Mutations/genome/generation (U)			Normal						Unspecified
Bahrain	Human delay - latent period	Mutations/site/generation (mu)			Normal-Log
Bangladesh	Human delay - incubation period	No units			Normal-Logit
Barbados	Human delay - infectious period	Unspecified			Normal-Multivariate
Belarus	Human delay - time in care (length of stay)				Poisson
Belgium	Human delay - other human delay (go to section)				Student-t
Belize	Mosquito delay - incubation period				Student-t Multivariate
Benin	Mosquito delay - time to viral clearance				Uniform
Bermuda	Severity - case fatality rate (CFR)				Uniform-Discrete
Bhutan	Severity - infection fatality rate (IFR)				Wishart-Inverse
Bolivia	Seroprevalence - IgM
Bosnia and Herzegovina	Seroprevalence - IgG
Botswana	Seroprevalence - PRNT
Brazil	Seroprevalence - HAI/HI
British Virgin Islands	Seroprevalence - IFA
Brunei Darussalam	Seroprevalence - Unspecified
Bulgaria	Risk factors
Burkina Faso
Burundi
Cabo Verde
Cambodia
Cameroon
Canada
Cayman Islands
Central African Republic
Chad
Channel Islands
Chile
China
Colombia
Comoros
Congo, Dem. Rep.
Congo, Rep.
Costa Rica
C\u00F4te d'Ivoire
Croatia
Cuba
Cura\u00E7ao
Cyprus
Czech Republic
Denmark
Djibouti
Dominica
Dominican Republic
Ecuador
Egypt, Arab Rep.
El Salvador
Equatorial Guinea
Eritrea
Estonia
Eswatini
Ethiopia
Faroe Islands
Fiji
Finland
France
French Polynesia
Gabon
Gambia, The
Georgia
Germany
Ghana
Gibraltar
Greece
Greenland
Grenada
Guam
Guatemala
Guinea
Guinea-Bissau
Guyana
Haiti
Honduras
Hong Kong SAR, China
Hungary
Iceland
India
Indonesia
Iran, Islamic Rep.
Iraq
Ireland
Isle of Man
Israel
Italy
Jamaica
Japan
Jordan
Kazakhstan
Kenya
Kiribati
Korea, Dem. People's Rep.
Korea, Rep.
Kosovo
Kuwait
Kyrgyz Republic
Lao PDR
Latvia
Lebanon
Lesotho
Liberia
Libya
Liechtenstein
Lithuania
Luxembourg
Macao SAR, China
Madagascar
Malawi
Malaysia
Maldives
Mali
Malta
Marshall Islands
Mauritania
Mauritius
Mexico
Micronesia, Fed. Sts.
Moldova
Monaco
Mongolia
Montenegro
Morocco
Mozambique
Myanmar
Namibia
Nauru
Nepal
Netherlands
New Caledonia
New Zealand
Nicaragua
Niger
Nigeria
North Macedonia
Northern Mariana Islands
Norway
Oman
Pakistan
Palau
Panama
Papua New Guinea
Paraguay
Peru
Philippines
Poland
Portugal
Puerto Rico
Qatar
Romania
Russian Federation
Rwanda
Samoa
San Marino
S\u00E3o Tom\u00E9 and Pr\u00EDncipe
Saudi Arabia
Senegal
Serbia
Seychelles
Sierra Leone
Singapore
Sint Maarten (Dutch part)
Slovak Republic
Slovenia
Solomon Islands
Somalia
South Africa
South Sudan
Spain
Sri Lanka
St. Kitts and Nevis
St. Lucia
St. Martin (French part)
St. Vincent and the Grenadines
Sudan
Suriname
Sweden
Switzerland
Syrian Arab Republic
Taiwan, China
Tajikistan
Tanzania
Thailand
Timor Leste
Togo
Tonga
Trinidad and Tobago
Tunisia
Turkey
Turkmenistan
Turks and Caicos Islands
Tuvalu
Uganda
Ukraine
United Arab Emirates
United Kingdom
United States
Uruguay
Uzbekistan
Vanuatu
Venezuela
Vietnam
Virgin Islands
West Bank and Gaza
Yemen
Yuogslavia
Zambia
Zimbabwe

Outbreak field options

Outbreak country	Detection mode
Afghanistan	Symptoms
Albania	Molecular (PCR etc)
Algeria	Not specified
American Samoa
Andorra
Angola
Antigua and Barbuda
Argentina
Armenia
Aruba
Australia
Austria
Azerbaijan
Bahamas, The
Bahrain
Bangladesh
Barbados
Belarus
Belgium
Belize
Benin
Bermuda
Bhutan
Bolivia
Bosnia and Herzegovina
Botswana
Brazil
British Virgin Islands
Brunei Darussalam
Bulgaria
Burkina Faso
Burundi
Cabo Verde
Cambodia
Cameroon
Canada
Cayman Islands
Central African Republic
Chad
Channel Islands
Chile
China
Colombia
Comoros
Congo, Dem. Rep.
Congo, Rep.
Costa Rica
C\u00F4te d'Ivoire
Croatia
Cuba
Cura\u00E7ao
Cyprus
Czech Republic
Denmark
Djibouti
Dominica
Dominican Republic
Ecuador
Egypt, Arab Rep.
El Salvador
Equatorial Guinea
Eritrea
Estonia
Eswatini
Ethiopia
Faroe Islands
Fiji
Finland
France
French Polynesia
Gabon
Gambia, The
Georgia
Germany
Ghana
Gibraltar
Greece
Greenland
Grenada
Guam
Guatemala
Guinea
Guinea-Bissau
Guyana
Haiti
Honduras
Hong Kong SAR, China
Hungary
Iceland
India
Indonesia
Iran, Islamic Rep.
Iraq
Ireland
Isle of Man
Israel
Italy
Jamaica
Japan
Jordan
Kazakhstan
Kenya
Kiribati
Korea, Dem. People's Rep.
Korea, Rep.
Kosovo
Kuwait
Kyrgyz Republic
Lao PDR
Latvia
Lebanon
Lesotho
Liberia
Libya
Liechtenstein
Lithuania
Luxembourg
Macao SAR, China
Madagascar
Malawi
Malaysia
Maldives
Mali
Malta
Marshall Islands
Mauritania
Mauritius
Mexico
Micronesia, Fed. Sts.
Moldova
Monaco
Mongolia
Montenegro
Morocco
Mozambique
Myanmar
Namibia
Nauru
Nepal
Netherlands
New Caledonia
New Zealand
Nicaragua
Niger
Nigeria
North Macedonia
Northern Mariana Islands
Norway
Oman
Pakistan
Palau
Panama
Papua New Guinea
Paraguay
Peru
Philippines
Poland
Portugal
Puerto Rico
Qatar
Romania
Russian Federation
Rwanda
Samoa
San Marino
S\u00E3o Tom\u00E9 and Pr\u00EDncipe
Saudi Arabia
Senegal
Serbia
Seychelles
Sierra Leone
Singapore
Sint Maarten (Dutch part)
Slovak Republic
Slovenia
Solomon Islands
Somalia
South Africa
South Sudan
Spain
Sri Lanka
St. Kitts and Nevis
St. Lucia
St. Martin (French part)
St. Vincent and the Grenadines
Sudan
Suriname
Sweden
Switzerland
Syrian Arab Republic
Taiwan, China
Tajikistan
Tanzania
Thailand
Timor Leste
Togo
Tonga
Trinidad and Tobago
Tunisia
Turkey
Turkmenistan
Turks and Caicos Islands
Tuvalu
Uganda
Ukraine
United Arab Emirates
United Kingdom
United States
Uruguay
Uzbekistan
Vanuatu
Venezuela
Vietnam
Virgin Islands
West Bank and Gaza
Yemen
Yuogslavia
Zambia
Zimbabwe