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Get country-independent flu circulation data for 1918-1996

Source: R/data_import_funs.R
get_template_data.Rd

get_template_data() returns a tibble showing the fraction of influenza A cases caused by subtype H1N1, H2N2, or H3N2 in each year from 1918-1996. These data are country-independent. Country-specific data are only available from 1997 on.

  • For years 1918-1976 only one influenza A subtype circulated, so all fractions are 0 or 1.

  • From 1977-1996 H1N1 and H3N2 both circulated. get_template_data() reports the fraction of influenza A-positive specimens of each subtype observed in US flu surveillance. See Thompson et al. JAMA, 2003, Table 1.

  • Country-specific data from WHO Flu Mart will be appended to this template in later steps.

Usage

get_template_data()

Value

A tibble with the following columns:

  • year

  • A/H1N1, A/H2N2, and A/H3N2 show the fraction of influenza cases caused by each subtype.

  • A = A/H1N1 + A/H2N2 + A/H3N2

  • B is a placeholder for future calculate of influenza B imprinting probabilities, which currently contains NA.

  • group1 and group2 show the fraction of cases caused by group 1 subtypes (H1N1 and H2N2), or group 2 (H3N2).

  • data_from notes the data source.

See also

doi:10.1126/science.aag1322 Gostic et al. Science, (2016) for detailed methods.