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Prepare EPI (Vaccination) Data for MBG Analysis

Source: R/indicator_epi.R
calc_epi_mbg.Rd

Prepares cluster-level vaccination coverage data for MBG analysis. Calculates coverage for standard EPI vaccines plus malaria vaccine.

Usage

calc_epi_mbg(
  dhs_kr,
  gps_data,
  indicators = c("bcg", "dpt3", "measles1"),
  age_min_months = 12,
  age_max_months = 23,
  survey_vars = list(cluster = "v001", age = "hw1", bcg = "h2", polio0 = "h0", dpt1 =
    "h3", dpt2 = "h4", dpt3 = "h5", polio1 = "h6", polio2 = "h7", polio3 = "h8", measles1
    = "h9", measles2 = "h9a", vita1 = "h33", vita2 = "h33a", malaria = "h68", penta1 =
    "h51", penta2 = "h52", penta3 = "h53", pneumo1 = "h54", pneumo2 = "h55", pneumo3 =
    "h56", rota1 = "h57", rota2 = "h58", rota3 = "h59", ipv = "h60", hepb0 = "h50",
    yellowfever = "h61", any = "h10"),
  gps_vars = list(cluster = "DHSCLUST", lat = "LATNUM", lon = "LONGNUM")
)

Arguments

dhs_kr

DHS Children's Recode (KR) dataset.

gps_data

DHS GPS dataset with cluster coordinates.

indicators

Character vector of vaccines to calculate:

  • "bcg": BCG vaccine

  • "dpt1", "dpt2", "dpt3": DPT doses 1-3 (falls back to pentavalent)

  • "polio0": OPV birth dose

  • "polio1", "polio2", "polio3": Polio doses 1-3

  • "measles1", "measles2": Measles doses 1-2

  • "vita1", "vita2": Vitamin A doses 1-2

  • "malaria": Malaria vaccine (RTS,S/R21)

  • "penta1", "penta2", "penta3": Pentavalent doses 1-3

  • "pneumo1", "pneumo2", "pneumo3": Pneumococcal doses 1-3

  • "rota1", "rota2", "rota3": Rotavirus doses 1-3

  • "ipv": Inactivated Polio Vaccine

  • "hepb0": Hepatitis B birth dose

  • "yellowfever": Yellow Fever vaccine

  • "any": Any vaccination (h10 >= 1)

  • "never_vaccinated": Zero-dose (h10 == 0)

  • "fully_vaccinated": Basic fully vaccinated

Default: c("bcg", "dpt3", "measles1").

age_min_months

Minimum age in months (default: 12).

age_max_months

Maximum age in months (default: 23).

survey_vars

Named list mapping DHS variable names.

gps_vars

Named list for GPS variable mapping.

Value

A list of data.tables (one per vaccine).

Details

Methodology: https://github.com/ahadi-analytics/sntmethods/blob/master/inst/methods/epi_dhs.yml

Standard EPI target age is 12-23 months (children who have had time to complete basic vaccination schedule). Malaria vaccine (RTS,S) is measured by h68 variable.

Examples

if (FALSE) { # \dontrun{
epi_mbg <- calc_epi_mbg(
  dhs_kr = kr_data,
  gps_data = gps_data,
  indicators = c("bcg", "dpt3", "measles1")
)
} # }