rgho is an R package to access WHO GHO data from R via the Athena web service, an API providing a simple query interface to the World Health Organization’s data and statistics content.
As stated by the WHO website: The GHO data repository contains an extensive list of indicators, which can be selected by theme or through a multi-dimension query functionality. It is the World Health Organization’s main health statistics repository.
GHO data is composed of indicators structured in dimensions. The list of dimensions is available in vignette("dimensions", package = "rgho"), the list of indicators for the GHO dimension (the main dimension) in vignette("codes-gho", package = "rgho")).
It is possible to access dimensions with get_gho_dimensions():
get_gho_dimensions()## A 'GHO' object of 112 elements.
##
## Label ID
## 1 Indicator GHO
## 2 Indicator Categories GHOCAT
## 3 Data Source DATASOURCE
## 4 Child cause GBDCHILDCAUSES
## 5 ICD10CAUSEGROUP ICD10CAUSEGROUP
## 6 ICD10CHAPTER ICD10CHAPTER
## ...
##
## (Printing 6 first elements.)And codes for a given dimension with get_gho_codes():
get_gho_codes(dimension = "COUNTRY")## A 'GHO' object of 247 elements.
##
## Label ID
## 1 Afghanistan AFG
## 2 Albania ALB
## 3 Algeria DZA
## 4 Andorra AND
## 5 Angola AGO
## 6 Antigua and Barbuda ATG
## ...
##
## (Printing 6 first elements.)
##
## Attributes:
##
## DS
## FIPS
## GEOMETRY
## IOC
## ISO
## ISO2
## ITU
## LAND_AREA_KMSQ_2012
## LANGUAGES_EN_2012
## MARC
## MORT
## SHORTNAMEES
## SHORTNAMEFR
## WHO
## WHOLEGALSTATUS
## WHO_REGION
## WHO_REGION_CODE
## WMO
## WORLD_BANK_INCOME_GROUP
## WORLD_BANK_INCOME_GROUP_CODE
## WORLD_BANK_INCOME_GROUP_GNI_REFERENCE_YEAR
## WORLD_BANK_INCOME_GROUP_RELEASE_DATEget_gho_codes(dimension = "GHO")## A 'GHO' object of 2160 elements.
##
## Label
## 1 Infant mortality rate (probability of dying between birth and age 1 per 1000 live births)
## 2 Adolescent fertility rate (per 1000 girls aged 15-19 years)
## 3 Contraceptive prevalence (%)
## 4 Unmet need for family planning (%)
## 5 Under-five mortality rate (probability of dying by age 5 per 1000 live births)
## 6 Median availability of selected generic medicines (%) - Public
## ID
## 1 MDG_0000000001
## 2 MDG_0000000003
## 3 MDG_0000000005
## 4 MDG_0000000006
## 5 MDG_0000000007
## 6 MDG_0000000010
## ...
##
## (Printing 6 first elements.)
##
## Attributes:
##
## CATEGORY
## DEFINITION_XML
## DISPLAY_ES
## DISPLAY_FR
## IMR_ID
## RENDERER_IDThe function search_dimensions() and search_codes() research a term in dimension or codes labels, respectively.
search_dimensions("region")## A 'GHO' object of 9 elements.
##
## Label ID
## 1 GBD Region GBDREGION
## 2 WHO region REGION
## 3 Sub Region SUBREGION
## 4 UN MDG Region UNMDGREGION
## 5 UN Region UNREGION
## 6 WHO Income Region WHOINCOMEREGION
## ...
##
## (Printing 6 first elements.)search_codes("neonatal", dimension = "GHO")## A 'GHO' object of 7 elements.
##
## Label
## 1 Neonatal tetanus - number of reported cases
## 2 Neonatal mortality rate (per 1000 live births)
## 3 Neonates protected at birth against neonatal tetanus (PAB) (%)
## 4 Distribution of causes of death among children aged <5 years (%) - Neonatal sepsis
## 5 Number of neonatal deaths (thousands)
## 6 Neonatal mortality rate (deaths per 1000 live births)
## ID
## 1 WHS3_56
## 2 WHOSIS_000003
## 3 WHS4_128
## 4 WHS2_515
## 5 CM_03
## 6 nmr
## ...
##
## (Printing 6 first elements.)
##
## Attributes:
##
## CATEGORY
## DEFINITION_XML
## DISPLAY_ES
## DISPLAY_FR
## IMR_ID
## RENDERER_IDIt is also possible to search results from an existing object.
result <- get_gho_codes(dimension = "REGION")
search_gho(result, "asia")## A 'GHO' object of 8 elements.
##
## Label
## 1 South-East Asia
## 2 East Asia and Pacific
## 3 Europe and Central Asia
## 4 South Asia
## 5 Low- and middle-income countries of the South-East Asia Region
## 6 South East Asia region, stratum B (SEAR B)
## ID
## 1 SEAR
## 2 WB_EAP
## 3 WB_ECA
## 4 WB_SA
## 5 WHO_LMI_SEAR
## 6 GBD_REG14_SEARB
## ...
##
## (Printing 6 first elements.)Dimension codes can be filtered according to their attributes.
results <- get_gho_codes(dimension = "COUNTRY")
filter_attrs(
results,
WHO_REGION_CODE == "EUR"
)## A 'GHO' object of 53 elements.
##
## Label ID
## 1 Albania ALB
## 2 Andorra AND
## 3 Armenia ARM
## 4 Austria AUT
## 5 Azerbaijan AZE
## 6 Belarus BLR
## ...
##
## (Printing 6 first elements.)
##
## Attributes:
##
## DS
## FIPS
## GEOMETRY
## IOC
## ISO
## ISO2
## ITU
## LAND_AREA_KMSQ_2012
## LANGUAGES_EN_2012
## MARC
## MORT
## SHORTNAMEES
## SHORTNAMEFR
## WHO
## WHOLEGALSTATUS
## WHO_REGION
## WHO_REGION_CODE
## WMO
## WORLD_BANK_INCOME_GROUP
## WORLD_BANK_INCOME_GROUP_CODE
## WORLD_BANK_INCOME_GROUP_GNI_REFERENCE_YEAR
## WORLD_BANK_INCOME_GROUP_RELEASE_DATEAn indicator can be downloaded as a data_frame with get_gho_data(). Here we use MDG_0000000001, Infant mortality rate (probability of dying between birth and age 1 per 1000 live births):
result <- get_gho_data(
dimension = "GHO",
code = "MDG_0000000001"
)
print(result, width = Inf)## Source: local data frame [5,330 x 11]
##
## GHO PUBLISHSTATE YEAR REGION WORLDBANKINCOMEGROUP COUNTRY
## (chr) (chr) (int) (chr) (chr) (chr)
## 1 MDG_0000000001 PUBLISHED 1998 AFR WB_UMI AGO
## 2 MDG_0000000001 PUBLISHED 2000 AFR WB_UMI AGO
## 3 MDG_0000000001 PUBLISHED 2015 AFR WB_UMI AGO
## 4 MDG_0000000001 PUBLISHED 1990 AFR WB_LI BDI
## 5 MDG_0000000001 PUBLISHED 2004 AFR WB_LI BDI
## 6 MDG_0000000001 PUBLISHED 2006 AFR WB_LI BDI
## 7 MDG_0000000001 PUBLISHED 1995 AFR WB_LI BEN
## 8 MDG_0000000001 PUBLISHED 1998 AFR WB_LI BEN
## 9 MDG_0000000001 PUBLISHED 2003 AFR WB_LI BEN
## 10 MDG_0000000001 PUBLISHED 2004 AFR WB_LI BEN
## .. ... ... ... ... ... ...
## Display Value Numeric Low High Comments
## (chr) (dbl) (dbl) (dbl) (chr)
## 1 130.6 [116.9-147.3] 130.6 116.9 147.3
## 2 128.3 [113.9-145.8] 128.3 113.9 145.8
## 3 96.0 [61.6-150.1] 96.0 61.6 150.1
## 4 103.9 [95.2-113.8] 103.9 95.2 113.8
## 5 82.9 [73.3-93.5] 82.9 73.3 93.5
## 6 76.2 [65.6-87.9] 76.2 65.6 87.9
## 7 97.2 [91.7-102.8] 97.2 91.7 102.8
## 8 92.7 [87.4-98.6] 92.7 87.4 98.6
## 9 83.0 [77.5-88.8] 83.0 77.5 88.8
## 10 80.8 [75.0-86.8] 80.8 75.0 86.8
## .. ... ... ... ... ...The filter argument in get_gho_data() allows request filtering:
result <- get_gho_data(
dimension = "GHO",
code = "MDG_0000000001",
filter = list(
REGION = "EUR",
YEAR = "2015"
)
)
print(result, width = Inf)## Source: local data frame [54 x 11]
##
## GHO PUBLISHSTATE YEAR REGION WORLDBANKINCOMEGROUP COUNTRY
## (chr) (chr) (int) (chr) (chr) (chr)
## 1 MDG_0000000001 PUBLISHED 2015 EUR WB_HI AUT
## 2 MDG_0000000001 PUBLISHED 2015 EUR WB_UMI AZE
## 3 MDG_0000000001 PUBLISHED 2015 EUR WB_HI DNK
## 4 MDG_0000000001 PUBLISHED 2015 EUR WB_HI ESP
## 5 MDG_0000000001 PUBLISHED 2015 EUR WB_HI HUN
## 6 MDG_0000000001 PUBLISHED 2015 EUR WB_HI POL
## 7 MDG_0000000001 PUBLISHED 2015 EUR WB_UMI ROU
## 8 MDG_0000000001 PUBLISHED 2015 EUR WB_HI CYP
## 9 MDG_0000000001 PUBLISHED 2015 EUR WB_HI CZE
## 10 MDG_0000000001 PUBLISHED 2015 EUR WB_LMI GEO
## .. ... ... ... ... ... ...
## Display Value Numeric Low High Comments
## (chr) (dbl) (dbl) (dbl) (chr)
## 1 2.9 [2.6-3.2] 2.9 2.6 3.2
## 2 27.9 [17.6-44.5] 27.9 17.6 44.5
## 3 2.9 [2.4-3.5] 2.9 2.4 3.5
## 4 3.5 [2.9-4.2] 3.5 2.9 4.2
## 5 5.3 [4.8-5.9] 5.3 4.8 5.9
## 6 4.5 [4.0-5.1] 4.5 4.0 5.1
## 7 9.7 [8.7-10.9] 9.7 8.7 10.9
## 8 2.5 [1.9-3.2] 2.5 1.9 3.2
## 9 2.8 [2.5-3.1] 2.8 2.5 3.1
## 10 10.6 [8.9-13.3] 10.6 8.9 13.3
## .. ... ... ... ... ...Other parameters than format can be specified to get_gho_data() (such as apikey, asof…). Parameters are listed on this page. Note that most parameters are not available to general users.