Wrapper functions of api_concepts that fetch ancestors
or descendants of one or several concept identifiers using full SNOMED CT
inference.
Note: these functions can only fetch active concepts.
concept_ancestors(
conceptIds,
include_self = FALSE,
encoding = "UTF-8",
silent = FALSE,
...
)
concept_descendants(
conceptIds,
include_self = FALSE,
encoding = "UTF-8",
silent = FALSE,
...
)a character vector of concept identifiers
a logical vector indicating whether the conceptIds
should be included in the results. The default is TRUE. If a single
value is provided, it will be recycled.
HTTP charset parameter to use (default is "UTF-8")
whether to hide progress bar. Default is FALSE
other valid arguments to function api_concepts,
for instance endpoint, branch or limit.
a named list of data frames
In order to use SNOMED CT, a licence is required which depends both on the country you are based in, and the purpose of your work. See details on snomedizer.
Other wrapper:
concept_descriptions(),
concept_find(),
release_version()
pneumonia_ancestors <- concept_ancestors(conceptIds = "233604007")
# This will trigger a warning using the default limit set by snomedizer_options_get("limit")
pneumonia_concepts <- concept_descendants(conceptIds = "233604007")
#> Warning:
#> This server request returned just 50 of a total 225 results.
#> Please increase the server `limit` to fetch all results.
# Raising the limit
pneumonia_concepts <- concept_descendants(conceptIds = "233604007", limit = 300)
head(pneumonia_concepts$`233604007`)
#> conceptId active definitionStatus moduleId effectiveTime
#> 1 882784691000119100 TRUE FULLY_DEFINED 900000000000207008 20200731
#> 2 10625751000119106 TRUE FULLY_DEFINED 900000000000207008 20150731
#> 3 10625711000119105 TRUE FULLY_DEFINED 900000000000207008 20150731
#> 4 10625671000119106 TRUE FULLY_DEFINED 900000000000207008 20150731
#> 5 10625631000119108 TRUE FULLY_DEFINED 900000000000207008 20150731
#> 6 10625591000119108 TRUE FULLY_DEFINED 900000000000207008 20150731
#> id
#> 1 882784691000119100
#> 2 10625751000119106
#> 3 10625711000119105
#> 4 10625671000119106
#> 5 10625631000119108
#> 6 10625591000119108
#> idAndFsnTerm
#> 1 882784691000119100 | Pneumonia caused by severe acute respiratory syndrome coronavirus 2 (disorder) |
#> 2 10625751000119106 | Bronchopneumonia due to virus (disorder) |
#> 3 10625711000119105 | Bronchopneumonia caused by Streptococcus pneumoniae (disorder) |
#> 4 10625671000119106 | Bronchopneumonia caused by Streptococcus (disorder) |
#> 5 10625631000119108 | Bronchopneumonia caused by Staphylococcus aureus (disorder) |
#> 6 10625591000119108 | Bronchopneumonia caused by Staphylococcus (disorder) |
#> fsn.term
#> 1 Pneumonia caused by severe acute respiratory syndrome coronavirus 2 (disorder)
#> 2 Bronchopneumonia due to virus (disorder)
#> 3 Bronchopneumonia caused by Streptococcus pneumoniae (disorder)
#> 4 Bronchopneumonia caused by Streptococcus (disorder)
#> 5 Bronchopneumonia caused by Staphylococcus aureus (disorder)
#> 6 Bronchopneumonia caused by Staphylococcus (disorder)
#> fsn.lang pt.term pt.lang total limit
#> 1 en Pneumonia caused by SARS-CoV-2 en 225 300
#> 2 en Bronchopneumonia due to virus en 225 300
#> 3 en Bronchopneumonia due to Streptococcus pneumoniae en 225 300
#> 4 en Bronchopneumonia due to Streptococcus en 225 300
#> 5 en Bronchopneumonia due to Staphylococcus aureus en 225 300
#> 6 en Bronchopneumonia due to Staphylococcus en 225 300
#> offset searchAfter searchAfterArray
#> 1 0 WzE4MTAwN10= 181007
#> 2 0 WzE4MTAwN10= 181007
#> 3 0 WzE4MTAwN10= 181007
#> 4 0 WzE4MTAwN10= 181007
#> 5 0 WzE4MTAwN10= 181007
#> 6 0 WzE4MTAwN10= 181007