get_concept: Get a concept in an ontology

In ontologics: Code-Logics to Handle Ontologies

Get a concept in an ontology

Description

Get a concept in an ontology

Usage

get_concept(..., external = FALSE, ontology = NULL)

Arguments

...	combination of column name and value to filter that column by. The value to filter by can be provided as regular expression, if regex = TRUE.
external	logical(1) whether or not to return merely the table of external concepts.
ontology	ontology(1) either a path where the ontology is stored, or an already loaded ontology.

Value

A table of a subset of the ontology according to the values in ...

Examples

ontoDir <- system.file("extdata", "crops.rds", package = "ontologics")
onto <- load_ontology(path = ontoDir)

# exact matches from a loaded ontology ...
get_concept(label = "FODDER CROPS", ontology = onto)

# ... or a path
get_concept(label = c("FODDER CROPS", "CEREALS"), ontology = ontoDir)

# ignore querries that would not be valid in filter()
get_concept(label != 'Bioenergy woody' & has_broader == '.01', ontology = onto)

# extract concepts based on regular expressions
library(stringr)
get_concept(str_detect(label, "crop") & str_detect(id, ".03$"), ontology = ontoDir)

ontologics documentation built on May 31, 2023, 6:53 p.m.