ppo_terms: Access Terms From the Plant Phenology Ontology

In biocodellc/rppo: Access the Global Plant Phenology Data Portal

Access Terms From the Plant Phenology Ontology

Description

Access present and absent terms from the Plant Phenology Ontology

Usage

ppo_terms(present = FALSE, absent = FALSE, timeLimit = 4)

Arguments

present	(boolean) If TRUE then return all "present" phenological stages
absent	(boolean) IF TRUE then return all "absent" phenological stages.
timeLimit	(integer) set the limit of the amount of time to wait for a response

Details

The ppo_terms function returns terms from the Plant Phenology Ontology (PPO). The function only accepts parameters for "present" or "absent" terms. The response populates a data frame with: termID, label, description, and URI. Use the termID values in submitting termID values to the ppo_data function. The label and description fields are extracted from the Plant Phenology Ontology and are useful in determining the proper term to query on. The URI field contains a link to the term itself which is useful for determining superclass and subclass relationships for each term. Some of these terms will not return any results when using ppo_data. To have only the ones that will return results, use ppo_get_terms or check rppo:::ppo_filters$mapped_traits which contains both present and absent terms. For more information on the PPO ontology itself, we suggest loading the PPO https://github.com/PlantPhenoOntology/ppo with protege https://protege.stanford.edu/

Value

data.frame

Examples

presentTerms <- ppo_terms(present = TRUE, timeLimit = 1)

absentTerms <- ppo_terms(absent = TRUE, timeLimit = 1)

biocodellc/rppo documentation built on July 8, 2023, 12:45 p.m.