liberalMap: Produce a data.frame with a set of naive terms mapped to all...
In vjcitn/ontoProc: processing of ontologies of anatomy, cell lines, and so on

liberalMap

R Documentation

Produce a data.frame with a set of naive terms mapped to all matching ontology ids and their formal terms

Description

Produce a data.frame with a set of naive terms mapped to all matching ontology ids and their formal terms

Usage

liberalMap(terms, onto, useAgrep = FALSE, ...)

Arguments

`terms`	character() vector, can use grep-compatible regular expressions
`onto`	an instance of ontologyIndex::ontology_index
`useAgrep`	logical(1) if TRUE, agrep will be used
`...`	passed to agrep if used

Value

a data.frame

Examples

cands = c("astrocyte$", "oligodendrocyte", "oligodendrocyte precursor",
   "neoplastic", "^neuron$", "^vascular", "badterm")
#co = ontoProc::getCellOnto()
co = getOnto("cellOnto", year_added="2023")
liberalMap(cands, co)

vjcitn/ontoProc documentation built on March 23, 2024, 7:23 a.m.