get_term_frequencies: Get frequency of each term in a set of phenotypes

In oganm/ontologyIndexOgfork: Functions for Reading Ontologies into R

Description

Get frequency of each term in a set of phenotypes

Usage

get_term_frequencies(ontology, term_sets, patch_missing = FALSE)

Arguments

ontology	ontology_index object.
term_sets	List of character vectors of ontological term IDs.
patch_missing	Logical indicating whether to include whole ontology even if they're not present in the term_sets as if they had occurred once

Value

Numeric vector of information contents, named by corresponding terms. Takes into account ancestors, in the sense that all ancestor terms implied by the phenotypes are considered 'on'

See Also

get_term_info_content

Examples

data(hpo)
get_term_frequencies(hpo, list("HP:0001873"))

oganm/ontologyIndexOgfork documentation built on Oct. 11, 2019, 2:53 a.m.