Reading Ontologies into R

Documentation for package ‘ontologyIndex’ version 2.12

ontologyIndex-package	Functions for Reading Ontologies into R
as.data.frame.ontology_index	Case 'ontology_index' object to 'data.frame'
check	Check an ontology index object
exclude_descendants	Exclude terms descending from any in a given set of root terms
get_ancestors	Get set of terms containing all ancestors of terms in a given set
get_descendants	Get set of terms containing all descendants of terms in a given set
get_OBO	Read ontology from OBO file into R
get_ontology	Read ontology from OBO file into R
get_relation_names	Get names of relations used in OBO file
get_term_descendancy_matrix	Get logical descendancy matrix for set of terms
get_term_frequencies	Get frequency of each term in a set of phenotypes
get_term_info_content	Get information content of each term in a set of phenotypes
get_term_property	Get property of individual ontological term
go	GO index
hpo	HPO index
intersection_with_descendants	Intersect a set of terms with the descendants of a given set of roots
minimal_set	Remove redundant/implied terms from a set of terms
mpo	MPO index
ontologyIndex	Functions for Reading Ontologies into R
ontology_index	Create 'ontology_index' object from vectors and lists of term properties
print.ontology_index	Print 'ontology_index' object
propagate_relations	Select terms by propagating relations from a set of terms
prune_descendants	Exclude terms descending from a given set of roots but include those roots which were originally implicitly present.