Reading Ontologies into R
Case ontology_index object to data.frame
Check an ontology index object
Exclude terms descending from any in a given set of root terms
Get set of terms containing all ancestors of terms in a given set
Get set of terms containing all descendants of terms in a given set
Read ontology from OBO file into R
Get names of relations used in OBO file
Get logical descendancy matrix for set of terms
Get frequency of each term in a set of phenotypes
Get information content of each term in a set of phenotypes
Get property of individual ontological term
Intersect a set of terms with the descendants of a given set of roots
Remove redundant/implied terms from a set of terms
Create ontology_index object from vectors and lists of term properti...
Functions for Reading Ontologies into R
Print ontology_index object
Select terms by propagating relations from a set of terms
Exclude terms descending from a given set of roots but include those r...
Functions for reading ontologies into R as lists and manipulating sets of ontological terms - 'ontologyX: A suite of R packages for working with ontological data', Greene et al 2017 <doi:10.1093/bioinformatics/btw763>.