Functions for Reading Ontologies into R

check | Perform simple consistency checks on 'ontology_index' object |

exclude_descendants | Exclude terms descending from any in a given set of root... |

get_ancestors | Get set of terms containing all ancestors of terms in a given... |

get_descendants | Get set of terms containing all descendants of terms in a... |

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... |

minimal_set | Remove redundant/implied terms from a set of terms |

mpo | MPO index |

ontology_index | Create 'ontology_index' object from vectors and lists of term... |

ontologyIndex-package | Functions for Reading Ontologies into R |

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... |

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