Index
A
|
C
|
D
|
E
|
F
|
G
|
H
|
I
|
J
|
L
|
M
|
N
|
O
|
P
|
Q
|
R
|
S
|
T
|
U
|
W
|
X
|
Y
A
add_node() (ontobio.ontol.Ontology method)
add_parent() (ontobio.ontol.Ontology method)
add_synonym() (ontobio.ontol.Ontology method)
add_text_definition() (ontobio.ontol.Ontology method)
add_to_subset() (ontobio.ontol.Ontology method)
add_xref() (ontobio.ontol.Ontology method)
all_obsoletes() (ontobio.ontol.Ontology method)
all_results (ontobio.io.qc.GoRulesResults attribute)
all_synonyms() (ontobio.ontol.Ontology method)
ancestors() (ontobio.ontol.Ontology method)
annotation (ontobio.io.qc.GoRulesResults attribute)
annotations() (ontobio.assocmodel.AssociationSet method)
as_dataframe() (ontobio.assocmodel.AssociationSet method)
as_dict() (ontobio.ontol.Synonym method)
assign_best_matches() (ontobio.lexmap.LexicalMapEngine method)
association_generator() (ontobio.io.gafparser.GafParser method)
associations() (ontobio.assocmodel.AssociationSet method)
AssociationSet (class in ontobio.assocmodel)
AssociationSetFactory (class in ontobio.assoc_factory)
autocomplete() (ontobio.golr.golr_query.GolrSearchQuery method)
C
child_parent_relations() (ontobio.ontol.Ontology method)
children() (ontobio.ontol.Ontology method)
cliques() (ontobio.lexmap.LexicalMapEngine method)
compare_to_xrefs() (ontobio.lexmap.LexicalMapEngine method)
ConjunctiveSet (class in ontobio.model.association)
contained_complex_members (ontobio.model.association.Subject attribute)
create() (ontobio.assoc_factory.AssociationSetFactory method)
(ontobio.ontol_factory.OntologyFactory method)
create_from_assocs() (ontobio.assoc_factory.AssociationSetFactory method)
create_from_file() (ontobio.assoc_factory.AssociationSetFactory method)
create_from_gaf() (ontobio.assoc_factory.AssociationSetFactory method)
create_from_phenopacket() (ontobio.assoc_factory.AssociationSetFactory method)
create_from_remote_file() (ontobio.assoc_factory.AssociationSetFactory method)
create_from_simple_json() (ontobio.assoc_factory.AssociationSetFactory method)
create_from_tuples() (ontobio.assoc_factory.AssociationSetFactory method)
create_slim_mapping() (ontobio.ontol.Ontology method)
Curie (class in ontobio.model.association)
D
Date (class in ontobio.model.association)
day (ontobio.model.association.Date attribute)
db_xrefs (ontobio.model.association.Subject attribute)
descendants() (ontobio.ontol.Ontology method)
display() (ontobio.model.association.ConjunctiveSet method)
(ontobio.model.association.ExtensionUnit method)
E
encoded_by (ontobio.model.association.Subject attribute)
enrichment_test() (ontobio.assocmodel.AssociationSet method)
equiv_graph() (ontobio.ontol.Ontology method)
Error (class in ontobio.model.association)
Evidence (class in ontobio.model.association)
exec() (ontobio.golr.golr_query.GolrAssociationQuery method)
ExtensionUnit (class in ontobio.model.association)
extract_subset() (ontobio.ontol.Ontology method)
F
FailMode (class in ontobio.io.qc)
filter_redundant() (ontobio.ontol.Ontology method)
from_curie_str() (ontobio.model.association.ExtensionUnit class method)
from_str() (ontobio.model.association.ExtensionUnit class method)
fullname (ontobio.model.association.Subject attribute)
fullname_field() (ontobio.model.association.Subject method)
G
GafParser (class in ontobio.io.gafparser)
get_filtered_graph() (ontobio.ontol.Ontology method)
get_graph() (ontobio.ontol.Ontology method)
get_level() (ontobio.ontol.Ontology method)
get_property_chain_axioms() (ontobio.ontol.Ontology method)
get_roots() (ontobio.ontol.Ontology method)
get_xref_graph() (ontobio.lexmap.LexicalMapEngine method)
GoAssociation (class in ontobio.model.association)
GolrAssociationQuery (class in ontobio.golr.golr_query)
GolrSearchQuery (class in ontobio.golr.golr_query)
GoRules (class in ontobio.io.qc)
GoRulesResults (class in ontobio.io.qc)
gp_type_label_to_curie() (in module ontobio.model.association)
grouped_mappings() (ontobio.lexmap.LexicalMapEngine method)
H
has_node() (ontobio.ontol.Ontology method)
Header (class in ontobio.model.association)
I
index() (ontobio.assocmodel.AssociationSet method)
index_ontology() (ontobio.lexmap.LexicalMapEngine method)
index_synonym() (ontobio.lexmap.LexicalMapEngine method)
infer_category() (ontobio.golr.golr_query.GolrAssociationQuery method)
inferred_types() (ontobio.assocmodel.AssociationSet method)
inline_xref_graph() (ontobio.ontol.Ontology method)
intersectionlist_to_matrix() (ontobio.assocmodel.AssociationSet static method)
is_obsolete() (ontobio.ontol.Ontology method)
J
jaccard_similarity() (ontobio.assocmodel.AssociationSet method)
L
label (ontobio.model.association.Subject attribute)
label() (ontobio.assocmodel.AssociationSet method)
(ontobio.ontol.Ontology method)
LexicalMapEngine (class in ontobio.lexmap)
list_to_str() (ontobio.model.association.ConjunctiveSet class method)
logical_definitions() (ontobio.ontol.Ontology method)
LogicalDefinition (class in ontobio.ontol)
M
make_canonical_identifier() (ontobio.golr.golr_query.GolrAssociationQuery method)
make_gostyle_identifier() (ontobio.golr.golr_query.GolrAssociationQuery method)
map_gp_type_label_to_curie() (in module ontobio.model.association)
map_id() (ontobio.golr.golr_query.GolrAssociationQuery method)
map_to_subset() (ontobio.io.gafparser.GafParser method)
merge() (ontobio.ontol.Ontology method)
month (ontobio.model.association.Date attribute)
N
node() (ontobio.ontol.Ontology method)
node_type() (ontobio.ontol.Ontology method)
nodes() (ontobio.ontol.Ontology method)
O
objects_for_subject() (ontobio.assocmodel.AssociationSet method)
ontobio.io.qc (module)
ontobio.model.association (module)
Ontology (class in ontobio.ontol)
OntologyFactory (class in ontobio.ontol_factory)
P
parent_index() (ontobio.ontol.Ontology method)
parents (ontobio.model.association.Subject attribute)
parents() (ontobio.ontol.Ontology method)
parse() (ontobio.io.gafparser.GafParser method)
parse_line() (ontobio.io.gafparser.GafParser method)
prefix() (ontobio.ontol.Ontology method)
prefix_fragment() (ontobio.ontol.Ontology method)
prefixes() (ontobio.ontol.Ontology method)
properties (ontobio.model.association.Subject attribute)
Q
query() (ontobio.assocmodel.AssociationSet method)
query_associations() (ontobio.assocmodel.AssociationSet method)
query_intersections() (ontobio.assocmodel.AssociationSet method)
R
relations_used() (ontobio.ontol.Ontology method)
repair_result() (in module ontobio.io.qc)
RepairState (class in ontobio.io.qc)
replaced_by() (ontobio.ontol.Ontology method)
resolve_names() (ontobio.ontol.Ontology method)
result() (in module ontobio.io.qc)
ResultType (in module ontobio.io.qc)
S
score_xrefs_by_semsim() (ontobio.lexmap.LexicalMapEngine method)
search() (ontobio.golr.golr_query.GolrSearchQuery method)
(ontobio.ontol.Ontology method)
similarity_matrix() (ontobio.assocmodel.AssociationSet method)
skim() (ontobio.io.gafparser.GafParser method)
solr_params() (ontobio.golr.golr_query.GolrAssociationQuery method)
sorted_nodes() (ontobio.ontol.Ontology method)
str_to_conjunctions() (ontobio.model.association.ConjunctiveSet class method)
subgraph() (ontobio.ontol.Ontology method)
Subject (class in ontobio.model.association)
subontology() (ontobio.assocmodel.AssociationSet method)
(ontobio.ontol.Ontology method)
subsets() (ontobio.ontol.Ontology method)
Synonym (class in ontobio.ontol)
synonyms (ontobio.model.association.Subject attribute)
synonyms() (ontobio.ontol.Ontology method)
T
taxon (ontobio.model.association.Subject attribute)
Term (class in ontobio.model.association)
termset_ancestors() (ontobio.assocmodel.AssociationSet method)
TestResult (class in ontobio.io.qc)
text_definition() (ontobio.ontol.Ontology method)
time (ontobio.model.association.Date attribute)
to_gaf_2_1_tsv() (ontobio.model.association.GoAssociation method)
to_gaf_2_2_tsv() (ontobio.model.association.GoAssociation method)
to_gpad_1_2_tsv() (ontobio.model.association.GoAssociation method)
to_gpad_2_0_tsv() (ontobio.model.association.GoAssociation method)
to_hash_assoc() (ontobio.model.association.GoAssociation method)
translate_doc() (ontobio.golr.golr_query.GolrAssociationQuery method)
translate_docs() (ontobio.golr.golr_query.GolrAssociationQuery method)
translate_docs_compact() (ontobio.golr.golr_query.GolrAssociationQuery method)
translate_obj() (ontobio.golr.golr_query.GolrAssociationQuery method)
translate_objs() (ontobio.golr.golr_query.GolrAssociationQuery method)
traverse_nodes() (ontobio.ontol.Ontology method)
TwoTupleStr() (in module ontobio.model.association)
type (ontobio.model.association.Subject attribute)
U
upgrade_empty_qualifier() (ontobio.io.gafparser.GafParser method)
W
weighted_axioms() (ontobio.lexmap.LexicalMapEngine method)
X
xrefs() (ontobio.ontol.Ontology method)
Y
year (ontobio.model.association.Date attribute)
ontobio
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