Index _ | A | B | C | D | E | F | G | H | I | K | L | M | N | O | P | R | S | T | U | V | W | Z _ __annotations__ (zensols.mednlp.uts.AuthenticationError attribute) (zensols.mednlp.uts.NoResultsError attribute) (zensols.mednlp.uts.UTSError attribute) __init__() (zensols.mednlp.app.Application method) (zensols.mednlp.cli.ApplicationFactory method) (zensols.mednlp.ctakes.CTakesParserStash method) (zensols.mednlp.cui2vec.Cui2VecEmbedModel method) (zensols.mednlp.entlink.Entity method) (zensols.mednlp.entlink.EntityLinkerResource method) (zensols.mednlp.entlink.EntitySimilarity method) (zensols.mednlp.entlink.LinkFeatureTokenDecorator method) (zensols.mednlp.lib.MedicalLibrary method) (zensols.mednlp.parser.MedCatFeatureDocumentParser method) (zensols.mednlp.resource.MedCatResource method) (zensols.mednlp.tok.MedicalFeatureToken method) (zensols.mednlp.uts.Authentication method) (zensols.mednlp.uts.AuthenticationError method) (zensols.mednlp.uts.UTSClient method) __module__ (zensols.mednlp.domain.MedNLPError attribute) (zensols.mednlp.uts.AuthenticationError attribute) (zensols.mednlp.uts.NoResultsError attribute) (zensols.mednlp.uts.UTSError attribute) A api_key (zensols.mednlp.uts.Authentication attribute) (zensols.mednlp.uts.UTSClient attribute) Application (class in zensols.mednlp.app) ApplicationFactory (class in zensols.mednlp.cli) atom() (zensols.mednlp.app.Application method) auth_endpoint (zensols.mednlp.uts.Authentication attribute) AUTH_URI (zensols.mednlp.uts.Authentication attribute) Authentication (class in zensols.mednlp.uts) AuthenticationError auto_install_models (zensols.mednlp.resource.MedCatResource attribute) B byname (zensols.mednlp.app.GroupInfo attribute) C cache_global (zensols.mednlp.entlink.EntityLinkerResource attribute) (zensols.mednlp.resource.MedCatResource attribute) cat (zensols.mednlp.resource.MedCatResource property) cat_config (zensols.mednlp.resource.MedCatResource attribute) cdb_resource (zensols.mednlp.resource.MedCatResource attribute) clear() (zensols.mednlp.ctakes.CTakesParserStash method) (zensols.mednlp.resource.MedCatResource method) config_factory (zensols.mednlp.app.Application attribute) (zensols.mednlp.lib.MedicalLibrary attribute) context_similarity (zensols.mednlp.tok.MedicalFeatureToken property) csv (zensols.mednlp.app.GroupInfo attribute) ctakes() (zensols.mednlp.app.Application method) CTakesParserStash (class in zensols.mednlp.ctakes) cui (zensols.mednlp.entlink.Entity property) (zensols.mednlp.tok.MedicalFeatureToken property) cui2vec_embedding (zensols.mednlp.lib.MedicalLibrary property) Cui2VecEmbedModel (class in zensols.mednlp.cui2vec) cui_ (zensols.mednlp.tok.MedicalFeatureToken property) D decorate() (zensols.mednlp.entlink.LinkFeatureTokenDecorator method) define() (zensols.mednlp.app.Application method) definition (zensols.mednlp.entlink.Entity property) definition_ (zensols.mednlp.tok.MedicalFeatureToken property) detected_name_ (zensols.mednlp.tok.MedicalFeatureToken property) dimension (zensols.mednlp.cui2vec.Cui2VecEmbedModel attribute) doc_parser (zensols.mednlp.app.Application attribute) E ent (zensols.mednlp.tok.MedicalFeatureToken property) ent_ (zensols.mednlp.tok.MedicalFeatureToken property) Entity (class in zensols.mednlp.entlink) entity_linker_resource (zensols.mednlp.lib.MedicalLibrary attribute) EntityLinkerResource (class in zensols.mednlp.entlink) EntitySimilarity (class in zensols.mednlp.entlink) entry_point_bin (zensols.mednlp.ctakes.CTakesParserStash attribute) entry_point_cmd (zensols.mednlp.ctakes.CTakesParserStash attribute) exists() (zensols.mednlp.ctakes.CTakesParserStash method) F FEATURE_IDS (zensols.mednlp.tok.MedicalFeatureToken attribute) FEATURE_IDS_BY_TYPE (zensols.mednlp.tok.MedicalFeatureToken attribute) features() (zensols.mednlp.app.Application method) filter_groups (zensols.mednlp.resource.MedCatResource attribute) filter_tuis (zensols.mednlp.resource.MedCatResource attribute) G get_atom() (zensols.mednlp.lib.MedicalLibrary method) get_atoms() (zensols.mednlp.uts.UTSClient method) get_doc_parser() (zensols.mednlp.cli.ApplicationFactory class method) get_entities() (zensols.mednlp.lib.MedicalLibrary method) get_linked_entity() (zensols.mednlp.entlink.EntityLinkerResource method) (zensols.mednlp.lib.MedicalLibrary method) get_new_ctakes_parser_stash() (zensols.mednlp.lib.MedicalLibrary method) get_related_cuis() (zensols.mednlp.uts.UTSClient method) get_relations() (zensols.mednlp.lib.MedicalLibrary method) (zensols.mednlp.uts.UTSClient method) getst() (zensols.mednlp.uts.Authentication method) gettgt() (zensols.mednlp.uts.Authentication method) group() (zensols.mednlp.app.Application method) GroupInfo (class in zensols.mednlp.app) groups (zensols.mednlp.resource.MedCatResource property) H home (zensols.mednlp.ctakes.CTakesParserStash attribute) I installer (zensols.mednlp.resource.MedCatResource attribute) is_concept (zensols.mednlp.tok.MedicalFeatureToken property) K keys() (zensols.mednlp.ctakes.CTakesParserStash method) L lib (zensols.mednlp.entlink.LinkFeatureTokenDecorator attribute) library (zensols.mednlp.app.Application attribute) linker (zensols.mednlp.entlink.EntityLinkerResource property) LinkFeatureTokenDecorator (class in zensols.mednlp.entlink) load() (zensols.mednlp.ctakes.CTakesParserStash method) M main() (in module zensols.mednlp.cli) mc_status_resource (zensols.mednlp.resource.MedCatResource attribute) medcat_resource (zensols.mednlp.lib.MedicalLibrary attribute) (zensols.mednlp.parser.MedCatFeatureDocumentParser attribute) MedCatFeatureDocumentParser (class in zensols.mednlp.parser) MedCatResource (class in zensols.mednlp.resource) MedicalFeatureToken (class in zensols.mednlp.tok) MedicalLibrary (class in zensols.mednlp.lib) MedNLPError MISSING_VALUE (zensols.mednlp.uts.UTSClient attribute) module zensols.mednlp zensols.mednlp.app zensols.mednlp.cli zensols.mednlp.ctakes zensols.mednlp.cui2vec zensols.mednlp.domain zensols.mednlp.entlink zensols.mednlp.lib zensols.mednlp.parser zensols.mednlp.resource zensols.mednlp.tok zensols.mednlp.uts N name (zensols.mednlp.entlink.Entity property) NO_RESULTS_ERR (zensols.mednlp.uts.UTSClient attribute) NoResultsError O output_dir (zensols.mednlp.ctakes.CTakesParserStash attribute) P params (zensols.mednlp.entlink.EntityLinkerResource attribute) pref_name_ (zensols.mednlp.tok.MedicalFeatureToken property) prime() (zensols.mednlp.ctakes.CTakesParserStash method) R REL_ID_REGEX (zensols.mednlp.uts.UTSClient attribute) request_stash (zensols.mednlp.uts.UTSClient attribute) requirements_dir (zensols.mednlp.resource.MedCatResource attribute) S sci_spacy_entity (zensols.mednlp.entlink.Entity attribute) search() (zensols.mednlp.app.Application method) search_term() (zensols.mednlp.uts.UTSClient method) SERVICE (zensols.mednlp.uts.Authentication attribute) set_documents() (zensols.mednlp.ctakes.CTakesParserStash method) show() (zensols.mednlp.app.Application method) similarity() (zensols.mednlp.app.Application method) similarity_by_term() (zensols.mednlp.lib.MedicalLibrary method) similiarty (zensols.mednlp.entlink.EntitySimilarity attribute) source_dir (zensols.mednlp.ctakes.CTakesParserStash attribute) source_stash (zensols.mednlp.ctakes.CTakesParserStash property) spacy_enable_components (zensols.mednlp.resource.MedCatResource attribute) sub_names (zensols.mednlp.tok.MedicalFeatureToken property) surpress_warnings() (in module zensols.mednlp) T token_class (zensols.mednlp.parser.MedCatFeatureDocumentParser attribute) TOKEN_FEATURE_IDS (zensols.mednlp.parser.MedCatFeatureDocumentParser attribute) token_feature_ids (zensols.mednlp.parser.MedCatFeatureDocumentParser attribute) tui_descs_ (zensols.mednlp.tok.MedicalFeatureToken property) tuis (zensols.mednlp.resource.MedCatResource property) (zensols.mednlp.tok.MedicalFeatureToken property) tuis_ (zensols.mednlp.tok.MedicalFeatureToken property) U umls_groups (zensols.mednlp.resource.MedCatResource attribute) umls_tuis (zensols.mednlp.resource.MedCatResource attribute) URI (zensols.mednlp.uts.UTSClient attribute) uts_client (zensols.mednlp.lib.MedicalLibrary attribute) UTSClient (class in zensols.mednlp.uts) UTSError V version (zensols.mednlp.uts.UTSClient attribute) vocab_resource (zensols.mednlp.resource.MedCatResource attribute) vocab_size (zensols.mednlp.cui2vec.Cui2VecEmbedModel attribute) W WRITABLE_FEATURE_IDS (zensols.mednlp.tok.MedicalFeatureToken attribute) Z zensols.mednlp module zensols.mednlp.app module zensols.mednlp.cli module zensols.mednlp.ctakes module zensols.mednlp.cui2vec module zensols.mednlp.domain module zensols.mednlp.entlink module zensols.mednlp.lib module zensols.mednlp.parser module zensols.mednlp.resource module zensols.mednlp.tok module zensols.mednlp.uts module