Man pages for patelm9/chariot
chariot Package
| browse_athena | Open concept by concept_id in Browser |
| cache_query | Cache the results of a query |
| check_concept_id | Check Concept Id |
| check_vocab_id | Check if a Concept Class Object Belongs to a Vocabulary |
| concept-class | Concept Class (S4) |
| concept_id_exists | QA to make sure the concept_id exists in OMOP |
| connectAthena | Connect Local Athena |
| connectAthena_ff | Connect Local Athena Function Factory |
| convenience_functions | Convenience Functions |
| dcAthena | Disconnect Local Athena |
| ds_join_on_drug | Get the Staged Drug Strengths by Drug |
| ds_join_on_ingredient | Get the Staged Drug Strengths by Ingredient |
| ds_lookup_ucum | Lookup the Units for Drug Strength Processing |
| ds_process | Process the Drug Strength Table |
| ds_process_drug_table | Process the Records in Drug Strength |
| ds_process_map_table | Process the Unit Concept Ids in the Drug Strength Table |
| ds_stage | Stage Drug Strengths |
| ds_staged_table_exists | Does the Drug Strength Staged table exist? |
| ds_stage_unit_fraction | Stage the Fractional Representation of Units |
| ds_stage_value_fraction | Stage the Fractional Representation of Value |
| exact_phrase_search_ff | FUNCTION_TITLE |
| fetched_via | FUNCTION_TITLE |
| filter_at_all_strip | Filter Multiple Concept Strip Columns |
| filter_at_any_strip | Filter At Any Strip |
| filterClassConcepts | Filter Class Concepts |
| filterConcept | Primitive filtering function |
| filterConceptClass | Filter Concept Class |
| filterDomain | Filter Domain |
| filterHemOnc | Filter HemOnc |
| filterLOINC | Filter for LOINC |
| filterNAACCR | Filter NAACCR |
| filterNebraska | Filter Nebraska |
| filterRxNorm | Filter for RxNorm Concepts |
| filterSNOMED | Filter SNOMED |
| filterStandardConcepts | Filter Standard Concepts |
| filterStandardConceptType | Filter by Standard Concept Type |
| filter_strip | Filter Columns with Merged Concept Strips |
| filterValid | Filter for Valid Concepts |
| filterVocabulary | Filter Vocabulary |
| get_ancestor_relationships | Get Ancestry Relationships |
| get_cdm_data_dictionary | Get the CDM Data Dictionary |
| get_concept | Lookup a Concept Id |
| get_concept_id_fields | Get the Concept Id Field Names for Each Table |
| get_constraints | Get Constraints |
| get_hierarchical_relationships | List Hierarchical Relationships |
| get_name_cluster | Get a Name Cluster |
| get_strip | Get Concept Strip |
| get_test_concepts | Get Unfiltered Test Concepts |
| get_test_data | Get Test Data |
| get_test_drug_classes | Get Test Drug Classes |
| get_test_drug_concepts | Get Test Drug Concepts |
| get_VersionKey | Get Version Key |
| get_vocab_data_dictionary | Get the Vocabulary Data Dictionary |
| get_vocabulary_ids | Get Vocabulary Ids |
| ho_grep_regimens | Extract HemOnc Regimens by Component String Match |
| ho_lookup_antineoplastics | Query a HemOnc Regimen's 'Has antineoplastic' Relationship |
| ho_lookup_regimen | Look up a HemOnc Regimen |
| ho_reduce_to_components | Reduce All HemOnc Concepts to Component |
| is_cached | Is the query cached? |
| join | Join a R dataframe to Athena's concept table |
| join_for_ancestor_ids | Join For Ancestor Ids |
| join_for_ancestors | Join For Ancestors |
| join_for_concept_synonym_name | Join For Concept Synonyms |
| join_for_descendant_ids | Join For Descendant Ids |
| join_for_descendants | Join For Descendants |
| join_on_concept_code | Join On Concept Code |
| join_on_concept_id | Join On Concept Id |
| join_on_concept_name | Join On Concept Name |
| join_on_concept_synonym_name | Join On Concept Synonym Name |
| label_to_strip | Convert a Label to a Strip |
| like_phrase_search_ff | FUNCTION_TITLE |
| list_cdm_table_names | List the Common Data Model Tables |
| list_concept_id_fields | Get CDM Table Concept Id Fields |
| list_fields | List Table Fields |
| list_table_abbr | Get OMOP Table Abbreviations |
| list_vocab_table_names | List the Vocabulary Tables |
| load_cached_query | Load cached results of a query |
| locatePhrase | Locates the vocabulary table and search type where the phrase... |
| lookup_atc_class_ingredients | Lookup the RxNorm Ingredients of an ATC Class |
| lookup_orphan_concepts | Lookup Orphan Concepts for a Domain, Vocabulary, and/or... |
| lookup_relationships | Lookup Relationships of a Set of Concepts |
| lookup_relationships_bw_vocab | Query a Source Vocabulary's Relationships to Other... |
| lookup_top_ancestors | Lookup Topmost Ancestors for a Domain, Vocabulary, and/or... |
| lookup_ucum | Lookup UCUM Unit Concepts |
| lookup_ucum_time | List UCUM Concepts Related to Time |
| lookup_upper_limit_ancestors | Lookup the Ancestors at the Upper Limit of the Max Level of... |
| lookup_vocab_relationships | Lookup Vocabulary's Relationships |
| lowLevelCache | Low Level Cache |
| lowLevelLoadCache | Low Level Load Cache |
| make_where_clause | FUNCTION_TITLE |
| map_concept_id | Map All The Concepts in a Dataframe |
| merge_label | Make Label Column |
| merge_strip | Merge Concept Attributes into a Strip |
| ordered_phrase_search_ff | FUNCTION_TITLE |
| pipe | Pipe operator |
| prime_concepts | Make Modifications to Concepts for SQL querying |
| print_concept_hierarchy | Print a Concept's Hierarchy to the Console |
| print_concept_siblings | Print a Concept's Parents and Siblings to the Console |
| process_first_parentheses | Process a Concept Column for the First Set of Parentheses |
| process_last_parentheses | Process a Concept Column for the Last Set of Parentheses |
| process_longest_words | Identify the Longest Word in the Concept |
| process_map_input_functions | Process Incoming Concepts |
| process_parentheses | Process a Concept Column for Parenthetical Phrases |
| process_unique_words | Identify Words Unique to the Concept in the Concept Set |
| process_words | Process the Words Column from the Concept Column |
| queryAncestors | Query Ancestors |
| query_athena | Query the Athena Postgres Database |
| queryAthena | Query the Athena Postgres Database |
| queryCDM | Query the Common Data Model with Annotations |
| queryCode | FUNCTION_TITLE |
| queryConceptClassRelationships | FUNCTION_TITLE |
| queryConceptId | FUNCTION_TITLE |
| queryDescendants | FUNCTION_TITLE |
| query_relationships | Query a Relationship |
| queryRelationships | FUNCTION_TITLE |
| querySynonyms | FUNCTION_TITLE |
| queryVocabularyRelationships | FUNCTION_TITLE |
| rank_word_frequency | FUNCTION_TITLE |
| rank_word_length | FUNCTION_TITLE |
| read_cdm_wiki_table | Read GitHub Wiki |
| search_code | Search for a Code in the Concept Table |
| search_ends_with_phrase | Search Concepts that End With a Phrase |
| search_exact_phrase | Search Exact Matches to a Phrase |
| search_like_phrase | Search Concepts that Contain a Phrase |
| search_split_phrase | Search Concepts that Contain all Parts of a Phrase |
| search_starts_with_phrase | Search Concepts that Start With a Phrase |
| sendAthena | Send a SQL Statement |
| strip_to_label | Convert a Strip to a Label |
| tokenized_phrase_search_ff | FUNCTION_TITLE |
| unbox_label | Unbox Label |
| unbox_strip | Unbox Strip |
| unmerge_label | Unmerge a Label |
| unmerge_strip | Unmerge a Strip |
| vocab_lookup_intrarelation | Query a Source Vocabulary's Relationships |
