API for omopgenerics
Methods and Classes for the OMOP Common Data Model
| Global functions | |
|---|---|
| $.cdm_reference | Man page |
| $<-.cdm_reference | Man page |
| .validateAchillesTable | Source code |
| .validateOmopTable | Source code |
| [[.cdm_reference | Man page |
| [[<-.cdm_reference | Man page |
| `$.cdm_reference` | Source code |
| `$<-.cdm_reference` | Source code |
| `[.codelist` | Source code |
| `[[.cdm_reference` | Source code |
| `[[<-.cdm_reference` | Source code |
| achillesColumns | Man page Source code |
| achillesTables | Man page Source code |
| addClass | Source code |
| addLabels | Source code |
| addMesSup | Source code |
| addPkgDetails | Source code |
| addSettings | Man page Source code |
| addSignal | Source code |
| additionalColumns | Man page Source code |
| anti_join.cdm_table | Source code |
| appendNoNa | Source code |
| arrange.cdm_table | Source code |
| as_tibble.codelist | Source code |
| assertCharacter | Man page Source code |
| assertChoice | Man page Source code |
| assertClass | Man page Source code |
| assertClassification | Source code |
| assertCohortId | Source code |
| assertDate | Man page Source code |
| assertList | Man page Source code |
| assertLogical | Man page Source code |
| assertNumeric | Man page Source code |
| assertTable | Man page Source code |
| assertTableName | Source code |
| assertTrue | Man page Source code |
| assertValidation | Source code |
| assertVersion | Source code |
| assertWindowName | Source code |
| attrition | Man page Source code |
| attrition.cohort_table | Man page Source code |
| bind | Man page Source code |
| bind.NULL | Source code |
| bind.codelist | Source code |
| bind.cohort_table | Man page Source code |
| bind.list | Source code |
| bind.summarised_result | Man page Source code |
| c.codelist | Source code |
| castAchillesColumns | Source code |
| castCohortColumns | Source code |
| castColumns | Source code |
| castOmopColumns | Source code |
| castTableColumns | Source code |
| cdi | Source code |
| cdmDisconnect | Man page Source code |
| cdmDisconnect.cdm_reference | Source code |
| cdmDisconnect.local_cdm | Source code |
| cdmFromTables | Man page Source code |
| cdmName | Man page Source code |
| cdmName.cdm_reference | Source code |
| cdmName.cdm_table | Source code |
| cdmName.default | Source code |
| cdmReference | Man page Source code |
| cdmSelect | Man page Source code |
| cdmSource | Man page Source code |
| cdmSource.cdm_reference | Source code |
| cdmSource.cdm_table | Source code |
| cdmSource.default | Source code |
| cdmSourceType | Man page Source code |
| cdmTableFromSource | Man page Source code |
| cdmTableFromSource.local_cdm | Source code |
| cdmVersion | Man page Source code |
| cdmVersion.cdm_reference | Source code |
| cdmVersion.cdm_table | Source code |
| cdmVersion.default | Source code |
| checkChoices | Source code |
| checkClass | Source code |
| checkCodelistType | Source code |
| checkCohortAttributes | Source code |
| checkCohortRequirements | Man page Source code |
| checkColumnContent | Source code |
| checkColumns | Source code |
| checkColumns2 | Source code |
| checkColumnsCdm | Source code |
| checkColumnsFormat | Source code |
| checkDistinct | Source code |
| checkDuplicated | Source code |
| checkFunction | Source code |
| checkGroupCount | Source code |
| checkInherits | Source code |
| checkIntegerish | Source code |
| checkLength | Source code |
| checkListClass | Source code |
| checkMax | Source code |
| checkMin | Source code |
| checkMinCharacter | Source code |
| checkNA | Source code |
| checkNa | Source code |
| checkNaCohort | Source code |
| checkNamed | Source code |
| checkNull | Source code |
| checkNumberColumns | Source code |
| checkNumberRows | Source code |
| checkNumeric | Source code |
| checkObservationPeriod | Source code |
| checkOverlap | Source code |
| checkOverlapObservation | Source code |
| checkPerson | Source code |
| checkPivotEstimatesBy | Source code |
| checkPlausibleObservationDates | Source code |
| checkSettingsColumns | Source code |
| checkStartBeforeEndObservation | Source code |
| checkStartEnd | Source code |
| checkTrue | Source code |
| checkUnique | Source code |
| cl | Source code |
| cohortCodelist | Man page Source code |
| cohortColumns | Man page Source code |
| cohortCount | Man page Source code |
| cohortTables | Man page Source code |
| collapse.cdm_table | Source code |
| collapseStr | Source code |
| collect.cdm_reference | Man page Source code |
| collect.cdm_table | Source code |
| collect.cohort_table | Man page Source code |
| combine | Source code |
| combineStrata | Man page Source code |
| compute.cdm_table | Man page Source code |
| compute.local_cdm | Source code |
| consistentNaming | Source code |
| constructCdmReference | Source code |
| constructCdmSource | Source code |
| constructCodelist | Source code |
| constructCodelistWithDetails | Source code |
| constructConceptSetExpression | Source code |
| constructGeneratedCohortSet | Source code |
| constructSummarisedResult | Source code |
| correctAgeGroup | Source code |
| count.cdm_table | Source code |
| createCheckObject | Source code |
| createLogFile | Man page Source code |
| createLogger | Source code |
| createSettings | Source code |
| cross_join.cdm_table | Source code |
| defaultCohortAttrition | Source code |
| defaultCohortCodelist | Source code |
| defaultCohortSet | Source code |
| detectColsToCast | Source code |
| dropSourceTable | Man page Source code |
| dropSourceTable.cdm_reference | Source code |
| dropSourceTable.local_cdm | Source code |
| dropTable | Man page Source code |
| emptyAchillesTable | Man page Source code |
| emptyCdmReference | Man page Source code |
| emptyCodelist | Man page Source code |
| emptyCodelistWithDetails | Man page Source code |
| emptyCohortTable | Man page Source code |
| emptyOmopTable | Man page Source code |
| emptyOmopTableInternal | Source code |
| emptySummarisedResult | Man page Source code |
| emptyTable | Source code |
| equal | Source code |
| errorMessage | Source code |
| estimateTypeChoices | Man page Source code |
| exportCodelist | Man page Source code |
| exportConceptSetExpression | Man page Source code |
| exportSummarisedResult | Man page Source code |
| extractColumns | Source code |
| filter | Man page |
| filter.cdm_table | Source code |
| filterAdditional | Man page Source code |
| filterGroup | Man page Source code |
| filterNameLevel | Source code |
| filterSettings | Man page Source code |
| filterStrata | Man page Source code |
| findFiles | Source code |
| findNewName | Source code |
| full_join.cdm_table | Source code |
| funToCast | Source code |
| getCohortId | Man page Source code |
| getCohortName | Man page Source code |
| getColumns | Source code |
| getEmptyField | Source code |
| getGrouping | Source code |
| getId | Source code |
| getLabels | Source code |
| getPersonIdentifier | Man page Source code |
| getType | Source code |
| getTypes | Source code |
| getVersion | Source code |
| getVocabularyVersion | Source code |
| getWindowNames | Source code |
| giveType | Source code |
| groupColumns | Man page Source code |
| group_by.cdm_table | Source code |
| identical_type_insensitive | Source code |
| importCodelist | Man page Source code |
| importConceptSetExpression | Man page Source code |
| importSummarisedResult | Man page Source code |
| inner_join.cdm_table | Source code |
| insertCdmTo | Man page Source code |
| insertCdmTo.cdm_reference | Source code |
| insertCdmTo.local_cdm | Source code |
| insertFromSource | Man page Source code |
| insertFromSource.local_cdm | Source code |
| insertTable | Man page Source code |
| insertTable.cdm_reference | Source code |
| insertTable.local_cdm | Source code |
| intersect.cdm_table | Source code |
| isCase | Source code |
| isIntegerish | Source code |
| isResultSuppressed | Man page Source code |
| isSentenceCase | Source code |
| isSnakeCase | Source code |
| isTableEmpty | Man page Source code |
| isTidySelect | Source code |
| keepAttributes | Source code |
| keepClass | Source code |
| left_join.cdm_table | Source code |
| listSourceTables | Man page Source code |
| listSourceTables.cdm_reference | Source code |
| listSourceTables.local_cdm | Source code |
| logMessage | Man page Source code |
| missingCohortTableNameError | Source code |
| missingColumns | Source code |
| mutate.cdm_table | Source code |
| nameAgeGroup | Source code |
| nameLevelColumns | Source code |
| nest_join.cdm_table | Source code |
| newAchillesTable | Man page Source code |
| newCdmReference | Man page Source code |
| newCdmSource | Man page Source code |
| newCdmTable | Man page Source code |
| newCodelist | Man page Source code |
| newCodelistWithDetails | Man page Source code |
| newCohortTable | Man page Source code |
| newConceptSetExpression | Man page Source code |
| newLocalSource | Man page Source code |
| newNameLevel | Source code |
| newOmopTable | Man page Source code |
| newSummarisedResult | Man page Source code |
| noReference | Source code |
| numberRecords | Man page Source code |
| numberSubjects | Man page Source code |
| omopColumns | Man page Source code |
| omopTableFields | Man page Source code |
| omopTables | Man page Source code |
| omopgenerics | Man page |
| omopgenerics-package | Man page |
| pivotEstimates | Man page Source code |
| pivotSettings | Source code |
| pivot_longer.cdm_table | Source code |
| pivot_wider.cdm_table | Source code |
| plural | Source code |
| populateCohortAttrition | Source code |
| populateCohortCodelist | Source code |
| populateCohortSet | Source code |
| print.cdm_reference | Man page Source code |
| print.cdm_source | Source code |
| print.codelist | Man page Source code |
| print.codelist_with_details | Man page Source code |
| print.conceptSetExpression | Man page Source code |
| readConceptSetExpression | Source code |
| readSourceTable | Man page Source code |
| readSourceTable.cdm_reference | Source code |
| recordCohortAttrition | Man page Source code |
| reexports | Man page |
| removeClass | Source code |
| removePackageName | Source code |
| report | Source code |
| reportOverlap | Source code |
| restoreAttributes | Source code |
| restoreClass | Source code |
| resultColumns | Man page Source code |
| resultPackageVersion | Man page Source code |
| right_join.cdm_table | Source code |
| rowwise.cdm_table | Source code |
| selectTables | Source code |
| semi_join.cdm_table | Source code |
| settings | Man page Source code |
| settings.cohort_table | Man page Source code |
| settings.summarised_result | Man page Source code |
| settingsColumns | Man page Source code |
| sourceType | Man page Source code |
| sourceType.cdm_reference | Source code |
| sourceType.cdm_source | Source code |
| sourceType.cdm_table | Source code |
| sourceType.default | Source code |
| splitAdditional | Man page Source code |
| splitAll | Man page Source code |
| splitGroup | Man page Source code |
| splitNameLevelInternal | Source code |
| splitStrata | Man page Source code |
| str.cdm_reference | Source code |
| strataColumns | Man page Source code |
| summarise.cdm_table | Source code |
| summariseLogFile | Man page Source code |
| summary.cdm_reference | Man page Source code |
| summary.cohort_table | Man page Source code |
| summary.summarised_result | Man page Source code |
| suppress | Man page Source code |
| suppress.summarised_result | Man page Source code |
| suppressColumn | Source code |
| suppressCounts | Source code |
| suppressGroup | Source code |
| suppressLinkage | Source code |
| suppressVariable | Source code |
| tableChoice | Source code |
| tableName | Man page Source code |
| tableSource | Man page Source code |
| tally.cdm_table | Source code |
| thereIsOverlap | Source code |
| tidy | Man page |
| tidy.summarised_result | Man page Source code |
| tidyColumns | Man page Source code |
| tmpPrefix | Man page Source code |
| toSnakeCase | Man page Source code |
| transformToSummarisedResult | Man page Source code |
| ungroup.cdm_table | Source code |
| union.cdm_table | Source code |
| unionCohorts | Source code |
| union_all.cdm_table | Source code |
| uniqueCols | Source code |
| uniqueId | Man page Source code |
| uniqueTableName | Man page Source code |
| uniteAdditional | Man page Source code |
| uniteGroup | Man page Source code |
| uniteNameLevelInternal | Source code |
| uniteStrata | Man page Source code |
| updateAttrition | Source code |
| updateCohortNames | Source code |
| validateAchillesTable | Man page Source code |
| validateAgeGroupArgument | Man page Source code |
| validateCdmArgument | Man page Source code |
| validateCdmReference | Source code |
| validateCdmSource | Source code |
| validateCdmTable | Man page Source code |
| validateCodelist | Source code |
| validateCodelistWithDetails | Source code |
| validateCohortArgument | Man page Source code |
| validateCohortIdArgument | Man page Source code |
| validateColumn | Man page Source code |
| validateConceptSetArgument | Man page Source code |
| validateConceptSetExpression | Source code |
| validateGeneratedCohortSet | Source code |
| validateNameArgument | Man page Source code |
| validateNameLevel | Man page Source code |
| validateNameStyle | Man page Source code |
| validateNewColumn | Man page Source code |
| validateOmopTable | Man page Source code |
| validateResultArgument | Man page Source code |
| validateResultSettings | Source code |
| validateStrataArgument | Man page Source code |
| validateSummarisedResult | Source code |
| validateSummarisedResultTable | Source code |
| validateTidyNames | Source code |
| validateWindowArgument | Man page Source code |
| validateX | Source code |
| variableTypes | Source code |
| verb | Source code |
| warnColsToCast | Source code |
| writeCodelist | Source code |
| writeConceptSetExpression | Source code |
| writeMessage | Source code |
