Methods and Classes for the OMOP Common Data Model

---

Documentation for package ‘omopgenerics’ version 0.0.3

• DESCRIPTION file.
• User guides, package vignettes and other documentation.

Help Pages

$.cdm_reference	Subset a cdm reference object.
$<-.cdm_reference	Assign an table to a cdm reference.
achillesColumns	Required columns for achilles result tables
achillesTables	Tables containing the results of achilles analyses
attrition	Get attrition from an object.
attrition.cohort_table	Get cohort attrition from a cohort_table object.
bind	Bind two or more objects of the same class.
bind.cohort_table	Bind cohort_table
cdmFromTables	Create a cdm object from local tables
cdmName	Get the name of a cdm_reference.
cdmReference	Get the 'cdm_reference' of a 'cdm_table'.
cdmSource	Get the source of a cdm_reference.
cdmVersion	Get the version of a cdm_reference.
cohortColumns	Required columns for a generated cohort set.
cohortCount	Get cohort counts from a cohort_table object.
cohortTables	Cohort tables that a cdm reference can contain in the OMOP Common Data Model.
collect.cdm_reference	Retrieves the cdm reference into a local cdm.
collect.cohort_table	To collect a 'cohort_table' object.
compute.cdm_table	Store results in a table.
dropTable	Drop a table from a cdm object.
emptyAchillesTable	Create an empty achilles table
emptyCdmReference	Create an empty cdm_reference
emptyCohortTable	Create an empty cohort_table object
emptyComparedResult	Empty 'compared_result' object.
emptyOmopTable	Create an empty omop table
emptySummarisedResult	Empty 'summarised_result' object.
estimateTypeChoices	Choices that can be present in 'estimate_type' column.
insertFromSource	Convert a table that is not a cdm_table but have the same original source to a cdm_table. This Table is not meant to be used to insert tables in the cdm, please use insertTable instead.
insertTable	Insert a table to a cdm object.
newAchillesTable	Create an achilles table from a cdm_table.
newCdmReference	'cdm_reference' objects constructor
newCdmSource	Create a cdm source object.
newCdmTable	Create an cdm table.
newCodelist	'codelist' object constructor
newCohortTable	'cohort_table' objects constructor.
newComparedResult	'compared_results' object constructor
newConceptSetExpression	'conceptSetExpression' object constructor
newOmopTable	Create an omop table from a cdm table.
newSummarisedResult	'summarised_results' object constructor
omopColumns	Required columns that the standard tables in the OMOP Common Data Model must have.
omopTables	Standard tables that a cdm reference can contain in the OMOP Common Data Model.
participants	It returns the participants that contributed to a particular analysis
print.cdm_reference	Print a CDM reference object
recordCohortAttrition	Update cohort attrition.
resultColumns	Required columns that the result tables must have.
settings	Get settings from an object.
settings.cohort_table	Get cohort settings from a cohort_table object.
sourceType	Get the source type of a cdm_source.
subsetResult	Subset a summarised_result or compared_result object to a certain result_type.
summary.cdm_reference	Summary a cdm reference
summary.cohort_table	Summary a generated cohort set
suppress	Function to suppress counts in result objects
tableName	Get the table name of a 'cdm_table'.
tableSource	Get the table source of a 'cdm_table'.
tmpPrefix	Create a temporary prefix for tables, that contains a unique prefix that starts with tmp.
uniqueTableName	Create a unique table name
[[.cdm_reference	Subset a cdm reference object.
[[<-.cdm_reference	Assign an table to a cdm reference.