omopgenerics

The omopgenerics package provides core data structures and generic functions that standardize how OMOP data is represented and manipulated across the ecosystem.

Key Data Classes

• <cdm_reference>: Represents a connection to an OMOP CDM database.
• <cdm_table>: Individual tables within the CDM.
• <cohort_table>: Patient cohorts with required columns:
  • cohort_definition_id - Unique identifier for each cohort
  • subject_id - Unique patient identifier
  • cohort_start_date - Date when person enters cohort
  • cohort_end_date - Date when person exits cohort
• <summarised_result>: Standardized output format containing 13 columns for analysis results.

Core Generic Functions

Result Manipulation:

• settings() - Access cohort settings and metadata
• attrition() - Access cohort attrition information
• cohortCount() - Get cohort record and subject counts
• splitGroup(), splitStrata(), splitAdditional() - Split grouped columns
• pivotEstimates() - Pivot estimate columns to wide format
• tidy() - Convert to tidy format
• filterStrata() - Filter by strata conditions