SelfControlledCohort 2.0.0

This is a major release and breaks backwards compatibility with version 1.x.x series code.

Changes:

• Introduced a results data model definition csv file in line with other OHDSI HADES analytics packages
• Removal of use of remotes for Eunomia
• Creation of results data model sql for analysis in database
• Export of large result sets from database with export managers
• Calibration of effect estimates now computed with EmpiricalCalibration package
• Storing risk window statistics is no longer an optional parameter
• Removed support for CDM versions < 5.0 (and no longer includes check or parameter)
• This release implements revised diagnostics aligned with SelfControlledCaseSeries package standards.

Breaking Changes:

• Diagnostic names and thresholds have changed to match SCCS standards
• Old diagnostics (counts, window_balance, cohort_stability, pre_exposure) have been removed
• getDefaultDiagnosticThresholds() now returns different threshold names

New study Diagnostic functions

• MDRR - Minimum Detectable Relative Risk (power analysis)
• PRE_EXPOSURE_PROPORTION - Tests for outcomes before exposure start
• PRE_EXPOSURE_P_VALUE - Statistical test for pre-exposure gain
• EASE expected absolute systematic error, observed residual bias
• EVENT_DEPENDENT_OBSERVATION - what percentage of events occur just before the observation period ends?

Changes:

• Revised diagnostic framework to align with SCCS package
• Added power analysis (MDRR) diagnostic
• Added pre-exposure gain detection
• Removed design-related diagnostics (window balance, cohort stability)
• Updated diagnostic thresholds to match SCCS standards
• Improved diagnostic result formatting with values in failure messages

SelfControlledCohort 1.6.0

Changes:

• Removed support for older versions of DatabaseConnector (< 5.0.0)
• Deprecated usage of oracleTempSchema in favour of tempEmulationSchema
• Allow calls to run with a DatabaseConnector connection object
• No longer supports undocumented use of connectionDetails$conn for storing connections when calling runSelfControlledCohort
• Added function computeSccRiskWindows to allow computation of exposure risk windows without having to run full SCC analysis
• Storage of results (before rate ratios are computed) now in a results table.
• Storage of time at risk results no longer merged with estimates
• Added tests on sqlite for faster unit testing while working on development
• Added testing on redshift
• Use of DatabaseConnector::renderTranslateQueryApplyBatched allowing optional callbacks for working with large data sets (too large for memory)
• Added computation of conventional p-values to results

SelfControlledCohort 1.5.1

Changes:

• Added support for github actions and removed travis configuration
• Added computeTarDistribution flag to runSelfControlledCohort, which computes the distribution of exposure time windows for subjects experiencing the outcome and average absolute time between exposure and outcome.
• Added vignette for usage with some examples

Bug Fixes: - Fixed issue with DatabaseConnector v 4.0.0 connectionDetails object on osx and linux caused by usage of connectionDetails$conn for storage of a connection