Adds functions and documentation for computing attrition for cohorts
and subsetted cohorts (#123, #79)
CohortGenerator 1.0.2
Bug Fixes
Fix bug where negate parameter of
createCohortSubsetOperator was not passed properly to the
SQL statement (#264)
Fix deprecation messages (#263)
Fix issue with unboxing nulls (#262)
CohortGenerator 1.0.1
Bug Fixes
Remove calls to lifecycle and add unit tests
CohortGenerator 1.0.0
New Features
SQL cohorts as first class citizens - SQL templates for non-standard
cohorts or large, bulk operations (#133, #247)
Remove file-based incremental operations. Creation of database
cohort_checksum tables that enables verification of generated cohorts
and incremental execution in distributed environments (#206, #131,
#254)
Abbreviated logging for cohorts already generated (#113)
Added maximumChortDuration to the LimitSubset operator
(#240)
Added “recipe” functions for creating indication and restriction
subsets (#209)
Deprecate subset operator function names and add
operator suffix (#233)
Removes default ‘print friendly’ long text of subgroup names (#135,
#231)
Add pretty print to subset definitions that includes SQL and logic
definitions (#218)
Bug Fixes
Limit subset operator produces broken SQL if R date of
length 0 is passed instead of NULL (#252)
Remove warning around finalize (#242)
CohortGenerator 0.12.2
Updates unit tests to use lowercase field names (#237)
Backwards compatible extension to CohortSubsetOperators and
cohortSubsetWindows to allow windowing to be logic of any length
Include observation table when creating negative control cohorts
(#198)
Improvements to cohort subset documentation (#199)
Add negate parameter to createSubsetCohortWindow
function (#217)
Bug Fixes - Remove RJSONIO from dependency list (#202) - Upgrade
GitHub Actions to use Ubuntu 22.04 (#204) - Add missing
database_id as primary key of
cg_cohort_censor_stats (#215) - saveIncremental prevents
saving empty files (#212) - Subset identifier expressions are not
deserialized (#225)
CohortGenerator 0.11.2
Ensure temp tables are dropped before creating them (#188)
CohortGenerator 0.11.1
CohortGenerator added to CRAN (#77)
CohortGenerator 0.11.0
New Features
Add support for minimum cell count (#176)
Bug Fixes
Multiple calls to export stats causing duplicates in cohort
inclusion file (#179)
Updates to subset documentation (#180, #181)
Negative control outcome generation bug (#177)
CohortGenerator 0.10.0
New Features
Add runCohortGeneration function (Issue #165)
Adopt ResultModelManager for handling results data models &
uploading. Extend results data model to include information on cohort
subsets(#154, #162)
Remove REMOTES entries for CirceR and Eunomia which are now in CRAN
(#145)
Unit tests now running on all OHDSI DB Platforms (#151)
Bug Fixes
Negation of cohort subset operator must join on
subject_id AND start_date (#167)
Allow integer as cohort ID (#146)
Use native messaging functions for output vs. ParallelLogger
(#97)
Prevent upload of inclusion rule information (#78)
Expose colTypes when working with .csv files (#59)
Remove bit64 from package (mostly) (#152)
Updated documentation for cohort subset negate feature (#111)
CohortGenerator 0.9.0
Random sample functionality (for development only) (Issue #129)
Incremental mode for negative control cohort generation (Issue
#137)
Fixes getCohortCounts() if cohortIds is not specified, but
cohortDefinitionSet is. (Issue #136)
Add cohort ID to generation output messages (Issue #132)
Add databaseId to output of getStatsTable() (Issue #116)
Prevent duplicate cohort IDs in cohortDefinitionSet (Issue
#130)
Fix cohort stats query for Oracle (Issue #143)
Ensure databaseId applied to all returned cohort counts (Issue
#144)
Preserve backwards compatibility if cohort sample table is not in
the list of cohort table names (Issue #147)
CohortGenerator 0.8.1
Include cohorts with 0 people in cohort counts (Issue #91).
Use numeric for cohort ID (Issue #98)
Allow big ints for target pairs (#103)
Pass tempEmulationSchema when creating negative control
cohorts (#104)
Target CDM v5.4 for unit tests (#119)
Fix for subset references (#115)
Allow for subset cohort name templating (#118)
Allow all entries with limit operator and do not require > 0 days
follow up (#112)
CohortGenerator 0.8.0
New feature: cohort subsetting (Issue #67).
Removes the evaluation of ROhdsiWebApi code in vignettes (Issue
#70)
Basic tests for different database platforms (#71)
CohortGenerator 0.7.0
Fixes data type issue for Google Big Query (Issue #51).
Removes the databaseId field from the cohort inclusion
table (Issue #52)
Adds the ability to generate negative control outcome cohorts for
use in population-level estimation. (Issue #9)
CohortGenerator 0.6.0
Add more flexibility when reading/writing CSV files including
appending (Issue #44), flags for disabling warnings (Issue #38) and
removing unhelpful warnings (Issue #43).
Added better error handling to saveCohortDefinitionSet
(Issue #25)
Add better handling of column name casing in CSV files that hold
cohort settings. (Issue #37)
Added functions to check if a data.frame conforms to a
cohortDefinitionSet (Issue #21)
CohortGenerator 0.5.0
Allow for specification of the database_id in export methods. (Issue
#18)
getCohortStats function allows for exporting cohort
statistics into data frames (Pull Request #24)
Add utility methods for reading/writing CSV files. (Issue #16)
CohortGenerator 0.4.0
Update dependency versions in DESCRIPTION to resolve issues when
using older versions of readr/stringi. (Issue #13)
Breaking change: change the defaults for saving/getting a
cohortDefinitionSet to/from the file system. (Issue #16)
getCohortCounts now supports an optional parameter
cohortDefinitionSet which will join the cohort counts with
the cohort definition set when desired (Issue #14)
CohortGenerator 0.3.0
Added getCohortDefintionSet function for retrieving a
cohort definition set from either a package or the file system
Re-factored saveCohortDefinitionSet to remove the
settingsFolder. The settingsFileName should
include the path to the file.
Bug fixes
CohortGenerator 0.2.0
Renamed createCohortTable to
createCohortTables to include all cohort statistics
tables
Renamed createEmptyCohortSet to
createEmptyCohortDefinitionSet to make this consistent with
ROhdsiWebApi and CohortDiagnostics
Added dropCohortStatsTables function for removing
cohort statistics tables
Added exportCohortStatsTables function for exporting
cohort statistics to CSV files
Added getCohortTableNames function to define the list
of cohort table names to create
Added insertInclusionRuleNames for inserting the
inclusion rule names into the cohort stats table
Added saveCohortDefinitionSet to save the cohort
definition set to the file system for use by study packages
Added a vignette and updated documentation
Remove CirceR dependency and related functions
CohortGenerator 0.1.1
Fixing documentation
CohortGenerator 0.1.0
Updating function calls to use “generate” instead of
“instantiate”
CohortGenerator 0.0.1
Initial version
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