# TreatmentPatterns 2.6.6
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* Internal update to shinyApp.
* Update to createSankeyDiagram() to properly handle combinations consisting of >2.
* Added article to package website about best practices.

# TreatmentPatterns 2.6.5
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* Removed stringi, rjson, and googleVis as dependencies.
* Fixed unit tests that had dummy data outside of observation data.
* Fix for complex edge-case paths with re-occuring treatments.
* Added unit tests for edge-cases.
* Added warning when `minEraDuration` > `minPostCombinationWindow` or `combinationWindow`.
* Fixed issue when `filterTreatments` was set to `"changes"`, age and sex columns were dropped from output.
* datatypes of cohort_table are now checked.

# TreatmentPatterns 2.6.4
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* Fixed issue with minPostCombinationWindow broken by the fix for re-occurring treatments.
* Added unit tests for minPostCombinationWindow.


# TreatmentPatterns 2.6.3
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* Fixed issue where there were duplicate rows in the exported treatmentPathways.csv file.
* Added more comprehensive description for parameter `ageWindow` for `export()`.
* Added additional tests validating the counts per pathway being exported by `export()`.
* Fixed issue with re-occurring treatments in pathways.
* Added dedicated logical tests for various pathways.
* Added dedicated tests for target-event cohort overlaps.
* Fixed spelling error in outputs, and interaction with them in shiny module.

# TreatmentPatterns 2.6.2
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* Fixed spelling mistake 'summaryStatsTherapyDuraion' to 'summaryStatsTherapyDuration'.
* Added error when only one level of data is available in the data when computing a sankey diagram.
* Removed `createSankeyDiagram`
* Renamed `createSankeyDiagram2` to `createSankeyDiagram`
* Removed `createSunburstPlot`
* Renamed `createSunburstPlot2` to `createSunburstPlot`
* Fixed issue where target cohorts had to be at least 1 day long to be included when using DatabaseConnector.
* Fixed CRAN error when running examples.
* Renamed `cellCount` to `minCellCount` in export documentation.
* Fixed issue where counts of pathways were not computed correctly.
* Fixed spelling error `summaryStatsTherapyDuraion` to `summaryStatsTherapyDuration`.
* Fixed issue in `export` where merging two tables could fail, if one was empty.


# TreatmentPatterns 2.6.1
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* Bumped R version to 4.2.1
* Added additional unit-tests for `createSunburstPlot2()` and `createSankeyDiagram2()`
* Updated to use DATEDIFF to compute difference between dates when fetching data from the database.
* Added functionality to choose how groups below the minimum cell count are censored.
* Made some parameters ambiguous for `createSankeyDiagram2` and `createSunburstPlot2()` for more control over the figures.
* Removed `addNoPath` parameter.
* Renamed `minFreq` parameter to `minCellCount`.
* Added Shiny app with exported module classes.
* Added censoring options of treatment pathways falling below the `minCellCount`.
* Simplified part of `computePathways()`.
* Significantly improved performance of `export()`.


# TreatmentPatterns 2.6.0
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* Added `createSunburstPlot2()` as a replacement of `createSunburstPlot()`. `createSunburstPlot2()` will fully replace `createSunburstPlot()` in a future version.
* Moved `DatabaseConnector` and `SqlRender` to Suggests
* Removed obsolete dependencies: `data.table`, `fs`, and `glue`.
* Internal performance updates.
* Internal code style updates.
* Moved basic filtering when fetching cohort table.
* Updated ReadMe with functionalities
* Internal updates to LRFS paths, to allow paths of identical duration.

# TreatmentPatterns 2.5.2
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* Resolved issue with finalize method of CDMInterface class.
* Resolved issue with schema references.
* Unified case style.
* Refactored code for `createSunburstPlot()`.

# TreatmentPatterns 2.5.1
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* Added checks for user input: `cohorts` and `cohortTableName`.
* Added option to directly return HTML when using `createSankeyDiagram`.
* Added option to directly return HTML when using `createSunburstPlot`.
* Added option for ageWindow to be a vector.
* Added input checking for `export()`.
* Added additional check for frequency for `createSunburstPlot`.
* Resolved issue in `createSunburstPlot`, when converting from data.table to nested JSON.

# TreatmentPatterns 2.5.0
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* Updated interface
* Some internal OO usage
* CDM & DatabaseConnector
* Uses Andromeda to be able to handle bigger than RAM data sets.
  * Shift from data.table to dplyr.
* Updated vignettes using new interface
* General code clean up
* Intermediate files are cached and accessable through Andromeda for review.
* Outputted CSV-files re-imagined to be more flexible for use post TreatmentPatterns.
* Sunburst and Sankey plots are now directly usable with treatmentPathways.csv.