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# TreatmentPatterns 2.6.6
- 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
- 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
- Fixed issue with minPostCombinationWindow broken by the fix for re-occurring treatments.
- Added unit tests for minPostCombinationWindow.
# TreatmentPatterns 2.6.3
- 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
- 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
- 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
- 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
- Resolved issue with finalize method of CDMInterface class.
- Resolved issue with schema references.
- Unified case style.
- Refactored code for
createSunburstPlot()
.
# TreatmentPatterns 2.5.1
- 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
- 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.
These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
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