DataQualityDashboard 2.1.2 has been released. This release contains a bug fix for the cdmDataType check SQL.
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Andromeda 0.6.2 has been released (on github but not CRAN). This adds one function isAndromedaTable() that should work with both SQLite and Arrow andromeda tables.
Reminder, we are moving to a new backend for Andromeda based on Apache Arrow soon. If your package depends on Andromeda please test it using the Andromeda develop branch and report any issues in the Andromeda issue tracker. You may need to make some slight changes to your code such as using nrow instead of tally to get the number of rows in an Andromeda table.
DeepPatientLevelPrediction 1.1 has been released. This adds adds a number of bug fixes and some new features. The new features are:
- An automatic learning rate finder has been implemented, used by setting
learningRate="auto" - Training loop parameters are now handled by a new settings object and as a result more of the training loop parameters are customizable by the user
- Custom metrics can be created by the user to use for early stopping and learning rate schedule.
- Seeds have been added in various places, making the whole process more reproducible
Thanks to @lhjohn for his contributions to this release.
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Andromeda 0.6.3 has been release on Github and CRAN. This release add isAndromedaTable function that works with both the current andromeda tables (SQLite references) and the Andromeda v1.0 tables (Apache Arrow FileSystemDatasets). Reminder: If you depend on Andromeda please run R check with the development branch (v1.0) and report any issues on the issue tracker.
CohortGenerator v0.8.0 was released a few weeks ago (sorry for the delayed announcement). The release notes are here.
This release of CohortGenerator adds the ability to generate subsets of cohorts. So, for example, if you have a target cohort of new users of a drug, you can use CohortGenerator to define a subset definition to further subset that target based on a combination of demographic criteria, “limit” criteria (i.e. X days of prior observation) and even based on intersection with another cohort definition. Here is the Creating Cohort Subset Definitions vignette if you are interested in the details.
A big thanks to @jpegilbert who lead the development of this important new feature.
Capr v2.0.1 has been released. This is a patch release so no major changes. Updates include:
- Additional vignettes and updated documentation
-
compilegeneric function to coerce Capr class to json structure - more informative
csprint statement - other minor bug fixes
Please keep trying out Capr and posting issues! Feedback always welcome!
CohortDiagnostics version 3.2.0. There are no major api changes in this release so all existing scripts should maintain compatibility with this release.
The main changes are as follows:
- Improved support for Subset operators by fixing some issues around concept sets
- Added a database migration for existing results databases to support cohort definition sets with subsets
- Almost all shiny code has been moved to the OhdsiShinyModules package - this is a single package to install and keep up to date
- Some alterations to plots and tables in the DiagnosticsExplorer shiny app were changed as the ggiraph package was removed due to compatibility and installation issues on Linux environments. All plots now use ggplot2 and/or plotly
- Support for easier publishing to Posit Connect/Rconnect and shinyapps.io (testing of shinyapps.io was limited as it was a paid service)
Please check the release notes for for details of changes.
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ResultModelManager v0.4.0 has been released.
This release adds some vignettes on usage as well as a QueryNamespace class that adds a wrapper around SqlRender functionality that allows execution of queries with fixed parameters from result model specifications.
See this guide on basic usage. The intention is that this will be useful for writing shiny apps and Quatro reports.
In addition, the function createResultsDataModel has been removed as it was added in error when migrating code.
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EvidenceSynthesis 0.4.1 has been released. The only change is the addition of a video vignette, which was also featured in the ESMARConf 2023 conference.
CohortDiagnostics version 3.2.1 . Has been released.
This is a hotfix that resolves an issue related to the cohort subsetting functionality.
Please check the release notes for for details of changes.
DatabaseConnector 6.2.0 has been released. Most important change is a large set of fixes for DataBricks.
SelfControlledCaseSeries 4.2.0 has been released. Most important change is probably fixing a bug that caused regularization to not be applied to calendar-time splines.
PheValuator 2.2.6 has been released. It creates an export folder with a set of results from the analysis as well as diagnostics for the run. This csv files may be used in shiny applications.
BrokenAdaptiveRidge v1.0.0 has been released and is now part of HADES. This package enables approximate L0 (best subset) regression at scale using Cyclops.
Cyclops v3.3.1 has been released and is now on CRAN. Features the introduction of Jeffreys prior and several fixes for likelihood profiling.
CohortMethod 5.0.0 has been released. This a major update with many changes, including a major overhaul of the framework for running multiple analyses. There are no guarantees for backwards compatibility, so please read the changelog carefully. This version should provide greater flexibility and stability than before.
DeepPatientLevelPrediction 1.1.3 has been released. This was a minor fix for the CI. Our main dependancy, torch in R, wasn’t installing correctly since a new release of it was released on CRAN.