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HADES development announcements

DataQualityDashboard 2.2.0 has been released. This release adds the option to specify a cohortTableName when executing data quality checks on a cohort. It also contains several bug fixes which are detailed in the linked NEWS.md file.

SqlRender 1.15.0 has been released. Most important change is a minor change to the DESCRIPTION file that was required by CRAN.

EvidenceSynthesis 0.5.0 has been released. This release adds the functionality to perform Bayesian bias correction in causal estimation and sequential analysis using negative control outcomes. A new vignette showcasing the new functionality has been added too.

DatabaseConnector 6.2.1 has been released. Most important change is a minor change to the DESCRIPTION file that was required by CRAN.

PheValuator 2.2.8 has been released. It allows for the use of a custom visit_occurrence table for systems with extremely large visit_occurrence tables and limited processing capability.

Capr 2.0.3 has been released. Patch changes in this version include:

  • addition of an opAttribute super Class (nice job @mvankessel!)
  • add version of purrr (v1.0.1) for list_flatten bug (thanks @Sulev_Reisberg)
  • update github workflow versions

Achilles 1.7.2 has been released. With this release Achilles is now available on CRAN and has been brought in line with HADES package standards.

DataQualityDashboard 2.3.0 has been released. This release contains 2 new features:

  • New sqlOnly option that generates SQL queries which will insert DQ check results into a database table, and which can union check SQLs for improved performance
    • Shout out and many thanks to @Thomas_White for contributing this feature and @MaximMoinat for helping with review, testing, and documentation!
  • Function to convert the keys in a DQD results JSON file between snakecase and camelcase, addressing compatibility issues caused by the camelcase migration in v2.1.0

Capr 2.0.4 has been released. Hot fix to allow procedure occurrence queries to work properly.

DeepPatientLevelPrediction 1.1.6 has been released.
This includes a new feature to store hyperparameter results for long running models so the run can be resumed if it stops for any reason.

DatabaseConnector 6.2.2 has been released. Most important changes are improved overall performance for RedShift specifically, and improved performance for all platforms when downloading dates and datetimes.

ParallelLogger 3.2.0 has been released. The one change is that it should now behave much better inside try...catch blocks.

Ulysses v0.0.1 has been released. This is a new R package aiming to help assist in the development and organization of an OHDSI study. Users can initiate a directory structure for an OHDSI study using the function newOhdsiStudy. The OHDSI study directory can then be injected with necessary documentation such as README and NEWS. Ulysses also introduces templates for vital documentation for an OHDSI study such as a protocol template, a how to run (explains how collaborators should execute the study) and contributor guidelines. For more information on additional functions and demo please visit the package website

SqlRender 1.15.1 has been released. Most important change is a fix for translating Circe cohort expression SQL for DuckDB.

DatabaseConnector 6.2.3 has been released. This fixes the ‘missing origin’ error the previous release introduced for older R versions.

MethodEvaluation 2.3.0 has been released. This new version supports using your own benchmark (set of negative and positive controls).

FeatureExtraction v3.3.0 has been released. This new version supports using cohorts as covariates and adding covariates based on care_site_id. There are also a few bug fixes and updates to Java dependencies.

Capr v2.0.5 has been released. Updates include:

  • change query functions to match known syntax (i.e. drug => drugExposure, condition => conditionOccurrence)
  • require a name for cs()
  • improve documentation (add vignette for query, count and group)

Ulysses v0.0.2 has been released. Updates include:

  • Adding functions to interface with keyring API and check credentials
  • Creation of a KeyringSetup.R file to set up database credentials for a study
  • Creation of R file template for building an email requesting an OHDSI study repo using blastula
  • Template R file for pulling cohort definitions from WebApi
  • Function to init git and publish repo in github under an organization
  • Fix bugs in template files

CohortDiagnostics version 3.2.3 . This is a hotfix to support executing diagnostics in an isolated manner. Previously, not running concept set diagnostics would crash the shiny app as no concept sets would be created.

Please check the release notes for for details of changes.