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Changelog

Source: NEWS.md

admiralonco (development version)

Documentation

  • The “Ask AI” widget was added to the bottom right of each page. It enables users to ask questions about admiralonco and receive answers from an LLM. It is trained on the documentation of the admiral packages and provided by kapa.ai. (#326)

  • A link to the {admiral} ecosystem page was added to the home page sidebar and main text. (#318)

admiralonco 1.3.0

CRAN release: 2025-09-01

Documentation

  • New vignette “Creating ADRS with Prostate Cancer Working Group 3 (PCWG3) Criteria”. (#304)

  • Display ANL01FL in the NADIR derivation in the ADTR vignette. (#305)

admiralonco 1.2.0

CRAN release: 2025-01-27

Documentation

  • New vignette “Creating ADRS with GCIG Criteria”. (#294)

  • The vignettes “Creating a Basic ADRS” and “Creating ADRS (Including Non-standard Endpoints)” were updated to describe how the case CR followed by PR is handled. (#276)

  • The documentation of the time-to-event source objects was fixed. (#293)

admiralonco 1.1.0

CRAN release: 2024-06-19

Documentation

  • New vignette “Creating ADRS with IMWG Criteria”. (#277)

Updates of Existing Functions

  • Replaced hard coding of exprs(USUBJID, STUDYID) and exprs(USUBJID) with get_admiral_option("subject_keys") so the argument is flexible and can be changed from the default by the user. (#281)

admiralonco 1.0.0

CRAN release: 2023-12-20

Updates of Existing Functions

  • The bor_ne event object was updated such that CR and PR are additionally considered as event. This ensures that the confirmed best overall response for a patient with a single CR or PR assessment is derived as "NE" instead of "MISSING". (#253)

Documentation

  • New vignette “Creating ADRS with iRECIST endpoints”. (#233)

  • All vignettes and templates were updated to be in line with the changes in admiral (see Breaking Changes for details)(#256).

Breaking Changes

  • The derive_*() functions were superseded in favor of derive_extreme_event(). Any superseded functions can continue to be used as demonstrated via the “Basic ADRS” vignette, as they will remain supported and won’t be deprecated in the near future. (#256)

  • The filter_pd() function was superseded in favor of filter_relative(). (#256)

  • The function call_aval_fun(), which was deprecated in admiralonco 0.4.0, has been removed. (#256)

Various

  • Website now has button/links to Slack channel and GitHub Issues. (#262)

admiralonco 0.5.0

CRAN release: 2023-09-14

New Features

Documentation

  • The ADRS vignette and template were split into two (#234):

    • A basic version which uses the admiralonco functions to cover standard RECIST 1.1.
    • A more flexible version which uses admiral::derive_extreme_event(). This should be used if non-standard ADRS parameters should be implemented or non-standard response values should be considered. This version can also be used as a starting point for implementing other response criteria than RECIST 1.1, e.g., iRECIST or International Myeloma Working Group (IMWG) criteria for the diagnosis of multiple myeloma.

  • The ADRS vignette and template were updated such that test data from pharmaversesdtm instead of {admiral.test} is used. (#226)

  • The “Create ADTR” vignette and the ADTR template were updated such that test data from pharmaversesdtm instead of {admiral.test} is used. (#247)

  • The confirmed response derivation was fixed in the basic ADRS vignette and template. When calling derive_param_confirmed_resp() the filter_source argument has to be set to PARAMCD == "OVR" & ANL01FL == "Y" instead of PARAMCD == "OVR" & AVALC %in% c("CR", "PR") & ANL01FL == "Y". Otherwise, responses like CR, NE, NE, CR are considered as confirmed response. (#245)

admiralonco 0.4.0

CRAN release: 2023-06-12

Documentation

  • New vignette “Creating and Using New Anti-Cancer Start Date” (#17)
  • “Create ADRS” and “Create ADTTE” vignette has been updated to include a link to “Creating and Using New Anti-Cancer Start Date” vignette

New Features

  • Added a “Report a bug” link to admiralonco website (#211)

  • Added a section regarding dependencies to the admiralonco website (#223)

  • Vignettes and templates were updated due to changes in admiral and admiralonco: (#216)

    • The AVAL variable is now populated via the set_values_to argument as the aval_fun argument was deprecated.
    • admiral::derive_param_extreme_event() calls were replaced by admiral::derive_extreme_records() calls due to deprecation of admiral::derive_param_extreme_event().
    • admiral::derive_param_exist_flag() calls were updated as the dataset_adsl argument was renamed to dataset_ref.

Breaking Changes

admiralonco 0.3.0

CRAN release: 2023-03-14

Breaking Changes

  • All function arguments which expected a list of quosures created by vars() are now expecting a list of expressions created by exprs(). For example, instead of by_vars = vars(STUDYID, USUBJID) by_vars = exprs(STUDYID, USUBJID) must be used now. (#197)

Documentation

  • New vignette “Create ADTR” (#16)

Various

admiralonco 0.2.0

CRAN release: 2022-12-07

Updates of Existing Functions

  • Functions that use subject_keys as a function argument now default to get_admiral_option("subject_keys")instead of vars(STUDYID, USUBJID) to allow users to change the variables that uniquely identify a subject once using set_admiral_options() to avoid several instances of find + replace in a script. (#175)

Breaking Changes

  • Function derive_param_lasta() has been deprecated. Please use admiral::derive_param_extreme_event() instead (#89).

Documentation

  • Showed alternative approach in ADRS vignette for filtering out assessments after progressive disease compared to source_pd argument (#168)
  • Extra terminology added for Independent Review Facility (IRF) as Blinded Independent Central Review (BICR) to make vignettes more accessible (#187)

Various

  • Templates now save datasets as .rds instead of .rda (#177)

admiralonco 0.1.0

CRAN release: 2022-09-13

  • Initial package release focused mainly on solid tumor / RECIST v1.1.