Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-10-30 1.4
2022-01-10 1.3
Title: Smooth Survival Models, Including Generalized Survival Models
Description: R implementation of generalized survival models (GSMs), smooth accelerated failure time (AFT) models and Markov multi-state models. For the GSMs, g(S(t|x))=eta(t,x) for a link function g, survival S at time t with covariates x and a linear predictor eta(t,x). The main assumption is that the time effect(s) are smooth <doi:10.1177/0962280216664760>. For fully parametric models with natural splines, this re-implements Stata's 'stpm2' function, which are flexible parametric survival models developed by Royston and colleagues. We have extended the parametric models to include any smooth parametric smoothers for time. We have also extended the model to include any smooth penalized smoothers from the 'mgcv' package, using penalized likelihood. These models include left truncation, right censoring, interval censoring, gamma frailties and normal random effects <doi:10.1002/sim.7451>, and copulas. For the smooth AFTs, S(t|x) = S_0(t*eta(t,x)), where the baseline survival function S_0 [...truncated...]
Author: Mark Clements [aut, cre],
Xing-Rong Liu [aut],
Benjamin Christoffersen [aut],
Paul Lambert [ctb],
Lasse Hjort Jakobsen [ctb],
Alessandro Gasparini [ctb],
Gordon Smyth [cph],
Patrick Alken [cph],
Simon Wood [cph],
Rhys Ulerich [cph]
Maintainer: Mark Clements <mark.clements@ki.se>
Diff between rstpm2 versions 1.7.0 dated 2025-08-27 and 1.7.1 dated 2025-11-13
DESCRIPTION | 10 +++--- MD5 | 18 +++++------ R/multistate.R | 20 ++++++------ R/pm2-3.R | 15 +++++---- inst/doc/Introduction.pdf |binary inst/doc/SimpleGuide.pdf |binary inst/doc/multistate.pdf |binary inst/doc/predictnl.pdf |binary inst/working_code.R | 71 +++++++++++++++++++++++++++++++++++++++++++++ tests/testthat/test_base.R | 15 +++------ 10 files changed, 111 insertions(+), 38 deletions(-)
Title: Interactive Tutorials for R
Description: Create interactive tutorials using R Markdown. Use a
combination of narrative, figures, videos, exercises, and quizzes to
create self-paced tutorials for learning about R and R packages.
Author: Garrick Aden-Buie [aut, cre] ,
Barret Schloerke [aut] ,
JJ Allaire [aut, ccp],
Alexander Rossell Hayes [aut] ,
Nischal Shrestha [ctb] ,
Angela Li [ctb] ,
Posit, PBC [cph, fnd],
Ajax.org B.V. [ctb, cph] ,
Zeno Rocha [ctb, cph] ,
Nick Payne [ctb, cph] [...truncated...]
Maintainer: Garrick Aden-Buie <garrick@posit.co>
Diff between learnr versions 0.11.5 dated 2023-09-28 and 0.11.6 dated 2025-11-13
learnr-0.11.5/learnr/tests/testthat/tutorials/hint-copy/hint-copy.html |only learnr-0.11.5/learnr/tests/testthat/tutorials/hint-div/hint-div.html |only learnr-0.11.5/learnr/tests/testthat/tutorials/hint-next/hint-next.html |only learnr-0.11.6/learnr/DESCRIPTION | 28 learnr-0.11.6/learnr/MD5 | 169 +-- learnr-0.11.6/learnr/NAMESPACE | 7 learnr-0.11.6/learnr/NEWS.md | 10 learnr-0.11.6/learnr/R/ace.R | 47 learnr-0.11.6/learnr/R/auto-complete.R | 57 - learnr-0.11.6/learnr/R/available_tutorials.R | 68 - learnr-0.11.6/learnr/R/debug_exercise_checker.R | 39 learnr-0.11.6/learnr/R/evaluators.R | 327 ++++-- learnr-0.11.6/learnr/R/events.R | 18 learnr-0.11.6/learnr/R/events_default.R | 59 - learnr-0.11.6/learnr/R/events_record.R | 18 learnr-0.11.6/learnr/R/exercise.R | 510 ++++++---- learnr-0.11.6/learnr/R/feedback.R | 40 learnr-0.11.6/learnr/R/html-dependencies.R | 4 learnr-0.11.6/learnr/R/html_selector.R | 33 learnr-0.11.6/learnr/R/http-handlers.R | 245 ++-- learnr-0.11.6/learnr/R/i18n.R | 30 learnr-0.11.6/learnr/R/identifiers.R | 40 learnr-0.11.6/learnr/R/initialize.R | 27 learnr-0.11.6/learnr/R/knitr-hooks.R | 263 +++-- learnr-0.11.6/learnr/R/learnr_messages.R | 7 learnr-0.11.6/learnr/R/mock_exercise.R | 45 learnr-0.11.6/learnr/R/mutate_tags.R | 39 learnr-0.11.6/learnr/R/options.R | 28 learnr-0.11.6/learnr/R/praise.R | 28 learnr-0.11.6/learnr/R/question_answers.R | 26 learnr-0.11.6/learnr/R/question_checkbox.R | 11 learnr-0.11.6/learnr/R/question_methods.R | 8 learnr-0.11.6/learnr/R/question_numeric.R | 33 learnr-0.11.6/learnr/R/question_radio.R | 15 learnr-0.11.6/learnr/R/question_text.R | 30 learnr-0.11.6/learnr/R/quiz.R | 173 ++- learnr-0.11.6/learnr/R/quiz_print.R | 85 + learnr-0.11.6/learnr/R/run.R | 203 ++- learnr-0.11.6/learnr/R/storage.R | 298 +++-- learnr-0.11.6/learnr/R/tutorial-format.R | 88 + learnr-0.11.6/learnr/R/tutorial-state.R | 55 - learnr-0.11.6/learnr/R/tutorial_package_dependencies.R | 24 learnr-0.11.6/learnr/R/utils.R | 22 learnr-0.11.6/learnr/R/zzz.R | 2 learnr-0.11.6/learnr/build/vignette.rds |binary learnr-0.11.6/learnr/inst/doc/multilang.R | 49 learnr-0.11.6/learnr/inst/doc/multilang.Rmd | 7 learnr-0.11.6/learnr/inst/doc/multilang.html | 20 learnr-0.11.6/learnr/inst/doc/shinyapps-publishing.html | 8 learnr-0.11.6/learnr/inst/examples/apparmor/apparmor_evaluator.R | 16 learnr-0.11.6/learnr/inst/internals/i18n_random_phrases.rds |binary learnr-0.11.6/learnr/inst/internals/i18n_translations.rds |binary learnr-0.11.6/learnr/inst/staticexports/knitr_engine_caption.R | 1 learnr-0.11.6/learnr/inst/staticexports/strings.R | 1 learnr-0.11.6/learnr/man/mock_exercise.Rd | 2 learnr-0.11.6/learnr/man/rmd-fragments/badges.Rmd | 6 learnr-0.11.6/learnr/man/tutorial.Rd | 4 learnr-0.11.6/learnr/tests/testthat.R | 1 learnr-0.11.6/learnr/tests/testthat/helpers-shinytest2.R | 89 + learnr-0.11.6/learnr/tests/testthat/helpers.R | 14 learnr-0.11.6/learnr/tests/testthat/test-auto-complete.R | 47 learnr-0.11.6/learnr/tests/testthat/test-available-tutorials.R | 5 learnr-0.11.6/learnr/tests/testthat/test-cookies.R | 11 learnr-0.11.6/learnr/tests/testthat/test-dependency.R | 1 learnr-0.11.6/learnr/tests/testthat/test-duplicate_env.R | 2 learnr-0.11.6/learnr/tests/testthat/test-evaluators.R | 237 ++-- learnr-0.11.6/learnr/tests/testthat/test-events.R | 19 learnr-0.11.6/learnr/tests/testthat/test-exercise.R | 275 +++-- learnr-0.11.6/learnr/tests/testthat/test-feedback.R | 14 learnr-0.11.6/learnr/tests/testthat/test-i18n.R | 22 learnr-0.11.6/learnr/tests/testthat/test-install-dependencies.R | 22 learnr-0.11.6/learnr/tests/testthat/test-knitr-hooks.R | 72 + learnr-0.11.6/learnr/tests/testthat/test-mock_exercise.R | 20 learnr-0.11.6/learnr/tests/testthat/test-mutate_tags.R | 12 learnr-0.11.6/learnr/tests/testthat/test-options-reveal_solution.R | 29 learnr-0.11.6/learnr/tests/testthat/test-options.R | 2 learnr-0.11.6/learnr/tests/testthat/test-praise.R | 20 learnr-0.11.6/learnr/tests/testthat/test-question_answers.R | 88 + learnr-0.11.6/learnr/tests/testthat/test-question_checkbox.R | 3 learnr-0.11.6/learnr/tests/testthat/test-question_radio.R | 8 learnr-0.11.6/learnr/tests/testthat/test-question_text.R | 17 learnr-0.11.6/learnr/tests/testthat/test-quiz.R | 26 learnr-0.11.6/learnr/tests/testthat/test-run.R | 26 learnr-0.11.6/learnr/tests/testthat/test-shinytest2-hints.R | 406 +++---- learnr-0.11.6/learnr/tests/testthat/test-storage.R | 18 learnr-0.11.6/learnr/tests/testthat/test-tutorial-state.R | 38 learnr-0.11.6/learnr/vignettes/multilang.Rmd | 7 87 files changed, 3139 insertions(+), 1785 deletions(-)
Title: Analyse Audio Recordings and Automatically Extract Animal
Vocalizations
Description: Contains all the necessary tools to process audio recordings of
various formats (e.g., WAV, WAC, MP3, ZC), filter noisy files,
display audio signals, detect and extract automatically acoustic
features for further analysis such as classification.
Author: Jean Marchal [aut, cre],
Francois Fabianek [aut],
Christopher Scott [aut],
Chris Corben [ctb, cph] ,
David Riggs [ctb, cph] ,
Peter Wilson [ctb, cph] ,
Wildlife Acoustics, inc. [ctb, cph] ,
Jordan Biserkov [ctb],
WavX, inc. [cph]
Maintainer: Jean Marchal <jean.marchal@wavx.ca>
Diff between bioacoustics versions 0.2.8 dated 2022-02-08 and 0.2.10 dated 2025-11-13
DESCRIPTION | 10 MD5 | 52 NEWS.md | 20 R/bioacoustics.R | 48 R/metadata.R | 4 R/print.R | 26 R/read_audio.R | 6 R/read_zc.R | 1050 ++++++------- R/spectro.R | 414 ++--- R/tools.R | 288 +-- README.md | 46 build/vignette.rds |binary configure | 3501 +++++++++++++++++++++++---------------------- configure.ac | 254 +-- inst/doc/introduction.R | 12 inst/doc/introduction.Rmd | 16 inst/doc/introduction.html | 537 ++---- inst/doc/tutorial.R | 654 ++++---- inst/doc/tutorial.Rmd | 19 inst/doc/tutorial.html | 543 ++---- man/read_audio.Rd | 6 src/Makevars.in | 1 src/Makevars.ucrt | 3 src/Makevars.win | 2 tools/winlibs.R | 68 vignettes/introduction.Rmd | 16 vignettes/tutorial.Rmd | 19 27 files changed, 3756 insertions(+), 3859 deletions(-)
Title: Integrated Interface of Bayesian Single Index Models using
'nimble'
Description: Provides tools for fitting Bayesian single index models with flexible choices of priors for both the index and the link function. The package implements model estimation and posterior inference using efficient MCMC algorithms built on the 'nimble' framework, allowing users to specify, extend, and simulate models in a unified and reproducible manner. The following methods are implemented in the package: Antoniadis et al. (2004) <https://www.jstor.org/stable/24307224>, Wang (2009) <doi:10.1016/j.csda.2008.12.010>, Choi et al. (2011) <doi:10.1080/10485251003768019>, Dhara et al. (2019) <doi:10.1214/19-BA1170>, McGee et al. (2023) <doi:10.1111/biom.13569>.
Author: Seowoo Jung [aut, cre],
Eun-kyung Lee [aut]
Maintainer: Seowoo Jung <jsw1347@ewha.ac.kr>
Diff between BayesSIM versions 0.1.4 dated 2025-10-30 and 0.1.5 dated 2025-11-13
DESCRIPTION | 8 ++++---- MD5 | 2 +- 2 files changed, 5 insertions(+), 5 deletions(-)