Title: Fitting Semi-Parametric Generalized log-Gamma Regression Models
Description: Set of tools to fit a linear multiple or semi-parametric regression
models with the possibility of non-informative random right or left censoring.
Under this setup, the localization parameter of the response variable distribution is modeled by using linear multiple regression
or semi-parametric functions, whose non-parametric components may be approximated
by natural cubic spline or P-splines. The supported distribution for the model error is a generalized log-gamma distribution which includes
the generalized extreme value and standard normal distributions as important special cases. Inference is based on likelihood, penalized likelihood and bootstrap methods.
Lastly, some numerical and graphical devices for diagnostic of the fitted models are offered.
Author: Carlos Alberto Cardozo Delgado [aut, cre, cph] ,
Gilberto Paula [aut],
Luis Vanegas [aut]
Maintainer: Carlos Alberto Cardozo Delgado <cardozorpackages@gmail.com>
Diff between sglg versions 0.2.4 dated 2025-12-09 and 0.2.5 dated 2025-12-18
DESCRIPTION | 6 MD5 | 60 ++++---- NAMESPACE | 3 R/aux_fs.R | 8 - R/bootglg.R | 8 - R/coef.sglg.R |only R/fitted.sglg.R |only R/glg.R | 84 +++++++----- R/influence.sglg.R | 6 R/kmpar.R | 19 +- R/logLik.sglg.R | 2 R/plot.npc.R | 22 ++- R/response_scheme.R | 6 R/rglg.R | 5 R/sglg.R | 14 -- R/shape.R | 27 +--- R/smooth_parameters.R | 2 R/summary.sglg.R | 2 R/survglg.R | 282 ++++++++++++++++++------------------------ R/vcov.sglg.R |only man/bootglg.Rd | 8 - man/coef.sglg.Rd |only man/fitted.sglg.Rd |only man/glg.Rd | 50 ++++--- man/plotnpc.Rd | 22 ++- man/plotsurv.sglg.Rd | 19 +- man/rglg.Rd | 2 man/sglg.Rd | 4 man/shape.Rd | 21 +-- man/smoothp.Rd | 2 man/survglg.Rd | 24 +-- man/vcov.sglg.Rd |only tests/testthat/test_glg.R | 2 tests/testthat/test_survglg.R | 2 34 files changed, 347 insertions(+), 365 deletions(-)
Title: 'Ping' 'URLs' to Time 'Requests'
Description: A suite of functions to ping 'URLs' and to time
'HTTP' 'requests'. Designed to work with 'httr'.
Author: Scott Chamberlain [aut, cre]
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between httping versions 0.2.0 dated 2018-01-02 and 0.3.0 dated 2025-12-18
DESCRIPTION | 17 +++--- LICENSE | 2 MD5 | 22 ++++---- NAMESPACE | 1 R/httping-package.R | 21 ++++--- R/ping.R | 17 +++--- R/time.R | 121 ++++++++++++++++++++++++++++++++++----------- README.md | 88 +++++++++++++++++--------------- man/httping-package.Rd | 17 ++++-- man/time.Rd | 3 - tests/testthat/test-ping.R | 42 +++++++++------ tests/testthat/test-time.R | 8 -- 12 files changed, 222 insertions(+), 137 deletions(-)
Title: Post-Estimation Functions for Generalized Linear Mixed Models
Description: Several functions for working with mixed effects regression models for limited dependent variables. The functions facilitate post-estimation of model predictions or margins, and comparisons between model predictions for assessing or probing moderation. Additional helper functions facilitate model comparisons and implements simulation-based inference for model predictions of alternative-specific outcome models. See also, Melamed and Doan (2024, ISBN: 978-1032509518).
Author: David Melamed [aut, cre]
Maintainer: David Melamed <dmmelamed@gmail.com>
Diff between catregs versions 1.2.4 dated 2025-11-06 and 1.3 dated 2025-12-18
DESCRIPTION | 6 ++-- MD5 | 4 +-- R/functions.R | 76 ++++++++++++++++++++++++++++++++++++++++++++++++---------- 3 files changed, 68 insertions(+), 18 deletions(-)
Title: Work with Data from High-Resolution Biologging Tags
Description: High-resolution movement-sensor tags typically include accelerometers
to measure body posture and sudden movements or changes in speed,
magnetometers to measure direction of travel, and pressure sensors
to measure dive depth in aquatic or marine animals. The sensors in these tags usually sample many times per second. Some tags include sensors for speed, turning rate (gyroscopes), and sound. This package provides software tools to facilitate calibration, processing, and analysis of such data. Tools are provided for: data import/export;
calibration (from raw data to calibrated data in scientific units);
visualization (for example, multi-panel time-series plots);
data processing (such as event detection, calculation of derived metrics like jerk and
dynamic acceleration, dive detection, and dive parameter calculation); and statistical analysis (for example, track reconstruction, a rotation test, and Mahalanobis distance analysis).
Author: Stacy DeRuiter [aut, cre, cph] ,
Mark Johnson [aut, cph],
David Sweeney [aut],
Ye Joo McNamara-Oh [aut],
Samuel Fynewever [aut],
Racheal Tejevbo [aut],
Tiago Marques [aut],
Yuqian Wang [aut],
Su Ogedegbe [aut]
Maintainer: Stacy DeRuiter <stacy.deruiter@calvin.edu>
Diff between tagtools versions 0.2.0 dated 2024-06-28 and 0.3.0 dated 2025-12-18
tagtools-0.2.0/tagtools/inst/shiny |only tagtools-0.3.0/tagtools/DESCRIPTION | 27 tagtools-0.3.0/tagtools/MD5 | 167 ++- tagtools-0.3.0/tagtools/NAMESPACE | 4 tagtools-0.3.0/tagtools/NEWS.md | 41 tagtools-0.3.0/tagtools/R/RcppExports.R |only tagtools-0.3.0/tagtools/R/add_nc.R | 15 tagtools-0.3.0/tagtools/R/body_axes.R | 243 ++--- tagtools-0.3.0/tagtools/R/decdc.R | 12 tagtools-0.3.0/tagtools/R/decz.R | 2 tagtools-0.3.0/tagtools/R/fir_nodelay.R | 10 tagtools-0.3.0/tagtools/R/fix_offset_3d.R | 6 tagtools-0.3.0/tagtools/R/fix_pressure.R | 6 tagtools-0.3.0/tagtools/R/hilbert_env.R | 2 tagtools-0.3.0/tagtools/R/interp2length.R | 9 tagtools-0.3.0/tagtools/R/m_dist.R | 138 +-- tagtools-0.3.0/tagtools/R/make_specgram.R | 15 tagtools-0.3.0/tagtools/R/mean_absorption.R | 8 tagtools-0.3.0/tagtools/R/norm2.R | 2 tagtools-0.3.0/tagtools/R/odba.R | 2 tagtools-0.3.0/tagtools/R/plot_prh_fig2.R | 4 tagtools-0.3.0/tagtools/R/plot_prh_fig2_m2.R | 4 tagtools-0.3.0/tagtools/R/prh_predictor1.R | 342 ++++---- tagtools-0.3.0/tagtools/R/prh_predictor2.R | 346 ++++---- tagtools-0.3.0/tagtools/R/read_cats.R | 427 +++++++--- tagtools-0.3.0/tagtools/R/read_cats_csv.R | 100 +- tagtools-0.3.0/tagtools/R/rough_cal_3d.R | 10 tagtools-0.3.0/tagtools/R/save_nc.R | 14 tagtools-0.3.0/tagtools/R/sens_struct.R | 35 tagtools-0.3.0/tagtools/R/spectrum_level.R | 60 - tagtools-0.3.0/tagtools/R/spherical_cal.R | 57 - tagtools-0.3.0/tagtools/R/tag2animal.R | 87 +- tagtools-0.3.0/tagtools/R/tagtools-package.R |only tagtools-0.3.0/tagtools/R/tortuosity.R | 8 tagtools-0.3.0/tagtools/R/undo_cal.R | 9 tagtools-0.3.0/tagtools/README.md | 9 tagtools-0.3.0/tagtools/man/add_nc.Rd | 4 tagtools-0.3.0/tagtools/man/conv_cpp.Rd |only tagtools-0.3.0/tagtools/man/decdc.Rd | 4 tagtools-0.3.0/tagtools/man/fir_nodelay.Rd | 4 tagtools-0.3.0/tagtools/man/m_dist.Rd | 38 tagtools-0.3.0/tagtools/man/make_specgram.Rd | 11 tagtools-0.3.0/tagtools/man/mean_absorption.Rd | 2 tagtools-0.3.0/tagtools/man/prh_predictor1.Rd | 11 tagtools-0.3.0/tagtools/man/prh_predictor2.Rd | 4 tagtools-0.3.0/tagtools/man/read_cats.Rd | 64 + tagtools-0.3.0/tagtools/man/read_cats_csv.Rd | 8 tagtools-0.3.0/tagtools/man/rough_cal_3d.Rd | 5 tagtools-0.3.0/tagtools/man/sens_struct.Rd | 7 tagtools-0.3.0/tagtools/man/spectrum_level.Rd | 6 tagtools-0.3.0/tagtools/man/spherical_cal.Rd | 10 tagtools-0.3.0/tagtools/man/tagtools-package.Rd |only tagtools-0.3.0/tagtools/man/tortuosity.Rd | 2 tagtools-0.3.0/tagtools/src |only tagtools-0.3.0/tagtools/tests/testthat/Rplots.pdf |binary tagtools-0.3.0/tagtools/tests/testthat/test-comp_filt.R | 22 tagtools-0.3.0/tagtools/tests/testthat/test-decdc.R | 25 tagtools-0.3.0/tagtools/tests/testthat/test-depth_rate.R | 19 tagtools-0.3.0/tagtools/tests/testthat/test-fir_nodelay.R | 24 tagtools-0.3.0/tagtools/tests/testthat/test-h_track.R | 4 tagtools-0.3.0/tagtools/tests/testthat/test-hilbert_transform.R | 4 tagtools-0.3.0/tagtools/tests/testthat/test-inclination.R | 4 tagtools-0.3.0/tagtools/tests/testthat/test-interp2length.R | 17 tagtools-0.3.0/tagtools/tests/testthat/test-interp_nan.R | 2 tagtools-0.3.0/tagtools/tests/testthat/test-inv_axis.R | 4 tagtools-0.3.0/tagtools/tests/testthat/test-julian_day.R | 2 tagtools-0.3.0/tagtools/tests/testthat/test-lalo2llf.R | 4 tagtools-0.3.0/tagtools/tests/testthat/test-m_dist.R | 4 tagtools-0.3.0/tagtools/tests/testthat/test-mean_absorption.R | 2 tagtools-0.3.0/tagtools/tests/testthat/test-median_filter.R | 4 tagtools-0.3.0/tagtools/tests/testthat/test-msa.R | 4 tagtools-0.3.0/tagtools/tests/testthat/test-njerk.R | 4 tagtools-0.3.0/tagtools/tests/testthat/test-norm2.R | 6 tagtools-0.3.0/tagtools/tests/testthat/test-ocdr.R | 28 tagtools-0.3.0/tagtools/tests/testthat/test-odba.R | 25 tagtools-0.3.0/tagtools/tests/testthat/test-ptrack.R | 23 tagtools-0.3.0/tagtools/tests/testthat/test-rotate_data.R | 4 tagtools-0.3.0/tagtools/tests/testthat/test-rotate_vecs.R | 2 tagtools-0.3.0/tagtools/tests/testthat/test-rotation_test.R | 4 tagtools-0.3.0/tagtools/tests/testthat/test-rotmat2euler.R | 4 tagtools-0.3.0/tagtools/tests/testthat/test-sound_speed.R | 4 tagtools-0.3.0/tagtools/tests/testthat/test-spectrum_level.R | 4 tagtools-0.3.0/tagtools/tests/testthat/test-speed_from_depth.R | 14 tagtools-0.3.0/tagtools/tests/testthat/test-spherical_cal.R | 4 tagtools-0.3.0/tagtools/tests/testthat/test-tortuosity.R | 4 tagtools-0.3.0/tagtools/tests/testthat/test-zero-crossing.R | 2 86 files changed, 1545 insertions(+), 1133 deletions(-)
Title: Khmaladze Martingale Transformation Goodness-of-Fit Test
Description: Consider a goodness-of-fit (GOF) problem of
testing whether a random sample comes from one
sample location-scale model where location and
scale parameters are unknown. It is well known
that Khmaladze martingale transformation method
proposed by Khmaladze (1981) <doi:10.1137/1126027>
provides asymptotic distribution free test for the GOF problem.
This package provides test statistic and critical
value of GOF test for normal, Cauchy, and logistic
distributions. This package used the main algorithm
proposed by Kim (2020) <doi:10.1007/s00180-020-00971-7>
and tests for other distributions will be available
at the later version.
Author: Jiwoong Kim [aut, cre]
Maintainer: Jiwoong Kim <jwboys26@gmail.com>
Diff between GofKmt versions 2.2.0 dated 2020-10-20 and 2.3.1 dated 2025-12-18
GofKmt-2.2.0/GofKmt/R/KmtFunc.R |only GofKmt-2.2.0/GofKmt/R/tbl_data.R |only GofKmt-2.2.0/GofKmt/data |only GofKmt-2.2.0/GofKmt/man/GetCV.Rd |only GofKmt-2.2.0/GofKmt/man/KhmaladzeTrans.Rd |only GofKmt-2.2.0/GofKmt/man/Tables.Rd |only GofKmt-2.2.0/GofKmt/src/Cauchy.h |only GofKmt-2.2.0/GofKmt/src/Kmt.h |only GofKmt-2.2.0/GofKmt/src/KmtMain.cpp |only GofKmt-2.2.0/GofKmt/src/Logistic.h |only GofKmt-2.2.0/GofKmt/src/Normal.h |only GofKmt-2.3.1/GofKmt/DESCRIPTION | 37 +++++++--- GofKmt-2.3.1/GofKmt/MD5 | 33 ++++----- GofKmt-2.3.1/GofKmt/NAMESPACE | 14 ++-- GofKmt-2.3.1/GofKmt/R/RFuncLib.R |only GofKmt-2.3.1/GofKmt/R/RcppExports.R | 20 +++++ GofKmt-2.3.1/GofKmt/R/sysdata.rda |binary GofKmt-2.3.1/GofKmt/man/Run_KMT.Rd |only GofKmt-2.3.1/GofKmt/src/Common.h | 62 +++++++----------- GofKmt-2.3.1/GofKmt/src/Distr.h |only GofKmt-2.3.1/GofKmt/src/FuncLib.cpp |only GofKmt-2.3.1/GofKmt/src/Makevars | 19 ++++- GofKmt-2.3.1/GofKmt/src/Makevars.win | 17 ++++- GofKmt-2.3.1/GofKmt/src/Optimal_Main.h |only GofKmt-2.3.1/GofKmt/src/Optimal_Side.h |only GofKmt-2.3.1/GofKmt/src/RcppExports.cpp | 102 ++++++++++++++++++++++++++---- 26 files changed, 212 insertions(+), 92 deletions(-)
Title: Inference for High-Dimensional Mixture Transition Distribution
Models
Description: Estimates parameters in Mixture Transition Distribution (MTD) models, a class of high-order Markov chains. The set of relevant pasts (lags) is selected using either the Bayesian Information Criterion or the Forward Stepwise and Cut algorithms. Other model parameters (e.g. transition probabilities and oscillations) can be estimated via maximum likelihood estimation or the Expectation-Maximization algorithm. Additionally, 'hdMTD' includes a perfect sampling algorithm that generates samples of an MTD model from its invariant distribution. For theory, see Ost & Takahashi (2023) <http://jmlr.org/papers/v24/22-0266.html>.
Author: Maiara Gripp [aut, cre],
Guilherme Ost [ths],
Giulio Iacobelli [ths]
Maintainer: Maiara Gripp <maiara@dme.ufrj.br>
Diff between hdMTD versions 0.1.3 dated 2025-11-01 and 0.1.4 dated 2025-12-18
DESCRIPTION | 6 - MD5 | 72 ++++++++-------- NAMESPACE | 13 -- NEWS.md | 11 ++ R/MTD-plot.R | 10 +- R/MTDest-methods.R | 122 ++++++++++++--------------- R/MTDest-plot.R | 42 ++++----- R/MTDest.R | 39 ++++++-- R/MTDmodel-methods.R | 113 ++++++++++++------------- R/MTDmodel.R | 82 +++++++++--------- R/accessors.R | 95 ++++++++++----------- R/as-MTD.R | 25 +---- R/hdMTD-methods.R | 62 +++++++------ R/hdMTD.R | 17 +++ R/hdMTD_BIC.R | 4 R/hdMTD_CUT.R | 44 +++++++++ R/hdMTD_FS.R | 44 +++++++++ R/oscillation.R | 46 +++++----- R/perfectSample.R | 11 +- R/probs.R | 136 +++++------------------------- R/utils.R | 170 ++++++++++++++++++------------------- R/validation.R | 155 ++++++++++++++++++++-------------- man/MTD-accessors.Rd | 45 ++++++---- man/MTD-methods.Rd | 45 ++++------ man/MTDest-methods.Rd | 48 ++++------ man/MTDest.Rd | 37 +++++++- man/MTDmodel.Rd | 51 +++++++++-- man/as.MTD.Rd | 10 +- man/hdMTD-methods.Rd | 21 ++-- man/hdMTD.Rd | 20 +++- man/hdMTD_FS.Rd | 2 man/oscillation.Rd | 41 ++++----- man/perfectSample.Rd | 72 +++++++--------- man/plot.MTD.Rd | 166 ++++++++++++++++++------------------ man/plot.MTDest.Rd | 193 +++++++++++++++++++++---------------------- man/probs.Rd | 44 ++++----- tests/testthat/test-MTDest.R | 6 - 37 files changed, 1111 insertions(+), 1009 deletions(-)
Title: Interface to 'Zenodo' REST API
Description: Provides an Interface to 'Zenodo' (<https://zenodo.org>) REST API,
including management of depositions, attribution of DOIs by 'Zenodo' and
upload and download of files.
Author: Emmanuel Blondel [aut, cre] ,
Julien Barde [ctb] ,
Stephen Eglen [ctb] ,
Hans Van Calster [ctb] ,
Floris Vanderhaeghe [ctb] ,
Jemma Stachelek [ctb] ,
Collin Schwantes [ctb] ,
Nicholas Tierney [ctb]
Maintainer: Emmanuel Blondel <emmanuel.blondel1@gmail.com>
Diff between zen4R versions 0.10.3 dated 2025-11-24 and 0.10.4 dated 2025-12-18
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS.md | 19 ++++++++++++++----- R/ZenodoManager.R | 16 +++++++++------- R/ZenodoRecord.R | 2 +- README.md | 2 +- 6 files changed, 34 insertions(+), 23 deletions(-)
Title: 'Dang' Associated New Goodies
Description: A collection of utility functions.
Author: Dirk Eddelbuettel [aut, cre] ,
Petr Pikal [ctb] ),
David Hinds [ctb] ),
Brodie Gaslam [ctb] '),
Kevin Denny [ctb] ,
Kabira Namit [ctb] ,
R Core [ctb] ,
Joshua Ulrich [ctb] ,
Jordan Mark Barbone [ctb] ,
Charlie Gao [ctb] ,
Andrew Uhl [ctb] ,
Dewey Dun [...truncated...]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between dang versions 0.0.16 dated 2023-12-02 and 0.0.17 dated 2025-12-18
dang-0.0.16/dang/R/googleFinanceData.R |only dang-0.0.16/dang/R/muteTweets.R |only dang-0.0.16/dang/man/googleFinanceData.Rd |only dang-0.0.16/dang/man/muteTweeters.Rd |only dang-0.0.17/dang/ChangeLog | 70 +++++++++++++++++++ dang-0.0.17/dang/DESCRIPTION | 57 +++++++++++++-- dang-0.0.17/dang/MD5 | 22 ++--- dang-0.0.17/dang/R/checkCRANStatus.R | 2 dang-0.0.17/dang/R/cranORCIDs.R |only dang-0.0.17/dang/R/reorderMicrobenchmarkResults.R |only dang-0.0.17/dang/R/rollMinMax.R | 3 dang-0.0.17/dang/README.md | 12 +-- dang-0.0.17/dang/inst/NEWS.Rd | 17 ++++ dang-0.0.17/dang/man/cranORCIDs.Rd |only dang-0.0.17/dang/man/reorderMicrobenchmarkResults.Rd |only dang-0.0.17/dang/man/rollMinMax.Rd | 3 16 files changed, 157 insertions(+), 29 deletions(-)
Title: Modelling of Population Growth
Description: Modelling of population growth under static and dynamic environmental conditions.
Includes functions for model fitting and making prediction under isothermal and
dynamic conditions. The methods (algorithms & models) are based on
predictive microbiology (See Perez-Rodriguez and Valero (2012, ISBN:978-1-4614-5519-6)).
Author: Alberto Garre [aut, cre] ,
Jeroen Koomen [aut],
Heidy den Besten [aut],
Marcel Zwietering [aut]
Maintainer: Alberto Garre <garre.alberto@gmail.com>
Diff between biogrowth versions 1.0.6 dated 2025-03-17 and 1.0.8 dated 2025-12-18
DESCRIPTION | 12 MD5 | 80 +-- NAMESPACE | 532 +++++++++++---------- NEWS.md | 13 R/FitCoupledGrowth_class.R | 9 R/FitDynamicGrowth_class.R | 9 R/FitIsoGrowth_class.R | 10 R/FitMultipleDynamicGrowth_class.R | 674 +++++++++++++-------------- R/FitSecondaryGrowth_class.R | 10 R/FitSerial_class.R |only R/GlobalGrowthFit_class.R | 812 ++++++++++++++++----------------- R/GrowthFit_class.R | 9 R/MCMCcoupled_class.R |only R/data.R | 10 R/fit_coupled_growth.R | 55 ++ R/fit_iso_growth.R | 2 R/guess_coupled.R |only R/predictMCMC.R | 324 ++++++------- R/predictMCMC_coupled.R |only R/top_fit.R | 2 R/twofold_dilution.R |only build/vignette.rds |binary data/example_od.rda |only inst/doc/v01_growth_predictions.html | 58 +- inst/doc/v02_growth_fitting.html | 72 ++ inst/doc/v03_growth_uncertainty.html | 35 + inst/doc/v04_model_comparison.html | 26 - inst/doc/v05_custom_stochastic.html | 8 inst/doc/v06_coupledmodels.html | 29 - inst/doc/v07_serial_dilution.R |only inst/doc/v07_serial_dilution.Rmd |only inst/doc/v07_serial_dilution.html |only inst/doc/v21_math_models.html | 9 inst/doc/v22_datasets.html | 8 inst/doc/v23_units-dilemma.html | 32 - inst/doc/v24_publication_figures.html | 17 inst/doc/v31_secondary_for_static.html | 11 inst/doc/v99_deprecated.html | 100 +++- man/FitCoupledGrowth.Rd | 256 +++++----- man/FitSerial.Rd |only man/MCMCcoupled.Rd |only man/cost_coupled_twosteps.Rd | 52 +- man/example_od.Rd |only man/fit_coupled_growth.Rd | 316 ++++++------ man/fit_serial_dilution.Rd |only man/get_TTDs.Rd |only man/make_guess_coupled.Rd |only man/predictMCMC_coupled.Rd |only man/show_guess_coupled.Rd |only vignettes/v07_serial_dilution.Rmd |only 50 files changed, 1996 insertions(+), 1596 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-01-11 0.3.1
2022-11-16 0.3.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-10-25 0.2.4
2023-10-17 0.2.3
2023-08-22 0.2.2
2023-08-08 0.2.1
2023-03-10 0.1.1
Title: Acquiring and Processing Data from Japan Institute for Health
Security
Description: Download and post process the infectious disease case data
from Japan Institute for Health Security. Also the package included
ready-to-analyse datasets. See the data source website for further details
<https://id-info.jihs.go.jp/>.
Author: Tomonori Hoshi [aut, cre],
Erina Ishigaki [aut],
Satoshi Kaneko [aut]
Maintainer: Tomonori Hoshi <tomonori.hoshi.japan@gmail.com>
Diff between jpinfect versions 0.1.8 dated 2025-11-25 and 0.1.9 dated 2025-12-18
DESCRIPTION | 6 - MD5 | 6 - data/bullet.rda |binary inst/doc/jpinfect.html | 204 ++++++++++++++++++++++++------------------------- 4 files changed, 108 insertions(+), 108 deletions(-)
Title: Presenting Statistical Results Effectively
Description: Includes functions and data used in the book "Presenting Statistical Results Effectively", Andersen and Armstrong (2022, ISBN: 978-1446269800). Several functions aid in data visualization - creating compact letter displays for simple slopes, kernel density estimates with normal density overlay. Other functions aid in post-model evaluation heatmap fit statistics for binary predictors, several variable importance measures, compact letter displays and simple-slope calculation. Finally, the package makes available the example datasets used in the book.
Author: Dave Armstrong [aut, cre],
Robert Andersen [aut],
Justin Esarey [cph],
John Fox [cph],
Michael Friendly [cph],
Adrian Bowman [cph],
Adelchi Azzalini [cph],
Dewey Michael [cph]
Maintainer: Dave Armstrong <davearmstrong.ps@gmail.com>
Diff between psre versions 0.3 dated 2025-12-04 and 0.4 dated 2025-12-18
DESCRIPTION | 18 ++++--- MD5 | 6 +- NAMESPACE | 2 R/effective_functions.r | 118 +++++++++++++++++++++++++++++++++++++++++++++++- 4 files changed, 132 insertions(+), 12 deletions(-)
Title: Mixture Models for Clustering and Classification
Description: An implementation of 14 parsimonious mixture models for model-based clustering or model-based classification. Gaussian, Student's t, generalized hyperbolic, variance-gamma or skew-t mixtures are available. All approaches work with missing data. Celeux and Govaert (1995) <doi:10.1016/0031-3203(94)00125-6>, Browne and McNicholas (2014) <doi:10.1007/s11634-013-0139-1>, Browne and McNicholas (2015) <doi:10.1002/cjs.11246>.
Author: Nik Pocuca [aut] ,
Ryan P. Browne [aut] ,
Paul D. McNicholas [aut, cre] ,
Alexa A. Sochaniwsky [aut]
Maintainer: Paul D. McNicholas <mcnicholas@math.mcmaster.ca>
Diff between mixture versions 2.1.2 dated 2025-05-06 and 2.2.0 dated 2025-12-18
ChangeLog | 4 ++ DESCRIPTION | 15 ++++++---- MD5 | 43 +++++++++++++++++------------- NAMESPACE | 5 ++- R/RcppExports.R | 16 +++++++++++ R/gh_mixture.R | 7 ++--- R/mixture.R | 7 ++--- R/pcm.R | 2 - R/st_mixture.R | 7 ++--- R/t_mixture.R | 7 ++--- R/vg_mixture.R | 9 +++--- man/ARI.Rd | 3 ++ man/dmg.Rd |only man/dmgh.Rd |only man/dmst.Rd |only man/dmvg.Rd |only man/ghpcm.Rd | 2 - man/mixture.Rd | 6 ++-- man/pcm.Rd | 2 - man/stpcm.Rd | 2 - man/tpcm.Rd | 2 - man/vgpcm.Rd | 2 - src/RcppExports.cpp | 67 ++++++++++++++++++++++++++++++++++++++++++++++++ src/VG_Model/VG_EEE.hpp | 1 src/density.cpp |only 25 files changed, 157 insertions(+), 52 deletions(-)
Title: Meta-Analysis of Significance Values
Description: The canonical way to perform meta-analysis involves using effect sizes.
When they are not available this package provides a number of methods for
meta-analysis of significance values including the methods of Edgington, Fisher,
Lancaster, Stouffer, Tippett, and Wilkinson; a number of data-sets to replicate published results;
and routines for graphical display.
Author: Michael Dewey [aut, cre]
Maintainer: Michael Dewey <lists@dewey.myzen.co.uk>
Diff between metap versions 1.12 dated 2025-03-15 and 1.13 dated 2025-12-18
DESCRIPTION | 11 +++--- MD5 | 36 +++++++++++---------- NEWS | 8 ++++ R/albatros.R | 81 +++++++++++++++++++++++------------------------- R/docontours.R | 5 ++ R/makescale.R |only build/metap.pdf |binary build/partial.rdb |binary build/stage23.rdb |binary build/vignette.rds |binary inst/REFERENCES.bib | 2 - inst/doc/compare.pdf |binary inst/doc/metap.pdf |binary inst/doc/plotmetap.R | 9 ++++- inst/doc/plotmetap.Rnw | 18 ++++++++-- inst/doc/plotmetap.pdf |binary man/albatros.Rd | 38 ++++++++++++++++++---- man/details.Rd |only man/metap-internal.Rd | 4 ++ vignettes/plotmetap.Rnw | 18 ++++++++-- 20 files changed, 147 insertions(+), 83 deletions(-)
Title: A Lightweight Version of R Markdown
Description: Render R Markdown to Markdown (without using 'knitr'), and Markdown
to lightweight HTML or 'LaTeX' documents with the 'commonmark' package (instead
of 'Pandoc'). Some missing Markdown features in 'commonmark' are also
supported, such as raw HTML or 'LaTeX' blocks, 'LaTeX' math, superscripts,
subscripts, footnotes, element attributes, and appendices,
but not all 'Pandoc' Markdown features are (or will be) supported. With
additional JavaScript and CSS, you can also create HTML slides and articles.
This package can be viewed as a trimmed-down version of R Markdown and
'knitr'. It does not aim at rich Markdown features or a large variety of
output formats (the primary formats are HTML and 'LaTeX'). Book and website
projects of multiple input documents are also supported.
Author: Yihui Xie [aut, cre] ,
Tim Taylor [ctb]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between litedown versions 0.8 dated 2025-11-02 and 0.9 dated 2025-12-18
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- NEWS.md | 14 ++++++++++++++ R/fuse.R | 44 +++++++++++++++++++++++++++++++++++++------- R/mark.R | 8 ++++---- R/package.R | 23 +++++++++++++++-------- R/utils.R | 44 ++++++++++++++++++++++++-------------------- inst/doc/slides.html | 30 +++++++++++++++--------------- man/fuse_book.Rd | 8 ++++---- man/mark.Rd | 22 ++++++++++++++-------- man/pkg_desc.Rd | 5 ++++- 11 files changed, 145 insertions(+), 81 deletions(-)
Title: Utilities for Simulation, Plots, Quantile Functions and
Programming
Description: Plot density and distribution functions with automatic selection of
suitable regions. Numerically invert (compute quantiles) distribution
functions. Simulate real and complex numbers from distributions of their
magnitude and arguments. Optionally, the magnitudes and/or arguments may
be fixed in almost arbitrary ways. Create polynomials from roots given in
Cartesian or polar form. Small programming utilities: check if an object
is identical to NA, count positional arguments in a call, set
intersection of more than two sets, check if an argument is unnamed,
compute the graph of S4 classes in packages.
Author: Georgi N. Boshnakov [aut, cre]
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>
Diff between gbutils versions 0.5 dated 2022-05-27 and 0.5.1 dated 2025-12-18
DESCRIPTION | 17 +++++++++-------- MD5 | 27 ++++++++++++++------------- NEWS.md | 21 +++++++++++++-------- README.md | 3 +-- build/partial.rdb |binary build/vignette.rds |binary inst/doc/Plot_pdf.pdf |binary inst/pkgdown.yml |only man/adjacencyOfClasses.Rd | 8 ++++---- man/cdf2quantile.Rd | 6 +++--- man/isNA.Rd | 3 +-- man/isargunnamed.Rd | 3 ++- man/mintersect.Rd | 2 +- man/parse_text.Rd | 4 +--- man/sim_numbers.Rd | 10 +++++----- 15 files changed, 54 insertions(+), 50 deletions(-)
Title: Basic Functions in Knowledge Space Theory Using Matrix
Representation
Description: Knowledge space theory by Doignon and Falmagne (1999)
<doi:10.1007/978-3-642-58625-5> is a set- and order-theoretical
framework, which proposes mathematical formalisms to operationalize
knowledge structures in a particular domain. The 'kstMatrix' package
provides basic functionalities to generate, handle, and manipulate
knowledge structures and knowledge spaces. Opposed to the 'kst'
package, 'kstMatrix' uses matrix representations for knowledge
structures. Furthermore, 'kstMatrix' contains several knowledge spaces
developed by the research group around Cornelia Dowling through
querying experts.
Author: Cord Hockemeyer [aut, cre],
Peter Steiner [aut],
Wai Wong [aut]
Maintainer: Cord Hockemeyer <cord.hockemeyer@uni-graz.at>
Diff between kstMatrix versions 2.1-0 dated 2025-11-21 and 2.2-0 dated 2025-12-18
kstMatrix-2.1-0/kstMatrix/R/kmsf2basis.R |only kstMatrix-2.1-0/kstMatrix/man/kmsf2basis.Rd |only kstMatrix-2.2-0/kstMatrix/Changelog | 8 kstMatrix-2.2-0/kstMatrix/DESCRIPTION | 8 kstMatrix-2.2-0/kstMatrix/MD5 | 58 - kstMatrix-2.2-0/kstMatrix/NAMESPACE | 6 kstMatrix-2.2-0/kstMatrix/R/kmSF2basis.R |only kstMatrix-2.2-0/kstMatrix/R/kmbasisfringe.R |only kstMatrix-2.2-0/kstMatrix/R/kmbasisneighbourhood.R |only kstMatrix-2.2-0/kstMatrix/R/kmfringe.R | 96 - kstMatrix-2.2-0/kstMatrix/R/kmgradations.R | 2 kstMatrix-2.2-0/kstMatrix/R/kmlearningpaths.R | 174 +-- kstMatrix-2.2-0/kstMatrix/R/kmneighbourhood.R | 184 +-- kstMatrix-2.2-0/kstMatrix/R/plot.R | 685 ++++++------- kstMatrix-2.2-0/kstMatrix/inst/doc/kstMatrix.R | 4 kstMatrix-2.2-0/kstMatrix/inst/doc/kstMatrix.Rmd | 20 kstMatrix-2.2-0/kstMatrix/inst/doc/kstMatrix.html | 50 kstMatrix-2.2-0/kstMatrix/man/kmSF2basis.Rd |only kstMatrix-2.2-0/kstMatrix/man/kmSR2basis.Rd | 2 kstMatrix-2.2-0/kstMatrix/man/kmbasis.kmsurmisefunction.Rd | 2 kstMatrix-2.2-0/kstMatrix/man/kmbasis.kmsurmiserelation.Rd | 2 kstMatrix-2.2-0/kstMatrix/man/kmbasis.matrix.Rd | 2 kstMatrix-2.2-0/kstMatrix/man/kmbasisfringe.Rd |only kstMatrix-2.2-0/kstMatrix/man/kmbasisneighbourhood.Rd |only kstMatrix-2.2-0/kstMatrix/man/kmfringe.Rd | 6 kstMatrix-2.2-0/kstMatrix/man/kmgradations.Rd | 6 kstMatrix-2.2-0/kstMatrix/man/kmlearningpaths.Rd | 6 kstMatrix-2.2-0/kstMatrix/man/kmneighbourhood.Rd | 6 kstMatrix-2.2-0/kstMatrix/man/kmnneighbourhood.Rd | 6 kstMatrix-2.2-0/kstMatrix/man/kmsurmisefunction.Rd | 2 kstMatrix-2.2-0/kstMatrix/man/kmsurmiserelation.Rd | 2 kstMatrix-2.2-0/kstMatrix/man/kmunionclosure.Rd | 2 kstMatrix-2.2-0/kstMatrix/man/plot.Rd | 17 kstMatrix-2.2-0/kstMatrix/vignettes/kstMatrix.Rmd | 20 34 files changed, 745 insertions(+), 631 deletions(-)
Title: Rmetrics - Importing Economic and Financial Data
Description: Provides a collection of utility functions
to download and manage data sets from the Internet or from other
sources.
Author: Diethelm Wuertz [aut] ,
Tobias Setz [aut],
Yohan Chalabi [aut],
Georgi N. Boshnakov [cre, aut]
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>
Diff between fImport versions 4041.88 dated 2024-09-20 and 4052.89 dated 2025-12-18
DESCRIPTION | 20 +++---- MD5 | 32 +++++------ NAMESPACE | 6 +- NEWS.md | 6 +- R/import-fred.R | 131 ++++++++++++++++++++++------------------------ data/amexListing.csv.gz |binary data/h15Listing.csv.gz |binary data/nasdaqListing.csv.gz |binary data/nyseListing.csv.gz |binary data/oandaListing.csv.gz |binary data/stoxxListing.csv.gz |binary data/swxListing.csv.gz |binary inst/_pkgdown.yml | 2 man/00fImport-package.Rd | 24 +------- man/class-fWEBDATA.Rd | 88 ++++++++++++------------------ man/import-fred.Rd | 116 ++++++++++++++++++++-------------------- man/methods-show.Rd | 37 +++--------- 17 files changed, 209 insertions(+), 253 deletions(-)
Title: Sample and Precomputed Data for Use with 'exams.forge'
Description: Provides a small collection of datasets supporting Pearson correlation
and linear regression analysis. It includes the precomputed dataset 'sos100',
with integer values summing to zero and squared sum equal to 100. For other
values of 'n' and user-defined parameters, the 'sos()' function from the
'exams.forge' package can be used to generate datasets on the fly. In addition,
the package contains around 500 german R Markdown exercises that illustrate the usage
of 'exams.forge' commands.
Author: Sigbert Klinke [aut, cre]
Maintainer: Sigbert Klinke <sigbert@hu-berlin.de>
Diff between exams.forge.data versions 0.1.2 dated 2025-09-11 and 0.1.3 dated 2025-12-18
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- inst/doc/exams.forge.data.R | 14 ++++++++++---- inst/doc/exams.forge.data.Rmd | 14 ++++++++++---- inst/doc/exams.forge.data.html | 20 +++++++++++++------- vignettes/exams.forge.data.Rmd | 14 ++++++++++---- 6 files changed, 52 insertions(+), 28 deletions(-)
More information about exams.forge.data at CRAN
Permanent link
Title: Efficient Approximate Bayesian Computation Sampling Schemes
Description: Enables launching a series of simulations of a computer code from the R session, and to retrieve the simulation outputs in an appropriate format for post-processing treatments. Five sequential sampling schemes and three coupled-to-MCMC schemes are implemented.
Author: Franck Jabot [aut],
Nicolas Dumoulin [aut, cre],
Thierry Faure [aut],
Carlo Albert. [aut]
Maintainer: Nicolas Dumoulin <nicolas.dumoulin@inrae.fr>
Diff between EasyABC versions 1.5.2 dated 2023-01-05 and 1.6 dated 2025-12-18
EasyABC-1.5.2/EasyABC/man/EasyABC-internal.Rd |only EasyABC-1.6/EasyABC/CHANGELOG | 11 EasyABC-1.6/EasyABC/DESCRIPTION | 41 - EasyABC-1.6/EasyABC/MD5 | 49 - EasyABC-1.6/EasyABC/NAMESPACE | 46 + EasyABC-1.6/EasyABC/R/ABC_emulation.R | 120 +++ EasyABC-1.6/EasyABC/R/ABC_mcmc.R | 243 +++++++ EasyABC-1.6/EasyABC/R/ABC_rejection.R | 195 ++++++ EasyABC-1.6/EasyABC/R/ABC_sequential.R | 374 ++++++++++++ EasyABC-1.6/EasyABC/R/EasyABC-package.R |only EasyABC-1.6/EasyABC/R/RcppExports.R |only EasyABC-1.6/EasyABC/R/SABC.R | 107 +++ EasyABC-1.6/EasyABC/R/binary_model.R | 41 + EasyABC-1.6/EasyABC/R/binary_model_cluster.R | 48 + EasyABC-1.6/EasyABC/R/traitmodel.R |only EasyABC-1.6/EasyABC/build |only EasyABC-1.6/EasyABC/inst |only EasyABC-1.6/EasyABC/man/ABC_emulation.Rd | 267 +++++--- EasyABC-1.6/EasyABC/man/ABC_mcmc.Rd | 518 +++++++++------- EasyABC-1.6/EasyABC/man/ABC_rejection.Rd | 412 +++++++------ EasyABC-1.6/EasyABC/man/ABC_sequential.Rd | 747 +++++++++++++----------- EasyABC-1.6/EasyABC/man/EasyABC-package.Rd | 63 +- EasyABC-1.6/EasyABC/man/SABC.Rd | 175 +++-- EasyABC-1.6/EasyABC/man/binary_model.Rd | 102 +-- EasyABC-1.6/EasyABC/man/binary_model_cluster.Rd | 115 ++- EasyABC-1.6/EasyABC/man/trait_model.Rd |only EasyABC-1.6/EasyABC/man/trait_model_internal.Rd |only EasyABC-1.6/EasyABC/src |only EasyABC-1.6/EasyABC/vignettes |only 29 files changed, 2619 insertions(+), 1055 deletions(-)
Title: Quality Evaluation of Core Collections
Description: Implements various quality evaluation statistics to assess the
value of plant germplasm core collections using qualitative and
quantitative phenotypic trait data according to Odong et al. (2015)
<doi:10.1007/s00122-012-1971-y>.
Author: J. Aravind [aut, cre] ,
Vikender Kaur [aut] ,
Dhammaprakash Pandhari Wankhede [aut] ,
Joghee Nanjundan [aut] ,
ICAR-NBGPR [cph]
Maintainer: J. Aravind <j.aravind@icar.org.in>
This is a re-admission after prior archival of version 0.1.3 dated 2022-07-03
Diff between EvaluateCore versions 0.1.3 dated 2022-07-03 and 0.1.4 dated 2025-12-18
EvaluateCore-0.1.3/EvaluateCore/build/EvaluateCore.pdf |only EvaluateCore-0.1.4/EvaluateCore/DESCRIPTION | 38 EvaluateCore-0.1.4/EvaluateCore/MD5 | 125 EvaluateCore-0.1.4/EvaluateCore/NAMESPACE | 9 EvaluateCore-0.1.4/EvaluateCore/NEWS.md | 14 EvaluateCore-0.1.4/EvaluateCore/R/EvaluateCore-deprecated.R | 2 EvaluateCore-0.1.4/EvaluateCore/R/bar.evaluate.core.R | 52 EvaluateCore-0.1.4/EvaluateCore/R/box.evaluate.core.R | 39 EvaluateCore-0.1.4/EvaluateCore/R/cassava_CC.R | 8 EvaluateCore-0.1.4/EvaluateCore/R/cassava_EC.R | 12 EvaluateCore-0.1.4/EvaluateCore/R/checks.evaluate.core.R | 35 EvaluateCore-0.1.4/EvaluateCore/R/chisquare.evalueate.core.R | 49 EvaluateCore-0.1.4/EvaluateCore/R/corr.evaluate.core.R | 16 EvaluateCore-0.1.4/EvaluateCore/R/coverage.evaluate.core.R | 22 EvaluateCore-0.1.4/EvaluateCore/R/cr.evaluate.core.R | 56 EvaluateCore-0.1.4/EvaluateCore/R/dist.evaluate.core.R | 14 EvaluateCore-0.1.4/EvaluateCore/R/diversity.evaluate.core.R | 20 EvaluateCore-0.1.4/EvaluateCore/R/freqdist.evaluate.core.R | 88 EvaluateCore-0.1.4/EvaluateCore/R/globals.R | 6 EvaluateCore-0.1.4/EvaluateCore/R/iqr.evaluate.core.R | 19 EvaluateCore-0.1.4/EvaluateCore/R/levene.evaluate.core.R | 57 EvaluateCore-0.1.4/EvaluateCore/R/pca.evaluate.core.R | 20 EvaluateCore-0.1.4/EvaluateCore/R/pdfdist.evaluate.core.R | 86 EvaluateCore-0.1.4/EvaluateCore/R/percentdiff.evaluate.core.R | 38 EvaluateCore-0.1.4/EvaluateCore/R/qq.evaluate.core.R | 157 + EvaluateCore-0.1.4/EvaluateCore/R/rpr.evaluate.core.R |only EvaluateCore-0.1.4/EvaluateCore/R/scv.evaluate.core.R |only EvaluateCore-0.1.4/EvaluateCore/R/shannon.evaluate.core.R | 4 EvaluateCore-0.1.4/EvaluateCore/R/signtest.evaluate.core.R | 3 EvaluateCore-0.1.4/EvaluateCore/R/snk.evaluate.core.R | 72 EvaluateCore-0.1.4/EvaluateCore/R/ttest.evaluate.core.R | 78 EvaluateCore-0.1.4/EvaluateCore/R/vpf.evaluate.core.R |only EvaluateCore-0.1.4/EvaluateCore/R/vr.evaluate.core.R | 4 EvaluateCore-0.1.4/EvaluateCore/R/wilcox.evaluate.core.R | 24 EvaluateCore-0.1.4/EvaluateCore/R/xtra.R | 2 EvaluateCore-0.1.4/EvaluateCore/README.md | 233 - EvaluateCore-0.1.4/EvaluateCore/build/partial.rdb |binary EvaluateCore-0.1.4/EvaluateCore/build/stage23.rdb |only EvaluateCore-0.1.4/EvaluateCore/inst/CITATION | 43 EvaluateCore-0.1.4/EvaluateCore/inst/REFERENCES.bib | 1280 +++++----- EvaluateCore-0.1.4/EvaluateCore/inst/pkgdown.yml |only EvaluateCore-0.1.4/EvaluateCore/man/bar.evaluate.core.Rd | 23 EvaluateCore-0.1.4/EvaluateCore/man/box.evaluate.core.Rd | 12 EvaluateCore-0.1.4/EvaluateCore/man/cassava_CC.Rd | 6 EvaluateCore-0.1.4/EvaluateCore/man/cassava_EC.Rd | 10 EvaluateCore-0.1.4/EvaluateCore/man/checks.evaluate.core.Rd | 2 EvaluateCore-0.1.4/EvaluateCore/man/chisquare.evaluate.core.Rd | 8 EvaluateCore-0.1.4/EvaluateCore/man/corr.evaluate.core.Rd | 8 EvaluateCore-0.1.4/EvaluateCore/man/coverage.evaluate.core.Rd | 23 EvaluateCore-0.1.4/EvaluateCore/man/cr.evaluate.core.Rd | 47 EvaluateCore-0.1.4/EvaluateCore/man/dist.evaluate.core.Rd | 7 EvaluateCore-0.1.4/EvaluateCore/man/diversity.evaluate.core.Rd | 667 ++--- EvaluateCore-0.1.4/EvaluateCore/man/freqdist.evaluate.core.Rd | 14 EvaluateCore-0.1.4/EvaluateCore/man/iqr.evaluate.core.Rd | 7 EvaluateCore-0.1.4/EvaluateCore/man/levene.evaluate.core.Rd | 19 EvaluateCore-0.1.4/EvaluateCore/man/pca.evaluate.core.Rd | 7 EvaluateCore-0.1.4/EvaluateCore/man/pdfdist.evaluate.core.Rd | 6 EvaluateCore-0.1.4/EvaluateCore/man/percentdiff.evaluate.core.Rd | 35 EvaluateCore-0.1.4/EvaluateCore/man/qq.evaluate.core.Rd | 37 EvaluateCore-0.1.4/EvaluateCore/man/rpr.evaluate.core.Rd |only EvaluateCore-0.1.4/EvaluateCore/man/scv.evaluate.core.Rd |only EvaluateCore-0.1.4/EvaluateCore/man/shannon.evaluate.core-deprecated.Rd | 2 EvaluateCore-0.1.4/EvaluateCore/man/signtest.evaluate.core.Rd | 1 EvaluateCore-0.1.4/EvaluateCore/man/snk.evaluate.core.Rd | 23 EvaluateCore-0.1.4/EvaluateCore/man/ttest.evaluate.core.Rd | 31 EvaluateCore-0.1.4/EvaluateCore/man/vpf.evaluate.core.Rd |only EvaluateCore-0.1.4/EvaluateCore/man/vr.evaluate.core.Rd | 4 EvaluateCore-0.1.4/EvaluateCore/man/wilcox.evaluate.core.Rd | 7 68 files changed, 2173 insertions(+), 1558 deletions(-)
Title: Misc Functions of the Department of Statistics, Probability
Theory Group (Formerly: E1071), TU Wien
Description: Functions for latent class analysis, short time Fourier
transform, fuzzy clustering, support vector machines,
shortest path computation, bagged clustering, naive Bayes
classifier, generalized k-nearest neighbour ...
Author: David Meyer [aut, cre] ,
Evgenia Dimitriadou [aut, cph],
Kurt Hornik [aut] ,
Andreas Weingessel [aut],
Friedrich Leisch [aut],
Chih-Chung Chang [ctb, cph] ,
Chih-Chen Lin [ctb, cph]
Maintainer: David Meyer <David.Meyer@R-project.org>
Diff between e1071 versions 1.7-16 dated 2024-09-16 and 1.7-17 dated 2025-12-18
DESCRIPTION | 10 +++++----- MD5 | 23 ++++++++++++----------- build/partial.rdb |only build/vignette.rds |binary inst/NEWS.Rd | 5 +++++ inst/doc/svmdoc.R | 14 +++++++------- inst/doc/svmdoc.Rnw | 32 +++++++++++++++++++++++--------- inst/doc/svmdoc.pdf |binary inst/doc/svminternals.Rnw | 2 +- inst/doc/svminternals.pdf |binary man/bclust.Rd | 3 ++- vignettes/svmdoc.Rnw | 32 +++++++++++++++++++++++--------- vignettes/svminternals.Rnw | 2 +- 13 files changed, 79 insertions(+), 44 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-07-18 1.1.0
2020-06-24 1.0.0
Title: A Simple Router for HTTP and WebSocket Requests
Description: In order to make sure that web request ends up in the correct
handler function a router is often used. 'routr' is a package implementing a
simple but powerful routing functionality for R based servers. It is a fully
functional 'fiery' plugin, but can also be used with other 'httpuv' based
servers.
Author: Thomas Lin Pedersen [cre, aut]
Maintainer: Thomas Lin Pedersen <thomasp85@gmail.com>
Diff between routr versions 1.1.0 dated 2025-11-18 and 2.0.0 dated 2025-12-18
DESCRIPTION | 10 MD5 | 32 +-- NAMESPACE | 3 NEWS.md | 10 R/openapi_route.R | 6 R/otel.R | 32 --- R/redirector.R | 22 -- R/route.R | 314 ++++++++++++++---------------- R/routestack.R | 38 ++- man/Route-class.Rd | 83 +++++-- tests/testthat/_snaps/redirector.md | 4 tests/testthat/_snaps/route.md | 14 - tests/testthat/test-openapi_route.R | 12 - tests/testthat/test-redirector.R | 3 tests/testthat/test-route.R | 16 - tests/testthat/test-shared_secret_route.R | 2 tests/testthat/test-tidy_api.R | 4 17 files changed, 304 insertions(+), 301 deletions(-)
Title: Density, Distribution, and Sampling Functions for Evidence
Accumulation Models
Description: Calculate the probability density functions (PDFs) for two threshold evidence
accumulation models (EAMs). These are defined using the following Stochastic
Differential Equation (SDE), dx(t) = v(x(t),t)*dt+D(x(t),t)*dW, where x(t) is
the accumulated evidence at time t, v(x(t),t) is the drift rate, D(x(t),t) is
the noise scale, and W is the standard Wiener process. The boundary conditions
of this process are the upper and lower decision thresholds, represented by b_u(t)
and b_l(t), respectively. Upper threshold b_u(t) > 0, while lower threshold b_l(t) < 0.
The initial condition of this process x(0) = z where b_l(t) < z < b_u(t). We
represent this as the relative start point w = z/(b_u(0)-b_l(0)), defined as
a ratio of the initial threshold location. This package generates the PDF using
the same approach as the 'python' package it is based upon, 'PyBEAM' by Murrow and Holmes
(2023) <doi:10.3758/s13428-023-02162-w>. First, it converts the SDE model into the
forwards Fokke [...truncated...]
Author: Raphael Hartmann [aut, cre] ,
Matthew Murrow [aut]
Maintainer: Raphael Hartmann <raphael.hartmann@protonmail.com>
Diff between ream versions 1.0-5 dated 2024-09-26 and 1.0-9 dated 2025-12-18
ream-1.0-5/ream/R/CDSTP.R |only ream-1.0-5/ream/inst/doc/guidline.R |only ream-1.0-5/ream/inst/doc/guidline.Rmd |only ream-1.0-5/ream/inst/doc/guidline.html |only ream-1.0-5/ream/man/CDSTP.Rd |only ream-1.0-5/ream/man/dCDSTP_grid.Rd |only ream-1.0-5/ream/man/dCSTM_TW_grid.Rd |only ream-1.0-5/ream/man/dCSTM_TX_grid.Rd |only ream-1.0-5/ream/man/dCSTM_T_grid.Rd |only ream-1.0-5/ream/vignettes/guidline.Rmd |only ream-1.0-9/ream/DESCRIPTION | 14 - ream-1.0-9/ream/MD5 | 75 ++--- ream-1.0-9/ream/NAMESPACE | 11 ream-1.0-9/ream/R/CSTM_T.R | 70 ----- ream-1.0-9/ream/R/CSTM_TW.R | 71 ----- ream-1.0-9/ream/R/CSTM_TX.R | 71 ----- ream-1.0-9/ream/R/DDM.R |only ream-1.0-9/ream/R/LIM.R | 4 ream-1.0-9/ream/R/LIMF.R | 4 ream-1.0-9/ream/R/tools.R | 8 ream-1.0-9/ream/build/vignette.rds |binary ream-1.0-9/ream/inst/doc/guideline.R |only ream-1.0-9/ream/inst/doc/guideline.Rmd |only ream-1.0-9/ream/inst/doc/guideline.html |only ream-1.0-9/ream/inst/extdata |only ream-1.0-9/ream/man/CSTM_T.Rd | 4 ream-1.0-9/ream/man/CSTM_TW.Rd | 4 ream-1.0-9/ream/man/CSTM_TX.Rd | 4 ream-1.0-9/ream/man/DDM.Rd |only ream-1.0-9/ream/man/LIM.Rd | 2 ream-1.0-9/ream/man/LIMF.Rd | 2 ream-1.0-9/ream/man/dDDM_grid.Rd |only ream-1.0-9/ream/man/dLIMF_grid.Rd | 2 ream-1.0-9/ream/man/dLIM_grid.Rd | 2 ream-1.0-9/ream/src/Makevars |only ream-1.0-9/ream/src/Makevars.win |only ream-1.0-9/ream/src/Model_7P.cpp |only ream-1.0-9/ream/src/Model_7P.h |only ream-1.0-9/ream/src/Model_T.cpp | 5 ream-1.0-9/ream/src/Model_TW.cpp | 5 ream-1.0-9/ream/src/Model_TX.cpp | 5 ream-1.0-9/ream/src/R_wrapper.cpp | 444 +++++++++++++++++++++++++++++++- ream-1.0-9/ream/src/models_7p.h |only ream-1.0-9/ream/src/models_t.h | 135 ++++++++- ream-1.0-9/ream/src/models_tw.h | 442 ++++++++++++++++++++----------- ream-1.0-9/ream/src/models_tx.h | 136 ++++++++- ream-1.0-9/ream/src/ream_init.c | 12 ream-1.0-9/ream/src/tools.cpp | 42 +++ ream-1.0-9/ream/src/tools.h | 21 + ream-1.0-9/ream/vignettes/guideline.Rmd |only 50 files changed, 1120 insertions(+), 475 deletions(-)
Title: Bayesian Logistic Regression for Oncology Dose-Escalation Trials
Description: Bayesian logistic regression model with optional
EXchangeability-NonEXchangeability parameter modelling for flexible
borrowing from historical or concurrent data-sources. The safety model
can guide dose-escalation decisions for adaptive oncology Phase I
dose-escalation trials which involve an arbitrary number of
drugs. Please refer to Neuenschwander et al. (2008)
<doi:10.1002/sim.3230> and Neuenschwander et al. (2016)
<doi:10.1080/19466315.2016.1174149> for details on the methodology.
Author: Novartis Pharma AG [cph],
Sebastian Weber [aut, cre],
Lukas A. Widmer [aut],
Andrew Bean [aut],
Trustees of Columbia University [cph]
Maintainer: Sebastian Weber <sebastian.weber@novartis.com>
Diff between OncoBayes2 versions 0.9-3 dated 2025-04-25 and 0.9-4 dated 2025-12-18
DESCRIPTION | 14 +- MD5 | 114 +++++++++--------- NEWS.md | 11 + R/OncoBayes2-package.R | 18 +- R/blrm_exnex.R | 73 +++++------ R/blrm_formula_linear.R | 8 - R/blrm_formula_saturating.R | 12 - R/blrm_trial.R | 74 +++++------ R/codata_combo2.R | 10 - R/critical_quantile.R | 78 ++++++------ R/diagnostics.R | 8 - R/example_combo2.R | 10 - R/example_combo2_trial.R | 14 +- R/example_combo3.R | 14 +- R/example_model.R | 2 R/example_single_agent.R | 6 R/hist_combo2.R | 6 R/hist_combo3.R | 6 R/plot_blrm.R | 62 ++++----- R/posterior.R | 20 +-- R/posterior_interval.R | 2 R/posterior_linpred.R | 2 R/posterior_predict.R | 2 R/predictive_interval.R | 2 R/prior_summary.R | 6 R/summary.R | 74 +++++------ R/sysdata.rda |binary R/update.R | 26 ++-- build/vignette.rds |binary inst/doc/OncoBayes2.pdf |binary inst/doc/introduction.R | 2 inst/doc/introduction.html | 55 ++++---- inst/doc/map_approach.R | 12 - inst/doc/map_approach.Rmd | 2 inst/doc/map_approach.html | 57 ++++----- inst/sbc/calibration.md5 | 6 inst/sbc/make_reference_rankhist.R | 4 inst/sbc/sbc_report.html | 32 ++--- man/OncoBayes2.Rd | 10 + man/blrm_exnex.Rd | 45 +++---- man/blrm_formula_saturating.Rd | 3 man/critical_quantile.Rd | 3 man/diagnostic-quantities.Rd | 2 man/draws-OncoBayes2.Rd | 6 man/example-combo2_trial.Rd | 12 - man/plot_blrm.Rd | 10 - man/prior_summary.blrmfit.Rd | 4 man/summary.blrm_trial.Rd | 12 - man/summary.blrmfit.Rd | 6 man/update.blrm_trial.Rd | 6 man/update.blrmfit.Rd | 4 src/stanExports_blrm_exnex.cc | 34 ++--- tests/testthat/helper-load_gold.R | 1 tests/testthat/setup-gold.R | 12 + tests/testthat/test-blrm_exnex.R | 4 tests/testthat/test-critical_quantile.R | 2 tests/testthat/test-plot_toxicity_intervals_stacked.R | 1 vignettes/map_approach.Rmd | 2 58 files changed, 525 insertions(+), 498 deletions(-)
Title: Constructing Hierarchical Voronoi Tessellations and Overlay
Heatmaps for Data Analysis
Description: Facilitates building topology preserving maps for data analysis.
Author: Zubin Dowlaty [aut, cre],
Mu Sigma, Inc. [cph]
Maintainer: Zubin Dowlaty <zubin.dowlaty@mu-sigma.com>
Diff between HVT versions 25.2.7 dated 2025-10-22 and 25.2.8 dated 2025-12-18
DESCRIPTION | 24 ++++---- MD5 | 34 ++++++------ NAMESPACE | 21 +++++++ R/HVTMSM_support.R | 15 ++++- R/clustHVT.R | 122 ++++++++++++++++++++++++++++++++------------- R/clusterPlot.R | 8 ++ R/edaPlots.R | 81 ++++++++++++++--------------- R/global.R | 2 R/mcmc_plots.R | 22 ++++---- R/msm.R | 71 ++++++++++++++++++++------ R/plotAnimatedFlowmap.R | 4 - R/plotExAnteRawSeries.R |only README.md | 59 ++++++++++++++++----- inst/doc/HVT.Rmd | 18 +++++- inst/doc/HVT.html | 40 +++++++++++--- man/clustHVT.Rd | 12 +++- man/msm.Rd | 4 - man/plotExAnteRawSeries.Rd |only vignettes/HVT.Rmd | 18 +++++- 19 files changed, 382 insertions(+), 173 deletions(-)
Title: Quiver Plots for 'ggplot2'
Description: An extension of 'ggplot2' to provide quiver plots to visualise vector fields.
This functionality is implemented using a geom to produce a new graphical layer, which
allows aesthetic options. This layer can be overlaid on a map to improve visualisation
of mapped data.
Author: Mitchell O'Hara-Wild [aut, cre]
Maintainer: Mitchell O'Hara-Wild <mail@mitchelloharawild.com>
Diff between ggquiver versions 0.3.3 dated 2023-11-17 and 0.4.0 dated 2025-12-18
DESCRIPTION | 12 +-- MD5 | 28 +++++---- NEWS.md | 4 + R/geom-quiver.r | 17 +++-- R/stat-quiver.r | 30 +++++++-- README.md | 60 +++++++++++++++---- man/figures/README-quiverplot-1.png |binary man/figures/README-sealplot-1.png |binary man/figures/README-sealplot-centered-1.png |binary man/figures/README-sealplot-custom-1.png |only man/figures/logo.svg |only man/geom_quiver.Rd | 88 ++++++++++++++++++++++------- tests/testthat/_snaps |only tests/testthat/test-geom_quiver.R | 51 ++++++++++------ 14 files changed, 208 insertions(+), 82 deletions(-)
Title: Visualising How Nonlinear Dimension Reduction Warps Your Data
Description: To construct a model in 2-D space from 2-D nonlinear
dimension reduction data and then lift it to the high-dimensional
space. Additionally, provides tools to visualise the model overlay the
data in 2-D and high-dimensional space. Furthermore, provides
summaries and diagnostics to evaluate the nonlinear dimension
reduction layout.
Author: Jayani P. Gamage [aut, cre] ,
Dianne Cook [aut] ,
Paul Harrison [aut] ,
Michael Lydeamore [aut] ,
Thiyanga S. Talagala [aut]
Maintainer: Jayani P. Gamage <jayanilakshika76@gmail.com>
Diff between quollr versions 1.0.4 dated 2025-12-15 and 1.0.6 dated 2025-12-18
DESCRIPTION | 6 +++--- MD5 | 25 +++++++++++++++++-------- NEWS.md | 2 ++ R/projection.R | 13 ++++++------- inst/doc/quollr4algo.html | 4 ++-- man/get_projection.Rd | 13 ++----------- man/plot_proj.Rd | 2 +- tests/testthat/_snaps/projection.md | 6 +++--- tests/testthat/test-projection.R | 4 ++-- vignettes/quollr3hexbin_files |only vignettes/quollr4algo_files |only vignettes/quollr5summary_files |only vignettes/quollr6bestbinwidth_files |only vignettes/quollr7bestfit_files |only 14 files changed, 38 insertions(+), 37 deletions(-)
Title: Sobol Sequences with Better Two-Dimensional Projections
Description: R implementation of S. Joe and F. Y. Kuo (2008)
<DOI:10.1137/070709359>.
The implementation is based on the data file new-joe-kuo-6.21201
<http://web.maths.unsw.edu.au/~fkuo/sobol/>.
Author: Frances Kuo [aut],
Stephen Joe [aut],
Makoto Matsumoto [ctb],
Shinsuke Mori [ctb],
Mutsuo Saito [cre]
Maintainer: ORPHANED
Diff between SobolSequence versions 1.0 dated 2017-07-08 and 1.0.1 dated 2025-12-18
DESCRIPTION | 23 +++++++++++++---------- MD5 | 6 +++--- src/Makevars | 3 +-- src/Makevars.win | 3 +-- 4 files changed, 18 insertions(+), 17 deletions(-)
Title: Soundscape Background Noise, Power, and Saturation
Description: Accessible and flexible implementation of three ecoacoustic indices that are less commonly available in existing R frameworks: Background Noise, Soundscape Power and Soundscape Saturation. The functions were design to accommodate a variety of sampling designs. Users can tailor calculations by specifying spectrogram time bin size, amplitude thresholds and normality tests. By simplifying computation and standardizing reproducible methods, the package aims to support ecoacoustics studies. For more details about the indices read Towsey (2014) <doi:10.1016/j.procs.2014.05.063> and Burivalova (2017) <doi:10.1111/cobi.12968>.
Author: Arthur Igor da Fonseca-Freire [aut, cre, cph],
Weslley Geremias dos Santos [ctb],
Lucas Rodriguez Forti [ctb]
Maintainer: Arthur Igor da Fonseca-Freire <arthur.igorr@gmail.com>
Diff between Ruido versions 1.0.0 dated 2025-12-11 and 1.0.1 dated 2025-12-18
Ruido-1.0.0/Ruido/tests |only Ruido-1.0.1/Ruido/DESCRIPTION | 8 - Ruido-1.0.1/Ruido/MD5 | 23 +-- Ruido-1.0.1/Ruido/R/bgNoise.R | 31 ++-- Ruido-1.0.1/Ruido/R/globals.R | 3 Ruido-1.0.1/Ruido/R/processChannel.R | 165 +++++++++++------------ Ruido-1.0.1/Ruido/R/satBackup.R | 243 +++++++++++++++++++---------------- Ruido-1.0.1/Ruido/R/singleSat.R | 7 - Ruido-1.0.1/Ruido/R/soundMat.R | 84 +++++------- Ruido-1.0.1/Ruido/R/soundSat.R | 135 +++++++++---------- Ruido-1.0.1/Ruido/man/bgNoise.Rd | 16 +- Ruido-1.0.1/Ruido/man/satBackup.Rd | 6 Ruido-1.0.1/Ruido/man/singleSat.Rd | 2 13 files changed, 375 insertions(+), 348 deletions(-)
Title: R Interface for 'TiddlyWiki'
Description: 'TiddlyWiki' is a unique non-linear notebook for capturing, organising and sharing complex information. 'rtiddlywiki' is a R interface of 'TiddlyWiki' <https://tiddlywiki.com> to create new tiddler from 'R Markdown' file, and then put into a local 'TiddlyWiki' server if it is available.
Author: Bangyou Zheng [aut, cre]
Maintainer: Bangyou Zheng <bangyou.zheng@csiro.au>
Diff between rtiddlywiki versions 0.5.0 dated 2025-09-23 and 0.5.2 dated 2025-12-18
DESCRIPTION | 12 MD5 | 23 - R/request.R | 2 R/rmarkdown.R | 29 + R/utils.R | 67 ++-- README.md | 2 inst/quarto |only man/tw_table.Rd | 4 tests/testthat.R | 5 tests/testthat/helper.R | 3 tests/testthat/setup.R | 21 - tests/testthat/test-rmarkdown.R | 639 +++++++++++++++++++++++++--------------- tests/testthat/test-tiddler.R | 7 13 files changed, 521 insertions(+), 293 deletions(-)
Title: Interactive Reliability Probability Plots
Description: Build interactive Reliability Probability Plots with 'plotly' by Carson Sievert (2020) <https://plotly.com/r/>, an interactive web-based graphing library.
Author: Paul Govan [aut, cre, cph]
Maintainer: Paul Govan <paul.govan2@gmail.com>
This is a re-admission after prior archival of version 0.4.1 dated 2025-10-31
Diff between ReliaPlotR versions 0.4.1 dated 2025-10-31 and 0.4.2 dated 2025-12-18
DESCRIPTION | 9 ++++----- MD5 | 4 ++-- inst/CITATION | 12 ++++++------ 3 files changed, 12 insertions(+), 13 deletions(-)
Title: Lipid Annotation for LC-MS/MS DDA or DIA Data
Description: Lipid annotation in untargeted LC-MS lipidomics based on fragmentation rules. Alcoriza-Balaguer MI, Garcia-Canaveras JC, Lopez A, Conde I, Juan O, Carretero J, Lahoz A (2019) <doi:10.1021/acs.analchem.8b03409>.
Author: M Isabel Alcoriza-Balaguer [aut, cre],
Celia Regal-Marques [aut]
Maintainer: M Isabel Alcoriza-Balaguer <maribel_alcoriza@iislafe.es>
Diff between LipidMS versions 3.1.1 dated 2025-11-03 and 3.1.2 dated 2025-12-18
DESCRIPTION | 6 MD5 | 222 +++++------ R/LipidMS.R | 2 R/dataProcessing.R | 805 +++++++++++++++++++++++++++++++++++------ R/idFunctionsNeg.R | 121 +++--- R/internal.R | 30 - R/internalProcessing.R | 64 +-- R/internaldbs.R | 94 ++-- R/msbatchAnnotationFunctions.R | 2 R/utils.R | 2 inst/LipidMSapp/app.R | 26 - man/MassAcylCer.Rd | 2 man/MassCE.Rd | 2 man/MassCL.Rd | 2 man/MassCarnitines.Rd | 2 man/MassCer.Rd | 2 man/MassCerP.Rd | 2 man/MassDG.Rd | 2 man/MassFA.Rd | 2 man/MassFAHFA.Rd | 2 man/MassGlcCer.Rd | 2 man/MassHFA.Rd | 2 man/MassLysoPA.Rd | 2 man/MassLysoPAo.Rd | 2 man/MassLysoPC.Rd | 2 man/MassLysoPCo.Rd | 2 man/MassLysoPCp.Rd | 2 man/MassLysoPE.Rd | 2 man/MassLysoPEo.Rd | 2 man/MassLysoPEp.Rd | 2 man/MassLysoPG.Rd | 2 man/MassLysoPI.Rd | 2 man/MassLysoPS.Rd | 2 man/MassMG.Rd | 2 man/MassPA.Rd | 2 man/MassPC.Rd | 2 man/MassPCo.Rd | 2 man/MassPCp.Rd | 2 man/MassPE.Rd | 2 man/MassPEo.Rd | 2 man/MassPEp.Rd | 2 man/MassPG.Rd | 2 man/MassPI.Rd | 2 man/MassPIP.Rd | 2 man/MassPIP2.Rd | 2 man/MassPIP3.Rd | 2 man/MassPS.Rd | 2 man/MassSM.Rd | 2 man/MassSph.Rd | 2 man/MassSphP.Rd | 2 man/MassTG.Rd | 2 man/alignmsbatch.Rd | 2 man/annotateIsotopes.Rd | 2 man/annotatemsbatch.Rd | 148 +++---- man/batchdataProcessing.Rd | 2 man/cbs.Rd | 2 man/chains.Rd | 2 man/checkIntRules.Rd | 2 man/clust.Rd | 2 man/clustdist.Rd | 2 man/coelutionScore.Rd | 2 man/crossAdducts.Rd | 2 man/dataProcessing.Rd | 2 man/dbFourChains.Rd | 2 man/dbOneChain.Rd | 2 man/dbPlasmalogens.Rd | 2 man/dbSphingolipids.Rd | 2 man/dbThreeChains.Rd | 2 man/dbTwoChains.Rd | 2 man/diffcb.Rd | 2 man/dot-with_future_plan.Rd | 2 man/fillpeaksmsbatch.Rd | 2 man/filtermsms.Rd | 2 man/filtrateAdducts.Rd | 2 man/findMS2precursor.Rd | 2 man/findPrecursor.Rd | 2 man/frags.Rd | 2 man/getFormula.Rd | 2 man/getallpeaks.Rd | 2 man/getfeaturestable.Rd | 2 man/groupmsbatch.Rd | 2 man/idAcylCerneg.Rd | 2 man/idBAneg.Rd | 2 man/idCLneg.Rd | 2 man/idCerPneg.Rd | 2 man/idCerneg.Rd | 2 man/idFAHFAneg.Rd | 2 man/idLPCneg.Rd | 2 man/idLPEneg.Rd | 2 man/idLPGneg.Rd | 2 man/idLPIneg.Rd | 2 man/idLPSneg.Rd | 2 man/idPCneg.Rd | 2 man/idPConeg.Rd | 2 man/idPCpneg.Rd | 2 man/idPEneg.Rd | 2 man/idPEoneg.Rd | 2 man/idPEpneg.Rd | 2 man/idPGneg.Rd | 2 man/idPIneg.Rd | 2 man/idPSneg.Rd | 2 man/idSMneg.Rd | 2 man/idSphPneg.Rd | 2 man/idSphneg.Rd | 2 man/indexrtpart.Rd | 2 man/joinfrags.Rd | 2 man/mzMatch.Rd | 2 man/removeduplicatedpeaks.Rd | 2 man/rtcorrection.Rd | 2 man/select.Rd | 2 man/setmsbatch.Rd | 2 man/sumChains.Rd | 2 112 files changed, 1176 insertions(+), 546 deletions(-)
Title: Bindings to 'GDAL'
Description: API bindings to the Geospatial Data Abstraction Library ('GDAL',
<https://gdal.org>). Implements the 'GDAL' Raster and Vector Data Models.
Bindings are implemented with 'Rcpp' modules. Exposed C++ classes and
stand-alone functions wrap much of the 'GDAL' API and provide additional
functionality. Calling signatures resemble the native C, C++ and Python APIs
provided by the 'GDAL' project. Class 'GDALRaster' encapsulates a
'GDALDataset' and its raster band objects. Class 'GDALVector' encapsulates
an 'OGRLayer' and the 'GDALDataset' that contains it. Initial bindings are
provided to the unified 'gdal' command line interface added in 'GDAL' 3.11.
C++ stand-alone functions provide bindings to most 'GDAL' "traditional"
raster and vector utilities, including 'OGR' facilities for vector
geoprocessing, several algorithms, as well as the Geometry API ('GEOS' via
'GDAL' headers), the Spatial Reference Systems API, and methods for
coordinate transformation. Bindings to the Virtual Systems In [...truncated...]
Author: Chris Toney [aut, cre] ,
Michael D. Sumner [ctb],
Frank Warmerdam [ctb, cph] ,
Even Rouault [ctb, cph] ,
Marius Appel [ctb, cph] ,
Daniel James [ctb, cph] ,
Peter Dimov [ctb, cph]
Maintainer: Chris Toney <jctoney@gmail.com>
Diff between gdalraster versions 2.3.0 dated 2025-11-19 and 2.4.0 dated 2025-12-18
DESCRIPTION | 12 MD5 | 99 +++---- NAMESPACE | 2 NEWS.md | 90 ++++-- R/RcppExports.R | 168 +++++++++++- R/display.R | 52 ++- R/gdal_cli.R | 4 R/gdal_helpers.R | 2 R/gdalalg.R | 2 R/gdalraster.R | 7 README.md | 79 ++--- configure | 18 - configure.ac | 2 inst/CITATION | 2 inst/doc/gdal-config-quick-ref.Rmd | 2 inst/doc/gdal-config-quick-ref.html | 2 inst/doc/raster-api-tutorial.Rmd | 4 inst/doc/raster-api-tutorial.html | 22 - inst/doc/raster-attribute-tables.Rmd | 2 inst/doc/raster-attribute-tables.html | 112 ++++---- man/GDALAlg-class.Rd | 4 man/GDALRaster-class.Rd | 7 man/gdal_cli.Rd | 4 man/gdal_formats.Rd | 32 +- man/gdalraster-package.Rd | 1 man/get_cache_used.Rd | 2 man/make_chunk_index.Rd | 2 man/plot_raster.Rd | 34 +- man/srs_info_from_db.Rd |only man/srs_query.Rd | 80 +++++- man/vsi_read_dir.Rd | 8 man/vsi_stat.Rd | 2 man/vsi_sync.Rd | 2 src/RcppExports.cpp | 85 ++++++ src/gdal_exp.cpp | 260 ++++++++++++++----- src/gdal_vsi.cpp | 78 ++++- src/gdalraster.cpp | 6 src/gdalraster.h | 1 src/srs_api.cpp | 439 ++++++++++++++++++++++++++++++++- src/srs_api.h | 9 tests/testthat/test-GDALRaster-class.R | 2 tests/testthat/test-GDALVector-class.R | 2 tests/testthat/test-VSIFile-class.R | 2 tests/testthat/test-display.R | 34 +- tests/testthat/test-gdal_vsi.R | 32 ++ tests/testthat/test-gdalraster_proc.R | 4 tests/testthat/test-ogr_reproject.R | 4 tests/testthat/test-srs_api.R | 62 ++++ vignettes/gdal-config-quick-ref.Rmd | 2 vignettes/raster-api-tutorial.Rmd | 4 vignettes/raster-attribute-tables.Rmd | 2 51 files changed, 1497 insertions(+), 392 deletions(-)
Title: Fast Library for Number Theory
Description: An R interface to 'FLINT' <https://flintlib.org/>, a C library for
number theory. 'FLINT' extends GNU 'MPFR' <https://www.mpfr.org/>
and GNU 'MP' <https://gmplib.org/> with support for operations on
standard rings (the integers, the integers modulo n, finite
fields, the rational, p-adic, real, and complex numbers) as well
as matrices and polynomials over rings. 'FLINT' implements
midpoint-radius interval arithmetic, also known as ball
arithmetic, in the real and complex numbers, enabling computation
in arbitrary precision with rigorous propagation of rounding and
other errors; see Johansson (2017) <doi:10.1109/TC.2017.2690633>.
Finally, 'FLINT' provides ball arithmetic implementations of many
special mathematical functions, with high coverage of reference
works such as the NIST Digital Library of Mathematical Functions
<https://dlmf.nist.gov/>. The R interface defines S4 classes,
generic functions, and methods for representation and basic
operations as [...truncated...]
Author: Mikael Jagan [aut, cre] ,
Martin Maechler [ctb]
Maintainer: Mikael Jagan <jaganmn2@gmail.com>
Diff between flint versions 0.1.2 dated 2025-10-10 and 0.1.3 dated 2025-12-18
DESCRIPTION | 12 MD5 | 139 ++--- NAMESPACE | 48 + R/00_Class.R | 80 +- R/00_Generic.R | 72 ++ R/00_Utils.R | 6 R/S3.R | 16 R/acb.R | 65 +- R/acb_calc.R |only R/acf.R | 58 +- R/arb.R | 59 +- R/arb_calc.R |only R/arb_special.R | 11 R/arf.R | 57 +- R/arf_calc.R |only R/asVector.R | 128 +++- R/flint.R | 197 +++++-- R/fmpq.R | 35 + R/fmpz.R | 35 + R/mag.R | 38 + R/slong.R | 24 R/ulong.R | 24 R/utils.R | 10 R/zzz.R | 22 cleanup | 2 configure | 96 ++- configure.ac | 4 inst/NEWS.Rd | 163 ++++++ man/Part.Rd | 4 man/TypeClass.Rd |only man/acb-class.Rd | 99 ++- man/acf-class.Rd | 100 ++- man/arb-class.Rd | 101 ++- man/arb_dirichlet_zeta.Rd | 6 man/arb_hypgeom_gamma.Rd | 4 man/arb_integrate.Rd |only man/arf-class.Rd | 102 ++- man/arf_rk.Rd |only man/asVector.Rd | 14 man/flint-class.Rd | 255 +++++---- man/flint-package.Rd | 30 - man/fmpq-class.Rd | 118 +++- man/fmpz-class.Rd | 148 ++++- man/format-methods.Rd | 70 +- man/mag-class.Rd | 210 ++++--- man/ulong-class.Rd | 117 +++- src/acb.c | 910 +++++++++++++++++++++------------ src/acb_calc.c |only src/acb_special.c | 6 src/acb_template.c | 70 +- src/acf.c | 1242 ++++++++++++++++++++++++++++++---------------- src/arb.c | 998 +++++++++++++++++++++++------------- src/arb_calc.c |only src/arb_special.c | 5 src/arb_template.c | 70 +- src/arf.c | 1096 ++++++++++++++++++++++++++++++---------- src/arf_calc.c |only src/config.h.in | 39 + src/fallback.c |only src/fallback.h |only src/flint.c | 82 +-- src/flint.h | 278 +++++++++- src/fmpq.c | 855 ++++++++++++++++++++----------- src/fmpz.c | 800 +++++++++++++++++++---------- src/foreign.c | 35 - src/init.c | 48 + src/mag.c | 900 +++++++++++++++++++-------------- src/slong.c | 655 +++++++++++++----------- src/ulong.c | 613 ++++++++++++---------- src/utils.c | 199 +++++-- tests/all.equal.R | 6 tests/foreign.R | 3 tests/print.R | 5 tests/print.Rout.save | 37 - tests/reg-tests.R | 38 + tests/seq.R | 2 76 files changed, 7826 insertions(+), 3945 deletions(-)
Title: Collection of Data Structures
Description: A collection of functions to generate a large variety of
structures in high dimensions. These data structures are useful for
testing, validating, and improving algorithms used in dimensionality
reduction, clustering, machine learning, and visualization.
Author: Jayani P. Gamage [aut, cre] ,
Dianne Cook [aut] ,
Paul Harrison [aut] ,
Michael Lydeamore [aut] ,
Thiyanga S. Talagala [aut]
Maintainer: Jayani P. Gamage <jayanilakshika76@gmail.com>
Diff between cardinalR versions 1.0.4 dated 2025-12-15 and 1.0.6 dated 2025-12-18
DESCRIPTION | 6 +- MD5 | 88 ++++++++++++++++----------------- NEWS.md | 2 R/branching.R | 6 +- R/cone.R | 6 +- R/cube.R | 6 +- R/gaussian.R | 19 ++++--- R/linear.R | 8 +-- R/mobius.R | 4 - R/multi_clusts.R | 4 - R/odd_shapes.R | 14 ++--- R/polynomial.R | 4 - R/pyramid.R | 23 ++++---- R/scurve.R | 2 R/sphere.R | 6 +- R/swiss_roll.R | 4 - R/trefoil.R | 6 +- R/trigonometric.R | 6 +- R/util.R | 6 +- inst/doc/cardinalR01main_function.html | 4 - inst/doc/cardinalR02examples.html | 36 ++++++------- inst/doc/cardinalR03additionalfun.html | 74 +++++++++++++-------------- man/gen_circle.Rd | 4 - man/gen_cone.Rd | 6 +- man/gen_crescent.Rd | 4 - man/gen_curvycycle.Rd | 2 man/gen_curvycylinder.Rd | 2 man/gen_expbranches.Rd | 6 +- man/gen_gaussian.Rd | 14 +++-- man/gen_gridcube.Rd | 6 +- man/gen_longlinear.Rd | 6 +- man/gen_mobius.Rd | 4 - man/gen_multicluster.Rd | 4 - man/gen_pyrfrac.Rd | 4 - man/gen_pyrrect.Rd | 11 ++-- man/gen_pyrstar.Rd | 4 - man/gen_pyrtri.Rd | 4 - man/gen_quadratic.Rd | 4 - man/gen_scurve.Rd | 2 man/gen_swissroll.Rd | 4 - man/gen_trefoil3d.Rd | 2 man/gen_trefoil4d.Rd | 4 - man/make_mobiusgau.Rd | 6 +- tests/testthat/_snaps/gaussian.md | 2 tests/testthat/test-gaussian.R | 9 +-- 45 files changed, 230 insertions(+), 218 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 0.2.1 dated 2025-12-15 and 1.0.0 dated 2025-12-18
BayesSIM-0.2.1/BayesSIM/man/SplineState.Rd |only BayesSIM-1.0.0/BayesSIM/DESCRIPTION | 6 - BayesSIM-1.0.0/BayesSIM/MD5 | 35 ++++------ BayesSIM-1.0.0/BayesSIM/R/aa_bspline_ver3.R | 1 BayesSIM-1.0.0/BayesSIM/R/bayesSIM.R | 42 +++++++++++- BayesSIM-1.0.0/BayesSIM/R/generics.R | 63 ++++++++++++------ BayesSIM-1.0.0/BayesSIM/R/gpPolar-sampler.R | 2 BayesSIM-1.0.0/BayesSIM/R/utils.R | 13 +++ BayesSIM-1.0.0/BayesSIM/man/DATA1.Rd | 2 BayesSIM-1.0.0/BayesSIM/man/coef.bsim.Rd | 2 BayesSIM-1.0.0/BayesSIM/man/fitted.bsim.Rd | 12 +-- BayesSIM-1.0.0/BayesSIM/man/genBasic.Rd | 2 BayesSIM-1.0.0/BayesSIM/man/getModelDef.Rd | 14 +++- BayesSIM-1.0.0/BayesSIM/man/gof.Rd | 2 BayesSIM-1.0.0/BayesSIM/man/nimTraceplot.Rd | 2 BayesSIM-1.0.0/BayesSIM/man/plot.Rd | 2 BayesSIM-1.0.0/BayesSIM/man/predict.bsim.Rd | 2 BayesSIM-1.0.0/BayesSIM/man/summary.bsim.Rd | 2 BayesSIM-1.0.0/BayesSIM/tests/testthat/test-generic.R | 4 - 19 files changed, 145 insertions(+), 63 deletions(-)
Title: Convert R Models to 'PMML'
Description: R wrapper for the 'JPMML-R' library <https://github.com/jpmml/jpmml-r>,
which converts R models to Predictive Model Markup Language ('PMML').
Author: Villu Ruusmann [aut, cre]
Maintainer: Villu Ruusmann <villu.ruusmann@gmail.com>
This is a re-admission after prior archival of version 0.30.0 dated 2025-01-24
Diff between r2pmml versions 0.30.0 dated 2025-01-24 and 0.31.0 dated 2025-12-18
r2pmml-0.30.0/r2pmml/README.md |only r2pmml-0.30.0/r2pmml/inst/java/istack-commons-runtime-4.0.1.jar |only r2pmml-0.30.0/r2pmml/inst/java/jakarta.activation-2.0.1.jar |only r2pmml-0.30.0/r2pmml/inst/java/jakarta.xml.bind-api-3.0.1.jar |only r2pmml-0.30.0/r2pmml/inst/java/jaxb-core-3.0.2.jar |only r2pmml-0.30.0/r2pmml/inst/java/jaxb-runtime-3.0.2.jar |only r2pmml-0.30.0/r2pmml/inst/java/jcommander-1.72.jar |only r2pmml-0.30.0/r2pmml/inst/java/pmml-converter-1.5.12.jar |only r2pmml-0.30.0/r2pmml/inst/java/pmml-lightgbm-1.5.6.jar |only r2pmml-0.30.0/r2pmml/inst/java/pmml-model-1.6.11.jar |only r2pmml-0.30.0/r2pmml/inst/java/pmml-model-metro-1.6.11.jar |only r2pmml-0.30.0/r2pmml/inst/java/pmml-rexp-1.6.6.jar |only r2pmml-0.30.0/r2pmml/inst/java/pmml-rexp-evaluator-1.6.6.jar |only r2pmml-0.30.0/r2pmml/inst/java/pmml-rexp-lightgbm-1.6.6.jar |only r2pmml-0.30.0/r2pmml/inst/java/pmml-rexp-xgboost-1.6.6.jar |only r2pmml-0.30.0/r2pmml/inst/java/pmml-xgboost-1.8.8.jar |only r2pmml-0.30.0/r2pmml/inst/java/r2pmml-1.0-SNAPSHOT.jar |only r2pmml-0.30.0/r2pmml/inst/java/slf4j-api-1.7.36.jar |only r2pmml-0.30.0/r2pmml/inst/java/slf4j-jdk14-1.7.36.jar |only r2pmml-0.30.0/r2pmml/java/pmml-converter-1.5.12-sources.jar |only r2pmml-0.30.0/r2pmml/java/pmml-lightgbm-1.5.6-sources.jar |only r2pmml-0.30.0/r2pmml/java/pmml-rexp-1.6.6-sources.jar |only r2pmml-0.30.0/r2pmml/java/pmml-rexp-evaluator-1.6.6-sources.jar |only r2pmml-0.30.0/r2pmml/java/pmml-rexp-lightgbm-1.6.6-sources.jar |only r2pmml-0.30.0/r2pmml/java/pmml-rexp-xgboost-1.6.6-sources.jar |only r2pmml-0.30.0/r2pmml/java/pmml-xgboost-1.8.8-sources.jar |only r2pmml-0.31.0/r2pmml/DESCRIPTION | 19 +- r2pmml-0.31.0/r2pmml/MD5 | 77 ++++------ r2pmml-0.31.0/r2pmml/NEWS.md | 10 + r2pmml-0.31.0/r2pmml/R/decoration.R | 47 ++++-- r2pmml-0.31.0/r2pmml/R/r2pmml.R | 12 + r2pmml-0.31.0/r2pmml/R/verification.R | 27 ++- r2pmml-0.31.0/r2pmml/inst/java/classpath.txt | 36 ++-- r2pmml-0.31.0/r2pmml/inst/java/guava-19.0-minified.jar |binary r2pmml-0.31.0/r2pmml/inst/java/istack-commons-runtime-4.1.2.jar |only r2pmml-0.31.0/r2pmml/inst/java/jakarta.activation-api-2.1.4.jar |only r2pmml-0.31.0/r2pmml/inst/java/jakarta.xml.bind-api-4.0.4.jar |only r2pmml-0.31.0/r2pmml/inst/java/jaxb-core-4.0.6.jar |only r2pmml-0.31.0/r2pmml/inst/java/jaxb-runtime-4.0.6.jar |only r2pmml-0.31.0/r2pmml/inst/java/jcommander-1.82.jar |only r2pmml-0.31.0/r2pmml/inst/java/pmml-converter-1.6.5.jar |only r2pmml-0.31.0/r2pmml/inst/java/pmml-lightgbm-1.6.2.jar |only r2pmml-0.31.0/r2pmml/inst/java/pmml-model-1.7.6.jar |only r2pmml-0.31.0/r2pmml/inst/java/pmml-model-metro-1.7.6.jar |only r2pmml-0.31.0/r2pmml/inst/java/pmml-rexp-1.7.7.jar |only r2pmml-0.31.0/r2pmml/inst/java/pmml-rexp-evaluator-1.7.7.jar |only r2pmml-0.31.0/r2pmml/inst/java/pmml-rexp-lightgbm-1.7.7.jar |only r2pmml-0.31.0/r2pmml/inst/java/pmml-rexp-xgboost-1.7.7.jar |only r2pmml-0.31.0/r2pmml/inst/java/pmml-xgboost-1.9.3.jar |only r2pmml-0.31.0/r2pmml/inst/java/r2pmml-1.1-SNAPSHOT.jar |only r2pmml-0.31.0/r2pmml/inst/java/slf4j-api-2.0.17.jar |only r2pmml-0.31.0/r2pmml/inst/java/slf4j-jdk14-2.0.17.jar |only r2pmml-0.31.0/r2pmml/java/pmml-converter-1.6.5-sources.jar |only r2pmml-0.31.0/r2pmml/java/pmml-lightgbm-1.6.2-sources.jar |only r2pmml-0.31.0/r2pmml/java/pmml-rexp-1.7.7-sources.jar |only r2pmml-0.31.0/r2pmml/java/pmml-rexp-evaluator-1.7.7-sources.jar |only r2pmml-0.31.0/r2pmml/java/pmml-rexp-lightgbm-1.7.7-sources.jar |only r2pmml-0.31.0/r2pmml/java/pmml-rexp-xgboost-1.7.7-sources.jar |only r2pmml-0.31.0/r2pmml/java/pmml-xgboost-1.9.3-sources.jar |only r2pmml-0.31.0/r2pmml/man/decorate.glmnet.Rd | 3 r2pmml-0.31.0/r2pmml/man/decorate.party.Rd | 3 r2pmml-0.31.0/r2pmml/man/decorate.ranger.Rd | 3 r2pmml-0.31.0/r2pmml/man/decorate.xgb.Booster.Rd | 24 +-- r2pmml-0.31.0/r2pmml/man/r2pmml.Rd | 12 + r2pmml-0.31.0/r2pmml/man/verify.glm.Rd | 3 65 files changed, 168 insertions(+), 108 deletions(-)
Title: Easy and Powerful Webservers
Description: Automatically create a webserver from annotated 'R' files or by
building it up programmatically. Provides automatic 'OpenAPI' documentation,
input handling, async support, and middleware support.
Author: Thomas Lin Pedersen [aut, cre] ,
Posit Software, PBC [cph, fnd]
Maintainer: Thomas Lin Pedersen <thomas.pedersen@posit.co>
Diff between plumber2 versions 0.1.0 dated 2025-09-22 and 0.1.1 dated 2025-12-18
DESCRIPTION | 16 ++++---- MD5 | 74 +++++++++++++++++++-------------------- NEWS.md | 4 ++ R/Plumber2.R | 6 ++- R/async.R | 2 - R/create_server_yml.R | 2 - R/extension_tags.R | 2 - R/parse_plumber_file.R | 4 +- R/parsers.R | 2 - R/serializers.R | 23 +++--------- README.md | 2 - build/vignette.rds |binary inst/doc/annotations.html | 2 - inst/doc/execution-model.html | 4 +- inst/doc/execution-model.qmd | 2 - inst/doc/introduction.html | 2 - inst/doc/migration.html | 2 - inst/doc/plumber.html | 5 +- inst/doc/plumber.qmd | 4 +- inst/doc/programmatic-usage.html | 2 - inst/doc/rendering-output.html | 4 +- inst/doc/routing-and-input.html | 2 - inst/doc/security.html | 6 +-- inst/doc/security.qmd | 2 - inst/doc/tips-and-tricks.html | 2 - man/add_plumber2_tag.Rd | 3 + man/api_shiny.Rd | 2 - man/apply_plumber2_block.Rd | 3 + man/create_server_yml.Rd | 2 - man/device_formatter.Rd | 3 + man/parse_plumber_file.Rd | 2 - man/plumber2-package.Rd | 8 ++-- man/register_async.Rd | 3 + man/register_parser.Rd | 3 + man/register_serializer.Rd | 3 + vignettes/execution-model.qmd | 2 - vignettes/plumber.qmd | 4 +- vignettes/security.qmd | 2 - 38 files changed, 113 insertions(+), 103 deletions(-)
Title: Meta Analysis Instrumental Variable Estimator
Description: Meta-analysis traditionally assigns more weight to studies with lower standard errors,
assuming higher precision. However, in observational research, precision must be
estimated and is vulnerable to manipulation, such as p-hacking, to achieve statistical
significance. This can lead to spurious precision, invalidating inverse-variance
weighting and bias-correction methods like funnel plots. Common methods for addressing
publication bias, including selection models, often fail or exacerbate the problem.
This package introduces an instrumental variable approach to limit bias caused by
spurious precision in meta-analysis. Methods are described in 'Irsova et al.' (2025)
<doi:10.1038/s41467-025-63261-0>.
Author: Zuzana Irsova [aut] ,
Pedro R. D. Bom [aut] ,
Tomas Havranek [aut] ,
Heiko Rachinger [aut] ,
Petr Cala [aut, cre]
Maintainer: Petr Cala <cala.p@seznam.cz>
Diff between MAIVE versions 0.1.10 dated 2025-12-08 and 0.1.11 dated 2025-12-18
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 12 ++++++++++++ R/maivefunction.r | 31 ++++++++++++++++++++++++++++++- tests/testthat/test-maive_first_stage.R | 25 +++++++++++++++++++++++++ 5 files changed, 74 insertions(+), 8 deletions(-)
Title: 'RStudio' Addins and 'Shiny' Modules for Medical Research
Description: 'RStudio' addins and 'Shiny' modules for descriptive statistics, regression and survival analysis.
Author: Jinseob Kim [aut, cre] ,
Zarathu [cph, fnd],
Hyunki Lee [aut],
Changwoo Lim [aut],
Jinhwan Kim [aut] ,
Yoonkyoung Jeon [aut],
Jaewoong Heo [aut],
Youngsun Park [aut] ,
Hyungwoo Jo [aut],
Jeongmin Seo [aut],
Hojun LEE [aut],
Sungho Choi [aut],
Yeji Ka [...truncated...]
Maintainer: Jinseob Kim <jinseob2kim@gmail.com>
Diff between jsmodule versions 1.6.15 dated 2025-10-09 and 2.0.1 dated 2025-12-18
DESCRIPTION | 19 ++++--- MD5 | 29 +++++++++-- NAMESPACE | 24 +++++++++ NEWS.md | 23 +++++++++ R/aiAssistant.R |only R/aiPrompts.R |only R/jsBasicGadget.R | 80 +++++++++++++++++++++++++++++++-- build/vignette.rds |binary inst/doc/ai-assistant-guide-ko.R |only inst/doc/ai-assistant-guide-ko.Rmd |only inst/doc/ai-assistant-guide-ko.html |only inst/doc/ai-assistant-guide.R |only inst/doc/ai-assistant-guide.Rmd |only inst/doc/ai-assistant-guide.html |only inst/doc/jsmodule.html | 4 - inst/doc/jsmodule_subgroup_cmprsk.html | 4 - inst/prompts |only man/aiAssistant.Rd |only man/aiAssistantUI.Rd |only man/is_production_environment.Rd |only man/safe_eval_expr.Rd |only vignettes/ai-assistant-guide-ko.Rmd |only vignettes/ai-assistant-guide.Rmd |only 23 files changed, 159 insertions(+), 24 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-12-03 0.1.2
2025-10-12 0.1.1
2025-08-28 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-11-10 0.0.6
2023-09-15 0.0.5
2021-09-19 0.0.4
2020-06-12 0.0.3
Title: Hierarchical Regularized Regression
Description: Fits hierarchical regularized regression models
to incorporate potentially informative external data, Weaver and Lewinger (2019) <doi:10.21105/joss.01761>.
Utilizes coordinate descent to efficiently fit regularized regression models both with and without
external information with the most common penalties used in practice (i.e. ridge, lasso, elastic net).
Support for standard R matrices, sparse matrices and big.matrix objects.
Author: Garrett Weaver [aut, cre] ,
Dixin Shen [aut],
Juan Pablo Lewinger [ctb, ths]
Maintainer: Garrett Weaver <gweaverdev@icloud.com>
Diff between xrnet versions 1.0.0 dated 2024-07-15 and 1.0.1 dated 2025-12-18
DESCRIPTION | 13 +++++++------ MD5 | 4 ++-- NEWS.md | 4 ++++ 3 files changed, 13 insertions(+), 8 deletions(-)
Title: Interface to the 'ASSP' Library
Description: A wrapper around Michel Scheffers's 'libassp' (<https://libassp.sourceforge.net/>).
The 'libassp' (Advanced Speech Signal Processor) library aims at providing
functionality for handling speech signal files in most common audio formats
and for performing analyses common in phonetic science/speech science. This
includes the calculation of formants, fundamental frequency, root mean
square, auto correlation, a variety of spectral analyses, zero crossing
rate, filtering etc. This wrapper provides R with a large subset of
'libassp's signal processing functions and provides them to the user in a
(hopefully) user-friendly manner.
Author: Markus Jochim [cre, aut] ,
Raphael Winkelmann [aut],
Lasse Bombien [aut],
Michel Scheffers [aut]
Maintainer: Markus Jochim <markusjochim@phonetik.uni-muenchen.de>
Diff between wrassp versions 1.0.5 dated 2024-01-09 and 1.0.6 dated 2025-12-18
wrassp-1.0.5/wrassp/R/wrassp-packageDocs.R |only wrassp-1.0.6/wrassp/DESCRIPTION | 22 +++++++------- wrassp-1.0.6/wrassp/MD5 | 24 +++++++-------- wrassp-1.0.6/wrassp/NEWS.md | 7 ++++ wrassp-1.0.6/wrassp/R/AsspDataObj.R | 2 - wrassp-1.0.6/wrassp/R/wrassp-package.R |only wrassp-1.0.6/wrassp/build/vignette.rds |binary wrassp-1.0.6/wrassp/inst/doc/wrassp_intro.R | 4 +- wrassp-1.0.6/wrassp/inst/doc/wrassp_intro.html | 39 ++++++------------------- wrassp-1.0.6/wrassp/man/wrassp-package.Rd | 24 +++++++++++++-- wrassp-1.0.6/wrassp/src/assp/asspfio.c | 6 +-- wrassp-1.0.6/wrassp/src/assp/headers.c | 1 wrassp-1.0.6/wrassp/src/dataobj.c | 2 - wrassp-1.0.6/wrassp/src/performAssp.c | 1 14 files changed, 67 insertions(+), 65 deletions(-)
Title: Lightweight Well-Known Geometry Parsing
Description: Provides a minimal R and C++ API for parsing
well-known binary and well-known text representation of
geometries to and from R-native formats.
Well-known binary is compact
and fast to parse; well-known text is human-readable
and is useful for writing tests. These formats are
useful in R only if the information they contain can be
accessed in R, for which high-performance functions
are provided here.
Author: Dewey Dunnington [aut, cre] ,
Edzer Pebesma [aut] ,
Anthony North [ctb]
Maintainer: Dewey Dunnington <dewey@fishandwhistle.net>
Diff between wk versions 0.9.4 dated 2024-10-11 and 0.9.5 dated 2025-12-18
DESCRIPTION | 13 +++++++------ MD5 | 20 ++++++++++---------- NAMESPACE | 4 ++++ NEWS.md | 5 +++++ R/pkg-vctrs.R | 24 ++++++++++++++++++++++++ R/wk-crs.R | 11 +++++++++++ src/bbox-handler.c | 7 ++++++- src/vertex-filter.c | 6 ++++-- src/xy-writer.c | 4 ++-- tests/testthat/Rplots.pdf |binary tests/testthat/test-wk-crs.R | 5 ++++- 11 files changed, 77 insertions(+), 22 deletions(-)
Title: Predictive (Classification and Regression) Models Homologator
Description: Methods to unify the different ways of creating predictive models and their different predictive formats for classification and regression. It includes methods such as K-Nearest Neighbors Schliep, K. P. (2004) <doi:10.5282/ubm/epub.1769>, Decision Trees Leo Breiman, Jerome H. Friedman, Richard A. Olshen, Charles J. Stone (2017) <doi:10.1201/9781315139470>, ADA Boosting Esteban Alfaro, Matias Gamez, Noelia García (2013) <doi:10.18637/jss.v054.i02>, Extreme Gradient Boosting Chen & Guestrin (2016) <doi:10.1145/2939672.2939785>, Random Forest Breiman (2001) <doi:10.1023/A:1010933404324>, Neural Networks Venables, W. N., & Ripley, B. D. (2002) <ISBN:0-387-95457-0>, Support Vector Machines Bennett, K. P. & Campbell, C. (2000) <doi:10.1145/380995.380999>, Bayesian Methods Gelman, A., Carlin, J. B., Stern, H. S., & Rubin, D. B. (1995) <doi:10.1201/9780429258411>, Linear Discriminant Analysis Venables, W. N., & Ripley, B. [...truncated...]
Author: Oldemar Rodriguez R. [aut, cre],
Andres Navarro D. [aut],
Ariel Arroyo S. [aut],
Diego Jimenez A. [aut],
Jennifer Lobo V. [aut]
Maintainer: Oldemar Rodriguez R. <oldemar.rodriguez@ucr.ac.cr>
Diff between traineR versions 2.2.2 dated 2025-05-23 and 2.2.9 dated 2025-12-18
DESCRIPTION | 15 - MD5 | 14 - NAMESPACE | 2 R/predict.R | 82 ++++++--- R/train.R | 463 ++++++++++++++++++++++++++++++++------------------- R/traineR.R | 5 man/train.xgboost.Rd | 139 ++++----------- man/traineR.Rd | 5 8 files changed, 421 insertions(+), 304 deletions(-)
Title: Create Common TLGs Used in Clinical Trials
Description: Table, Listings, and Graphs (TLG) library for common outputs
used in clinical trials.
Author: Joe Zhu [aut, cre] ,
Daniel Sabanes Bove [aut],
Jana Stoilova [aut],
Davide Garolini [aut] ,
Emily de la Rua [aut] ,
Abinaya Yogasekaram [aut] ,
Heng Wang [aut],
Francois Collin [aut],
Adrian Waddell [aut],
Pawel Rucki [aut],
Chendi Liao [aut],
Jenni [...truncated...]
Maintainer: Joe Zhu <joe.zhu@roche.com>
Diff between tern versions 0.9.9 dated 2025-06-20 and 0.9.10 dated 2025-12-18
tern-0.9.10/tern/DESCRIPTION | 26 tern-0.9.10/tern/MD5 | 890 - tern-0.9.10/tern/NAMESPACE | 2 tern-0.9.10/tern/NEWS.md | 1788 +-- tern-0.9.10/tern/R/abnormal.R | 496 - tern-0.9.10/tern/R/abnormal_by_baseline.R | 600 - tern-0.9.10/tern/R/abnormal_by_marked.R | 608 - tern-0.9.10/tern/R/abnormal_by_worst_grade.R | 606 - tern-0.9.10/tern/R/abnormal_lab_worsen_by_baseline.R | 974 +- tern-0.9.10/tern/R/analyze_colvars_functions.R | 64 tern-0.9.10/tern/R/analyze_functions.R | 90 tern-0.9.10/tern/R/analyze_variables.R | 1657 +-- tern-0.9.10/tern/R/analyze_vars_in_cols.R | 774 - tern-0.9.10/tern/R/argument_convention.R | 2 tern-0.9.10/tern/R/bland_altman.R | 312 tern-0.9.10/tern/R/combination_function.R | 174 tern-0.9.10/tern/R/compare_variables.R | 3 tern-0.9.10/tern/R/control_incidence_rate.R | 76 tern-0.9.10/tern/R/control_logistic.R | 74 tern-0.9.10/tern/R/control_step.R | 154 tern-0.9.10/tern/R/control_survival.R | 146 tern-0.9.10/tern/R/count_cumulative.R | 590 - tern-0.9.10/tern/R/count_missed_doses.R | 462 tern-0.9.10/tern/R/count_occurrences.R | 724 - tern-0.9.10/tern/R/count_occurrences_by_grade.R | 994 +- tern-0.9.10/tern/R/count_patients_with_event.R | 494 - tern-0.9.10/tern/R/count_patients_with_flags.R | 524 - tern-0.9.10/tern/R/count_values.R | 438 tern-0.9.10/tern/R/cox_regression.R | 978 +- tern-0.9.10/tern/R/cox_regression_inter.R | 2 tern-0.9.10/tern/R/coxph.R | 792 - tern-0.9.10/tern/R/d_pkparam.R | 836 - tern-0.9.10/tern/R/data.R | 60 tern-0.9.10/tern/R/desctools_binom_diff.R | 1392 +- tern-0.9.10/tern/R/df_explicit_na.R | 256 tern-0.9.10/tern/R/estimate_multinomial_rsp.R | 474 tern-0.9.10/tern/R/estimate_proportion.R | 1334 +- tern-0.9.10/tern/R/fit_rsp_step.R | 274 tern-0.9.10/tern/R/fit_survival_step.R | 234 tern-0.9.10/tern/R/formatting_functions.R | 1150 +- tern-0.9.10/tern/R/g_forest.R | 2092 ++-- tern-0.9.10/tern/R/g_ipp.R | 552 - tern-0.9.10/tern/R/g_km.R | 1212 +- tern-0.9.10/tern/R/g_lineplot.R | 9 tern-0.9.10/tern/R/g_step.R | 406 tern-0.9.10/tern/R/g_waterfall.R | 264 tern-0.9.10/tern/R/h_adsl_adlb_merge_using_worst_flag.R | 290 tern-0.9.10/tern/R/h_biomarkers_subgroups.R | 484 - 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Title: Penalized Quantile Regression
Description: Performs penalized quantile regression with LASSO, elastic net, SCAD and MCP penalty functions including group penalties. In addition, offers a group penalty that provides consistent variable selection across quantiles. Provides a function that automatically generates lambdas and evaluates different models with cross validation or BIC, including a large p version of BIC. Below URL provides a link to a work in progress vignette.
Author: Ben Sherwood [aut, cre],
Shaobo Li [aut],
Adam Maidman [aut]
Maintainer: Ben Sherwood <ben.sherwood@ku.edu>
Diff between rqPen versions 4.1.3 dated 2025-02-13 and 4.1.4 dated 2025-12-18
DESCRIPTION | 8 MD5 | 11 NEWS | 4 R/mainFunctions.R | 4608 +++++++++++++++++++++++++++--------------------------- README.md | 11 build/partial.rdb |binary inst/CITATION |only 7 files changed, 2319 insertions(+), 2323 deletions(-)
Title: Unified Handling of Graphics Devices
Description: Functions for creating plots and image files in a unified way
regardless of output format (EPS, PDF, PNG, SVG, TIFF, WMF, etc.). Default
device options as well as scales and aspect ratios are controlled in a uniform
way across all device types. Switching output format requires minimal changes
in code. This package is ideal for large-scale batch processing, because it
will never leave open graphics devices or incomplete image files behind, even on
errors or user interrupts.
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Diff between R.devices versions 2.17.2 dated 2024-01-29 and 2.17.3 dated 2025-12-18
DESCRIPTION | 7 ++++--- MD5 | 14 +++++++------- NEWS.md | 7 +++++++ build/vignette.rds |binary inst/doc/R.devices-overview.pdf |binary inst/doc/R.devices-overview.tex.rsp | 4 ++-- man/R.devices-package.Rd | 6 ++---- vignettes/R.devices-overview.tex.rsp | 4 ++-- 8 files changed, 24 insertions(+), 18 deletions(-)
Title: Tour in 'Loon'
Description: Implement tour algorithms in interactive graphical system 'loon'.
Author: Zehao Xu [aut, cre],
R. Wayne Oldford [aut]
Maintainer: Zehao Xu <z267xu@gmail.com>
Diff between loon.tourr versions 0.1.4 dated 2024-04-09 and 0.1.5 dated 2025-12-18
DESCRIPTION | 8 ++++---- MD5 | 26 +++++++++++++------------- R/callback_plot.R | 9 +++++---- R/l_getNDimStates.R | 5 +++-- R/l_initialPos.R | 9 +++++---- R/l_isTour.R | 9 +++++---- R/l_layer_get-.R | 19 ++++++++++--------- R/l_tour.R | 10 +++++----- R/l_tour_pairs.R | 2 +- R/tk_get_row_and_columns.R | 9 +++++---- inst/doc/classification.html | 4 ++-- inst/doc/tours.html | 4 ++-- man/l_tour.Rd | 10 +++++----- man/tour_pairs.Rd | 4 ++-- 14 files changed, 67 insertions(+), 61 deletions(-)
Title: Tidy Statistical Inference
Description: The objective of this package is to perform inference using
an expressive statistical grammar that coheres with the tidy design
framework.
Author: Andrew Bray [aut],
Chester Ismay [aut] ,
Evgeni Chasnovski [aut] ,
Simon Couch [aut, cre] ,
Ben Baumer [aut] ,
Mine Cetinkaya-Rundel [aut] ,
Ted Laderas [ctb] ,
Nick Solomon [ctb],
Johanna Hardin [ctb],
Albert Y. Kim [ctb] ,
Neal Fultz [ctb],
Doug Fr [...truncated...]
Maintainer: Simon Couch <simon.couch@posit.co>
Diff between infer versions 1.0.9 dated 2025-06-26 and 1.1.0 dated 2025-12-18
DESCRIPTION | 10 MD5 | 204 ++--- NAMESPACE | 1 NEWS.md | 11 R/calculate.R | 105 ++- R/generate.R | 4 R/get_confidence_interval.R | 2 R/observe.R | 2 R/set_params.R | 2 R/shade_confidence_interval.R | 5 R/shade_p_value.R | 5 R/utils.R | 4 R/visualize.R | 2 README.md | 8 build/partial.rdb |binary build/vignette.rds |binary inst/doc/anova.html | 10 inst/doc/chi_squared.html | 8 inst/doc/infer.html | 10 inst/doc/observed_stat_examples.html | 96 +- inst/doc/paired.html | 30 inst/doc/t_test.html | 6 man/calculate.Rd | 39 + man/figures/logo.png |binary man/observe.Rd | 39 + man/reexports.Rd | 2 tests/testthat/_snaps/assume.md | 8 tests/testthat/_snaps/calculate.md | 54 + tests/testthat/_snaps/get_confidence_interval.md | 12 tests/testthat/_snaps/shade_confidence_interval/ci-both-fill.svg | 50 - tests/testthat/_snaps/shade_confidence_interval/ci-both-nofill.svg | 48 - tests/testthat/_snaps/shade_confidence_interval/ci-extra-aes-1.svg | 48 - tests/testthat/_snaps/shade_confidence_interval/ci-extra-aes-2.svg | 48 - 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tests/testthat/test-observe.R | 14 tests/testthat/test-shade_p_value.R | 6 tests/testthat/test-specify.R | 1 tests/testthat/test-visualize.R | 1 105 files changed, 2553 insertions(+), 2126 deletions(-)
Title: Fast Gaussian Process Computation Using Vecchia's Approximation
Description: Functions for fitting and doing predictions with
Gaussian process models using Vecchia's (1988) approximation.
Package also includes functions for reordering input locations,
finding ordered nearest neighbors (with help from 'FNN' package),
grouping operations, and conditional simulations.
Covariance functions for spatial and spatial-temporal data
on Euclidean domains and spheres are provided. The original
approximation is due to Vecchia (1988)
<http://www.jstor.org/stable/2345768>, and the reordering and
grouping methods are from Guinness (2018)
<doi:10.1080/00401706.2018.1437476>.
Model fitting employs a Fisher scoring algorithm described
in Guinness (2019) <doi:10.48550/arXiv.1905.08374>.
Author: Joseph Guinness [aut, cre],
Matthias Katzfuss [aut],
Youssef Fahmy [aut]
Maintainer: Joseph Guinness <joeguinness@gmail.com>
Diff between GpGp versions 0.5.1 dated 2024-10-16 and 1.0.0 dated 2025-12-18
DESCRIPTION | 10 +++++----- MD5 | 9 +++++---- NEWS.md | 4 ++++ R/predictions.R | 15 ++++++++++++--- man/predictions.Rd | 4 ++-- tests/testthat/test_predictions.R |only 6 files changed, 28 insertions(+), 14 deletions(-)
Title: Simulated Goodness-of-Fit Tests for Discrete Distributions
Description: Implements fast Monte Carlo simulations for
goodness-of-fit (GOF) tests for discrete distributions. This
includes tests based on the Chi-squared statistic, the
log-likelihood-ratio (G^2) statistic, the Freeman-Tukey
(Hellinger-distance) statistic, the Kolmogorov-Smirnov
statistic, the Cramer-von Mises statistic as described in
Choulakian, Lockhart and Stephens (1994) <doi:10.2307/3315828>,
and the root-mean-square statistic, see Perkins,
Tygert, and Ward (2011) <doi:10.1016/j.amc.2011.03.124>.
Author: Josh McCormick [aut, cre]
Maintainer: Josh McCormick <josh.mccormick@aya.yale.edu>
Diff between discretefit versions 0.1.2 dated 2022-01-25 and 0.1.3 dated 2025-12-18
DESCRIPTION | 9 MD5 | 12 NEWS.md | 5 build/vignette.rds |binary inst/doc/package_introduction.R | 2 inst/doc/package_introduction.html | 689 ++++++++++++++++++++++++++----------- src/RcppExports.cpp | 5 7 files changed, 517 insertions(+), 205 deletions(-)