Title: Assessment of Diagnostic and Prognostic Markers
Description: Provides estimations of the Receiver Operating Characteristic (ROC) curve and the Area Under the Curve (AUC) based on the two-stages mixed-subjects ROC curve estimator (Diaz-Coto et al. (2020) <doi:10.1515/ijb-2019-0097> and Diaz-Coto et al. (2020) <doi:10.1080/00949655.2020.1736071>).
Author: Susana Diaz-Coto [aut],
Susana Diaz-Coto [cre]
Maintainer: Susana Diaz-Coto <susanacoto@gmail.com>
Diff between sMSROC versions 0.1.2 dated 2023-12-07 and 0.1.3 dated 2025-10-19
DESCRIPTION | 7 +++---- MD5 | 16 ++++++++-------- R/ComputeROC.R | 26 ++++++++++++++------------ R/Summary.R | 10 ++++++---- build/partial.rdb |binary man/evol_auc.Rd | 4 ++-- man/explore_table.Rd | 2 +- man/probs_pred.Rd | 4 ++-- man/sMSROC_plot.Rd | 6 +++--- 9 files changed, 39 insertions(+), 36 deletions(-)
Title: Refined Modified Stahel-Donoho Estimators for Outlier Detection
Description: A function for multivariate outlier detection named Modified Stahel-Donoho (MSD) estimators is contained. The function is for elliptically distributed datasets and recognizes outliers based on Mahalanobis distance.
The function is called the single core version in Wada & Tsubaki (2013) <doi:10.1109/CLOUDCOM-ASIA.2013.86> and evaluated with other methods in Wada, Kawano & Tsubaki (2020) <doi:10.17713/ajs.v49i2.872>.
Author: Kazumi Wada [aut, cre]
Maintainer: Kazumi Wada <kazwd2008@gmail.com>
Diff between RMSD versions 0.1.0 dated 2023-11-06 and 0.1.1 dated 2025-10-19
DESCRIPTION | 12 ++++++------ MD5 | 6 +++--- man/RMSD.Rd | 2 +- tests/testthat/test01.r | 12 +++++++++++- 4 files changed, 21 insertions(+), 11 deletions(-)
Title: Monte Carlo Confidence Intervals in Structural Equation Modeling
Description: Monte Carlo confidence intervals for free and defined parameters
in models fitted in the structural equation modeling package 'lavaan'
can be generated using the 'semmcci' package.
'semmcci' has three main functions, namely, MC(), MCMI(), and MCStd().
The output of 'lavaan' is passed as the first argument
to the MC() function or the MCMI() function to generate Monte Carlo confidence intervals.
Monte Carlo confidence intervals for the standardized estimates
can also be generated by passing the output of the MC() function or the MCMI() function
to the MCStd() function.
A description of the package and code examples
are presented in Pesigan and Cheung (2024) <doi:10.3758/s13428-023-02114-4>.
Author: Ivan Jacob Agaloos Pesigan [aut, cre, cph] ,
Shu Fai Cheung [ctb]
Maintainer: Ivan Jacob Agaloos Pesigan <r.jeksterslab@gmail.com>
Diff between semmcci versions 1.1.4 dated 2024-03-17 and 1.1.5 dated 2025-10-19
DESCRIPTION | 20 LICENSE | 2 MD5 | 129 +- NAMESPACE | 1 NEWS.md | 8 R/lavHelper-lav-2-ram-dot.R | 12 R/lavHelper-ram-2-lav-dot.R | 2 R/lavHelper-std-lav-dot.R | 10 R/lavHelper-std-ram-dot.R | 12 R/lavHelper-theta-hat-dot.R | 46 - R/linearAlgebra-positive-definite-test-dot.R | 8 R/miHelper-ariv-dot.R | 27 R/miHelper-mi-combine-dot.R | 21 R/miHelper-total-adj-dot.R | 15 R/nBootstrap-ci-format-dot.R | 2 R/nBootstrap-pc-ci-dot.R | 12 R/nBootstrap-pc-probs-dot.R | 8 R/randomGaussian-location-dot.R | 12 R/randomGaussian-random-gaussian-chol-dot.R | 4 R/randomGaussian-random-gaussian-eigen-dot.R | 12 R/randomGaussian-random-gaussian-svd-dot.R | 12 R/randomGaussian-random-gaussian-z-dot.R | 14 R/semmcci-func.R | 6 R/semmcci-mc-ci-dot.R | 8 R/semmcci-mc-def-dot.R | 31 R/semmcci-mc-func.R | 51 - R/semmcci-mc-generic.R | 18 R/semmcci-mc-mi.R | 28 R/semmcci-mc-std.R | 41 R/semmcci-mc.R | 8 R/semmcci-methods.R | 79 + R/semmcci-theta-hat-star-dot.R | 8 build/partial.rdb |binary inst/CITATION | 3 man/Func.Rd | 4 man/MC.Rd | 2 man/MCFunc.Rd | 4 man/MCGeneric.Rd | 2 man/MCMI.Rd | 2 man/MCStd.Rd | 2 man/print.semmcci.Rd | 2 man/semmcci-package.Rd | 2 tests/testthat/test-semmcci-mc-func-simple-med.R | 439 +++++++--- tests/testthat/test-semmcci-mc-generic-simple-med-defined.R | 341 +++++-- tests/testthat/test-semmcci-mc-latent-med-defined-none.R | 191 ++-- tests/testthat/test-semmcci-mc-latent-med-defined.R | 181 +++- tests/testthat/test-semmcci-mc-latent-med-std-defined-none.R | 216 +++- tests/testthat/test-semmcci-mc-latent-med-std-defined.R | 208 +++- tests/testthat/test-semmcci-mc-moment.R | 77 - tests/testthat/test-semmcci-mc-simple-med-defined-equality.R | 251 ++++- tests/testthat/test-semmcci-mc-simple-med-defined-inequality.R | 251 ++++- tests/testthat/test-semmcci-mc-simple-med-defined-meanstructure.R | 275 ++++-- tests/testthat/test-semmcci-mc-simple-med-defined-mi-amelia.R | 97 +- tests/testthat/test-semmcci-mc-simple-med-defined-mi-list.R | 97 +- tests/testthat/test-semmcci-mc-simple-med-defined-mi-mice.R | 99 +- tests/testthat/test-semmcci-mc-simple-med-defined-none.R | 239 +++-- tests/testthat/test-semmcci-mc-simple-med-defined.R | 271 ++++-- tests/testthat/test-semmcci-mc-simple-med-std-defined-meanstructure.R | 258 ++++- tests/testthat/test-semmcci-mc-simple-med-std-defined-none-random-x.R | 260 ++++- tests/testthat/test-semmcci-mc-simple-med-std-defined-none.R | 10 tests/testthat/test-semmcci-mc-simple-med-std-defined.R | 264 ++++-- tests/testthat/test-semmcci-methods.R | 105 +- tests/testthat/test-semmcci-npd.R | 80 + tests/testthat/test-semmcci-zzz-coverage.R | 21 tests/testthat/test-semmcci-zzz-heywood.R | 69 - tests/testthat/test-semmcci.R |only 66 files changed, 3326 insertions(+), 1664 deletions(-)
Title: Classify RGB Images into Forest or Non-Forest
Description: Implements two out-of box classifiers presented in <doi:10.1002/env.2848> for
distinguishing forest and non-forest terrain images. Under these algorithms, there are
frequentist approaches: one parametric, using stable distributions, and another one-
non-parametric, using the squared Mahalanobis distance. The package also contains functions for
data handling and building of new classifiers as well as some test data set.
Author: Jesper Muren [aut] ,
Dmitry Otryakhin [aut, cre]
Maintainer: Dmitry Otryakhin <d.otryakhin.acad@protonmail.ch>
Diff between deforestable versions 3.1.1 dated 2022-10-15 and 3.1.2 dated 2025-10-19
DESCRIPTION | 19 ++++++++++--------- MD5 | 7 ++++--- inst/CITATION |only src/Makevars | 13 +------------ src/Makevars.win | 13 +------------ 5 files changed, 16 insertions(+), 36 deletions(-)
Title: Robust Confidence Intervals for Standardized Regression
Coefficients
Description: Generates robust confidence intervals for standardized regression coefficients
using heteroskedasticity-consistent standard errors for models fitted by lm()
as described in Dudgeon (2017) <doi:10.1007/s11336-017-9563-z>.
The package can also be used to generate confidence intervals for R-squared,
adjusted R-squared, and differences of standardized regression coefficients.
A description of the package and code examples
are presented in Pesigan, Sun, and Cheung (2023) <doi:10.1080/00273171.2023.2201277>.
Author: Ivan Jacob Agaloos Pesigan [aut, cre, cph]
Maintainer: Ivan Jacob Agaloos Pesigan <r.jeksterslab@gmail.com>
Diff between betaSandwich versions 1.0.7 dated 2024-04-14 and 1.0.8 dated 2025-10-19
DESCRIPTION | 12 LICENSE | 2 MD5 | 123 ++-- NAMESPACE | 3 NEWS.md | 6 R/betaSandwich-acov-hc-dot.R | 4 R/betaSandwich-acov-sem-inverse-dot.R | 8 R/betaSandwich-beta-adf.R | 10 R/betaSandwich-beta-ci-dot.R | 22 R/betaSandwich-beta-hc.R | 10 R/betaSandwich-beta-mvn.R | 10 R/betaSandwich-cov-hc-dot.R | 4 R/betaSandwich-diff-beta-ci-dot.R | 20 R/betaSandwich-diff-beta-sandwich.R | 8 R/betaSandwich-gamma-hc-dot.R | 30 - R/betaSandwich-jacobian-diff-beta-star-wrt-beta-star-dot.R | 2 R/betaSandwich-methods-beta-sandwich.R | 91 ++- R/betaSandwich-methods-diff-beta-sandwich.R | 83 ++- R/betaSandwich-methods-r-sq-beta-sandwich.R | 87 ++- R/betaSandwich-q-mat-dot.R | 73 +- R/betaSandwich-r-sq-beta-sandwich.R | 24 R/betaSandwich-r-sq-ci-dot.R | 22 R/betaSandwich-r-sq-vcov-dot.R | 8 R/gammaADF-gamma-adf-consistent-dot.R | 34 - R/gammaADF-gamma-adf-unbiased-dot.R | 34 - R/gammaN-gamma-mvn-dot.R | 16 R/linearAlgebra-d-mat-dot.R | 22 R/linearAlgebra-d-of-mat-dot.R | 12 R/linearAlgebra-pinv-of-d-mat-dot.R | 16 R/linearAlgebra-vec-dot.R | 2 R/linearAlgebra-vech-dot.R | 14 R/linearAlgebra-vech-names-dot.R | 4 R/processLM-dif-dot.R | 10 R/processLM-process-lm-dot.R | 100 +--- R/rhoMatrix-rho-of-sigma-dot.R | 8 R/strRegression-beta-star-of-rho-dot.R | 26 - R/strRegression-jacobian-vech-sigma-wrt-theta-dot.R | 4 R/strRegression-jacobian-vech-sigma-wrt-theta-std-dot.R | 4 R/strRegression-moments-index-dot.R | 34 - R/strRegression-p-cor-sq-dot.R | 8 R/strRegression-r-sq-bar-dot.R | 6 R/strRegression-r-sq-of-sigma-dot.R | 20 R/strRegression-s-p-cor-dot.R | 16 R/strRegression-theta-index-dot.R | 34 - R/strRegression-theta-star-index-dot.R | 77 +-- R/wald-ci-wald-dot.R | 6 R/wald-probs-of-alpha-dot.R | 21 build/partial.rdb |binary data/nas1982.rda |binary inst/CITATION | 1 man/print.betasandwich.Rd | 2 man/print.diffbetasandwich.Rd | 2 man/print.rsqbetasandwich.Rd | 2 tests/testthat/test-betaSandwich-beta-sandwich-adf.R | 38 + tests/testthat/test-betaSandwich-beta-sandwich-hc.R | 130 ++++- tests/testthat/test-betaSandwich-beta-sandwich-methods.R | 111 ++-- tests/testthat/test-betaSandwich-beta-sandwich-mvn.R | 38 + tests/testthat/test-betaSandwich-diff-beta-sandwich-methods.R | 148 +++-- tests/testthat/test-betaSandwich-diff-beta-sandwich.R | 248 +++++++++- tests/testthat/test-betaSandwich-r-sq-beta-sandwich-methods.R | 111 ++-- tests/testthat/test-betaSandwich-r-sq-beta-sandwich.R | 144 ++++- tests/testthat/test-betaSandwich.R |only tests/testthat/test-zzz-coverage.R | 111 ++-- 63 files changed, 1350 insertions(+), 926 deletions(-)
Title: Bootstrap for Regression Effect Sizes
Description: Generates nonparametric bootstrap confidence intervals
(Efron and Tibshirani, 1993: <doi:10.1201/9780429246593>)
for standardized regression coefficients (beta) and other effect sizes,
including multiple correlation, semipartial correlations,
improvement in R-squared, squared partial correlations,
and differences in standardized regression coefficients,
for models fitted by lm().
Author: Ivan Jacob Agaloos Pesigan [aut, cre, cph]
Maintainer: Ivan Jacob Agaloos Pesigan <r.jeksterslab@gmail.com>
Diff between betaNB versions 1.0.5 dated 2025-01-09 and 1.0.6 dated 2025-10-19
DESCRIPTION | 12 +- LICENSE | 2 MD5 | 93 ++++++++--------- NAMESPACE | 1 NEWS.md | 6 + R/betaNB-beta-nb.R | 14 -- R/betaNB-ci.R | 4 R/betaNB-delta-r-sq-nb.R | 30 ++--- R/betaNB-diff-beta-nb.R | 6 - R/betaNB-methods-beta-nb.R | 118 +++++++++++---------- R/betaNB-nb.R | 40 +++---- R/betaNB-p-cor-nb.R | 12 -- R/betaNB-r-sq-nb.R | 12 -- R/betaNB-s-cor-nb.R | 28 ++--- R/linearAlgebra-d-mat-dot.R | 22 +--- R/linearAlgebra-pinv-of-d-mat-dot.R | 16 +- R/linearAlgebra-vec-dot.R | 2 R/linearAlgebra-vech-dot.R | 14 +- R/nBootstrap-acceleration-dot.R | 8 - R/nBootstrap-bc-ci-dot.R | 12 -- R/nBootstrap-bc-probs-dot.R | 6 - R/nBootstrap-bca-ci-dot.R | 12 -- R/nBootstrap-bca-probs-dot.R | 12 -- R/nBootstrap-ci-format-dot.R | 2 R/nBootstrap-pc-ci-dot.R | 12 -- R/nBootstrap-pc-probs-dot.R | 8 - R/nBootstrap-z0-dot.R | 10 - R/nBootstrap-z1-dot.R | 4 R/processLM-dif-dot.R | 10 - R/processLM-process-lm-dot.R | 94 ++++++++--------- R/rhoMatrix-rho-of-sigma-dot.R | 8 - R/strRegression-beta-star-of-rho-dot.R | 26 ++-- R/strRegression-beta-star-of-sigma-dot.R | 14 +- R/strRegression-p-cor-sq-dot.R | 8 - R/strRegression-r-sq-bar-dot.R | 6 - R/strRegression-r-sq-of-sigma-dot.R | 20 +-- R/strRegression-s-p-cor-dot.R | 16 +- build/partial.rdb |binary data/nas1982.rda |binary inst/CITATION | 2 tests/testthat/test-betaNB-beta-nb-est.R | 101 +++++++++++------- tests/testthat/test-betaNB-delta-r-sq-nb-est.R | 50 +++++---- tests/testthat/test-betaNB-diff-beta-nb-est.R | 50 +++++---- tests/testthat/test-betaNB-nb.R | 136 ++++++++++++------------- tests/testthat/test-betaNB-p-cor-nb-est.R | 50 +++++---- tests/testthat/test-betaNB-r-sq-nb-est.R | 74 +++++++------ tests/testthat/test-betaNB-s-cor-nb-est.R | 50 +++++---- tests/testthat/test-betaNB.R |only 48 files changed, 623 insertions(+), 610 deletions(-)
Title: Monte Carlo for Regression Effect Sizes
Description: Generates Monte Carlo confidence intervals
for standardized regression coefficients (beta) and other effect sizes,
including multiple correlation, semipartial correlations,
improvement in R-squared, squared partial correlations,
and differences in standardized regression coefficients,
for models fitted by lm().
'betaMC' combines ideas from Monte Carlo confidence intervals for the indirect effect
(Pesigan and Cheung, 2024 <doi:10.3758/s13428-023-02114-4>)
and the sampling covariance matrix of regression coefficients
(Dudgeon, 2017 <doi:10.1007/s11336-017-9563-z>)
to generate confidence intervals effect sizes in regression.
Author: Ivan Jacob Agaloos Pesigan [aut, cre, cph]
Maintainer: Ivan Jacob Agaloos Pesigan <r.jeksterslab@gmail.com>
Diff between betaMC versions 1.3.2 dated 2024-04-14 and 1.3.3 dated 2025-10-19
DESCRIPTION | 14 LICENSE | 2 MD5 | 175 ++--- NAMESPACE | 2 NEWS.md | 6 R/betaMC-beta-mc.R | 28 R/betaMC-ci-dot.R | 10 R/betaMC-cov-dot.R | 2 R/betaMC-delta-r-sq-mc.R | 4 R/betaMC-diff-beta-mc.R | 12 R/betaMC-j.R | 24 R/betaMC-mc-bias.R | 36 - R/betaMC-mc-dot.R | 6 R/betaMC-mc-mi.R | 28 R/betaMC-mc-rmse.R | 46 - R/betaMC-mc-theta-hat-dot.R | 20 R/betaMC-mc-var.R | 56 - R/betaMC-mc.R | 12 R/betaMC-methods-beta-mc.R | 107 +-- R/betaMC-methods-mc.R | 57 + R/betaMC-p-cor-mc.R | 20 R/betaMC-r-sq-mc.R | 14 R/betaMC-s-cor-mc.R | 20 R/betaSandwich-acov-hc-dot.R | 4 R/betaSandwich-acov-sem-inverse-dot.R | 8 R/betaSandwich-cov-hc-dot.R | 4 R/betaSandwich-gamma-hc-dot.R | 30 R/betaSandwich-q-mat-dot.R | 73 -- R/gammaADF-gamma-adf-consistent-dot.R | 34 - R/gammaADF-gamma-adf-unbiased-dot.R | 34 - R/gammaN-gamma-mvn-dot.R | 16 R/linearAlgebra-d-mat-dot.R | 22 R/linearAlgebra-d-of-mat-dot.R | 12 R/linearAlgebra-pinv-of-d-mat-dot.R | 16 R/linearAlgebra-positive-definite-2-test-dot.R | 35 - R/linearAlgebra-positive-definite-test-dot.R | 8 R/linearAlgebra-vec-dot.R | 2 R/linearAlgebra-vech-dot.R | 14 R/linearAlgebra-vech-names-dot.R | 4 R/miHelper-ariv-dot.R | 27 R/miHelper-mi-combine-dot.R | 21 R/miHelper-total-adj-dot.R | 15 R/nBootstrap-ci-format-dot.R | 2 R/nBootstrap-pc-ci-dot.R | 12 R/nBootstrap-pc-probs-dot.R | 8 R/processLM-dif-dot.R | 10 R/processLM-process-lm-dot.R | 100 +-- R/randomGaussian-location-dot.R | 12 R/randomGaussian-random-gaussian-chol-dot.R | 4 R/randomGaussian-random-gaussian-eigen-dot.R | 12 R/randomGaussian-random-gaussian-svd-dot.R | 12 R/randomGaussian-random-gaussian-z-dot.R | 14 R/rhoMatrix-rho-of-sigma-dot.R | 8 R/semmcci-theta-hat-star-dot.R | 8 R/strRegression-beta-star-dot.R | 10 R/strRegression-beta-star-of-rho-dot.R | 26 R/strRegression-jacobian-vech-sigma-wrt-theta-dot.R | 4 R/strRegression-moments-index-dot.R | 34 - R/strRegression-p-cor-sq-dot.R | 8 R/strRegression-r-sq-bar-dot.R | 6 R/strRegression-r-sq-of-sigma-dot.R | 20 R/strRegression-s-p-cor-dot.R | 16 R/strRegression-sigma-y-sq-dot.R | 12 R/strRegression-sigma-yx-dot.R | 10 R/strRegression-theta-index-dot.R | 34 - build/partial.rdb |binary data/nas1982.rda |binary inst/CITATION | 5 man/MC.Rd | 2 man/MCMI.Rd | 2 man/betaMC-package.Rd | 2 tests/testthat/test-betaMC-beta-mc-est-mi.R | 95 ++- tests/testthat/test-betaMC-beta-mc-est.R | 77 +- tests/testthat/test-betaMC-delta-r-sq-mc-est-mi.R | 74 +- tests/testthat/test-betaMC-delta-r-sq-mc-est.R | 56 + tests/testthat/test-betaMC-diff-beta-mc-est-mi.R | 74 +- tests/testthat/test-betaMC-diff-beta-mc-est.R | 56 + tests/testthat/test-betaMC-mc-fixed-x-mi.R | 605 +++++++++++++++++--- tests/testthat/test-betaMC-mc-fixed-x.R | 499 ++++++++++++++-- tests/testthat/test-betaMC-mc-mi.R | 495 ++++++++++++++-- tests/testthat/test-betaMC-mc.R | 522 ++++++++++++++--- tests/testthat/test-betaMC-p-cor-mc-est-mi.R | 74 +- tests/testthat/test-betaMC-p-cor-mc-est.R | 56 + tests/testthat/test-betaMC-r-sq-mc-est-mi.R | 93 +-- tests/testthat/test-betaMC-r-sq-mc-est.R | 75 +- tests/testthat/test-betaMC-s-cor-mc-est-mi.R | 74 +- tests/testthat/test-betaMC-s-cor-mc-est.R | 56 + tests/testthat/test-betaMC.R |only tests/testthat/test-zzz-coverage.R | 133 ++-- 89 files changed, 3144 insertions(+), 1443 deletions(-)
Title: Confidence Intervals for Standardized Regression Coefficients
Description: Generates confidence intervals for standardized regression coefficients
using delta method standard errors for models fitted by lm()
as described in Yuan and Chan (2011) <doi:10.1007/s11336-011-9224-6>
and Jones and Waller (2015) <doi:10.1007/s11336-013-9380-y>.
The package can also be used to generate confidence intervals for
differences of standardized regression coefficients
and as a general approach to performing the delta method.
A description of the package and code examples
are presented in Pesigan, Sun, and Cheung (2023) <doi:10.1080/00273171.2023.2201277>.
Author: Ivan Jacob Agaloos Pesigan [aut, cre, cph]
Maintainer: Ivan Jacob Agaloos Pesigan <r.jeksterslab@gmail.com>
Diff between betaDelta versions 1.0.5 dated 2024-04-14 and 1.0.6 dated 2025-10-19
DESCRIPTION | 12 LICENSE | 2 MD5 | 109 ++++---- NAMESPACE | 2 NEWS.md | 6 R/betaDelta-beta-ci-dot.R | 22 - R/betaDelta-beta-delta-dot.R | 12 R/betaDelta-beta-delta.R | 10 R/betaDelta-diff-beta-ci-dot.R | 20 - R/betaDelta-diff-beta-delta.R | 8 R/betaDelta-gamma-dot.R | 2 R/betaDelta-methods-beta-delta.R | 83 +++--- R/betaDelta-methods-diff-beta-delta.R | 83 +++--- R/betaSandwich-jacobian-diff-beta-star-wrt-beta-star-dot.R | 2 R/deltaMethod-acov-delta.R | 8 R/deltaMethod-delta-ci-dot.R | 22 - R/deltaMethod-delta-generic.R | 12 R/deltaMethod-delta.R | 8 R/deltaMethod-methods.R | 36 +- R/gammaADF-gamma-adf-consistent-dot.R | 34 +- R/gammaADF-gamma-adf-unbiased-dot.R | 34 +- R/gammaN-gamma-mvn-dot.R | 16 - R/linearAlgebra-d-mat-dot.R | 22 - R/linearAlgebra-d-of-mat-dot.R | 12 R/linearAlgebra-diag-of-vech-dot.R | 20 - R/linearAlgebra-pinv-of-d-mat-dot.R | 16 - R/linearAlgebra-vec-dot.R | 2 R/linearAlgebra-vech-dot.R | 14 - R/linearAlgebra-vech-names-dot.R | 4 R/processLM-dif-dot.R | 10 R/processLM-process-lm-dot.R | 100 +++---- R/rhoMatrix-rho-of-sigma-dot.R | 8 R/strRegression-beta-star-of-rho-dot.R | 26 - R/strRegression-jacobian-beta-star-wrt-vech-sigma-dot.R | 4 R/strRegression-moments-index-dot.R | 34 +- R/strRegression-p-cor-sq-dot.R | 8 R/strRegression-r-sq-bar-dot.R | 6 R/strRegression-r-sq-of-sigma-dot.R | 20 - R/strRegression-s-p-cor-dot.R | 16 - R/wald-ci-wald-dot.R | 6 R/wald-probs-of-alpha-dot.R | 21 - build/partial.rdb |binary data/nas1982.rda |binary inst/CITATION | 1 man/Delta.Rd | 4 man/print.betadelta.Rd | 2 man/print.diffbetadelta.Rd | 2 tests/testthat/test-betaDelta-beta-delta-adf.R | 38 +- tests/testthat/test-betaDelta-beta-delta-methods.R | 85 +++--- tests/testthat/test-betaDelta-beta-delta-mvn.R | 38 +- tests/testthat/test-betaDelta-diff-beta-delta-methods.R | 57 ++-- tests/testthat/test-betaDelta-diff-beta-delta.R | 64 +++- tests/testthat/test-betaDelta.R |only tests/testthat/test-deltaMethod-delta-generic.R | 155 ++++++++--- tests/testthat/test-deltaMethod-delta.R | 177 +++++++++---- tests/testthat/test-zzz-coverage.R | 75 +++-- 56 files changed, 910 insertions(+), 680 deletions(-)
Title: High-Dimensional Shrinkage Optimal Portfolios
Description: Constructs shrinkage estimators of high-dimensional mean-variance portfolios and performs
high-dimensional tests on optimality of a given portfolio. The techniques developed in
Bodnar et al. (2018 <doi:10.1016/j.ejor.2017.09.028>, 2019 <doi:10.1109/TSP.2019.2929964>,
2020 <doi:10.1109/TSP.2020.3037369>, 2021 <doi:10.1080/07350015.2021.2004897>)
are central to the package. They provide simple and feasible estimators and tests for optimal
portfolio weights, which are applicable for 'large p and large n' situations where p is the
portfolio dimension (number of stocks) and n is the sample size. The package also includes tools
for constructing portfolios based on shrinkage estimators of the mean vector and covariance matrix
as well as a new Bayesian estimator for the Markowitz efficient frontier recently developed by
Bauder et al. (2021) <doi:10.1080/14697688.2020.1748214>.
Author: Taras Bodnar [aut] ,
Solomiia Dmytriv [aut] ,
Yarema Okhrin [aut] ,
Dmitry Otryakhin [aut, cre] ,
Nestor Parolya [aut]
Maintainer: Dmitry Otryakhin <d.otryakhin.acad@protonmail.ch>
Diff between HDShOP versions 0.1.5 dated 2024-03-25 and 0.1.6 dated 2025-10-19
DESCRIPTION | 23 +++++++----- MD5 | 33 +++++++++--------- NEWS.md | 4 ++ R/Plot_frontier.R | 2 - build/partial.rdb |binary inst/CITATION |only tests/testthat.R | 9 ++++ tests/testthat/test_CovarEstim.R | 21 ++++------- tests/testthat/test_EU_vs_GMV.R | 10 ++--- tests/testthat/test_MVShrinkportfolio.R | 26 +++++++------- tests/testthat/test_T_stat.R | 2 - tests/testthat/test_alphas.R | 14 +++---- tests/testthat/test_custom_portfolio.R | 14 +++---- tests/testthat/test_misc_expressions.R | 2 - tests/testthat/test_naive_covar_estims.R | 2 - tests/testthat/test_portf_prototypes_on_data_frames.R | 2 - tests/testthat/test_portf_prototypes_on_matrices.R | 2 - tests/testthat/test_shrink_covar_methods.R | 10 ++--- 18 files changed, 94 insertions(+), 82 deletions(-)
Title: A Versatile Visualization Suite
Description: A visualization suite primarily designed for single-cell
RNA-sequencing data analysis applications, but adaptable to
other purposes as well. It introduces novel plots to represent two-variable
and frequency data and optimizes some commonly used plotting options
(e.g., correlation, network, density and alluvial plots) for ease of usage
and flexibility.
Author: Andrei-Florian Stoica [aut, cre]
Maintainer: Andrei-Florian Stoica <andreistoica@foxmail.com>
Diff between henna versions 0.2.5 dated 2025-09-18 and 0.3.4 dated 2025-10-19
DESCRIPTION | 10 +-- MD5 | 49 ++++++++-------- NAMESPACE | 1 R/density_plot.R | 13 +++- R/hull_plot.R | 57 +++++++++++++------ R/network_plot.R | 35 ++++++++--- R/palettes.R | 8 ++ R/radial_plot.R | 126 +++++++++++++++++++++++-------------------- R/rank_plot.R | 23 +++++-- README.md | 30 ++++++---- man/circleCoords.Rd | 14 ++-- man/classPlot.Rd | 3 - man/densityPlot.Rd | 2 man/distFreq.Rd | 16 +++-- man/dpColors.Rd | 2 man/figures/network_plot.png |binary man/figures/radial_plot.png |binary man/hullPlot.Rd | 22 +++++-- man/networkPlot.Rd | 24 +++++--- man/pointsOnCircle.Rd |only man/radialPlot.Rd | 40 +++++++++---- man/rankPlot.Rd | 20 ++++-- man/rankSummary.Rd | 2 man/splitHull.Rd | 19 ++++-- man/tilePlot.Rd | 3 - tests/testthat/test-henna.R | 33 +++++++---- 26 files changed, 348 insertions(+), 204 deletions(-)
Title: An Import Mechanism for R
Description: Alternative mechanism for importing objects from packages
and R modules. The syntax allows for importing multiple objects with a single
command in an expressive way. The import package bridges some of the gap
between using library (or require) and direct (single-object) imports.
Furthermore the imported objects are not placed in the current environment.
Author: Stefan Milton Bache [aut],
Magnus Thor Torfason [aut, cre]
Maintainer: Magnus Thor Torfason <m@zulutime.net>
Diff between import versions 1.3.3 dated 2025-10-11 and 1.3.4 dated 2025-10-19
DESCRIPTION | 6 MD5 | 24 +-- NAMESPACE | 1 NEWS.md | 12 + R/from.R | 29 ++-- R/what.R |only build/build_and_release_process.R | 2 inst/doc/import.R | 15 +- inst/doc/import.Rmd | 267 +++++++++++++++++++++++-------------- inst/doc/import.html | 269 ++++++++++++++++++++++---------------- man/importfunctions.Rd | 40 ++++- tests/test_import/test_from.R | 11 + tests/test_import/test_what.R |only vignettes/import.Rmd | 267 +++++++++++++++++++++++-------------- 14 files changed, 590 insertions(+), 353 deletions(-)
Title: Visualization 2D of Binary Classification Models
Description: Visual contour and 2D point and contour plots for binary classification modeling under algorithms such as 'glm', 'rf', 'gbm', 'nnet' and 'svm', presented over two dimensions generated by 'famd' and 'mca' methods. Package 'FactoMineR' for multivariate reduction functions and package 'MBA' for interpolation functions are used. The package can be used to visualize the discriminant power of input variables and algorithmic modeling, explore outliers, compare algorithm behaviour, etc. It has been created initially for teaching purposes, but it has also many practical uses under the 'XAI' paradigm.
Author: Javier Portela [aut, cre]
Maintainer: Javier Portela <javipgm@gmail.com>
Diff between visualpred versions 0.1.1 dated 2024-11-07 and 0.1.2 dated 2025-10-19
DESCRIPTION | 11 +- MD5 | 54 +++++----- NAMESPACE | 4 NEWS.md | 6 + R/famdcontour.R | 215 ++++++++++++++++++++++++------------------- R/famdcontourlabel.R | 49 ++++++--- R/mcacontour.R | 106 ++++++++++++--------- R/mcacontourjitter.R | 2 R/mcamodelo.R | 32 ++---- build/vignette.rds |binary inst/doc/Advanced.Rmd | 4 inst/doc/Advanced.html | 209 ++++++++++++++++++------------------------ inst/doc/Basic_example.R | 6 - inst/doc/Basic_example.Rmd | 19 ++- inst/doc/Basic_example.html | 217 +++++++++++++++++++------------------------- inst/doc/Comparing.R | 2 inst/doc/Comparing.Rmd | 6 - inst/doc/Comparing.html | 205 +++++++++++++++++------------------------ inst/doc/Outliers.Rmd | 4 inst/doc/Outliers.html | 205 +++++++++++++++++------------------------ man/famdcontour.Rd | 32 ++++-- man/famdcontourlabel.Rd | 17 +++ man/mcacontour.Rd | 15 ++- man/mcamodelobis.Rd | 2 vignettes/Advanced.Rmd | 4 vignettes/Basic_example.Rmd | 19 ++- vignettes/Comparing.Rmd | 6 - vignettes/Outliers.Rmd | 4 28 files changed, 717 insertions(+), 738 deletions(-)
Title: Most Likely Transformations
Description: Likelihood-based estimation of conditional transformation
models via the most likely transformation approach described in
Hothorn et al. (2018) <DOI:10.1111/sjos.12291> and Hothorn (2020)
<DOI:10.18637/jss.v092.i01>. Shift-scale (Siegfried et al, 2023, <DOI:10.1080/00031305.2023.2203177>)
and multivariate (Klein et al, 2022, <DOI:10.1111/sjos.12501>) transformation models
are part of this package. A package vignette is available from <DOI:10.32614/CRAN.package.mlt.docreg> and
more convenient user interfaces to many models from <DOI:10.32614/CRAN.package.tram>.
Author: Torsten Hothorn [aut, cre]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between mlt versions 1.6-6 dated 2025-06-17 and 1.7-0 dated 2025-10-19
DESCRIPTION | 10 - MD5 | 68 +++++------ NAMESPACE | 22 +++ R/R.R | 278 ++++++++++++++++++++++++++++++++++++++++++++- R/ctm.R | 1 R/distr.R | 88 +++++++++----- R/loglik.R | 16 ++ R/methods.R | 6 R/mlt.R | 96 +++++++++++---- R/mltoptim.R | 168 ++++++++++++++++++++++----- R/mmlt.R | 32 ++--- R/sample.R | 5 R/utils.R | 5 inst/NEWS.Rd | 33 +++++ man/ctm.Rd | 6 man/mlt.Rd | 14 +- man/mltoptim.Rd | 83 +++++++++++-- man/mmlt.Rd | 12 + tests/2sample.R | 1 tests/2sample.Rout.save | 61 +++++---- tests/Cox-Ex.R | 15 -- tests/Cox-Ex.Rout.save | 64 ++++------ tests/bugfixes.Rout.save | 8 - tests/distr-Ex.R | 71 +++++++++++ tests/dpq-Ex.Rout.save | 40 +++--- tests/glm-Ex.Rout.save | 8 - tests/lm-Ex.R | 5 tests/lm-Ex.Rout.save | 25 +--- tests/missing-responses.R | 2 tests/polr-Ex.R | 1 tests/polr-Ex.Rout.save | 65 +++++----- tests/predict-Ex.Rout.save | 8 - tests/subset.Rout.save | 8 - tests/surv-Ex.R | 1 tests/surv-Ex.Rout.save | 230 +++++++++++++++++-------------------- 35 files changed, 1101 insertions(+), 455 deletions(-)
Title: Miscellaneous Statistical Functions Used in 'guide-R'
Description: Companion package for the manual
'guide-R : Guide pour l’analyse de données d’enquêtes avec R' available at
<https://larmarange.github.io/guide-R/>. 'guideR' implements miscellaneous
functions introduced in 'guide-R' to facilitate statistical analysis and
manipulation of survey data.
Author: Joseph Larmarange [aut, cre]
Maintainer: Joseph Larmarange <joseph@larmarange.net>
Diff between guideR versions 0.4.1 dated 2025-09-16 and 0.5.0 dated 2025-10-19
DESCRIPTION | 11 ++++++----- MD5 | 15 ++++++++++----- NAMESPACE | 2 ++ NEWS.md | 10 +++++++++- R/combine_answers.R |only R/plot_multiple_answers.R |only R/plot_proportions.R | 2 +- man/combine_answers.Rd |only man/plot_multiple_answers.Rd |only man/plot_proportions.Rd | 2 +- tests/testthat/test-plot_multiple_answers.R |only 11 files changed, 29 insertions(+), 13 deletions(-)
Title: 'shiny' Application for Statistical Test Assumption Checking and
Guidance
Description: A 'shiny' application to assess statistical assumptions and guide users toward appropriate tests. The app is designed for researchers with minimal statistical training and provides diagnostics, plots, and test recommendations for a wide range of analyses. Many statistical assumptions are implemented using the package 'rstatix' (Kassambara, 2019) <doi:10.32614/CRAN.package.rstatix> and 'performance' (Lüdecke et al., 2021) <doi:10.21105/joss.03139>.
Author: Ahmed Bargheet [aut, cre]
Maintainer: Ahmed Bargheet <ahmed.bargheet@yahoo.com>
Diff between AssumpSure versions 1.1.1 dated 2025-09-18 and 1.1.2 dated 2025-10-19
DESCRIPTION | 8 MD5 | 10 NEWS.md | 13 + R/launch_app.R | 6 R/zzz.R | 6 inst/app/app.R | 593 ++++++++++++++++++++++++++++++++++++++++++++++++++------- 6 files changed, 554 insertions(+), 82 deletions(-)
Title: Access and Analyze eBird Status and Trends Data Products
Description: Tools for accessing and analyzing eBird Status and
Trends Data Products
(<https://science.ebird.org/en/status-and-trends>). eBird
(<https://ebird.org/home>) is a global database of bird observations
collected by member of the public. eBird Status and Trends uses these
data to model global bird distributions, abundances, and population trends
at a high spatial and temporal resolution.
Author: Matthew Strimas-Mackey [aut, cre] ,
Shawn Ligocki [aut],
Tom Auer [aut] ,
Daniel Fink [aut] ,
Cornell Lab of Ornithology [cph]
Maintainer: Matthew Strimas-Mackey <mes335@cornell.edu>
Diff between ebirdst versions 3.2023.0 dated 2025-05-07 and 3.2023.1 dated 2025-10-19
DESCRIPTION | 12 - MD5 | 50 +++---- NAMESPACE | 2 NEWS.md | 7 R/sample.R | 21 +- R/trends.R | 118 ++++++++++++++++ R/utils.R | 6 build/vignette.rds |binary inst/doc/applications.R | 3 inst/doc/applications.Rmd | 3 inst/doc/applications.html | 5 inst/doc/product-changelog.Rmd | 6 inst/doc/product-changelog.html | 26 +-- inst/doc/status.R | 3 inst/doc/status.Rmd | 3 inst/doc/status.html | 5 inst/doc/trends.R | 58 ++++++++ inst/doc/trends.Rmd | 69 +++++++++ inst/doc/trends.html | 276 ++++++++++++++++++++++++--------------- man/convert_ppy_to_cumulative.Rd |only man/grid_sample.Rd | 12 - man/vectorize_trends.Rd |only tests/testthat/test_utils.R | 2 vignettes/applications.Rmd | 3 vignettes/product-changelog.Rmd | 6 vignettes/status.Rmd | 3 vignettes/trends.Rmd | 69 +++++++++ 27 files changed, 583 insertions(+), 185 deletions(-)
Title: Simplified Access to Brazilian Financial and Macroeconomic Data
Description: It offers simplified access to Brazilian macroeconomic and financial indicators selected from official sources, such as the 'IBGE' (Brazilian Institute of Geography and Statistics) via the 'SIDRA' API and the 'Central Bank of Brazil' via the 'SGS' API. It allows users to quickly retrieve and visualize data series such as the unemployment rate and the Selic interest rate. This package was developed for data access and visualization purposes, without generating forecasts or statistical results. For more information, see the official APIs: <https://sidra.ibge.gov.br/> and <https://dadosabertos.bcb.gov.br/dataset/>.
Author: Joao Paulo dos Santos Pereira Barbosa [aut, cre]
Maintainer: Joao Paulo dos Santos Pereira Barbosa <joao.31582129@gmail.com>
Diff between brfinance versions 0.2.1 dated 2025-10-17 and 0.2.2 dated 2025-10-19
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/plot_unemployment.R | 4 ++-- 3 files changed, 7 insertions(+), 7 deletions(-)
Title: Portfolio Management with R
Description: Tools for the practical management of financial
portfolios: backtesting investment and trading strategies,
computing profit/loss and returns, analysing trades,
handling lists of transactions, reporting, and more. The
package provides a small set of reliable, efficient and
convenient tools for processing and analysing
trade/portfolio data. The manual provides all the details;
it is available from
<https://enricoschumann.net/R/packages/PMwR/manual/PMwR.html>.
Examples and descriptions of new features are provided at
<https://enricoschumann.net/notes/PMwR/>.
Author: Enrico Schumann [aut, cre]
Maintainer: Enrico Schumann <es@enricoschumann.net>
Diff between PMwR versions 1.0-1 dated 2024-10-19 and 1.1-0 dated 2025-10-19
DESCRIPTION | 11 - MD5 | 99 ++++++------ NAMESPACE | 2 NEWS | 30 +++ R/NAVseries.R | 69 +++----- R/btest.R | 12 - R/instrument.R |only R/internal.R | 4 R/journal.R | 73 ++------- R/pl.R | 4 R/position.R | 216 ++++++++++++++++++++++++---- R/rc.R | 123 +++++---------- R/rebalance.R | 4 R/unit_prices.R | 2 README.md | 6 build/partial.rdb |binary build/vignette.rds |binary inst/doc/An_overview_of_PMwR.pdf |binary inst/doc/Computing_returns.R | 2 inst/doc/Computing_returns.Rnw | 4 inst/doc/Computing_returns.pdf |binary inst/doc/Drawdowns_streaks.pdf |binary inst/doc/FinTeX.pdf |binary inst/doc/pl_open_positions.pdf |binary inst/doc/q32.pdf |binary inst/tinytest/test_btest_initial.position.R | 45 +++++ inst/tinytest/test_internal.R | 38 ++++ inst/tinytest/test_pl.R | 61 +++++++ inst/tinytest/test_position.R | 53 ++++++ inst/tinytest/test_position_00.R | 11 + inst/tinytest/test_position_ops.R | 109 +++++++++++++- inst/tinytest/test_rc.R | 129 ++++++++++++++++ man/NAVseries.Rd | 138 +++++++++-------- man/PMwR-internal.Rd | 3 man/PMwR-package.Rd | 4 man/adjust-series.Rd | 6 man/btest.Rd | 2 man/drawdowns.Rd | 2 man/instrument.Rd | 2 man/journal.Rd | 17 +- man/pl.Rd | 4 man/plot_trading_hours.Rd | 2 man/position.Rd | 57 +++++-- man/pricetable.Rd | 2 man/rc.Rd | 22 ++ man/rebalance.Rd | 6 man/returns.Rd | 2 man/scale1.Rd | 2 man/streaks.Rd | 2 man/unit_prices.Rd | 2 vignettes/Computing_returns.Rnw | 4 51 files changed, 993 insertions(+), 393 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-09-22 0.5.1
2025-08-26 0.3.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-01-30 1.0.3
2023-12-21 1.0.2
Title: Simple and Configurable Tables in 'HTML', 'LaTeX', 'Markdown',
'Word', 'PNG', 'PDF', and 'Typst' Formats
Description: Create highly customized tables with this simple and dependency-free package. Data frames can be converted to 'HTML', 'LaTeX', 'Markdown', 'Word', 'PNG', 'PDF', or 'Typst' tables. The user interface is minimalist and easy to learn. The syntax is concise. 'HTML' tables can be customized using the flexible 'Bootstrap' framework, and 'LaTeX' code with the 'tabularray' package.
Author: Vincent Arel-Bundock [aut, cre]
Maintainer: Vincent Arel-Bundock <vincent.arel-bundock@umontreal.ca>
Diff between tinytable versions 0.14.0 dated 2025-09-29 and 0.15.0 dated 2025-10-19
DESCRIPTION | 6 MD5 | 220 ++-- NEWS.md | 26 R/aaa_class.R | 8 R/build_tt.R | 59 - R/expand_style.R | 242 +--- R/grid_colspan.R | 9 R/grid_style.R | 54 R/group_tt_j.R | 16 R/html_finalize.R | 18 R/html_style.R | 403 ++++--- R/json.R | 23 R/plot_tt.R | 281 ++++- R/sanity.R | 2 R/style_tt.R | 126 +- R/tabularray_style.R | 308 +++-- R/tabulator_build.R | 15 R/tabulator_columns.R | 547 ++-------- R/tabulator_css.R | 1 R/tabulator_data.R | 34 R/tabulator_finalize.R | 152 ++ R/tabulator_plot.R |only R/tabulator_search.R | 151 +- R/tabulator_style.R | 348 ++++-- R/tabulator_stylesheet.R | 49 R/theme_html.R | 29 R/theme_html_tabulator.R | 11 R/theme_striped.R | 8 R/typst_style.R | 185 ++- R/typst_tt.R | 6 README.md | 2 build/partial.rdb |binary inst/tabulator.scss |only inst/tabulator_tinytable.css |only inst/tabulator_tinytable.css.map |only inst/tabulator_tinytable.min.css |only inst/tabulator_tinytable.min.css.map |only inst/tabulator_tinytable.scss |only inst/templates/html.html | 1 inst/templates/tabulator.html | 18 inst/tinytable.js | 174 +++ inst/tinytest/_tinysnapshot/ansi-style_groupj_01.md | 2 inst/tinytest/_tinysnapshot/ansi-styles_01.md | 2 inst/tinytest/_tinysnapshot/docx-issue98_01.txt | 2 inst/tinytest/_tinysnapshot/escape-issue150_caption_02.html | 16 inst/tinytest/_tinysnapshot/escape-issue150_caption_02.typ | 4 inst/tinytest/_tinysnapshot/escape-issue150_caption_03.html | 16 inst/tinytest/_tinysnapshot/escape-issue150_caption_03.typ | 4 inst/tinytest/_tinysnapshot/format_tt-vignette_html_markdown.html | 8 inst/tinytest/_tinysnapshot/group-3level.md | 4 inst/tinytest/_tinysnapshot/group-3level.typ | 25 inst/tinytest/_tinysnapshot/group-delim-all-delim.md | 2 inst/tinytest/_tinysnapshot/group-delim-some-delim.md | 2 inst/tinytest/_tinysnapshot/group-delim-x-delim.md | 2 inst/tinytest/_tinysnapshot/group-html_tutorial_01.html | 20 inst/tinytest/_tinysnapshot/group-issue165_extra_row.html | 32 inst/tinytest/_tinysnapshot/group-issue165_extra_row.md | 2 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inst/tinytest/_tinysnapshot/typst-issue592.typ |only inst/tinytest/_tinysnapshot/typst-no_headers.typ | 7 inst/tinytest/test-group.R | 23 inst/tinytest/test-latex.R | 11 inst/tinytest/test-markdown.R | 33 inst/tinytest/test-typst.R | 71 + man/plot_tt.Rd | 30 man/plot_vector.Rd | 7 man/style_tt.Rd | 24 man/theme_html.Rd | 17 man/tt.Rd | 2 116 files changed, 2753 insertions(+), 1794 deletions(-)
Title: Synthetic Control Group Method for Comparative Case Studies
Description: Implements the synthetic control group method for comparative case studies
as described in Abadie and Gardeazabal (2003) and Abadie, Diamond, and Hainmueller
(2010, 2011, 2014). The synthetic control method allows for effect estimation in
settings where a single unit (a state, country, firm, etc.) is exposed to an event
or intervention. It provides a data-driven procedure to construct synthetic control
units based on a weighted combination of comparison units that approximates the
characteristics of the unit that is exposed to the intervention. A combination of
comparison units often provides a better comparison for the unit exposed to the
intervention than any comparison unit alone.
Author: Jens Hainmueller [aut, cre],
Alexis Diamond [aut]
Maintainer: Jens Hainmueller <jhain@stanford.edu>
Diff between Synth versions 1.1-8 dated 2023-06-02 and 1.1-9 dated 2025-10-19
DESCRIPTION | 27 +++-- MD5 | 6 - man/fn.V.Rd | 12 +- man/synth.Rd | 310 +++++++++++------------------------------------------------ 4 files changed, 88 insertions(+), 267 deletions(-)
Title: Enhanced R Package for 'GEMPACK' .har and .sl4 Files
Description: Provides tools for processing and analyzing .har and .sl4 files, making it easier
for 'GEMPACK' users and 'GTAP' researchers to handle large economic datasets.
It simplifies the management of multiple experiment results, enabling faster
and more efficient comparisons without complexity. Users can extract, restructure,
and merge data seamlessly, ensuring compatibility across different tools.
The processed data can be exported and used in 'R', 'Stata', 'Python', 'Julia', or
any software that supports Text, CSV, or 'Excel' formats.
Author: Pattawee Puangchit [aut, cre]
Maintainer: Pattawee Puangchit <ppuangch@purdue.edu>
Diff between HARplus versions 1.0.1 dated 2025-03-13 and 1.1.0 dated 2025-10-19
HARplus-1.0.1/HARplus/vignettes/rsconnect |only HARplus-1.1.0/HARplus/DESCRIPTION | 8 HARplus-1.1.0/HARplus/MD5 | 28 HARplus-1.1.0/HARplus/NAMESPACE | 63 HARplus-1.1.0/HARplus/R/data_summary.R | 736 ++++----- HARplus-1.1.0/HARplus/R/get_data.R | 1638 +++++++++++----------- HARplus-1.1.0/HARplus/R/load_sl4x.R | 15 HARplus-1.1.0/HARplus/R/save_har.R |only HARplus-1.1.0/HARplus/README.md | 23 HARplus-1.1.0/HARplus/inst/doc/introduction.R | 20 HARplus-1.1.0/HARplus/inst/doc/introduction.Rmd | 44 HARplus-1.1.0/HARplus/inst/doc/introduction.html | 222 +- HARplus-1.1.0/HARplus/inst/docs |only HARplus-1.1.0/HARplus/man/export_data.Rd | 156 +- HARplus-1.1.0/HARplus/man/pivot_data_hierarchy.Rd | 152 +- HARplus-1.1.0/HARplus/man/save_har.Rd |only HARplus-1.1.0/HARplus/vignettes/introduction.Rmd | 44 17 files changed, 1669 insertions(+), 1480 deletions(-)
Title: Functional Analysis of Phenotypic Growth Data to Smooth and
Extract Traits
Description: Assists in the plotting and functional smoothing of traits
measured over time and the extraction of features from these traits,
implementing the SET (Smoothing and Extraction of Traits) method
described in Brien et al. (2020) Plant Methods, 16. Smoothing of
growth trends for individual plants using natural cubic smoothing
splines or P-splines is available for removing transient effects and
segmented smoothing is available to deal with discontinuities in
growth trends. There are graphical tools for assessing the adequacy
of trait smoothing, both when using this and other packages, such as
those that fit nonlinear growth models. A range of per-unit (plant,
pot, plot) growth traits or features can be extracted from the
data, including single time points, interval growth rates and other
growth statistics, such as maximum growth or days to maximum growth.
The package also has tools adapted to inputting data from
high-throughput phenotyping facilities, such from a Lemna-Tec
Scananalyzer 3D ( [...truncated...]
Author: Chris Brien [aut, cre]
Maintainer: Chris Brien <chris.brien@adelaide.edu.au>
Diff between growthPheno versions 3.1.13 dated 2025-07-22 and 3.1.18 dated 2025-10-19
DESCRIPTION | 8 MD5 | 49 ++-- NAMESPACE | 2 R/PVA.v3.r | 14 - R/byIndv4Times.r | 310 ++++++++++++++++++++++++++- R/calcs.r | 25 +- R/traitSmooth.r | 17 + build/partial.rdb |binary build/vignette.rds |binary inst/News.Rd | 26 ++ inst/doc/Rice.pdf |binary inst/doc/Tomato.pdf |binary inst/doc/growthPheno-manual.pdf |binary man/args4smoothing.Rd | 7 man/byIndv4Intvl_WaterUse.Rd | 2 man/byIndv4Times_GRsDiff.Rd | 6 man/byIndv4Times_SplinesGRs.Rd | 7 man/byIndv4Times_WaterUse.Rd |only man/byIndv4Times_periodicRates.Rd |only man/calcLagged.Rd | 3 man/growthPheno-pkg.Rd | 14 - man/plotCorrmatrix.Rd | 6 tests/testthat/data/water779DS.test.dat.rda |only tests/testthat/data/water797SH.check.dat.rda |only tests/testthat/data/water797SH.test.dat.rda |only tests/testthat/testTraitWrappers.r | 33 ++ tests/testthat/testbyIndv4Times.r | 105 +++++++++ tests/testthat/testexampleData.r | 2 28 files changed, 579 insertions(+), 57 deletions(-)
Title: Dataframe Difference Tool
Description: Functions for comparing two data.frames against
each other. The core functionality is to provide a detailed breakdown of any differences
between two data.frames as well as providing utility functions to help narrow down the
source of problems and differences.
Author: Craig Gower-Page [cre, aut],
Kieran Martin [aut]
Maintainer: Craig Gower-Page <craiggower@gmail.com>
Diff between diffdf versions 1.1.1 dated 2024-09-24 and 1.1.2 dated 2025-10-19
DESCRIPTION | 19 - LICENSE | 4 MD5 | 34 +- NEWS.md | 11 R/ascii_tables.R | 13 - R/diffdf.R | 32 -- R/identify.R | 2 R/print.R | 45 +++ build/vignette.rds |binary inst/WORDLIST | 1 inst/doc/diffdf-basic.R | 6 inst/doc/diffdf-basic.html | 4 man/get_print_message.issue.Rd | 5 man/get_table.Rd | 3 man/print.diffdf.Rd | 21 + tests/testthat/_snaps/miscellaneous.md | 392 +++++++++++++++++++++++++++++++++ tests/testthat/test-miscellaneous.R | 154 ++++++++++++ tests/testthat/test-print_output.R | 40 +++ 18 files changed, 707 insertions(+), 79 deletions(-)
Title: Tidy Tools for Paleoenvironmental Archives
Description: Provides a set of functions with a common framework for age-depth model management,
stratigraphic visualization, and common statistical transformations. The focus of the
package is stratigraphic visualization, for which 'ggplot2' components are provided
to reproduce the scales, geometries, facets, and theme elements commonly used in
publication-quality stratigraphic diagrams. Helpers are also provided to reproduce
the exploratory statistical summaries that are frequently included on
stratigraphic diagrams. See Dunnington et al. (2021) <doi:10.18637/jss.v101.i07>.
Author: Dewey Dunnington [aut, cre, cph]
Maintainer: Dewey Dunnington <dewey@fishandwhistle.net>
Diff between tidypaleo versions 0.1.3 dated 2023-01-18 and 0.1.4 dated 2025-10-19
DESCRIPTION | 12 MD5 | 117 +++++- NEWS.md | 6 R/age_depth_model.R | 4 R/ggstrat-geoms.R | 12 R/ggstrat-plot_addons.R | 6 R/ggstrat-themes.R | 2 README.md | 4 build/partial.rdb |binary build/vignette.rds |binary inst/doc/age_depth.R | 20 - inst/doc/age_depth.html | 89 ++-- inst/doc/nested_analysis.R | 6 inst/doc/nested_analysis.html | 424 +++++++++++------------ inst/doc/strat_diagrams.R | 68 +-- inst/doc/strat_diagrams.html | 620 +++++++++++++++++----------------- man/geom_point_exaggerate.Rd | 2 man/stat_nested_hclust.Rd | 2 tests/testthat/Rplots.pdf |binary tests/testthat/_snaps |only tests/testthat/test-age_depth_model.R | 4 tests/testthat/test-nested_chclust.R | 4 22 files changed, 741 insertions(+), 661 deletions(-)