Title: Simulate Impact of Different Urban Policies Through a General
Equilibrium Model
Description: Develops a General Equilibrium (GE) Model, which estimates key variables such as wages, the number of residents and workers, the prices of the floor space, and its distribution between commercial and residential use, as in Ahlfeldt et al., (2015) <doi:10.3982/ECTA10876>. By doing so, the model allows understanding the economic influence of different urban policies.
Author: David Zarruk [aut],
Roman Zarate [aut, cre]
Maintainer: Roman Zarate <rd.zarate40@gmail.com>
Diff between IGC.CSM versions 0.2.0 dated 2024-09-30 and 0.3.0 dated 2026-02-12
DESCRIPTION | 6 - MD5 | 12 ++- NAMESPACE | 2 R/NoPricesInversionModel.R |only R/PricesInversionModel.R |only R/solveModel.R | 140 ++++++++++++++++++++++++------------------ man/NoPricesInversionModel.Rd |only man/PricesInversionModel.Rd |only man/solveModel.Rd | 56 ++++------------ 9 files changed, 110 insertions(+), 106 deletions(-)
Title: Treatment Switching
Description: Implements rank preserving structural failure time model (RPSFTM), iterative parameter estimation (IPE), inverse probability of censoring weights (IPCW), marginal structural model (MSM), simple two-stage estimation (TSEsimp), and improved two-stage estimation with g-estimation (TSEgest) methods for treatment switching in randomized clinical trials.
Author: Kaifeng Lu [aut, cre]
Maintainer: Kaifeng Lu <kaifenglu@gmail.com>
Diff between trtswitch versions 0.2.3 dated 2026-01-10 and 0.2.4 dated 2026-02-12
DESCRIPTION | 14 MD5 | 48 - NEWS.md | 6 R/RcppExports.R | 42 + R/utilities.R | 41 - build/vignette.rds |binary inst/doc/tsegest.html | 22 man/survsplit.Rd | 2 src/RcppExports.cpp | 10 src/dataframe_list.cpp | 594 ++++++---------- src/dataframe_list.h | 362 +++++---- src/ipcw.cpp | 1600 +++++++++++++++++++++----------------------- src/ipe.cpp | 328 ++++----- src/logistic_regression.cpp | 16 src/msm.cpp | 1077 ++++++++++++++--------------- src/recensor_sim_rpsftm.cpp | 104 +- src/rpsftm.cpp | 558 +++++++-------- src/splines.cpp | 2 src/survival_analysis.cpp | 201 ++--- src/tsegest.cpp | 1187 ++++++++++++++++---------------- src/tsegestsim.cpp | 9 src/tsesimp.cpp | 599 ++++++++-------- src/tssim.cpp | 7 src/utilities.cpp | 308 +++++--- src/utilities.h | 34 25 files changed, 3627 insertions(+), 3544 deletions(-)
Title: Estimation, Simulation and Reliability of Drifting Markov Models
Description: Performs the drifting Markov models (DMM) which are
non-homogeneous Markov models designed for modeling the heterogeneities of
sequences in a more flexible way than homogeneous Markov chains or even
hidden Markov models. In this context, we developed an R package dedicated to
the estimation, simulation and the exact computation of associated reliability
of drifting Markov models. The implemented methods are described in
Vergne, N. (2008), <doi:10.2202/1544-6115.1326> and
Barbu, V.S., Vergne, N. (2019) <doi:10.1007/s11009-018-9682-8> .
Author: Nicolas Vergne [aut, cre] ,
Corentin Lothode [aut] ,
Alexandre Seiller [aut],
Victor Mataigne [ctb],
Arnaud Lefebvre [ctb],
Annthomy Gilles [ctb],
Vlad Stefan Barbu [aut]
Maintainer: Nicolas Vergne <nicolas.vergne@univ-rouen.fr>
Diff between drimmR versions 1.0.1 dated 2021-05-10 and 1.0.3 dated 2026-02-12
DESCRIPTION | 63 ++++++++------ MD5 | 18 ++-- NAMESPACE | 3 NEWS.md | 222 ++++++++++++++++++++++++++++++++------------------ R/dmm.R | 103 +++++++++++++---------- R/metrics.R | 18 ++-- R/utils.R | 2 R/word.R | 6 - build/partial.rdb |binary man/drimmR-package.Rd | 19 ---- 10 files changed, 265 insertions(+), 189 deletions(-)
Title: Group Sequential Design with Non-Constant Effect
Description: The goal of 'gsDesign2' is to enable fixed or group sequential
design under non-proportional hazards. To enable highly flexible enrollment,
time-to-event and time-to-dropout assumptions, 'gsDesign2' offers piecewise
constant enrollment, failure rates, and dropout rates for a stratified
population. This package includes three methods for designs:
average hazard ratio, weighted logrank tests in Yung and Liu (2019)
<doi:10.1111/biom.13196>, and MaxCombo tests.
Substantial flexibility on top of what is in the 'gsDesign' package
is intended for selecting boundaries.
Author: Keaven Anderson [aut],
Yujie Zhao [aut, cre],
Yilong Zhang [aut],
John Blischak [aut],
Yihui Xie [aut],
Nan Xiao [aut],
Jianxiao Yang [aut],
Amin Shirazi [ctb],
Ruixue Wang [ctb],
Yi Cui [ctb],
Ping Yang [ctb],
Xin Tong Li [ctb],
Chenxiang Li [ctb],
[...truncated...]
Maintainer: Yujie Zhao <yujie.zhao@merck.com>
Diff between gsDesign2 versions 1.1.7 dated 2025-11-19 and 1.1.8 dated 2026-02-12
DESCRIPTION | 8 MD5 | 28 NEWS.md | 15 R/as_gt.R | 16 R/gridpts_h1_hupdate.R | 2 R/gs_design_ahr.R | 37 + R/gs_update_ahr.R | 72 ++ R/summary.R | 12 inst/doc/gsDesign2.html | 770 +++++++++++++------------- man/gsDesign2-package.Rd | 2 man/gs_update_ahr.Rd | 72 ++ man/summary.Rd | 4 tests/testthat/_snaps/independent_as_gt.md | 41 - tests/testthat/test-developer-gs_design_ahr.R | 96 +++ tests/testthat/test-developer-summary.R | 9 15 files changed, 760 insertions(+), 424 deletions(-)
Title: Parallel Numerical Derivatives, Gradients, Jacobians, and
Hessians of Arbitrary Accuracy Order
Description: Numerical derivatives through finite-difference approximations
can be calculated using the 'pnd' package with parallel capabilities and
optimal step-size selection to improve accuracy. These functions facilitate
efficient computation of derivatives, gradients, Jacobians, and Hessians,
allowing for more evaluations to reduce the mathematical and machine errors.
Designed for compatibility with the 'numDeriv' package,
which has not received updates in several years, it introduces advanced features
such as computing derivatives of arbitrary order, improving
the accuracy of Hessian approximations by avoiding repeated differencing,
and parallelising slow functions on Windows, Mac, and Linux.
Author: Andrei Victorovitch Kostyrka [aut, cre]
Maintainer: Andrei Victorovitch Kostyrka <andrei.kostyrka@gmail.com>
Diff between pnd versions 0.1.1 dated 2025-09-03 and 0.1.2 dated 2026-02-12
DESCRIPTION | 8 +- MD5 | 50 ++++++------- NEWS.md | 6 + R/gradient.R | 12 +-- R/helpers.R | 2 R/methods.R | 2 R/step-select.R | 27 ++++--- R/stepK.R | 2 R/zzz.R | 2 README.md | 2 build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 18 ++-- inst/doc/compatibility-with-numDeriv.html | 113 +++++++++++++++--------------- inst/doc/fast-and-accurate.html | 40 +++++----- inst/doc/step-size-selection.html | 36 ++++----- man/GenD.Rd | 6 - man/Grad.Rd | 6 - man/Jacobian.Rd | 6 - man/checkDimensions.Rd | 6 - man/plot.stepsize.Rd | 2 man/stepx.Rd | 6 - tests/testthat/Rplots.pdf |binary tests/testthat/test-Jacobian.R | 2 tests/testthat/test-helpers.R | 7 + tests/testthat/test-step.CR.R | 2 26 files changed, 189 insertions(+), 174 deletions(-)
Title: Stochastic Tree Ensembles (XBART and BART) for Supervised
Learning and Causal Inference
Description: Flexible stochastic tree ensemble software.
Robust implementations of Bayesian Additive Regression Trees (BART)
Chipman, George, McCulloch (2010) <doi:10.1214/09-AOAS285>
for supervised learning and Bayesian Causal Forests (BCF)
Hahn, Murray, Carvalho (2020) <doi:10.1214/19-BA1195>
for causal inference. Enables model serialization and parallel sampling
and provides a low-level interface for custom stochastic forest samplers.
Author: Drew Herren [aut, cre] ,
Richard Hahn [aut],
Jared Murray [aut],
Carlos Carvalho [aut],
Jingyu He [aut],
Pedro Lima [ctb],
stochtree contributors [cph],
Eigen contributors [cph] ,
xgboost contributors [cph] ,
treelite contributors [cph] ,
Microsoft C [...truncated...]
Maintainer: Drew Herren <drewherrenopensource@gmail.com>
Diff between stochtree versions 0.3.0 dated 2026-01-27 and 0.3.1 dated 2026-02-12
DESCRIPTION | 6 +-- MD5 | 34 ++++++++++---------- NEWS.md | 10 ++++++ R/bart.R | 51 +++++++++++++++++-------------- R/bcf.R | 24 +++++++------- R/cpp11.R | 16 +++++++++ configure | 18 +++++----- configure.ac | 2 - src/Makevars.in | 1 src/Makevars.win.in | 1 src/R_utils.cpp |only src/cpp11.cpp | 32 +++++++++++++++++++ src/include/stochtree/discrete_sampler.h | 6 +-- src/include/stochtree/distributions.h |only src/include/stochtree/gamma_sampler.h | 9 +---- src/include/stochtree/ig_sampler.h | 7 +--- src/include/stochtree/normal_sampler.h | 9 +++-- src/include/stochtree/tree_sampler.h | 24 ++++++-------- src/leaf_model.cpp | 4 +- 19 files changed, 157 insertions(+), 97 deletions(-)
Title: Model-Independent Variable Selection via the Rule-Based Variable
Priority
Description: A new framework of variable selection, which instead of generating artificial covariates such as permutation importance and knockoffs, creates release rules to examine the affect on the response for each covariate where the conditional distribution of the response variable can be arbitrary and unknown.
Author: Min Lu [aut],
Aster K. Shear [aut],
Udaya B. Kogalur [aut, cre],
Hemant Ishwaran [aut]
Maintainer: Udaya B. Kogalur <ubk@kogalur.com>
Diff between varPro versions 2.0.0 dated 2026-01-11 and 2.1.0 dated 2026-02-12
DESCRIPTION | 8 MD5 | 35 +- NAMESPACE | 3 R/cv.varpro.R | 12 R/ivarpro.R | 357 ++++++++++++++++------ R/predict.ivarpro.R |only R/utilities_cv_varpro.R | 13 R/utilities_hotencode.R | 2 R/utilities_ivarpro.R | 668 ++++++++++++++++++++++++++++++++++++++--- R/varpro.R | 50 +-- data/datalist | 1 data/hrrecov.rda |only inst/NEWS | 10 man/alzheimers.Rd | 66 ++-- man/cv.varpro.Rd | 4 man/hrrecov.Rd |only man/ivarpro.Rd | 741 ++++++++++++++++++++++++---------------------- man/partial.ivarpro.Rd |only man/predict.ivarpro.Rd |only man/utilities_internal.Rd | 1 man/varpro.Rd | 13 21 files changed, 1396 insertions(+), 588 deletions(-)
Title: Simulation Methods for Legislative Redistricting
Description: Enables researchers to sample redistricting plans from a pre-specified
target distribution using Sequential Monte Carlo and Markov Chain Monte Carlo
algorithms. The package allows for the implementation of various constraints in
the redistricting process such as geographic compactness and population parity
requirements. Tools for analysis such as computation of various summary statistics
and plotting functionality are also included. The package implements the SMC
algorithm of McCartan and Imai (2023) <doi:10.1214/23-AOAS1763>, the enumeration
algorithm of Fifield, Imai, Kawahara, and Kenny (2020) <doi:10.1080/2330443X.2020.1791773>,
the Flip MCMC algorithm of Fifield, Higgins, Imai and Tarr (2020) <doi:10.1080/10618600.2020.1739532>,
the Merge-split/Recombination algorithms of Carter et al. (2019) <doi:10.48550/arXiv.1911.01503>
and DeFord et al. (2021) <doi:10.1162/99608f92.eb30390f>, and the Short-burst
optimization algorithm of Cannon et al. (2020) < [...truncated...]
Author: Christopher T. Kenny [aut, cre] ,
Cory McCartan [aut] ,
Ben Fifield [aut] ,
Kosuke Imai [aut] ,
Jun Kawahara [ctb],
Alexander Tarr [ctb],
Michael Higgins [ctb]
Maintainer: Christopher T. Kenny <ctkenny@proton.me>
Diff between redist versions 4.3.1 dated 2025-10-01 and 4.3.2 dated 2026-02-12
DESCRIPTION | 10 - MD5 | 44 ++-- NEWS.md | 9 R/RcppExports.R | 4 R/redistMPI.R | 8 R/redist_findparams.R | 18 + R/redist_flip.R | 338 ++++++++++++++++++++++++++----------- R/redist_shortburst.R | 13 - R/skinny_flips.R | 7 README.md | 41 ---- build/partial.rdb |binary build/vignette.rds |binary inst/doc/common_args.html | 6 inst/doc/flip.html | 106 +++++++++-- inst/doc/map-preproc.html | 58 +++--- inst/doc/redist.Rmd | 4 inst/doc/redist.html | 10 - man/redist_flip.Rd | 42 +++- src/RcppExports.cpp | 11 - src/map_calc.cpp | 13 - src/sw_mh_alg.cpp | 17 + tests/testthat/test_skinny_flips.R | 7 vignettes/redist.Rmd | 4 23 files changed, 511 insertions(+), 259 deletions(-)
Title: Calculate Mass Properties and Uncertainties of Tree Structures
Description: Recursively calculates mass properties (mass, center of mass, moments and products of inertia, and optionally, their uncertainties) for arbitrary decomposition trees. R. L. Zimmerman, J. H. Nakai. (2005) <https://www.sawe.org/product/paper-3360/>).
Author: James Steven Jenkins [aut, cre, cph]
Maintainer: James Steven Jenkins <sjenkins@studioj.us>
Diff between massProps versions 0.3.4 dated 2026-01-29 and 0.3.5 dated 2026-02-12
DESCRIPTION | 8 +-- MD5 | 20 ++++----- NAMESPACE | 2 NEWS.md | 4 + R/massprops-package.R | 2 R/massprops.R | 104 ++++++++++++++++++++++++------------------------ README.md | 2 build/vignette.rds |binary inst/doc/massProps.Rmd | 8 +-- inst/doc/massProps.html | 8 +-- vignettes/massProps.Rmd | 8 +-- 11 files changed, 87 insertions(+), 79 deletions(-)
Title: Post-Estimation Utilities for 'lavaan' Fitted Models
Description: Companion toolbox for structural equation models fitted with 'lavaan'. Provides post-estimation diagnostics and graphics that operate directly on a fitted object using its estimates and covariance, and refits auxiliary models when needed. The package relies on 'lavaan' (Rosseel, 2012) <doi:10.18637/jss.v048.i02>.
Author: Giuseppe Corbelli [aut, cre]
Maintainer: Giuseppe Corbelli <giuseppe.corbelli@uninettunouniversity.net>
Diff between lavinteract versions 0.4.5 dated 2026-02-10 and 0.4.6 dated 2026-02-12
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 4 ++++ R/lav_fdr.R | 12 +++++++----- 4 files changed, 17 insertions(+), 11 deletions(-)
Title: Toolkit for Data Processing, Quality, and Statistical Models
Description: Offers tools for data formatting, anomaly detection, and classification
of tree-ring data using spatial comparisons and cross-correlation.
Supports flexible detrending and climate–growth modeling via generalized
additive mixed models (Wood 2017, ISBN:978-1498728331) and the 'mgcv'
package (<https://CRAN.R-project.org/package=mgcv>), enabling robust
analysis of non-linear trends and autocorrelated data. Provides
standardized visual reporting, including summaries, diagnostics, and
model performance. Compatible with '.rwl' files and tailored for the
Canadian Forest Service Tree-Ring Data (CFS-TRenD) repository
(Girardin et al. (2021) <doi:10.1139/er-2020-0099>), offering
a comprehensive and adaptable framework for dendrochronologists working
with large and complex datasets.
Author: Xiao Jing Guo [aut, cre],
Martin Girardin [aut],
Juha Metsaranta [aut],
David Gervais [aut],
Elizabeth Campbell [aut]
Maintainer: Xiao Jing Guo <xiaojing.guo@nrcan-rncan.gc.ca>
This is a re-admission after prior archival of version 0.2.1 dated 2026-01-29
Diff between growthTrendR versions 0.2.1 dated 2026-01-29 and 0.2.2 dated 2026-02-12
DESCRIPTION | 10 +++++----- MD5 | 14 +++++++------- NAMESPACE | 3 +-- R/graphing.R | 4 ++-- R/imports.R | 4 ++-- R/quality_assessment.R | 10 ++++++++-- R/utils.R | 2 +- man/generate_report.Rd | 4 ++-- 8 files changed, 28 insertions(+), 23 deletions(-)
Title: Make 'PICRUSt2' Output Analysis and Visualization Easier
Description: Provides a convenient way to analyze and visualize 'PICRUSt2' output with pre-defined plots and functions. Allows for generating statistical plots about microbiome functional predictions and offers customization options. Features a one-click option for creating publication-level plots, saving time and effort in producing professional-grade figures. Streamlines the 'PICRUSt2' analysis and visualization process. For more details, see Yang et al. (2023) <doi:10.1093/bioinformatics/btad470>.
Author: Chen Yang [aut, cre],
Liangliang Zhang [aut]
Maintainer: Chen Yang <cafferychen7850@gmail.com>
Diff between ggpicrust2 versions 2.5.2 dated 2025-08-25 and 2.5.10 dated 2026-02-12
ggpicrust2-2.5.10/ggpicrust2/DESCRIPTION | 24 ggpicrust2-2.5.10/ggpicrust2/MD5 | 188 + ggpicrust2-2.5.10/ggpicrust2/NAMESPACE | 15 ggpicrust2-2.5.10/ggpicrust2/NEWS.md |only ggpicrust2-2.5.10/ggpicrust2/R/compare_daa_results.R | 149 - ggpicrust2-2.5.10/ggpicrust2/R/compare_gsea_daa.R | 56 ggpicrust2-2.5.10/ggpicrust2/R/compare_metagenome_results.R | 73 ggpicrust2-2.5.10/ggpicrust2/R/daa_annotated_results_df.R | 2 ggpicrust2-2.5.10/ggpicrust2/R/daa_results_df.R | 2 ggpicrust2-2.5.10/ggpicrust2/R/data_documentation.R |only ggpicrust2-2.5.10/ggpicrust2/R/data_utils.R |only ggpicrust2-2.5.10/ggpicrust2/R/ggpicrust2.R | 273 +- ggpicrust2-2.5.10/ggpicrust2/R/gsea_pathway_annotation.R | 277 +- ggpicrust2-2.5.10/ggpicrust2/R/kegg_abundance.R | 2 ggpicrust2-2.5.10/ggpicrust2/R/ko2kegg_abundance.R | 427 +--- ggpicrust2-2.5.10/ggpicrust2/R/ko_abundance.R | 2 ggpicrust2-2.5.10/ggpicrust2/R/metadata.R | 2 ggpicrust2-2.5.10/ggpicrust2/R/pathway_annotation.R | 408 +--- ggpicrust2-2.5.10/ggpicrust2/R/pathway_daa.R | 909 +++------ ggpicrust2-2.5.10/ggpicrust2/R/pathway_errorbar.R | 301 +-- ggpicrust2-2.5.10/ggpicrust2/R/pathway_errorbar_table.R | 20 ggpicrust2-2.5.10/ggpicrust2/R/pathway_gsea.R | 979 ++++++---- ggpicrust2-2.5.10/ggpicrust2/R/pathway_heatmap.R | 155 - ggpicrust2-2.5.10/ggpicrust2/R/pathway_pca.R | 157 - ggpicrust2-2.5.10/ggpicrust2/R/pathway_ridgeplot.R |only ggpicrust2-2.5.10/ggpicrust2/R/pathway_volcano.R |only ggpicrust2-2.5.10/ggpicrust2/R/visualize_gsea.R | 283 +- ggpicrust2-2.5.10/ggpicrust2/README.md |only ggpicrust2-2.5.10/ggpicrust2/build |only ggpicrust2-2.5.10/ggpicrust2/data/daa_annotated_results_df.rda |only ggpicrust2-2.5.10/ggpicrust2/data/daa_results_df.rda |only ggpicrust2-2.5.10/ggpicrust2/data/ec_reference.rda |only ggpicrust2-2.5.10/ggpicrust2/data/kegg_abundance.rda |only ggpicrust2-2.5.10/ggpicrust2/data/kegg_pathway_reference.rda |only ggpicrust2-2.5.10/ggpicrust2/data/ko_abundance.rda |only ggpicrust2-2.5.10/ggpicrust2/data/ko_reference.rda |only ggpicrust2-2.5.10/ggpicrust2/data/ko_to_go_reference.rda |only ggpicrust2-2.5.10/ggpicrust2/data/ko_to_kegg_reference.rda |only ggpicrust2-2.5.10/ggpicrust2/data/metacyc_abundance.rda |only ggpicrust2-2.5.10/ggpicrust2/data/metacyc_reference.rda |only ggpicrust2-2.5.10/ggpicrust2/data/metacyc_to_ec_reference.rda |only ggpicrust2-2.5.10/ggpicrust2/data/metadata.rda |only ggpicrust2-2.5.10/ggpicrust2/inst/doc |only ggpicrust2-2.5.10/ggpicrust2/man/build_design_matrix.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/calculate_abundance_stats.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/calculate_log2_fold_change.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/calculate_pseudocount.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/compare_daa_results.Rd | 54 ggpicrust2-2.5.10/ggpicrust2/man/compare_gsea_daa.Rd | 6 ggpicrust2-2.5.10/ggpicrust2/man/compare_metagenome_results.Rd | 31 ggpicrust2-2.5.10/ggpicrust2/man/create_heatmap_plot.Rd | 5 ggpicrust2-2.5.10/ggpicrust2/man/create_network_plot.Rd | 5 ggpicrust2-2.5.10/ggpicrust2/man/data_utils.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/dot-as_color_vector.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/dot-build_continuous_scale.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/dot-build_discrete_fill_for_direction.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/dot-build_heatmap_col_fun.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/dot-is_ggplot_scale.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/ec_reference.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/ggpicrust2.Rd | 49 ggpicrust2-2.5.10/ggpicrust2/man/gsea_pathway_annotation.Rd | 4 ggpicrust2-2.5.10/ggpicrust2/man/kegg_pathway_reference.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/ko2kegg_abundance.Rd | 97 ggpicrust2-2.5.10/ggpicrust2/man/ko_reference.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/ko_to_go_reference.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/ko_to_kegg_reference.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/metacyc_reference.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/metacyc_to_ec_reference.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/pathway_annotation.Rd | 41 ggpicrust2-2.5.10/ggpicrust2/man/pathway_daa.Rd | 72 ggpicrust2-2.5.10/ggpicrust2/man/pathway_gsea.Rd | 136 + ggpicrust2-2.5.10/ggpicrust2/man/pathway_heatmap.Rd | 4 ggpicrust2-2.5.10/ggpicrust2/man/pathway_pca.Rd | 32 ggpicrust2-2.5.10/ggpicrust2/man/pathway_ridgeplot.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/pathway_volcano.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/prepare_gene_sets.Rd | 6 ggpicrust2-2.5.10/ggpicrust2/man/require_column.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/run_fgsea.Rd | 8 ggpicrust2-2.5.10/ggpicrust2/man/run_limma_gsea.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/validate_daa_results.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/visualize_gsea.Rd | 14 ggpicrust2-2.5.10/ggpicrust2/tests/testthat.R |only ggpicrust2-2.5.10/ggpicrust2/tests/testthat/Rplots.pdf |only ggpicrust2-2.5.10/ggpicrust2/tests/testthat/helper-gsea.R |only ggpicrust2-2.5.10/ggpicrust2/tests/testthat/test-ggpicrust2-return-structure.R |only ggpicrust2-2.5.10/ggpicrust2/tests/testthat/test-go_pathway_support.R | 244 -- ggpicrust2-2.5.10/ggpicrust2/tests/testthat/test-gsea_pathway_annotation.R | 184 - ggpicrust2-2.5.10/ggpicrust2/tests/testthat/test-ko2kegg_abundance.R | 169 - ggpicrust2-2.5.10/ggpicrust2/tests/testthat/test-pathway_annotation.R | 551 ----- ggpicrust2-2.5.10/ggpicrust2/tests/testthat/test-pathway_daa.R | 368 ++- ggpicrust2-2.5.10/ggpicrust2/tests/testthat/test-pathway_errorbar.R | 420 +--- ggpicrust2-2.5.10/ggpicrust2/tests/testthat/test-pathway_gsea.R | 231 -- ggpicrust2-2.5.10/ggpicrust2/tests/testthat/test-pathway_heatmap.R | 374 --- ggpicrust2-2.5.10/ggpicrust2/tests/testthat/test-pathway_pca.R | 292 -- ggpicrust2-2.5.10/ggpicrust2/tests/testthat/test-pathway_ridgeplot.R |only ggpicrust2-2.5.10/ggpicrust2/tests/testthat/test-pathway_volcano.R |only ggpicrust2-2.5.10/ggpicrust2/tests/testthat/test-reference_data_structure.R |only ggpicrust2-2.5.10/ggpicrust2/tests/testthat/test-visualize_gsea.R | 311 --- ggpicrust2-2.5.10/ggpicrust2/vignettes |only ggpicrust2-2.5.2/ggpicrust2/R/ggpicrust2_extended.R |only ggpicrust2-2.5.2/ggpicrust2/R/sysdata.rda |only ggpicrust2-2.5.2/ggpicrust2/data/daa_annotated_results_df.RData |only ggpicrust2-2.5.2/ggpicrust2/data/daa_results_df.RData |only ggpicrust2-2.5.2/ggpicrust2/data/kegg_abundance.RData |only ggpicrust2-2.5.2/ggpicrust2/data/ko_abundance.RData |only ggpicrust2-2.5.2/ggpicrust2/data/metacyc_abundance.RData |only ggpicrust2-2.5.2/ggpicrust2/data/metadata.RData |only ggpicrust2-2.5.2/ggpicrust2/inst/PICRUST_COMPATIBILITY.md |only ggpicrust2-2.5.2/ggpicrust2/inst/extdata/create_metacyc_to_ec_mapping.R |only ggpicrust2-2.5.2/ggpicrust2/man/create_basic_go_mapping.Rd |only ggpicrust2-2.5.2/ggpicrust2/man/ggpicrust2_extended.Rd |only ggpicrust2-2.5.2/ggpicrust2/man/validate_abundance_data.Rd |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/TEST_SUITE_DOCUMENTATION.md |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/helper-skip.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-compare_gsea_daa-comprehensive.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-compare_gsea_daa.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-compare_gsea_daa_advanced.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-cross_pathway_consistency.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-error_handling_edge_cases.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-ggpicrust2_extended.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-gsea_core_functions.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-gsea_mathematical_correctness.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-gsea_pathway_annotation-comprehensive-fixed.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-gsea_pathway_annotation-comprehensive.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-gsea_utilities_final.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-gsea_utility_functions_working.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-heatmap_plot_detailed.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-issue-166.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-metacyc_annotation_system.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-metacyc_error_handling_edge_cases.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-metacyc_gsea_implementation.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-metacyc_reference_data_loading.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-network_plot_detailed.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-p-value-formatting.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-pathway_errorbar-comprehensive.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-picrust-compatibility.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-visualize_gsea_edge_cases.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-visualize_gsea_helper_functions.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-visualize_gsea_pathway_labels.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test_examples.R |only 140 files changed, 3381 insertions(+), 5031 deletions(-)
Title: Handling Missing Values with Multivariate Data Analysis
Description: Imputation of incomplete continuous or categorical datasets; Missing values are imputed with a principal component analysis (PCA), a multiple correspondence analysis (MCA) model or a multiple factor analysis (MFA) model; Perform multiple imputation with and in PCA or MCA.
Author: Francois Husson [aut, cre] ,
Julie Josse [aut]
Maintainer: Francois Husson <francois.husson@institut-agro.fr>
Diff between missMDA versions 1.20 dated 2025-07-23 and 1.21 dated 2026-02-12
DESCRIPTION | 10 +- MD5 | 16 ++-- NAMESPACE | 2 R/MIFAMD.R | 108 +++++++++++-------------------- R/plot.MIFAMD.R |only R/plot.MIMCA.R | 182 +++++++++++++++++++++++++++-------------------------- R/plot.MIPCA.R | 96 +++++++++++++-------------- man/MIFAMD.Rd | 4 - man/plot.MIFAMD.Rd |only man/plot.MIMCA.Rd | 3 10 files changed, 195 insertions(+), 226 deletions(-)
Title: Interface Between R and the OpenStreetMap-Based Routing Service
'Valhalla'
Description: An interface between R and the 'Valhalla' API. 'Valhalla' is a
routing service based on 'OpenStreetMap' data.
See <https://valhalla.github.io/valhalla/> for more information.
This package enables the computation of routes, trips, isochrones and
travel distances matrices (travel time and kilometer distance).
Author: Timothee Giraud [cre, aut] ,
Matthieu Viry [aut]
Maintainer: Timothee Giraud <timothee.giraud@cnrs.fr>
Diff between valh versions 0.1.0 dated 2025-04-09 and 0.2.0 dated 2026-02-12
DESCRIPTION | 15 +- MD5 | 36 +++--- NEWS.md | 11 +- R/utils.R | 5 R/vl_elevation.R | 11 -- R/vl_isochrone.R | 11 -- R/vl_locate.R | 7 - R/vl_matrix.R | 10 - R/vl_optimized_route.R | 11 -- R/vl_route.R | 11 -- R/vl_status.R | 13 +- README.md | 222 +++++++++++++++++++++++++++++++---------- build/vignette.rds |binary inst/doc/install-valhalla.Rmd | 29 ++--- inst/doc/install-valhalla.html | 47 ++++---- man/figures |only man/vl_status.Rd | 2 vignettes/install-valhalla.Rmd | 29 ++--- 18 files changed, 297 insertions(+), 173 deletions(-)
Title: R and C++ Interfaces to 'spdlog' C++ Header Library for Logging
Description: The mature and widely-used C++ logging library 'spdlog' by Gabi Melman provides
many desirable features. This package bundles these header files for easy use by R packages
from both their R and C or C++ code. Explicit use via 'LinkingTo:' is also supported. Also
see the 'spdl' package which enhanced this package with a consistent R and C++ interface.
Author: Dirk Eddelbuettel [aut, cre] ,
Gabi Melman [aut] ,
Victor Zverovic [aut]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppSpdlog versions 0.0.26 dated 2026-01-16 and 0.0.27 dated 2026-02-12
ChangeLog | 15 +++++++++++++++ DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ build/partial.rdb |binary inst/NEWS.Rd | 7 +++++++ inst/include/RcppSpdlog | 16 +++++++++------- src/formatter.cpp | 23 +++++++++++++++++++++++ 7 files changed, 64 insertions(+), 17 deletions(-)
Title: Functionalities for the 'INLA' Package
Description: Contain code to work with a C struct, in short
cgeneric, to define a Gaussian Markov random (GMRF) model.
The cgeneric contain code to specify GMRF elements such as
the graph and the precision matrix, and also the initial and
prior for its parameters, useful for model inference.
It can be accessed from a C program and is the recommended
way to implement new GMRF models in the 'INLA' package
(<https://www.r-inla.org>).
The 'INLAtools' implement functions to evaluate
each one of the model specifications from R.
The implemented functionalities leverage the use
of 'cgeneric' models and provide a way to debug
the code as well to work with the prior for the
model parameters and to sample from it.
A very useful functionality is the Kronecker product method
that creates a new model from multiple cgeneric models.
It also works with the rgeneric, the R version of the
cgeneric intended to easy try implementation of new GMRF models.
The Kronecker between two cgeneric models was used in
Sterr [...truncated...]
Author: Elias Teixeira Krainski [cre, aut, cph] ,
Finn Lindgren [aut] ,
Haavard Rue’ [aut]
Maintainer: Elias Teixeira Krainski <eliaskrainski@gmail.com>
Diff between INLAtools versions 0.0.8 dated 2026-02-02 and 0.0.9 dated 2026-02-12
DESCRIPTION | 9 ++---- MD5 | 20 +++++++------- NAMESPACE | 1 R/aaa_methods.R | 13 +++------ R/cgeneric.R | 35 +++++++++++++++--------- R/cgeneric_generic0.R | 66 ++++++++++++++++++++++++++--------------------- R/kronecker.R | 4 +- R/rgeneric.R | 44 +++++++++++++++++-------------- man/INLAtools-methods.Rd | 4 +- man/cgeneric-class.Rd | 2 - man/rgeneric-class.Rd | 13 +++------ 11 files changed, 114 insertions(+), 97 deletions(-)
Title: Estimating Public Transport Emissions from General Transit Feed
Specification (GTFS) Data
Description: A bottom up model to estimate the emission levels of public transport systems based on General Transit Feed Specification (GTFS) data. The package requires two main inputs: i) Public transport data in the GTFS standard format; and ii) Some basic information on fleet characteristics such as fleet age, technology, fuel and Euro stage. As it stands, the package estimates several pollutants at high spatial and temporal resolutions. Pollution levels can be calculated for specific transport routes, trips, time of the day or for the transport system as a whole. The output with emission estimates can be extracted in different formats, supporting analysis on how emission levels vary across space, time and by fleet characteristics. A full description of the methods used in the 'gtfs2emis' model is presented in Vieira, J. P. B.; Pereira, R. H. M.; Andrade, P. R. (2022) <doi:10.31219/osf.io/8m2cy>.
Author: Joao Bazzo [aut, cre] ,
Rafael H. M. Pereira [aut] ,
Pedro R. Andrade [aut] ,
Sergio Ibarra-Espinosa [ctb] ,
Ipea - Institute for Applied Economic Research [cph, fnd]
Maintainer: Joao Bazzo <joao.bazzo@gmail.com>
Diff between gtfs2emis versions 0.1.1 dated 2024-12-02 and 0.1.2 dated 2026-02-12
DESCRIPTION | 22 LICENSE | 4 MD5 | 126 +- NAMESPACE | 42 NEWS.md | 21 R/data.R | 280 ++--- R/ef_brazil_cetesb.R | 244 ++-- R/ef_europe_emep.R | 762 +++++++------- R/ef_scaled_euro.R | 458 ++++---- R/ef_usa_emfac.R | 314 +++--- R/ef_usa_moves.R | 320 +++--- R/emi_europe_emep_wear.R | 696 ++++++------- R/emis_grid.R | 660 ++++++------ R/emis_summary.R | 322 +++--- R/emis_to_dt.R | 306 ++--- R/emission_model.R | 1038 ++++++++++---------- R/fuel_correction.R | 198 +-- R/multiply_ef.R | 250 ++-- R/slope_class_europe_emep.R | 230 ++-- R/transport_model.R | 488 ++++----- R/utils.R | 56 - README.md | 538 +++++----- build/vignette.rds |binary inst/CITATION | 30 inst/doc/gtfs2emis_emission_factor.R | 258 ++--- inst/doc/gtfs2emis_emission_factor.Rmd | 578 +++++------ inst/doc/gtfs2emis_emission_factor.html | 1272 ++++++++++++------------ inst/doc/gtfs2emis_fleet_data.R | 96 - inst/doc/gtfs2emis_fleet_data.Rmd | 280 ++--- inst/doc/gtfs2emis_fleet_data.html | 1153 +++++++++++----------- inst/doc/gtfs2emis_intro_vignette.R | 300 ++--- inst/doc/gtfs2emis_intro_vignette.Rmd | 604 +++++------ inst/doc/gtfs2emis_intro_vignette.html | 1549 +++++++++++++++--------------- inst/doc/gtfs2emis_non_exhaust_ef.R | 308 ++--- inst/doc/gtfs2emis_non_exhaust_ef.Rmd | 648 ++++++------ inst/doc/gtfs2emis_non_exhaust_ef.html | 1647 ++++++++++++++++---------------- inst/extdata/bra_cur_fleet.txt | 222 ++-- inst/extdata/irl_dub_fleet.txt | 10 inst/extdata/usa_det_fleet.txt | 20 man/ef_brazil_cetesb.Rd | 138 +- man/ef_brazil_cetesb_db.Rd | 78 - man/ef_europe_emep.Rd | 210 ++-- man/ef_europe_emep_db.Rd | 132 +- man/ef_scaled_euro.Rd | 236 ++-- man/ef_usa_emfac.Rd | 148 +- man/ef_usa_emfac_db.Rd | 96 - man/ef_usa_moves.Rd | 146 +- man/ef_usa_moves_db.Rd | 114 +- man/emi_europe_emep_wear.Rd | 418 ++++---- man/emis_grid.Rd | 186 +-- man/emis_summary.Rd | 188 +-- man/emis_to_dt.Rd | 170 +-- man/emission_model.Rd | 426 ++++---- man/fuel_correction.Rd | 70 - man/multiply_ef.Rd | 84 - man/roxygen/templates/as_list.R | 6 man/roxygen/templates/fuel.R | 4 man/roxygen/templates/reference_year.R | 4 man/slope_class_europe_emep.Rd | 132 +- man/transport_model.Rd | 206 ++-- vignettes/gtfs2emis_emission_factor.Rmd | 578 +++++------ vignettes/gtfs2emis_fleet_data.Rmd | 280 ++--- vignettes/gtfs2emis_intro_vignette.Rmd | 604 +++++------ vignettes/gtfs2emis_non_exhaust_ef.Rmd | 648 ++++++------ 64 files changed, 10829 insertions(+), 10823 deletions(-)
Title: Functions for Epidemiological Analysis using Population Data
Description: Enables computation of epidemiological statistics, including
those where counts or mortality rates of the reference population are
used. Currently supported: excess hazard models (Dickman, Sloggett,
Hills, and Hakulinen (2012) <doi:10.1002/sim.1597>), rates, mean
survival times, relative/net survival (in particular the Ederer II
(Ederer and Heise (1959)) and Pohar Perme (Pohar Perme, Stare, and
Esteve (2012) <doi:10.1111/j.1541-0420.2011.01640.x>) estimators), and
standardized incidence and mortality ratios, all of which can be
easily adjusted for by covariates such as age. Fast splitting and
aggregation of 'Lexis' objects (from package 'Epi') and other
computations achieved using 'data.table'.
Author: Joonas Miettinen [cre, aut] ,
Matti Rantanen [aut],
Karri Seppa [ctb]
Maintainer: Joonas Miettinen <joonas.miettinen@cancer.fi>
Diff between popEpi versions 0.4.13 dated 2025-01-31 and 0.4.14 dated 2026-02-12
popEpi-0.4.13/popEpi/tests/testthat/test_Surv.R |only popEpi-0.4.14/popEpi/DESCRIPTION | 9 ++++---- popEpi-0.4.14/popEpi/MD5 | 15 ++++++------- popEpi-0.4.14/popEpi/NEWS.md | 4 +++ popEpi-0.4.14/popEpi/R/Surv.R | 4 --- popEpi-0.4.14/popEpi/build/partial.rdb |binary popEpi-0.4.14/popEpi/build/vignette.rds |binary popEpi-0.4.14/popEpi/inst/doc/sir.html | 12 +++++----- popEpi-0.4.14/popEpi/inst/doc/survtab_examples.html | 22 ++++++++++---------- 9 files changed, 33 insertions(+), 33 deletions(-)
Title: Network Analysis and Visualization
Description: Routines for simple graphs and network analysis. It can
handle large graphs very well and provides functions for generating
random and regular graphs, graph visualization, centrality methods and
much more.
Author: Gabor Csardi [aut] ,
Tamas Nepusz [aut] ,
Vincent Traag [aut] ,
Szabolcs Horvat [aut] ,
Fabio Zanini [aut] ,
Daniel Noom [aut],
Kirill Mueller [aut, cre] ,
Michael Antonov [ctb],
Chan Zuckerberg Initiative [fnd] ,
David Schoch [aut] ,
Maelle Salmon [a [...truncated...]
Maintainer: Kirill Mueller <kirill@cynkra.com>
Diff between igraph versions 2.2.1 dated 2025-10-27 and 2.2.2 dated 2026-02-12
DESCRIPTION | 6 ++-- MD5 | 20 +++++++------- NEWS.md | 7 +++++ R/games.R | 2 - R/versions.R | 2 - build/partial.rdb |binary build/vignette.rds |binary inst/doc/igraph.html | 65 ++++++++++++++++++++++++------------------------ inst/doc/igraph_ES.html | 63 +++++++++++++++++++++++----------------------- man/sample_degseq.Rd | 2 - src/rinterface_extra.c | 9 ++---- 11 files changed, 91 insertions(+), 85 deletions(-)
Title: Statistical Analysis of Haplotypes with Traits and Covariates
when Linkage Phase is Ambiguous
Description: Routines for the analysis of indirectly measured haplotypes. The statistical methods assume that all subjects are unrelated and that haplotypes are ambiguous (due to unknown linkage phase of the genetic markers). The main functions are: haplo.em(), haplo.glm(), haplo.score(), and haplo.power(); all of which have detailed examples in the vignette.
Author: Schaid Daniel [aut],
Jason P. Sinnwell [aut, cre]
Maintainer: Jason P. Sinnwell <sinnwell.jason@mayo.edu>
Diff between haplo.stats versions 1.9.7 dated 2024-09-19 and 1.9.7.1 dated 2026-02-12
haplo.stats-1.9.7.1/haplo.stats/DESCRIPTION | 6 +++--- haplo.stats-1.9.7.1/haplo.stats/MD5 | 9 +++++---- haplo.stats-1.9.7.1/haplo.stats/build/vignette.rds |binary haplo.stats-1.9.7.1/haplo.stats/inst/doc/haplostats.pdf |binary haplo.stats-1.9.7.1/haplo.stats/inst/doc/manualHaploStats.pdf |only haplo.stats-1.9.7.1/haplo.stats/vignettes/manualHaploStats.pdf.asis |only haplo.stats-1.9.7/haplo.stats/vignettes/manualHaploStats.pdf |only 7 files changed, 8 insertions(+), 7 deletions(-)
Title: Ordinal Relations
Description: Functions to handle ordinal relations reflected within the feature space. Those function allow to search for ordinal relations in multi-class datasets. One can check whether proposed relations are reflected in a specific feature representation. Furthermore, it provides functions to filter, organize and further analyze those ordinal relations.
Author: L Lausser [aut],
LM Schaefer [aut],
R Szekely [aut],
A Stolnicu [aut],
HA Kestler [aut, cre]
Maintainer: HA Kestler <hans.kestler@uni-ulm.de>
Diff between ORION versions 1.1.0 dated 2026-02-10 and 1.1.1 dated 2026-02-12
ORION-1.1.0/ORION/tests/testthat/test-e-svm-with-projection.R |only ORION-1.1.0/ORION/tests/testthat/test-e-svm-without-projection.R |only ORION-1.1.0/ORION/tests/testthat/test-tunePareto-svm-with-projection.R |only ORION-1.1.1/ORION/DESCRIPTION | 8 + ORION-1.1.1/ORION/MD5 | 16 +-- ORION-1.1.1/ORION/R/predictionMap.R | 45 +++------- ORION-1.1.1/ORION/inst/doc/ORION.html | 4 ORION-1.1.1/ORION/man/ORION-package.Rd | 1 ORION-1.1.1/ORION/man/predictionMap.Rd | 18 ---- ORION-1.1.1/ORION/tests/testthat/test-knn-with-projection.R |only ORION-1.1.1/ORION/tests/testthat/test-svm-with-projection.R |only ORION-1.1.1/ORION/tests/testthat/test-svm-without-projection.R |only 12 files changed, 36 insertions(+), 56 deletions(-)
Title: Search Download and Handle Data from Copernicus Marine Service
Information
Description: Subset and download data from EU Copernicus Marine
Service Information: <https://data.marine.copernicus.eu>.
Import data on the oceans physical and biogeochemical state
from Copernicus into R without the need of external software.
Author: Pepijn de Vries [aut, cre, dtc]
Maintainer: Pepijn de Vries <pepijn.devries@outlook.com>
Diff between CopernicusMarine versions 0.3.7 dated 2025-11-30 and 0.4.0 dated 2026-02-12
DESCRIPTION | 20 - MD5 | 72 ++-- NAMESPACE | 51 +-- NEWS.md | 10 R/cms_catalogue_entry.R | 42 +- R/cms_cite_product.r | 1 R/cms_download_native.R | 59 +++ R/cms_download_subset.r | 501 +++++++------------------------ R/cms_login.r | 238 +++++++------- R/cms_product_details.r | 32 - R/cms_product_metadata.r | 14 R/cms_product_services.r | 1 R/cms_products_list.r | 28 - R/cms_wmts.r | 247 +++++++-------- R/generics.r | 137 ++++---- R/import.r | 2 R/translate.R | 250 +++++++-------- README.md | 419 ++++++++++++------------- inst/doc/translate.R | 6 inst/doc/translate.Rmd | 146 ++++----- inst/doc/translate.html | 8 man/account.Rd | 88 ++--- man/cms_download_native.Rd | 166 +++++----- man/cms_download_subset.Rd | 183 +++++------ man/cms_native_proxy.Rd |only man/cms_translate.Rd | 2 man/cms_wmts.Rd | 158 ++++----- man/cms_zarr_proxy.Rd |only man/figures/README-download-subset-1.png |binary man/figures/README-leaflet-1.png |binary tests/testthat.R | 8 tests/testthat/test-translate.R | 80 ++-- tests/testthat/test_login.r | 24 + tests/testthat/test_native.r | 17 + tests/testthat/test_product.r | 146 ++++----- tests/testthat/test_subset.r | 19 - tests/testthat/test_wmts.r | 112 +++--- vignettes/translate.Rmd | 146 ++++----- 38 files changed, 1632 insertions(+), 1801 deletions(-)
More information about CopernicusMarine at CRAN
Permanent link
Title: Single Cell Oriented Reconstruction of PANDA Individual
Optimized Networks
Description: Constructs cell-type–specific gene regulatory networks from single-cell RNA-sequencing data. The method implements the SCORPION algorithm, which first aggregates individual cells into supercells and then applies PANDA (Passing Attributes between Networks for Data Assimilation) to infer transcription factor–target regulatory relationships. It also provides statistical methods for differential edge analysis.
Author: Daniel Osorio [aut, cre] ,
Marieke L. Kuijjer [aut]
Maintainer: Daniel Osorio <daniecos@uio.no>
Diff between SCORPION versions 1.3.0 dated 2026-02-04 and 1.3.1 dated 2026-02-12
DESCRIPTION | 12 +-- MD5 | 8 +- NAMESPACE | 3 R/testEdges.R | 201 ++++++++++++++++++++++++++++++++++--------------------- man/testEdges.Rd | 30 ++++++-- 5 files changed, 162 insertions(+), 92 deletions(-)
Title: Stratified and Personalised Models Based on Model-Based Trees
and Forests
Description: Model-based trees for subgroup analyses in clinical trials and
model-based forests for the estimation and prediction of personalised
treatment effects (personalised models). Currently partitioning of linear
models, lm(), generalised linear models, glm(), and Weibull models,
survreg(), is supported. Advanced plotting functionality is supported for
the trees and a test for parameter heterogeneity is provided for the
personalised models. For details on model-based trees for subgroup analyses
see Seibold, Zeileis and Hothorn (2016) <doi:10.1515/ijb-2015-0032>; for
details on model-based forests for estimation of individual treatment effects
see Seibold, Zeileis and Hothorn (2017) <doi:10.1177/0962280217693034>.
Author: Heidi Seibold [aut, cre],
Achim Zeileis [aut],
Torsten Hothorn [aut]
Maintainer: Heidi Seibold <heidi@seibold.co>
This is a re-admission after prior archival of version 0.9-8 dated 2024-11-08
Diff between model4you versions 0.9-8 dated 2024-11-08 and 0.9-9 dated 2026-02-12
DESCRIPTION | 16 ++++++++-------- MD5 | 8 ++++---- NAMESPACE | 2 +- R/plot-pmtree.R | 38 +++++++++++++++++++++----------------- R/pmodel-test.R | 4 ++-- 5 files changed, 36 insertions(+), 32 deletions(-)
Title: Access Chinese Data via Public APIs and Curated Datasets
Description: Provides functions to access data from public RESTful APIs including 'Nager.Date',
'World Bank API', and 'REST Countries API', retrieving real-time or historical data
related to China, such as holidays, economic indicators, and international demographic
and geopolitical indicators. Additionally, the package includes one of the largest
curated collections of open datasets focused on China and Hong Kong, covering topics
such as air quality, demographics, input-output tables, epidemiology, political
structure, names, and social indicators. The package supports reproducible research
and teaching by integrating reliable international APIs and structured datasets from
public, academic, and government sources.
For more information on the APIs, see:
'Nager.Date' <https://date.nager.at/Api>,
'World Bank API' <https://datahelpdesk.worldbank.org/knowledgebase/articles/889392>,
and 'REST Countries API' <https://restcountries.com/>.
Author: Renzo Caceres Rossi [aut, cre]
Maintainer: Renzo Caceres Rossi <arenzocaceresrossi@gmail.com>
This is a re-admission after prior archival of version 0.1.0 dated 2025-08-26
Diff between ChinAPIs versions 0.1.0 dated 2025-08-26 and 0.1.1 dated 2026-02-12
DESCRIPTION | 6 - LICENSE | 2 MD5 | 137 ++++++++++++------------ NAMESPACE | 1 NEWS.md |only R/chinapis-package.R | 4 R/data-documentation.R | 4 R/get_china_child_mortality.R | 47 ++++++-- R/get_china_cpi.R | 47 ++++++-- R/get_china_energy_use.R | 55 ++++++++- R/get_china_gdp.R | 65 +++++++++-- R/get_china_holidays.R | 77 ++++++++++--- R/get_china_hospital_beds.R | 59 +++++++--- R/get_china_life_expectancy.R | 56 +++++++-- R/get_china_literacy_rate.R | 47 ++++++-- R/get_china_population.R | 57 +++++++-- R/get_china_unemployment.R | 56 +++++++-- R/get_country_info_cn.R | 68 ++++++++--- R/utils.R | 4 R/view_datasets_ChinAPIs.R | 4 build/vignette.rds |binary inst/CITATION | 4 inst/doc/ChinAPIs_vignette.html | 5 man/get_china_holidays.Rd | 18 +-- tests/testthat/test-COVID19_HongKong_df.R | 4 tests/testthat/test-bj_air_quality_tbl_df.R | 4 tests/testthat/test-china_admin_divisions_df.R | 4 tests/testthat/test-china_cars_tbl_df.R | 4 tests/testthat/test-china_corruption_tbl_df.R | 4 tests/testthat/test-china_io_2002_122_df.R | 4 tests/testthat/test-china_io_2005_42_df.R | 4 tests/testthat/test-china_io_2007_135_df.R | 4 tests/testthat/test-china_io_2010_41_df.R | 4 tests/testthat/test-china_io_2012_139_df.R | 4 tests/testthat/test-china_io_2015_42_df.R | 4 tests/testthat/test-china_io_2017_149_df.R | 4 tests/testthat/test-china_io_2017_42_df.R | 4 tests/testthat/test-china_io_2018_153_df.R | 4 tests/testthat/test-china_io_2018_42_df.R | 4 tests/testthat/test-china_io_2020_153_df.R | 4 tests/testthat/test-china_io_2020_42_df.R | 4 tests/testthat/test-chinese_cities_tbl_df.R | 4 tests/testthat/test-chinese_dams_tbl_df.R | 4 tests/testthat/test-family_name_df.R | 4 tests/testthat/test-get_china_child_mortality.R | 36 ++++-- tests/testthat/test-get_china_cpi.R | 83 ++++---------- tests/testthat/test-get_china_energy_use.R | 74 +++++++----- tests/testthat/test-get_china_gdp.R | 111 ++++++++++--------- tests/testthat/test-get_china_holidays.R | 98 +++++++++-------- tests/testthat/test-get_china_hospital_beds.R | 92 +++++++--------- tests/testthat/test-get_china_life_expectancy.R | 72 ++++++++---- tests/testthat/test-get_china_literacy_rate.R | 70 ++++++++---- tests/testthat/test-get_china_population.R | 81 +++++++++----- tests/testthat/test-get_china_unemployment.R | 114 +++++-------------- tests/testthat/test-get_country_info_cn.R | 89 +++++++-------- tests/testthat/test-given_name_df.R | 4 tests/testthat/test-health_family_life_df.R | 4 tests/testthat/test-hk_councillors_tbl_df.R | 4 tests/testthat/test-hk_districts_tbl_df.R | 4 tests/testthat/test-hk_population_tbl_df.R | 4 tests/testthat/test-hk_street_names_tbl_df.R | 4 tests/testthat/test-panda_locations_df.R | 4 tests/testthat/test-sars_hong_kong_list.R | 4 tests/testthat/test-shanghai_factories_df.R | 4 tests/testthat/test-shanghai_pm25_df.R | 4 tests/testthat/test-top1000name_prov_df.R | 4 tests/testthat/test-top100name_year_df.R | 4 tests/testthat/test-top50char_year_df.R | 4 tests/testthat/test-view_datasets_ChinAPIs.R | 4 tests/testthat/test-wenchuan_ptsd_matrix.R | 4 70 files changed, 1122 insertions(+), 761 deletions(-)
Title: Sample Size and Power Calculation for Bayesian Testing with
Bayes Factor
Description: The goal of 'BayesPower' is to provide tools for Bayesian sample size determination and power analysis across a range of common hypothesis testing scenarios using Bayes factors. The main function, BayesPower_BayesFactor(), launches an interactive 'shiny' application for performing these analyses. The application also provides command-line code for reproducibility. Details of the methods are described in the tutorial by Wong, Pawel, and Tendeiro (2025) <doi:10.31234/osf.io/pgdac_v2>.
Author: Tsz Keung Wong [aut, cre],
Samuel Pawel [aut],
Jorge Tendeiro [aut]
Maintainer: Tsz Keung Wong <t.k.wong3004@gmail.com>
Diff between BayesPower versions 1.0.1 dated 2025-10-29 and 1.0.2 dated 2026-02-12
BayesPower-1.0.1/BayesPower/man/BF10.t.test.one_sample.Rd |only BayesPower-1.0.1/BayesPower/man/BF10.t.test.two_sample.Rd |only BayesPower-1.0.1/BayesPower/man/BFpower.f.Rd |only BayesPower-1.0.1/BayesPower/man/BFpower.t.test_one_sample.Rd |only BayesPower-1.0.1/BayesPower/man/BFpower.t.test_two_sample.Rd |only BayesPower-1.0.2/BayesPower/DESCRIPTION | 11 BayesPower-1.0.2/BayesPower/MD5 | 50 BayesPower-1.0.2/BayesPower/NAMESPACE | 26 BayesPower-1.0.2/BayesPower/R/BF_S3class.r |only BayesPower-1.0.2/BayesPower/R/BF_app_backend.R | 4510 ++++++---- BayesPower-1.0.2/BayesPower/R/BF_app_frontend.r | 3209 +++---- BayesPower-1.0.2/BayesPower/R/BF_app_helpers.r | 1004 +- BayesPower-1.0.2/BayesPower/R/BF_pval.r |only BayesPower-1.0.2/BayesPower/R/BF_users_functions.r | 3959 ++++++-- BayesPower-1.0.2/BayesPower/inst/report_templates/report_2p.Rmd | 48 BayesPower-1.0.2/BayesPower/inst/report_templates/report_bin.Rmd | 26 BayesPower-1.0.2/BayesPower/inst/report_templates/report_f.Rmd | 32 BayesPower-1.0.2/BayesPower/inst/report_templates/report_r.Rmd | 28 BayesPower-1.0.2/BayesPower/inst/report_templates/report_t1.Rmd | 39 BayesPower-1.0.2/BayesPower/inst/report_templates/report_t2.Rmd | 33 BayesPower-1.0.2/BayesPower/man/BF10.bin.test.Rd | 71 BayesPower-1.0.2/BayesPower/man/BF10.cor.Rd | 63 BayesPower-1.0.2/BayesPower/man/BF10.f.test.Rd | 45 BayesPower-1.0.2/BayesPower/man/BF10.props.Rd | 53 BayesPower-1.0.2/BayesPower/man/BF10.ttest.OneSample.Rd |only BayesPower-1.0.2/BayesPower/man/BF10.ttest.TwoSample.Rd |only BayesPower-1.0.2/BayesPower/man/BFpower.bin.Rd | 179 BayesPower-1.0.2/BayesPower/man/BFpower.cor.Rd | 194 BayesPower-1.0.2/BayesPower/man/BFpower.f.test.Rd |only BayesPower-1.0.2/BayesPower/man/BFpower.props.Rd | 168 BayesPower-1.0.2/BayesPower/man/BFpower.ttest.OneSample.Rd |only BayesPower-1.0.2/BayesPower/man/BFpower.ttest.TwoSample.Rd |only 32 files changed, 9071 insertions(+), 4677 deletions(-)
Title: Transition Network Analysis (TNA)
Description: Provides tools for performing Transition Network Analysis (TNA) to
study relational dynamics, including functions for building and plotting TNA
models, calculating centrality measures, and identifying dominant events and
patterns. TNA statistical techniques (e.g., bootstrapping and permutation
tests) ensure the reliability of observed insights and confirm that
identified dynamics are meaningful. See (Saqr et al., 2025)
<doi:10.1145/3706468.3706513> for more details on TNA.
Author: Mohammed Saqr [aut],
Santtu Tikka [aut],
Sonsoles Lopez-Pernas [aut, cre]
Maintainer: Sonsoles Lopez-Pernas <sonsoles.lopez@uef.fi>
Diff between tna versions 1.1.0 dated 2025-10-18 and 1.2.0 dated 2026-02-12
tna-1.1.0/tna/man/cluster_sequences.Rd |only tna-1.2.0/tna/DESCRIPTION | 13 tna-1.2.0/tna/MD5 | 207 tna-1.2.0/tna/NAMESPACE | 7 tna-1.2.0/tna/NEWS.md | 12 tna-1.2.0/tna/R/build.R | 314 - tna-1.2.0/tna/R/centralities.R | 91 tna-1.2.0/tna/R/check.R | 75 tna-1.2.0/tna/R/clusters.R | 335 + tna-1.2.0/tna/R/coef.R | 10 tna-1.2.0/tna/R/communities.R | 4 tna-1.2.0/tna/R/compare.R | 395 - tna-1.2.0/tna/R/data.R | 191 tna-1.2.0/tna/R/groups.R | 26 tna-1.2.0/tna/R/indices.R | 444 + tna-1.2.0/tna/R/mmm.R | 46 tna-1.2.0/tna/R/permutation.R | 59 tna-1.2.0/tna/R/plot.R | 607 +- tna-1.2.0/tna/R/print.R | 62 tna-1.2.0/tna/R/reliability.R |only tna-1.2.0/tna/R/simulate.R | 174 tna-1.2.0/tna/R/summary.R | 9 tna-1.2.0/tna/R/tna-package.R | 8 tna-1.2.0/tna/R/utilities.R | 45 tna-1.2.0/tna/R/vcov.R | 33 tna-1.2.0/tna/README.md | 205 tna-1.2.0/tna/data/engagement_mmm.rda |binary tna-1.2.0/tna/inst/doc/communities_and_cliques.R | 3 tna-1.2.0/tna/inst/doc/communities_and_cliques.Rmd | 12 tna-1.2.0/tna/inst/doc/communities_and_cliques.html | 13 tna-1.2.0/tna/inst/doc/complete_tutorial.R | 4 tna-1.2.0/tna/inst/doc/complete_tutorial.Rmd | 7 tna-1.2.0/tna/inst/doc/complete_tutorial.html | 36 tna-1.2.0/tna/inst/doc/grouped_sequences.R | 1 tna-1.2.0/tna/inst/doc/grouped_sequences.Rmd | 10 tna-1.2.0/tna/inst/doc/grouped_sequences.html | 4 tna-1.2.0/tna/inst/doc/tna.html | 2 tna-1.2.0/tna/man/bootstrap.Rd | 4 tna-1.2.0/tna/man/build_model.Rd | 81 tna-1.2.0/tna/man/centralities.Rd | 18 tna-1.2.0/tna/man/cluster_data.Rd |only tna-1.2.0/tna/man/compare.Rd | 12 tna-1.2.0/tna/man/compare.group_tna.Rd | 39 tna-1.2.0/tna/man/compare_sequences.Rd | 63 tna-1.2.0/tna/man/deprune.Rd | 4 tna-1.2.0/tna/man/estimate_centrality_stability.Rd | 23 tna-1.2.0/tna/man/figures/README-centralitiesplot-1.svg | 3821 ++++++++-------- tna-1.2.0/tna/man/figures/README-tnaplot-1.svg | 1991 ++++---- tna-1.2.0/tna/man/figures/README-tnaplot-2.svg | 1457 +++--- tna-1.2.0/tna/man/figures/README-unnamed-chunk-12-1.svg | 1991 ++++---- tna-1.2.0/tna/man/figures/README-unnamed-chunk-14-1.svg | 467 + tna-1.2.0/tna/man/figures/README-unnamed-chunk-16-1.svg | 3174 +++++++------ tna-1.2.0/tna/man/group_model.Rd | 11 tna-1.2.0/tna/man/import_data.Rd | 11 tna-1.2.0/tna/man/import_onehot.Rd | 52 tna-1.2.0/tna/man/permutation_test.Rd | 4 tna-1.2.0/tna/man/permutation_test.group_tna.Rd | 4 tna-1.2.0/tna/man/plot.group_tna.Rd | 11 tna-1.2.0/tna/man/plot.group_tna_bootstrap.Rd | 4 tna-1.2.0/tna/man/plot.group_tna_permutation.Rd | 4 tna-1.2.0/tna/man/plot.group_tna_stability.Rd | 4 tna-1.2.0/tna/man/plot.tna.Rd | 17 tna-1.2.0/tna/man/plot.tna_bootstrap.Rd | 4 tna-1.2.0/tna/man/plot.tna_communities.Rd | 5 tna-1.2.0/tna/man/plot.tna_comparison.Rd | 10 tna-1.2.0/tna/man/plot.tna_permutation.Rd | 4 tna-1.2.0/tna/man/plot.tna_reliability.Rd |only tna-1.2.0/tna/man/plot.tna_sequence_comparison.Rd | 3 tna-1.2.0/tna/man/plot.tna_stability.Rd | 4 tna-1.2.0/tna/man/plot_frequencies.group_tna.Rd | 19 tna-1.2.0/tna/man/plot_mosaic.Rd | 5 tna-1.2.0/tna/man/plot_mosaic.group_tna.Rd | 7 tna-1.2.0/tna/man/plot_mosaic.tna_data.Rd | 5 tna-1.2.0/tna/man/prepare_data.Rd | 1 tna-1.2.0/tna/man/print.group_tna_bootstrap.Rd | 4 tna-1.2.0/tna/man/print.group_tna_permutation.Rd | 4 tna-1.2.0/tna/man/print.group_tna_stability.Rd | 4 tna-1.2.0/tna/man/print.summary.group_tna_bootstrap.Rd | 4 tna-1.2.0/tna/man/print.summary.tna_bootstrap.Rd | 4 tna-1.2.0/tna/man/print.tna_bootstrap.Rd | 4 tna-1.2.0/tna/man/print.tna_clustering.Rd |only tna-1.2.0/tna/man/print.tna_data.Rd | 1 tna-1.2.0/tna/man/print.tna_permutation.Rd | 4 tna-1.2.0/tna/man/print.tna_reliability.Rd |only tna-1.2.0/tna/man/print.tna_stability.Rd | 4 tna-1.2.0/tna/man/prune.Rd | 8 tna-1.2.0/tna/man/pruning_details.Rd | 4 tna-1.2.0/tna/man/reliability.Rd |only tna-1.2.0/tna/man/reprune.Rd | 4 tna-1.2.0/tna/man/simulate.group_tna.Rd |only tna-1.2.0/tna/man/simulate.tna.Rd | 29 tna-1.2.0/tna/man/summary.group_tna_bootstrap.Rd | 4 tna-1.2.0/tna/man/summary.tna_bootstrap.Rd | 4 tna-1.2.0/tna/tests/testthat/helper-mock.R | 10 tna-1.2.0/tna/tests/testthat/test-build.R | 83 tna-1.2.0/tna/tests/testthat/test-check.R | 113 tna-1.2.0/tna/tests/testthat/test-clusters.R | 375 + tna-1.2.0/tna/tests/testthat/test-compare.R | 25 tna-1.2.0/tna/tests/testthat/test-data.R | 119 tna-1.2.0/tna/tests/testthat/test-indices.R | 20 tna-1.2.0/tna/tests/testthat/test-mmm.R | 371 + tna-1.2.0/tna/tests/testthat/test-plot.R | 77 tna-1.2.0/tna/tests/testthat/test-print.R | 25 tna-1.2.0/tna/tests/testthat/test-reliability.R |only tna-1.2.0/tna/tests/testthat/test-simulate.R | 197 tna-1.2.0/tna/vignettes/articles/atna.Rmd |only tna-1.2.0/tna/vignettes/articles/new-docs.Rmd |only tna-1.2.0/tna/vignettes/communities_and_cliques.Rmd | 12 tna-1.2.0/tna/vignettes/complete_tutorial.Rmd | 7 tna-1.2.0/tna/vignettes/grouped_sequences.Rmd | 10 110 files changed, 10529 insertions(+), 7799 deletions(-)
Title: Lorenz and Penalized Lorenz Regressions
Description: Inference for the Lorenz and penalized Lorenz regressions. More broadly, the package proposes functions to assess inequality and graphically represent it. The Lorenz Regression procedure is introduced in Heuchenne and Jacquemain (2022) <doi:10.1016/j.csda.2021.107347> and in Jacquemain, A., C. Heuchenne, and E. Pircalabelu (2024) <doi:10.1214/23-EJS2200>.
Author: Alexandre Jacquemain [aut, cre] ,
Xingjie Shi [ctb]
Maintainer: Alexandre Jacquemain <aljacquemain@gmail.com>
Diff between LorenzRegression versions 2.3.0 dated 2025-08-20 and 2.3.1 dated 2026-02-12
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS.md | 4 ++++ R/LorenzRegression-package.R | 2 +- man/LorenzRegression-package.Rd | 2 +- 5 files changed, 14 insertions(+), 10 deletions(-)
More information about LorenzRegression at CRAN
Permanent link
Title: Companion to the Book "Investigating Statistical Concepts,
Applications, and Methods"
Description: Introductory statistics methods to accompany "Investigating
Statistical Concepts, Applications, and Methods" (ISCAM) by Beth
Chance & Allan Rossman (2024) <https://rossmanchance.com/iscam4/>.
Tools to introduce statistical concepts with a focus on simulation
approaches. Functions are verbose, designed to provide ample output
for students to understand what each function does. Additionally, most
functions are accompanied with plots. The package is designed to be
used in an educational setting alongside the ISCAM textbook.
Author: Beth Chance [cre, aut, cph],
Visruth Srimath Kandali [aut]
Maintainer: Beth Chance <bchance@calpoly.edu>
Diff between ISCAM versions 1.0.0 dated 2025-11-11 and 1.2.0 dated 2026-02-12
DESCRIPTION | 6 MD5 | 165 NEWS.md | 12 R/binomial.R | 2008 +++++---- R/chisqprob.R | 111 R/help.R |only R/hypergeometric.R | 469 +- R/normal.R | 2645 ++++++------- R/overlayDensities.R | 586 +- R/plots.R | 279 - R/summary.R | 132 R/t.R | 2077 ++++------ R/utils.R |only README.md | 57 build/partial.rdb |binary man/ISCAM-package.Rd | 58 man/dot-add_density_common_params.Rd | 36 man/dot-plot_funcs_common_params.Rd | 40 man/iscamaddexp.Rd | 70 man/iscamaddlnorm.Rd | 68 man/iscamaddnorm.Rd | 68 man/iscamaddt.Rd | 74 man/iscamaddtnorm.Rd | 74 man/iscamboxplot.Rd | 92 man/iscamdotplot.Rd | 94 man/iscamonepropztest.Rd | 109 man/iscamsummary.Rd | 70 man/iscamtprob.Rd | 68 man/iscamtwopropztest.Rd | 135 tests/testthat/Rplots.pdf |only tests/testthat/_snaps/binomial |only tests/testthat/_snaps/binomial.md | 35 tests/testthat/_snaps/chisq-hyper |only tests/testthat/_snaps/chisq-hyper.md | 21 tests/testthat/_snaps/darwin |only tests/testthat/_snaps/iscamsummary.md |only tests/testthat/_snaps/linux |only tests/testthat/_snaps/normal |only tests/testthat/_snaps/normal.md | 21 tests/testthat/_snaps/overlayDensities.md |only tests/testthat/_snaps/plots.md |only tests/testthat/_snaps/plots/iscamdotplot-one-variable.svg | 7 tests/testthat/_snaps/plots/iscamdotplot-two-variables.svg | 8 tests/testthat/_snaps/prop-tests |only tests/testthat/_snaps/prop-tests.md | 14 tests/testthat/_snaps/t |only tests/testthat/_snaps/t.md | 38 tests/testthat/_snaps/windows |only tests/testthat/helper-capture.R | 39 tests/testthat/test-binomial.R | 118 tests/testthat/test-chisq-hyper.R | 171 tests/testthat/test-help.R |only tests/testthat/test-iscamsummary.R | 5 tests/testthat/test-normal.R | 92 tests/testthat/test-overlayDensities.R | 57 tests/testthat/test-plots.R | 44 tests/testthat/test-prop-tests.R | 67 tests/testthat/test-smoke-exports.R |only tests/testthat/test-t.R | 139 tests/testthat/test-utils.R |only 60 files changed, 5678 insertions(+), 4801 deletions(-)
Title: Cumulative Link Models with 'CmdStanR'
Description: Fits cumulative link models (CLMs) for ordinal categorical data
using 'CmdStanR'. Supports various link functions including logit, probit,
cloglog, loglog, cauchit, and flexible parametric links such as
Generalized Extreme Value (GEV), Asymmetric Exponential Power (AEP),
and Symmetric Power. Models are pre-compiled using the 'instantiate'
package for fast execution without runtime compilation. Methods are
described in Agresti (2010, ISBN:978-0-470-08289-8),
Wang and Dey (2011) <doi:10.1007/s10651-010-0154-8>, and
Naranjo, Perez, and Martin (2015) <doi:10.1007/s11222-014-9449-1>.
Author: Tomotaka Momozaki [aut, cre]
Maintainer: Tomotaka Momozaki <momozaki.stat@gmail.com>
Diff between clmstan versions 0.1.0 dated 2026-02-10 and 0.1.1 dated 2026-02-12
DESCRIPTION | 8 +++----- MD5 | 6 +++--- NEWS.md | 14 ++++++++++++++ src/install.libs.R | 38 +++++++++++++++++++++++++------------- 4 files changed, 45 insertions(+), 21 deletions(-)
Title: Text Analysis for All
Description: An R 'shiny' app designed for diverse text analysis tasks, offering a wide range of methodologies tailored to Natural Language Processing (NLP) needs.
It is a versatile, general-purpose tool for analyzing textual data.
'tall' features a comprehensive workflow, including data cleaning, preprocessing, statistical analysis, and visualization, all integrated for effective text analysis.
Author: Massimo Aria [aut, cre, cph] ,
Maria Spano [aut] ,
Luca D'Aniello [aut] ,
Corrado Cuccurullo [ctb] ,
Michelangelo Misuraca [ctb]
Maintainer: Massimo Aria <aria@unina.it>
Diff between tall versions 0.5.1 dated 2025-12-12 and 0.5.2 dated 2026-02-12
DESCRIPTION | 6 MD5 | 30 - NAMESPACE | 1 NEWS.md | 12 R/zzz.R | 2 inst/tall/collocation.R | 1184 ++++++++++++++++++++++++++-------------------- inst/tall/cssTags.R | 121 ++++ inst/tall/documents.R | 6 inst/tall/header.R | 2 inst/tall/import.R | 4 inst/tall/keyness.R | 367 +++++++------- inst/tall/overview.R | 243 +++++---- inst/tall/server.R | 2 inst/tall/settings.R | 222 ++++---- inst/tall/tallFunctions.R | 684 +++++++++++++------------- inst/tall/words.R | 137 ----- 16 files changed, 1639 insertions(+), 1384 deletions(-)
Title: Longitudinal Sequential Imputation and Prediction with Bayesian
Trees Mixed-Effects Models for Longitudinal Data
Description: Implements a sequential imputation framework using Bayesian Mixed-Effects Trees ('SBMTrees') for handling missing data in longitudinal studies. The package supports a variety of models, including non-linear relationships and non-normal random effects and residuals, leveraging Dirichlet Process priors for increased flexibility. Key features include handling Missing at Random (MAR) longitudinal data, imputation of both covariates and outcomes, and generating posterior predictive samples for further analysis. The methodology is designed for applications in epidemiology, biostatistics, and other fields requiring robust handling of missing data in longitudinal settings.
Author: Jungang Zou [aut, cre],
Liangyuan Hu [aut],
Robert McCulloch [ctb],
Rodney Sparapani [ctb],
Charles Spanbauer [ctb],
Robert Gramacy [ctb],
Jean-Sebastien Roy [ctb]
Maintainer: Jungang Zou <jungang.zou@gmail.com>
Diff between SBMTrees versions 1.4 dated 2026-02-06 and 1.5 dated 2026-02-12
DESCRIPTION | 8 MD5 | 12 NEWS.md | 6 R/RcppExports.R | 4 inst/doc/SBMTrees_Introduction.html | 67 +-- src/RcppExports.cpp | 16 src/bart_model.h | 782 ++++++++++++++++-------------------- 7 files changed, 421 insertions(+), 474 deletions(-)
Title: Interact with Data on 'SurveyCTO'
Description: 'SurveyCTO' is a platform for mobile data collection in offline settings.
The 'rsurveycto' R package uses the 'SurveyCTO' REST API
<https://docs.surveycto.com/05-exporting-and-publishing-data/05-api-access/01.api-access.html>
to read datasets and forms from a 'SurveyCTO' server into R as 'data.table's
and to download file attachments. The package also has limited support to
write datasets to a server.
Author: Jake Hughey [aut, cre],
Robert On [aut]
Maintainer: Jake Hughey <jake@agency.fund>
Diff between rsurveycto versions 0.2.4 dated 2025-12-22 and 0.2.5 dated 2026-02-12
DESCRIPTION | 6 +++--- MD5 | 13 ++++++++----- NAMESPACE | 1 + NEWS.md | 3 +++ R/scto_get_form_responses.R |only R/scto_read.R | 2 ++ man/scto_get_form_responses.Rd |only man/scto_read.Rd | 3 +++ tests/testthat/test-scto-get-form-responses.R |only 9 files changed, 20 insertions(+), 8 deletions(-)
Title: A Comprehensive Toolkit for Working with Encrypted Parquet Files
Description: Utilities for reading, writing, and managing RCDF files, including encryption and decryption support. It offers a flexible interface for handling data stored in encrypted Parquet format, along with metadata extraction, key management, and secure operations using Advanced Encryption Standard (AES) and Rivest-Shamir-Adleman (RSA) encryption.
Author: Bhas Abdulsamad [aut, cre, cph]
Maintainer: Bhas Abdulsamad <aeabdulsamad@gmail.com>
This is a re-admission after prior archival of version 0.1.2 dated 2025-12-03
Diff between rcdf versions 0.1.2 dated 2025-12-03 and 0.1.3 dated 2026-02-12
DESCRIPTION | 6 +- MD5 | 30 ++++++------ NAMESPACE | 3 + NEWS.md | 8 ++- R/helpers.R | 17 +++++++ R/merge_rcdf.R |only R/metadata.R | 64 +++++++++++++++----------- R/read_parquet.R | 16 ++++-- R/read_rcdf.R | 88 ++++++++++++++++++++++++++++++------- R/utils.R | 48 +++++++++++++++++++- R/write_parquet.R | 9 +-- R/write_rcdf.R | 4 + R/zzz.R | 3 - build/vignette.rds |binary man/merge_rcdf.Rd |only man/read_rcdf.Rd | 5 +- tests/testthat/test-read_parquet.R | 17 ------- 17 files changed, 225 insertions(+), 93 deletions(-)
Title: Mixed Model Association Test for GEne-Environment Interaction
Description: Use a 'glmmkin' class object (GMMAT package) from the null model to perform generalized linear mixed model-based single-variant and variant set main effect tests, gene-environment interaction tests, and joint tests for association, as proposed in Wang et al. (2020) <DOI:10.1002/gepi.22351>.
Author: Xinyu Wang [aut],
Han Chen [aut, cre],
Duy Pham [aut],
Kenneth Westerman [ctb],
Cong Pan [aut],
Eric Biggers [ctb, cph] ,
Tino Reichardt [ctb, cph] library),
Meta Platforms, Inc. and affiliates [cph] library)
Maintainer: Han Chen <hanchenphd@gmail.com>
Diff between MAGEE versions 1.4.4 dated 2025-10-21 and 1.4.5 dated 2026-02-12
DESCRIPTION | 8 MD5 | 22 +- build/vignette.rds |binary configure | 30 +- configure.ac | 2 data/example.rda |binary inst/doc/MAGEE.Rnw | 31 +- inst/doc/MAGEE.pdf |binary man/MAGEE-package.Rd | 4 src/fitglmm.cpp | 543 +++++++++++++++++++++++++-------------------------- src/fitmagee.cpp | 2 vignettes/MAGEE.Rnw | 31 +- 12 files changed, 341 insertions(+), 332 deletions(-)
Title: Evaluation of Inequality Constrained Hypotheses Using GORICA
Description: Implements the generalized order-restricted information criterion
approximation (GORICA), an AIC-like information criterion that can be
utilized to evaluate informative hypotheses specifying directional
relationships between model parameters in terms of (in)equality
constraints (see Altinisik, Van Lissa, Hoijtink, Oldehinkel, & Kuiper,
2021), <doi:10.31234/osf.io/t3c8g>. The GORICA is applicable not only to
normal linear models, but also to generalized linear models (GLMs),
generalized linear mixed models (GLMMs), structural equation models
(SEMs), and contingency tables. For contingency tables, restrictions on cell
probabilities can be non-linear.
Author: Rebecca M. Kuiper [aut],
Altinisik Yasin [aut],
Vanbrabant Leonard [ctb],
Caspar J. van Lissa [aut, cre]
Maintainer: Caspar J. van Lissa <c.j.vanlissa@tilburguniversity.edu>
This is a re-admission after prior archival of version 0.1.4 dated 2023-10-11
Diff between gorica versions 0.1.4 dated 2023-10-11 and 0.1.5 dated 2026-02-12
DESCRIPTION | 8 - MD5 | 20 +- NAMESPACE | 3 NEWS.md | 47 +++-- R/compare_hypotheses.R | 146 +++++++++--------- R/get_estimates_unique_to_gorica.R | 294 ++++++++++++++++++------------------- R/hox_2010.R | 58 +++---- R/print_functions.R | 88 +++++------ build/partial.rdb |binary man/hox_2010.Rd | 8 - tests/testthat/test-sem_example.R | 4 11 files changed, 345 insertions(+), 331 deletions(-)
Title: Exploratory Analysis of Temporal and Spatio-Temporal Health Data
Description: A collection of commonly used visualizations of temporal and
spatio-temporal health data including case counts, incidence rates, and
covariates. The available plot types include time series, heatmaps,
seasonality plots, maps and more. The package supports standard data
transformations such as temporal and spatial aggregations, while
offering extensive customization options for the resulting figures.
Author: Carles Mila [aut, cre] ,
Giovenale Moirano [aut] ,
Anna B. Kawiecki [aut] ,
Rachel Lowe [aut, cph]
Maintainer: Carles Mila <carles.milagarcia@bsc.es>
Diff between GHRexplore versions 0.2.1 dated 2025-11-05 and 0.2.2 dated 2026-02-12
DESCRIPTION | 8 MD5 | 102 ++-- NAMESPACE | 2 NEWS.md | 8 R/GHR_palette.R | 273 +++++++---- R/dengue_MS.R | 16 R/dengue_SP.R | 6 R/epiyw.R |only R/map_MS.R | 6 R/plot_bivariate.R | 234 +++++----- R/plot_combine.R | 172 ++++--- R/plot_compare.R | 167 ++++--- R/plot_correlation.R | 352 ++++++++------- R/plot_heatmap.R | 529 +++++++++++++---------- R/plot_map.R | 756 ++++++++++++++++++--------------- R/plot_multiple.R | 69 +-- R/plot_multiple_common.R | 99 ++-- R/plot_multiple_map.R | 97 ++-- R/plot_seasonality.R | 434 ++++++++++-------- R/plot_timeseries.R | 649 ++++++++++++++++------------ R/plot_timeseries2.R | 717 +++++++++++++++++-------------- R/utils.R | 547 +++++++++++++---------- README.md | 3 inst/doc/GHRexplore.html | 20 man/GHR_palette.Rd | 3 man/aggregate_cases.Rd | 3 man/aggregate_cov.Rd | 3 man/date_to_epiyw.Rd |only man/dengue_MS.Rd | 2 man/epiyw_to_date.Rd |only man/plot_bivariate.Rd | 28 - man/plot_combine.Rd | 20 man/plot_compare.Rd | 23 - man/plot_correlation.Rd | 36 - man/plot_heatmap.Rd | 49 +- man/plot_map.Rd | 69 +-- man/plot_multiple.Rd | 8 man/plot_seasonality.Rd | 37 - man/plot_timeseries.Rd | 60 +- man/plot_timeseries2.Rd | 32 - tests/testthat/test-GHR_palette.R | 8 tests/testthat/test-epiyw.R |only tests/testthat/test-helper_functions.R | 272 +++++++---- tests/testthat/test-plot_bivariate.R | 114 +++- tests/testthat/test-plot_combine.R | 69 ++- tests/testthat/test-plot_compare.R | 34 - tests/testthat/test-plot_correlation.R | 69 ++- tests/testthat/test-plot_heatmap.R | 259 ++++++++--- tests/testthat/test-plot_map.R | 509 +++++++++++++--------- tests/testthat/test-plot_multiple.R | 58 +- tests/testthat/test-plot_seasonality.R | 241 +++++++--- tests/testthat/test-plot_timeseries.R | 721 +++++++++++++++++++++---------- tests/testthat/test-plot_timeseries2.R | 164 +++++-- vignettes/GHRexplore-vignette.html | 96 ++-- 54 files changed, 4917 insertions(+), 3336 deletions(-)
Title: Affinity in Co-Occurrence Data
Description: Computes a novel metric of affinity between two entities based on their co-occurrence
(using binary presence/absence data). The metric and its maximum likelihood estimator (alpha hat) were advanced in
Mainali, Slud, et al, 2021 <doi:10.1126/sciadv.abj9204>. Four types of confidence intervals and median interval
were developed in Mainali and Slud, 2022 <doi:10.1101/2022.11.01.514801>. The `finches` dataset is
bundled with the package.
Author: Kumar Mainali [aut, cre],
Eric Slud [aut]
Maintainer: Kumar Mainali <kpmainali@gmail.com>
Diff between CooccurrenceAffinity versions 1.0.2 dated 2025-06-27 and 2.0.0 dated 2026-02-12
DESCRIPTION | 16 - MD5 | 22 - NEWS.md | 48 +++ R/affinity.R | 15 R/globals.R |only R/plotgg.R | 644 ++++++++++++++++++++++++++++++++--------- README.md | 88 ++++- inst/examples/plotgg_example.R | 71 ++++ man/figures |only man/plotgg.Rd | 198 +++++++++--- 10 files changed, 877 insertions(+), 225 deletions(-)
More information about CooccurrenceAffinity at CRAN
Permanent link
Title: Generate Publication-Ready Statistical Tables
Description: A collection of functions for generating frequency tables and cross-tabulations of categorical variables. The resulting tables can be exported to various formats (Excel, PDF, HTML, etc.) with extensive formatting and layout customization options.
Author: Bhas Abdulsamad [aut, cre, cph]
Maintainer: Bhas Abdulsamad <aeabdulsamad@gmail.com>
Diff between tsg versions 0.1.0 dated 2025-11-09 and 0.1.1 dated 2026-02-12
DESCRIPTION | 6 +- MD5 | 52 +++++++++-------- NAMESPACE | 1 NEWS.md | 4 + R/facade.R | 35 +++++++++++ R/generate_crosstab.R | 92 +++++++++++++++++++++++++++++-- R/generate_frequency.R | 5 + R/generate_helpers.R | 82 ++++++++++++++++++++++++++- R/generate_modifiers.R | 21 +++---- R/generate_output.R | 6 ++ R/helpers.R | 56 +++++++++++++----- R/utils.R | 7 +- R/xlsx.R | 38 +++++++++++- R/xlsx_components.R | 51 +++++++++-------- R/xlsx_facade.R | 32 +++++++++- R/xlsx_writer.R | 40 ++++++++++++- R/zzz.R | 1 README.md | 25 +++++++- build/vignette.rds |binary inst/doc/tsg.html | 10 +-- inst/extdata/facade/xlsx/default.yaml | 38 ++++++++++-- inst/extdata/facade/xlsx/yolo.yaml | 4 + man/add_facade.Rd | 3 - man/add_facade_alt.Rd |only man/generate_crosstab.Rd | 3 + tests/testthat/test-generate_frequency.R | 6 ++ tests/testthat/test-helpers.R |only tests/testthat/test-write_xlsx.R | 4 - 28 files changed, 502 insertions(+), 120 deletions(-)
Title: qPCR Data Analysis
Description: Tools for qPCR data analysis using Delta Ct and Delta Delta Ct methods, including t-test, Wilcoxon-test, ANOVA models, and publication-ready visualizations. The package supports multiple target, and multiple reference genes, and uses a calculation framework adopted from Ganger et al. (2017) <doi:10.1186/s12859-017-1949-5> and Taylor et al. (2019) <doi:10.1016/j.tibtech.2018.12.002>, covering both the Livak and Pfaffl methods.
Author: Ghader Mirzaghaderi [aut, cre, cph]
Maintainer: Ghader Mirzaghaderi <mirzaghaderi@gmail.com>
Diff between rtpcr versions 2.1.3 dated 2026-02-03 and 2.1.4 dated 2026-02-12
DESCRIPTION | 12 MD5 | 45 +- NAMESPACE | 2 NEWS.md | 11 R/ANOVA_DCt.R | 257 ++++++-------- R/ANOVA_DDCt.R | 688 ++++++++++++++++++++++----------------- R/Means_DDCt.R | 4 R/TTEST_DDCt.R | 2 R/WILCOX_DDCt.R | 8 R/globalVariables.R | 3 R/plotFactor.R | 2 R/plotSingleGene.R |only inst/doc/Manual.R | 138 ++++--- inst/doc/Manual.Rmd | 225 ++++++++---- inst/doc/Manual.html | 534 +++++++++++++++++++----------- man/ANOVA_DCt.Rd | 28 - man/ANOVA_DDCt.Rd | 61 ++- man/Means_DDCt.Rd | 4 man/figures/base.png |only man/figures/dataStructure1.png |binary man/figures/repeated_measure.png |only man/figures/sampleData1.png |only man/figures/signif.png |only man/figures/standCur.png |only man/plotFactor.Rd | 2 man/plotSingleGene.Rd |only vignettes/Manual.Rmd | 225 ++++++++---- 27 files changed, 1344 insertions(+), 907 deletions(-)
Title: 'RDF' and 'SPARQL' for R using 'Oxigraph'
Description: Provides 'RDF' storage and 'SPARQL' 1.1 query capabilities by wrapping
the 'Oxigraph' graph database library <https://github.com/oxigraph/oxigraph>.
Supports in-memory and persistent ('RocksDB') storage, multiple 'RDF'
serialization formats ('Turtle', 'N-Triples', 'RDF-XML', 'N-Quads', 'TriG'),
and full 'SPARQL' 1.1 Query and Update support. Built using the 'extendr'
framework for 'Rust'-R bindings.
Author: Carl Boettiger [aut, cre] ,
Oxigraph Contributors [cph] ,
Authors of the dependency Rust crates [aut]
Maintainer: Carl Boettiger <cboettig@gmail.com>
Diff between roxigraph versions 0.1.0 dated 2026-02-05 and 0.1.1 dated 2026-02-12
DESCRIPTION | 11 ++++--- MD5 | 15 +++++----- NEWS.md |only inst/AUTHORS | 34 ++++++++++++------------ inst/WORDLIST | 1 src/Makevars.in | 1 src/rust/Cargo.lock | 68 ++++++++++++++++++++++++------------------------- src/rust/Cargo.toml | 5 ++- src/rust/vendor.tar.xz |binary 9 files changed, 70 insertions(+), 65 deletions(-)
Title: Conditional Mixture Modeling and Model-Based Clustering
Description: Conditional mixture model fitted via EM (Expectation Maximization) algorithm for model-based clustering, including parsimonious procedure, optimal conditional order exploration, and visualization.
Author: Yang Wang [aut, cre],
Volodymyr Melnykov [aut],
Stephen Moshier [ctb] ,
Rouben Rostamian [ctb]
Maintainer: Yang Wang <wangy00808@gmail.com>
Diff between cmbClust versions 0.0.1 dated 2022-11-03 and 0.0.2 dated 2026-02-12
DESCRIPTION | 13 +++++++------ MD5 | 4 ++-- man/cmb.search.Rd | 2 +- 3 files changed, 10 insertions(+), 9 deletions(-)
Title: Zero-Inflated and Hurdle INAR(1) Models
Description: Provides tools for estimating Zero-Inflated INAR(1)
(ZI-INAR(1)) and Hurdle INAR(1) (H-INAR(1)) models using 'Stan'.
It allows users to simulate time series data for these models,
estimate parameters, and evaluate model fit using various criteria.
Functions include model estimation, simulation, and likelihood-based metrics.
Author: Fusheng Yang [aut, cre],
Victor Hugo Lachos Davila [aut]
Maintainer: Fusheng Yang <fusheng.yang@uconn.edu>
Diff between ZIHINAR1 versions 0.2.0 dated 2026-01-25 and 0.2.1 dated 2026-02-12
ZIHINAR1-0.2.0/ZIHINAR1/inst/stan/ZIIGP-INAR1.stan |only ZIHINAR1-0.2.1/ZIHINAR1/DESCRIPTION | 6 +++--- ZIHINAR1-0.2.1/ZIHINAR1/MD5 | 4 ++-- ZIHINAR1-0.2.1/ZIHINAR1/inst/stan/ZIGP-INAR1.stan |only 4 files changed, 5 insertions(+), 5 deletions(-)
Title: Fast Unified Random Forests for Survival, Regression, and
Classification (RF-SRC)
Description: Fast OpenMP parallel computing of Breiman's random forests for univariate, multivariate, unsupervised, survival, competing risks, class imbalanced classification and quantile regression. New Mahalanobis splitting for correlated outcomes. Extreme random forests and randomized splitting. Suite of imputation methods for missing data. Fast random forests using subsampling. Confidence regions and standard errors for variable importance. New improved holdout importance. Case-specific importance. Minimal depth variable importance. Visualize trees on your Safari or Google Chrome browser. Anonymous random forests for data privacy.
Author: Hemant Ishwaran [aut],
Udaya B. Kogalur [aut, cre]
Maintainer: Udaya B. Kogalur <ubk@kogalur.com>
Diff between randomForestSRC versions 3.5.0 dated 2026-01-11 and 3.5.1 dated 2026-02-12
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/generic.predict.rfsrc.R | 2 +- R/rfsrc.R | 4 ++-- R/utilities_survival.R | 3 ++- inst/NEWS | 9 +++++++-- 6 files changed, 21 insertions(+), 15 deletions(-)
More information about randomForestSRC at CRAN
Permanent link
Title: Nonparametric Kernel Smoothing Methods for Mixed Data Types
Description: Nonparametric (and semiparametric) kernel methods that seamlessly handle a mix of continuous, unordered, and ordered factor data types. We would like to gratefully acknowledge support from the Natural Sciences and Engineering Research Council of Canada (NSERC, <https://www.nserc-crsng.gc.ca/>), the Social Sciences and Humanities Research Council of Canada (SSHRC, <https://www.sshrc-crsh.gc.ca/>), and the Shared Hierarchical Academic Research Computing Network (SHARCNET, <https://sharcnet.ca/>). We would also like to acknowledge the contributions of the GNU GSL authors. In particular, we adapt the GNU GSL B-spline routine gsl_bspline.c adding automated support for quantile knots (in addition to uniform knots), providing missing functionality for derivatives, and for extending the splines beyond their endpoints.
Author: Jeffrey S. Racine [aut, cre],
Tristen Hayfield [aut]
Maintainer: Jeffrey S. Racine <racinej@mcmaster.ca>
Diff between np versions 0.60-19 dated 2026-01-29 and 0.60-20 dated 2026-02-12
CHANGELOG | 53 ++ DESCRIPTION | 10 MD5 | 121 ++--- NAMESPACE | 14 R/bandwidth.R | 4 R/conbandwidth.R | 4 R/condbandwidth.R | 4 R/dbandwidth.R | 4 R/np.condensity.R | 16 R/np.condensity.bw.R | 61 +- R/np.condistribution.R | 16 R/np.condistribution.bw.R | 65 +-- R/np.density.R | 16 R/np.density.bw.R | 53 +- R/np.distribution.R | 8 R/np.distribution.bw.R | 52 +- R/np.kernel.R | 81 ++- R/np.pairs.R |only R/np.plot.R | 88 ++-- R/np.plregression.R | 12 R/np.plregression.bw.R | 30 - R/np.qregression.R | 12 R/np.regression.R | 20 R/np.regression.bw.R | 54 +- R/np.sigtest.R | 17 R/np.singleindex.R | 14 R/np.singleindex.bw.R | 17 R/np.smoothcoef.R | 12 R/np.smoothcoef.bw.R | 23 - R/np.unitest.R | 2 R/npregiv.R | 335 +++++++++++++--- R/npregivderiv.R | 262 ++++++++++-- R/rbandwidth.R | 4 R/util.R | 21 - R/zzz.R | 2 README.md | 27 - cleanup | 2 demo/Engel95.R | 4 demo/npregiv.R | 4 inst/doc/entropy_np.pdf |binary inst/doc/np.pdf |binary inst/doc/np_faq.Rnw | 117 +++++ inst/doc/np_faq.pdf |binary man/data-Engel95.Rd | 4 man/np.condensity.bw.Rd | 22 + man/np.condistribution.bw.Rd | 22 + man/np.density.bw.Rd | 21 + man/np.distribution.bw.Rd | 21 + man/np.regression.bw.Rd | 21 + man/np.regressioniv.Rd | 248 ++++++----- man/np.regressionivderiv.Rd | 95 ++-- man/npuniden.boundary.Rd | 2 man/npuniden.reflect.Rd | 2 man/npuniden.sc.Rd | 2 src/Makevars.win | 1 src/headers.h | 5 src/jksum.c | 441 +++++++++++++++++---- src/np.c | 889 +++++++++++++++++++++++++++++++++++++------ src/np_init.c | 20 src/nr.c | 6 src/statmods.c | 2 vignettes/np_faq.Rnw | 117 +++++ 62 files changed, 2753 insertions(+), 849 deletions(-)
Title: Multivariate Birth-Death Processes
Description: Computationally efficient functions to provide direct likelihood-based
inference for partially-observed multivariate birth-death processes. Such processes
range from a simple Yule model to the complex susceptible-infectious-removed model
in disease dynamics. Efficient likelihood evaluation facilitates maximum likelihood
estimation and Bayesian inference.
Author: Lam S.T. Ho [aut],
Marc A. Suchard [aut, cre],
Forrest W. Crawford [aut],
Jason Xu [ctb],
Vladimir N. Minin [ctb]
Maintainer: Marc A. Suchard <msuchard@ucla.edu>
Diff between MultiBD versions 1.0.0 dated 2025-11-29 and 1.0.1 dated 2026-02-12
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- README.md | 4 ++-- inst/doc/SIR-MCMC.pdf |binary inst/doc/SIRtrans.pdf |binary src/bbd.h | 2 +- 6 files changed, 12 insertions(+), 12 deletions(-)
Title: Sean 'Lahman' Baseball Database
Description: Provides the tables from the 'Sean Lahman Baseball Database' as
a set of R data.frames. It uses the data on pitching, hitting and fielding
performance and other tables from 1871 through 2024, as recorded in the 2025
version of the database. Documentation examples show how many baseball
questions can be investigated.
Author: Michael Friendly [aut],
Chris Dalzell [cre, aut],
Martin Monkman [aut],
Dennis Murphy [aut],
Vanessa Foot [ctb],
Justeena Zaki-Azat [ctb],
Daniel J Eck [ctb],
Sean Lahman [cph]
Maintainer: Chris Dalzell <cdalzell@gmail.com>
Diff between Lahman versions 13.0-0 dated 2025-09-08 and 14.0-0 dated 2026-02-12
Lahman-13.0-0/Lahman/data/datalist |only Lahman-14.0-0/Lahman/DESCRIPTION | 10 - Lahman-14.0-0/Lahman/MD5 | 163 ++++++++---------- Lahman-14.0-0/Lahman/NEWS.md | 5 Lahman-14.0-0/Lahman/build/vignette.rds |binary Lahman-14.0-0/Lahman/data/AllstarFull.RData |binary Lahman-14.0-0/Lahman/data/Appearances.RData |binary Lahman-14.0-0/Lahman/data/AwardsManagers.RData |binary Lahman-14.0-0/Lahman/data/AwardsPlayers.RData |binary Lahman-14.0-0/Lahman/data/AwardsShareManagers.RData |binary Lahman-14.0-0/Lahman/data/AwardsSharePlayers.RData |binary Lahman-14.0-0/Lahman/data/Batting.RData |binary Lahman-14.0-0/Lahman/data/BattingPost.RData |binary Lahman-14.0-0/Lahman/data/CollegePlaying.RData |binary Lahman-14.0-0/Lahman/data/Fielding.RData |binary Lahman-14.0-0/Lahman/data/FieldingOF.RData |binary Lahman-14.0-0/Lahman/data/FieldingOFsplit.RData |binary Lahman-14.0-0/Lahman/data/FieldingPost.RData |binary Lahman-14.0-0/Lahman/data/HallOfFame.RData |binary Lahman-14.0-0/Lahman/data/HomeGames.RData |binary Lahman-14.0-0/Lahman/data/LahmanData.RData |binary Lahman-14.0-0/Lahman/data/Managers.RData |binary Lahman-14.0-0/Lahman/data/ManagersHalf.RData |binary Lahman-14.0-0/Lahman/data/Parks.RData |binary Lahman-14.0-0/Lahman/data/People.RData |binary Lahman-14.0-0/Lahman/data/Pitching.RData |binary Lahman-14.0-0/Lahman/data/PitchingPost.RData |binary Lahman-14.0-0/Lahman/data/Salaries.RData |binary Lahman-14.0-0/Lahman/data/Schools.RData |binary Lahman-14.0-0/Lahman/data/SeriesPost.RData |binary Lahman-14.0-0/Lahman/data/Teams.RData |binary Lahman-14.0-0/Lahman/data/TeamsFranchises.RData |binary Lahman-14.0-0/Lahman/data/TeamsHalf.RData |binary Lahman-14.0-0/Lahman/data/battingLabels.RData |binary Lahman-14.0-0/Lahman/data/fieldingLabels.RData |binary Lahman-14.0-0/Lahman/data/pitchingLabels.RData |binary Lahman-14.0-0/Lahman/demo/batting-summstats.R | 1 Lahman-14.0-0/Lahman/inst/doc/FHM-primer.Rmd | 4 Lahman-14.0-0/Lahman/inst/doc/FHM-primer.html | 17 - Lahman-14.0-0/Lahman/inst/doc/hits-by-type.R | 1 Lahman-14.0-0/Lahman/inst/doc/hits-by-type.Rmd | 1 Lahman-14.0-0/Lahman/inst/doc/hits-by-type.html | 36 +-- Lahman-14.0-0/Lahman/inst/doc/payroll.html | 64 +++---- Lahman-14.0-0/Lahman/inst/doc/run-scoring-trends.Rmd | 4 Lahman-14.0-0/Lahman/inst/doc/run-scoring-trends.html | 51 +++-- Lahman-14.0-0/Lahman/inst/doc/strikeoutsandhr.R | 2 Lahman-14.0-0/Lahman/inst/doc/strikeoutsandhr.Rmd | 2 Lahman-14.0-0/Lahman/inst/doc/strikeoutsandhr.html | 49 ++--- Lahman-14.0-0/Lahman/inst/doc/vignette-intro.html | 4 Lahman-14.0-0/Lahman/inst/scripts/dataMapping.R | 6 Lahman-14.0-0/Lahman/inst/scripts/readLahman.R | 5 Lahman-14.0-0/Lahman/man/AllstarFull.Rd | 4 Lahman-14.0-0/Lahman/man/Appearances.Rd | 4 Lahman-14.0-0/Lahman/man/AwardsManagers.Rd | 4 Lahman-14.0-0/Lahman/man/AwardsPlayers.Rd | 4 Lahman-14.0-0/Lahman/man/AwardsShareManagers.Rd | 4 Lahman-14.0-0/Lahman/man/AwardsSharePlayers.Rd | 4 Lahman-14.0-0/Lahman/man/Batting.Rd | 4 Lahman-14.0-0/Lahman/man/BattingPost.Rd | 4 Lahman-14.0-0/Lahman/man/CollegePlaying.Rd | 4 Lahman-14.0-0/Lahman/man/Fielding.Rd | 6 Lahman-14.0-0/Lahman/man/FieldingOF.Rd | 2 Lahman-14.0-0/Lahman/man/FieldingOFsplit.Rd | 4 Lahman-14.0-0/Lahman/man/FieldingPost.Rd | 4 Lahman-14.0-0/Lahman/man/HallOfFame.Rd | 4 Lahman-14.0-0/Lahman/man/HomeGames.Rd | 4 Lahman-14.0-0/Lahman/man/Lahman-package.Rd | 2 Lahman-14.0-0/Lahman/man/Managers.Rd | 4 Lahman-14.0-0/Lahman/man/ManagersHalf.Rd | 2 Lahman-14.0-0/Lahman/man/Parks.Rd | 2 Lahman-14.0-0/Lahman/man/People.Rd | 4 Lahman-14.0-0/Lahman/man/Pitching.Rd | 4 Lahman-14.0-0/Lahman/man/PitchingPost.Rd | 4 Lahman-14.0-0/Lahman/man/Salaries.Rd | 2 Lahman-14.0-0/Lahman/man/Schools.Rd | 4 Lahman-14.0-0/Lahman/man/SeriesPost.Rd | 4 Lahman-14.0-0/Lahman/man/Teams.Rd | 4 Lahman-14.0-0/Lahman/man/TeamsFranchises.Rd | 4 Lahman-14.0-0/Lahman/man/TeamsHalf.Rd | 4 Lahman-14.0-0/Lahman/vignettes/FHM-primer.Rmd | 4 Lahman-14.0-0/Lahman/vignettes/hits-by-type.Rmd | 1 Lahman-14.0-0/Lahman/vignettes/run-scoring-trends.Rmd | 4 Lahman-14.0-0/Lahman/vignettes/strikeoutsandhr.Rmd | 2 83 files changed, 274 insertions(+), 266 deletions(-)
Title: Conover-Iman Test of Multiple Comparisons Using Rank Sums
Description: Computes the Conover-Iman test (1979) for 0th-order stochastic dominance and reports the results among multiple pairwise comparisons after a Kruskal-Wallis omnibus test for i0th-order stochastic dominance among k groups (Kruskal and Wallis, 1952). conover.test makes k(k-1)/2 multiple pairwise comparisons based on Conover-Iman t-test-statistic of the rank differences. The null hypothesis for each pairwise comparison is that the probability of observing a randomly selected value from the first group that is larger than a randomly selected value from the second group equals one half; this null hypothesis corresponds to that of the Wilcoxon-Mann-Whitney rank-sum test. Like the rank-sum test, if the data can be assumed to be continuous, and the distributions are assumed identical except for a difference in location, Conover-Iman test may be understood as a test for median difference and for mean difference. conover.test accounts for tied ranks. The Conover-Iman test is strictly valid if and [...truncated...]
Author: Alexis Dinno [aut, cre, cph]
Maintainer: Alexis Dinno <alexis.dinno@pdx.edu>
Diff between conover.test versions 1.1.6 dated 2024-04-09 and 1.1.7 dated 2026-02-12
DESCRIPTION | 15 + MD5 | 12 - NAMESPACE | 4 R/conover.test.R | 393 ++++++++++++++++++++++++++-------------------------- R/pad.left.R |only R/pad.spaces.R |only build/partial.rdb |binary man/conover.test.Rd | 16 +- 8 files changed, 234 insertions(+), 206 deletions(-)
Title: Graphical User Interface for 'r5r' Router
Description: Interactively build and explore public transit routes with
'r5r' package via a graphical user interface in a 'shiny' app. The
underlying routing methods are described in Pereira et al. (2021)
<doi:10.32866/001c.21262>.
Author: Egor Kotov [aut, cre, cph]
Maintainer: Egor Kotov <kotov.egor@gmail.com>
Diff between r5rgui versions 0.1.0 dated 2025-11-25 and 0.2.0 dated 2026-02-11
DESCRIPTION | 6 MD5 | 24 - NEWS.md | 17 R/r5r_gui.R | 73 +++ R/r5r_gui_demo.R | 10 README.md | 50 ++ inst/CITATION | 1 inst/schemaorg.json | 9 inst/shiny_app/server.R | 747 ++++++++++++++++++++++++++++++++-------- inst/shiny_app/ui.R | 506 ++++++++++++++++++++++++--- man/r5r_gui.Rd | 25 + man/r5r_gui_demo.Rd | 8 tests/testthat/test-launchers.R | 8 13 files changed, 1250 insertions(+), 234 deletions(-)
Title: Conditional Manifold Learning
Description: Finds a low-dimensional embedding of high-dimensional data, conditioning on available manifold information.
Author: Anh Tuan Bui [aut, cre]
Maintainer: Anh Tuan Bui <atbui@u.northwestern.edu>
Diff between cml versions 0.2.2 dated 2023-04-24 and 0.3.1 dated 2026-02-11
DESCRIPTION | 19 +++- MD5 | 32 ++++---- NAMESPACE | 1 R/condDist.R | 10 +- R/condDist2.R | 8 +- R/condIsomap.R | 8 +- R/condMDS.R | 10 ++ R/condMDSeigen.R | 10 +- R/condSmacof.R | 196 +++++++++++++++++++++++++++++--------------------- R/condSmacof_mer.R |only inst/CITATION | 36 ++------- man/cml-package.Rd | 42 ++++------ man/condDist.Rd | 10 +- man/condIsomap.Rd | 24 ++++-- man/condMDS.Rd | 23 +++-- man/condSmacof.Rd | 27 +++--- man/condSmacof_mer.Rd |only man/cz.Rd | 2 18 files changed, 251 insertions(+), 207 deletions(-)
Title: Extra Functions for 'gtsummary' Table Styling
Description: Provides additional convenience functions for 'gtsummary'
(Sjoberg et al. (2021) <doi:10.32614/RJ-2021-053>) & 'gt' tables,
including automatic variable labeling from dictionaries, standardized
missing value display, and consistent formatting helpers for streamlined
table styling workflows.
Author: Kyle Grealis [aut, cre] ,
Raymond Balise [ctb] ,
Daniel Maya [ctb]
Maintainer: Kyle Grealis <kyleGrealis@proton.me>
Diff between sumExtras versions 0.3.0 dated 2026-01-22 and 1.0.0 dated 2026-02-11
sumExtras-0.3.0/sumExtras/R/zzz.R |only sumExtras-0.3.0/sumExtras/man/apply_labels_from_dictionary.Rd |only sumExtras-0.3.0/sumExtras/man/figures/table-a.png |only sumExtras-0.3.0/sumExtras/man/figures/table-b.png |only sumExtras-0.3.0/sumExtras/man/figures/table-basic.png |only sumExtras-0.3.0/sumExtras/man/figures/table-styled.png |only sumExtras-0.3.0/sumExtras/man/figures/tables-side-by-side.png |only sumExtras-1.0.0/sumExtras/DESCRIPTION | 15 sumExtras-1.0.0/sumExtras/LICENSE | 2 sumExtras-1.0.0/sumExtras/MD5 | 101 sumExtras-1.0.0/sumExtras/NAMESPACE | 7 sumExtras-1.0.0/sumExtras/NEWS.md | 129 sumExtras-1.0.0/sumExtras/R/clean_table.R | 178 sumExtras-1.0.0/sumExtras/R/extras.R | 322 sumExtras-1.0.0/sumExtras/R/labels.R | 408 sumExtras-1.0.0/sumExtras/R/styling.R | 306 sumExtras-1.0.0/sumExtras/R/sumExtras-package.R | 51 sumExtras-1.0.0/sumExtras/R/use_jama_theme.R | 58 sumExtras-1.0.0/sumExtras/R/utils.R | 4 sumExtras-1.0.0/sumExtras/README.md | 270 sumExtras-1.0.0/sumExtras/build/vignette.rds |binary sumExtras-1.0.0/sumExtras/inst/CITATION | 29 sumExtras-1.0.0/sumExtras/inst/doc/labeling.R | 256 sumExtras-1.0.0/sumExtras/inst/doc/labeling.Rmd | 478 sumExtras-1.0.0/sumExtras/inst/doc/labeling.html | 5450 ------ sumExtras-1.0.0/sumExtras/inst/doc/options.R |only sumExtras-1.0.0/sumExtras/inst/doc/options.Rmd |only sumExtras-1.0.0/sumExtras/inst/doc/options.html |only sumExtras-1.0.0/sumExtras/inst/doc/styling.R | 475 sumExtras-1.0.0/sumExtras/inst/doc/styling.Rmd | 774 sumExtras-1.0.0/sumExtras/inst/doc/styling.html | 8424 ---------- sumExtras-1.0.0/sumExtras/inst/doc/sumExtras-intro.R | 138 sumExtras-1.0.0/sumExtras/inst/doc/sumExtras-intro.Rmd | 272 sumExtras-1.0.0/sumExtras/inst/doc/sumExtras-intro.html | 3050 --- sumExtras-1.0.0/sumExtras/inst/doc/themes.R |only sumExtras-1.0.0/sumExtras/inst/doc/themes.Rmd |only sumExtras-1.0.0/sumExtras/inst/doc/themes.html |only sumExtras-1.0.0/sumExtras/man/add_auto_labels.Rd | 136 sumExtras-1.0.0/sumExtras/man/add_group_colors.Rd | 48 sumExtras-1.0.0/sumExtras/man/add_group_styling.Rd | 53 sumExtras-1.0.0/sumExtras/man/clean_table.Rd | 94 sumExtras-1.0.0/sumExtras/man/extras.Rd | 127 sumExtras-1.0.0/sumExtras/man/figures/readme-example.png |only sumExtras-1.0.0/sumExtras/man/get_group_rows.Rd | 19 sumExtras-1.0.0/sumExtras/man/sumExtras-package.Rd | 45 sumExtras-1.0.0/sumExtras/man/theme_gt_compact.Rd | 28 sumExtras-1.0.0/sumExtras/man/use_jama_theme.Rd | 48 sumExtras-1.0.0/sumExtras/tests/testthat/helper-utils.R |only sumExtras-1.0.0/sumExtras/tests/testthat/test-clean_table-regex.R | 129 sumExtras-1.0.0/sumExtras/tests/testthat/test-clean_table.R | 105 sumExtras-1.0.0/sumExtras/tests/testthat/test-extras-warnings.R | 319 sumExtras-1.0.0/sumExtras/tests/testthat/test-extras.R | 240 sumExtras-1.0.0/sumExtras/tests/testthat/test-labels.R | 718 sumExtras-1.0.0/sumExtras/tests/testthat/test-styling.R | 118 sumExtras-1.0.0/sumExtras/tests/testthat/test-use_jama_theme.R | 37 sumExtras-1.0.0/sumExtras/vignettes/labeling.Rmd | 478 sumExtras-1.0.0/sumExtras/vignettes/options.Rmd |only sumExtras-1.0.0/sumExtras/vignettes/styling.Rmd | 774 sumExtras-1.0.0/sumExtras/vignettes/sumExtras-intro.Rmd | 272 sumExtras-1.0.0/sumExtras/vignettes/themes.Rmd |only 60 files changed, 4625 insertions(+), 20360 deletions(-)
Title: Create Common Tables and Listings Used in Clinical Trials
Description: Structure and formatting requirements for clinical trial table and listing outputs
vary between pharmaceutical companies. 'junco' provides additional tooling for use alongside
the 'rtables', 'rlistings' and 'tern' packages when creating table and listing outputs. While
motivated by the specifics of Johnson and Johnson Clinical and Statistical Programming's
table and listing shells, 'junco' provides functionality that is general and reusable.
Major features include a) alternative and extended statistical analyses beyond what 'tern'
supports for use in standard safety and efficacy tables, b) a robust production-grade
Rich Text Format (RTF) exporter for both tables and listings, c) structural support
for spanning column headers and risk difference columns in tables, and d) robust
font-aware automatic column width algorithms for both listings and tables.
Author: Gabriel Becker [cre, aut] ,
Ilse Augustyns [aut],
Paul Jenkins [aut],
Daniel Hofstaedter [aut],
Joseph Kovach [aut],
David Munoz Tord [aut],
Daniel Sabanes Bove [aut],
Ezequiel Anokian [ctb],
Renfei Mao [ctb],
Mrinal Das [ctb],
Wojciech Wojciak [ctb] [...truncated...]
Maintainer: Gabriel Becker <gabembecker@gmail.com>
Diff between junco versions 0.1.3 dated 2026-01-15 and 0.1.4 dated 2026-02-11
junco-0.1.3/junco/man/assert_rbmi.Rd |only junco-0.1.3/junco/tests/testthat/_snaps/docx_exporter_functions.md |only junco-0.1.3/junco/tests/testthat/_snaps/tt_to_tblfile/test2part1of7.csv |only junco-0.1.3/junco/tests/testthat/_snaps/tt_to_tblfile/test2part1of7.rtf |only junco-0.1.3/junco/tests/testthat/_snaps/tt_to_tblfile/test2part2of7.csv |only junco-0.1.3/junco/tests/testthat/_snaps/tt_to_tblfile/test2part2of7.rtf |only junco-0.1.3/junco/tests/testthat/_snaps/tt_to_tblfile/test2part3of7.csv |only junco-0.1.3/junco/tests/testthat/_snaps/tt_to_tblfile/test2part3of7.rtf |only junco-0.1.3/junco/tests/testthat/_snaps/tt_to_tblfile/test2part4of7.csv |only junco-0.1.3/junco/tests/testthat/_snaps/tt_to_tblfile/test2part4of7.rtf |only junco-0.1.3/junco/tests/testthat/_snaps/tt_to_tblfile/test2part5of7.csv |only junco-0.1.3/junco/tests/testthat/_snaps/tt_to_tblfile/test2part5of7.rtf |only junco-0.1.3/junco/tests/testthat/_snaps/tt_to_tblfile/test2part6of7.csv |only junco-0.1.3/junco/tests/testthat/_snaps/tt_to_tblfile/test2part6of7.rtf |only junco-0.1.3/junco/tests/testthat/_snaps/tt_to_tblfile/test2part7of7.csv |only junco-0.1.3/junco/tests/testthat/_snaps/tt_to_tblfile/test2part7of7.rtf |only junco-0.1.4/junco/DESCRIPTION | 20 junco-0.1.4/junco/MD5 | 80 junco-0.1.4/junco/NEWS.md | 12 junco-0.1.4/junco/R/ancova_rbmi.R | 11 junco-0.1.4/junco/R/docx_exporter_functions.R | 18 junco-0.1.4/junco/R/mmrm_rbmi.R | 1 junco-0.1.4/junco/R/pool_rbmi.R | 1 junco-0.1.4/junco/R/rbmi.R | 96 junco-0.1.4/junco/R/tt_to_tblfile.R | 6 junco-0.1.4/junco/R/utils.R | 15 junco-0.1.4/junco/README.md | 17 junco-0.1.4/junco/inst/WORDLIST | 2 junco-0.1.4/junco/inst/doc/table_and_listing_customizations.R | 263 junco-0.1.4/junco/inst/doc/table_and_listing_customizations.html | 2660 ++++------ junco-0.1.4/junco/inst/doc/table_and_listing_customizations.rmd | 80 junco-0.1.4/junco/man/rbmi_analyse.Rd | 92 junco-0.1.4/junco/man/rbmi_ancova_single.Rd | 9 junco-0.1.4/junco/tests/testthat/_snaps/summarize_mmrm.md | 148 junco-0.1.4/junco/tests/testthat/_snaps/tt_to_tblfile/test2part1of3.csv |only junco-0.1.4/junco/tests/testthat/_snaps/tt_to_tblfile/test2part1of3.rtf |only junco-0.1.4/junco/tests/testthat/_snaps/tt_to_tblfile/test2part2of3.csv |only junco-0.1.4/junco/tests/testthat/_snaps/tt_to_tblfile/test2part2of3.rtf |only junco-0.1.4/junco/tests/testthat/_snaps/tt_to_tblfile/test2part3of3.csv |only junco-0.1.4/junco/tests/testthat/_snaps/tt_to_tblfile/test2part3of3.rtf |only junco-0.1.4/junco/tests/testthat/_snaps/tt_to_tblfile/test3allparts.rtf | 2190 +------- junco-0.1.4/junco/tests/testthat/_snaps/tt_to_tblfile/testemptylisting.rtf | 50 junco-0.1.4/junco/tests/testthat/test-a_summarize_aval_chg_diff.R | 2 junco-0.1.4/junco/tests/testthat/test-ancova_rbmi.R | 13 junco-0.1.4/junco/tests/testthat/test-docx_exporter_functions.R | 11 junco-0.1.4/junco/tests/testthat/test-mmrm_rbmi.R | 6 junco-0.1.4/junco/tests/testthat/test-pool_rbmi.R | 12 junco-0.1.4/junco/tests/testthat/test-rbmi.R | 92 junco-0.1.4/junco/tests/testthat/test-summarize_mmrm.R | 20 junco-0.1.4/junco/tests/testthat/test-tabulate_rbmi.R | 11 junco-0.1.4/junco/tests/testthat/test-tt_to_tblfile.R | 45 junco-0.1.4/junco/vignettes/table_and_listing_customizations.rmd | 80 52 files changed, 2317 insertions(+), 3746 deletions(-)
Title: Just a Rather Bayesian Evidence Synthesis
Description: Provides a new class of Bayesian meta-analysis models that incorporates a model for internal and external validity bias. In this way, it is possible to combine studies of diverse quality and different types. For example, we can combine the results of randomized control trials (RCTs) with the results of observational studies (OS).
Author: Pablo Emilio Verde [aut, cre]
Maintainer: Pablo Emilio Verde <pabloemilio.verde@hhu.de>
Diff between jarbes versions 2.4.0 dated 2025-08-29 and 2.4.2 dated 2026-02-11
ChangeLog | 48 +++ DESCRIPTION | 10 MD5 | 57 ++- NAMESPACE | 7 R/bcbnp.R | 725 +++++++++++++++++++++++------------------------ R/bcbnp_0.R |only R/bcmeta.R | 385 ++++++++++++------------ R/bcmixmeta.R | 543 ++++------------------------------- R/data-documentation.R | 182 +++++++++++ R/dpmeta.R | 13 R/plot.bcbnp_0.R |only R/plot.bcmeta.R | 199 +++++++----- R/plot.bcmixmeta.R | 42 +- R/plot_data.R | 68 +++- R/summary.bcbnp_0.R |only R/summary.bcmeta.R | 81 ++--- R/summary.bcmixmeta.R |only data/ai_distress.rda |only data/macula_rwe.rda |binary data/personality.rda |only data/preterm.rda |only man/ai_distress.Rd |only man/bcbnp.Rd | 2 man/bcbnp_0.Rd |only man/bcmeta.Rd | 20 - man/bcmixmeta.Rd | 22 - man/macula_rwe.Rd | 15 man/personality.Rd |only man/plot.bcbnp_0.Rd |only man/plot.bcmeta.Rd | 64 +++- man/plot.bcmixmeta.Rd | 6 man/plot_data.Rd | 10 man/preterm.Rd |only man/print.bcbnp_0.Rd |only man/summary.bcbnp_0.Rd |only man/summary.bcmeta.Rd | 4 man/summary.bcmixmeta.Rd |only 37 files changed, 1243 insertions(+), 1260 deletions(-)
Title: Geospatial Regression Equation for European Nutrient Losses
(GREEN)
Description: Tools and methods to apply the model Geospatial Regression Equation
for European Nutrient losses (GREEN);
Grizzetti et al. (2005) <doi:10.1016/j.jhydrol.2004.07.036>;
Grizzetti et al. (2008);
Grizzetti et al. (2012) <doi:10.1111/j.1365-2486.2011.02576.x>;
Grizzetti et al. (2021) <doi:10.1016/j.gloenvcha.2021.102281>.
Author: A. Udias [aut],
B. Grizzetti [aut],
O. Vigiak [aut],
J. Gomez [aut],
C. Alfaro [aut, cre],
A. Aloe [aut]
Maintainer: C. Alfaro <c.alfarog@gmail.com>
Diff between GREENeR versions 1.0.0 dated 2024-02-01 and 1.0.1 dated 2026-02-11
DESCRIPTION | 17 +-- MD5 | 32 +++--- NAMESPACE | 207 ++++++++++++++++++++++----------------------- NEWS.md | 12 +- R/GREENeR-package.R | 14 --- R/optimization_metrics.R | 12 ++ R/rgreen_plots.R | 61 +++++++------ README.md |only inst/doc/GREENeR.Rmd | 44 ++++----- inst/doc/GREENeR.html | 186 +++++++++++++++++++++++++--------------- man/GREENeR-package.Rd | 105 +++++++++++++--------- man/create_lits_of_maps.Rd | 4 man/evolution_plot_area.Rd | 5 - man/gof.Rd |only man/gr_density_plot.Rd | 6 + man/nutrient_maps.Rd | 114 ++++++++++++------------ man/simobs_annual_plot.Rd | 6 + vignettes/GREENeR.Rmd | 44 ++++----- 18 files changed, 484 insertions(+), 385 deletions(-)
Title: Multiple Time Series Scanner
Description: Generate interactive html reports that enable quick visual review of multiple related time series stored in a data frame. For static datasets, this can help to identify any temporal artefacts that may affect the validity of subsequent analyses. For live data feeds, regularly scheduled reports can help to pro-actively identify data feed problems or unexpected trends that may require action. The reports are self-contained and shareable without a web server.
Author: T. Phuong Quan [aut, cre] ,
University of Oxford [cph],
National Institute for Health Research [fnd],
Rodrigo Pires [rev],
Margaret Siple [rev]
Maintainer: T. Phuong Quan <phuongquan567@outlook.com>
Diff between mantis versions 1.0.1 dated 2026-01-13 and 1.0.2 dated 2026-02-11
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 6 ++++++ R/prepare.R | 12 +++++++----- tests/testthat/test-plots-interactive.R | 26 ++++++++++++++++---------- tests/testthat/test-prepare.R | 3 ++- 6 files changed, 39 insertions(+), 24 deletions(-)
Title: Read the Swiss Register of Plant Protection Products
Description: Generate data objects from XML versions of the Swiss
Register of Plant Protection Products. An online version of the
register can be accessed at <https://www.psm.admin.ch/de/produkte>. There is no
guarantee of correspondence of the data read in using this package with that
online version, or with the original registration documents. Also, the
Federal Food Safety and Veterinary Office, coordinating the authorisation of
plant protection products in Switzerland, does not answer requests regarding
this package.
Author: Daniel Baumgartner [ctb] ,
Marcel Mathis [rev, ctb],
Romualdus Kasteel [rev] ,
Elisabeth Lutz [ctb],
Johannes Ranke [aut, cre] ,
Agroscope [cph]
Maintainer: Johannes Ranke <johannes.ranke@agroscope.admin.ch>
Diff between srppp versions 2.0.0 dated 2025-12-11 and 2.0.2 dated 2026-02-11
srppp-2.0.0/srppp/inst/testdata/PublicationData_2025_12_01.xml.xz |only srppp-2.0.2/srppp/DESCRIPTION | 8 srppp-2.0.2/srppp/MD5 | 22 srppp-2.0.2/srppp/NEWS.md | 9 srppp-2.0.2/srppp/R/resolve_cultures.R | 6 srppp-2.0.2/srppp/R/srppp-xml.R | 7 srppp-2.0.2/srppp/inst/doc/srppp.html | 3849 +++++----- srppp-2.0.2/srppp/inst/doc/srppp_products_with_MO.html | 156 srppp-2.0.2/srppp/inst/testdata/PublicationData_2026_02_03.xml.xz |only srppp-2.0.2/srppp/tests/testthat/setup.R | 4 srppp-2.0.2/srppp/tests/testthat/test-alternative_products.R | 12 srppp-2.0.2/srppp/tests/testthat/test-resolve_cultures.R | 50 srppp-2.0.2/srppp/tests/testthat/test-srppp_xml.R | 31 13 files changed, 2118 insertions(+), 2036 deletions(-)
Title: EcoCleanR: Enhancing Data Quality of Biogeographic Ranges with
Application for Marine Invertebrates
Description: Provides step-by-step automation for integrating biodiversity data from multiple online aggregators, merging and cleaning datasets while addressing challenges such as taxonomic inconsistencies, georeferencing issues, and spatial or environmental outliers. Includes functions to extract environmental data and to define the biogeographic ranges in which species are most likely to occur.
Author: Priyanka Soni [aut, cre] ,
Austin Hendy [ctb] ,
David Bottjer [ctb] ,
Vijay Barve [ctb]
Maintainer: Priyanka Soni <sonip@usc.edu>
This is a re-admission after prior archival of version 1.0.1 dated 2025-11-19
Diff between EcoCleanR versions 1.0.1 dated 2025-11-19 and 1.0.2 dated 2026-02-11
DESCRIPTION | 39 +- LICENSE | 2 MD5 | 67 ++-- NEWS.md |only R/ec_extract_env_layers.R | 97 ++--- R/ec_flag_non_east_atlantic.R | 2 R/ec_flag_non_east_pacific.R | 2 R/ec_flag_non_region.R | 2 R/ec_flag_non_west_atlantic.R | 2 R/ec_flag_non_west_pacific.R | 2 R/ec_geographic_map.R | 5 R/ec_geographic_map_w_flag.R | 5 R/ec_worms_synonym.R | 107 +++--- README.md | 36 +- build/vignette.rds |binary inst/CITATION | 14 inst/WORDLIST |only inst/doc/data_cleaning.R | 130 +++---- inst/doc/data_cleaning.Rmd | 594 ++++++++++++++++++------------------ inst/doc/data_cleaning.html | 89 +---- inst/doc/data_merging.R | 200 ++++++------ inst/doc/data_merging.Rmd | 4 inst/doc/data_merging.html | 66 +--- man/ec_extract_env_layers.Rd | 3 man/ec_flag_non_east_atlantic.Rd | 2 man/ec_flag_non_east_pacific.Rd | 2 man/ec_flag_non_region.Rd | 2 man/ec_flag_non_west_atlantic.Rd | 2 man/ec_flag_non_west_pacific.Rd | 2 man/ec_geographic_map.Rd | 3 man/ec_geographic_map_w_flag.Rd | 3 man/ec_worms_synonym.Rd | 3 man/figures/logo.png |only tests/testthat/test-data_cleaning.R | 31 + vignettes/data_cleaning.Rmd | 594 ++++++++++++++++++------------------ vignettes/data_merging.Rmd | 4 36 files changed, 1051 insertions(+), 1065 deletions(-)
Title: 'shiny' App Companion to the 'tfrmt' Package
Description: Provides an interactive interface to the 'tfrmt' package. Users
can import, modify, and export tables and templates with little to no code.
Author: Becca Krouse [aut, cre],
Christina Fillmore [aut] ,
Karima Ahmad [aut] ,
Ellis Hughes [aut] ,
GlaxoSmithKline Research & Development Limited [cph, fnd]
Maintainer: Becca Krouse <becca.z.krouse@gsk.com>
Diff between tfrmtbuilder versions 0.1.0 dated 2024-10-11 and 0.1.1 dated 2026-02-11
DESCRIPTION | 22 ++-- MD5 | 66 ++++++------ NAMESPACE | 33 ------ NEWS.md | 5 R/mod_big_n.R | 2 R/mod_big_n_edit.R | 4 R/mod_body_plan.R | 6 - R/mod_body_plan_edit.R | 2 R/mod_body_plan_edit_frmts.R | 6 - R/mod_col_plan_simple.R | 6 - R/mod_col_style_plan.R | 6 - R/mod_col_style_plan_edit.R | 6 - R/mod_datamapping.R | 10 - R/mod_datamapping_inputs.R | 18 +-- R/mod_export_table.R | 8 - R/mod_filters.R | 26 ++-- R/mod_footnote_plan.R | 6 - R/mod_load.R | 22 ++-- R/mod_page_plan.R | 12 -- R/mod_row_grp_plan.R | 6 - R/mod_row_grp_plan_edit.R | 4 R/mod_table_inner.R | 16 +- R/tfrmtbuilder_server.R | 4 R/tfrmtbuilder_ui.R | 20 ++- R/utils_app.R | 46 ++++---- R/utils_tfrmt.R | 20 +-- R/zzz.R | 18 --- tests/testthat/module_examples/mod_body_plan/app.R | 6 - tests/testthat/module_examples/mod_datamapping/app.R | 6 - tests/testthat/module_examples/mod_datamapping_inputs/app.R | 6 - tests/testthat/test-mod_body_plan-shinytest2.R | 24 ++-- tests/testthat/test-mod_datamapping-shinytest2.R | 29 ++--- tests/testthat/test-mod_datamapping_inputs-shinytest2.R | 14 +- tests/testthat/test-mod_load.R | 4 34 files changed, 230 insertions(+), 259 deletions(-)
Title: Path Diagrams and Visual Analysis of Various SEM Packages'
Output
Description: Path diagrams and visual analysis of various SEM packages' output.
Author: Sacha Epskamp [aut, cre],
Simon Stuber [ctb],
Jason Nak [ctb],
Myrthe Veenman [ctb],
Terrence D. Jorgensen [ctb]
Maintainer: Sacha Epskamp <mail@sachaepskamp.com>
Diff between semPlot versions 1.1.7 dated 2025-09-01 and 1.1.8 dated 2026-02-11
DESCRIPTION | 7 MD5 | 18 NAMESPACE | 124 +++--- NEWS | 8 R/OpenMx.R | 5 R/glm.R | 12 R/lavaan.R | 21 - R/semPaths.R | 28 - R/semspec.R | 190 ++++----- man/semPaths.Rd | 1138 ++++++++++++++++++++++++++++---------------------------- 10 files changed, 790 insertions(+), 761 deletions(-)
Title: Epistemic Network Analysis
Description: ENA (Shaffer, D. W. (2017) Quantitative Ethnography. ISBN: 0578191687) is a method used to identify meaningful and quantifiable patterns in discourse or reasoning. ENA moves beyond the traditional frequency-based assessments by examining the structure of the co-occurrence, or connections in coded data. Moreover, compared to other methodological approaches, ENA has the novelty of (1) modeling whole networks of connections and (2) affording both quantitative and qualitative comparisons between different network models. Shaffer, D.W., Collier, W., & Ruis, A.R. (2016).
Author: Cody L Marquart [aut, cre] ,
Zachari Swiecki [aut],
Wesley Collier [aut],
Brendan Eagan [aut],
Roman Woodward [aut],
David Williamson Shaffer [aut]
Maintainer: Cody L Marquart <cody.marquart@wisc.edu>
Diff between rENA versions 0.3.0 dated 2025-09-29 and 0.3.1 dated 2026-02-11
DESCRIPTION | 8 +- MD5 | 20 ++--- NEWS.md | 14 +++- R/ena.rotate.by.generalized.R | 6 - R/ena.rotate.by.mean.R | 31 +++++++-- R/piped.R | 65 +++++++++++------- inst/include/rENA_RcppExports.h | 32 ++++----- man/ena.rotate.by.mean.Rd | 4 - src/RcppExports.cpp | 68 +++++++++---------- src/ena.cpp | 137 +++++++++++++++++++--------------------- tests/testthat/test-piping.R | 15 ++++ 11 files changed, 229 insertions(+), 171 deletions(-)
Title: Interface to 'LibBi'
Description: Provides a complete interface to 'LibBi', a library for Bayesian
inference (see <https://libbi.org> and Murray, 2015
<doi:10.18637/jss.v067.i10> for more information). This includes functions
for manipulating 'LibBi' models, for reading and writing 'LibBi'
input/output files, for converting 'LibBi' output to provide traces for use
with the coda package, and for running 'LibBi' to conduct inference.
Author: Pierre E. Jacob [aut],
Anthony Lee [ctb],
Lawrence M. Murray [ctb],
Sebastian Funk [aut, cre],
Sam Abbott [ctb]
Maintainer: Sebastian Funk <sebastian.funk@lshtm.ac.uk>
Diff between rbi versions 1.0.0 dated 2023-08-15 and 1.0.1 dated 2026-02-11
DESCRIPTION | 8 - MD5 | 32 ++-- NAMESPACE | 1 NEWS.md | 5 R/bi_read.R | 16 +- R/bi_write.R | 86 +++++++++++-- R/libbi.R | 62 +++++---- README.md | 2 build/vignette.rds |binary inst/doc/idd_models.html | 1 inst/doc/rbi.R | 285 ++++++++++++++++++++++---------------------- inst/doc/rbi.Rmd | 3 inst/doc/rbi.html | 3 man/factorise.Rd |only man/get_char_levels.Rd |only tests/testthat/test-io.r | 28 ++++ tests/testthat/test-libbi.r | 4 vignettes/rbi.Rmd | 3 18 files changed, 333 insertions(+), 206 deletions(-)
Title: Euclidean and Mutual Reachability Minimum Spanning Trees
Description: Functions to compute Euclidean minimum spanning trees using single-,
sesqui-, and dual-tree Boruvka algorithms. Thanks to K-d trees, they are
fast in spaces of low intrinsic dimensionality. Mutual reachability
distances (used in the definition of the 'HDBSCAN*' algorithm)
are supported too. The package also includes relatively fast fallback
minimum spanning tree and nearest-neighbours algorithms for spaces of
higher dimensionality. The 'Python' version of 'quitefastmst' is available
via 'PyPI'.
Author: Marek Gagolewski [aut, cre, cph]
Maintainer: Marek Gagolewski <marek@gagolewski.com>
Diff between quitefastmst versions 0.9.0 dated 2025-07-23 and 0.9.1 dated 2026-02-11
quitefastmst-0.9.0/quitefastmst/src/Makevars.win |only quitefastmst-0.9.1/quitefastmst/DESCRIPTION | 14 quitefastmst-0.9.1/quitefastmst/MD5 | 39 - quitefastmst-0.9.1/quitefastmst/NEWS | 33 + quitefastmst-0.9.1/quitefastmst/R/RcppExports.R | 121 ++--- quitefastmst-0.9.1/quitefastmst/R/quitefastmst-package.R | 2 quitefastmst-0.9.1/quitefastmst/man/knn_euclid.Rd | 20 quitefastmst-0.9.1/quitefastmst/man/mst_euclid.Rd | 104 ++-- quitefastmst-0.9.1/quitefastmst/man/omp.Rd | 2 quitefastmst-0.9.1/quitefastmst/src/RcppExports.cpp | 11 quitefastmst-0.9.1/quitefastmst/src/RcppFastmst.cpp | 182 ++++---- quitefastmst-0.9.1/quitefastmst/src/c_common.h | 2 quitefastmst-0.9.1/quitefastmst/src/c_disjoint_sets.h | 2 quitefastmst-0.9.1/quitefastmst/src/c_fastmst.h | 38 + quitefastmst-0.9.1/quitefastmst/src/c_kdtree.h | 2 quitefastmst-0.9.1/quitefastmst/src/c_kdtree_boruvka.h | 195 +++++---- quitefastmst-0.9.1/quitefastmst/src/c_mst_triple.h | 2 quitefastmst-0.9.1/quitefastmst/src/knn_euclid_brute.cpp | 18 quitefastmst-0.9.1/quitefastmst/src/knn_euclid_kdtree.cpp | 8 quitefastmst-0.9.1/quitefastmst/src/mst_euclid_brute.cpp | 300 +++++++++----- quitefastmst-0.9.1/quitefastmst/src/mst_euclid_kdtree.cpp | 78 +-- 21 files changed, 668 insertions(+), 505 deletions(-)
Title: Psychometric Modeling Infrastructure
Description: Infrastructure for psychometric modeling such as data classes (for
item response data and paired comparisons), basic model fitting functions (for
Bradley-Terry, Rasch, parametric logistic IRT, generalized partial credit,
rating scale, multinomial processing tree models), extractor functions for
different types of parameters (item, person, threshold, discrimination,
guessing, upper asymptotes), unified inference and visualizations, and various
datasets for illustration. Intended as a common lightweight and efficient
toolbox for psychometric modeling and a common building block for fitting
psychometric mixture models in package "psychomix" and trees based on
psychometric models in package "psychotree".
Author: Achim Zeileis [aut, cre] ,
Carolin Strobl [aut] ,
Florian Wickelmaier [aut],
Basil Komboz [aut],
Julia Kopf [aut],
Lennart Schneider [aut] ,
Rudolf Debelak [aut]
Maintainer: Achim Zeileis <Achim.Zeileis@R-project.org>
Diff between psychotools versions 0.7-5 dated 2025-10-21 and 0.7-6 dated 2026-02-11
DESCRIPTION | 8 - MD5 | 16 +-- NEWS.md | 10 ++ R/nplmodel.R | 147 +++++++++++++++----------------- inst/doc/toolbox-simulation.Rnw | 8 - inst/doc/toolbox-simulation.pdf |binary man/YouthGratitude.Rd | 2 tests/Examples/psychotools-Ex.Rout.save | 79 ++++------------- vignettes/toolbox-simulation.Rnw | 8 - 9 files changed, 122 insertions(+), 156 deletions(-)
Title: Optimal Design and Statistical Power for Experimental Studies
Investigating Main, Mediation, and Moderation Effects
Description: Calculate the optimal sample size allocation that
uses the minimum resources to achieve targeted statistical
power in experiments.
Perform power analyses with and without accommodating
costs and budget. The designs cover single-level
and multilevel experiments detecting main, mediation,
and moderation effects (and some combinations).
The references for the proposed methods include:
(1) Shen, Z., & Kelcey, B. (2020).
Optimal sample allocation under unequal costs in
cluster-randomized trials.
Journal of Educational and Behavioral Statistics, 45(4): 446-474.
<doi:10.3102/1076998620912418>.
(2) Shen, Z., & Kelcey, B. (2022b). Optimal sample allocation for
three-level multisite cluster-randomized trials.
Journal of Research on Educational Effectiveness, 15 (1), 130-150.
<doi:10.1080/19345747.2021.1953200>.
(3) Shen, Z., & Kelcey, B. (2022a). Optimal sample allocation in
multisite randomized trials. The Journal of Experimental Education,
90(3), 693-711. <doi:10.108 [...truncated...]
Author: Zuchao Shen [aut, cre] ,
Benjamin Kelcey [aut]
Maintainer: Zuchao Shen <zuchao.shen@gmail.com>
Diff between odr versions 1.7.3 dated 2025-10-31 and 1.8.3 dated 2026-02-11
odr-1.7.3/odr/R/od.2.221m.R |only odr-1.7.3/odr/R/od.2m.111m.R |only odr-1.7.3/odr/R/power.2m.111m.R |only odr-1.7.3/odr/man/od.2.221m.Rd |only odr-1.7.3/odr/man/od.2m.111m.Rd |only odr-1.7.3/odr/man/power.2m.111m.Rd |only odr-1.8.3/odr/DESCRIPTION | 10 - odr-1.8.3/odr/MD5 | 44 ++-- odr-1.8.3/odr/NAMESPACE | 5 odr-1.8.3/odr/R/od.2.mod.R |only odr-1.8.3/odr/R/od.2m.R | 12 - odr-1.8.3/odr/R/od.2m.mod.R | 7 odr-1.8.3/odr/R/od.2m.only.mod.R | 8 odr-1.8.3/odr/R/od.3m.R | 20 +- odr-1.8.3/odr/R/plot.power.R | 66 ++++--- odr-1.8.3/odr/R/power.2.mod.R |only odr-1.8.3/odr/R/power.2m.mod.R | 10 - odr-1.8.3/odr/build/vignette.rds |binary odr-1.8.3/odr/inst/doc/odr.R | 4 odr-1.8.3/odr/inst/doc/odr.Rmd | 19 +- odr-1.8.3/odr/inst/doc/odr.html | 30 +-- odr-1.8.3/odr/man/od.2.mod.Rd |only odr-1.8.3/odr/man/od.2m.mod.Rd | 336 ++++++++++++++++++------------------- odr-1.8.3/odr/man/od.3m.Rd | 8 odr-1.8.3/odr/man/plot.power.Rd | 34 ++- odr-1.8.3/odr/man/power.2.mod.Rd |only odr-1.8.3/odr/man/power.2m.mod.Rd | 310 +++++++++++++++++----------------- odr-1.8.3/odr/vignettes/odr.Rmd | 19 +- 28 files changed, 495 insertions(+), 447 deletions(-)
Title: Calculate the Open Bodem Index (OBI) Score
Description: The Open Bodem Index (OBI) is a method to evaluate the quality of soils of agricultural fields in The Netherlands and the sustainability of the current agricultural practices.
The OBI score is based on four main criteria: chemical, physical, biological and management, which consist of more than 21 indicators.
By providing results of a soil analysis and management info the 'OBIC' package can be use to calculate he scores, indicators and derivatives that are used by the OBI.
More information about the Open Bodem Index can be found at <https://openbodemindex.nl/>.
Author: Sven Verweij [aut, cre] ,
Gerard Ros [aut] ,
Yuki Fujita [aut] ,
Wilbrand Hendrik Riechelman [aut] ,
Kees van den Dool [aut] ,
Job de Pater [ctb],
Nutrienten Managment Instituut [cph]
Maintainer: Sven Verweij <sven.verweij@nmi-agro.nl>
Diff between OBIC versions 4.2.1 dated 2026-01-30 and 4.2.3 dated 2026-02-11
DESCRIPTION | 10 +++++----- MD5 | 26 +++++++++++++------------- NEWS.md | 9 +++++++++ README.md | 8 ++++---- build/vignette.rds |binary data/nleach_table.rda |binary inst/doc/description-of-the-columns.html | 4 ++-- inst/doc/obic_introduction.html | 12 ++++++------ inst/doc/obic_score_aggregation.html | 6 +++--- inst/doc/obic_water_functions.html | 4 ++-- inst/doc/obic_workability.html | 4 ++-- tests/testthat/test-nitrogen_efficiency.R | 4 ++-- tests/testthat/test-nretention.R | 4 ++-- tests/testthat/test-obic_field_dt.R | 8 ++++---- 14 files changed, 54 insertions(+), 45 deletions(-)
Title: Computing a New Informative Distribution Set of Asset Returns
Description: Estimation of the most-left informative set of gross returns
(i.e., the informative set).
The procedure to compute the informative set adjusts the method
proposed by
Mariani et al. (2022a) <doi:10.1007/s11205-020-02440-6>
and
Mariani et al. (2022b) <doi:10.1007/s10287-022-00422-2>
to gross returns of financial assets.
This is accomplished through an adaptive algorithm
that identifies sub-groups of gross returns in
each iteration by approximating their distribution with a
sequence of two-component log-normal mixtures.
These sub-groups emerge when a significant change
in the distribution occurs below the median of the
financial returns, with their boundary termed as
the “change point" of the mixture.
The process concludes when no further change points are detected.
The outcome encompasses parameters of the leftmost mixture
distributions and change points of the
analyzed financial time series.
The functionalities of the INFOSET package include: (i) modelling asset distribution [...truncated...]
Author: Gloria Polinesi [aut, cre],
Francesca Mariani [aut],
Maria Cristina Recchioni [aut]
Maintainer: Gloria Polinesi <g.polinesi@staff.univpm.it>
Diff between INFOSET versions 4.1 dated 2024-11-23 and 4.1.1 dated 2026-02-11
DESCRIPTION | 8 +++--- MD5 | 17 ++++++++------ NAMESPACE | 48 ++++++++++++++++++++++++----------------- R/utils_imports.R |only build/vignette.rds |binary inst/doc/INFOSET_vignette.pdf |only inst/doc/my-vignette.Rmd | 4 +-- inst/doc/my-vignette.html | 5 ++-- tests/testthat/Rplots.pdf |binary vignettes/.install_extras |only vignettes/INFOSET_vignette.pdf |only vignettes/my-vignette.Rmd | 4 +-- 12 files changed, 50 insertions(+), 36 deletions(-)
Title: Marine Benthic Ecosystem Analysis
Description: Preprocessing tools and biodiversity measures
(species abundance, species richness, population heterogeneity and
sensitivity) for analysing marine benthic data. See Van Loon et al.
(2015) <doi:10.1016/j.seares.2015.05.002> for an application of
these tools.
Author: Dennis Walvoort [aut, cre, cph]
Maintainer: Dennis Walvoort <dennis.Walvoort@wur.nl>
Diff between benthos versions 1.3-9 dated 2025-07-04 and 2.0-0 dated 2026-02-11
DESCRIPTION | 14 MD5 | 98 +- NAMESPACE | 39 R/bc.R | 35 R/benthos.R | 12 R/data_northsea.R | 6 R/data_oosterschelde.R | 12 R/indicators.R | 1180 ++++++++++---------------- R/io.R | 1516 ++++++++++++++++------------------ R/utils.R | 976 ++++++++++------------ build/vignette.rds |binary inst/NEWS.Rd | 9 inst/doc/benthos.R | 439 ++++----- inst/doc/benthos.Rmd | 1671 ++++++++++++++++++-------------------- inst/doc/benthos.html | 938 +++++++++------------ man/abundance.Rd | 23 man/ambi.Rd | 39 man/as_accepted.Rd | 6 man/benthos-package.Rd | 11 man/eqr.Rd | 4 man/genus_to_species.Rd | 10 man/get_ambi.Rd | 8 man/get_iti.Rd | 10 man/harmonize.Rd | 2 man/hill.Rd | 68 - man/hpie.Rd | 40 man/hurlbert.Rd | 24 man/is_azoic.Rd | 4 man/is_binomen.Rd | 10 man/iti.Rd | 40 man/margalef.Rd | 21 man/oosterschelde.Rd | 4 man/pool.Rd | 12 man/read_ambi.Rd | 17 man/read_beqi2.Rd | 12 man/read_iti.Rd | 16 man/read_ref.Rd | 17 man/read_taxa.Rd | 7 man/read_twn.Rd | 9 man/rygg.Rd | 31 man/shannon.Rd | 18 man/simpson.Rd | 36 man/species_richness.Rd | 22 man/to_worms.Rd | 22 man/total_abundance.Rd | 24 tests/testthat/test-bray_curtis.R | 29 tests/testthat/test-indicators.R | 886 +++++++++----------- tests/testthat/test-poole.R | 226 ++--- tests/testthat/test-utils.R | 275 +++--- vignettes/benthos.Rmd | 1671 ++++++++++++++++++-------------------- 50 files changed, 4952 insertions(+), 5647 deletions(-)
Title: R Tools for Text Matrices, Embeddings, and Networks
Description: This is a collection of functions optimized for working with
with various kinds of text matrices. Focusing on
the text matrix as the primary object - represented
either as a base R dense matrix or a 'Matrix' package sparse
matrix - allows for a consistent and intuitive interface
that stays close to the underlying mathematical foundation
of computational text analysis. In particular, the package
includes functions for working with word embeddings,
text networks, and document-term matrices. Methods developed in
Stoltz and Taylor (2019) <doi:10.1007/s42001-019-00048-6>,
Taylor and Stoltz (2020) <doi:10.1007/s42001-020-00075-8>,
Taylor and Stoltz (2020) <doi:10.15195/v7.a23>, and
Stoltz and Taylor (2021) <doi:10.1016/j.poetic.2021.101567>.
Author: Dustin Stoltz [aut, cre] ,
Marshall Taylor [aut]
Maintainer: Dustin Stoltz <dss219@lehigh.edu>
Diff between text2map versions 0.2.0 dated 2024-04-11 and 0.2.3 dated 2026-02-11
DESCRIPTION | 21 +- MD5 | 41 ++-- NAMESPACE | 11 + NEWS.md | 10 + R/CMDist.R | 10 - R/CoCA.R | 52 +++--- R/data.R | 4 R/utils-embedding-relco.R |only R/utils-embedding-vectors.R | 215 ++++++++++++++++---------- R/utils.R | 17 ++ README.md | 6 data/anchor_lists.rda |binary inst/REFERENCES.bib | 25 +++ man/CoCA.Rd | 18 +- man/anchor_lists.Rd | 4 man/get_direction.Rd | 6 man/get_regions.Rd | 2 man/test_anchors.Rd | 89 +++++++++- man/text2map-package.Rd | 2 tests/testthat/helper-data.R | 9 - tests/testthat/test-utils-embedding-vectors.R | 65 +++++++ tests/testthat/test-y-nocran-CoCA.R | 33 +-- 22 files changed, 457 insertions(+), 183 deletions(-)
Title: Tools for Detecting Influential Data in Mixed Effects Models
Description: Provides a collection of tools for
detecting influential cases in generalized mixed effects
models. It analyses models that were estimated using 'lme4'. The
basic rationale behind identifying influential data is that
when single units are omitted from the data, models
based on these data should not produce substantially different
estimates. To standardize the assessment of how influential a
(single group of) observation(s) is, several measures of
influence are common practice, such as Cook's Distance.
In addition, we provide a measure of percentage change of the fixed point
estimates and a simple procedure to detect changing levels of significance.
Author: Rense Nieuwenhuis [aut, cre] ,
Ben Pelzer [aut],
Manfred Te Grotenhuis [aut]
Maintainer: Rense Nieuwenhuis <rense.nieuwenhuis@sofi.su.se>
Diff between influence.ME versions 0.9-9 dated 2017-06-07 and 0.9-10 dated 2026-02-11
DESCRIPTION | 25 ++++++++++++++++++++----- MD5 | 6 +++--- inst/CITATION | 28 ++++++++++------------------ man/school23.Rd | 4 ++-- 4 files changed, 35 insertions(+), 28 deletions(-)
Title: Generate Samples from Multivariate Truncated Normal
Distributions
Description: Efficient sampling from high-dimensional truncated Gaussian
distributions, or multivariate truncated normal (MTN). Techniques include
zigzag Hamiltonian Monte Carlo as in Akihiko Nishimura, Zhenyu Zhang and
Marc A. Suchard (2024) <doi:10.1080/01621459.2024.2395587>, and harmonic Monte Carlo in Ari Pakman
and Liam Paninski (2014) <doi:10.1080/10618600.2013.788448>.
Author: Zhenyu Zhang [aut, cre],
Andrew Chin [aut],
Akihiko Nishimura [aut],
Marc A. Suchard [aut],
John W. Ratcliff et al. [cph, ctb]
Maintainer: Zhenyu Zhang <zhangzhenyusa@gmail.com>
Diff between hdtg versions 0.3.3 dated 2026-01-25 and 0.3.4 dated 2026-02-11
DESCRIPTION | 6 +++--- MD5 | 20 ++++++++++---------- R/RcppExports.R | 10 ++++------ R/zigzagHMC.R | 4 ---- R/zigzagMarkovian.R | 3 --- man/createEngine.Rd | 5 +---- man/createNutsEngine.Rd | 5 +---- man/markovianZigzag.Rd | 3 --- man/zigzagHMC.Rd | 3 --- src/RcppExports.cpp | 18 ++++++++---------- src/RcppZigZag.cpp | 12 ++++-------- 11 files changed, 31 insertions(+), 58 deletions(-)
Title: Combining Tree-Boosting with Gaussian Process and Mixed Effects
Models
Description: An R package that allows for combining tree-boosting with Gaussian process and mixed effects models. It also allows for independently doing tree-boosting as well as inference and prediction for Gaussian process and mixed effects models. See <https://github.com/fabsig/GPBoost> for more information on the software and Sigrist (2022, JMLR) <https://www.jmlr.org/papers/v23/20-322.html> and Sigrist (2023, TPAMI) <doi:10.1109/TPAMI.2022.3168152> for more information on the methodology.
Author: Fabio Sigrist [aut, cre],
Tim Gyger [aut],
Pascal Kuendig [aut],
Benoit Jacob [cph],
Gael Guennebaud [cph],
Nicolas Carre [cph],
Pierre Zoppitelli [cph],
Gauthier Brun [cph],
Jean Ceccato [cph],
Jitse Niesen [cph],
Other authors of Eigen for the incl [...truncated...]
Maintainer: Fabio Sigrist <fabiosigrist@gmail.com>
Diff between gpboost versions 1.6.5 dated 2026-01-08 and 1.6.6 dated 2026-02-11
DESCRIPTION | 8 MD5 | 83 R/GPModel.R | 212 + R/gpb.Booster.R | 26 R/gpb.cv.R | 1 R/gpboost.R | 11 README.md | 32 configure.ac | 2 demo/GPBoost_algorithm.R | 80 demo/generalized_linear_Gaussian_process_mixed_effects_models.R | 5 man/GPModel.Rd | 36 man/GPModel_shared_params.Rd | 40 man/fit.GPModel.Rd | 8 man/fit.Rd | 8 man/fitGPModel.Rd | 40 man/gpb.cv.Rd | 11 man/gpb.grid.search.tune.parameters.Rd | 11 man/gpb.save.Rd | 6 man/gpb_shared_params.Rd | 11 man/predict.gpb.Booster.Rd | 9 man/set_optim_params.GPModel.Rd | 8 man/set_optim_params.Rd | 8 man/summary.GPModel.Rd | 6 src/GP_utils.cpp | 168 + src/Vecchia_utils.cpp | 690 +++- src/c_api.cpp | 2 src/cuda_kernel.cu |only src/gpboost_R.cpp | 4 src/gpboost_R.h | 2 src/include/GPBoost/CG_utils.h | 2 src/include/GPBoost/GP_utils.h | 42 src/include/GPBoost/Vecchia_utils.h | 120 src/include/GPBoost/cov_fcts.h | 922 ++++-- src/include/GPBoost/likelihoods.h | 1488 ++++++++-- src/include/GPBoost/re_comp.h | 100 src/include/GPBoost/re_model.h | 2 src/include/GPBoost/re_model_template.h | 1412 +++++---- src/include/GPBoost/utils.h | 20 src/include/LightGBM/c_api.h | 2 src/re_model.cpp | 7 tests/testthat/test_GPModel_gaussian_process.R | 88 tests/testthat/test_GPModel_non_Gaussian_data.R | 1235 +++++++- tests/testthat/test_z_GPBoost_algorithm_non_Gaussian_data.R | 61 43 files changed, 5341 insertions(+), 1688 deletions(-)
Title: The Research Data Warehouse of Miguel de Carvalho
Description: Pulls together a collection of datasets from Miguel de Carvalho research articles and books. Including, for example:
- de Carvalho (2012) <doi:10.1016/j.jspi.2011.08.016>;
- de Carvalho et al (2012) <doi:10.1080/03610926.2012.709905>;
- de Carvalho et al (2012) <doi:10.1016/j.econlet.2011.09.007>);
- de Carvalho and Davison (2014) <doi:10.1080/01621459.2013.872651>;
- de Carvalho and Rua (2017) <doi:10.1016/j.ijforecast.2015.09.004>;
- de Carvalho et al (2023) <doi:10.1002/sta4.560>;
- de Carvalho et al (2022) <doi:10.1007/s13253-021-00469-9>;
- Palacios et al (2025) <doi:10.1214/24-BA1420>.
Author: Miguel de Carvalho [aut, cre]
Maintainer: Miguel de Carvalho <Miguel.deCarvalho@ed.ac.uk>
Diff between DATAstudio versions 1.2.2 dated 2026-02-06 and 1.2.3 dated 2026-02-11
DESCRIPTION | 8 ++++---- MD5 | 17 +++++++++++++---- data/cyclone_sst.RData |only data/earthquake_tsunami.RData |only man/DATAstudio.Rd | 5 ++++- man/alps.Rd | 2 +- man/california.Rd | 6 ++++-- man/cyclone_sst.Rd |only man/danube.Rd |only man/earthquake_tsunami.Rd |only man/epilepsy.Rd |only man/flights.Rd |only man/landslide.Rd |only man/loss.Rd |only 14 files changed, 26 insertions(+), 12 deletions(-)
Title: Datasets and Basic Statistics for Symbolic Data Analysis
Description: Collects a diverse range of symbolic data and offers a comprehensive set of functions that facilitate the conversion of traditional data into the symbolic data format.
Author: Po-Wei Chen [aut],
Chun-houh Chen [aut],
Han-Ming Wu [cre]
Maintainer: Han-Ming Wu <wuhm@g.nccu.edu.tw>
Diff between dataSDA versions 0.1.2 dated 2025-06-07 and 0.1.8 dated 2026-02-11
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insertions(+), 1411 deletions(-)
Title: Automatic Replication Tools for Meta-Analysis
Description: Provides a unified and straightforward interface for
performing a variety of meta-analysis methods directly from user data.
Users can input a data frame, specify key parameters, and effortlessly
execute and compare multiple common meta-analytic models. Designed for
immediate usability, the package facilitates transparent, reproducible
research without manual implementation of each analytical method.
Ideal for researchers aiming for efficiency and reproducibility, it
streamlines workflows from data preparation to results interpretation.
Author: Petr Čala [aut, cre]
Maintainer: Petr Čala <61505008@fsv.cuni.cz>
Diff between artma versions 0.2.1 dated 2025-04-25 and 0.3.3 dated 2026-02-11
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artma-0.3.3/artma/tests/testthat/test-runtime-methods.R |only artma-0.3.3/artma/tests/testthat/test-t-stat-histogram.R |only artma-0.3.3/artma/tests/testthat/test-variable-suggestion.R |only artma-0.3.3/artma/vignettes/getting-started.Rmd |only artma-0.3.3/artma/vignettes/options-files.Rmd |only 175 files changed, 3766 insertions(+), 825 deletions(-)
Title: Native and Extensible R Driver for 'Zarr'
Description: The 'Zarr' specification is widely used to build libraries for the storage and retrieval of n-dimensional array data from data stores ranging from local file systems to the cloud. This package is a native 'Zarr' implementation in R with support for all required features of 'Zarr' version 3. It is designed to be extensible such that new stores, codecs and extensions can be added easily.
Author: Patrick Van Laake [aut, cre, cph]
Maintainer: Patrick Van Laake <patrick@vanlaake.net>
Diff between zarr versions 0.1.1 dated 2025-12-06 and 0.2.0 dated 2026-02-11
DESCRIPTION | 13 +++--- LICENSE | 2 MD5 | 51 +++++++++++++----------- NAMESPACE | 1 NEWS.md | 11 +++-- R/api.R | 28 ++++++++----- R/array.R | 28 +++++++++++-- R/array_builder.R | 49 ++++++++++++++++------- R/chunking_regular.R | 67 ++++++++++++++++++++++++-------- R/codec.R | 95 ++++++++++++++++++++++++++++++++++++++++++---- R/group.R | 8 ++- R/node.R | 2 R/store.R | 76 +++++++++++++++++++++++++++++++++++- R/store_http.R |only R/store_local.R | 78 +++++++++++++++++++++++++++---------- R/utils.R | 9 ++++ R/zarr.R | 4 - README.md | 9 ++-- man/array_builder.Rd | 11 +++++ man/chunk_grid_regular.Rd | 4 - man/create_zarr.Rd | 6 +- man/open_zarr.Rd | 12 +++-- man/zarr-package.Rd | 1 man/zarr_codec_zstd.Rd |only man/zarr_httpstore.Rd |only man/zarr_localstore.Rd | 9 ++-- man/zarr_node.Rd | 2 man/zarr_store.Rd | 2 28 files changed, 442 insertions(+), 136 deletions(-)
Title: Simulate Typing Script
Description: Simulates typing of R script files for presentations and demonstrations.
Provides character-by-character animation with optional live code execution.
Supports R scripts (.R), R Markdown (.Rmd), and Quarto (.qmd) documents.
Author: Federica Gazzelloni [aut, cre]
Maintainer: Federica Gazzelloni <fede.gazzelloni@gmail.com>
Diff between typeR versions 0.2.0 dated 2026-02-04 and 0.2.1 dated 2026-02-11
DESCRIPTION | 6 MD5 | 25 +- NEWS.md | 14 + R/utils-typerun.R | 6 README.md | 14 - inst/WORDLIST | 8 inst/doc/getting-started.Rmd | 2 inst/doc/getting-started.html | 2 inst/doc/typerun-demo.R | 12 + inst/doc/typerun-demo.Rmd | 49 ++++ inst/doc/typerun-demo.html | 402 +++++++++++++++++++++----------------- vignettes/getting-started.Rmd | 2 vignettes/images/typeRun_demo.gif |only vignettes/typerun-demo.Rmd | 49 ++++ 14 files changed, 382 insertions(+), 209 deletions(-)
Title: R-Based Visualization Techniques for Task-Based Applications
Description: Performance analysis workflow that combines the power of the R
language (and the tidyverse realm) and many auxiliary tools to
provide a consistent, flexible, extensible, fast, and versatile
framework for the performance analysis of task-based applications
that run on top of the StarPU runtime (with its MPI (Message
Passing Interface) layer for multi-node support). Its goal is to
provide a fruitful prototypical environment to conduct performance
analysis hypothesis-checking for task-based applications that run
on heterogeneous (multi-GPU, multi-core) multi-node HPC
(High-performance computing) platforms.
Author: Lucas Mello Schnorr [aut, ths] ,
Vinicius Garcia Pinto [aut, cre] ,
Lucas Leandro Nesi [aut] ,
Marcelo Cogo Miletto [aut] ,
Guilherme Alles [ctb],
Arnaud Legrand [ctb],
Luka Stanisic [ctb],
Remy Drouilhet [ctb]
Maintainer: Vinicius Garcia Pinto <vinicius.pinto@furg.br>
This is a re-admission after prior archival of version 0.8.3 dated 2025-06-18
Diff between starvz versions 0.8.3 dated 2025-06-18 and 0.8.4 dated 2026-02-11
DESCRIPTION | 10 +++++----- MD5 | 18 +++++++++--------- R/RcppExports.R | 11 ++++++----- R/phase1.R | 2 +- R/phase2_aggregation.R | 33 ++++++++++++++++++++++++++++----- R/phase2_memory.R | 10 +++++----- R/phase2_metrics.R | 6 +++--- R/phase2_pmtool.R | 4 ++-- man/panel_st_raw.Rd | 2 +- man/starvz_phase1.Rd | 2 +- 10 files changed, 61 insertions(+), 37 deletions(-)
Title: Surrogate Functional False Discovery Rates for Genome-Wide
Association Studies
Description: Pleiotropy-informed significance analysis of genome-wide association studies with surrogate functional false discovery rates (sfFDR). The sfFDR framework adapts the fFDR to leverage informative data from multiple sets of GWAS summary statistics to increase power in study while accommodating for linkage disequilibrium. sfFDR provides estimates of key FDR quantities in a significance analysis such as the functional local FDR and $q$-value, and uses these estimates to derive a functional $p$-value for type I error rate control and a functional local Bayes' factor for post-GWAS analyses (e.g., fine mapping and colocalization).
Author: Andrew Bass [aut, cre],
Chris Wallace [aut]
Maintainer: Andrew Bass <ab3105@cam.ac.uk>
Diff between sffdr versions 1.0.0 dated 2024-12-02 and 1.1.0 dated 2026-02-11
sffdr-1.0.0/sffdr/R/RcppExports.R |only sffdr-1.0.0/sffdr/R/finemapping.R |only sffdr-1.0.0/sffdr/R/lfdr.R |only sffdr-1.0.0/sffdr/man/ffinemap.Rd |only sffdr-1.0.0/sffdr/src |only sffdr-1.1.0/sffdr/DESCRIPTION | 19 sffdr-1.1.0/sffdr/MD5 | 64 +- sffdr-1.1.0/sffdr/NAMESPACE | 41 - sffdr-1.1.0/sffdr/NEWS.md | 22 sffdr-1.1.0/sffdr/R/bmi.R | 66 -- sffdr-1.1.0/sffdr/R/fpi0est.R | 677 ++++++++++++++++++------ sffdr-1.1.0/sffdr/R/fpvalues.R | 120 ++-- sffdr-1.1.0/sffdr/R/kernelEstimator.R | 518 +++++++++++++++--- sffdr-1.1.0/sffdr/R/pi0_model.R | 329 +++++++++-- sffdr-1.1.0/sffdr/R/plot.R | 130 ++-- sffdr-1.1.0/sffdr/R/sffdr-package.R |only sffdr-1.1.0/sffdr/R/sffdr.R | 331 +++++++---- sffdr-1.1.0/sffdr/README.md | 194 +++--- sffdr-1.1.0/sffdr/build/vignette.rds |binary sffdr-1.1.0/sffdr/inst/doc/sffdr.R | 85 +-- sffdr-1.1.0/sffdr/inst/doc/sffdr.Rmd | 126 ++-- sffdr-1.1.0/sffdr/inst/doc/sffdr.html | 316 +++++++---- sffdr-1.1.0/sffdr/inst/figures/sffdr.png |binary sffdr-1.1.0/sffdr/man/bmi.Rd | 64 -- sffdr-1.1.0/sffdr/man/fit_bivariate_density.Rd |only sffdr-1.1.0/sffdr/man/fit_strategy_final.Rd |only sffdr-1.1.0/sffdr/man/fit_univariate_density.Rd |only sffdr-1.1.0/sffdr/man/fpi0est.Rd | 111 ++- sffdr-1.1.0/sffdr/man/fpvalues.Rd | 8 sffdr-1.1.0/sffdr/man/kernelEstimator.Rd | 144 +++-- sffdr-1.1.0/sffdr/man/pi0_model.Rd | 65 +- sffdr-1.1.0/sffdr/man/plot.sffdr.Rd | 20 sffdr-1.1.0/sffdr/man/sffdr-package.Rd |only sffdr-1.1.0/sffdr/man/sffdr.Rd | 108 ++- sffdr-1.1.0/sffdr/tests |only sffdr-1.1.0/sffdr/vignettes/sffdr.Rmd | 126 ++-- 36 files changed, 2426 insertions(+), 1258 deletions(-)
Title: 'Open Scoring' API Client
Description: Creativity research involves the need to score open-ended problems.
Usually done by humans, automatic scoring using AI becomes more
and more accurate. This package provides a simple interface to
the 'Open Scoring' API <https://openscoring.du.edu/docs>, leading creativity scoring technology by
Organiscak et al. (2023) <doi:10.1016/j.tsc.2023.101356>. With it,
you can score your own data directly from an R script.
Author: Jakub Jedrusiak [aut, cre, cph] ,
Peter Organisciak [ctb] ,
Selcuk Acar [ctb] ,
Denis Dumas [ctb] ,
Pier-Luc de Chantal [ctb] ,
Kelly Berthiaume [ctb]
Maintainer: Jakub Jedrusiak <jakub.jedrusiak2@uwr.edu.pl>
Diff between openscoring versions 1.0.4 dated 2024-08-24 and 1.0.6 dated 2026-02-11
openscoring-1.0.4/openscoring/R/oscai.R |only openscoring-1.0.4/openscoring/man/oscai.Rd |only openscoring-1.0.4/openscoring/tests/testthat/test-oscai.R |only openscoring-1.0.6/openscoring/DESCRIPTION | 42 +++++----- openscoring-1.0.6/openscoring/MD5 | 20 ++-- openscoring-1.0.6/openscoring/NAMESPACE | 2 openscoring-1.0.6/openscoring/NEWS.md | 20 +++- openscoring-1.0.6/openscoring/R/ocsai.R |only openscoring-1.0.6/openscoring/README.md | 9 +- openscoring-1.0.6/openscoring/build/partial.rdb |binary openscoring-1.0.6/openscoring/inst |only openscoring-1.0.6/openscoring/man/ocsai.Rd |only openscoring-1.0.6/openscoring/man/openscoring-package.Rd | 2 openscoring-1.0.6/openscoring/tests/testthat/autosplit_data.RDS |only openscoring-1.0.6/openscoring/tests/testthat/test-ocsai.R |only 15 files changed, 57 insertions(+), 38 deletions(-)
Title: Interactive Command-Line Menus
Description: Provides interactive command-line menu functionality with
single and multiple selection menus, keyboard navigation (arrow keys or
vi-style j/k), preselection, and graceful fallback for non-interactive
environments. Inspired by tools such as 'inquirer.js'
<https://github.com/SBoudrias/Inquirer.js>, 'pick'
<https://github.com/aisk/pick>, and 'survey'
<https://github.com/AlecAivazis/survey>. Designed to be lightweight and
easy to integrate into 'R' packages and scripts.
Author: Petr Čala [aut, cre]
Maintainer: Petr Čala <61505008@fsv.cuni.cz>
Diff between climenu versions 0.1.3 dated 2026-02-06 and 0.1.4 dated 2026-02-11
DESCRIPTION | 6 MD5 | 18 +- R/checkbox.R | 9 - R/menu.R | 13 -- R/select.R | 3 R/utils.R | 6 inst/doc/climenu.R | 15 +- inst/doc/climenu.Rmd | 35 ++++- inst/doc/climenu.html | 312 ++++++++++++++++++++++++++------------------------ vignettes/climenu.Rmd | 35 ++++- 10 files changed, 263 insertions(+), 189 deletions(-)
Title: Leakage-Safe Modeling and Auditing for Genomic and Clinical Data
Description: Prevents and detects information leakage in biomedical machine learning.
Provides leakage-resistant split policies (subject-grouped, batch-blocked, study leave-out, time-ordered),
guarded preprocessing (train-only imputation, normalization, filtering, feature selection),
cross-validated fitting with common learners, permutation-gap auditing, batch and fold association tests,
and duplicate detection.
Author: Selcuk Korkmaz [aut, cre]
Maintainer: Selcuk Korkmaz <selcukorkmaz@gmail.com>
Diff between bioLeak versions 0.1.0 dated 2026-02-06 and 0.2.0 dated 2026-02-11
DESCRIPTION | 10 MD5 | 49 NEWS.md |only R/audit.R | 7 R/audit_report.R | 18 R/fit_resample.R | 126 + R/make_split_plan.R | 58 R/summary.R | 29 R/tidymodels.R | 22 R/tune_resample.R | 434 ++++ README.md | 2 build/vignette.rds |binary inst/doc/bioLeak-intro.R | 126 - inst/doc/bioLeak-intro.Rmd | 208 +- inst/doc/bioLeak-intro.html | 2273 +++++++++++++------------- inst/reports/audit_report.Rmd | 215 -- man/fit_resample.Rd | 11 man/make_split_plan.Rd | 14 man/tune_resample.Rd | 24 tests/testthat/test-audit-leakage-edge.R | 191 -- tests/testthat/test-audit-report.R | 6 tests/testthat/test-fit-resample-edge.R | 63 tests/testthat/test-make-split-plan-compact.R | 21 tests/testthat/test-make-split-plan-edge.R | 25 tests/testthat/test-tune-resample.R | 303 +++ vignettes/bioLeak-intro.Rmd | 208 +- 26 files changed, 2660 insertions(+), 1783 deletions(-)
Title: Create, Modify and Analyse Phylogenetic Trees
Description: Efficient implementations of functions for the creation,
modification and analysis of phylogenetic trees.
Applications include:
generation of trees with specified shapes;
tree rearrangement;
analysis of tree shape;
rooting of trees and extraction of subtrees;
calculation and depiction of split support;
plotting the position of rogue taxa (Klopfstein & Spasojevic 2019)
<doi:10.1371/journal.pone.0212942>;
calculation of ancestor-descendant relationships,
of 'stemwardness' (Asher & Smith, 2022) <doi:10.1093/sysbio/syab072>,
and of tree balance (Mir et al. 2013, Lemant et al. 2022)
<doi:10.1016/j.mbs.2012.10.005>, <doi:10.1093/sysbio/syac027>;
artificial extinction (Asher & Smith, 2022) <doi:10.1093/sysbio/syab072>;
import and export of trees from Newick, Nexus (Maddison et al. 1997)
<doi:10.1093/sysbio/46.4.590>,
and TNT <https://www.lillo.org.ar/phylogeny/tnt/> formats;
and analysis of splits and cladistic information.
Author: Martin R. Smith [aut, cre, cph] ,
Emmanuel Paradis [cph] ,
Robert Noble [cph]
Maintainer: Martin R. Smith <martin.smith@durham.ac.uk>
Diff between TreeTools versions 2.0.0 dated 2025-09-23 and 2.1.0 dated 2026-02-11
DESCRIPTION | 18 MD5 | 84 NAMESPACE | 2 NEWS.md | 16 R/Decompose.R | 2 R/Information.R | 2 R/RUtreebalance.R | 7 R/RcppExports.R | 8 R/Splits.R | 12 R/TreeNumber.R | 2 R/data.R | 2 R/match.R | 28 R/parse_files.R | 8 R/tree_numbering.R | 27 build/partial.rdb |binary inst/apa-old-doi-prefix.csl | 3164 ++++++++++++++++++------------- inst/doc/filesystem-navigation.html | 9 inst/doc/load-data.html | 19 inst/doc/load-trees.html | 15 inst/include/TreeTools/ClusterTable.h | 314 +-- inst/include/TreeTools/SplitList.h | 159 - inst/include/TreeTools/types.h | 5 man/Decompose.Rd | 2 man/J1Index.Rd | 8 man/MatrixToPhyDat.Rd | 5 man/PolarizeSplits.Rd | 4 man/RenumberTips.Rd | 8 man/SplitInformation.Rd | 2 man/TreeNumber.Rd | 2 man/TreeShape.Rd | 2 man/TreeTools-package.Rd | 4 man/match.Splits.Rd | 13 src/RcppExports.cpp | 34 src/consensus.cpp | 124 - src/first_matching_split.cpp |only src/int_to_tree.cpp | 171 - src/splits.cpp | 2 src/splits_to_tree.cpp | 69 tests/testthat/test-ClusterTable.R | 9 tests/testthat/test-FirstMatchingSplit.R |only tests/testthat/test-Splits.R | 15 tests/testthat/test-consensus.R | 12 tests/testthat/test-parsers.R | 8 tests/testthat/test-tree_numbering.R | 45 44 files changed, 2701 insertions(+), 1741 deletions(-)
Title: Descriptive, Reliability, and Inferential Tables for
Psychometric Scales and Demographic Data
Description: Provides functions to format and summarise already computed outputs from commonly used statistical and psychometric functions into compact, single-row tables and simple graphs, with utilities to export results to CSV, Word, and Excel formats. The package does not implement new statistical methods or estimation procedures; instead, it organises and presents results obtained from existing functions such as psych::describe(), psych::alpha(), stats::t.test(), and gtsummary::tbl_summary() to streamline reporting workflows in clinical and psychological research.
Author: Darshankumar Dharaiya [aut, cre]
Maintainer: Darshankumar Dharaiya <dharaiya.darshan@gmail.com>
Diff between scaledescr versions 0.1.3 dated 2026-02-08 and 0.2.0 dated 2026-02-11
DESCRIPTION | 16 ++-- LICENSE | 4 - MD5 | 24 ++++--- NAMESPACE | 3 R/make_alpha_table.R | 2 R/make_chisq_test_table.R |only R/make_dataframe_to_output.R | 117 ++++++++++++++++++++++++----------- R/make_independent_t_test_table.R |only R/make_scale_description_table.R | 91 +++++++++++++++------------ inst/CITATION | 6 - man/make_alpha_table.Rd | 4 - man/make_chisq_test_table.Rd |only man/make_dataframe_to_output.Rd | 56 ++++++++++++---- man/make_independent_t_test_table.Rd |only man/make_scale_description_table.Rd | 21 +++--- 15 files changed, 221 insertions(+), 123 deletions(-)
Title: Read Paradox Database Files into R
Description: Provides a simple and efficient way to read data from Paradox
database files (.db) directly into R as modern 'tibble' data frames.
It uses the underlying 'pxlib' C library, to handle the low-level file format
details and provides a clean, user-friendly R interface.
Author: Daniil Popov [aut, cre]
Maintainer: Daniil Popov <popov.daniil@gmail.com>
Diff between Rparadox versions 0.2.0 dated 2026-02-05 and 0.2.1 dated 2026-02-11
DESCRIPTION | 6 +-- MD5 | 8 ++-- NEWS.md | 14 +++++++ README.md | 6 +++ src/interface.c | 105 ++++++++++++++++++++++++++++++++++++-------------------- 5 files changed, 96 insertions(+), 43 deletions(-)
Title: Metrics of R Packages
Description: Static code analyses for R packages using the external code-tagging
libraries 'ctags' and 'gtags'. Static analyses enable packages to be
analysed very quickly, generally a couple of seconds at most. The package
also provides access to a database generating by applying the main function
to the full 'CRAN' archive, enabling the statistical properties of any package
to be compared with all other 'CRAN' packages.
Author: Mark Padgham [aut, cre] ,
Michael Sumner [ctb] ,
Jeffrey Hollister [ctb] ,
Egor Kotov [ctb]
Maintainer: Mark Padgham <mark.padgham@email.com>
Diff between pkgstats versions 0.2.1 dated 2025-12-09 and 0.2.2 dated 2026-02-11
DESCRIPTION | 6 - MD5 | 36 +++++------ NEWS.md | 9 ++ R/cran-data-archive.R | 58 +++++++++--------- R/cran-data-update.R | 24 +++++-- R/ctags-test.R | 5 + R/extra-stats.R | 2 R/extract-tarball.R | 13 ++-- R/pkgstats-function.R | 9 ++ R/tag-data-ctags.R | 20 +++++- R/tag-data-gtags.R | 4 + R/tag-data.R | 122 +++++++++++++++++++++++++++----------- inst/doc/installation.html | 4 - inst/doc/pkgstats.html | 8 +- man/ctags_install.Rd | 2 man/extract_tarball.Rd | 4 - tests/testthat/test-cran-update.R | 2 tests/testthat/test-pkgstats.R | 2 vignettes/installation.md |only vignettes/pkgstats.md |only 20 files changed, 226 insertions(+), 104 deletions(-)
Title: Characterise Transitions in Test Result Status in Longitudinal
Studies
Description: Analyse data from longitudinal studies to characterise changes in values of
semi-quantitative outcome variables within individual subjects, using high performance C++
code to enable rapid processing of large datasets. A flexible methodology is available for
codifying these state transitions.
Author: Mark Eisler [aut, cre, cph] ,
Ana Rabaza [aut]
Maintainer: Mark Eisler <mark.eisler@bristol.ac.uk>
Diff between Transition versions 1.0.1 dated 2025-08-29 and 1.0.2 dated 2026-02-11
DESCRIPTION | 10 ++++---- MD5 | 21 +++++++++++------- NEWS.md | 10 ++++++++ R/RcppExports.R | 55 +++++------------------------------------------ build/partial.rdb |binary build/vignette.rds |only inst |only man/PreviousDate.Rd | 50 ++----------------------------------------- man/PreviousResult.Rd | 2 - man/Transitions.Rd | 3 +- src/transition.cpp | 58 ++++++-------------------------------------------- vignettes |only 12 files changed, 47 insertions(+), 162 deletions(-)
Title: Synthesise and Correlate Likert Scale and Rating-Scale Data
Based on Summary Statistics
Description: Generate and correlate synthetic Likert and rating-scale data
with predefined means, standard deviations, Cronbach's Alpha, Factor
Loading table, coefficients, and other summary statistics.
Worked examples and documentation are available in the package
articles, accessible via the package website,
<https://winzarh.github.io/LikertMakeR/>.
Author: Hume Winzar [cre, aut]
Maintainer: Hume Winzar <winzar@gmail.com>
Diff between LikertMakeR versions 1.3.0 dated 2025-11-25 and 1.4.0 dated 2026-02-11
LikertMakeR-1.3.0/LikertMakeR/R/makeItems.R |only LikertMakeR-1.3.0/LikertMakeR/man/makeItems.Rd |only LikertMakeR-1.3.0/LikertMakeR/tests/testthat/test-makeItems.R |only LikertMakeR-1.3.0/LikertMakeR/vignettes/references.bib |only LikertMakeR-1.4.0/LikertMakeR/DESCRIPTION | 12 LikertMakeR-1.4.0/LikertMakeR/MD5 | 49 LikertMakeR-1.4.0/LikertMakeR/NAMESPACE | 4 LikertMakeR-1.4.0/LikertMakeR/NEWS.md | 38 LikertMakeR-1.4.0/LikertMakeR/R/correlateScales.R | 496 +- LikertMakeR-1.4.0/LikertMakeR/R/lfast.R | 258 - LikertMakeR-1.4.0/LikertMakeR/R/makeCorrAlpha.R | 2 LikertMakeR-1.4.0/LikertMakeR/R/reliability.R |only LikertMakeR-1.4.0/LikertMakeR/README.md | 1283 ----- LikertMakeR-1.4.0/LikertMakeR/build/vignette.rds |binary LikertMakeR-1.4.0/LikertMakeR/inst/doc/LikertMakeR_vignette.R | 64 LikertMakeR-1.4.0/LikertMakeR/inst/doc/LikertMakeR_vignette.Rmd | 194 LikertMakeR-1.4.0/LikertMakeR/inst/doc/LikertMakeR_vignette.html | 2171 +++++----- LikertMakeR-1.4.0/LikertMakeR/inst/doc/lfast_infographic.R |only LikertMakeR-1.4.0/LikertMakeR/inst/doc/lfast_infographic.Rmd |only LikertMakeR-1.4.0/LikertMakeR/inst/doc/lfast_infographic.html |only LikertMakeR-1.4.0/LikertMakeR/inst/doc/reliability_measures.R |only LikertMakeR-1.4.0/LikertMakeR/inst/doc/reliability_measures.Rmd |only LikertMakeR-1.4.0/LikertMakeR/inst/doc/reliability_measures.html |only LikertMakeR-1.4.0/LikertMakeR/man/correlateScales.Rd | 9 LikertMakeR-1.4.0/LikertMakeR/man/makeCorrAlpha.Rd | 2 LikertMakeR-1.4.0/LikertMakeR/man/ordinal_diagnostics.Rd |only LikertMakeR-1.4.0/LikertMakeR/man/print.likert_reliability.Rd |only LikertMakeR-1.4.0/LikertMakeR/man/reliability.Rd |only LikertMakeR-1.4.0/LikertMakeR/tests/testthat/test-reliability-basic.R |only LikertMakeR-1.4.0/LikertMakeR/tests/testthat/test-reliability-options.R |only LikertMakeR-1.4.0/LikertMakeR/vignettes/LikertMakeR_vignette.Rmd | 194 LikertMakeR-1.4.0/LikertMakeR/vignettes/img/lfast_infographic.png |only LikertMakeR-1.4.0/LikertMakeR/vignettes/img/lfast_infographic_t.png |only LikertMakeR-1.4.0/LikertMakeR/vignettes/lfast_infographic.Rmd |only LikertMakeR-1.4.0/LikertMakeR/vignettes/references_2.bib |only LikertMakeR-1.4.0/LikertMakeR/vignettes/reliability_measures.Rmd |only 36 files changed, 2056 insertions(+), 2720 deletions(-)
Title: Cognitive Diagnostic Computerized Adaptive Testing
Description: Provides a set of functions for conducting cognitive diagnostic computerized adaptive testing applications (Chen, 2009) <DOI:10.1007/s11336-009-9123-2>). It includes different item selection rules such us the global discrimination index (Kaplan, de la Torre, and Barrada (2015) <DOI:10.1177/0146621614554650>) and the nonparametric selection method (Chang, Chiu, and Tsai (2019) <DOI:10.1177/0146621618813113>), as well as several stopping rules. Functions for generating item banks and responses are also provided. To guide item bank calibration, model comparison at the item level can be conducted using the two-step likelihood ratio test statistic by Sorrel, de la Torre, Abad and Olea (2017) <DOI:10.1027/1614-2241/a000131>.
Author: Miguel A. Sorrel [aut, cre, cph],
Pablo Najera [aut, cph],
Francisco J. Abad [aut, cph]
Maintainer: Miguel A. Sorrel <miguel.sorrel@uam.es>
Diff between cdcatR versions 1.0.6 dated 2022-05-25 and 1.0.7 dated 2026-02-11
DESCRIPTION | 10 +++++----- MD5 | 6 +++--- NEWS.md | 42 +++++++++++++++++++++++------------------- R/helper.R | 4 ++-- 4 files changed, 33 insertions(+), 29 deletions(-)
Title: Trust Region Optimization
Description: Does local optimization using two derivatives and trust regions.
Guaranteed to converge to local minimum of objective function.
Author: Charles J. Geyer [aut, cre]
Maintainer: Charles J. Geyer <geyer@umn.edu>
Diff between trust versions 0.1-8 dated 2020-01-10 and 0.1-9 dated 2026-02-11
ChangeLog | 2 ++ DESCRIPTION | 18 +++++++++++------- MD5 | 16 ++++++++-------- build/vignette.rds |binary inst/doc/trust.pdf |binary tests/bar.R | 2 ++ tests/bar.Rout.save | 11 ++++++++--- tests/baz.R | 2 ++ tests/baz.Rout.save | 11 ++++++++--- 9 files changed, 41 insertions(+), 21 deletions(-)
Title: Density and Abundance from Distance-Sampling Surveys
Description: Distance-sampling (<doi:10.1007/978-3-319-19219-2>)
is a field survey and analytical method that estimates density and
abundance of survey targets (e.g., animals) when
detection probability declines with observation distance.
Distance-sampling is popular in ecology,
especially when survey targets are observed from aerial platforms (e.g.,
airplane or drone), surface vessels (e.g., boat or truck), or along
walking transects. Analysis involves fitting smooth (parametric) curves to
histograms of observation distances and using those functions to
adjust density estimates for missed targets. Routines included here
fit curves to observation distance histograms, estimate effective
sampling area, density of targets in surveyed areas, and the abundance
of targets in a surrounding study area. Confidence interval estimation
uses built-in bootstrap resampling. Help files are extensive and have been
vetted by multiple authors. Many tutorials are available on the package's
website (URL below).
Author: Trent McDonald [cre, aut],
Jason Carlisle [aut],
Aidan McDonald [aut] ,
Ryan Nielson [ctb] ,
Ben Augustine [ctb] ,
James Griswald [ctb] ,
Patrick McKann [ctb] ,
Lacey Jeroue [ctb] ,
Hoffman Abigail [ctb] ,
Kleinsausser Michael [ctb] ,
Joel Reynolds [ [...truncated...]
Maintainer: Trent McDonald <trent@mcdonalddatasciences.com>
Diff between Rdistance versions 4.3.0 dated 2026-01-09 and 4.3.1 dated 2026-02-11
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS.md | 11 +++++++++++ R/ESW.r | 3 +++ R/parseModel.R | 2 +- man/parseModel.Rd | 2 +- 6 files changed, 25 insertions(+), 11 deletions(-)
Title: Powerful 'SAS' Inspired Concepts for more Efficient Bigger
Outputs
Description: The main goal is to make descriptive evaluations easier to create bigger and more complex outputs in less time with less code. Introducing format containers with multilabels <https://documentation.sas.com/doc/en/pgmsascdc/v_067/proc/p06ciqes4eaqo6n0zyqtz9p21nfb.htm>, a more powerful summarise which is capable to output every possible combination of the provided grouping variables in one go <https://documentation.sas.com/doc/en/pgmsascdc/v_067/proc/p0jvbbqkt0gs2cn1lo4zndbqs1pe.htm>, tabulation functions which can create any table in different styles <https://documentation.sas.com/doc/en/pgmsascdc/v_067/proc/n1ql5xnu0k3kdtn11gwa5hc7u435.htm> and other more readable functions. The code is optimized to work fast even with datasets of over a million observations.
Author: Tim Siebenmorgen [aut, cre, cph]
Maintainer: Tim Siebenmorgen <qol_package@proton.me>
Diff between qol versions 1.2.0 dated 2026-01-13 and 1.2.1 dated 2026-02-11
qol-1.2.0/qol/inst/extdata/qol_example_data.csv |only qol-1.2.0/qol/inst/extdata/qol_example_data.xlsx |only qol-1.2.1/qol/DESCRIPTION | 8 qol-1.2.1/qol/MD5 | 122 ++-- qol-1.2.1/qol/NAMESPACE | 14 qol-1.2.1/qol/NEWS.md | 81 ++- qol-1.2.1/qol/R/any_table.R | 478 ++++++++++++++---- qol-1.2.1/qol/R/apply_format.R | 13 qol-1.2.1/qol/R/build_master.R | 4 qol-1.2.1/qol/R/content_report.R | 2 qol-1.2.1/qol/R/conversion.R | 28 - qol-1.2.1/qol/R/create_format.R | 158 +++++ qol-1.2.1/qol/R/crosstabs.R | 101 ++- qol-1.2.1/qol/R/excel_helpers.R | 232 +++++--- qol-1.2.1/qol/R/export_with_style.R | 8 qol-1.2.1/qol/R/free_memory.R |only qol-1.2.1/qol/R/frequencies.R | 343 ++++++++---- qol-1.2.1/qol/R/globals.R | 7 qol-1.2.1/qol/R/if_else.R | 101 +++ qol-1.2.1/qol/R/import_export.R | 188 ++++++- qol-1.2.1/qol/R/internal.R | 20 qol-1.2.1/qol/R/keep_drop.R | 448 ++++++++-------- qol-1.2.1/qol/R/macro.R |only qol-1.2.1/qol/R/options.R | 112 +++- qol-1.2.1/qol/R/qol.R | 13 qol-1.2.1/qol/R/recode.R | 63 +- qol-1.2.1/qol/R/renaming.R | 26 qol-1.2.1/qol/R/retain.R | 185 +++--- qol-1.2.1/qol/R/small_helpers.R | 57 ++ qol-1.2.1/qol/R/sort_plus.R | 21 qol-1.2.1/qol/R/strings.R |only qol-1.2.1/qol/R/summarise_plus.R | 194 ++++++- qol-1.2.1/qol/R/transpose_plus.R | 5 qol-1.2.1/qol/README.md | 6 qol-1.2.1/qol/inst/extdata/qol_example_data_csv.csv |only qol-1.2.1/qol/inst/extdata/qol_example_data_xlsx.xlsx |only qol-1.2.1/qol/man/any_table.Rd | 35 - qol-1.2.1/qol/man/combine_into_workbook.Rd | 53 - qol-1.2.1/qol/man/concat.Rd |only qol-1.2.1/qol/man/crosstabs.Rd | 7 qol-1.2.1/qol/man/duplicates.Rd |only qol-1.2.1/qol/man/excel_output_style.Rd | 34 + qol-1.2.1/qol/man/expand_formats.Rd |only qol-1.2.1/qol/man/free_memory.Rd |only qol-1.2.1/qol/man/frequencies.Rd | 9 qol-1.2.1/qol/man/import_export.Rd | 63 ++ qol-1.2.1/qol/man/keep_dropp.Rd | 2 qol-1.2.1/qol/man/macro.Rd |only qol-1.2.1/qol/man/qol-package.Rd | 13 qol-1.2.1/qol/man/qol_options.Rd | 22 qol-1.2.1/qol/man/recode.Rd | 18 qol-1.2.1/qol/man/remove_blanks.Rd |only qol-1.2.1/qol/man/retain.Rd | 68 +- qol-1.2.1/qol/man/style_options.Rd | 5 qol-1.2.1/qol/man/sub_string.Rd |only qol-1.2.1/qol/man/summarise_plus.Rd | 5 qol-1.2.1/qol/man/where..Rd |only qol-1.2.1/qol/tests/testthat/test-any_table.R | 133 +++-- qol-1.2.1/qol/tests/testthat/test-create_format.R | 99 +++ qol-1.2.1/qol/tests/testthat/test-free_memory.R |only qol-1.2.1/qol/tests/testthat/test-frequencies.R | 57 +- qol-1.2.1/qol/tests/testthat/test-if_else.R | 12 qol-1.2.1/qol/tests/testthat/test-import_export.R | 94 ++- qol-1.2.1/qol/tests/testthat/test-loading.R | 2 qol-1.2.1/qol/tests/testthat/test-macro.R |only qol-1.2.1/qol/tests/testthat/test-options.R | 51 + qol-1.2.1/qol/tests/testthat/test-recode.R | 421 +++++++-------- qol-1.2.1/qol/tests/testthat/test-retain.R | 164 +++--- qol-1.2.1/qol/tests/testthat/test-small_helpers.R | 15 qol-1.2.1/qol/tests/testthat/test-strings.R |only qol-1.2.1/qol/tests/testthat/test-summarise_plus.R | 155 ++++- 71 files changed, 3257 insertions(+), 1318 deletions(-)
Title: Evolutionary Diversity Metrics for Raster Data
Description: Phylogenetic Diversity (PD, Faith 1992), Evolutionary
Distinctiveness (ED, Isaac et al. 2007), Phylogenetic Endemism (PE,
Rosauer et al. 2009; Laffan et al. 2016), and Weighted Endemism (WE,
Laffan et al. 2016) for presence-absence raster. Faith, D. P. (1992)
<doi:10.1016/0006-3207(92)91201-3> Isaac, N. J. et al. (2007)
<doi:10.1371/journal.pone.0000296> Laffan, S. W. et al. (2016)
<doi:10.1111/2041-210X.12513> Rosauer, D. et al. (2009)
<doi:10.1111/j.1365-294X.2009.04311.x>.
Author: Gabriela Alves-Ferreira [aut, cre, cph] ,
Flavio M. M. Mota [aut] ,
Neander Marcel Heming [aut]
Maintainer: Gabriela Alves-Ferreira <gabriela-alves77@hotmail.com>
This is a re-admission after prior archival of version 2.2.0 dated 2025-02-28
Diff between phyloraster versions 2.2.0 dated 2025-02-28 and 2.3.0 dated 2026-02-11
DESCRIPTION | 18 - MD5 | 32 +-- NEWS.md | 12 - R/arg.check.R | 89 ++++---- R/geo.phylo.R | 2 R/rast.ed.ses.R | 2 README.md | 2 build/vignette.rds |binary inst/doc/phyloraster-vignette.R | 4 inst/doc/phyloraster-vignette.html | 54 ++--- man/shp2rast.Rd | 4 tests/testthat/test-delta-grid.R | 168 +++++++--------- tests/testthat/test-geo.phylo.R | 388 ++++++++++++++++++------------------- tests/testthat/test-rast-ed-ses.R | 244 +++++++++++------------ tests/testthat/test-rast.pd.ses.R | 242 +++++++++++------------ tests/testthat/test-rast.pe.ses.R | 206 +++++++++---------- tests/testthat/test-shp2rast.R | 208 +++++++++---------- 17 files changed, 834 insertions(+), 841 deletions(-)
Title: Biodiversity Data from the GBIF Node Network
Description: The Global Biodiversity Information Facility
('GBIF', <https://www.gbif.org>) sources data from an international network
of data providers, known as 'nodes'. Several of these nodes - the "living
atlases" (<https://living-atlases.gbif.org>) - maintain their own web
services using software originally developed by the Atlas of Living
Australia ('ALA', <https://www.ala.org.au>). 'galah' enables the R community
to directly access data and resources hosted by 'GBIF' and its partner nodes.
Author: Martin Westgate [aut, cre],
Dax Kellie [aut],
Shandiya Balasubramaniam [ctb],
Matilda Stevenson [ctb]
Maintainer: Martin Westgate <martin.westgate@csiro.au>
Diff between galah versions 2.1.2 dated 2025-06-12 and 2.2.0 dated 2026-02-11
galah-2.1.2/galah/R/arrange.R |only galah-2.1.2/galah/R/build.R |only galah-2.1.2/galah/R/build_checks.R |only galah-2.1.2/galah/R/build_query_set.R |only galah-2.1.2/galah/R/check_internal_cache.R |only galah-2.1.2/galah/R/collapse.R |only galah-2.1.2/galah/R/collapse_distributions.R |only galah-2.1.2/galah/R/collapse_media.R |only galah-2.1.2/galah/R/collapse_occurrences_count.R |only galah-2.1.2/galah/R/collapse_occurrences_doi.R |only galah-2.1.2/galah/R/collapse_species.R |only galah-2.1.2/galah/R/collapse_taxa.R |only galah-2.1.2/galah/R/collapse_unnest.R |only galah-2.1.2/galah/R/collect.R |only galah-2.1.2/galah/R/collect_unnest.R |only galah-2.1.2/galah/R/compute.R |only galah-2.1.2/galah/R/count-data_request.R |only galah-2.1.2/galah/R/parse_checks.R |only galah-2.1.2/galah/R/parse_metadata.R |only galah-2.1.2/galah/R/parse_metadata_unnest.R |only galah-2.1.2/galah/R/parse_occurrences_count.R |only galah-2.1.2/galah/R/parse_query.R |only galah-2.1.2/galah/R/parse_species_count.R |only galah-2.1.2/galah/R/quosure_handling.R |only galah-2.1.2/galah/R/slice_head.R |only galah-2.1.2/galah/R/tidyverse.R |only galah-2.1.2/galah/R/update_data_request.R |only galah-2.1.2/galah/R/utilities_occurrences.R |only galah-2.1.2/galah/inst/doc/choosing_an_atlas.R |only galah-2.1.2/galah/inst/doc/choosing_an_atlas.Rmd |only galah-2.1.2/galah/inst/doc/choosing_an_atlas.html |only galah-2.1.2/galah/inst/doc/download_data.Rmd |only galah-2.1.2/galah/inst/doc/download_data.html |only galah-2.1.2/galah/inst/doc/narrow_your_results.Rmd |only galah-2.1.2/galah/inst/doc/narrow_your_results.html |only galah-2.1.2/galah/inst/doc/object_oriented_programming.Rmd |only galah-2.1.2/galah/inst/doc/object_oriented_programming.html |only galah-2.1.2/galah/man/tidyverse_functions.Rd |only galah-2.1.2/galah/tests/testthat/test-count_arrange_slice.R |only galah-2.1.2/galah/tests/testthat/test-galah_filter.R |only galah-2.1.2/galah/tests/testthat/test-galah_select.R |only galah-2.1.2/galah/vignettes/atlas_stats.csv |only galah-2.1.2/galah/vignettes/choosing_an_atlas.Rmd |only galah-2.1.2/galah/vignettes/download_data.Rmd |only galah-2.1.2/galah/vignettes/narrow_your_results.Rmd |only galah-2.1.2/galah/vignettes/object_oriented_programming.Rmd |only galah-2.2.0/galah/DESCRIPTION | 23 galah-2.2.0/galah/MD5 | 347 ++--- galah-2.2.0/galah/NAMESPACE | 149 -- galah-2.2.0/galah/NEWS.md | 32 galah-2.2.0/galah/R/atlas_citation.R | 19 galah-2.2.0/galah/R/atlas_counts.R | 12 galah-2.2.0/galah/R/atlas_media.R | 134 -- galah-2.2.0/galah/R/atlas_occurrences.R | 7 galah-2.2.0/galah/R/atlas_species.R | 20 galah-2.2.0/galah/R/atlas_taxonomy.R | 105 - 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Title: Time Series Prediction with Integrated Tuning
Description: Time series prediction is a critical task in data analysis, requiring not only the selection of appropriate models, but also suitable data preprocessing and tuning strategies.
TSPredIT (Time Series Prediction with Integrated Tuning) is a framework that provides a seamless integration of data preprocessing, decomposition, model training, hyperparameter optimization, and evaluation.
Unlike other frameworks, TSPredIT emphasizes the co-optimization of both preprocessing and modeling steps, improving predictive performance.
It supports a variety of statistical and machine learning models, filtering techniques, outlier detection, data augmentation, and ensemble strategies.
More information is available in Salles et al. <doi:10.1007/978-3-662-68014-8_2>.
Author: Eduardo Ogasawara [aut, ths, cre] ,
Cristiane Gea [aut],
Diego Carvalho [ctb],
Diogo Santos [aut],
Eduardo Bezerra [ctb],
Esther Pacitti [ctb],
Fabio Porto [ctb],
Fernando Alexandrino [aut],
Rebecca Salles [aut],
Vitoria Birindiba [aut],
CEFET/RJ [cp [...truncated...]
Maintainer: Eduardo Ogasawara <eogasawara@ieee.org>
Diff between tspredit versions 1.2.747 dated 2025-10-27 and 1.2.767 dated 2026-02-11
DESCRIPTION | 6 +-- MD5 | 70 ++++++++++++++++++++++++++++++++++--------- NAMESPACE | 2 + R/data.R | 20 ------------ R/ts_arima.R | 2 + R/ts_elm.R | 2 + R/ts_knn.R | 2 + R/ts_mlp.R | 1 R/ts_reg.R | 1 R/ts_regsw.R | 3 + R/ts_rf.R | 2 + R/ts_svm.R | 2 + R/tspredbench.R |only R/tspredbench_loadfulldata.R |only README.md | 14 +++----- build |only data/CATS.RData |only data/EUNITE.Loads.RData |only data/EUNITE.Reg.RData |only data/EUNITE.Temp.RData |only data/NN3.RData |only data/NN5.RData |only data/SantaFe.A.RData |only data/SantaFe.D.RData |only data/bioenergy.RData |only data/climate.RData |only data/emissions.RData |only data/fertilizers.RData |binary data/gdp.RData |only data/ipeadata.d.RData |only data/ipeadata.m.RData |only data/m1.RData |only data/m3.RData |only data/m4.RData |only data/pesticides.RData |only data/stocks.RData |only man/CATS.Rd |only man/EUNITE.Loads.Rd |only man/EUNITE.Reg.Rd |only man/EUNITE.Temp.Rd |only man/NN3.Rd |only man/NN5.Rd |only man/SantaFe.A.Rd |only man/SantaFe.D.Rd |only man/bioenergy.Rd |only man/climate.Rd |only man/emissions.Rd |only man/fertilizers.Rd | 27 +++++++--------- man/gdp.Rd |only man/ipeadata.d.Rd |only man/ipeadata.m.Rd |only man/loadfulldata.Rd |only man/m1.Rd |only man/m3.Rd |only man/m4.Rd |only man/pesticides.Rd |only man/stocks.Rd |only 57 files changed, 94 insertions(+), 60 deletions(-)
Title: Utility Functions for Data Analysis and Visualization
Description: A comprehensive collection of utility functions for data analysis
and visualization in R. The package provides 60+ functions for data
manipulation, file handling, color palette management, bioinformatics
workflows, statistical analysis, plotting, and package management. Features include void value
handling, custom infix operators, flexible file I/O, and publication-ready
visualizations with sensible defaults. Implementation follows tidyverse
principles (Wickham et al. (2019) <doi:10.21105/joss.01686>) and incorporates
best practices from the R community.
Author: Evan Zhou [aut, cre]
Maintainer: Evan Zhou <evanzhou.bio@gmail.com>
Diff between evanverse versions 0.3.7 dated 2025-10-21 and 0.4.0 dated 2026-02-11
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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 0.15.2 dated 2025-12-21 and 0.16.0 dated 2026-02-11
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Title: Functions and Datasets Required for ST370 Class
Description: Provides functions and datasets required for the ST 370 course at North Carolina State University.
Author: Dennis D. Boos [aut],
Douglas Nychka [aut],
Dennis Boos [cre]
Maintainer: Dennis Boos <boos@ncsu.edu>
Diff between Rlab versions 4.0 dated 2022-05-04 and 4.5.1 dated 2026-02-11
DESCRIPTION | 22 +++++++++++++++++----- MD5 | 8 ++++---- man/Exponential.Rd | 2 +- man/Gamma.Rd | 2 +- man/college.Rd | 4 ++-- 5 files changed, 25 insertions(+), 13 deletions(-)
Title: Polytomous Variable Latent Class Analysis
Description: Latent class analysis and latent class regression models
for polytomous outcome variables. Also known as latent structure analysis.
Author: Drew Linzer [aut, cre],
Jeffrey Lewis [aut]
Maintainer: Drew Linzer <drew@votamatic.org>
Diff between poLCA versions 1.6.0.1 dated 2022-04-25 and 1.6.0.2 dated 2026-02-11
DESCRIPTION | 24 +++++++++++++++--------- MD5 | 12 ++++++------ README.md | 4 ++-- inst/CITATION | 10 ++++++---- man/carcinoma.Rd | 2 +- man/poLCA.Rd | 4 ++-- src/poLCA.c | 2 +- 7 files changed, 33 insertions(+), 25 deletions(-)
Title: Historical and Ahistorical Population Projection Matrix Analysis
Description: Complete analytical environment for the construction and analysis
of matrix population models and integral projection models.
Includes the ability to construct historical matrices, which are
2d matrices comprising 3 consecutive times of demographic
information. Estimates both raw and function-based forms of
historical and standard ahistorical matrices. It also estimates
function-based age-by-stage matrices and raw and function-based
Leslie matrices.
Author: Richard P. Shefferson [aut, cre] ,
Johan Ehrlen [aut]
Maintainer: Richard P. Shefferson <cdorm@g.ecc.u-tokyo.ac.jp>
Diff between lefko3 versions 6.7.1 dated 2026-01-31 and 6.7.2 dated 2026-02-11
DESCRIPTION | 8 +- MD5 | 28 ++++----- NEWS.md | 14 ++++ R/RcppExports.R | 28 ++++++++- R/matrixcreation.R | 30 +++++++--- man/arlefko2.Rd | 5 + man/bootstrap3.Rd | 8 ++ man/mpm_create.Rd | 6 ++ man/rlefko2.Rd | 5 + man/rlefko3.Rd | 5 + man/rleslie.Rd | 5 + src/DataManagement.cpp | 17 +++++ src/MatsNProj.cpp | 144 ++++++++++++++++++++++++++++++++++++------------- src/PopChar.cpp | 4 - src/RcppExports.cpp | 18 +++--- 15 files changed, 245 insertions(+), 80 deletions(-)
Title: Kaplan-Meier Plot with 'ggplot2'
Description: The function 'jskm()' creates publication quality Kaplan-Meier plot with at risk tables below. 'svyjskm()' provides plot for weighted Kaplan-Meier estimator.
Author: Jinseob Kim [aut, cre] ,
yoonkyoung Chun [aut],
Zarathu [cph, fnd],
sungho Choi [aut],
Mingu Jee [aut],
Wonbin Hahn [aut],
Taehong Kim [aut],
Sangho Oh [aut],
Sewon Lee [aut]
Maintainer: Jinseob Kim <jinseob2kim@gmail.com>
Diff between jskm versions 0.6.0 dated 2026-01-27 and 0.6.1 dated 2026-02-11
DESCRIPTION | 18 +++++++++++------- MD5 | 12 ++++++------ NEWS.md | 5 +++++ R/jskm.R | 6 +++--- R/svyjskm.R | 12 ++++++------ README.md | 16 ++++++++-------- inst/doc/jskm.html | 36 ++++++++++++++++++------------------ 7 files changed, 57 insertions(+), 48 deletions(-)
Title: Robust Estimation in the Presence of Cellwise and Casewise
Contamination and Missing Data
Description: Robust Estimation of Multivariate Location and Scatter in the
Presence of Cellwise and Casewise Contamination and Missing Data.
Author: Andy Leung [aut],
Mike Danilov [aut],
Victor Yohai [aut],
Ruben Zamar [aut],
Claudio Agostinelli [cre]
Maintainer: Claudio Agostinelli <claudio.agostinelli@unitn.it>
Diff between GSE versions 4.2-3 dated 2025-10-10 and 4.2-4 dated 2026-02-11
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- src/Makevars | 2 +- src/Makevars.win | 2 +- src/cov-em.cpp | 2 ++ src/cov-em.h | 4 ++-- src/emve.cpp | 11 ++++++----- src/emve.h | 4 ++-- src/gse-rocke.cpp | 22 +++++++++++----------- src/gse.cpp | 16 ++++++++-------- 10 files changed, 46 insertions(+), 43 deletions(-)
Title: Tools for the Analysis of Epidemiological Data
Description: Tools for the analysis of epidemiological and surveillance data. Contains functions for directly and indirectly adjusting measures of disease frequency, quantifying measures of association on the basis of single or multiple strata of count data presented in a contingency table, computation of confidence intervals around incidence risk and incidence rate estimates and sample size calculations for cross-sectional, case-control and cohort studies. Surveillance tools include functions to calculate an appropriate sample size for 1- and 2-stage representative freedom surveys, functions to estimate surveillance system sensitivity and functions to support scenario tree modelling analyses.
Author: Mark Stevenson [aut, cre] ,
Evan Sergeant [aut],
Cord Heuer [ctb],
Telmo Nunes [ctb],
Cord Heuer [ctb],
Jonathon Marshall [ctb],
Javier Sanchez [ctb],
Ron Thornton [ctb],
Jeno Reiczigel [ctb],
Jim Robison-Cox [ctb],
Paola Sebastiani [ctb],
Peter Soly [...truncated...]
Maintainer: Mark Stevenson <mark.stevenson1@unimelb.edu.au>
Diff between epiR versions 2.0.89 dated 2025-12-15 and 2.0.90 dated 2026-02-11
DESCRIPTION | 10 +++++----- MD5 | 20 +++++++++++--------- NAMESPACE | 4 +++- NEWS | 7 +++++++ R/epi.evalue.R |only build/vignette.rds |binary inst/doc/epiR_descriptive_epi.html | 18 +++++++++--------- inst/doc/epiR_diagnostic_tests.html | 20 ++++++++++---------- inst/doc/epiR_measures_of_assoc.html | 12 ++++++------ inst/doc/epiR_sample_size.html | 4 ++-- inst/doc/epiR_surveillance.html | 14 +++++++------- man/epi.evalue.Rd |only 12 files changed, 60 insertions(+), 49 deletions(-)
Title: Data Table Back-End for 'dplyr'
Description: Provides a data.table backend for 'dplyr'. The goal of
'dtplyr' is to allow you to write 'dplyr' code that is automatically
translated to the equivalent, but usually much faster, data.table
code.
Author: Hadley Wickham [cre, aut],
Maximilian Girlich [aut],
Mark Fairbanks [aut],
Ryan Dickerson [aut],
Posit Software, PBC [cph, fnd]
Maintainer: Hadley Wickham <hadley@posit.co>
Diff between dtplyr versions 1.3.2 dated 2025-09-10 and 1.3.3 dated 2026-02-11
dtplyr-1.3.2/dtplyr/tests/testthat/_snaps/step-group.md |only dtplyr-1.3.3/dtplyr/DESCRIPTION | 8 +-- dtplyr-1.3.3/dtplyr/MD5 | 33 +++++++------- dtplyr-1.3.3/dtplyr/NEWS.md | 4 + dtplyr-1.3.3/dtplyr/README.md | 4 - dtplyr-1.3.3/dtplyr/build/vignette.rds |binary dtplyr-1.3.3/dtplyr/inst/doc/translation.Rmd | 2 dtplyr-1.3.3/dtplyr/inst/doc/translation.html | 8 +-- dtplyr-1.3.3/dtplyr/man/expand.dtplyr_step.Rd | 18 +------- dtplyr-1.3.3/dtplyr/man/filter.dtplyr_step.Rd | 13 ++--- dtplyr-1.3.3/dtplyr/man/group_by.dtplyr_step.Rd | 8 +-- dtplyr-1.3.3/dtplyr/man/mutate.dtplyr_step.Rd | 4 - dtplyr-1.3.3/dtplyr/man/pivot_longer.dtplyr_step.Rd | 2 dtplyr-1.3.3/dtplyr/man/reframe.dtplyr_step.Rd | 4 - dtplyr-1.3.3/dtplyr/man/slice.dtplyr_step.Rd | 4 - dtplyr-1.3.3/dtplyr/man/summarise.dtplyr_step.Rd | 36 +++++----------- dtplyr-1.3.3/dtplyr/tests/testthat/test-step-group.R | 4 - dtplyr-1.3.3/dtplyr/vignettes/translation.Rmd | 2 18 files changed, 61 insertions(+), 93 deletions(-)
Title: Generate 'CodeMeta' Metadata for R Packages
Description: The 'Codemeta' Project defines a 'JSON-LD' format
for describing software metadata, as detailed at
<https://codemeta.github.io>. This package provides utilities to
generate, parse, and modify 'codemeta.json' files automatically for R
packages, as well as tools and examples for working with
'codemeta.json' 'JSON-LD' more generally.
Author: Carl Boettiger [aut, cre, cph] ,
Anna Krystalli [rev, ctb] ,
Toph Allen [rev] ,
Maelle Salmon [ctb, aut] ,
rOpenSci [fnd] ,
Katrin Leinweber [ctb] ,
Noam Ross [ctb] ,
Arfon Smith [ctb],
Jeroen Ooms [ctb] ,
Sebastian Meyer [ctb] ,
Michael Rustler [ctb [...truncated...]
Maintainer: Carl Boettiger <cboettig@gmail.com>
Diff between codemetar versions 0.3.6 dated 2025-07-28 and 0.3.7 dated 2026-02-11
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 4 +++- build/vignette.rds |binary inst/doc/codemetar.html | 4 ++-- tests/testthat/test-give_opinions.R | 29 +++++++++++++++++++++-------- 6 files changed, 34 insertions(+), 19 deletions(-)
Title: Binned Data Analysis
Description: Algorithms developed for binned data analysis,
gene expression data analysis and
measurement error models for ordinal data analysis.
Author: Bin Wang [aut, cre]
Maintainer: Bin Wang <bwang831@gmail.com>
Diff between bda versions 19.0.0 dated 2025-08-27 and 19.1.3 dated 2026-02-10
bda-19.0.0/bda/R/blinding.R |only bda-19.1.3/bda/DESCRIPTION | 10 +++++----- bda-19.1.3/bda/MD5 | 13 ++++++++----- bda-19.1.3/bda/NAMESPACE | 4 +++- bda-19.1.3/bda/R/blindingEST.R |only bda-19.1.3/bda/R/blindingTEST.R |only bda-19.1.3/bda/man/blinding.Rd | 27 +++++++++++++++++---------- bda-19.1.3/bda/man/blindingBI.Rd |only bda-19.1.3/bda/src/cpe.c |only bda-19.1.3/bda/src/init.c | 8 ++++++++ 10 files changed, 41 insertions(+), 21 deletions(-)
Title: A Unified Time Series Event Detection Framework
Description: By analyzing time series, it is possible to observe significant changes in the behavior of observations that frequently characterize events. Events present themselves as anomalies, change points, or motifs. In the literature, there are several methods for detecting events. However, searching for a suitable time series method is a complex task, especially considering that the nature of events is often unknown. This work presents Harbinger, a framework for integrating and analyzing event detection methods. Harbinger contains several state-of-the-art methods described in Salles et al. (2020) <doi:10.5753/sbbd.2020.13626>.
Author: Eduardo Ogasawara [aut, ths, cre] ,
Antonio Castro [aut],
Antonio Mello [aut],
Diego Carvalho [ctb],
Eduardo Bezerra [ctb],
Ellen Paixao [aut],
Fernando Fraga [aut],
Heraldo Borges [aut],
Janio Lima [aut],
Jessica Souza [aut],
Lais Baroni [aut],
Luca [...truncated...]
Maintainer: Eduardo Ogasawara <eogasawara@ieee.org>
Diff between harbinger versions 1.2.747 dated 2025-10-27 and 1.2.767 dated 2026-02-10
DESCRIPTION | 6 LICENSE | 4 MD5 | 254 ++++++++++++++++++----------- NAMESPACE | 297 +++++++++++++++++----------------- R/data.R | 6 R/globals.R | 4 R/han_autoencoder.R | 130 +++++++-------- R/hanc_ml.R | 36 ++-- R/hanct_dtw.R | 108 ++++++------ R/hanct_kmeans.R | 86 +++++----- R/hanr_arima.R | 88 +++++----- R/hanr_emd.R | 62 +++---- R/hanr_fbiad.R | 52 +++--- R/hanr_fft.R | 50 ++--- R/hanr_fft_amoc.R | 100 +++++------ R/hanr_fft_amoc_cusum.R | 150 ++++++++--------- R/hanr_fft_binseg.R | 102 +++++------ R/hanr_fft_binseg_cusum.R | 150 ++++++++--------- R/hanr_fft_sma.R | 170 +++++++++---------- R/hanr_garch.R | 36 ++-- R/hanr_hist.R | 60 +++---- R/hanr_ml.R | 34 +-- R/hanr_remd.R | 144 ++++++++-------- R/hanr_rtad.R | 274 ++++++++++++++++---------------- R/hanr_wavelet.R | 26 +-- R/har_ensemble.R | 166 +++++++++---------- R/har_eval.R | 102 +++++------ R/har_eval_soft.R | 298 ++++++++++++++++++----------------- R/har_plot.R | 160 +++++++++--------- R/harbinger.R | 42 ++-- R/harbinger_utils.R | 126 +++++++------- R/hcp_amoc.R | 10 - R/hcp_binseg.R | 12 - R/hcp_cf_arima.R | 92 +++++----- R/hcp_cf_ets.R | 72 ++++---- R/hcp_cf_lr.R | 60 +++---- R/hcp_chow.R | 46 ++--- R/hcp_garch.R | 106 ++++++------ R/hcp_gft.R | 46 ++--- R/hcp_pelt.R | 10 - R/hcp_scp.R | 92 +++++----- R/hdis_mp.R | 54 +++--- R/hdis_sax.R | 198 +++++++++++------------ R/hmo_mp.R | 54 +++--- R/hmo_sax.R | 146 ++++++++--------- R/hmo_xsax.R | 152 ++++++++--------- R/hmu_pca.R | 20 +- R/mas.R | 74 ++++---- R/trans_sax.R | 72 ++++---- R/trans_xsax.R | 72 ++++---- R/united.R |only R/united_loadfulldata.R |only README.md | 218 ++++++++++++------------- build |only data/A1Benchmark.RData |only data/A2Benchmark.RData |only data/A3Benchmark.RData |only data/A4Benchmark.RData |only data/gecco.RData |only data/mit_bih_MLII.RData |only data/mit_bih_V1.RData |only data/mit_bih_V2.RData |only data/mit_bih_V5.RData |only data/nab_artificialWithAnomaly.RData |only data/nab_realAWSCloudwatch.RData |only data/nab_realAdExchange.RData |only data/nab_realKnownCause.RData |only data/nab_realTraffic.RData |only data/nab_realTweets.RData |only data/oil_3w_Type_1.RData |only data/oil_3w_Type_2.RData |only data/oil_3w_Type_4.RData |only data/oil_3w_Type_5.RData |only data/oil_3w_Type_6.RData |only data/oil_3w_Type_7.RData |only data/oil_3w_Type_8.RData |only data/ucr_ecg.RData |only data/ucr_int_bleeding.RData |only data/ucr_nasa.RData |only data/ucr_power_demand.RData |only man/A1Benchmark.Rd |only man/A2Benchmark.Rd |only man/A3Benchmark.Rd |only man/A4Benchmark.Rd |only man/detect.Rd | 52 +++--- man/examples_anomalies.Rd | 82 ++++----- man/examples_changepoints.Rd | 78 ++++----- man/examples_harbinger.Rd | 80 ++++----- man/examples_motifs.Rd | 74 ++++---- man/gecco.Rd |only man/han_autoencoder.Rd | 108 ++++++------ man/hanc_ml.Rd | 130 +++++++-------- man/hanct_dtw.Rd | 104 ++++++------ man/hanct_kmeans.Rd | 104 ++++++------ man/hanr_arima.Rd | 98 +++++------ man/hanr_emd.Rd | 98 +++++------ man/hanr_fbiad.Rd | 98 +++++------ man/hanr_fft.Rd | 102 +++++------ man/hanr_fft_amoc.Rd | 112 ++++++------- man/hanr_fft_amoc_cusum.Rd | 108 ++++++------ man/hanr_fft_binseg.Rd | 116 ++++++------- man/hanr_fft_binseg_cusum.Rd | 124 +++++++------- man/hanr_fft_sma.Rd | 112 ++++++------- man/hanr_garch.Rd | 100 +++++------ man/hanr_histogram.Rd | 96 +++++------ man/hanr_ml.Rd | 110 ++++++------ man/hanr_remd.Rd | 104 ++++++------ man/hanr_rtad.Rd | 110 ++++++------ man/hanr_wavelet.Rd | 102 +++++------ man/har_ensemble.Rd | 96 +++++------ man/har_eval.Rd | 106 ++++++------ man/har_eval_soft.Rd | 112 ++++++------- man/har_plot.Rd | 172 ++++++++++---------- man/harbinger.Rd | 76 ++++---- man/harutils.Rd | 100 +++++------ man/hcp_amoc.Rd | 100 +++++------ man/hcp_binseg.Rd | 104 ++++++------ man/hcp_cf_arima.Rd | 96 +++++------ man/hcp_cf_ets.Rd | 84 ++++----- man/hcp_cf_lr.Rd | 84 ++++----- man/hcp_chow.Rd | 76 ++++---- man/hcp_garch.Rd | 94 +++++------ man/hcp_gft.Rd | 92 +++++----- man/hcp_pelt.Rd | 98 +++++------ man/hcp_scp.Rd | 92 +++++----- man/hdis_mp.Rd | 106 ++++++------ man/hdis_sax.Rd | 100 +++++------ man/hmo_mp.Rd | 106 ++++++------ man/hmo_sax.Rd | 104 ++++++------ man/hmo_xsax.Rd | 102 +++++------ man/hmu_pca.Rd | 102 +++++------ man/loadfulldata.Rd |only man/mas.Rd | 98 +++++------ man/mit_bih_MLII.Rd |only man/mit_bih_V1.Rd |only man/mit_bih_V2.Rd |only man/mit_bih_V5.Rd |only man/nab_artificialWithAnomaly.Rd |only man/nab_realAWSCloudwatch.Rd |only man/nab_realAdExchange.Rd |only man/nab_realKnownCause.Rd |only man/nab_realTraffic.Rd |only man/nab_realTweets.Rd |only man/oil_3w_Type_1.Rd |only man/oil_3w_Type_2.Rd |only man/oil_3w_Type_4.Rd |only man/oil_3w_Type_5.Rd |only man/oil_3w_Type_6.Rd |only man/oil_3w_Type_7.Rd |only man/oil_3w_Type_8.Rd |only man/trans_sax.Rd | 66 +++---- man/trans_xsax.Rd | 72 ++++---- man/ucr_ecg.Rd |only man/ucr_int_bleeding.Rd |only man/ucr_nasa.Rd |only man/ucr_power_demand.Rd |only 156 files changed, 4924 insertions(+), 4845 deletions(-)
Title: Post-Estimation Utilities for 'lavaan' Fitted Models
Description: Companion toolbox for structural equation models fitted with 'lavaan'. Provides post-estimation diagnostics and graphics that operate directly on a fitted object using its estimates and covariance, and refits auxiliary models when needed. The package relies on 'lavaan' (Rosseel, 2012) <doi:10.18637/jss.v048.i02>.
Author: Giuseppe Corbelli [aut, cre]
Maintainer: Giuseppe Corbelli <giuseppe.corbelli@uninettunouniversity.net>
Diff between lavinteract versions 0.3.5 dated 2026-01-21 and 0.4.5 dated 2026-02-10
DESCRIPTION | 6 +++--- MD5 | 14 ++++++++------ NAMESPACE | 3 +++ NEWS.md | 5 ++++- R/lav_fdr.R |only R/lavinteract-package.R | 3 ++- inst/WORDLIST | 5 +++++ man/lav_fdr.Rd |only man/lavinteract.Rd | 3 +++ 9 files changed, 28 insertions(+), 11 deletions(-)
Title: Ordinal Relations
Description: Functions to handle ordinal relations reflected within the feature space. Those function allow to search for ordinal relations in multi-class datasets. One can check whether proposed relations are reflected in a specific feature representation. Furthermore, it provides functions to filter, organize and further analyze those ordinal relations.
Author: L Lausser [aut],
LM Schaefer [aut],
R Szekely [aut],
HA Kestler [aut, cre]
Maintainer: HA Kestler <hans.kestler@uni-ulm.de>
Diff between ORION versions 1.0.4 dated 2025-09-27 and 1.1.0 dated 2026-02-10
ORION-1.0.4/ORION/NEWS.md |only ORION-1.1.0/ORION/DESCRIPTION | 11 - ORION-1.1.0/ORION/MD5 | 27 ++- ORION-1.1.0/ORION/NAMESPACE | 8 + ORION-1.1.0/ORION/R/dataProjection1D.R |only ORION-1.1.0/ORION/R/defineGraphStructure.R |only ORION-1.1.0/ORION/R/generateGraphs.R |only ORION-1.1.0/ORION/R/predictionMap.R | 225 ++++++++++++++--------------- ORION-1.1.0/ORION/R/subcascades.R | 20 -- ORION-1.1.0/ORION/R/trainers.R |only ORION-1.1.0/ORION/R/validateFolds.R |only ORION-1.1.0/ORION/inst/doc/ORION.html | 10 - ORION-1.1.0/ORION/inst/extdata |only ORION-1.1.0/ORION/man/generateGraphs.Rd |only ORION-1.1.0/ORION/man/predictionMap.Rd | 27 ++- ORION-1.1.0/ORION/man/projectData.Rd |only ORION-1.1.0/ORION/tests |only 17 files changed, 179 insertions(+), 149 deletions(-)
Title: Seeking and Finding Clones in Copy Number and Sequencing Data
Description: Defines the classes and functions used to simulate and
to analyze data sets describing copy number variants and,
optionally, sequencing mutations in order to detect clonal subsets.
See Zucker et al. (2019) <doi:10.1093/bioinformatics/btz057>.
Author: Mark Zucker [aut],
Kevin R. Coombes [aut, cre]
Maintainer: Kevin R. Coombes <krc@silicovore.com>
Diff between CloneSeeker versions 1.0.13 dated 2025-04-08 and 1.0.16 dated 2026-02-10
DESCRIPTION | 8 ++--- MD5 | 16 +++++------ R/sysdata.rda |binary build/vignette.rds |binary inst/doc/CloneSeeker.pdf |binary tests/test03-simulate.R | 25 +++++++++++++---- tests/test03-simulate.Rout.save | 55 ++++++++++++++++++++++++--------------- tests/test04-algorithm.R | 30 +++++++++++++++++---- tests/test04-algorithm.Rout.save | 40 +++++++++++++++++++++------- 9 files changed, 120 insertions(+), 54 deletions(-)
Title: Cohort Generation for the OMOP Common Data Model
Description: Generate cohorts and subsets using an Observational
Medical Outcomes Partnership (OMOP) Common Data Model (CDM) Database.
Cohorts are defined using 'CIRCE' (<https://github.com/ohdsi/circe-be>) or
SQL compatible with 'SqlRender' (<https://github.com/OHDSI/SqlRender>).
Author: Anthony Sena [aut, cre],
Jamie Gilbert [aut],
Gowtham Rao [aut],
Freddy Avila Cruz [aut],
Martijn Schuemie [aut],
Observational Health Data Science and Informatics [cph]
Maintainer: Anthony Sena <sena@ohdsi.org>
Diff between CohortGenerator versions 1.0.1 dated 2025-11-17 and 1.0.2 dated 2026-02-10
CohortGenerator-1.0.1/CohortGenerator/tests/testthat/errorReportSql.txt |only CohortGenerator-1.0.2/CohortGenerator/DESCRIPTION | 8 CohortGenerator-1.0.2/CohortGenerator/MD5 | 81 ++++------ CohortGenerator-1.0.2/CohortGenerator/NEWS.md | 10 + CohortGenerator-1.0.2/CohortGenerator/R/CohortConstruction.R | 4 CohortGenerator-1.0.2/CohortGenerator/R/CohortCount.R | 2 CohortGenerator-1.0.2/CohortGenerator/R/CohortDefinitionSet.R | 2 CohortGenerator-1.0.2/CohortGenerator/R/CohortGenerator.R | 2 CohortGenerator-1.0.2/CohortGenerator/R/CohortSample.R | 2 CohortGenerator-1.0.2/CohortGenerator/R/CohortStats.R | 2 CohortGenerator-1.0.2/CohortGenerator/R/CohortTables.R | 2 CohortGenerator-1.0.2/CohortGenerator/R/CsvHelper.R | 2 CohortGenerator-1.0.2/CohortGenerator/R/Export.R | 18 ++ CohortGenerator-1.0.2/CohortGenerator/R/Incremental.R | 2 CohortGenerator-1.0.2/CohortGenerator/R/NegativeControlCohorts.R | 2 CohortGenerator-1.0.2/CohortGenerator/R/ResultsDataModel.R | 2 CohortGenerator-1.0.2/CohortGenerator/R/RunCohortGeneration.R | 2 CohortGenerator-1.0.2/CohortGenerator/R/SubsetDefinitions.R | 14 - CohortGenerator-1.0.2/CohortGenerator/R/SubsetQueryBuilders.R | 4 CohortGenerator-1.0.2/CohortGenerator/R/SubsetRecipeFunctions.R | 15 + CohortGenerator-1.0.2/CohortGenerator/R/Subsets.R | 43 ++--- CohortGenerator-1.0.2/CohortGenerator/R/TemplateCohorts.R | 2 CohortGenerator-1.0.2/CohortGenerator/R/TemplateImplementations.R | 2 CohortGenerator-1.0.2/CohortGenerator/R/TemplateUnion.R | 2 CohortGenerator-1.0.2/CohortGenerator/R/ValidateCohort.R | 2 CohortGenerator-1.0.2/CohortGenerator/README.md | 2 CohortGenerator-1.0.2/CohortGenerator/inst/doc/CreatingCohortSubsetDefinitions.Rmd | 2 CohortGenerator-1.0.2/CohortGenerator/inst/doc/CreatingCohortSubsetDefinitions.html | 6 CohortGenerator-1.0.2/CohortGenerator/inst/doc/GeneratingCohorts.R | 2 CohortGenerator-1.0.2/CohortGenerator/inst/doc/GeneratingCohorts.Rmd | 4 CohortGenerator-1.0.2/CohortGenerator/inst/doc/GeneratingCohorts.pdf |binary CohortGenerator-1.0.2/CohortGenerator/inst/doc/SamplingCohorts.pdf |binary CohortGenerator-1.0.2/CohortGenerator/inst/doc/UsingTemplateCohorts.Rmd | 4 CohortGenerator-1.0.2/CohortGenerator/inst/doc/UsingTemplateCohorts.html | 10 - CohortGenerator-1.0.2/CohortGenerator/inst/testdata/Results_Eunomia.zip |binary CohortGenerator-1.0.2/CohortGenerator/man/generateCohortSet.Rd | 2 CohortGenerator-1.0.2/CohortGenerator/man/sampleCohortDefinitionSet.Rd | 2 CohortGenerator-1.0.2/CohortGenerator/tests/testthat/test-Export.R | 34 ++++ CohortGenerator-1.0.2/CohortGenerator/tests/testthat/test-Subsets.R | 61 +++++++ CohortGenerator-1.0.2/CohortGenerator/vignettes/CreatingCohortSubsetDefinitions.Rmd | 2 CohortGenerator-1.0.2/CohortGenerator/vignettes/GeneratingCohorts.Rmd | 4 CohortGenerator-1.0.2/CohortGenerator/vignettes/UsingTemplateCohorts.Rmd | 4 42 files changed, 248 insertions(+), 118 deletions(-)
More information about CohortGenerator at CRAN
Permanent link
Title: Analyzes Real-World Treatment Patterns of a Study Population of
Interest
Description: Computes treatment patterns within a given cohort using the Observational
Medical Outcomes Partnership (OMOP) common data model (CDM). As described
in Markus, Verhamme, Kors, and Rijnbeek (2022) <doi:10.1016/j.cmpb.2022.107081>.
Author: Aniek Markus [aut] ,
Maarten van Kessel [cre]
Maintainer: Maarten van Kessel <m.l.vankessel@erasmusmc.nl>
Diff between TreatmentPatterns versions 3.1.1 dated 2025-08-25 and 3.1.2 dated 2026-02-10
TreatmentPatterns-3.1.1/TreatmentPatterns/inst/doc/a999_Strategus.R |only TreatmentPatterns-3.1.1/TreatmentPatterns/inst/doc/a999_Strategus.Rmd |only TreatmentPatterns-3.1.1/TreatmentPatterns/inst/doc/a999_Strategus.html |only TreatmentPatterns-3.1.1/TreatmentPatterns/inst/sql |only TreatmentPatterns-3.1.1/TreatmentPatterns/vignettes/a999_Strategus.Rmd |only TreatmentPatterns-3.1.2/TreatmentPatterns/DESCRIPTION | 19 TreatmentPatterns-3.1.2/TreatmentPatterns/MD5 | 100 - TreatmentPatterns-3.1.2/TreatmentPatterns/NAMESPACE | 6 TreatmentPatterns-3.1.2/TreatmentPatterns/NEWS.md | 14 TreatmentPatterns-3.1.2/TreatmentPatterns/R/CDMInterface.R | 531 ++------ TreatmentPatterns-3.1.2/TreatmentPatterns/R/TreatmentPatterns-package.R | 12 TreatmentPatterns-3.1.2/TreatmentPatterns/R/computePathways.R | 33 TreatmentPatterns-3.1.2/TreatmentPatterns/R/constructPathways.R | 248 +++ TreatmentPatterns-3.1.2/TreatmentPatterns/R/createSankeyDiagram.R | 25 TreatmentPatterns-3.1.2/TreatmentPatterns/R/createSunburstPlot.R | 8 TreatmentPatterns-3.1.2/TreatmentPatterns/R/export.R | 7 TreatmentPatterns-3.1.2/TreatmentPatterns/R/ggSunburst.R | 10 TreatmentPatterns-3.1.2/TreatmentPatterns/R/plotEventDuration.R | 7 TreatmentPatterns-3.1.2/TreatmentPatterns/R/utils.R |only TreatmentPatterns-3.1.2/TreatmentPatterns/build/vignette.rds |binary TreatmentPatterns-3.1.2/TreatmentPatterns/inst/doc/a000_bestPractices.R | 100 - TreatmentPatterns-3.1.2/TreatmentPatterns/inst/doc/a001_DefiningCohorts.R | 38 TreatmentPatterns-3.1.2/TreatmentPatterns/inst/doc/a001_DefiningCohorts.html | 16 TreatmentPatterns-3.1.2/TreatmentPatterns/inst/doc/a010_Computing_Pathways.R | 224 +-- TreatmentPatterns-3.1.2/TreatmentPatterns/inst/doc/a010_Computing_Pathways.html | 18 TreatmentPatterns-3.1.2/TreatmentPatterns/inst/doc/a020_Exporting.R | 84 - TreatmentPatterns-3.1.2/TreatmentPatterns/inst/doc/a030_Evaluating_Output.html | 62 TreatmentPatterns-3.1.2/TreatmentPatterns/inst/doc/a998_Strategus.R |only TreatmentPatterns-3.1.2/TreatmentPatterns/inst/doc/a998_Strategus.Rmd |only TreatmentPatterns-3.1.2/TreatmentPatterns/inst/doc/a998_Strategus.html |only TreatmentPatterns-3.1.2/TreatmentPatterns/inst/doc/a999_Publications-Presentations.R |only TreatmentPatterns-3.1.2/TreatmentPatterns/inst/doc/a999_Publications-Presentations.Rmd |only TreatmentPatterns-3.1.2/TreatmentPatterns/inst/doc/a999_Publications-Presentations.html |only TreatmentPatterns-3.1.2/TreatmentPatterns/man/createSankeyDiagram.Rd | 4 TreatmentPatterns-3.1.2/TreatmentPatterns/man/createSunburstPlot.Rd | 4 TreatmentPatterns-3.1.2/TreatmentPatterns/man/doEraCollapseNew.Rd |only TreatmentPatterns-3.1.2/TreatmentPatterns/man/ggSunburst.Rd | 4 TreatmentPatterns-3.1.2/TreatmentPatterns/tests/testthat/helper-ableToRun.R | 20 TreatmentPatterns-3.1.2/TreatmentPatterns/tests/testthat/helper-generateCohortTableCDMC.R | 2 TreatmentPatterns-3.1.2/TreatmentPatterns/tests/testthat/helper-generateCohortTableCG.R | 5 TreatmentPatterns-3.1.2/TreatmentPatterns/tests/testthat/setup.R | 52 TreatmentPatterns-3.1.2/TreatmentPatterns/tests/testthat/test-CDMInterface.R | 180 +- TreatmentPatterns-3.1.2/TreatmentPatterns/tests/testthat/test-CDMInterfaceCDMC.R | 227 +-- TreatmentPatterns-3.1.2/TreatmentPatterns/tests/testthat/test-CDMInterfaceDBC.R | 264 +--- TreatmentPatterns-3.1.2/TreatmentPatterns/tests/testthat/test-CRAN.R | 10 TreatmentPatterns-3.1.2/TreatmentPatterns/tests/testthat/test-TreatmentPatternsResults.R | 13 TreatmentPatterns-3.1.2/TreatmentPatterns/tests/testthat/test-computePathways.R | 383 ++---- TreatmentPatterns-3.1.2/TreatmentPatterns/tests/testthat/test-createSankeyDiagram.R | 34 TreatmentPatterns-3.1.2/TreatmentPatterns/tests/testthat/test-createSunburstPlot.R | 13 TreatmentPatterns-3.1.2/TreatmentPatterns/tests/testthat/test-executeTreatmentPatterns.R | 42 TreatmentPatterns-3.1.2/TreatmentPatterns/tests/testthat/test-export.R | 636 ++++------ TreatmentPatterns-3.1.2/TreatmentPatterns/tests/testthat/test-exportPatientLevel.R | 1 TreatmentPatterns-3.1.2/TreatmentPatterns/tests/testthat/test-ggSunburst.R | 8 TreatmentPatterns-3.1.2/TreatmentPatterns/tests/testthat/test-multipleCohortTables.R | 70 + TreatmentPatterns-3.1.2/TreatmentPatterns/tests/testthat/test-pathwaysMultipleTargetsLogical.R | 4 TreatmentPatterns-3.1.2/TreatmentPatterns/tests/testthat/test-plotEventDuration.R | 8 TreatmentPatterns-3.1.2/TreatmentPatterns/vignettes/a998_Strategus.Rmd |only TreatmentPatterns-3.1.2/TreatmentPatterns/vignettes/a999_Publications-Presentations.Rmd |only 58 files changed, 1780 insertions(+), 1766 deletions(-)
More information about TreatmentPatterns at CRAN
Permanent link
Title: Perform Recursive Computations
Description: Mass rollup for a Bill of Materials is an example of a class of computations in which elements are arranged in a tree structure and some property of each element is a computed function of the corresponding values of its child elements. Leaf elements, i.e., those with no children, have values assigned. In many cases, the combining function is simple arithmetic sum; in other cases (e.g., mass properties), the combiner may involve other information such as the geometric relationship between parent and child, or statistical relations such as root-sum-of-squares (RSS). This package implements a general function for such problems. It is adapted to specific recursive computations by functional programming techniques; the caller passes a function as the update parameter to rollup() (or, at a lower level, passes functions as the get, set, combine, and override parameters to update_prop()) at runtime to specify the desired operations. The implementation relies on graph-theoretic algorithms from [...truncated...]
Author: James Steven Jenkins [aut, cre, cph]
Maintainer: James Steven Jenkins <sjenkins@studioj.us>
Diff between rollupTree versions 0.4.0 dated 2026-01-30 and 0.4.1 dated 2026-02-10
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NEWS.md | 6 ++++++ R/update_prop.R | 6 +++--- inst/doc/rollupTree.html | 2 +- man/df_get_row_by_id.Rd | 4 ++-- tests/testthat/test-update_prop.R | 6 ++++-- 7 files changed, 25 insertions(+), 17 deletions(-)
Title: Lyrics and Song Data for Taylor Swift's Discography
Description: A comprehensive resource for data on Taylor Swift songs. Data
is included for all officially released studio albums, extended plays
(EPs), and individual singles are included. Data comes from 'Genius'
(lyrics) and 'SoundStat' (song characteristics). Additional functions
are included for easily creating data visualizations with color
palettes inspired by Taylor Swift's album covers.
Author: W. Jake Thompson [aut, cre, cph]
Maintainer: W. Jake Thompson <wjakethompson@gmail.com>
Diff between taylor versions 3.2.0 dated 2025-01-07 and 4.0.0 dated 2026-02-10
DESCRIPTION | 24 MD5 | 310 NAMESPACE | 10 NEWS.md | 62 R/api-access.R |only R/data-checks.R | 182 R/data.R | 50 R/ggplot2-color-scales.R | 165 R/lyric-abbreviation.R | 110 R/misc.R | 9 R/palette.R | 21 R/sitrep.R |only R/taylor-album-palettes.R | 206 R/taylor-package.R | 1 README.md | 53 build/vignette.rds |binary data/taylor_album_songs.rda |binary data/taylor_albums.rda |binary data/taylor_all_songs.rda |binary inst/WORDLIST | 11 inst/doc/lyrics.R | 12 inst/doc/lyrics.Rmd | 12 inst/doc/lyrics.html | 20 inst/doc/palettes.R | 13 inst/doc/palettes.Rmd | 21 inst/doc/palettes.html | 116 inst/doc/plotting.R | 46 inst/doc/plotting.Rmd | 56 inst/doc/plotting.html | 83 inst/doc/taylor.R | 434 inst/doc/taylor.Rmd | 253 inst/doc/taylor.html | 234 man/album_levels.Rd | 13 man/album_palettes.Rd | 4 man/figures/logo.png |binary man/get_reccobeats_audio_features.Rd |only man/get_soundstat_audio_features.Rd |only man/get_spotify_track_info.Rd |only man/scale_taylor.Rd | 2 man/soundstat-api.Rd |only man/spotify-api.Rd |only man/taylor-package.Rd | 2 man/taylor_albums.Rd | 2 man/taylor_examples.Rd |only man/taylor_sitrep.Rd |only man/taylor_songs.Rd | 55 tests/spelling.R | 7 tests/testthat/_snaps/data-checks.md | 23 tests/testthat/_snaps/ggplot2-color-scales/1989-color-b.svg | 1 tests/testthat/_snaps/ggplot2-color-scales/1989-color-c.svg | 1 tests/testthat/_snaps/ggplot2-color-scales/1989-color-d.svg | 1 tests/testthat/_snaps/ggplot2-color-scales/1989-fill-b.svg |11250 +++++----- tests/testthat/_snaps/ggplot2-color-scales/1989-fill-c.svg | 520 tests/testthat/_snaps/ggplot2-color-scales/1989-fill-d.svg | 1 tests/testthat/_snaps/ggplot2-color-scales/1989-tv-color-b.svg | 1 tests/testthat/_snaps/ggplot2-color-scales/1989-tv-color-c.svg | 1 tests/testthat/_snaps/ggplot2-color-scales/1989-tv-color-d.svg | 1 tests/testthat/_snaps/ggplot2-color-scales/1989-tv-fill-b.svg |11250 +++++----- tests/testthat/_snaps/ggplot2-color-scales/1989-tv-fill-c.svg | 520 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tests/testthat/test-lyric-abbreviation.R | 25 tests/testthat/test-misc.R | 12 tests/testthat/test-palette.R | 95 tests/testthat/test-sitrep.R |only tests/testthat/test-taylor-album-palettes.R | 30 vignettes/lyrics.Rmd | 12 vignettes/palettes.Rmd | 21 vignettes/plotting.Rmd | 56 vignettes/taylor.Rmd | 253 168 files changed, 92375 insertions(+), 90182 deletions(-)
Title: Plot Data on Oceanographic Maps using 'ggplot2'
Description: Allows plotting data on bathymetric maps using 'ggplot2'. Plotting
oceanographic spatial data is made as simple as feasible, but also flexible
for custom modifications. Data that contain geographic information from
anywhere around the globe can be plotted on maps generated by the basemap()
or qmap() functions using 'ggplot2' layers separated by the '+' operator. The
package uses spatial shape- ('sf') and raster ('stars') files, geospatial
packages for R to manipulate, and the 'ggplot2' package to plot these
files. The package ships with low-resolution spatial data files and
higher resolution files for detailed maps are stored in the
'ggOceanMapsLargeData' repository on GitHub and downloaded automatically
when needed.
Author: Mikko Vihtakari [aut, cre] ,
Roger Bivand [ctb],
Hadley Wickham [ctb]
Maintainer: Mikko Vihtakari <mikko.vihtakari@hi.no>
Diff between ggOceanMaps versions 2.2.0 dated 2024-01-15 and 2.3.0 dated 2026-02-10
DESCRIPTION | 16 - MD5 | 32 +-- R/basemap.R | 397 +++++++++++++++++++++++++++++++---------------- R/basemap_data.R | 55 ++++++ R/clip_shapefile.R | 14 + R/get_depth.R | 6 R/internal_functions.R | 20 +- R/load_map_data.R | 63 ++++--- R/map_cmd.R | 55 ++---- R/raster_bathymetry.R | 8 R/shapefile_list.R | 16 + R/theme_map.R | 10 - R/vector_bathymetry.R | 2 build/partial.rdb |binary man/basemap.Rd | 32 +-- man/raster_bathymetry.Rd | 4 man/theme_map.Rd | 2 17 files changed, 473 insertions(+), 259 deletions(-)
Title: Functions and R Code to Accompany Derivatives Markets
Description: A set of pricing and expository functions that should
be useful in teaching a course on financial derivatives.
Author: Robert McDonald [aut, cre, cph]
Maintainer: Robert McDonald <rmcd1024@gmail.com>
Diff between derivmkts versions 0.2.5 dated 2022-04-11 and 0.2.5.1 dated 2026-02-10
DESCRIPTION | 13 +++++++------ MD5 | 21 ++++++++++++--------- NEWS.md | 8 ++++++++ R/barriers.R | 12 ++++++------ build/vignette.rds |binary inst/doc/derivmkts-vignette.R | 12 ++++++------ inst/doc/derivmkts-vignette.Rmd | 15 ++++++--------- inst/doc/derivmkts-vignette.pdf |binary man/barriers.Rd | 4 ++-- vignettes/compile-vignette.sh |only vignettes/derivmkts-vignette.Rmd | 15 ++++++--------- vignettes/derivmkts-vignette.html |only vignettes/vig-script.sh |only 13 files changed, 53 insertions(+), 47 deletions(-)
Title: Access 'Nomis' UK Labour Market Data and Statistics
Description: Interface to the 'Nomis' database (<https://www.nomisweb.co.uk>), maintained by Durham University on behalf of the Office for National Statistics (ONS). Provides access to UK labour market statistics including census data, benefit claimant counts, and employment surveys. Supports automatic pagination, optional disk caching, spatial data via 'sf', and tidy data output. Independent implementation unaffiliated with ONS or Durham University.
Author: Cheryl Isabella Lim [aut, cre]
Maintainer: Cheryl Isabella Lim <cheryl.academic@gmail.com>
Diff between nomisdata versions 0.1.1 dated 2025-11-26 and 0.1.2 dated 2026-02-10
DESCRIPTION | 11 - MD5 | 101 ++++++------ NAMESPACE | 76 ++++----- NEWS.md | 203 ++----------------------- R/auth.R | 1 R/cache_old.R | 2 R/client.R | 1 R/geography.R | 3 R/interactive.R | 2 README.md | 18 -- inst/codemeta.json |only man/add_geography_names.Rd | 50 +++--- man/aggregate_geography.Rd | 56 +++--- man/aggregate_time.Rd | 72 ++++---- man/browse_dataset.Rd | 50 +++--- man/build_request.Rd | 24 +- man/cache_data.Rd | 24 +- man/check_installed.Rd | 24 +- man/clear_cache.Rd | 62 +++---- man/dataset_overview.Rd | 50 +++--- man/describe_dataset.Rd | 46 ++--- man/enable_cache.Rd | 46 ++--- man/execute_request.Rd | 24 +- man/explore_dataset.Rd | 48 ++--- man/fetch_codelist.Rd | 54 +++--- man/fetch_nomis.Rd | 128 +++++++-------- man/fetch_spatial.Rd | 102 ++++++------ man/format_number.Rd | 24 +- man/get_cache_key.Rd | 24 +- man/get_cached_data.Rd | 24 +- man/get_codes.Rd | 72 ++++---- man/jsa_sample.Rd | 80 ++++----- man/lookup_geography.Rd | 58 +++---- man/nomisdata-package.Rd | 82 +++++----- man/parse_csv_response.Rd | 24 +- man/parse_json_response.Rd | 24 +- man/search_datasets.Rd | 76 ++++----- man/set_api_key.Rd | 52 +++--- man/tidy_names.Rd | 46 ++--- tests/testthat/test-aggregate.R | 306 +++++++++++++++++++++++++++++++++++++- tests/testthat/test-auth.R | 211 ++++++++++++++++++++++++-- tests/testthat/test-cache.R | 241 ++++++++++++++++++----------- tests/testthat/test-client.R | 162 ++++++++++++++++---- tests/testthat/test-discovery.R | 168 +++++++++++++++++--- tests/testthat/test-download.R | 164 ++++++++------------ tests/testthat/test-geography.R | 131 +++++++++++++--- tests/testthat/test-interactive.R | 95 +++++++++++ tests/testthat/test-metadata.R | 75 ++++----- tests/testthat/test-spatial.R | 65 -------- tests/testthat/test-transform.R | 243 ++++++++++++++++++++++++++++-- tests/testthat/test-utils.R | 178 +++++++++++++++++++++- tests/testthat/test-zzz.R | 171 ++++++++++++++++++++- 52 files changed, 2628 insertions(+), 1446 deletions(-)
Title: Indoor Positioning Fingerprinting Toolset
Description: Algorithms and utility functions for indoor positioning using fingerprinting techniques.
These functions are designed for manipulation of RSSI (Received Signal Strength Intensity) data
sets, estimation of positions,comparison of the performance of different models, and graphical
visualization of data. Machine learning algorithms and methods such as k-nearest neighbors or
probabilistic fingerprinting are implemented in this package to perform analysis
and estimations over RSSI data sets.
Author: Emilio Sansano [aut, cre],
Raul Montoliu [ctb]
Maintainer: Emilio Sansano <esansano@uji.es>
Diff between ipft versions 0.7.2 dated 2018-01-04 and 0.7.3 dated 2026-02-10
DESCRIPTION | 9 - MD5 | 22 +- NAMESPACE | 3 R/ipft.R | 312 ++++++++++++++++++++++---------------- man/ipfDistance.Rd | 5 man/ipfEstimate.Rd | 4 man/ipfEstimateBeaconPositions.Rd | 5 man/ipfPlotEcdf.Rd | 4 man/ipfPlotEstimation.Rd | 8 man/ipfPlotPdf.Rd | 4 man/ipfProbabilistic.Rd | 5 man/ipfRMID.Rd | 2 12 files changed, 223 insertions(+), 160 deletions(-)
Title: Interactive Grammar of Graphics
Description: An implementation of an interactive grammar of graphics,
taking the best parts of 'ggplot2', combining them with the reactive
framework of 'shiny' and drawing web graphics using 'vega'.
Author: Hadley Wickham [aut, cre],
Winston Chang [aut],
Posit [cph],
jQuery Foundation [cph] ,
jQuery contributors [ctb, cph] ,
jQuery UI contributors [ctb, cph] ,
Mike Bostock [ctb, cph] ,
D3 contributors [ctb] ,
Trifacta Inc. [cph] ,
Vega contributors [ctb [...truncated...]
Maintainer: Hadley Wickham <hadley@posit.co>
Diff between ggvis versions 0.4.9 dated 2024-02-05 and 0.4.10 dated 2026-02-10
ggvis-0.4.10/ggvis/DESCRIPTION | 8 ++++---- ggvis-0.4.10/ggvis/MD5 | 39 ++------------------------------------- ggvis-0.4.10/ggvis/NEWS.md | 4 ++++ ggvis-0.4.9/ggvis/demo |only 4 files changed, 10 insertions(+), 41 deletions(-)
Title: Extreme Gradient Boosting
Description: Extreme Gradient Boosting, which is an efficient implementation
of the gradient boosting framework from Chen & Guestrin (2016) <doi:10.1145/2939672.2939785>.
This package is its R interface. The package includes efficient linear
model solver and tree learning algorithms. The package can automatically
do parallel computation on a single machine which could be more than 10
times faster than existing gradient boosting packages. It supports
various objective functions, including regression, classification and ranking.
The package is made to be extensible, so that users are also allowed to define
their own objectives easily.
Author: Tianqi Chen [aut],
Tong He [aut],
Michael Benesty [aut],
Vadim Khotilovich [aut],
Yuan Tang [aut] ,
Hyunsu Cho [aut],
Kailong Chen [aut],
Rory Mitchell [aut],
Ignacio Cano [aut],
Tianyi Zhou [aut],
Mu Li [aut],
Junyuan Xie [aut],
Min Lin [aut],
Yifen [...truncated...]
Maintainer: Jiaming Yuan <jm.yuan@outlook.com>
Diff between xgboost versions 3.1.3.1 dated 2026-01-12 and 3.2.0.1 dated 2026-02-10
xgboost-3.1.3.1/xgboost/src/src/cli_main.cc |only xgboost-3.1.3.1/xgboost/src/src/common/config.h |only xgboost-3.1.3.1/xgboost/src/src/common/cuda_stream_pool.cuh |only xgboost-3.1.3.1/xgboost/src/src/data/validation.cc |only xgboost-3.1.3.1/xgboost/src/src/data/validation.cu |only xgboost-3.1.3.1/xgboost/src/src/data/validation.h |only xgboost-3.1.3.1/xgboost/src/src/tree/gpu_hist/gradient_based_sampler.cu |only xgboost-3.1.3.1/xgboost/src/src/tree/gpu_hist/gradient_based_sampler.cuh |only xgboost-3.2.0.1/xgboost/DESCRIPTION | 8 xgboost-3.2.0.1/xgboost/MD5 | 486 - xgboost-3.2.0.1/xgboost/R/xgb.DMatrix.R | 3 xgboost-3.2.0.1/xgboost/R/xgb.train.R | 20 xgboost-3.2.0.1/xgboost/R/xgboost.R | 2 xgboost-3.2.0.1/xgboost/build/vignette.rds |binary xgboost-3.2.0.1/xgboost/configure | 18 xgboost-3.2.0.1/xgboost/configure.ac | 2 xgboost-3.2.0.1/xgboost/inst/doc/xgboost_introduction.R | 2 xgboost-3.2.0.1/xgboost/inst/doc/xgboost_introduction.Rmd | 2 xgboost-3.2.0.1/xgboost/inst/doc/xgboost_introduction.html | 12 xgboost-3.2.0.1/xgboost/inst/doc/xgboostfromJSON.html | 162 xgboost-3.2.0.1/xgboost/man/xgb.params.Rd | 22 xgboost-3.2.0.1/xgboost/man/xgboost.Rd | 19 xgboost-3.2.0.1/xgboost/src/Makevars.in | 5 xgboost-3.2.0.1/xgboost/src/Makevars.win.in | 5 xgboost-3.2.0.1/xgboost/src/config.h | 4 xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/any.h | 201 xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/array_view.h | 39 xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/base.h | 200 xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/blockingconcurrentqueue.h | 1865 +++---- xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/build_config_default.h | 20 xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/common.h | 23 xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/concurrency.h | 82 xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/concurrentqueue.h | 2587 +++++----- xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/config.h | 45 xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/data.h | 100 xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/endian.h | 7 xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/filesystem.h | 40 xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/input_split_shuffle.h | 41 xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/io.h | 130 xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/json.h | 344 - xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/logging.h | 423 - xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/lua.h | 416 - xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/memory.h | 84 xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/memory_io.h | 29 xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/omp.h | 55 xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/optional.h | 144 xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/parameter.h | 374 - xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/recordio.h | 12 xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/registry.h | 88 xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/serializer.h | 242 xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/strtonum.h | 298 - xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/thread_group.h | 187 xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/thread_local.h | 15 xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/threadediter.h | 112 xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/timer.h | 18 xgboost-3.2.0.1/xgboost/src/dmlc-core/include/dmlc/type_traits.h | 50 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/config.cc | 116 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/data.cc | 222 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/data/basic_row_iter.h | 23 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/data/csv_parser.h | 81 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/data/disk_row_iter.h | 66 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/data/libfm_parser.h | 66 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/data/libsvm_parser.h | 73 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/data/parquet_parser.h | 66 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/data/parser.h | 44 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/data/row_block.h | 65 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/data/text_parser.h | 91 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/io.cc | 73 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/io/azure_filesys.cc | 38 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/io/azure_filesys.h | 11 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/io/cached_input_split.h | 108 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/io/filesys.cc | 11 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/io/hdfs_filesys.cc | 49 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/io/hdfs_filesys.h | 10 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/io/indexed_recordio_split.cc | 168 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/io/indexed_recordio_split.h | 37 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/io/input_split_base.cc | 125 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/io/input_split_base.h | 44 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/io/line_split.cc | 41 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/io/line_split.h | 17 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/io/local_filesys.cc | 106 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/io/local_filesys.h | 7 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/io/recordio_split.cc | 42 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/io/recordio_split.h | 20 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/io/s3_filesys.cc | 397 - xgboost-3.2.0.1/xgboost/src/dmlc-core/src/io/s3_filesys.h | 18 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/io/single_file_split.h | 74 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/io/single_threaded_input_split.h | 35 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/io/threaded_input_split.h | 42 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/io/uri_spec.h | 17 xgboost-3.2.0.1/xgboost/src/dmlc-core/src/recordio.cc | 64 xgboost-3.2.0.1/xgboost/src/include/xgboost/base.h | 50 xgboost-3.2.0.1/xgboost/src/include/xgboost/byteswap.h |only xgboost-3.2.0.1/xgboost/src/include/xgboost/c_api.h | 1172 ++-- xgboost-3.2.0.1/xgboost/src/include/xgboost/data.h | 98 xgboost-3.2.0.1/xgboost/src/include/xgboost/gbm.h | 9 xgboost-3.2.0.1/xgboost/src/include/xgboost/global_config.h | 4 xgboost-3.2.0.1/xgboost/src/include/xgboost/gradient.h |only xgboost-3.2.0.1/xgboost/src/include/xgboost/json.h | 6 xgboost-3.2.0.1/xgboost/src/include/xgboost/json_io.h | 33 xgboost-3.2.0.1/xgboost/src/include/xgboost/learner.h | 46 xgboost-3.2.0.1/xgboost/src/include/xgboost/linalg.h | 82 xgboost-3.2.0.1/xgboost/src/include/xgboost/multi_target_tree_model.h | 153 xgboost-3.2.0.1/xgboost/src/include/xgboost/objective.h | 2 xgboost-3.2.0.1/xgboost/src/include/xgboost/span.h | 8 xgboost-3.2.0.1/xgboost/src/include/xgboost/tree_model.h | 397 - xgboost-3.2.0.1/xgboost/src/include/xgboost/tree_updater.h | 96 xgboost-3.2.0.1/xgboost/src/include/xgboost/version_config.h | 4 xgboost-3.2.0.1/xgboost/src/src/CMakeLists.txt | 2 xgboost-3.2.0.1/xgboost/src/src/c_api/c_api.cc | 640 +- xgboost-3.2.0.1/xgboost/src/src/c_api/c_api.cu | 9 xgboost-3.2.0.1/xgboost/src/src/c_api/c_api_utils.h | 2 xgboost-3.2.0.1/xgboost/src/src/c_api/coll_c_api.cc | 12 xgboost-3.2.0.1/xgboost/src/src/collective/coll.cu | 60 xgboost-3.2.0.1/xgboost/src/src/collective/coll.cuh | 16 xgboost-3.2.0.1/xgboost/src/src/collective/comm.cu | 54 xgboost-3.2.0.1/xgboost/src/src/collective/comm.cuh | 14 xgboost-3.2.0.1/xgboost/src/src/collective/tracker.cc | 30 xgboost-3.2.0.1/xgboost/src/src/common/algorithm.cuh | 133 xgboost-3.2.0.1/xgboost/src/src/common/algorithm.h | 1 xgboost-3.2.0.1/xgboost/src/src/common/cache_manager.cc |only xgboost-3.2.0.1/xgboost/src/src/common/cache_manager.h |only xgboost-3.2.0.1/xgboost/src/src/common/common.h | 35 xgboost-3.2.0.1/xgboost/src/src/common/compressed_iterator.h | 186 xgboost-3.2.0.1/xgboost/src/src/common/cuda_context.cuh | 23 xgboost-3.2.0.1/xgboost/src/src/common/cuda_dr_utils.cc | 10 xgboost-3.2.0.1/xgboost/src/src/common/cuda_rt_utils.cc | 63 xgboost-3.2.0.1/xgboost/src/src/common/cuda_rt_utils.h | 19 xgboost-3.2.0.1/xgboost/src/src/common/cuda_stream.h |only xgboost-3.2.0.1/xgboost/src/src/common/cuda_stream_pool.h |only xgboost-3.2.0.1/xgboost/src/src/common/device_compression.cu | 43 xgboost-3.2.0.1/xgboost/src/src/common/device_compression.cuh | 11 xgboost-3.2.0.1/xgboost/src/src/common/device_debug.cuh |only xgboost-3.2.0.1/xgboost/src/src/common/device_helpers.cuh | 180 xgboost-3.2.0.1/xgboost/src/src/common/device_vector.cu | 7 xgboost-3.2.0.1/xgboost/src/src/common/device_vector.cuh | 299 - xgboost-3.2.0.1/xgboost/src/src/common/error_msg.h | 11 xgboost-3.2.0.1/xgboost/src/src/common/hist_util.cc | 16 xgboost-3.2.0.1/xgboost/src/src/common/hist_util.cu | 33 xgboost-3.2.0.1/xgboost/src/src/common/hist_util.h | 2 xgboost-3.2.0.1/xgboost/src/src/common/host_device_vector.cc | 11 xgboost-3.2.0.1/xgboost/src/src/common/host_device_vector.cu | 14 xgboost-3.2.0.1/xgboost/src/src/common/linalg_op.cu | 9 xgboost-3.2.0.1/xgboost/src/src/common/linalg_op.cuh | 102 xgboost-3.2.0.1/xgboost/src/src/common/linalg_op.h | 227 xgboost-3.2.0.1/xgboost/src/src/common/math.h | 26 xgboost-3.2.0.1/xgboost/src/src/common/numeric.h | 95 xgboost-3.2.0.1/xgboost/src/src/common/partition_builder.h | 22 xgboost-3.2.0.1/xgboost/src/src/common/quantile.cuh | 7 xgboost-3.2.0.1/xgboost/src/src/common/quantile.h | 266 - xgboost-3.2.0.1/xgboost/src/src/common/random.h | 58 xgboost-3.2.0.1/xgboost/src/src/common/ref_resource_view.cuh | 3 xgboost-3.2.0.1/xgboost/src/src/common/ref_resource_view.h | 20 xgboost-3.2.0.1/xgboost/src/src/common/resource.cu | 7 xgboost-3.2.0.1/xgboost/src/src/common/resource.cuh | 6 xgboost-3.2.0.1/xgboost/src/src/common/stats.cc | 7 xgboost-3.2.0.1/xgboost/src/src/common/stats.cuh | 192 xgboost-3.2.0.1/xgboost/src/src/common/stats.h | 2 xgboost-3.2.0.1/xgboost/src/src/common/threading_utils.h | 93 xgboost-3.2.0.1/xgboost/src/src/data/array_interface.cc | 6 xgboost-3.2.0.1/xgboost/src/src/data/array_interface.cu | 11 xgboost-3.2.0.1/xgboost/src/src/data/batch_utils.cc | 20 xgboost-3.2.0.1/xgboost/src/src/data/batch_utils.h | 8 xgboost-3.2.0.1/xgboost/src/src/data/cat_container.cuh | 4 xgboost-3.2.0.1/xgboost/src/src/data/cat_container.h | 3 xgboost-3.2.0.1/xgboost/src/src/data/data.cc | 472 - xgboost-3.2.0.1/xgboost/src/src/data/data.cu | 136 xgboost-3.2.0.1/xgboost/src/src/data/ellpack_page.cu | 78 xgboost-3.2.0.1/xgboost/src/src/data/ellpack_page.cuh | 9 xgboost-3.2.0.1/xgboost/src/src/data/ellpack_page_raw_format.cu | 14 xgboost-3.2.0.1/xgboost/src/src/data/ellpack_page_source.cu | 7 xgboost-3.2.0.1/xgboost/src/src/data/ellpack_page_source.h | 9 xgboost-3.2.0.1/xgboost/src/src/data/gradient_index.cc | 40 xgboost-3.2.0.1/xgboost/src/src/data/gradient_index.cu | 2 xgboost-3.2.0.1/xgboost/src/src/data/gradient_index.h | 19 xgboost-3.2.0.1/xgboost/src/src/data/gradient_index_page_source.cc | 6 xgboost-3.2.0.1/xgboost/src/src/data/gradient_index_page_source.h | 4 xgboost-3.2.0.1/xgboost/src/src/data/iterative_dmatrix.cc | 6 xgboost-3.2.0.1/xgboost/src/src/data/iterative_dmatrix.cu | 11 xgboost-3.2.0.1/xgboost/src/src/data/iterative_dmatrix.h | 4 xgboost-3.2.0.1/xgboost/src/src/data/metainfo.cc |only xgboost-3.2.0.1/xgboost/src/src/data/metainfo.cu |only xgboost-3.2.0.1/xgboost/src/src/data/metainfo.h |only xgboost-3.2.0.1/xgboost/src/src/data/sparse_page_dmatrix.cc | 7 xgboost-3.2.0.1/xgboost/src/src/encoder/ordinal.cuh | 17 xgboost-3.2.0.1/xgboost/src/src/encoder/ordinal.h | 2 xgboost-3.2.0.1/xgboost/src/src/gbm/gblinear.cc | 9 xgboost-3.2.0.1/xgboost/src/src/gbm/gbtree.cc | 123 xgboost-3.2.0.1/xgboost/src/src/gbm/gbtree.h | 62 xgboost-3.2.0.1/xgboost/src/src/gbm/gbtree_model.cc | 30 xgboost-3.2.0.1/xgboost/src/src/gbm/gbtree_model.h | 63 xgboost-3.2.0.1/xgboost/src/src/learner.cc | 187 xgboost-3.2.0.1/xgboost/src/src/metric/auc.cu | 77 xgboost-3.2.0.1/xgboost/src/src/metric/elementwise_metric.cu | 3 xgboost-3.2.0.1/xgboost/src/src/metric/rank_metric.cc | 144 xgboost-3.2.0.1/xgboost/src/src/objective/adaptive.cc | 152 xgboost-3.2.0.1/xgboost/src/src/objective/adaptive.cu | 88 xgboost-3.2.0.1/xgboost/src/src/objective/adaptive.h | 46 xgboost-3.2.0.1/xgboost/src/src/objective/aft_obj.cu | 10 xgboost-3.2.0.1/xgboost/src/src/objective/hinge.cu | 12 xgboost-3.2.0.1/xgboost/src/src/objective/multiclass_obj.cu | 17 xgboost-3.2.0.1/xgboost/src/src/objective/quantile_obj.cu | 23 xgboost-3.2.0.1/xgboost/src/src/objective/regression_loss.h | 29 xgboost-3.2.0.1/xgboost/src/src/objective/regression_obj.cu | 186 xgboost-3.2.0.1/xgboost/src/src/predictor/array_tree_layout.h | 32 xgboost-3.2.0.1/xgboost/src/src/predictor/cpu_predictor.cc | 324 - xgboost-3.2.0.1/xgboost/src/src/predictor/gbtree_view.h |only xgboost-3.2.0.1/xgboost/src/src/predictor/gpu_predictor.cu | 1122 +--- xgboost-3.2.0.1/xgboost/src/src/predictor/predict_fn.h | 34 xgboost-3.2.0.1/xgboost/src/src/predictor/treeshap.cc | 46 xgboost-3.2.0.1/xgboost/src/src/predictor/treeshap.h | 15 xgboost-3.2.0.1/xgboost/src/src/tree/common_row_partitioner.h | 75 xgboost-3.2.0.1/xgboost/src/src/tree/constraints.cu | 12 xgboost-3.2.0.1/xgboost/src/src/tree/constraints.cuh | 24 xgboost-3.2.0.1/xgboost/src/src/tree/fit_stump.cc | 33 xgboost-3.2.0.1/xgboost/src/src/tree/fit_stump.h | 17 xgboost-3.2.0.1/xgboost/src/src/tree/gpu_hist/evaluate_splits.cu | 36 xgboost-3.2.0.1/xgboost/src/src/tree/gpu_hist/evaluate_splits.cuh | 63 xgboost-3.2.0.1/xgboost/src/src/tree/gpu_hist/evaluator.cu | 16 xgboost-3.2.0.1/xgboost/src/src/tree/gpu_hist/expand_entry.cu |only xgboost-3.2.0.1/xgboost/src/src/tree/gpu_hist/expand_entry.cuh | 72 xgboost-3.2.0.1/xgboost/src/src/tree/gpu_hist/feature_groups.cu | 4 xgboost-3.2.0.1/xgboost/src/src/tree/gpu_hist/feature_groups.cuh | 9 xgboost-3.2.0.1/xgboost/src/src/tree/gpu_hist/histogram.cu | 813 +-- xgboost-3.2.0.1/xgboost/src/src/tree/gpu_hist/histogram.cuh | 82 xgboost-3.2.0.1/xgboost/src/src/tree/gpu_hist/leaf_sum.cu |only xgboost-3.2.0.1/xgboost/src/src/tree/gpu_hist/leaf_sum.cuh |only xgboost-3.2.0.1/xgboost/src/src/tree/gpu_hist/multi_evaluate_splits.cu |only xgboost-3.2.0.1/xgboost/src/src/tree/gpu_hist/multi_evaluate_splits.cuh |only xgboost-3.2.0.1/xgboost/src/src/tree/gpu_hist/quantiser.cuh | 67 xgboost-3.2.0.1/xgboost/src/src/tree/gpu_hist/row_partitioner.cu | 3 xgboost-3.2.0.1/xgboost/src/src/tree/gpu_hist/row_partitioner.cuh | 113 xgboost-3.2.0.1/xgboost/src/src/tree/gpu_hist/sampler.cu |only xgboost-3.2.0.1/xgboost/src/src/tree/gpu_hist/sampler.cuh |only xgboost-3.2.0.1/xgboost/src/src/tree/hist/evaluate_splits.h | 144 xgboost-3.2.0.1/xgboost/src/src/tree/hist/hist_param.h | 4 xgboost-3.2.0.1/xgboost/src/src/tree/hist/histogram.cc | 18 xgboost-3.2.0.1/xgboost/src/src/tree/hist/histogram.h | 176 xgboost-3.2.0.1/xgboost/src/src/tree/hist/sampler.cc |only xgboost-3.2.0.1/xgboost/src/src/tree/hist/sampler.h | 128 xgboost-3.2.0.1/xgboost/src/src/tree/io_utils.h | 1 xgboost-3.2.0.1/xgboost/src/src/tree/multi_target_tree_model.cc | 248 xgboost-3.2.0.1/xgboost/src/src/tree/param.h | 64 xgboost-3.2.0.1/xgboost/src/src/tree/split_evaluator.h | 17 xgboost-3.2.0.1/xgboost/src/src/tree/tree_model.cc | 620 +- xgboost-3.2.0.1/xgboost/src/src/tree/tree_view.cc |only xgboost-3.2.0.1/xgboost/src/src/tree/tree_view.h |only xgboost-3.2.0.1/xgboost/src/src/tree/updater_approx.cc | 44 xgboost-3.2.0.1/xgboost/src/src/tree/updater_colmaker.cc | 103 xgboost-3.2.0.1/xgboost/src/src/tree/updater_gpu_common.cuh | 91 xgboost-3.2.0.1/xgboost/src/src/tree/updater_gpu_hist.cu | 458 - xgboost-3.2.0.1/xgboost/src/src/tree/updater_gpu_hist.cuh |only xgboost-3.2.0.1/xgboost/src/src/tree/updater_prune.cc | 8 xgboost-3.2.0.1/xgboost/src/src/tree/updater_quantile_hist.cc | 294 - xgboost-3.2.0.1/xgboost/src/src/tree/updater_refresh.cc | 112 xgboost-3.2.0.1/xgboost/src/src/tree/updater_sync.cc | 5 xgboost-3.2.0.1/xgboost/src/xgboost_R.cc | 17 xgboost-3.2.0.1/xgboost/src/xgboost_R.h | 1 xgboost-3.2.0.1/xgboost/vignettes/xgboost_introduction.Rmd | 2 259 files changed, 12703 insertions(+), 11768 deletions(-)
Title: Helper Functions for Structural Equation Modeling
Description: An assortment of helper functions for doing structural equation
modeling, mainly by 'lavaan' for now. Most of them are time-saving functions
for common tasks in doing structural equation modeling and reading the
output. This package is not for functions that implement advanced statistical
procedures. It is a light-weight package for simple functions that do simple
tasks conveniently, with as few dependencies as possible.
Author: Shu Fai Cheung [aut, cre]
Maintainer: Shu Fai Cheung <shufai.cheung@gmail.com>
Diff between semhelpinghands versions 0.1.12 dated 2024-11-02 and 0.1.14 dated 2026-02-10
DESCRIPTION | 11 MD5 | 58 +- NEWS.md | 20 R/plot_boot.R | 28 + R/standardizedSolution_boot_ci.R | 24 R/store_boot_def.R | 26 + R/to_vectors.R | 88 ++- README.md | 2 build/partial.rdb |binary build/vignette.rds |binary inst/doc/semhelpinghands.Rmd | 17 inst/doc/semhelpinghands.html | 44 + inst/doc/standardizedSolution_boot_ci.Rmd | 489 ++++++++++---------- inst/doc/standardizedSolution_boot_ci.html | 58 ++ man/plot_boot.Rd | 24 man/show_more_options.Rd | 4 man/standardizedSolution_boot_ci.Rd | 25 + man/store_boot_def.Rd | 25 + tests/testthat/test-to_vectors.R | 24 vignettes/articles/figure/fig1-1.png |binary vignettes/articles/figure/fig2-1.png |binary vignettes/articles/figure/fig3-1.png |binary vignettes/articles/figure/fig4-1.png |binary vignettes/articles/plot_boot.Rmd | 34 + vignettes/articles/plot_boot.Rmd.original | 30 + vignettes/articles/references.bib | 19 vignettes/references.bib | 19 vignettes/semhelpinghands.Rmd | 17 vignettes/standardizedSolution_boot_ci.Rmd | 489 ++++++++++---------- vignettes/standardizedSolution_boot_ci.Rmd.original | 33 + 30 files changed, 1071 insertions(+), 537 deletions(-)
More information about semhelpinghands at CRAN
Permanent link
Title: Tools for Parsing and Generating XML Within R and S-Plus
Description: Many approaches for both reading and
creating XML (and HTML) documents (including DTDs), both local
and accessible via HTTP or FTP. Also offers access to an
'XPath' "interpreter".
Author: CRAN Team [ctb] ,
Duncan Temple Lang [aut] ,
Tomas Kalibera [ctb],
Ivan Krylov [cre]
Maintainer: Ivan Krylov <ikrylov@disroot.org>
Diff between XML versions 3.99-0.20 dated 2025-11-08 and 3.99-0.22 dated 2026-02-10
XML-3.99-0.20/XML/README |only XML-3.99-0.20/XML/man/parseDTD.Rd |only XML-3.99-0.20/XML/src/RSDTD.c |only XML-3.99-0.20/XML/src/RSDTD.h |only XML-3.99-0.22/XML/ChangeLog | 5 + XML-3.99-0.22/XML/DESCRIPTION | 25 +++++---- XML-3.99-0.22/XML/LICENSE | 2 XML-3.99-0.22/XML/MD5 | 67 +++++++++++++------------- XML-3.99-0.22/XML/NAMESPACE | 12 ---- XML-3.99-0.22/XML/R/DTD.R | 7 ++ XML-3.99-0.22/XML/R/XMLClasses.R | 3 - XML-3.99-0.22/XML/R/htmlParse.R | 3 - XML-3.99-0.22/XML/R/nodeAccessors.R | 3 - XML-3.99-0.22/XML/R/parseDTD.R | 22 -------- XML-3.99-0.22/XML/R/saveXML.R | 4 - XML-3.99-0.22/XML/R/tree.R | 7 +- XML-3.99-0.22/XML/R/version.R | 5 - XML-3.99-0.22/XML/R/xmlEventParse.R | 18 +++--- XML-3.99-0.22/XML/R/xmlNodes.R | 2 XML-3.99-0.22/XML/R/xmlTree.R | 3 - XML-3.99-0.22/XML/R/xmlTreeParse.R | 14 ----- XML-3.99-0.22/XML/inst/extdata |only XML-3.99-0.22/XML/man/XML-defunct.Rd |only XML-3.99-0.22/XML/man/dtdElement.Rd | 5 + XML-3.99-0.22/XML/man/dtdElementValidEntry.Rd | 5 + XML-3.99-0.22/XML/man/dtdIsAttribute.Rd | 4 + XML-3.99-0.22/XML/man/dtdValidElement.Rd | 11 +--- XML-3.99-0.22/XML/man/xmlEventParse.Rd | 2 XML-3.99-0.22/XML/src/DocParse.c | 33 ------------ XML-3.99-0.22/XML/src/EventParse.c | 5 - XML-3.99-0.22/XML/src/EventParse.h | 4 + XML-3.99-0.22/XML/src/HTMLParse.c | 17 ------ XML-3.99-0.22/XML/src/RUtils.c | 17 ------ XML-3.99-0.22/XML/src/Utils.h | 7 -- XML-3.99-0.22/XML/src/XMLEventParse.c | 11 +++- XML-3.99-0.22/XML/src/XMLTree.c | 44 +---------------- XML-3.99-0.22/XML/tests |only 37 files changed, 130 insertions(+), 237 deletions(-)
Title: Bayesian Aggregate Treatment Effects
Description: Running and comparing meta-analyses of data with hierarchical
Bayesian models in Stan, including convenience functions for formatting
data, plotting and pooling measures specific to meta-analysis. This implements many models
from Meager (2019) <doi:10.1257/app.20170299>.
Author: Witold Wiecek [cre, aut],
Rachael Meager [aut],
Brice Green [ctb] ,
Danny Toomey [ctb] ,
Trustees of Columbia University [cph]
Maintainer: Witold Wiecek <witold.wiecek@gmail.com>
Diff between baggr versions 0.7.11 dated 2025-06-19 and 0.8 dated 2026-02-10
DESCRIPTION | 12 MD5 | 93 +- NAMESPACE | 5 NEWS.md | 9 R/auto_prior.R | 428 ++++++----- R/baggr-package.R | 2 R/baggr.R | 72 +- R/baggr_plot.R | 12 R/convert_inputs.R | 90 +- R/forest_plot.R | 3 R/funnel.R |only R/loocv.R | 53 - R/print_baggr.R | 40 + R/selection.R |only R/trt_effects.R | 2 build/vignette.rds |binary inst/doc/baggr.R | 23 inst/doc/baggr.Rmd | 117 ++- inst/doc/baggr.html | 600 ++++++++++------ inst/doc/baggr_binary.Rmd | 12 inst/doc/baggr_binary.html | 23 inst/stan/functions/selection.stan |only inst/stan/rubin.stan | 61 + man/baggr-package.Rd | 2 man/baggr.Rd | 32 man/baggr_plot.Rd | 2 man/baggr_theme_set.Rd | 148 ++-- man/convert_inputs.Rd | 3 man/funnel_plot.Rd |only man/prepare_prior.Rd | 92 +- man/print.baggr.Rd | 3 man/selection.Rd |only src/stanExports_logit.cc | 34 src/stanExports_mutau.cc | 34 src/stanExports_mutau_full.cc | 34 src/stanExports_rubin.cc | 34 src/stanExports_rubin.h | 899 +++++++++++++++++-------- src/stanExports_rubin_full.cc | 34 tests/testthat/Rplots.pdf |binary tests/testthat/test_binary.R | 20 tests/testthat/test_full.R | 1 tests/testthat/test_loo.R | 4 tests/testthat/test_multiarm.R | 114 ++- tests/testthat/test_mutau.R | 6 tests/testthat/test_mutau_full.R | 36 - tests/testthat/test_rubin.R | 34 tests/testthat/test_selection_and_validation.R |only tests/testthat/test_uncovered_helpers.R |only vignettes/baggr.Rmd | 117 ++- vignettes/baggr_binary.Rmd | 12 vignettes/baggr_binary.Rmd.orig | 2 51 files changed, 2144 insertions(+), 1210 deletions(-)
Title: Robust Categorical Data Analysis
Description: Robust categorical data analysis based on the theory of C-estimation developed in Welz (2024) <doi:10.48550/arXiv.2403.11954>. For now, the package only implements robust estimation of polychoric correlation as proposed in Welz, Mair and Alfons (2026) <doi:10.1017/psy.2025.10066> and robust estimation of polyserial correlation (Welz, 2026 <doi:10.1017/psy.2026.10091>) with methods for printing and plotting. We will implement further models in future releases. In addition, the package is still experimental, so input arguments and class structure may change in future releases.
Author: Max Welz [aut, cre] ,
Andreas Alfons [aut] ,
Patrick Mair [aut]
Maintainer: Max Welz <max.welz@uzh.ch>
Diff between robcat versions 0.1.0 dated 2025-05-01 and 0.2 dated 2026-02-10
DESCRIPTION | 13 +- MD5 | 50 +++++++--- NAMESPACE | 9 + R/checks.R | 7 + R/polycor.R | 141 +++++++++++++++++++---------- R/polycor_funs_helper.R | 2 R/polycormat.R | 29 +---- R/polyserial.R |only R/polyserial_Qmat.R |only R/polyserial_efficiency.R |only R/polyserial_funs_helper.R |only R/polyserial_gradient.R |only R/polyserial_hessian_conditional.R |only R/polyserial_hessian_conditional_diag.R |only R/polyserial_hessian_conditional_offdiag.R |only R/polyserial_hessian_helpers.R |only R/polyserial_hessian_marginal.R |only R/polyserial_point.R |only R/polyserial_variance.R |only R/polyserial_variance_apprx.R |only R/polyserial_weights.R |only R/print.R | 43 ++++++++ R/vcov.R | 43 ++++++++ build/partial.rdb |binary man/initialize_param.Rd | 2 man/polycor.Rd | 16 +-- man/polycor_mle.Rd | 14 +- man/polycormat.Rd | 16 +-- man/polycormat_mle.Rd | 14 +- man/polyserial.Rd |only man/polyserial_efficiency.Rd |only man/polyserial_initialize_param.Rd |only man/polyserial_mle.Rd |only man/print.robpolyserial.Rd |only man/vcov.robpolycor.Rd | 5 - man/vcov.robpolyserial.Rd |only 36 files changed, 280 insertions(+), 124 deletions(-)
Title: Handle Air Quality Data from the European Environment Agency
Data Portal
Description: This software downloads and manages air quality data from the European Environmental Agency (EEA) dataflow (<https://www.eea.europa.eu/data-and-maps/data/aqereporting-9>).
See the web page <https://eeadmz1-downloads-webapp.azurewebsites.net/> for details on the EEA's Air Quality Download Service.
The package allows dynamically mapping the stations, summarising and time aggregating the measurements and building spatial interpolation maps.
See the web page <https://www.eea.europa.eu/en> for further information on EEA activities and history.
Further details, as well as, an extended vignette of the main functions included in the package, are available at the GitHub web page dedicated to the project.
Author: Paolo Maranzano [aut, cre, cph] ,
Riccardo Borgoni [aut, cph] ,
Samir Doghmi [aut, cph],
Agostino Tassan Mazzocco [aut, cph]
Maintainer: Paolo Maranzano <pmaranzano.ricercastatistica@gmail.com>
Diff between EEAaq versions 1.0.2 dated 2026-01-21 and 1.0.3 dated 2026-02-10
DESCRIPTION | 8 +++--- MD5 | 8 +++--- R/EEAaq_summary.R | 5 ++- R/EEAaq_time_aggregate.R | 20 +++++++-------- inst/doc/vignettes.html | 60 +++++++++++++++++++++++------------------------ 5 files changed, 51 insertions(+), 50 deletions(-)
Title: Statistical Evaluation of UMAP Dimensionality Reductions
Description: A metric expressing the quality of a UMAP layout. This is a
package that contains the Saturn_coefficient() function that reads an
input matrix, its dimensionality reduction produced by UMAP, and
evaluates the quality of this dimensionality reduction by producing a
real value in the [0; 1] interval. We call this real value Saturn
coefficient. A higher value means better dimensionality reduction; a
lower value means worse dimensionality reduction.
Reference: Davide Chicco et al. (February 2026), "The advantages of
our proposed Saturn coefficient over continuity and trustworthiness
for UMAP dimensionality reduction evaluation", PeerJ Computer
Science 12:e3424 (pp. 1-30), <doi:10.7717/peerj-cs.3424>.
Author: Davide Chicco [aut, cre]
Maintainer: Davide Chicco <davidechicco@davidechicco.it>
Diff between SaturnCoefficient versions 1.4 dated 2025-02-14 and 1.6 dated 2026-02-10
DESCRIPTION | 17 +- MD5 | 7 R/Saturn_coefficient.r | 20 ++ inst/CITATION |only inst/doc/SaturnCoefficient.html | 310 ++++++++++++++++++++++++++++++++-------- 5 files changed, 285 insertions(+), 69 deletions(-)
More information about SaturnCoefficient at CRAN
Permanent link
Title: SM/LM EGARCH & GARCH, VaR/ES Backtesting & Dual LM Extensions
Description: Implement and fit a variety of short-memory (SM) and long-memory
(LM) models from a very broad family of exponential generalized autoregressive
conditional heteroskedasticity (EGARCH) models, such as a MEGARCH (modified
EGARCH), FIEGARCH (fractionally integrated EGARCH), FIMLog-GARCH (fractionally
integrated modulus Log-GARCH), and more. The FIMLog-GARCH as part of the
EGARCH family is discussed in Feng et al. (2023)
<https://econpapers.repec.org/paper/pdnciepap/156.htm>. For convenience and
the purpose of comparison, a variety of other popular SM and LM GARCH-type
models, like an APARCH model, a fractionally integrated
APARCH (FIAPARCH) model, standard GARCH and fractionally integrated GARCH
(FIGARCH) models, GJR-GARCH and FIGJR-GARCH models, TGARCH and FITGARCH
models, are implemented as well as dual models with simultaneous modelling of
the mean, including dual long-memory models with a fractionally integrated
autoregressive moving average (FARIMA) model in the mean and a long [...truncated...]
Author: Dominik Schulz [aut, cre] ,
Yuanhua Feng [aut] ,
Christian Peitz [aut] ),
Oliver Kojo Ayensu [aut] ,
Thomas Gries [ctb] ,
Sikandar Siddiqui [ctb] ,
Shujie Li [ctb]
Maintainer: Dominik Schulz <dominik.schulz@uni-paderborn.de>
Diff between fEGarch versions 1.0.5 dated 2026-02-02 and 1.0.6 dated 2026-02-10
DESCRIPTION | 6 - MD5 | 62 +++++++------- NEWS.md | 18 +++- R/arma-farima-wrappers.R | 122 +++++++++++++++++++++++++++++ R/class-egarch-spec.R | 41 ++++++++- R/fitting-function.R | 4 R/general_garch_fitting.R | 53 ++++++++---- R/setup-estim.R | 4 R/sim-functions.R | 1 README.md | 54 ++++++------ man/SP500.Rd | 50 +++++------ man/UKinflation.Rd | 52 ++++++------ man/accessor_methods_distr_est.Rd | 94 +++++++++++----------- man/autoplot-fEGarch_risk-method.Rd | 72 ++++++++--------- man/backtest-generics.Rd | 82 +++++++++---------- man/fEGarch.Rd | 4 man/figures/README-unnamed-chunk-12-1.png |binary man/figures/README-unnamed-chunk-15-1.png |binary man/figures/README-unnamed-chunk-17-1.png |binary man/fit-test-generics.Rd | 126 +++++++++++++++--------------- man/fit_test_suite-fEGarch_fit-method.Rd | 102 ++++++++++++------------ man/fitted.Rd | 72 ++++++++--------- man/loss_functions.Rd | 46 +++++----- man/mean_spec_methods.Rd | 96 +++++++++++----------- man/nonpar-generics.Rd | 84 ++++++++++---------- man/plot-fEGarch_fit-ANY-method.Rd | 118 ++++++++++++++-------------- man/plot-fEGarch_risk-ANY-method.Rd | 78 +++++++++--------- man/plot.Rd | 42 +++++----- man/residuals.Rd | 66 +++++++-------- man/sigma.Rd | 72 ++++++++--------- tests/testthat/test-fEGarch-fitting.R | 4 tests/testthat/test-forecasting.R | 72 ++++++++--------- 32 files changed, 944 insertions(+), 753 deletions(-)
Title: Tools to Use and Explore the 'BioTIME' Database
Description: The 'BioTIME' database was first published in
2018 and inspired ideas, questions, project and research
article. To make it even more accessible, an R package
was created.
The 'BioTIMEr' package provides tools designed to interact with the
'BioTIME' database. The functions provided include the 'BioTIME' recommended
methods for preparing (gridding and rarefaction) time series data, a
selection of standard biodiversity metrics (including species richness,
numerical abundance and exponential Shannon) alongside examples on how to
display change over time. It also includes a sample subset of both the query
and meta data, the full versions of which are freely available on the 'BioTIME'
website <https://biotime.st-andrews.ac.uk/home.php>.
Author: Alban Sagouis [aut, cre] ,
Faye Moyes [aut] ,
Ines S. Martins [aut, rev] ,
Shane A. Blowes [ctb] ,
Viviana Brambilla [ctb] ,
Cher F. Y. Chow [ctb] ,
Ada Fontrodona-Eslava [ctb] ,
Laura Antao [ctb, rev] ,
Jonathan M. Chase [fnd] ,
Maria Dornelas [fnd, [...truncated...]
Maintainer: Alban Sagouis <alban.sagouis@idiv.de>
Diff between BioTIMEr versions 0.3.0 dated 2025-11-28 and 0.3.1 dated 2026-02-10
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Title: Quantifying Ecological Memory in Palaeoecological Datasets and
Other Long Time-Series
Description: Quantifies ecological memory in long time-series using Random Forest models ('Benito', 'Gil-Romera', and 'Birks' 2019 <doi:10.1111/ecog.04772>) fitted with 'ranger' (Wright and Ziegler 2017 <doi:10.18637/jss.v077.i01>). Ecological memory is assessed by modeling a response variable as a function of lagged predictors, distinguishing endogenous memory (lagged response) from exogenous memory (lagged environmental drivers). Designed for palaeoecological datasets and simulated pollen curves from 'virtualPollen', but applicable to any long time-series with environmental drivers and a biotic response.
Author: Blas M. Benito [aut, cre, cph]
Maintainer: Blas M. Benito <blasbenito@gmail.com>
Diff between memoria versions 1.0.0 dated 2019-05-17 and 1.1.0 dated 2026-02-10
memoria-1.0.0/memoria/R/mergePalaeoData.R |only memoria-1.0.0/memoria/R/plotInteraction.R |only memoria-1.0.0/memoria/R/prepareLaggedData.R |only memoria-1.0.0/memoria/README.md |only memoria-1.0.0/memoria/build/vignette.rds |only memoria-1.0.0/memoria/data/climate.RData |only memoria-1.0.0/memoria/data/palaeodata.RData |only memoria-1.0.0/memoria/data/palaeodataLagged.RData |only memoria-1.0.0/memoria/data/palaeodataMemory.RData |only memoria-1.0.0/memoria/data/pollen.RData |only memoria-1.0.0/memoria/inst/doc |only memoria-1.0.0/memoria/man/figures/README-unnamed-chunk-3-1.png |only memoria-1.0.0/memoria/man/figures/README-unnamed-chunk-4-1.png |only memoria-1.0.0/memoria/man/figures/README-unnamed-chunk-8-1.png |only memoria-1.0.0/memoria/man/mergePalaeoData.Rd |only memoria-1.0.0/memoria/man/plotInteraction.Rd |only memoria-1.0.0/memoria/man/prepareLaggedData.Rd |only memoria-1.0.0/memoria/vignettes |only memoria-1.1.0/memoria/DESCRIPTION | 35 memoria-1.1.0/memoria/LICENSE |only memoria-1.1.0/memoria/MD5 | 82 -- memoria-1.1.0/memoria/NAMESPACE | 25 memoria-1.1.0/memoria/NEWS.md | 41 - memoria-1.1.0/memoria/R/alignTimeSeries.R |only memoria-1.1.0/memoria/R/computeMemory.R | 381 +++++---- memoria-1.1.0/memoria/R/experimentToTable.R | 204 +++- memoria-1.1.0/memoria/R/extractMemoryFeatures.R | 410 +++++----- memoria-1.1.0/memoria/R/lagTimeSeries.R |only memoria-1.1.0/memoria/R/memoria.R | 85 +- memoria-1.1.0/memoria/R/plotExperiment.R | 124 +-- memoria-1.1.0/memoria/R/plotMemory.R | 109 +- memoria-1.1.0/memoria/R/runExperiment.R | 199 ++-- memoria-1.1.0/memoria/build/partial.rdb |only memoria-1.1.0/memoria/data/climate.rda |only memoria-1.1.0/memoria/data/palaeodata.rda |only memoria-1.1.0/memoria/data/palaeodataLagged.rda |only memoria-1.1.0/memoria/data/palaeodataMemory.rda |only memoria-1.1.0/memoria/data/pollen.rda |only memoria-1.1.0/memoria/inst/CITATION |only memoria-1.1.0/memoria/inst/WORDLIST |only memoria-1.1.0/memoria/man/alignTimeSeries.Rd |only memoria-1.1.0/memoria/man/climate.Rd | 20 memoria-1.1.0/memoria/man/computeMemory.Rd | 89 +- memoria-1.1.0/memoria/man/experimentToTable.Rd | 20 memoria-1.1.0/memoria/man/extractMemoryFeatures.Rd | 76 + memoria-1.1.0/memoria/man/figures/README-example-1.png |only memoria-1.1.0/memoria/man/figures/README-unnamed-chunk-10-1.png |only memoria-1.1.0/memoria/man/figures/README-unnamed-chunk-5-1.png |binary memoria-1.1.0/memoria/man/figures/README-unnamed-chunk-7-1.png |binary memoria-1.1.0/memoria/man/lagTimeSeries.Rd |only memoria-1.1.0/memoria/man/palaeodata.Rd | 30 memoria-1.1.0/memoria/man/palaeodataLagged.Rd | 29 memoria-1.1.0/memoria/man/palaeodataMemory.Rd | 26 memoria-1.1.0/memoria/man/plotExperiment.Rd | 54 - memoria-1.1.0/memoria/man/plotMemory.Rd | 19 memoria-1.1.0/memoria/man/pollen.Rd | 12 memoria-1.1.0/memoria/man/runExperiment.Rd | 83 +- 57 files changed, 1224 insertions(+), 929 deletions(-)
Title: Fast Tidy Tools for Date and Date-Time Manipulation
Description: A set of fast tidy functions for wrangling, completing and
summarising date and date-time data. It combines 'tidyverse' syntax
with the efficiency of 'data.table' and speed of 'collapse'.
Author: Nick Christofides [aut, cre]
Maintainer: Nick Christofides <nick.christofides.r@gmail.com>
Diff between timeplyr versions 1.1.1 dated 2025-10-07 and 1.1.2 dated 2026-02-10
DESCRIPTION | 6 +- MD5 | 18 +++--- NEWS.md | 7 ++ R/df_utils.R | 2 R/time_seq.R | 38 ++++++++------ R/timeplyr-package.R | 4 - README.md | 81 ++++++++++++++++-------------- man/figures/README-unnamed-chunk-29-1.png |binary man/time_seq.Rd | 4 - man/timeplyr-package.Rd | 4 - 10 files changed, 92 insertions(+), 72 deletions(-)
Title: Forest Plots for Network Meta-Analysis with Proportion for Paths
and Studies
Description: Provides customized forest plots for network meta-analysis incorporating direct, indirect, and NMA effects. Includes visualizations of evidence contributions through
proportion bars based on the hat matrix and evidence flow decomposition.
Author: Yanqi Zhang [aut, cre],
Chong Wang [aut],
Annette O'Connor [aut]
Maintainer: Yanqi Zhang <zyq1998@iastate.edu>
Diff between NMAforest versions 0.1.2 dated 2025-09-10 and 0.1.3 dated 2026-02-10
DESCRIPTION | 18 ++-- MD5 | 10 +- R/NMAforest.R | 230 ++++++++++++++++++++++++++++++++++++++++++++++++++++--- R/example_data.R | 32 +++---- README.md | 2 man/NMAforest.Rd | 24 +++++ 6 files changed, 272 insertions(+), 44 deletions(-)
Title: Structure for Organizing Monte Carlo Simulation Designs
Description: Provides tools to safely and efficiently organize and execute
Monte Carlo simulation experiments in R.
The package controls the structure and back-end of Monte Carlo simulation experiments
by utilizing a generate-analyse-summarise workflow. The workflow safeguards against
common simulation coding issues, such as automatically re-simulating non-convergent results,
prevents inadvertently overwriting simulation files, catches error and warning messages
during execution, implicitly supports parallel processing with high-quality random number
generation, and provides tools for managing high-performance computing (HPC) array jobs
submitted to schedulers such as SLURM. For a pedagogical introduction to the package see
Sigal and Chalmers (2016) <doi:10.1080/10691898.2016.1246953>. For a more in-depth overview of
the package and its design philosophy see Chalmers and Adkins (2020) <doi:10.20982/tqmp.16.4.p248>.
Author: Phil Chalmers [aut, cre] ,
Matthew Sigal [ctb],
Ogreden Oguzhan [ctb],
Mikko Roenkkoe [aut],
Moritz Ketzer [ctb]
Maintainer: Phil Chalmers <rphilip.chalmers@gmail.com>
Diff between SimDesign versions 2.22 dated 2025-12-17 and 2.23 dated 2026-02-10
SimDesign-2.22/SimDesign/tests/tests/test-seeds_cruncher |only SimDesign-2.22/SimDesign/tests/tests/test-seeds_cruncher_1 |only SimDesign-2.22/SimDesign/tests/tests/test.rds |only SimDesign-2.23/SimDesign/DESCRIPTION | 8 - SimDesign-2.23/SimDesign/MD5 | 71 +++++-------- SimDesign-2.23/SimDesign/NAMESPACE | 4 SimDesign-2.23/SimDesign/NEWS.md | 14 ++ SimDesign-2.23/SimDesign/R/SimExtract.R | 4 SimDesign-2.23/SimDesign/R/SimFunctions.R | 16 ++ SimDesign-2.23/SimDesign/R/analysis.R | 32 ++++- SimDesign-2.23/SimDesign/R/descript.R |only SimDesign-2.23/SimDesign/R/functions.R | 25 ++++ SimDesign-2.23/SimDesign/R/rgenerate.R | 10 - SimDesign-2.23/SimDesign/R/runSimulation.R | 27 ++++ SimDesign-2.23/SimDesign/R/summary_functions.R | 62 ++++++++--- SimDesign-2.23/SimDesign/R/util.R | 52 ++++++++- SimDesign-2.23/SimDesign/inst/doc/Catch_errors.html | 10 - SimDesign-2.23/SimDesign/inst/doc/Fixed_obj_fun.html | 10 - SimDesign-2.23/SimDesign/inst/doc/HPC-computing.html | 4 SimDesign-2.23/SimDesign/inst/doc/MultipleAnalyses.html | 4 SimDesign-2.23/SimDesign/inst/doc/Parallel-computing.html | 4 SimDesign-2.23/SimDesign/inst/doc/Saving-results.html | 4 SimDesign-2.23/SimDesign/inst/doc/SimDesign-intro.html | 4 SimDesign-2.23/SimDesign/man/MAE.Rd | 14 ++ SimDesign-2.23/SimDesign/man/RMSE.Rd | 9 + SimDesign-2.23/SimDesign/man/SimExtract.Rd | 2 SimDesign-2.23/SimDesign/man/SimFunctions.Rd | 4 SimDesign-2.23/SimDesign/man/bias.Rd | 18 +++ SimDesign-2.23/SimDesign/man/descript.Rd |only SimDesign-2.23/SimDesign/man/rHeadrick.Rd | 4 SimDesign-2.23/SimDesign/man/rValeMaurelli.Rd | 6 - SimDesign-2.23/SimDesign/man/runSimulation.Rd | 7 + SimDesign-2.23/SimDesign/man/timeFormater.Rd | 28 ++++- SimDesign-2.23/SimDesign/tests/tests/test-04-prepare.R | 2 34 files changed, 343 insertions(+), 116 deletions(-)
Title: Functions to Calculate Optimal Fourth Down Decisions in the
National Football League
Description: A set of functions to estimate outcomes of fourth down plays
in the National Football League and obtain fourth down plays from
<https://www.nfl.com/> and <https://www.espn.com/>.
Author: Ben Baldwin [aut, cre, cph],
Sebastian Carl [ctb]
Maintainer: Ben Baldwin <bbaldwin206@gmail.com>
Diff between nfl4th versions 1.0.4 dated 2023-08-21 and 1.0.5 dated 2026-02-10
DESCRIPTION | 41 -- LICENSE | 4 MD5 | 56 +- NAMESPACE | 40 -- NEWS.md | 80 ++-- R/apply_win_prob.R | 205 +++++----- R/cache.R | 160 ++++---- R/decision_functions.R | 819 +++++++++++++++++++++++------------------- R/get_game_data.R | 700 ++++++++++++++++++++--------------- R/helpers.R | 544 ++++++++++++++++----------- R/nfl4th-package.R | 38 - R/silence_tidy_eval_notes.R | 273 +++++++------- R/sysdata.rda |binary R/table_functions.R | 279 +++++++------- R/wrapper.R | 510 +++++++++++++------------- R/zzz.R | 51 +- README.md | 170 ++++---- man/add_2pt_probs.Rd | 110 ++--- man/add_4th_probs.Rd | 118 +++--- man/get_4th_plays.Rd | 74 +-- man/load_4th_pbp.Rd | 70 +-- man/make_2pt_table_data.Rd | 86 ++-- man/make_table_data.Rd | 90 ++-- man/nfl4th-package.Rd | 64 +-- man/nfl4th_clear_cache.Rd | 52 +- tests/testthat.R | 8 tests/testthat/_snaps |only tests/testthat/setup.R | 57 +- tests/testthat/test-basic.R | 56 +- tests/testthat/test-wrapper.R |only 30 files changed, 2559 insertions(+), 2196 deletions(-)
Title: Interface to the 'nanoarrow' 'C' Library
Description: Provides an 'R' interface to the 'nanoarrow' 'C' library and the
'Apache Arrow' application binary interface. Functions to import and
export 'ArrowArray', 'ArrowSchema', and 'ArrowArrayStream' 'C' structures
to and from 'R' objects are provided alongside helpers to facilitate zero-copy
data transfer among 'R' bindings to libraries implementing the 'Arrow' 'C'
data interface.
Author: Dewey Dunnington [aut, cre] ,
Apache Arrow [aut, cph],
Apache Software Foundation [cph]
Maintainer: Dewey Dunnington <dewey@dunnington.ca>
Diff between nanoarrow versions 0.7.0-3 dated 2026-02-01 and 0.8.0 dated 2026-02-10
nanoarrow-0.7.0-3/nanoarrow/src/flatcc/portable/flatcc_portable.h |only nanoarrow-0.8.0/nanoarrow/DESCRIPTION | 10 - nanoarrow-0.8.0/nanoarrow/MD5 | 46 ++--- nanoarrow-0.8.0/nanoarrow/NAMESPACE | 5 nanoarrow-0.8.0/nanoarrow/NEWS.md | 12 + nanoarrow-0.8.0/nanoarrow/R/as-array.R | 4 nanoarrow-0.8.0/nanoarrow/R/convert-array-stream.R | 22 -- nanoarrow-0.8.0/nanoarrow/R/pkg-reticulate.R |only nanoarrow-0.8.0/nanoarrow/R/zzz.R | 7 nanoarrow-0.8.0/nanoarrow/inst/test-data |only nanoarrow-0.8.0/nanoarrow/man/as_nanoarrow_schema.python.builtin.object.Rd |only nanoarrow-0.8.0/nanoarrow/man/convert_array.Rd | 2 nanoarrow-0.8.0/nanoarrow/man/infer_nanoarrow_ptype.Rd | 2 nanoarrow-0.8.0/nanoarrow/src/init.c | 2 nanoarrow-0.8.0/nanoarrow/src/materialize.c | 43 +++- nanoarrow-0.8.0/nanoarrow/src/nanoarrow.c | 1 nanoarrow-0.8.0/nanoarrow/src/nanoarrow.h | 17 + nanoarrow-0.8.0/nanoarrow/src/nanoarrow.hpp |only nanoarrow-0.8.0/nanoarrow/src/nanoarrow_cpp.cc | 88 ++++++++++ nanoarrow-0.8.0/nanoarrow/src/nanoarrow_ipc.c | 62 +++++++ nanoarrow-0.8.0/nanoarrow/src/nanoarrow_ipc.h | 7 nanoarrow-0.8.0/nanoarrow/src/nanoarrow_ipc.hpp |only nanoarrow-0.8.0/nanoarrow/tests/testthat/test-as-array.R | 16 + nanoarrow-0.8.0/nanoarrow/tests/testthat/test-convert-array-stream.R | 34 +++ nanoarrow-0.8.0/nanoarrow/tests/testthat/test-convert-array.R | 35 +++ nanoarrow-0.8.0/nanoarrow/tests/testthat/test-pkg-reticulate.R |only nanoarrow-0.8.0/nanoarrow/tools/make-callentries.R | 2 27 files changed, 352 insertions(+), 65 deletions(-)
Title: Visualise and Calculate Life History Parameters for Fisheries
Science using 'ggplot2'
Description: Contains functions to create life history parameter plots from raw data.
The plots are created using 'ggplot2', and calculations done using the 'tidyverse'
collection of packages. The package contains references to FishBase
(Froese R., Pauly D., 2023) <https://www.fishbase.se/>.
Author: Mikko Vihtakari [aut, cre]
Maintainer: Mikko Vihtakari <mikko.vihtakari@hi.no>
Diff between ggFishPlots versions 0.3.0 dated 2024-06-26 and 0.4.0 dated 2026-02-10
DESCRIPTION | 18 MD5 | 58 +- NAMESPACE | 1 R/plot_catchcurve.R | 441 ++++++++++++----- R/plot_growth.R | 748 ++++++++++++++++++++++++------ R/plot_lw.R | 733 +++++++++++++++++++++-------- R/plot_maturity.R | 582 +++++++++++++++-------- R/theme_fishplots.R | 23 R/zzz.R | 5 man/figures/README-unnamed-chunk-10-1.png |binary man/figures/README-unnamed-chunk-11-1.png |binary man/figures/README-unnamed-chunk-12-1.png |binary man/figures/README-unnamed-chunk-13-1.png |binary man/figures/README-unnamed-chunk-14-1.png |binary man/figures/README-unnamed-chunk-15-1.png |binary man/figures/README-unnamed-chunk-17-1.png |binary man/figures/README-unnamed-chunk-18-1.png |binary man/figures/README-unnamed-chunk-19-1.png |binary man/figures/README-unnamed-chunk-20-1.png |binary man/figures/README-unnamed-chunk-21-1.png |binary man/figures/README-unnamed-chunk-22-1.png |binary man/figures/README-unnamed-chunk-3-1.png |binary man/figures/README-unnamed-chunk-5-1.png |binary man/figures/README-unnamed-chunk-6-1.png |binary man/figures/README-unnamed-chunk-7-1.png |binary man/figures/README-unnamed-chunk-8-1.png |binary man/figures/README-unnamed-chunk-9-1.png |binary man/plot_growth.Rd | 6 man/plot_lw.Rd | 4 man/theme_fishplots.Rd | 6 30 files changed, 1893 insertions(+), 732 deletions(-)
Title: An Interface to the 'fastText' Library
Description: An interface to the 'fastText' library
<https://github.com/facebookresearch/fastText>. The package
can be used for text classification and to learn word vectors.
An example how to use 'fastTextR' can be found in the 'README' file.
Author: Florian Schwendinger [aut],
Emil Hvitfeldt [aut, cre]
Maintainer: Emil Hvitfeldt <emilhhvitfeldt@gmail.com>
Diff between fastTextR versions 2.1.0 dated 2023-12-08 and 2.1.1 dated 2026-02-10
DESCRIPTION | 11 +++--- MD5 | 16 ++++----- NEWS.md | 4 ++ build/vignette.rds |binary inst/doc/Text_classification.R | 68 ++++++++++++++++++++-------------------- inst/doc/Word_representations.R | 12 +++---- src/autotune.cc | 3 + src/densematrix.cc | 2 - src/fasttext.cc | 2 - 9 files changed, 62 insertions(+), 56 deletions(-)
Title: Efficient Learning of Word Representations and Sentence
Classification
Description: An interface to the 'fastText' <https://github.com/facebookresearch/fastText> library for efficient learning of word representations and sentence classification. The 'fastText' algorithm is explained in detail in (i) "Enriching Word Vectors with subword Information", Piotr Bojanowski, Edouard Grave, Armand Joulin, Tomas Mikolov, 2017, <doi:10.1162/tacl_a_00051>; (ii) "Bag of Tricks for Efficient Text Classification", Armand Joulin, Edouard Grave, Piotr Bojanowski, Tomas Mikolov, 2017, <doi:10.18653/v1/e17-2068>; (iii) "FastText.zip: Compressing text classification models", Armand Joulin, Edouard Grave, Piotr Bojanowski, Matthijs Douze, Herve Jegou, Tomas Mikolov, 2016, <doi:10.48550/arXiv.1612.03651>.
Author: Lampros Mouselimis [aut, cre] ,
Facebook Inc [cph]
Maintainer: Lampros Mouselimis <mouselimislampros@gmail.com>
Diff between fastText versions 1.0.5 dated 2026-01-09 and 1.0.6 dated 2026-02-10
DESCRIPTION | 8 ++++---- MD5 | 11 ++++++----- NEWS.md | 5 +++++ README.md |only inst/doc/language_identification.html | 4 ++-- inst/doc/the_fastText_R_package.html | 4 ++-- src/fasttext.cc | 3 ++- 7 files changed, 21 insertions(+), 14 deletions(-)
Title: Create Interactive Graphs with 'Echarts JavaScript' Version 6
Description: Easily create interactive charts by leveraging the 'Echarts Javascript' library which includes
36 chart types, themes, 'Shiny' proxies and animations.
Author: John Coene [aut, cph],
David Munoz Tord [cre, ctb] ,
Wei Su [ctb],
Helgasoft [ctb],
Xianying Tan [ctb] ,
Robin Cura [ctb] ,
Mathida Chuk [ctb],
Robert Koetsier [ctb] ,
Jelle Geertsma [ctb],
Teofil Nakov [ctb],
Patrick Rekieta [ctb] ,
Jacci Ziebert [c [...truncated...]
Maintainer: David Munoz Tord <david.munoztord@mailbox.org>
Diff between echarts4r versions 0.4.6 dated 2025-09-11 and 0.5.0 dated 2026-02-10
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Title: Leveraging Experiment Lines to Data Analytics
Description: The natural increase in the complexity of current research experiments and data demands better tools to enhance productivity in Data Analytics. The package is a framework designed to address the modern challenges in data analytics workflows. The package is inspired by Experiment Line concepts. It aims to provide seamless support for users in developing their data mining workflows by offering a uniform data model and method API. It enables the integration of various data mining activities, including data preprocessing, classification, regression, clustering, and time series prediction. It also offers options for hyper-parameter tuning and supports integration with existing libraries and languages. Overall, the package provides researchers with a comprehensive set of functionalities for data science, promoting ease of use, extensibility, and integration with various tools and libraries. Information on Experiment Line is based on Ogasawara et al. (2009) <doi:10.1007/978-3-642-02279-1_2 [...truncated...]
Author: Eduardo Ogasawara [aut, ths, cre] ,
Ana Carolina Sa [aut],
Antonio Castro [aut],
Caio Santos [aut],
Diego Carvalho [ctb],
Diego Salles [aut],
Eduardo Bezerra [ctb],
Esther Pacitti [ctb],
Fabio Porto [ctb],
Janio Lima [aut],
Lucas Tavares [aut],
Rafae [...truncated...]
Maintainer: Eduardo Ogasawara <eogasawara@ieee.org>
Diff between daltoolbox versions 1.2.747 dated 2025-10-27 and 1.3.717 dated 2026-02-10
daltoolbox-1.2.747/daltoolbox/R/graphics.R |only daltoolbox-1.3.717/daltoolbox/DESCRIPTION | 13 - daltoolbox-1.3.717/daltoolbox/MD5 | 125 ++++++++-- daltoolbox-1.3.717/daltoolbox/NAMESPACE | 88 +++++++ daltoolbox-1.3.717/daltoolbox/R/cla_bagging.R |only daltoolbox-1.3.717/daltoolbox/R/cla_boosting.R |only daltoolbox-1.3.717/daltoolbox/R/cla_glm.R |only daltoolbox-1.3.717/daltoolbox/R/cla_glmnet.R |only daltoolbox-1.3.717/daltoolbox/R/cla_multinom.R |only daltoolbox-1.3.717/daltoolbox/R/cla_rpart.R |only daltoolbox-1.3.717/daltoolbox/R/cla_xgboost.R |only daltoolbox-1.3.717/daltoolbox/R/clu_cmeans.R |only daltoolbox-1.3.717/daltoolbox/R/clu_gmm.R |only daltoolbox-1.3.717/daltoolbox/R/clu_hclust.R |only daltoolbox-1.3.717/daltoolbox/R/clu_louvain.R |only daltoolbox-1.3.717/daltoolbox/R/graphics_dal_graphics.R |only daltoolbox-1.3.717/daltoolbox/R/graphics_plot_bar.R |only daltoolbox-1.3.717/daltoolbox/R/graphics_plot_boxplot.R |only daltoolbox-1.3.717/daltoolbox/R/graphics_plot_boxplot_class.R |only daltoolbox-1.3.717/daltoolbox/R/graphics_plot_correlation.R |only daltoolbox-1.3.717/daltoolbox/R/graphics_plot_dendrogram.R |only daltoolbox-1.3.717/daltoolbox/R/graphics_plot_density.R |only daltoolbox-1.3.717/daltoolbox/R/graphics_plot_density_class.R |only daltoolbox-1.3.717/daltoolbox/R/graphics_plot_groupedbar.R |only daltoolbox-1.3.717/daltoolbox/R/graphics_plot_hist.R |only daltoolbox-1.3.717/daltoolbox/R/graphics_plot_lollipop.R |only daltoolbox-1.3.717/daltoolbox/R/graphics_plot_pair.R |only daltoolbox-1.3.717/daltoolbox/R/graphics_plot_pair_adv.R |only daltoolbox-1.3.717/daltoolbox/R/graphics_plot_parallel.R |only daltoolbox-1.3.717/daltoolbox/R/graphics_plot_pieplot.R |only daltoolbox-1.3.717/daltoolbox/R/graphics_plot_pixel.R |only daltoolbox-1.3.717/daltoolbox/R/graphics_plot_points.R |only daltoolbox-1.3.717/daltoolbox/R/graphics_plot_radar.R |only daltoolbox-1.3.717/daltoolbox/R/graphics_plot_scatter.R |only daltoolbox-1.3.717/daltoolbox/R/graphics_plot_series.R |only daltoolbox-1.3.717/daltoolbox/R/graphics_plot_stackedbar.R |only daltoolbox-1.3.717/daltoolbox/R/graphics_plot_ts.R |only daltoolbox-1.3.717/daltoolbox/R/graphics_plot_ts_pred.R |only daltoolbox-1.3.717/daltoolbox/R/pat_apriori.R |only daltoolbox-1.3.717/daltoolbox/R/pat_cspade.R |only daltoolbox-1.3.717/daltoolbox/R/pat_eclat.R |only daltoolbox-1.3.717/daltoolbox/R/pat_pattern_miner.R |only daltoolbox-1.3.717/daltoolbox/R/reg_lm.R |only daltoolbox-1.3.717/daltoolbox/R/reg_tune.R | 2 daltoolbox-1.3.717/daltoolbox/R/trans_aggregation.R |only daltoolbox-1.3.717/daltoolbox/R/trans_feature_generation.R |only daltoolbox-1.3.717/daltoolbox/R/trans_feature_selection_corr.R |only daltoolbox-1.3.717/daltoolbox/R/trans_hierarchy_cut.R |only daltoolbox-1.3.717/daltoolbox/R/trans_imputation_simple.R |only daltoolbox-1.3.717/daltoolbox/R/trans_na_removal.R |only daltoolbox-1.3.717/daltoolbox/R/trans_sample_balance.R |only daltoolbox-1.3.717/daltoolbox/R/trans_sample_cluster.R |only daltoolbox-1.3.717/daltoolbox/R/trans_sample_simple.R |only daltoolbox-1.3.717/daltoolbox/README.md | 10 daltoolbox-1.3.717/daltoolbox/man/aggregation.Rd |only daltoolbox-1.3.717/daltoolbox/man/cla_bagging.Rd |only daltoolbox-1.3.717/daltoolbox/man/cla_boosting.Rd |only daltoolbox-1.3.717/daltoolbox/man/cla_glm.Rd |only daltoolbox-1.3.717/daltoolbox/man/cla_glmnet.Rd |only daltoolbox-1.3.717/daltoolbox/man/cla_multinom.Rd |only daltoolbox-1.3.717/daltoolbox/man/cla_rpart.Rd |only daltoolbox-1.3.717/daltoolbox/man/cla_xgboost.Rd |only daltoolbox-1.3.717/daltoolbox/man/cluster_cmeans.Rd |only daltoolbox-1.3.717/daltoolbox/man/cluster_gmm.Rd |only daltoolbox-1.3.717/daltoolbox/man/cluster_hclust.Rd |only daltoolbox-1.3.717/daltoolbox/man/cluster_louvain_graph.Rd |only daltoolbox-1.3.717/daltoolbox/man/dal_graphics.Rd | 2 daltoolbox-1.3.717/daltoolbox/man/discover.Rd |only daltoolbox-1.3.717/daltoolbox/man/feature_generation.Rd |only daltoolbox-1.3.717/daltoolbox/man/feature_selection_corr.Rd |only daltoolbox-1.3.717/daltoolbox/man/hierarchy_cut.Rd |only daltoolbox-1.3.717/daltoolbox/man/imputation_simple.Rd |only daltoolbox-1.3.717/daltoolbox/man/na_removal.Rd |only daltoolbox-1.3.717/daltoolbox/man/pat_apriori.Rd |only daltoolbox-1.3.717/daltoolbox/man/pat_cspade.Rd |only daltoolbox-1.3.717/daltoolbox/man/pat_eclat.Rd |only daltoolbox-1.3.717/daltoolbox/man/pattern_miner.Rd |only daltoolbox-1.3.717/daltoolbox/man/plot_bar.Rd | 2 daltoolbox-1.3.717/daltoolbox/man/plot_boxplot.Rd | 2 daltoolbox-1.3.717/daltoolbox/man/plot_boxplot_class.Rd | 2 daltoolbox-1.3.717/daltoolbox/man/plot_correlation.Rd |only daltoolbox-1.3.717/daltoolbox/man/plot_dendrogram.Rd |only daltoolbox-1.3.717/daltoolbox/man/plot_density.Rd | 2 daltoolbox-1.3.717/daltoolbox/man/plot_density_class.Rd | 2 daltoolbox-1.3.717/daltoolbox/man/plot_groupedbar.Rd | 2 daltoolbox-1.3.717/daltoolbox/man/plot_hist.Rd | 2 daltoolbox-1.3.717/daltoolbox/man/plot_lollipop.Rd | 2 daltoolbox-1.3.717/daltoolbox/man/plot_pair.Rd |only daltoolbox-1.3.717/daltoolbox/man/plot_pair_adv.Rd |only daltoolbox-1.3.717/daltoolbox/man/plot_parallel.Rd |only daltoolbox-1.3.717/daltoolbox/man/plot_pieplot.Rd | 2 daltoolbox-1.3.717/daltoolbox/man/plot_pixel.Rd |only daltoolbox-1.3.717/daltoolbox/man/plot_points.Rd | 2 daltoolbox-1.3.717/daltoolbox/man/plot_radar.Rd | 2 daltoolbox-1.3.717/daltoolbox/man/plot_scatter.Rd | 2 daltoolbox-1.3.717/daltoolbox/man/plot_series.Rd | 2 daltoolbox-1.3.717/daltoolbox/man/plot_stackedbar.Rd | 2 daltoolbox-1.3.717/daltoolbox/man/plot_ts.Rd | 2 daltoolbox-1.3.717/daltoolbox/man/plot_ts_pred.Rd | 2 daltoolbox-1.3.717/daltoolbox/man/reg_lm.Rd |only daltoolbox-1.3.717/daltoolbox/man/reg_tune.Rd | 2 daltoolbox-1.3.717/daltoolbox/man/sample_balance.Rd |only daltoolbox-1.3.717/daltoolbox/man/sample_cluster.Rd |only daltoolbox-1.3.717/daltoolbox/man/sample_simple.Rd |only 104 files changed, 222 insertions(+), 52 deletions(-)
Title: Classical Test Theory Functions
Description: A collection of common test and item analyses from a classical test theory (CTT) framework. Analyses can be applied to both dichotomous and polytomous data. Functions provide reliability analyses (alpha), item statistics, disctractor analyses, disattenuated correlations, scoring routines, and empirical ICCs.
Author: John T. Willse [aut, cre]
Maintainer: John T. Willse <measurementjohn@gmail.com>
Diff between CTT versions 2.3.3 dated 2018-09-12 and 2.3.4 dated 2026-02-10
DESCRIPTION | 16 ++++++++++------ MD5 | 6 +++--- man/distractor.analysis.Rd | 2 +- man/distractorAnalysis.Rd | 2 +- 4 files changed, 15 insertions(+), 11 deletions(-)
Title: Export or Graph and Tables to 'Microsoft' Office and Import
Figures and Tables
Description: Provides wrap functions to export and import graphics and
data frames in R to 'microsoft' office. And This package also
provide write out figures with lots of different formats.
Since people may work on the platform without GUI support, the package
also provide function to easily write out figures
to lots of different type of formats. Now this package provide function
to extract colors from all types of figures and pdf files.
Author: Kai Guo [aut, cre]
Maintainer: Kai Guo <guokai8@gmail.com>
Diff between eoffice versions 0.2.2 dated 2022-10-05 and 0.2.3 dated 2026-02-09
DESCRIPTION | 10 MD5 | 28 +- NAMESPACE | 6 R/inFigure.R | 6 R/inoffice.R | 13 R/misc.R | 2 build/vignette.rds |binary inst/doc/eoffice.R | 12 inst/doc/eoffice.Rmd | 21 - inst/doc/eoffice.html | 696 ++++++++++++++++++++++++++++---------------------- man/todocx.Rd | 2 man/toffice.Rd | 2 man/topptx.Rd | 2 man/toxlsx.Rd | 2 vignettes/eoffice.Rmd | 21 - 15 files changed, 453 insertions(+), 370 deletions(-)
Title: Ecometric Models of Trait–Environment Relationships at the
Community Level
Description: Provides a framework for modeling relationships between functional traits and both quantitative and qualitative environmental variables at the community level. It includes tools for trait binning, likelihood-based environmental estimation, model evaluation, fossil projection into modern ecometric space, and result visualization. For more details see Vermillion et al. (2018) <doi:10.1007/978-3-319-94265-0_17>, Polly et al. (2011) <doi:10.1098/rspb.2010.2233> and Polly and Head (2015) <doi:10.1017/S1089332600002953>.
Author: Maria A. Hurtado-Materon [cre, aut],
Leila Siciliano-Martina [aut],
Rachel A. Short [aut],
Jenny L. McGuire [aut],
A. Michelle Lawing [cph, aut]
Maintainer: Maria A. Hurtado-Materon <maria.h.m_1995@tamu.edu>
Diff between commecometrics versions 1.0.1 dated 2025-10-07 and 1.1.1 dated 2026-02-09
DESCRIPTION | 12 ++++++++---- MD5 | 12 ++++++------ NEWS.md | 6 ++++++ R/sensitivity_analysis.R | 4 ++++ R/sensitivity_analysis_qual.R | 4 ++++ R/summarize_traits_by_point.R | 20 ++++++++++++++++++-- inst/doc/fossil_commecometrics.html | 3 ++- 7 files changed, 48 insertions(+), 13 deletions(-)
More information about commecometrics at CRAN
Permanent link
Title: Calendrical Calculations
Description: An R implementation of the algorithms described in Reingold and
Dershowitz (4th ed., Cambridge University Press, 2018) <doi:10.1017/9781107415058>,
allowing conversion between many different calendar systems. Cultural and religious holidays
from several calendars can be calculated.
Author: Rob Hyndman [aut, cre, cph] ,
Edward Reingold [cph, ctb] ,
Nachum Dershowitz [cph, ctb]
Maintainer: Rob Hyndman <Rob.Hyndman@monash.edu>
Diff between calcal versions 1.0.1 dated 2026-01-09 and 1.0.2 dated 2026-02-09
DESCRIPTION | 6 MD5 | 54 - NEWS.md | 3 R/babylonian.R | 2 R/bahai.R | 6 R/bali.R | 8 R/chinese.R | 20 R/coptic.R | 4 R/egyptian.R | 4 R/french.R | 4 R/icelandic.R | 4 R/kdays.R | 6 R/lunar_calendars_astronomy.R | 6 R/mayan.R | 4 R/modern_hindu.R | 10 R/old_hindu.R | 4 R/persian.R | 18 R/solar_lunar_constants.R | 1227 +++++++++++++++++++++++++++++++++++++++++- R/tibetan.R | 2 R/timezones.R | 2 R/zzz.R | 12 inst/doc/new_calendar.html | 4 man/bahai_new_year.Rd | 2 man/balinese_date.Rd | 2 man/persian_date.Rd | 2 man/tibetan_date.Rd | 2 tests/testthat/test-common.R | 8 tests/testthat/test-hindu.R | 4 28 files changed, 1314 insertions(+), 116 deletions(-)
Title: Modeling, Standardization and Testing for Provider Profiling
Description: Implements linear and generalized linear models for provider profiling,
incorporating both fixed and random effects. For large-scale providers, the linear
profiled-based method and the SerBIN method for binary data
reduce the computational burden. Provides post-modeling features, such as
indirect and direct standardization measures, hypothesis testing,
confidence intervals, and post-estimation visualization.
For more information, see Wu et al. (2022) <doi:10.1002/sim.9387>.
Author: Xiaohan Liu [aut, cre],
Lingfeng Luo [aut],
Yubo Shao [aut],
Xiangeng Fang [aut],
Wenbo Wu [aut],
Kevin He [aut]
Maintainer: Xiaohan Liu <xhliuu@umich.edu>
Diff between pprof versions 1.0.2 dated 2025-06-20 and 1.0.3 dated 2026-02-09
pprof-1.0.2/pprof/tests/testthat/test-SM_output.linear_fe.R |only pprof-1.0.2/pprof/tests/testthat/test-confint.linear_fe.R |only pprof-1.0.2/pprof/tests/testthat/test-test.linear_fe.R |only pprof-1.0.2/pprof/tests/testthat/test-test.linear_re.R |only pprof-1.0.3/pprof/DESCRIPTION | 14 +- pprof-1.0.3/pprof/MD5 | 76 ++++++++---- pprof-1.0.3/pprof/NAMESPACE | 17 ++ pprof-1.0.3/pprof/R/RcppExports.R | 12 + pprof-1.0.3/pprof/R/SM_output.linear_cre.R |only pprof-1.0.3/pprof/R/SM_output.logis_cre.R |only pprof-1.0.3/pprof/R/SM_output.logis_re.R | 6 pprof-1.0.3/pprof/R/caterpillar_plot.R | 4 pprof-1.0.3/pprof/R/confint.linear_cre.R |only pprof-1.0.3/pprof/R/confint.logis_cre.R |only pprof-1.0.3/pprof/R/linear_cre.R |only pprof-1.0.3/pprof/R/logis_cre.R |only pprof-1.0.3/pprof/R/logis_fe.R | 12 + pprof-1.0.3/pprof/R/logis_firth.R |only pprof-1.0.3/pprof/R/pprof.R | 12 + pprof-1.0.3/pprof/R/summary.linear_cre.R |only pprof-1.0.3/pprof/R/summary.linear_fe.R | 8 - pprof-1.0.3/pprof/R/summary.logis_cre.R |only pprof-1.0.3/pprof/R/summary.logis_re.R | 10 - pprof-1.0.3/pprof/R/test.linear_cre.R |only pprof-1.0.3/pprof/R/test.logis_cre.R |only pprof-1.0.3/pprof/R/test.logis_fe.R | 5 pprof-1.0.3/pprof/R/test.logis_re.R | 2 pprof-1.0.3/pprof/README.md | 4 pprof-1.0.3/pprof/man/SM_output.linear_cre.Rd |only pprof-1.0.3/pprof/man/SM_output.logis_cre.Rd |only pprof-1.0.3/pprof/man/confint.linear_cre.Rd |only pprof-1.0.3/pprof/man/confint.logis_cre.Rd |only pprof-1.0.3/pprof/man/linear_cre.Rd |only pprof-1.0.3/pprof/man/logis_cre.Rd |only pprof-1.0.3/pprof/man/logis_fe.Rd | 2 pprof-1.0.3/pprof/man/logis_firth.Rd |only pprof-1.0.3/pprof/man/summary.linear_fe.Rd | 29 +++- pprof-1.0.3/pprof/man/summary.logis_re.Rd | 28 +++- pprof-1.0.3/pprof/man/test.linear_cre.Rd |only pprof-1.0.3/pprof/man/test.logis_cre.Rd |only pprof-1.0.3/pprof/src/Firth.cpp |only pprof-1.0.3/pprof/src/Fixed_effect.cpp | 15 +- pprof-1.0.3/pprof/src/Makevars | 7 - pprof-1.0.3/pprof/src/Makevars.win | 9 - pprof-1.0.3/pprof/src/RcppExports.cpp | 54 ++++++++ pprof-1.0.3/pprof/src/header.h | 15 +- pprof-1.0.3/pprof/tests/testthat/test-SM_output.R |only pprof-1.0.3/pprof/tests/testthat/test-confint.R |only pprof-1.0.3/pprof/tests/testthat/test-linear_cre.R |only pprof-1.0.3/pprof/tests/testthat/test-linear_re.R | 2 pprof-1.0.3/pprof/tests/testthat/test-logis_cre.R |only pprof-1.0.3/pprof/tests/testthat/test-logis_fe.R |only pprof-1.0.3/pprof/tests/testthat/test-logis_re.R |only pprof-1.0.3/pprof/tests/testthat/test-plots.R |only pprof-1.0.3/pprof/tests/testthat/test-summary.R |only pprof-1.0.3/pprof/tests/testthat/test-test.R |only 56 files changed, 263 insertions(+), 80 deletions(-)
Title: Statistical Methods for Analytical Method Comparison and
Validation
Description: Provides statistical methods for analytical method comparison and
validation studies. Implements Bland-Altman analysis for assessing agreement
between measurement methods (Bland & Altman (1986) <doi:10.1016/S0140-6736(86)90837-8>),
Passing-Bablok regression for non-parametric method comparison
(Passing & Bablok (1983) <doi:10.1515/cclm.1983.21.11.709>), and Deming
regression accounting for measurement error in both variables
(Linnet (1993) <doi:10.1093/clinchem/39.3.424>). Also includes tools for
setting quality goals based on biological variation (Fraser & Petersen (1993)
<doi:10.1093/clinchem/39.7.1447>) and calculating Six Sigma metrics,
precision experiments with variance component analysis, precision
profiles for functional sensitivity estimation (Kroll & Emancipator (1993)
<https://pubmed.ncbi.nlm.nih.gov/8448849/>). Commonly used in clinical
laboratory method validation. Provides publication-ready plots and
comprehensive statistical [...truncated...]
Author: Marcello Grassi [aut, cre]
Maintainer: Marcello Grassi <marcello.grassi@tum.de>
Diff between valytics versions 0.3.0 dated 2026-01-22 and 0.4.0 dated 2026-02-09
DESCRIPTION | 20 - MD5 | 46 ++- NAMESPACE | 35 ++ NEWS.md | 79 +++++- R/data.R | 412 +++++++++++++++++++------------- R/precision_methods.R |only R/precision_plot.R |only R/precision_profile.R |only R/precision_profile_methods.R |only R/precision_profile_plot.R |only R/precision_study.R |only R/valytics-package.R | 27 +- R/verify_precision.R |only build/vignette.rds |binary data/troponin_precision.rda |only inst/WORDLIST | 22 + inst/doc/precision-profiles.R |only inst/doc/precision-profiles.Rmd |only inst/doc/precision-profiles.html |only man/plot.precision_profile.Rd |only man/plot.precision_study.Rd |only man/precision_profile.Rd |only man/precision_study.Rd |only man/print.precision_profile.Rd |only man/print.precision_study.Rd |only man/print.summary.precision_profile.Rd |only man/print.summary.precision_study.Rd |only man/print.summary.verify_precision.Rd |only man/print.verify_precision.Rd |only man/summary.precision_profile.Rd |only man/summary.precision_study.Rd |only man/summary.verify_precision.Rd |only man/troponin_precision.Rd |only man/valytics-package.Rd | 2 man/verify_precision.Rd |only tests/testthat/test-precision_profile.R |only tests/testthat/test-precision_study.R |only tests/testthat/test-verify_precision.R |only vignettes/precision-profiles.Rmd |only 39 files changed, 451 insertions(+), 192 deletions(-)
Title: Explore 'Wikidata' Through Tidy Data Frames
Description: Query 'Wikidata' API <https://www.wikidata.org/wiki/Wikidata:Main_Page> with ease, get tidy data frames in response, and cache data in a local database.
Author: Giorgio Comai [aut, cre, cph] ,
EDJNet [fnd]
Maintainer: Giorgio Comai <giorgio.comai@cci.tn.it>
This is a re-admission after prior archival of version 0.6.0 dated 2026-02-04
Diff between tidywikidatar versions 0.6.0 dated 2026-02-04 and 0.6.1 dated 2026-02-09
DESCRIPTION | 14 ++--- MD5 | 48 +++++++++-------- NAMESPACE | 1 NEWS.md | 5 + R/data.R | 4 - R/tw_extract.R | 107 ++++++++++++++++++--------------------- R/tw_get.R | 37 ++++++------- R/tw_get_item.R |only R/tw_get_property_with_details.R | 4 - R/tw_get_qualifiers.R | 20 ++----- R/tw_search.R | 18 ++++-- README.md | 4 - data/tw_test_items.rda |binary man/tw_extract_qualifier.Rd | 10 +-- man/tw_extract_single.Rd | 14 +---- man/tw_get.Rd | 8 ++ man/tw_get_item.Rd |only man/tw_get_qualifiers.Rd | 2 man/tw_get_qualifiers_single.Rd | 2 man/tw_get_single.Rd | 8 ++ man/tw_search.Rd | 4 + man/tw_search_item.Rd | 4 + man/tw_search_property.Rd | 4 + man/tw_search_single.Rd | 4 + man/tw_test_items.Rd | 6 +- tests/testthat/test-get.R | 2 26 files changed, 178 insertions(+), 152 deletions(-)
Title: APSIM Next Generation
Description: The Agricultural Production Systems sIMulator ('APSIM') is a widely
used to simulate the agricultural systems for multiple crops. This package
is designed to create, modify and run 'apsimx' files in the 'APSIM' Next
Generation <https://www.apsim.info/>.
Author: Bangyou Zheng [aut, cre]
Maintainer: Bangyou Zheng <zheng.bangyou@gmail.com>
Diff between rapsimng versions 0.4.5 dated 2025-09-22 and 0.4.6 dated 2026-02-09
DESCRIPTION | 12 +- MD5 | 19 ++-- NAMESPACE | 3 R/apsimx_build.R | 126 +++++++++++++++++++++++++++--- R/cultivar.R | 8 + R/soil.R |only README.md | 9 ++ inst/extdata/wheat.apsimx | 172 ++++++++++++++++++++++++++++++++--------- man/get_pawc.Rd |only man/install_apsimng.Rd |only man/split_apsimx.Rd |only tests/testthat/test-cultivar.R | 5 - tests/testthat/test-soil.R |only 13 files changed, 294 insertions(+), 60 deletions(-)
Title: Genomic Annotation in Livestock for Positional Candidate LOci
Description: The accurate annotation of genes and Quantitative Trait Loci (QTLs) located within candidate markers and/or regions (haplotypes, windows, CNVs, etc) is a crucial step the most common genomic analyses performed in livestock, such as Genome-Wide Association Studies or transcriptomics. The Genomic Annotation in Livestock for positional candidate LOci (GALLO) is an R package designed to provide an intuitive and straightforward environment to annotate positional candidate genes and QTLs from high-throughput genetic studies in livestock. Moreover, GALLO allows the graphical visualization of gene and QTL annotation results, data comparison among different grouping factors (e.g., methods, breeds, tissues, statistical models, studies, etc.), and QTL enrichment in different livestock species including cattle, pigs, sheep, and chicken, among others.
Author: Pablo Fonseca [aut, cre],
Aroa Suarez-Vega [aut],
Gabriele Marras [aut],
Angela Canovas [aut]
Maintainer: Pablo Fonseca <p.fonseca@csic.es>
Diff between GALLO versions 1.5 dated 2024-06-04 and 2.0 dated 2026-02-09
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Title: Structured Project Standards for R and 'Quarto'
Description: Provides an opinionated project scaffold for R and 'Quarto' analysis work, enforcing a consistent directory layout with scripts in R/, .qmd files in pages/, and assets in www/. The primary entry point, init(), downloads the latest template from a companion GitHub repository so that project structure evolves independently of package releases. Supports persistent author metadata and 'Quarto' brand configuration that carry across projects automatically.
Author: Kyle Grealis [aut, cre]
Maintainer: Kyle Grealis <kyleGrealis@proton.me>
Diff between froggeR versions 0.6.0 dated 2025-11-14 and 1.0.0 dated 2026-02-09
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Title: Archive and Unarchive Databases Using Flat Files
Description: Flat text files provide a robust, compressible, and portable
way to store tables from databases. This package provides convenient
functions for exporting tables from relational database connections
into compressed text files and streaming those text files back into
a database without requiring the whole table to fit in working memory.
Author: Carl Boettiger [aut, cre, cph] ,
Richard FitzJohn [ctb],
Brandon Bertelsen [ctb]
Maintainer: Carl Boettiger <cboettig@gmail.com>
Diff between arkdb versions 0.0.18 dated 2024-01-15 and 0.0.19 dated 2026-02-09
DESCRIPTION | 12 ++--- MD5 | 22 +++++----- NEWS.md | 4 + R/streamable_table.R | 67 +++++++++++++++----------------- README.md | 13 +++++- build/vignette.rds |binary inst/doc/arkdb.R | 8 +-- inst/doc/arkdb.Rmd | 4 - inst/doc/arkdb.html | 99 ++++++++++++++++++++++-------------------------- man/arkdb-package.Rd | 1 man/streamable_table.Rd | 4 - vignettes/arkdb.Rmd | 4 - 12 files changed, 122 insertions(+), 116 deletions(-)
Title: Build Tables in the OMOP Common Data Model
Description: Provides functionality to construct standardised tables from health
care data formatted according to the Observational Medical Outcomes
Partnership (OMOP) Common Data Model. The package includes tools to build
key tables such as observation period and drug era, among others.
Author: Marti Catala [aut, cre] ,
Elin Rowlands [ctb] ,
Cecilia Campanile [ctb]
Maintainer: Marti Catala <marti.catalasabate@ndorms.ox.ac.uk>
Diff between OmopConstructor versions 0.1.0 dated 2025-09-30 and 0.2.0 dated 2026-02-09
DESCRIPTION | 12 MD5 | 40 NAMESPACE | 15 NEWS.md |only R/OmopConstructor-package.R | 18 R/buildDrugEra.R |only R/buildObservationPeriod.R | 606 ++--- R/collapseRecords.R | 268 +- README.md | 238 +- build/vignette.rds |binary inst/doc/buildObservationPeriod.R | 612 ++--- inst/doc/buildObservationPeriod.Rmd | 878 ++++---- inst/doc/buildObservationPeriod.html | 2866 ++++++++++++++------------- man/OmopConstructor-package.Rd | 58 man/buildDrugEra.Rd |only man/buildObservationPeriod.Rd | 88 man/collapseRecords.Rd | 67 tests/testthat.R | 24 tests/testthat/setup.R | 142 - tests/testthat/test-buildDrugEra.R |only tests/testthat/test-buildObservationPeriod.R | 984 ++++----- tests/testthat/test-collapseRecords.R | 394 +-- vignettes/buildObservationPeriod.Rmd | 878 ++++---- 23 files changed, 4213 insertions(+), 3975 deletions(-)
More information about OmopConstructor at CRAN
Permanent link
Title: Genotype Quality Control with 'PLINK'
Description: Genotyping arrays enable the direct measurement of an individuals
genotype at thousands of markers. 'plinkQC' facilitates genotype quality
control for genetic association studies as described by Anderson and
colleagues (2010) <doi:10.1038/nprot.2010.116>. It makes 'PLINK' basic
statistics (e.g. missing genotyping rates per individual, allele frequencies
per genetic marker) and relationship functions accessible from 'R' and
generates a per-individual and per-marker quality control report.
Individuals and markers that fail the quality control can subsequently be
removed to generate a new, clean dataset. Removal of individuals based on
relationship status is optimised to retain as many individuals as possible
in the study. Additionally, there is a trained classifier to predict
genomic ancestry of human samples.
Author: Hannah Meyer [aut, cre] ,
Caroline Walter [ctb],
Maha Syed [ctb]
Maintainer: Hannah Meyer <hannah.v.meyer@gmail.com>
Diff between plinkQC versions 1.0.0 dated 2025-11-25 and 1.0.1 dated 2026-02-09
DESCRIPTION | 8 ++++---- MD5 | 33 +++++++++++++++++---------------- NEWS.md | 6 +++++- R/ancestry.R | 12 +++++++----- inst/doc/AncestryCheck.html | 4 ++-- inst/doc/Genomes1000.Rmd | 2 +- inst/doc/Genomes1000.pdf |binary inst/doc/HapMap.Rmd | 4 ++-- inst/doc/HapMap.pdf |binary inst/doc/plinkQC.Rmd | 4 ++-- inst/doc/plinkQC.pdf |binary man/check_hwe.Rd | 4 ++-- man/plinkQC-package.Rd | 2 +- tests/testthat/data.clean.pheno.sscore |only tests/testthat/test-ancestry.R | 8 +++++++- vignettes/Genomes1000.Rmd | 2 +- vignettes/HapMap.Rmd | 4 ++-- vignettes/plinkQC.Rmd | 4 ++-- 18 files changed, 55 insertions(+), 42 deletions(-)
Title: Generate Machine- And Human-Readable Plot Labels for Experiments
Description: A no-frills open-source solution for designing plot labels affixed with QR
codes. It features 'EasyQrlabelr', a 'BrAPI-compliant' 'shiny' app that
simplifies the process of plot label design for non-R users. It builds on the
methods described by Wu 'et al.' (2020) <doi:10.1111/2041-210X.13405>.
Author: Alexander Wireko Kena [aut, cre] ,
Ebenezer Ogoe [aut],
Clara Cruet Burgos [aut],
Geoffrey Preston Morris [aut],
Rubi Raymundo-Carhuapoma [aut],
Yihan Wu [ctb] ,
Robert Colautti [ctb] ,
Colorado State University [cph],
Kwame Nkrumah University of Sci [...truncated...]
Maintainer: Alexander Wireko Kena <alex.kena24@gmail.com>
Diff between qrlabelr versions 0.2.0 dated 2023-12-20 and 0.2.1 dated 2026-02-09
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Title: Adaptive Dynamics and Community Matrix Model Projections
Description: Runs projections of groups of matrix projection models (MPMs),
allowing density dependence mechanisms to work across MPMs. This
package was developed to run both adaptive dynamics simulations
such as pairwise and multiple invasibility analyses, and community
projections in which species are represented by MPMs. All forms of
MPMs are allowed, including integral projection models (IPMs).
Author: Richard P. Shefferson [aut, cre]
Maintainer: Richard P. Shefferson <cdorm@g.ecc.u-tokyo.ac.jp>
Diff between adapt3 versions 1.0.1 dated 2025-07-16 and 2.0.0 dated 2026-02-09
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Title: Parse Front Matter from Documents
Description: Extracts and parses structured metadata ('YAML' or 'TOML')
from the beginning of text documents. Front matter is a common pattern
in 'Quarto' documents, 'R Markdown' documents, static site generators,
documentation systems, content management tools and even 'Python' and
'R' scripts where metadata is placed at the top of a document,
separated from the main content by delimiter fences.
Author: Garrick Aden-Buie [aut, cre] ,
Posit Software, PBC [cph, fnd]
Maintainer: Garrick Aden-Buie <garrick@posit.co>
Diff between frontmatter versions 0.1.0 dated 2026-01-14 and 0.2.0 dated 2026-02-09
frontmatter-0.1.0/frontmatter/R/default_parsers.R |only frontmatter-0.1.0/frontmatter/tests/testthat/test-default_parsers.R |only frontmatter-0.2.0/frontmatter/DESCRIPTION | 7 frontmatter-0.2.0/frontmatter/MD5 | 27 - frontmatter-0.2.0/frontmatter/NAMESPACE | 3 frontmatter-0.2.0/frontmatter/NEWS.md | 8 frontmatter-0.2.0/frontmatter/R/formats.R |only frontmatter-0.2.0/frontmatter/R/parse_front_matter.R | 46 ++ frontmatter-0.2.0/frontmatter/R/write_front_matter.R |only frontmatter-0.2.0/frontmatter/README.md | 106 +++++ frontmatter-0.2.0/frontmatter/man/format_front_matter.Rd |only frontmatter-0.2.0/frontmatter/src/extract_front_matter.cpp | 97 +++-- frontmatter-0.2.0/frontmatter/tests/testthat/_snaps |only frontmatter-0.2.0/frontmatter/tests/testthat/test-comment-formats.R | 6 frontmatter-0.2.0/frontmatter/tests/testthat/test-formats.R |only frontmatter-0.2.0/frontmatter/tests/testthat/test-parse_front_matter.R | 181 +++++++++- frontmatter-0.2.0/frontmatter/tests/testthat/test-whitespace.R | 6 frontmatter-0.2.0/frontmatter/tests/testthat/test-write_front_matter.R |only 18 files changed, 430 insertions(+), 57 deletions(-)
Title: Load US Census Boundary and Attribute Data as 'tidyverse' and
'sf'-Ready Data Frames
Description: An integrated R interface to several United States Census Bureau
APIs (<https://www.census.gov/data/developers/data-sets.html>) and the US Census Bureau's
geographic boundary files. Allows R users to return Census and ACS data as
tidyverse-ready data frames, and optionally returns a list-column with feature geometry for mapping
and spatial analysis.
Author: Kyle Walker [aut, cre],
Matt Herman [aut],
Kris Eberwein [ctb]
Maintainer: Kyle Walker <kyle@walker-data.com>
Diff between tidycensus versions 1.7.3 dated 2025-07-24 and 1.7.5 dated 2026-02-09
DESCRIPTION | 20 +++++++++--------- MD5 | 14 ++++++------- R/acs.R | 2 - R/estimates.R | 54 +++++++++++++++++++++++++-------------------------- R/flows.R | 2 - R/moe.R | 6 ++--- man/get_acs.Rd | 2 - man/get_estimates.Rd | 2 - 8 files changed, 51 insertions(+), 51 deletions(-)
Title: Visualise OMOP Results using 'shiny' Applications
Description: Visualise results obtained from analysing data mapped to the
Observational Medical Outcomes Partnership (OMOP) common data model using
'shiny' applications.
Author: Marti Catala [aut, cre] ,
Yuchen Guo [aut] ,
Edward Burn [ctb] ,
Nuria Mercade-Besora [ctb] ,
Elin Rowlands [ctb] ,
Cecilia Campanile [ctb]
Maintainer: Marti Catala <marti.catalasabate@ndorms.ox.ac.uk>
Diff between OmopViewer versions 0.6.0 dated 2025-12-10 and 0.7.0 dated 2026-02-09
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Title: Dynamic Function-Oriented 'Make'-Like Declarative Pipelines
Description: Pipeline tools coordinate the pieces of computationally
demanding analysis projects.
The 'targets' package is a 'Make'-like pipeline tool for statistics and
data science in R. The package skips costly runtime for tasks
that are already up to date,
orchestrates the necessary computation with implicit parallel computing,
and abstracts files as R objects. If all the current output matches
the current upstream code and data, then the whole pipeline is up
to date, and the results are more trustworthy than otherwise.
The methodology in this package
borrows from GNU 'Make' (2015, ISBN:978-9881443519)
and 'drake' (2018, <doi:10.21105/joss.00550>).
Author: William Michael Landau [aut, cre] ,
Matthew T. Warkentin [ctb],
Mark Edmondson [ctb] ,
Samantha Oliver [rev] ,
Tristan Mahr [rev] ,
Eli Lilly and Company [cph, fnd]
Maintainer: William Michael Landau <will.landau.oss@gmail.com>
Diff between targets versions 1.11.4 dated 2025-09-13 and 1.12.0 dated 2026-02-09
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targets-1.12.0/targets/tests/hpc/test-crew_local.R | 8 targets-1.12.0/targets/tests/hpc/test-future_local.R | 8 targets-1.12.0/targets/tests/hpc/test-retrieval.R | 4 targets-1.12.0/targets/tests/performance/test-memory.R | 8 targets-1.12.0/targets/tests/testthat/helper-utils.R | 11 targets-1.12.0/targets/tests/testthat/test-class_balanced.R |only targets-1.12.0/targets/tests/testthat/test-class_builder.R | 19 targets-1.12.0/targets/tests/testthat/test-class_clustermq.R | 73 ++- targets-1.12.0/targets/tests/testthat/test-class_crew.R | 40 - targets-1.12.0/targets/tests/testthat/test-class_options.R | 8 targets-1.12.0/targets/tests/testthat/test-class_parallel.R | 21 targets-1.12.0/targets/tests/testthat/test-class_runtime.R | 8 targets-1.12.0/targets/tests/testthat/test-class_terse.R | 2 targets-1.12.0/targets/tests/testthat/test-class_torch.R | 16 targets-1.12.0/targets/tests/testthat/test-class_vector.R | 4 targets-1.12.0/targets/tests/testthat/test-tar_envvars.R | 3 targets-1.12.0/targets/tests/testthat/test-tar_format.R | 2 targets-1.12.0/targets/tests/testthat/test-tar_igraph.R |only targets-1.12.0/targets/tests/testthat/test-tar_load.R | 7 targets-1.12.0/targets/tests/testthat/test-tar_make.R | 8 targets-1.12.0/targets/tests/testthat/test-tar_make_clustermq.R | 14 targets-1.12.0/targets/tests/testthat/test-tar_option_set.R | 4 targets-1.12.0/targets/tests/testthat/test-tar_option_unset.R |only targets-1.12.0/targets/tests/testthat/test-tar_path_target.R | 20 targets-1.12.0/targets/tests/testthat/test-tar_repository_cas.R | 4 113 files changed, 653 insertions(+), 475 deletions(-)
Title: Archetypes for Targets
Description: Function-oriented Make-like declarative pipelines for
Statistics and data science are supported in the 'targets' R package.
As an extension to 'targets', the 'tarchetypes' package provides
convenient user-side functions to make 'targets' easier to use.
By establishing reusable archetypes for common kinds of
targets and pipelines, these functions help express complicated
reproducible pipelines concisely and compactly.
The methods in this package were influenced by the 'targets' R package.
by Will Landau (2018) <doi:10.21105/joss.00550>.
Author: William Michael Landau [aut, cre] ,
Rudolf Siegel [ctb] ,
Samantha Oliver [rev] ,
Tristan Mahr [rev] ,
Eli Lilly and Company [cph, fnd]
Maintainer: William Michael Landau <will.landau.oss@gmail.com>
Diff between tarchetypes versions 0.13.2 dated 2025-09-13 and 0.14.0 dated 2026-02-09
DESCRIPTION | 11 +- MD5 | 182 +++++++++++++++++------------------ NAMESPACE | 1 NEWS.md | 10 + R/tar_age.R | 15 ++ R/tar_assign.R | 6 - R/tar_change.R | 7 - R/tar_combine.R | 9 - R/tar_download.R | 7 - R/tar_eval.R | 8 - R/tar_file_read.R | 6 - R/tar_files.R | 4 R/tar_files_input.R | 4 R/tar_force.R | 4 R/tar_formats.R | 8 - R/tar_group_by.R | 6 - R/tar_group_count.R | 6 - R/tar_group_select.R | 6 - R/tar_group_size.R | 6 - R/tar_hook_before.R | 11 +- R/tar_hook_inner.R | 7 - R/tar_hook_outer.R | 7 - R/tar_knit.R | 4 R/tar_map.R | 24 ++-- R/tar_map2.R | 6 - R/tar_map2_count.R | 6 - R/tar_map2_size.R | 6 - R/tar_map_rep.R | 6 - R/tar_plan.R | 18 ++- R/tar_quarto.R | 6 - R/tar_quarto_rep.R | 6 - R/tar_quarto_rep_raw.R | 17 +++ R/tar_render.R | 23 +++- R/tar_render_rep.R | 6 - R/tar_rep.R | 2 R/tar_rep2.R | 6 - R/tar_rep_map.R | 6 - R/tar_rep_map_raw.R | 6 - R/tar_select_names.R | 6 - R/tar_select_targets.R | 14 +- R/tar_skip.R | 8 - R/tar_sub.R | 6 - R/tar_tangle.R |only inst/WORDLIST | 4 inst/example_tar_tangle.qmd |only man/tar_age.Rd | 28 +++-- man/tar_assign.Rd | 22 ++-- man/tar_change.Rd | 19 ++- man/tar_combine.Rd | 21 ++-- man/tar_cue_age.Rd | 11 +- man/tar_download.Rd | 19 ++- man/tar_eval.Rd | 20 ++- man/tar_file_read.Rd | 18 +-- man/tar_files.Rd | 16 +-- man/tar_files_input.Rd | 16 +-- man/tar_force.Rd | 16 +-- man/tar_formats.Rd | 16 +-- man/tar_formats_superseded.Rd | 16 +-- man/tar_group_by.Rd | 18 +-- man/tar_group_count.Rd | 18 +-- man/tar_group_select.Rd | 18 +-- man/tar_group_size.Rd | 18 +-- man/tar_hook_before.Rd | 23 ++-- man/tar_hook_inner.Rd | 23 ++-- man/tar_hook_outer.Rd | 23 ++-- man/tar_knit.Rd | 16 +-- man/tar_map.Rd | 24 ++-- man/tar_map2.Rd | 18 +-- man/tar_map2_count.Rd | 18 +-- man/tar_map2_size.Rd | 18 +-- man/tar_map_rep.Rd | 18 +-- man/tar_plan.Rd | 31 +++-- man/tar_quarto.Rd | 18 +-- man/tar_quarto_rep.Rd | 18 +-- man/tar_render.Rd | 37 +++++-- man/tar_render_rep.Rd | 18 +-- man/tar_rep.Rd | 14 +- man/tar_rep2.Rd | 18 +-- man/tar_rep_map.Rd | 18 +-- man/tar_rep_map_raw.Rd | 18 +-- man/tar_select_names.Rd | 18 +-- man/tar_select_targets.Rd | 26 ++--- man/tar_skip.Rd | 20 ++- man/tar_sub.Rd | 18 +-- man/tar_tangle.Rd |only tests/testthat/test-tar_map2.R | 84 ++++++++-------- tests/testthat/test-tar_map2_count.R | 42 ++++---- tests/testthat/test-tar_map2_size.R | 42 ++++---- tests/testthat/test-tar_map_rep.R | 136 +++++++++++++------------- tests/testthat/test-tar_quarto.R | 2 tests/testthat/test-tar_quarto_rep.R | 1 tests/testthat/test-tar_rep2.R | 38 +++---- tests/testthat/test-tar_rep_map.R | 38 +++---- tests/testthat/test-tar_tangle.R |only 94 files changed, 927 insertions(+), 736 deletions(-)
Title: Non-Longitudinal Bayesian Historical Borrowing Models
Description: Historical borrowing in clinical trials can improve
precision and operating characteristics. This package supports
a hierarchical model and a mixture model to borrow historical
control data from other studies to better characterize the
control response of the current study. It also quantifies
the amount of borrowing through benchmark models (independent
and pooled). Some of the methods are discussed by
Viele et al. (2013) <doi:10.1002/pst.1589>.
Author: William Michael Landau [aut, cre] ,
Albert Man [rev],
Eli Lilly and Company [cph]
Maintainer: William Michael Landau <will.landau.oss@gmail.com>
Diff between historicalborrow versions 1.1.0 dated 2024-09-10 and 1.1.1 dated 2026-02-09
DESCRIPTION | 10 +++++----- MD5 | 16 ++++++++-------- build/vignette.rds |binary inst/doc/methods.Rmd | 4 ++-- inst/doc/methods.html | 24 +++++++++++++----------- inst/doc/usage.html | 12 ++++++------ tests/testthat/test-hb_ess.R | 12 ++++++------ vignettes/bibliography.bib | 12 ++++++------ vignettes/methods.Rmd | 4 ++-- 9 files changed, 48 insertions(+), 46 deletions(-)
More information about historicalborrow at CRAN
Permanent link
Title: Box-Cox Symmetric Regression for Non-Negative Data
Description: A collection of tools for regression analysis of non-negative data,
including strictly positive and zero-inflated observations, based on the class of the Box-Cox
symmetric (BCS) distributions and its zero-adjusted extension. The BCS distributions are a
class of flexible probability models capable of describing different levels of skewness and
tail-heaviness. The package offers a comprehensive regression modeling framework, including
estimation and tools for evaluating goodness-of-fit.
Author: Felipe Queiroz [aut] ,
Rodrigo Medeiros [aut, cre, cph]
Maintainer: Rodrigo Medeiros <rodrigo.matheus@ufrn.br>
Diff between BCSreg versions 1.1.0 dated 2026-01-12 and 1.1.1 dated 2026-02-09
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 3 +++ tests/testthat/test-bcno.R | 26 +++++++++++++------------- 4 files changed, 22 insertions(+), 19 deletions(-)
Title: Three-Way Component Analysis
Description: Component analysis for three-way data arrays by means of Candecomp/Parafac, Tucker3, Tucker2 and Tucker1 models.
Author: Maria Antonietta Del Ferraro [aut],
Paolo Giordani [aut, cre],
Henk A.L. Kiers [aut]
Maintainer: Paolo Giordani <paolo.giordani@uniroma1.it>
Diff between ThreeWay versions 1.1.3 dated 2015-09-07 and 1.1.4 dated 2026-02-09
DESCRIPTION | 28 +++++++++++++++++++++------- MD5 | 32 ++++++++++++++++---------------- inst/CITATION | 19 +++++++------------ man/CP.Rd | 2 +- man/CPdimensionalityplot.Rd | 6 +++--- man/Kinship.Rd | 4 ++-- man/T1.Rd | 2 +- man/T2.Rd | 2 +- man/T2func.Rd | 4 ++-- man/T2funcrep.Rd | 4 ++-- man/T3.Rd | 2 +- man/T3dimensionalityplot.Rd | 6 +++--- man/T3func.Rd | 6 +++--- man/T3funcrep.Rd | 6 +++--- man/TV.Rd | 10 +++++----- man/pcamean.Rd | 2 +- man/threewayanova.Rd | 2 +- 17 files changed, 73 insertions(+), 64 deletions(-)
Title: Stable Isotope Bayesian Ellipses in R
Description: Fits bi-variate ellipses to stable isotope data using Bayesian
inference with the aim being to describe and compare their isotopic
niche.
Author: Andrew Jackson [aut, cre] ,
Andrew Parnell [aut]
Maintainer: Andrew Jackson <jacksoan@tcd.ie>
Diff between SIBER versions 2.1.9 dated 2023-10-19 and 2.1.10 dated 2026-02-09
SIBER-2.1.10/SIBER/DESCRIPTION | 19 +- SIBER-2.1.10/SIBER/MD5 | 46 ++--- SIBER-2.1.10/SIBER/NAMESPACE | 4 SIBER-2.1.10/SIBER/NEWS.md | 3 SIBER-2.1.10/SIBER/R/createSiberObject.R | 2 SIBER-2.1.10/SIBER/build/partial.rdb |binary SIBER-2.1.10/SIBER/build/vignette.rds |binary SIBER-2.1.10/SIBER/inst/doc/Centroid-Vectors.html | 9 - SIBER-2.1.10/SIBER/inst/doc/Customising-Plots-Manually.html | 7 SIBER-2.1.10/SIBER/inst/doc/Ellipse-Overlap.html | 9 - SIBER-2.1.10/SIBER/inst/doc/Introduction-to-SIBER.html | 19 +- SIBER-2.1.10/SIBER/inst/doc/Plot-SIA-ggplot2.html | 71 ++++---- SIBER-2.1.10/SIBER/inst/doc/Plot-posterior-ellipses.R | 6 SIBER-2.1.10/SIBER/inst/doc/Plot-posterior-ellipses.Rmd | 6 SIBER-2.1.10/SIBER/inst/doc/Plot-posterior-ellipses.html | 13 - SIBER-2.1.10/SIBER/inst/doc/Points-Inside-Outside-Ellipse.html | 11 - SIBER-2.1.10/SIBER/inst/doc/Test-convergence.html | 19 +- SIBER-2.1.10/SIBER/inst/doc/siber-comparing-communities.html | 15 - SIBER-2.1.10/SIBER/inst/doc/siber-comparing-populations.html | 85 +++++----- SIBER-2.1.10/SIBER/vignettes/Plot-posterior-ellipses.Rmd | 6 SIBER-2.1.9/SIBER/R/kapow.R |only SIBER-2.1.9/SIBER/R/siberKapow.R |only SIBER-2.1.9/SIBER/inst/doc/kapow-example.R |only SIBER-2.1.9/SIBER/inst/doc/kapow-example.Rmd |only SIBER-2.1.9/SIBER/inst/doc/kapow-example.html |only SIBER-2.1.9/SIBER/man/kapow.Rd |only SIBER-2.1.9/SIBER/man/siberKapow.Rd |only SIBER-2.1.9/SIBER/vignettes/kapow-example.Rmd |only 28 files changed, 178 insertions(+), 172 deletions(-)
Title: Text Tokenization using Byte Pair Encoding and Unigram Modelling
Description: Unsupervised text tokenizer allowing to perform byte pair encoding and unigram modelling.
Wraps the 'sentencepiece' library <https://github.com/google/sentencepiece> which provides a language independent tokenizer to split text in words and smaller subword units.
The techniques are explained in the paper "SentencePiece: A simple and language independent subword tokenizer and detokenizer for Neural Text Processing" by Taku Kudo and John Richardson (2018) <doi:10.18653/v1/D18-2012>.
Provides as well straightforward access to pretrained byte pair encoding models and subword embeddings trained on Wikipedia using 'word2vec',
as described in "BPEmb: Tokenization-free Pre-trained Subword Embeddings in 275 Languages" by Benjamin Heinzerling and Michael Strube (2018) <http://www.lrec-conf.org/proceedings/lrec2018/pdf/1049.pdf>.
Author: Jan Wijffels [aut, cre, cph] ,
BNOSAC [cph] ,
Google Inc. [ctb, cph] ,
The Abseil Authors [ctb, cph] ,
Google Inc. [ctb, cph] ),
Kenton Varda [ctb, cph] ),
Sanjay Ghemawat [ctb, cph] ),
Jeff Dean [ctb, cph] ),
Laszlo Csomor [ctb, cph] ),
Wink Sav [...truncated...]
Maintainer: Jan Wijffels <jwijffels@bnosac.be>
Diff between sentencepiece versions 0.2.4 dated 2025-11-27 and 0.2.5 dated 2026-02-09
DESCRIPTION | 9 +++++---- MD5 | 6 +++--- NEWS.md | 4 ++++ src/Makevars | 1 + 4 files changed, 13 insertions(+), 7 deletions(-)
Title: Bayesian Deep Gaussian Processes using MCMC
Description: Performs Bayesian posterior inference for deep Gaussian
processes following Sauer, Gramacy, and Higdon (2023, <doi:10.48550/arXiv.2012.08015>).
See Sauer (2023, <http://hdl.handle.net/10919/114845>) for comprehensive
methodological details and <https://bitbucket.org/gramacylab/deepgp-ex/> for
a variety of coding examples. Models are trained through MCMC including
elliptical slice sampling of latent Gaussian layers and Metropolis-Hastings
sampling of kernel hyperparameters. Gradient-enhancement and gradient
predictions are offered following Booth (2025, <doi:10.48550/arXiv.2512.18066>).
Vecchia approximation for faster
computation is implemented following Sauer, Cooper, and Gramacy
(2023, <doi:10.48550/arXiv.2204.02904>). Optional monotonic warpings are
implemented following Barnett et al. (2025, <doi:10.48550/arXiv.2408.01540>).
Downstream tasks include sequential design
through active learning Cohn/integrated mean squared error (ALC/IMSE; Sauer,
G [...truncated...]
Author: Annie S. Booth [aut, cre]
Maintainer: Annie S. Booth <annie_booth@vt.edu>
Diff between deepgp versions 1.2.0 dated 2026-01-08 and 1.2.1 dated 2026-02-09
DESCRIPTION | 8 ++-- MD5 | 14 +++---- README.md | 7 +++ inst/doc/deepgp.R | 40 +++++++++++----------- inst/doc/deepgp.Rmd | 51 ++++++++++++++++------------ inst/doc/deepgp.html | 92 +++++++++++++++++++++++++++------------------------ src/vecchia.cpp | 16 ++++---- vignettes/deepgp.Rmd | 51 ++++++++++++++++------------ 8 files changed, 154 insertions(+), 125 deletions(-)
Title: Hemodynamic Response Functions for fMRI Data Analysis
Description: Creates, manipulates, and evaluates hemodynamic response functions
and event-related regressors for functional magnetic resonance imaging data
analysis. Supports multiple basis sets including Canonical, Gamma, Gaussian,
B-spline, and Fourier bases. Features decorators for time-shifting and blocking,
and efficient convolution algorithms for regressor construction. Methods are based
on standard fMRI analysis techniques as described in Jezzard et al. (2001, ISBN:9780192630711).
Author: Bradley Buchsbaum [aut, cre]
Maintainer: Bradley Buchsbaum <brad.buchsbaum@gmail.com>
Diff between fmrihrf versions 0.1.0 dated 2025-09-16 and 0.2.0 dated 2026-02-09
fmrihrf-0.1.0/fmrihrf/man/deriv.SPMG1_HRF.Rd |only fmrihrf-0.1.0/fmrihrf/man/deriv.SPMG2_HRF.Rd |only fmrihrf-0.1.0/fmrihrf/man/deriv.SPMG3_HRF.Rd |only fmrihrf-0.2.0/fmrihrf/DESCRIPTION | 8 fmrihrf-0.2.0/fmrihrf/MD5 | 95 - fmrihrf-0.2.0/fmrihrf/NAMESPACE | 7 fmrihrf-0.2.0/fmrihrf/NEWS.md |only fmrihrf-0.2.0/fmrihrf/R/deriv-methods.R | 6 fmrihrf-0.2.0/fmrihrf/R/evaluate-helpers.R | 121 - fmrihrf-0.2.0/fmrihrf/R/hrf-functions.R | 295 +++ fmrihrf-0.2.0/fmrihrf/R/hrf.R | 375 +++- fmrihrf-0.2.0/fmrihrf/R/reg-constructor.R | 141 + fmrihrf-0.2.0/fmrihrf/R/reg-methods.R | 314 +++ fmrihrf-0.2.0/fmrihrf/R/utils-internal.R | 4 fmrihrf-0.2.0/fmrihrf/build/vignette.rds |binary fmrihrf-0.2.0/fmrihrf/inst/doc/a_01_hemodynamic_response.R | 498 ++--- fmrihrf-0.2.0/fmrihrf/inst/doc/a_01_hemodynamic_response.Rmd | 590 +++--- fmrihrf-0.2.0/fmrihrf/inst/doc/a_01_hemodynamic_response.html | 932 +++------- fmrihrf-0.2.0/fmrihrf/inst/doc/a_02_regressor.R | 121 - fmrihrf-0.2.0/fmrihrf/inst/doc/a_02_regressor.Rmd | 121 - fmrihrf-0.2.0/fmrihrf/inst/doc/a_02_regressor.html | 139 - fmrihrf-0.2.0/fmrihrf/inst/doc/a_03_hrf_generators.html | 21 fmrihrf-0.2.0/fmrihrf/inst/doc/a_04_advanced_modeling.R | 7 fmrihrf-0.2.0/fmrihrf/inst/doc/a_04_advanced_modeling.Rmd | 7 fmrihrf-0.2.0/fmrihrf/inst/doc/a_04_advanced_modeling.html | 167 - fmrihrf-0.2.0/fmrihrf/man/HRF_objects.Rd | 14 fmrihrf-0.2.0/fmrihrf/man/Reg.Rd | 3 fmrihrf-0.2.0/fmrihrf/man/as_hrf.Rd | 15 fmrihrf-0.2.0/fmrihrf/man/deriv.HRF.Rd | 31 fmrihrf-0.2.0/fmrihrf/man/hrf_basis_lwu.Rd | 4 fmrihrf-0.2.0/fmrihrf/man/hrf_boxcar.Rd |only fmrihrf-0.2.0/fmrihrf/man/hrf_bspline.Rd | 4 fmrihrf-0.2.0/fmrihrf/man/hrf_gamma.Rd | 4 fmrihrf-0.2.0/fmrihrf/man/hrf_gaussian.Rd | 4 fmrihrf-0.2.0/fmrihrf/man/hrf_half_cosine.Rd | 42 fmrihrf-0.2.0/fmrihrf/man/hrf_inv_logit.Rd | 4 fmrihrf-0.2.0/fmrihrf/man/hrf_lwu.Rd | 4 fmrihrf-0.2.0/fmrihrf/man/hrf_mexhat.Rd | 4 fmrihrf-0.2.0/fmrihrf/man/hrf_sine.Rd | 4 fmrihrf-0.2.0/fmrihrf/man/hrf_spmg1.Rd | 4 fmrihrf-0.2.0/fmrihrf/man/hrf_tent_generator.Rd |only fmrihrf-0.2.0/fmrihrf/man/hrf_time.Rd | 4 fmrihrf-0.2.0/fmrihrf/man/hrf_weighted.Rd |only fmrihrf-0.2.0/fmrihrf/man/plot.HRF.Rd | 34 fmrihrf-0.2.0/fmrihrf/man/plot.Reg.Rd |only fmrihrf-0.2.0/fmrihrf/man/plot_hrfs.Rd |only fmrihrf-0.2.0/fmrihrf/man/plot_regressors.Rd |only fmrihrf-0.2.0/fmrihrf/man/print.HRF.Rd |only fmrihrf-0.2.0/fmrihrf/man/print.Rd | 6 fmrihrf-0.2.0/fmrihrf/man/regressor.Rd | 52 fmrihrf-0.2.0/fmrihrf/tests/testthat/test_hrf.R | 642 ++++++ fmrihrf-0.2.0/fmrihrf/vignettes/a_01_hemodynamic_response.Rmd | 590 +++--- fmrihrf-0.2.0/fmrihrf/vignettes/a_02_regressor.Rmd | 121 - fmrihrf-0.2.0/fmrihrf/vignettes/a_04_advanced_modeling.Rmd | 7 54 files changed, 3493 insertions(+), 2073 deletions(-)
Title: Core Tools for Packages in the 'fable' Framework
Description: Provides tools, helpers and data structures for
developing models and time series functions for 'fable' and extension
packages. These tools support a consistent and tidy interface for time
series modelling and analysis.
Author: Mitchell O'Hara-Wild [aut, cre] ,
Rob Hyndman [aut],
Earo Wang [aut] ,
Di Cook [ctb],
George Athanasopoulos [ctb],
David Holt [ctb]
Maintainer: Mitchell O'Hara-Wild <mail@mitchelloharawild.com>
Diff between fabletools versions 0.5.1 dated 2025-09-01 and 0.6.0 dated 2026-02-09
fabletools-0.5.1/fabletools/tests/testthat/test-graphics.R |only fabletools-0.6.0/fabletools/DESCRIPTION | 13 -- fabletools-0.6.0/fabletools/MD5 | 83 ++++++------- fabletools-0.6.0/fabletools/NAMESPACE | 6 fabletools-0.6.0/fabletools/NEWS.md | 11 + fabletools-0.6.0/fabletools/R/accuracy.R | 6 fabletools-0.6.0/fabletools/R/components.R | 8 - fabletools-0.6.0/fabletools/R/dable.R | 4 fabletools-0.6.0/fabletools/R/frequency.R | 6 fabletools-0.6.0/fabletools/R/model.R | 4 fabletools-0.6.0/fabletools/R/model_decomposition.R | 3 fabletools-0.6.0/fabletools/R/plot.R | 40 +++++- fabletools-0.6.0/fabletools/R/reconciliation.R | 4 fabletools-0.6.0/fabletools/R/utils.R | 10 - fabletools-0.6.0/fabletools/R/xregs.R | 2 fabletools-0.6.0/fabletools/R/zzz.R | 29 ++++ fabletools-0.6.0/fabletools/README.md | 1 fabletools-0.6.0/fabletools/build/stage23.rdb |binary fabletools-0.6.0/fabletools/build/vignette.rds |binary fabletools-0.6.0/fabletools/inst/doc/extension_models.html | 5 fabletools-0.6.0/fabletools/man/accuracy.Rd | 2 fabletools-0.6.0/fabletools/man/aggregate_index.Rd | 7 - fabletools-0.6.0/fabletools/man/aggregate_key.Rd | 7 - fabletools-0.6.0/fabletools/man/augment.Rd | 2 fabletools-0.6.0/fabletools/man/autoplot.dcmp_ts.Rd | 2 fabletools-0.6.0/fabletools/man/autoplot.fbl_ts.Rd | 4 fabletools-0.6.0/fabletools/man/autoplot.tbl_ts.Rd | 2 fabletools-0.6.0/fabletools/man/combination_model.Rd | 2 fabletools-0.6.0/fabletools/man/common_xregs.Rd | 3 fabletools-0.6.0/fabletools/man/components.Rd | 8 - fabletools-0.6.0/fabletools/man/dable.Rd | 4 fabletools-0.6.0/fabletools/man/decomposition_model.Rd | 3 fabletools-0.6.0/fabletools/man/features.Rd | 2 fabletools-0.6.0/fabletools/man/forecast.Rd | 2 fabletools-0.6.0/fabletools/man/generate.mdl_df.Rd | 2 fabletools-0.6.0/fabletools/man/glance.Rd | 2 fabletools-0.6.0/fabletools/man/hypothesize.mdl_df.Rd | 2 fabletools-0.6.0/fabletools/man/interpolate.Rd | 2 fabletools-0.6.0/fabletools/man/model.Rd | 2 fabletools-0.6.0/fabletools/man/reconcile.Rd | 2 fabletools-0.6.0/fabletools/man/refit.Rd | 2 fabletools-0.6.0/fabletools/man/skill_score.Rd | 2 fabletools-0.6.0/fabletools/man/tidy.Rd | 2 43 files changed, 179 insertions(+), 124 deletions(-)
Title: Correlation Heatmaps
Description: Create correlation heatmaps from a numeric matrix. Ensembl Gene ID row names can be converted to Gene Symbols
using, e.g., BioMart. Optionally, data can be clustered and filtered by correlation, tree cutting and/or number
of missing values. Genes of interest can be highlighted in the plot and correlation significance be indicated by
asterisks encoding corresponding P-Values. Plot dimensions and label measures are adjusted automatically by default.
The plot features rely on the heatmap.n2() function in the 'heatmapFlex' package.
Author: Vidal Fey [aut, cre],
Henri Sara [aut]
Maintainer: Vidal Fey <vidal.fey@gmail.com>
This is a re-admission after prior archival of version 0.2.2 dated 2021-09-19
Diff between coreheat versions 0.2.2 dated 2021-09-19 and 0.3.2 dated 2026-02-09
DESCRIPTION | 16 MD5 | 22 - NAMESPACE | 1 R/cormap2.R | 189 ++++++++- build/vignette.rds |binary inst/doc/coreheat-vignette.R | 80 ++- inst/doc/coreheat-vignette.Rmd | 54 +- inst/doc/coreheat-vignette.html | 821 +++++++++++++++++++++++++++------------- man/coreheat.Rd | 2 man/cormap2.Rd | 21 + man/cormap_filt.Rd | 21 + vignettes/coreheat-vignette.Rmd | 54 +- 12 files changed, 936 insertions(+), 345 deletions(-)
Title: Named Entity Recognition in Texts using 'NameTag'
Description: Wraps the 'nametag' library <https://github.com/ufal/nametag>, allowing users to find and extract entities (names, persons, locations, addresses, ...) in raw text and build your own entity recognition models.
Based on a maximum entropy Markov model which is described in Strakova J., Straka M. and Hajic J. (2013) <https://ufal.mff.cuni.cz/~straka/papers/2013-tsd_ner.pdf>.
Author: Jan Wijffels [aut, cre, cph] ,
BNOSAC [cph] ,
Institute of Formal and Applied Linguistics, Faculty of Mathematics and
Physics, Charles University in Prague, Czech Republic [cph],
Milan Straka [ctb, cph] ,
Jana Strakova [ctb, cph]
Maintainer: Jan Wijffels <jwijffels@bnosac.be>
Diff between nametagger versions 0.1.6 dated 2026-01-30 and 0.1.7 dated 2026-02-09
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 4 ++++ src/nametag/src/classifier/network_classifier.cpp | 2 +- src/nametag/src/morphodita/morpho/persistent_unordered_map.h | 2 +- src/nametag/src/utils/unaligned_access.h | 8 ++++---- 6 files changed, 18 insertions(+), 14 deletions(-)
Title: Check Text Files Content at a Glance
Description: Tools to help text files importation. It can return the
number of lines; print the first and last lines; convert encoding;
guess delimiters and file encoding. Operations are made without
reading the entire file before starting, resulting in good
performances with large files. This package provides an alternative to
a simple use of the 'head', 'tail', 'wc' and 'iconv' programs that are
not always available on machine where R is installed.
Author: David Gohel [aut, cre]
Maintainer: David Gohel <david.gohel@ardata.fr>
Diff between fpeek versions 0.1.2 dated 2021-03-31 and 0.2.0 dated 2026-02-09
DESCRIPTION | 38 +++++++++---------- MD5 | 36 +++++++++++------- NAMESPACE | 2 + NEWS.md | 13 ++++++ R/funs.R | 35 +++++++++--------- R/peek-guess-delim.R |only R/peek-guess-encoding.R |only README.md | 68 +++++++++++++++++++++++++++++++---- inst/datafiles/test-comma.csv |only inst/datafiles/test-pipe.csv |only inst/datafiles/test-semicolon.csv |only inst/datafiles/test-tab.csv |only man/peek_count_lines.Rd | 2 - man/peek_guess_delim.Rd |only man/peek_guess_encoding.Rd |only man/peek_head.Rd | 2 - man/peek_iconv.Rd | 1 man/peek_tail.Rd | 2 - src/RcppExports.cpp | 5 ++ tests/testthat/test-guess-delim.R |only tests/testthat/test-guess-encoding.R |only tests/testthat/test-headtail.R | 20 ++++++---- tests/testthat/test-iconv.R | 24 ++++++++---- tests/testthat/test-wcl.R | 1 24 files changed, 173 insertions(+), 76 deletions(-)
Title: Tools for Calculating Allocations in Game Theory using Exact and
Approximated Methods
Description: The main objective of cooperative Transferable-Utility games (TU-games)
is to allocate a good among the agents involved. The package implements major
solution concepts including the Shapley value, Banzhaf value, and egalitarian
rules, alongside their extensions for structured games:
the Owen value and Banzhaf-Owen value for games with a priori unions, and the
Myerson value for communication games on networks. To address the inherent exponential
computational complexity of exact evaluation, the package offers both exact
algorithms and linear approximation methods based on sampling, enabling the
analysis of large-scale games. Additionally, it supports core set-based
solutions, allowing computation of the vertices and the centroid of the core.
Author: Maria D. Guillen [cre, aut] ,
Juan Carlos Goncalves [aut]
Maintainer: Maria D. Guillen <maria.guilleng@umh.es>
Diff between TUvalues versions 1.1.0 dated 2025-12-16 and 1.1.1 dated 2026-02-09
DESCRIPTION | 8 +++--- MD5 | 10 ++++---- NAMESPACE | 10 +++++--- R/core_appro.R | 64 ++++++++++++++++++++++++++---------------------------- R/core_exact.R | 2 - man/core_appro.Rd | 5 +--- 6 files changed, 48 insertions(+), 51 deletions(-)
Title: Tidy Temporal Data Frames and Tools
Description: Provides a 'tbl_ts' class (the 'tsibble') for
temporal data in an data- and model-oriented format. The 'tsibble'
provides tools to easily manipulate and analyse temporal data, such as
filling in time gaps and aggregating over calendar periods.
Author: Earo Wang [aut] ,
Di Cook [aut, ths] ,
Rob Hyndman [aut, ths] ,
Mitchell O'Hara-Wild [aut, cre] ,
Tyler Smith [ctb],
Wil Davis [ctb]
Maintainer: Mitchell O'Hara-Wild <mail@mitchelloharawild.com>
Diff between tsibble versions 1.1.6 dated 2025-01-30 and 1.2.0 dated 2026-02-09
DESCRIPTION | 41 ++++++------ MD5 | 76 +++++++++++----------- NAMESPACE | 12 ++- NEWS.md | 13 +++ R/as-tsibble.R | 34 +++++---- R/dplyr-verbs.R | 5 + R/error.R | 13 --- R/filter-index.R | 4 - R/gaps.R | 16 ++-- R/holiday.R | 2 R/scales.R | 4 - R/summary.R |only R/tsibble-meta.R | 133 +++++++++++++++++++++++++++++++++++++-- R/tsibble-package.R | 2 R/vctrs-tsibble.R | 9 ++ R/yearquarter.R | 12 ++- build/vignette.rds |binary inst/WORDLIST | 65 +++++++------------ inst/doc/faq.html | 5 - inst/doc/implicit-na.html | 7 +- inst/doc/intro-tsibble.Rmd | 2 inst/doc/intro-tsibble.html | 13 ++- man/as-tsibble.Rd | 14 ++-- man/build_tsibble.Rd | 12 ++- man/duplicates.Rd | 12 ++- man/filter_index.Rd | 5 - man/index-rd.Rd | 14 ++++ man/key.Rd | 13 +++ man/measured-vars.Rd | 41 ++++++++++++ man/tsibble-package.Rd | 5 - man/tsibble.Rd | 20 ++++- man/unnest_tsibble.Rd | 8 +- man/update_tsibble.Rd | 14 ++-- tests/testthat/test-dplyr.R | 11 +++ tests/testthat/test-gaps.R | 10 ++ tests/testthat/test-tidyr.R | 39 +++++++++++ tests/testthat/test-tidyselect.R |only tests/testthat/test-tsibble.R | 34 ++++++++- tests/testthat/test-tsibble2ts.R | 16 ++-- vignettes/intro-tsibble.Rmd | 2 40 files changed, 530 insertions(+), 208 deletions(-)
Title: Multiple Precision Arithmetic
Description: Multiple Precision Arithmetic (big integers and rationals,
prime number tests, matrix computation), "arithmetic without limitations"
using the C library GMP (GNU Multiple Precision Arithmetic).
Author: Antoine Lucas [aut, cre] ,
Immanuel Scholz [aut],
Rainer Boehme [ctb],
Sylvain Jasson [ctb],
Martin Maechler [ctb]
Maintainer: Antoine Lucas <antoinelucas@gmail.com>
Diff between gmp versions 0.7-5 dated 2024-08-23 and 0.7-5.1 dated 2026-02-09
DESCRIPTION | 9 +++++---- MD5 | 4 ++-- src/Rgmp.h | 3 +++ 3 files changed, 10 insertions(+), 6 deletions(-)
Title: Feature Extraction and Statistics for Time Series
Description: Provides a collection of features, decomposition methods,
statistical summaries and graphics functions for the analysing tidy time
series data. The package name 'feasts' is an acronym comprising of its key
features: Feature Extraction And Statistics for Time Series.
Author: Mitchell O'Hara-Wild [aut, cre],
Rob Hyndman [aut],
Earo Wang [aut],
Di Cook [ctb],
Thiyanga Talagala [ctb] ,
Leanne Chhay [ctb]
Maintainer: Mitchell O'Hara-Wild <mail@mitchelloharawild.com>
Diff between feasts versions 0.4.2 dated 2025-08-27 and 0.5.0 dated 2026-02-09
feasts-0.4.2/feasts/man/autoplot.tbl_cf.Rd |only feasts-0.4.2/feasts/man/gg_arma.Rd |only feasts-0.4.2/feasts/man/gg_irf.Rd |only feasts-0.4.2/feasts/man/gg_lag.Rd |only feasts-0.4.2/feasts/man/gg_season.Rd |only feasts-0.4.2/feasts/man/gg_subseries.Rd |only feasts-0.4.2/feasts/man/gg_tsdisplay.Rd |only feasts-0.4.2/feasts/man/gg_tsresiduals.Rd |only feasts-0.4.2/feasts/man/scale_cf_lag.Rd |only feasts-0.4.2/feasts/tests/testthat/test-graphics.R |only feasts-0.5.0/feasts/DESCRIPTION | 15 feasts-0.5.0/feasts/MD5 | 62 feasts-0.5.0/feasts/NAMESPACE | 34 feasts-0.5.0/feasts/NEWS.md | 6 feasts-0.5.0/feasts/R/acf.R | 106 - feasts-0.5.0/feasts/R/features.R | 73 - feasts-0.5.0/feasts/R/graphics.R | 922 ------------- feasts-0.5.0/feasts/R/seats.R | 2 feasts-0.5.0/feasts/R/utils.R | 8 feasts-0.5.0/feasts/R/x11.R | 2 feasts-0.5.0/feasts/R/x13arimaseats.R | 2 feasts-0.5.0/feasts/README.md | 53 feasts-0.5.0/feasts/build/vignette.rds |binary feasts-0.5.0/feasts/inst/doc/feasts.html | 30 feasts-0.5.0/feasts/man/ACF.Rd | 2 feasts-0.5.0/feasts/man/STL.Rd | 6 feasts-0.5.0/feasts/man/cointegration_phillips_ouliaris.Rd | 66 feasts-0.5.0/feasts/man/feasts-package.Rd | 2 feasts-0.5.0/feasts/man/figures/README-dcmp-plot-1.png |binary feasts-0.5.0/feasts/man/figures/README-extreme-1.png |binary feasts-0.5.0/feasts/man/figures/README-features-plot-1.png |binary feasts-0.5.0/feasts/man/figures/README-graphics-1.png |binary feasts-0.5.0/feasts/man/figures/README-graphics-2.png |binary feasts-0.5.0/feasts/man/figures/README-graphics-3.png |binary feasts-0.5.0/feasts/man/figures/README-graphics-4.png |binary feasts-0.5.0/feasts/man/reexports.Rd | 11 feasts-0.5.0/feasts/tests/testthat/test-cf.R | 33 37 files changed, 242 insertions(+), 1193 deletions(-)
Title: Applied Econometrics with R
Description: Functions, data sets, examples, demos, and vignettes for the book
Christian Kleiber and Achim Zeileis (2008),
Applied Econometrics with R, Springer-Verlag, New York.
ISBN 978-0-387-77316-2. <doi:10.1007/978-0-387-77318-6>
(See the vignette "AER" for a package overview.)
Author: Christian Kleiber [aut] ,
Achim Zeileis [aut, cre]
Maintainer: Achim Zeileis <Achim.Zeileis@R-project.org>
Diff between AER versions 1.2-15 dated 2025-06-18 and 1.2-16 dated 2026-02-09
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- NEWS.md | 5 +++++ inst/doc/AER.Rnw | 12 ++++++------ inst/doc/AER.pdf |binary inst/doc/Sweave-journals.pdf |binary tests/Ch-Validation.R | 1 - tests/Ch-Validation.Rout.save | 9 --------- vignettes/AER.Rnw | 12 ++++++------ vignettes/aer.bib | 2 +- 10 files changed, 31 insertions(+), 36 deletions(-)
Title: 'vcd' Extensions and Additions
Description: Provides additional data sets, methods and documentation to complement the 'vcd' package for Visualizing Categorical Data
and the 'gnm' package for Generalized Nonlinear Models.
In particular, 'vcdExtra' extends mosaic, assoc and sieve plots from 'vcd' to handle 'glm()' and 'gnm()' models and
adds a 3D version in 'mosaic3d'. Additionally, methods are provided for comparing and visualizing lists of
'glm' and 'loglm' objects. This package is now a support package for the book, "Discrete Data Analysis with R" by
Michael Friendly and David Meyer.
Author: Michael Friendly [aut, cre] ,
David Meyer [ctb],
Achim Zeileis [ctb] ,
Duncan Murdoch [ctb],
Heather Turner [ctb] ,
David Firth [ctb],
Daniel Sabanes Bove [ctb],
Matt Kumar [ctb],
Shuguang Sun [ctb]
Maintainer: Michael Friendly <friendly@yorku.ca>
Diff between vcdExtra versions 0.9.0 dated 2026-01-21 and 0.9.1 dated 2026-02-09
DESCRIPTION | 15 MD5 | 275 - NAMESPACE | 256 - NEWS.md | 18 R/CrabSatellites.R | 126 R/Crossings.R | 150 R/color_table.R |only R/data.R | 6264 ++++++++++++++++++------------------ R/get_model.R |only R/glmlist.R | 146 R/labeling_points.R |only R/mosaic.glm.R | 718 ++-- R/mosaic3d.R | 15 R/seq_loglm.R | 30 R/split3d.R | 3 R/vcdExtra-package.R | 246 - R/woolf_test.R | 718 ++-- build/partial.rdb |only build/vignette.rds |binary data/Reinis.rda |only demo/00Index | 4 demo/Wong2-3.R | 10 demo/Wong3-1.R | 2 demo/mosaic3d-hec.R | 2 demo/ucb-glm.R | 53 demo/yaish-unidiff.R | 72 inst/WORDLIST | 546 +-- inst/doc/a1-creating.Rmd | 1552 ++++---- inst/doc/a1-creating.html | 9 inst/doc/a2-tests.Rmd | 796 ++-- inst/doc/a2-tests.html | 9 inst/doc/a3-loglinear.Rmd | 508 +- inst/doc/a3-loglinear.html | 9 inst/doc/a4-mosaics.Rmd | 878 ++--- inst/doc/a4-mosaics.html | 11 inst/doc/a5-demo-housing.Rmd | 742 ++-- inst/doc/a5-demo-housing.html | 9 inst/doc/a6-mobility.Rmd | 804 ++-- inst/doc/a6-mobility.html | 9 inst/doc/a7-continuous.Rmd | 440 +- inst/doc/a7-continuous.html | 11 inst/doc/datasets.Rmd | 288 - inst/doc/datasets.html | 11 inst/doc/tidyCats.Rmd | 21 inst/doc/tidyCats.html | 27 inst/extdata/tv.dat | 1650 ++++----- man/Abortion.Rd | 116 man/Accident.Rd | 236 - man/AirCrash.Rd | 136 man/Alligator.Rd | 126 man/Asbestos.Rd | 118 man/Bartlett.Rd | 126 man/Burt.Rd | 104 man/CMHtest.Rd | 444 +- man/Caesar.Rd | 170 man/Cancer.Rd | 78 man/Cormorants.Rd | 156 man/CrabSatellites.Rd | 124 man/Crossings.Rd | 116 man/CyclingDeaths.Rd | 120 man/DaytonSurvey.Rd | 150 man/Depends.Rd | 110 man/Detergent.Rd | 110 man/Donner.Rd | 240 - man/Draft1970.Rd | 136 man/Draft1970table.Rd | 182 - man/Dyke.Rd | 162 man/Fungicide.Rd | 122 man/GKgamma.Rd | 138 man/GSS.Rd | 86 man/Geissler.Rd | 142 man/Gilby.Rd | 112 man/Glass.Rd | 144 man/HLtest.Rd | 226 - man/HairEyePlace.Rd | 112 man/Hauser79.Rd | 314 - man/Heart.Rd | 78 man/Heckman.Rd | 148 man/HospVisits.Rd | 102 man/HouseTasks.Rd | 124 man/Hoyt.Rd | 230 - man/ICU.Rd | 226 - man/JobSat.Rd | 76 man/Kway.Rd | 218 - man/LRstats.Rd | 178 - man/Mammograms.Rd | 80 man/Mental.Rd | 106 man/Mice.Rd | 90 man/Mobility.Rd | 96 man/PhdPubs.Rd | 110 man/Reinis.Rd |only man/ShakeWords.Rd | 90 man/Summarise.Rd | 160 man/TV.Rd | 154 man/Titanicp.Rd | 104 man/Toxaemia.Rd | 138 man/Vietnam.Rd | 100 man/Vote1980.Rd | 94 man/WorkerSat.Rd | 76 man/Yamaguchi87.Rd | 214 - man/blogits.Rd | 148 man/collapse.table.Rd | 218 - man/color_table.Rd |only man/cutfac.Rd | 166 man/datasets.Rd | 156 man/expand.dft.Rd | 134 man/figures/logo-new.jpg |only man/figures/logo-old.png |only man/figures/logo.png |binary man/get_model.Rd |only man/glmlist.Rd | 272 - man/labeling_points.Rd |only man/logLik.loglm.Rd | 160 man/loglin-utilities.Rd | 241 - man/logseries.Rd | 200 - man/mcaplot.Rd | 200 - man/modFit.Rd | 104 man/mosaic.glm.Rd | 490 +- man/mosaic.glmlist.Rd | 332 - man/mosaic3d.Rd | 357 +- man/print.Kappa.Rd | 102 man/seq_loglm.Rd | 211 - man/seq_mosaic.Rd | 180 - man/split3d.Rd | 181 - man/update.xtabs.Rd | 94 man/vcdExtra-package.Rd | 240 - man/woolf_test.Rd | 2 man/zero.test.Rd | 148 tests/testthat.R | 24 tests/testthat/data/adcibc.csv | 464 +- tests/testthat/data/create_adcibc.R | 32 tests/testthat/test-CMHtest.R | 340 - vignettes/a1-creating.Rmd | 1552 ++++---- vignettes/a2-tests.Rmd | 796 ++-- vignettes/a3-loglinear.Rmd | 508 +- vignettes/a4-mosaics.Rmd | 878 ++--- vignettes/a5-demo-housing.Rmd | 742 ++-- vignettes/a6-mobility.Rmd | 804 ++-- vignettes/a7-continuous.Rmd | 440 +- vignettes/apa.csl | 1242 +++---- vignettes/datasets.Rmd | 288 - vignettes/tidyCats.Rmd | 21 vignettes/vcdExtra.bib | 4 vignettes/vignettes.bib | 90 144 files changed, 19048 insertions(+), 18614 deletions(-)
Title: Simulation of Study Data
Description: Simulates data sets in order to explore modeling
techniques or better understand data generating processes. The user
specifies a set of relationships between covariates, and generates
data based on these specifications. The final data sets can represent
data from randomized control trials, repeated measure (longitudinal)
designs, and cluster randomized trials. Missingness can be generated
using various mechanisms (MCAR, MAR, NMAR).
Author: Keith Goldfeld [aut, cre] ,
Jacob Wujciak-Jens [aut]
Maintainer: Keith Goldfeld <keith.goldfeld@nyulangone.org>
Diff between simstudy versions 0.9.1 dated 2025-12-16 and 0.9.2 dated 2026-02-09
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- inst/doc/clustered.html | 2 +- inst/doc/longitudinal.html | 2 +- tests/testthat/test-generate_correlated_data.R | 8 ++++++-- 5 files changed, 16 insertions(+), 12 deletions(-)
Title: Bayesian Estimation of Probit Unfolding Models for Binary
Preference Data
Description: Bayesian estimation and analysis methods for Probit Unfolding Models (PUMs), a novel class of scaling models designed for binary preference data. These models allow for both monotonic and non-monotonic response functions. The package supports Bayesian inference for both static and dynamic PUMs using Markov chain Monte Carlo (MCMC) algorithms with minimal or no tuning. Key functionalities include posterior sampling, hyperparameter selection, data preprocessing, model fit evaluation, and visualization. The methods are particularly suited to analyzing voting data, such as from the U.S. Congress or Supreme Court, but can also be applied in other contexts where non-monotonic responses are expected. For methodological details, see Shi et al. (2025) <doi:10.48550/arXiv.2504.00423>.
Author: Skylar Shi [aut, cre] ,
Abel Rodriguez [aut] ,
Rayleigh Lei [aut] ,
Jonathan Olmsted [cph]
Maintainer: Skylar Shi <dshi98@uw.edu>
This is a re-admission after prior archival of version 1.0.1 dated 2025-10-22
Diff between pumBayes versions 1.0.1 dated 2025-10-22 and 1.0.2 dated 2026-02-09
DESCRIPTION | 6 ++-- MD5 | 10 +++--- R/scotus.1937.2021.R | 1 README.md | 32 ++++++++++++++++++++- man/scotus.1937.2021.Rd | 1 src/three_utility_probit_helper_functions.cpp | 39 +++++++++++++------------- 6 files changed, 59 insertions(+), 30 deletions(-)
Title: Professional Comprehensive Omics Data Analysis
Description: Provides a comprehensive suite of tools for analyzing omics data. It includes
functionalities for alpha diversity analysis, beta diversity analysis, differential
abundance analysis, community assembly analysis, visualization of phylogenetic tree, and
functional enrichment analysis. With a progressive approach, the package offers a range of
analysis methods to explore and understand the complex communities. It is designed to
support researchers and practitioners in conducting in-depth and professional omics data
analysis.
Author: Chen Peng [aut, cre]
Maintainer: Chen Peng <bfzede@gmail.com>
Diff between pctax versions 0.1.3 dated 2024-12-02 and 0.1.7 dated 2026-02-09
pctax-0.1.3/pctax/vignettes/pctax_cache/html/lib_edaa109a9155baa43419851f33b3cf81.rdb |only pctax-0.1.3/pctax/vignettes/pctax_cache/html/lib_edaa109a9155baa43419851f33b3cf81.rdx |only pctax-0.1.3/pctax/vignettes/pctax_cache/html/setup_8ae11416e5c5639c1c730c1286b53fc5.rdb |only pctax-0.1.3/pctax/vignettes/pctax_cache/html/setup_8ae11416e5c5639c1c730c1286b53fc5.rdx |only pctax-0.1.3/pctax/vignettes/pctax_cache/html/unnamed-chunk-2_a4c6eae63fe4b35c079f4cfe25d48d88.rdb |only pctax-0.1.3/pctax/vignettes/pctax_cache/html/unnamed-chunk-2_a4c6eae63fe4b35c079f4cfe25d48d88.rdx |only pctax-0.1.7/pctax/DESCRIPTION | 41 pctax-0.1.7/pctax/MD5 | 73 pctax-0.1.7/pctax/NAMESPACE | 23 pctax-0.1.7/pctax/NEWS.md | 29 pctax-0.1.7/pctax/R/Rtaxonkit.R | 14 pctax-0.1.7/pctax/R/b_analyse.R | 91 pctax-0.1.7/pctax/R/diff_analyse.R | 117 + pctax-0.1.7/pctax/R/other_software.R | 963 +++++++++- pctax-0.1.7/pctax/R/pctax-package.R | 4 pctax-0.1.7/pctax/R/phylogenetic.R | 226 ++ pctax-0.1.7/pctax/R/stats.R |only pctax-0.1.7/pctax/build/vignette.rds |binary pctax-0.1.7/pctax/inst/doc/pctax.R | 6 pctax-0.1.7/pctax/inst/doc/pctax.html | 3 pctax-0.1.7/pctax/man/ALDEX.Rd | 12 pctax-0.1.7/pctax/man/RDA_plot.Rd | 7 pctax-0.1.7/pctax/man/ann_tree.Rd | 4 pctax-0.1.7/pctax/man/batch_mediate.Rd |only pctax-0.1.7/pctax/man/df2tree.Rd | 4 pctax-0.1.7/pctax/man/df2tree1.Rd | 8 pctax-0.1.7/pctax/man/drop_tips_update.Rd |only pctax-0.1.7/pctax/man/load_mpa_df.Rd |only pctax-0.1.7/pctax/man/multi_bar.Rd | 2 pctax-0.1.7/pctax/man/multi_conf.Rd |only pctax-0.1.7/pctax/man/myRDA.Rd | 1 pctax-0.1.7/pctax/man/pctax-package.Rd | 2 pctax-0.1.7/pctax/man/permanova.Rd | 3 pctax-0.1.7/pctax/man/plot.b_res.Rd | 6 pctax-0.1.7/pctax/man/plot_checkm2_res.Rd |only pctax-0.1.7/pctax/man/plot_contigs_quality.Rd |only pctax-0.1.7/pctax/man/plot_gtdb_tr.Rd |only pctax-0.1.7/pctax/man/plot_one_phage.Rd |only pctax-0.1.7/pctax/man/pre_assembly_stats.Rd |only pctax-0.1.7/pctax/man/pre_format_report.Rd |only pctax-0.1.7/pctax/man/pre_genomad.Rd |only pctax-0.1.7/pctax/man/pre_gtdb_tk.Rd |only pctax-0.1.7/pctax/man/pre_tax_table.Rd | 5 pctax-0.1.7/pctax/man/print.virus_res.Rd |only pctax-0.1.7/pctax/man/stamp_plot.Rd |only pctax-0.1.7/pctax/vignettes/pctax_cache/html/lib_7858f483600c014896211e60e0626680.rdb |only pctax-0.1.7/pctax/vignettes/pctax_cache/html/lib_7858f483600c014896211e60e0626680.rdx |only pctax-0.1.7/pctax/vignettes/pctax_cache/html/setup_35e25c351e84cb5efd95fe39f6eabc01.rdb |only pctax-0.1.7/pctax/vignettes/pctax_cache/html/setup_35e25c351e84cb5efd95fe39f6eabc01.rdx |only pctax-0.1.7/pctax/vignettes/pctax_cache/html/unnamed-chunk-2_277d2e2f2b7b90d394584184e383ae77.rdb |only pctax-0.1.7/pctax/vignettes/pctax_cache/html/unnamed-chunk-2_277d2e2f2b7b90d394584184e383ae77.rdx |only 51 files changed, 1475 insertions(+), 169 deletions(-)
Title: Network Analysis for Omics Data
Description: Comprehensive network analysis package.
Calculate correlation network fastly, accelerate lots of analysis by parallel computing.
Support for multi-omics data, search sub-nets fluently.
Handle bigger data, more than 10,000 nodes in each omics.
Offer various layout method for multi-omics network and some interfaces to other software ('Gephi', 'Cytoscape', 'ggplot2'), easy to visualize.
Provide comprehensive topology indexes calculation, including ecological network stability.
Author: Chen Peng [aut, cre]
Maintainer: Chen Peng <bfzede@gmail.com>
Diff between MetaNet versions 0.2.7 dated 2025-06-26 and 0.2.8 dated 2026-02-09
DESCRIPTION | 10 +++---- MD5 | 30 ++++++++++++---------- NAMESPACE | 1 R/1.calculate.R | 60 ++++++++++++++++++++++++++++++++++++++++++++- R/2-2.manipulate.R | 12 +++------ R/2-3.RMT.R | 15 ++++++++--- R/5.topological.R | 7 +++-- R/8.net_compare.R | 4 +-- R/MetaNet-package.R | 1 README.md | 55 ++++++++++------------------------------- build/vignette.rds |binary inst/doc/MetaNet.R | 6 ++-- inst/doc/MetaNet.html | 9 +++--- man/RMT_threshold.Rd | 3 ++ man/figures/MetaNet_GA.jpg |only man/net_par.Rd | 5 +++ man/plot_corr_heatmap.Rd |only 17 files changed, 133 insertions(+), 85 deletions(-)
Title: Grammar of Graphics and Plot Helpers for Time Series
Visualization
Description: Extends the capabilities of 'ggplot2' by providing grammatical
elements and plot helpers designed for visualizing temporal patterns. The
package implements a grammar of temporal graphics, which leverages calendar
structures to highlight changes over time. The package also provides plot
helper functions to quickly produce commonly used time series graphics,
including time plots, season plots, and seasonal sub-series plots.
Author: Mitchell O'Hara-Wild [aut, cre] ,
Cynthia A. Huang [aut] ,
Matthew Kay [aut] ,
Rob Hyndman [aut] ,
Earo Wang [ctb]
Maintainer: Mitchell O'Hara-Wild <mail@mitchelloharawild.com>
Diff between ggtime versions 0.1.0 dated 2025-06-10 and 0.2.0 dated 2026-02-09
ggtime-0.1.0/ggtime/R/cal_wrap.R |only ggtime-0.1.0/ggtime/R/coord-calendar.R |only ggtime-0.1.0/ggtime/R/seq-gen.R |only ggtime-0.1.0/ggtime/tests/testthat/Rplots.pdf |only ggtime-0.2.0/ggtime/DESCRIPTION | 28 ggtime-0.2.0/ggtime/MD5 | 51 ggtime-0.2.0/ggtime/NAMESPACE | 15 ggtime-0.2.0/ggtime/NEWS.md | 15 ggtime-0.2.0/ggtime/R/ggplot-dep.R |only ggtime-0.2.0/ggtime/R/ggtime-package.R | 3 ggtime-0.2.0/ggtime/R/plot-dable.R | 147 +- ggtime-0.2.0/ggtime/R/plot-fable.R |only ggtime-0.2.0/ggtime/R/plot-helpers.R | 706 +++++++---- ggtime-0.2.0/ggtime/R/plot-tsibble.R | 92 - ggtime-0.2.0/ggtime/R/utils.R | 202 ++- ggtime-0.2.0/ggtime/README.md | 55 ggtime-0.2.0/ggtime/man/autoplot.dcmp_ts.Rd | 1 ggtime-0.2.0/ggtime/man/autoplot.fbl_ts.Rd |only ggtime-0.2.0/ggtime/man/autoplot.tbl_cf.Rd |only ggtime-0.2.0/ggtime/man/autoplot.tbl_ts.Rd | 7 ggtime-0.2.0/ggtime/man/figures/README-seasonplot-1.png |binary ggtime-0.2.0/ggtime/man/figures/README-timeplot-1.png |binary ggtime-0.2.0/ggtime/man/figures/README-unnamed-chunk-2-1.png |only ggtime-0.2.0/ggtime/man/figures/logo.svg |only ggtime-0.2.0/ggtime/man/ggtime-package.Rd | 14 ggtime-0.2.0/ggtime/man/scale_cf_lag.Rd |only ggtime-0.2.0/ggtime/tests/testthat/_snaps |only ggtime-0.2.0/ggtime/tests/testthat/helper-vdiffr.R |only ggtime-0.2.0/ggtime/tests/testthat/test-plot-helpers.R | 41 29 files changed, 982 insertions(+), 395 deletions(-)
Title: Probabilities for Pedigrees Given DNA Data
Description: An interface to the core 'Familias' functions which are
programmed in C++. The implementation is described in Egeland, Mostad and Olaisen
(1997) <doi:10.1016/S1355-0306(97)72202-0> and Simonsson and Mostad
(2016) <doi:10.1016/j.fsigen.2016.04.005>.
Author: Petter Mostad [aut],
Thore Egeland [aut],
Franco Marsico [aut, cre],
Ivar Simonsson [aut]
Maintainer: Franco Marsico <franco.lmarsico@gmail.com>
Diff between Familias versions 2.6.3 dated 2025-05-12 and 2.6.4 dated 2026-02-09
DESCRIPTION | 17 MD5 | 36 - NAMESPACE | 20 NEWS.md | 18 R/FamiliasLocus.R | 1246 +++++++++++++++++++++---------------------- R/FamiliasPedigree.R | 62 +- R/FamiliasPosterior.R | 506 ++++++++--------- R/FamiliasPrior.R | 272 ++++----- R/plot.FamiliasPedigree.R | 64 +- README.md | 66 +- man/Familias-package.Rd | 148 ++--- man/FamiliasLocus.Rd | 382 ++++++------- man/FamiliasPedigree.Rd | 162 ++--- man/FamiliasPosterior.Rd | 458 +++++++-------- man/FamiliasPrior.Rd | 176 +++--- man/NorwegianFrequencies.Rd | 78 +- man/plot.FamiliasPedigree.Rd | 102 +-- src/GroupOfPersons.cpp | 23 src/table.cpp | 20 19 files changed, 1936 insertions(+), 1920 deletions(-)
Title: Panel Generalized Linear Models
Description: Estimation of panel models for glm-like models:
this includes binomial models (logit and probit), count models (poisson and negbin)
and ordered models (logit and probit), as described in:
Baltagi (2013) Econometric Analysis of Panel Data, ISBN-13:978-1-118-67232-7,
Hsiao (2014) Analysis of Panel Data <doi:10.1017/CBO9781139839327> and
Croissant and Millo (2018), Panel Data Econometrics with R, ISBN:978-1-118-94918-4.
Author: Yves Croissant [aut, cre]
Maintainer: Yves Croissant <yves.croissant@univ-reunion.fr>
Diff between pglm versions 0.2-3 dated 2021-07-19 and 0.2-4 dated 2026-02-09
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- NEWS.md | 4 ++++ data/Fairness.rda |binary data/HealthIns.rda |binary data/PatentsRD.rda |binary data/PatentsRDUS.rda |binary data/UnionWage.rda |binary man/HealthIns.Rd | 2 +- man/PatentsRD.Rd | 4 ++-- man/PatentsRDUS.Rd | 4 ++-- 11 files changed, 23 insertions(+), 19 deletions(-)
Title: Unconstrained Numerical Optimization Algorithms
Description: Optimization algorithms implemented in R, including
conjugate gradient (CG), Broyden-Fletcher-Goldfarb-Shanno (BFGS) and the
limited memory BFGS (L-BFGS) methods. Most internal parameters can be set
through the call interface. The solvers hold up quite well for
higher-dimensional problems.
Author: James Melville [aut, cre]
Maintainer: James Melville <jlmelville@gmail.com>
Diff between mize versions 0.2.4 dated 2020-08-30 and 0.2.5 dated 2026-02-09
DESCRIPTION | 9 MD5 | 24 NEWS.md | 9 R/rasmussen.R | 6 build/vignette.rds |binary inst/doc/convergence.html | 547 +++++++++------- inst/doc/mize.Rmd | 8 inst/doc/mize.html | 1225 ++++++++++++++++++++++++------------ inst/doc/mmds.html | 503 ++++++++------ inst/doc/stateful.html | 694 ++++++++++++-------- tests/testthat/test_minfunc_wolfe.R | 14 tests/testthat/test_rasmussen_cg.R | 4 vignettes/mize.Rmd | 8 13 files changed, 1911 insertions(+), 1140 deletions(-)
Title: Lightweight Toolkit for Messaging, Concurrency and the Web
Description: R binding for NNG (Nanomsg Next Gen), a successor to ZeroMQ.
A toolkit for messaging, concurrency and the web. High-performance
socket messaging over in-process, IPC, TCP, WebSocket and secure TLS
transports implements 'Scalability Protocols', a standard for common
communications patterns including publish/subscribe, request/reply and
survey. A threaded concurrency framework with intuitive 'aio' objects
that resolve automatically upon completion of asynchronous operations,
and synchronisation primitives that allow R to wait on events
signalled by concurrent threads. A unified HTTP server hosting REST
endpoints, WebSocket connections and streaming on a single port, with
a built-in HTTP client.
Author: Charlie Gao [aut, cre] ,
Posit Software, PBC [cph, fnd] ,
Hibiki AI Limited [cph],
R Consortium [fnd]
Maintainer: Charlie Gao <charlie.gao@posit.co>
Diff between nanonext versions 1.7.2 dated 2025-11-03 and 1.8.0 dated 2026-02-09
nanonext-1.7.2/nanonext/inst/CITATION |only nanonext-1.7.2/nanonext/src/mbedtls-362.tar.xz |only nanonext-1.7.2/nanonext/src/nng-111.tar.xz |only nanonext-1.8.0/nanonext/DESCRIPTION | 30 nanonext-1.8.0/nanonext/MD5 | 484 ++++++++ nanonext-1.8.0/nanonext/NAMESPACE | 17 nanonext-1.8.0/nanonext/NEWS.md | 24 nanonext-1.8.0/nanonext/R/aio.R | 17 nanonext-1.8.0/nanonext/R/context.R | 1 nanonext-1.8.0/nanonext/R/dispatcher.R |only nanonext-1.8.0/nanonext/R/ncurl.R | 84 - nanonext-1.8.0/nanonext/R/server.R |only nanonext-1.8.0/nanonext/R/tls.R | 23 nanonext-1.8.0/nanonext/README.md | 289 +---- nanonext-1.8.0/nanonext/build/vignette.rds |binary nanonext-1.8.0/nanonext/cleanup | 2 nanonext-1.8.0/nanonext/cleanup.win | 2 nanonext-1.8.0/nanonext/configure | 241 +--- nanonext-1.8.0/nanonext/configure.ucrt | 22 nanonext-1.8.0/nanonext/configure.win | 30 nanonext-1.8.0/nanonext/inst/doc/nanonext.Rmd | 820 ++++---------- nanonext-1.8.0/nanonext/inst/doc/nanonext.html | 881 +++++++--------- nanonext-1.8.0/nanonext/inst/doc/v01-messaging.Rmd |only nanonext-1.8.0/nanonext/inst/doc/v01-messaging.html |only nanonext-1.8.0/nanonext/inst/doc/v02-protocols.Rmd |only nanonext-1.8.0/nanonext/inst/doc/v02-protocols.html |only nanonext-1.8.0/nanonext/inst/doc/v03-configuration.Rmd |only nanonext-1.8.0/nanonext/inst/doc/v03-configuration.html |only nanonext-1.8.0/nanonext/inst/doc/v04-web.Rmd |only nanonext-1.8.0/nanonext/inst/doc/v04-web.html |only nanonext-1.8.0/nanonext/man/close.Rd | 7 nanonext-1.8.0/nanonext/man/dot-context.Rd | 1 nanonext-1.8.0/nanonext/man/dot-dispatcher.Rd |only nanonext-1.8.0/nanonext/man/format_sse.Rd |only nanonext-1.8.0/nanonext/man/handler.Rd |only nanonext-1.8.0/nanonext/man/handler_directory.Rd |only nanonext-1.8.0/nanonext/man/handler_file.Rd |only nanonext-1.8.0/nanonext/man/handler_inline.Rd |only nanonext-1.8.0/nanonext/man/handler_redirect.Rd |only nanonext-1.8.0/nanonext/man/handler_stream.Rd |only nanonext-1.8.0/nanonext/man/handler_ws.Rd |only nanonext-1.8.0/nanonext/man/http_server.Rd |only nanonext-1.8.0/nanonext/man/ncurl.Rd | 35 nanonext-1.8.0/nanonext/man/ncurl_aio.Rd | 30 nanonext-1.8.0/nanonext/man/ncurl_session.Rd | 30 nanonext-1.8.0/nanonext/man/race_aio.Rd |only nanonext-1.8.0/nanonext/man/tls_config.Rd | 26 nanonext-1.8.0/nanonext/src/Makevars.in | 19 nanonext-1.8.0/nanonext/src/Makevars.ucrt | 19 nanonext-1.8.0/nanonext/src/Makevars.win | 19 nanonext-1.8.0/nanonext/src/aio.c | 208 ++- nanonext-1.8.0/nanonext/src/comms.c | 121 +- nanonext-1.8.0/nanonext/src/core.c | 38 nanonext-1.8.0/nanonext/src/dispatcher.c |only nanonext-1.8.0/nanonext/src/init.c | 16 nanonext-1.8.0/nanonext/src/mbedtls |only nanonext-1.8.0/nanonext/src/nanonext.h | 143 ++ nanonext-1.8.0/nanonext/src/ncurl.c | 128 +- nanonext-1.8.0/nanonext/src/nng |only nanonext-1.8.0/nanonext/src/nng_structs.h |only nanonext-1.8.0/nanonext/src/proto.c | 10 nanonext-1.8.0/nanonext/src/server.c |only nanonext-1.8.0/nanonext/src/sync.c | 6 nanonext-1.8.0/nanonext/src/thread.c | 4 nanonext-1.8.0/nanonext/src/tls.c | 14 nanonext-1.8.0/nanonext/src/utils.c | 6 nanonext-1.8.0/nanonext/tests/tests.R | 722 ++++++++++++- nanonext-1.8.0/nanonext/vignettes/nanonext.Rmd | 820 ++++---------- nanonext-1.8.0/nanonext/vignettes/v01-messaging.Rmd |only nanonext-1.8.0/nanonext/vignettes/v02-protocols.Rmd |only nanonext-1.8.0/nanonext/vignettes/v03-configuration.Rmd |only nanonext-1.8.0/nanonext/vignettes/v04-web.Rmd |only 72 files changed, 3151 insertions(+), 2238 deletions(-)
Title: Trellis Graphics for R
Description: A powerful and elegant high-level data visualization
system inspired by Trellis graphics, with an emphasis on
multivariate data. Lattice is sufficient for typical graphics needs,
and is also flexible enough to handle most nonstandard requirements.
See ?Lattice for an introduction.
Author: Deepayan Sarkar [aut, cre] ,
Felix Andrews [ctb],
Kevin Wright [ctb] ,
Neil Klepeis [ctb],
Johan Larsson [ctb] ,
Zhijian Wen [cph] ,
Paul Murrell [ctb],
Stefan Eng [ctb] ,
Achim Zeileis [ctb] ,
Alexandre Courtiol [ctb]
Maintainer: Deepayan Sarkar <deepayan.sarkar@r-project.org>
Diff between lattice versions 0.22-7 dated 2025-04-02 and 0.22-9 dated 2026-02-09
ChangeLog | 26 ++++ DESCRIPTION | 11 + MD5 | 165 +++++++++++++++-------------- R/axis.R | 171 ------------------------------- R/panels.R | 4 R/splom.R | 3 inst/doc/grid.pdf |binary inst/po/de/LC_MESSAGES/R-lattice.mo |binary inst/po/en@quot/LC_MESSAGES/R-lattice.mo |binary inst/po/fr/LC_MESSAGES/R-lattice.mo |binary inst/po/pl/LC_MESSAGES/R-lattice.mo |binary man/Lattice.Rd | 2 man/Rows.Rd | 2 man/USMortality.Rd | 2 man/axis.default.Rd | 2 man/banking.Rd | 2 man/barchart.table.Rd | 2 man/barley.Rd | 2 man/cloud.Rd | 2 man/draw.colorkey.Rd | 2 man/draw.key.Rd | 2 man/environmental.Rd | 2 man/ethanol.Rd | 2 man/figures |only man/histogram.Rd | 2 man/interaction.Rd | 2 man/lattice.options.Rd | 2 man/latticeParseFormula.Rd | 2 man/level.colors.Rd | 2 man/levelplot.Rd | 2 man/llines.Rd | 2 man/lset.Rd | 2 man/make.groups.Rd | 2 man/melanoma.Rd | 4 man/oneway.Rd | 2 man/packet.panel.default.Rd | 2 man/panel.axis.Rd | 2 man/panel.barchart.Rd | 2 man/panel.bwplot.Rd | 2 man/panel.cloud.Rd | 2 man/panel.densityplot.Rd | 2 man/panel.dotplot.Rd | 2 man/panel.functions.Rd | 2 man/panel.histogram.Rd | 2 man/panel.levelplot.Rd | 2 man/panel.loess.Rd | 2 man/panel.number.Rd | 2 man/panel.pairs.Rd | 2 man/panel.parallel.Rd | 2 man/panel.qqmath.Rd | 2 man/panel.qqmathline.Rd | 2 man/panel.smoothScatter.Rd | 2 man/panel.spline.Rd | 2 man/panel.stripplot.Rd | 2 man/panel.superpose.Rd | 2 man/panel.violin.Rd | 2 man/panel.xyplot.Rd | 2 man/prepanel.default.Rd | 2 man/prepanel.functions.Rd | 2 man/print.trellis.Rd | 2 man/qq.Rd | 2 man/qqmath.Rd | 2 man/rfs.Rd | 2 man/shingles.Rd | 2 man/simpleKey.Rd | 2 man/simpleTheme.Rd | 2 man/singer.Rd | 2 man/splom.Rd | 2 man/standard.theme.Rd | 2 man/strip.default.Rd | 2 man/tmd.Rd | 2 man/trellis.device.Rd | 2 man/trellis.object.Rd | 2 man/trellis.par.get.Rd | 2 man/update.trellis.Rd | 2 man/utilities.3d.Rd | 2 man/xyplot.Rd | 2 man/xyplot.ts.Rd | 2 po/R-de.po | 8 - po/R-fr.po | 8 - po/R-it.po | 5 po/R-ko.po | 5 po/R-lattice.pot | 7 - po/R-pl.po | 12 +- 84 files changed, 207 insertions(+), 352 deletions(-)
Title: Instrumental-Variables Regression by '2SLS', '2SM', or '2SMM',
with Diagnostics
Description: Instrumental variable estimation for linear models by two-stage least-squares (2SLS) regression or by robust-regression via M-estimation (2SM) or MM-estimation (2SMM). The main ivreg() model-fitting function is designed to provide a workflow as similar as possible to standard lm() regression. A wide range of methods is provided for fitted ivreg model objects, including extensive functionality for computing and graphing regression diagnostics in addition to other standard model tools.
Author: John Fox [aut] ,
Christian Kleiber [aut] ,
Achim Zeileis [aut, cre] ,
Nikolas Kuschnig [ctb] ,
R Core Team [ctb]
Maintainer: Achim Zeileis <Achim.Zeileis@R-project.org>
Diff between ivreg versions 0.6-5 dated 2025-01-19 and 0.6-6 dated 2026-02-09
DESCRIPTION | 18 - MD5 | 37 +- NAMESPACE | 1 NEWS.md | 29 ++ R/ivreg.R | 12 R/ivreg.fit.R | 61 ++-- R/ivregDiagnostics.R | 3 R/ivregMethods.R | 14 - R/summary.ivreg.R | 10 build/vignette.rds |binary inst/doc/Diagnostics-for-2SLS-Regression.html | 49 +-- inst/doc/ivreg.R | 8 inst/doc/ivreg.html | 342 ++++++++++---------------- man/ivreg.Rd | 12 man/ivreg.fit.Rd | 2 man/ivregDiagnostics.Rd | 2 man/ivregMethods.Rd | 8 tests/testthat/test-alias.R |only tests/testthat/test-case-deletion.R | 13 tests/testthat/test-stage1.R | 4 20 files changed, 316 insertions(+), 309 deletions(-)
Title: Analysis of Spatial Stratified Heterogeneity
Description: Detecting spatial associations via spatial stratified heterogeneity, accounting for spatial dependencies, interpretability, complex interactions, and robust stratification. In addition, it supports the spatial stratified heterogeneity family described in Lv et al. (2025)<doi:10.1111/tgis.70032>.
Author: Wenbo Lv [aut, cre, cph] ,
Yangyang Lei [aut] ,
Fangmei Liu [aut] ,
Jianwu Yan [aut] ,
Yongze Song [aut] ,
Wufan Zhao [aut]
Maintainer: Wenbo Lv <lyu.geosocial@gmail.com>
Diff between gdverse versions 1.5.1 dated 2025-10-15 and 1.6 dated 2026-02-09
DESCRIPTION | 8 MD5 | 302 ++-- NAMESPACE | 158 +- NEWS.md | 20 R/data.R | 90 - R/gd.R | 176 +- R/gd_optunidisc.R | 172 +- R/gdverse-package.R | 8 R/geodetector.R | 1190 +++++++++--------- R/globals.R | 30 R/gozh.R | 463 +++---- R/idsa.R | 386 +++--- R/lesh.R | 378 ++--- R/loess_optscale.R | 78 - R/opgd.R | 264 ++-- R/pid_idsa.R | 426 +++--- R/psd_pseudop.R | 286 ++-- R/psd_spade.R | 402 +++--- R/r_interact_py.R | 14 R/rgd.R | 292 ++-- R/rid.R | 168 +- R/robustdisc.R | 92 - R/rpartdisc.R | 62 R/sesu_gozh.R | 378 ++--- R/sesu_opgd.R | 374 ++--- R/spade.R | 320 ++--- R/spd_lesh.R | 228 +-- R/srs_geodetecor.R | 742 +++++------ R/srsgd.R | 192 +-- R/utils.R | 182 +- R/zzz.R | 21 README.md | 4 build/vignette.rds |binary inst/CITATION | 25 inst/doc/gd.Rmd | 862 ++++++------- inst/doc/idsa.Rmd | 2 inst/doc/idsa.html | 2 inst/doc/opgd.Rmd | 432 +++--- inst/doc/opgd.html | 4 inst/doc/rgdrid.Rmd | 166 +- inst/doc/rgdrid.html | 12 inst/doc/sesu.Rmd | 1278 ++++++++++---------- inst/doc/sesu.html | 2 inst/doc/shegd.Rmd | 394 +++--- inst/doc/shegd.html | 42 inst/extdata/Depression.csv | 2146 +++++++++++++++++----------------- inst/python/cpd_disc.py | 106 - man/F_informationloss.Rd | 60 man/NTDs.Rd | 34 man/all2int.Rd | 44 man/cpsd_disc.Rd | 150 +- man/cpsd_spade.Rd | 88 - man/ecological_detector.Rd | 74 - man/factor_detector.Rd | 76 - man/figures/opgd/opgd_plot-1.png |binary man/figures/rgdrid/rgd_id-1.png |binary man/figures/rgdrid/rid_plot-1.png |binary man/gd.Rd | 92 - man/gd_optunidisc.Rd | 112 - man/gen_permutations.Rd | 46 man/geodetector.Rd | 122 - man/gozh.Rd | 102 - man/gozh_detector.Rd | 108 - man/idsa.Rd | 176 +- man/interaction_detector.Rd | 79 - man/lesh.Rd | 96 - man/loess_optscale.Rd | 94 - man/ndvi.Rd | 40 man/opgd.Rd | 144 +- man/pid_idsa.Rd | 74 - man/pipe.Rd | 30 man/plot.ecological_detector.Rd | 44 man/plot.factor_detector.Rd | 62 man/plot.gd_result.Rd | 44 man/plot.gozh_result.Rd | 44 man/plot.idsa_result.Rd | 44 man/plot.interaction_detector.Rd | 48 man/plot.lesh_result.Rd | 100 - man/plot.opgd_result.Rd | 44 man/plot.rgd_result.Rd | 58 man/plot.rid_result.Rd | 48 man/plot.risk_detector.Rd | 44 man/plot.sesu_gozh.Rd | 44 man/plot.sesu_opgd.Rd | 44 man/plot.spade_result.Rd | 60 man/plot.srs_ecological_detector.Rd | 44 man/plot.srs_factor_detector.Rd | 48 man/plot.srs_interaction_detector.Rd | 48 man/plot.srsgd_result.Rd | 44 man/print.ecological_detector.Rd | 44 man/print.factor_detector.Rd | 44 man/print.gd_result.Rd | 44 man/print.gozh_result.Rd | 44 man/print.idsa_result.Rd | 44 man/print.interaction_detector.Rd | 44 man/print.lesh_result.Rd | 44 man/print.opgd_result.Rd | 44 man/print.rgd_result.Rd | 44 man/print.rid_result.Rd | 44 man/print.risk_detector.Rd | 44 man/print.sesu_gozh.Rd | 44 man/print.sesu_opgd.Rd | 44 man/print.spade_result.Rd | 46 man/print.srs_ecological_detector.Rd | 44 man/print.srs_factor_detector.Rd | 44 man/print.srs_interaction_detector.Rd | 44 man/print.srsgd_result.Rd | 44 man/psd_iev.Rd | 80 - man/psd_pseudop.Rd | 92 - man/psd_spade.Rd | 80 - man/psmd_pseudop.Rd | 128 +- man/psmd_spade.Rd | 122 - man/rgd.Rd | 140 +- man/rid.Rd | 136 +- man/risk_detector.Rd | 58 man/robust_disc.Rd | 82 - man/rpart_disc.Rd | 72 - man/sesu_gozh.Rd | 178 +- man/sesu_opgd.Rd | 180 +- man/sim.Rd | 40 man/spade.Rd | 142 +- man/spd_lesh.Rd | 102 - man/srs_ecological_detector.Rd | 88 - man/srs_factor_detector.Rd | 78 - man/srs_geodetector.Rd | 92 - man/srs_interaction_detector.Rd | 92 - man/srs_table.Rd | 34 man/srs_wt.Rd | 34 man/srsgd.Rd | 112 - man/weight_assign.Rd | 52 src/RcppExports.cpp | 27 src/roughset.cpp | 117 - tests/testthat.R | 24 tests/testthat/test-data_type.R | 16 tests/testthat/test-geodetector.R | 14 tests/testthat/test-multicores.R | 18 tests/testthat/test-psd_spade.R | 12 tests/testthat/test-srs_geodetecor.R | 18 vignettes/consistency.Rmd.orig | 76 - vignettes/gd.Rmd | 862 ++++++------- vignettes/gd.Rmd.orig | 414 +++--- vignettes/idsa.Rmd | 2 vignettes/idsa.Rmd.orig | 108 - vignettes/opgd.Rmd | 432 +++--- vignettes/opgd.Rmd.orig | 162 +- vignettes/rgdrid.Rmd | 166 +- vignettes/rgdrid.Rmd.orig | 102 - vignettes/sesu.Rmd | 1278 ++++++++++---------- vignettes/sesu.Rmd.orig | 156 +- vignettes/shegd.Rmd | 394 +++--- vignettes/shegd.Rmd.orig | 192 +-- vignettes/spade.Rmd.orig | 218 +-- 152 files changed, 11999 insertions(+), 11949 deletions(-)
Title: Font Metrics and Font Management Utilities for R Graphics
Description: Compute text metrics (width, ascent, descent) using 'Cairo'
and 'FreeType', independently of the active graphic device. Font
lookup is delegated to 'systemfonts'. Additional utilities let users
register 'Google Fonts' or bundled 'Liberation' fonts, check font
availability, and assemble 'htmlDependency' objects so that fonts are
correctly embedded in 'Shiny' applications, 'R Markdown' documents,
and 'htmlwidgets' outputs such as 'ggiraph'.
Author: David Gohel [aut, cre],
Hadley Wickham [aut],
Lionel Henry [aut],
Jeroen Ooms [aut] ,
Yixuan Qiu [ctb],
R Core Team [cph] ,
ArData [cph],
RStudio [cph]
Maintainer: David Gohel <david.gohel@ardata.fr>
Diff between gdtools versions 0.4.4 dated 2025-10-06 and 0.5.0 dated 2026-02-09
gdtools-0.4.4/gdtools/inst/include |only gdtools-0.4.4/gdtools/man/str_extents.Rd |only gdtools-0.4.4/gdtools/src/gdtools.cpp |only gdtools-0.4.4/gdtools/tests/testthat/test-str_extents.R |only gdtools-0.5.0/gdtools/DESCRIPTION | 22 - gdtools-0.5.0/gdtools/MD5 | 93 +++--- gdtools-0.5.0/gdtools/NAMESPACE | 8 gdtools-0.5.0/gdtools/NEWS.md | 31 ++ gdtools-0.5.0/gdtools/R/RcppExports.R | 20 - gdtools-0.5.0/gdtools/R/font-caching.R | 38 +- gdtools-0.5.0/gdtools/R/font_family_exists.R | 34 +- gdtools-0.5.0/gdtools/R/font_set.R |only gdtools-0.5.0/gdtools/R/fontconfig.R | 13 gdtools-0.5.0/gdtools/R/fonts.R | 44 ++- gdtools-0.5.0/gdtools/R/gdtools.R | 11 gdtools-0.5.0/gdtools/R/liberation.R | 85 ++++- gdtools-0.5.0/gdtools/R/str-metrics.R | 159 ++++++----- gdtools-0.5.0/gdtools/R/sysdata.rda |binary gdtools-0.5.0/gdtools/README.md | 185 +++++++++---- gdtools-0.5.0/gdtools/man/addGFontHtmlDependency.Rd | 2 gdtools-0.5.0/gdtools/man/dummy_setup.Rd | 9 gdtools-0.5.0/gdtools/man/font_family_exists.Rd | 12 gdtools-0.5.0/gdtools/man/font_google.Rd |only gdtools-0.5.0/gdtools/man/font_liberation.Rd |only gdtools-0.5.0/gdtools/man/font_set.Rd |only gdtools-0.5.0/gdtools/man/font_set_auto.Rd |only gdtools-0.5.0/gdtools/man/font_set_liberation.Rd |only gdtools-0.5.0/gdtools/man/fonts_cache_dir.Rd | 2 gdtools-0.5.0/gdtools/man/liberationmonoHtmlDependency.Rd | 2 gdtools-0.5.0/gdtools/man/liberationsansHtmlDependency.Rd | 2 gdtools-0.5.0/gdtools/man/liberationserifHtmlDependency.Rd | 2 gdtools-0.5.0/gdtools/man/m_str_extents.Rd | 23 + gdtools-0.5.0/gdtools/man/match_family.Rd | 5 gdtools-0.5.0/gdtools/man/register_gfont.Rd | 2 gdtools-0.5.0/gdtools/man/register_liberationmono.Rd | 14 gdtools-0.5.0/gdtools/man/register_liberationsans.Rd | 14 gdtools-0.5.0/gdtools/man/register_liberationserif.Rd | 14 gdtools-0.5.0/gdtools/man/str_metrics.Rd | 26 + gdtools-0.5.0/gdtools/man/strings_sizes.Rd | 22 + gdtools-0.5.0/gdtools/man/sys_fonts.Rd | 7 gdtools-0.5.0/gdtools/man/version_cairo.Rd | 12 gdtools-0.5.0/gdtools/src/CairoContext.cpp | 37 -- gdtools-0.5.0/gdtools/src/Makevars.in | 2 gdtools-0.5.0/gdtools/src/Makevars.win | 4 gdtools-0.5.0/gdtools/src/RcppExports.cpp | 162 ----------- gdtools-0.5.0/gdtools/src/font_metrics.cpp | 62 ++-- gdtools-0.5.0/gdtools/src/gdtools_types.h |only gdtools-0.5.0/gdtools/tests/testthat/helper-fontconfig.R | 8 gdtools-0.5.0/gdtools/tests/testthat/test-font-set.R |only gdtools-0.5.0/gdtools/tests/testthat/test-fonts.R | 33 ++ gdtools-0.5.0/gdtools/tests/testthat/test-str_metrics.R | 54 +++ gdtools-0.5.0/gdtools/tests/testthat/test-utils.R | 13 52 files changed, 772 insertions(+), 516 deletions(-)
Title: Evidence Accumulation Models
Description: Simulation-based evidence accumulation models for analyzing responses
and reaction times in single- and multi-response tasks. The package includes
simulation engines for five representative models: the Diffusion Decision
Model (DDM), Leaky Competing Accumulator (LCA), Linear Ballistic Accumulator
(LBA), Racing Diffusion Model (RDM), and Levy Flight Model (LFM), and
extends these frameworks to multi-response settings. The package supports
user-defined functions for item-level parameterization and the incorporation
of covariates, enabling flexible customization and the development of new
model variants based on existing architectures. Inference is performed using
simulation-based methods, including Approximate Bayesian Computation (ABC)
and Amortized Bayesian Inference (ABI), which allow parameter estimation
without requiring tractable likelihood functions. In addition to core
inference tools, the package provides modules for parameter recovery,
posterior predictive checks, and model com [...truncated...]
Author: Guangyu Zhu [aut] ,
Guang Yang [aut, cre]
Maintainer: Guang Yang <guang.spike.yang@gmail.com>
Diff between eam versions 1.0.1 dated 2026-01-17 and 1.1.0 dated 2026-02-09
eam-1.0.1/eam/README.md |only eam-1.1.0/eam/DESCRIPTION | 10 ++-- eam-1.1.0/eam/MD5 | 22 ++++++---- eam-1.1.0/eam/NAMESPACE | 1 eam-1.1.0/eam/NEWS.md |only eam-1.1.0/eam/R/abi_input.R |only eam-1.1.0/eam/R/plot_posterior_parameters.R | 54 ++++++++++++++++++------- eam-1.1.0/eam/R/plot_rt.R | 16 +++++-- eam-1.1.0/eam/R/simulation.R | 8 ++- eam-1.1.0/eam/R/summarise_by.R | 5 +- eam-1.1.0/eam/man/build_abi_input.Rd |only eam-1.1.0/eam/man/build_abi_input.Z.Rd |only eam-1.1.0/eam/man/build_abi_input.theta.Rd |only eam-1.1.0/eam/man/plot_posterior_parameters.Rd | 11 ++++- eam-1.1.0/eam/man/plot_rt.Rd | 6 ++ 15 files changed, 94 insertions(+), 39 deletions(-)
Title: Spatial Analysis with Misaligned Data Using Atom-Based
Regression Models
Description: Implements atom-based regression models (ABRM) for analyzing spatially
misaligned data. Provides functions for simulating misaligned spatial data,
preparing NIMBLE model inputs, running MCMC diagnostics, and comparing different
spatial analysis methods including dasymetric mapping. All main functions return
S3 objects with print(), summary(), and plot() methods for intuitive result exploration.
Methods are described in Nethery et al. (2023) <doi:10.1101/2023.01.10.23284410>.
Further methodological details and software implementation are described in Qian et al. (in review).
Author: Yunzhe Qian [aut, cre],
Rachel Nethery [aut],
Nancy Krieger [ctb] ,
Nykesha Johnson [ctb]
Maintainer: Yunzhe Qian <qyzanemos@gmail.com>
Diff between spatialAtomizeR versions 0.2.4 dated 2025-12-17 and 0.2.5 dated 2026-02-08
spatialAtomizeR-0.2.4/spatialAtomizeR/man/check_mcmc_diagnostics.Rd |only spatialAtomizeR-0.2.4/spatialAtomizeR/man/create_comparison_plots.Rd |only spatialAtomizeR-0.2.4/spatialAtomizeR/man/create_diagnostic_plots.Rd |only spatialAtomizeR-0.2.4/spatialAtomizeR/man/create_sensitivity_summary_plots.Rd |only spatialAtomizeR-0.2.4/spatialAtomizeR/man/create_summary_statistics.Rd |only spatialAtomizeR-0.2.4/spatialAtomizeR/man/plot.abrm.Rd |only spatialAtomizeR-0.2.4/spatialAtomizeR/man/plot.abrm_comparison.Rd |only spatialAtomizeR-0.2.4/spatialAtomizeR/man/prepare_adjacency_matrices.Rd |only spatialAtomizeR-0.2.4/spatialAtomizeR/man/prepare_nimble_inputs.Rd |only spatialAtomizeR-0.2.4/spatialAtomizeR/man/prepare_spatial_bookkeeping.Rd |only spatialAtomizeR-0.2.4/spatialAtomizeR/man/print.abrm.Rd |only spatialAtomizeR-0.2.4/spatialAtomizeR/man/print.abrm_comparison.Rd |only spatialAtomizeR-0.2.4/spatialAtomizeR/man/print.misaligned_data.Rd |only spatialAtomizeR-0.2.4/spatialAtomizeR/man/print.sensitivity_analysis.Rd |only spatialAtomizeR-0.2.4/spatialAtomizeR/man/print_convergence_summary.Rd |only spatialAtomizeR-0.2.4/spatialAtomizeR/man/summary.abrm.Rd |only spatialAtomizeR-0.2.4/spatialAtomizeR/man/summary.abrm_comparison.Rd |only spatialAtomizeR-0.2.4/spatialAtomizeR/man/summary.misaligned_data.Rd |only spatialAtomizeR-0.2.4/spatialAtomizeR/man/summary.sensitivity_analysis.Rd |only spatialAtomizeR-0.2.5/spatialAtomizeR/DESCRIPTION | 8 spatialAtomizeR-0.2.5/spatialAtomizeR/MD5 | 40 spatialAtomizeR-0.2.5/spatialAtomizeR/NAMESPACE | 19 spatialAtomizeR-0.2.5/spatialAtomizeR/NEWS.md |only spatialAtomizeR-0.2.5/spatialAtomizeR/R/analysis.R | 1 spatialAtomizeR-0.2.5/spatialAtomizeR/R/diagnostics.R | 46 spatialAtomizeR-0.2.5/spatialAtomizeR/R/methods.R | 87 + spatialAtomizeR-0.2.5/spatialAtomizeR/R/preparation.R | 11 spatialAtomizeR-0.2.5/spatialAtomizeR/inst/doc/getting-started.R | 318 ++++- spatialAtomizeR-0.2.5/spatialAtomizeR/inst/doc/getting-started.Rmd | 457 ++++++-- spatialAtomizeR-0.2.5/spatialAtomizeR/inst/doc/getting-started.html | 553 ++++++---- spatialAtomizeR-0.2.5/spatialAtomizeR/vignettes/getting-started.Rmd | 457 ++++++-- 31 files changed, 1385 insertions(+), 612 deletions(-)
More information about spatialAtomizeR at CRAN
Permanent link
Title: Random Coefficient Minification Time Series Models
Description: Data sets, and functions for simulating and fitting nonlinear time series with minification and nonparametric models.
Author: L. Han [aut, cre]
Maintainer: L. Han <lengyi.han@ubc.ca>
Diff between RCMinification versions 1.2 dated 2023-01-17 and 1.4 dated 2026-02-08
DESCRIPTION | 6 +++--- MD5 | 22 +++++++++++++--------- R/rRCMT.R | 3 ++- data/AR1Typesim.rda |only data/AR1sim.rda |only data/BCfireArea.rda |binary data/BeerVolume.rda |binary data/FWI.rda |binary data/Globaltemps.rda |binary data/longitudinalAcceleration.rda |binary data/nickel.rda |binary man/AR1Typesim.Rd |only man/AR1sim.Rd |only man/nonlinearAR1.sim.Rd | 2 +- 14 files changed, 19 insertions(+), 14 deletions(-)
More information about RCMinification at CRAN
Permanent link
Title: Quality Control and Analysis of Massachusetts Water Quality Data
Description: Methods for quality control and exploratory analysis of surface
water quality data collected in Massachusetts, USA. Functions are developed
to facilitate data formatting for the Water Quality Exchange Network
<https://www.epa.gov/waterdata/water-quality-data-upload-wqx> and reporting
of data quality objectives to state agencies. Quality control methods are
from Massachusetts Department of Environmental Protection (2020)
<https://www.mass.gov/orgs/massachusetts-department-of-environmental-protection>.
Author: Marcus Beck [aut, cre] ,
Jill Carr [aut],
Ben Wetherill [aut]
Maintainer: Marcus Beck <mbeck@tbep.org>
Diff between MassWateR versions 2.2.0 dated 2025-05-29 and 2.2.1 dated 2026-02-08
DESCRIPTION | 12 - MD5 | 57 ++++---- NAMESPACE | 1 NEWS.md | 11 + R/anlzMWRdate.R | 2 R/anlzMWRmap.R | 87 ++++++++---- R/anlzMWRseason.R | 2 R/anlzMWRsite.R | 2 R/formMWRacc.R | 2 R/globalVariables.R | 2 R/readMWRresultsview.R | 2 R/utilMWRgetnhd.R |only man/anlzMWRmap.Rd | 10 + man/formMWRacc.Rd | 2 man/formMWRcens.Rd | 74 +++++----- man/readMWRacc.Rd | 60 ++++---- man/readMWRfrecom.Rd | 62 ++++---- man/readMWRsites.Rd | 56 +++---- man/utilMWRfiltersurface.Rd | 60 ++++---- man/utilMWRgetnhd.Rd |only man/utilMWRoutlier.Rd | 52 +++---- man/utilMWRsheet.Rd | 226 ++++++++++++++++---------------- man/utilMWRsumfun.Rd | 88 ++++++------ man/utilMWRsummary.Rd | 112 +++++++-------- man/utilMWRvaluerange.Rd | 62 ++++---- tests/testthat.R | 1 tests/testthat/helper-data.R | 1 tests/testthat/test-anlzMWRmap.R | 102 ++++++++++++++ tests/testthat/test-anlzMWRoutlierall.R | 123 +++++++++++++++-- tests/testthat/test-qcMWRreview.R | 154 +++++++++++++++++---- tests/testthat/test-utilMWRgetnhd.R |only 31 files changed, 887 insertions(+), 538 deletions(-)
Title: Bayesian Heteroskedastic Gaussian Processes
Description: Performs Bayesian posterior inference for heteroskedastic Gaussian processes.
Models are trained through MCMC including elliptical slice sampling (ESS) of
latent noise processes and Metropolis-Hastings sampling of
kernel hyperparameters. Replicates are handled efficientyly through a
Woodbury formulation of the joint likelihood for the mean and noise process
(Binois, M., Gramacy, R., Ludkovski, M. (2018) <doi:10.1080/10618600.2018.1458625>)
For large data, Vecchia-approximation for faster
computation is leveraged (Sauer, A., Cooper, A., and Gramacy, R.,
(2023), <doi:10.1080/10618600.2022.2129662>). Incorporates 'OpenMP' and
SNOW parallelization and utilizes 'C'/'C++' under the hood.
Author: Parul V. Patil [aut, cre]
Maintainer: Parul V. Patil <parulvijay@vt.edu>
Diff between bhetGP versions 1.0.1 dated 2025-07-18 and 1.0.2 dated 2026-02-08
DESCRIPTION | 6 - MD5 | 45 ++++--- R/SV.R | 20 ++- R/checks.R | 181 ++++++++++++++----------------- R/fit.R | 253 ++++++++++++++++++++++++++++++++++++++++---- R/functions.R | 56 +++++---- R/general.R | 46 ++++++-- R/gibbs.R | 19 +-- R/gibbs_vdims_N.R | 23 ++-- R/gibbs_vecchia.R | 66 +++++------ R/inits.R | 185 +++++++++++++++++++++----------- R/mcmc.R | 1 R/mcmc_vecchia.R | 32 ++--- R/plots.R | 94 ++++++++++------ R/predict.R | 295 ++++++++++++++++++++++++++++++++++++---------------- R/predict_vecchia.R | 256 +++++++++++++++++++++++++++++++++------------ R/trim.R | 2 README.md | 29 +++++ man/bhetGP.Rd | 8 - man/bhetGP_vdims.Rd |only man/bhomGP.Rd | 6 - man/predict.Rd | 8 - man/trim.Rd | 2 src/vecchia.cpp | 16 +- 24 files changed, 1124 insertions(+), 525 deletions(-)
Title: Numerical Standard Errors Computation in R
Description: Collection of functions designed to calculate numerical standard error (NSE) of univariate time series as described in Ardia et al. (2018) <doi:10.1515/jtse-2017-0011> and Ardia and Bluteau (2017) <doi:10.21105/joss.00172>.
Author: David Ardia [aut] ,
Keven Bluteau [aut, cre]
Maintainer: Keven Bluteau <keven.bluteau@usherbrooke.ca>
This is a re-admission after prior archival of version 1.21 dated 2022-11-10
Diff between nse versions 1.21 dated 2022-11-10 and 1.22 dated 2026-02-08
nse-1.21/nse/R/cos.basis.R |only nse-1.22/nse/DESCRIPTION | 17 +++++++------- nse-1.22/nse/MD5 | 26 ++++++++++----------- nse-1.22/nse/NEWS | 2 + nse-1.22/nse/R/cos_basis.R |only nse-1.22/nse/R/nse.R | 14 +++++------ nse-1.22/nse/build/partial.rdb |binary nse-1.22/nse/inst/CITATION | 47 ++++++++++++++++----------------------- nse-1.22/nse/man/nse.Rd | 2 - nse-1.22/nse/man/nse.andrews.Rd | 2 - nse-1.22/nse/man/nse.boot.Rd | 2 - nse-1.22/nse/man/nse.geyer.Rd | 2 - nse-1.22/nse/man/nse.hiruk.Rd | 4 +-- nse-1.22/nse/man/nse.nw.Rd | 2 - nse-1.22/nse/src/RcppExports.cpp | 5 ++++ 15 files changed, 63 insertions(+), 62 deletions(-)
Title: Camera Trap Data Management and Analysis Framework
Description: Management and analysis of camera trap wildlife data through
an integrated workflow. Provides functions for image/video
organization and metadata extraction, species/individual
identification. Creates detection histories for occupancy and spatial
capture-recapture analyses, with support for multi-season studies.
Includes tools for fitting community occupancy models in JAGS and
NIMBLE, and an interactive dashboard for survey data visualization and
analysis. Features visualization of species distributions and activity
patterns, plus export capabilities for GIS and reports. Emphasizes
automation and reproducibility while maintaining flexibility for
different study designs.
Author: Juergen Niedballa [aut, cre] ,
Alexandre Courtiol [aut] ,
Rahel Sollmann [aut] ,
John Mathai [ctb],
Seth Timothy Wong [ctb] ,
An The Truong Nguyen [ctb] ,
Azlan bin Mohamed [ctb] ,
Andrew Tilker [ctb] ,
Roshan Guharajan [ctb] ,
Ioannis Alexiou [ctb] [...truncated...]
Maintainer: Juergen Niedballa <camtrapr@gmail.com>
Diff between camtrapR versions 3.0.2 dated 2026-01-25 and 3.0.3 dated 2026-02-08
DESCRIPTION | 8 MD5 | 25 - NEWS.md | 9 R/aggregateStations.R | 8 R/fixDateTimeOriginal.R | 1 R/plot.R | 2 R/predict.R | 146 +++---- R/surveyDashboard.R | 813 +++++++++++++++++++++++----------------- R/variousOtherHelperFunctions.R | 100 ++++ README.md | 1 inst/doc/camtrapr1.pdf |binary man/aggregateStations.Rd | 5 man/dot-check_memory_usage.Rd |only man/fixDateTimeOriginal.Rd | 1 14 files changed, 687 insertions(+), 432 deletions(-)
Title: Variational Autoencoders for Heterogeneous Tabular Data
Description: Build and train a variational autoencoder (VAE) for mixed-type
tabular data (continuous, binary, categorical).
Models are implemented using 'TensorFlow' and 'Keras' via the 'reticulate'
interface, enabling reproducible VAE training for heterogeneous tabular
datasets.
Author: Sarah Milligan [aut, cre]
Maintainer: Sarah Milligan <slm1999@bu.edu>
Diff between autotab versions 0.1.2 dated 2026-02-06 and 0.1.3 dated 2026-02-08
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- R/extracting_distribution.R | 4 ++-- R/loss.R | 24 +++++++++++++++--------- man/extracting_distribution.Rd | 2 +- man/feat_reorder.Rd | 2 +- 6 files changed, 27 insertions(+), 21 deletions(-)
Title: Forest Mensuration and Management
Description: Processing forest inventory data with methods such as simple random sampling, stratified random sampling and systematic sampling. There are also functions for yield and growth predictions and model fitting, linear and nonlinear grouped data fitting, and statistical tests. References: Kershaw Jr., Ducey, Beers and Husch (2016). <doi:10.1002/9781118902028>.
Author: Sollano Rabelo Braga [aut, cre, cph],
Marcio Leles Romarco de Oliveira [aut],
Eric Bastos Gorgens [aut]
Maintainer: Sollano Rabelo Braga <sollanorb@gmail.com>
Diff between forestmangr versions 0.9.8 dated 2024-12-01 and 0.9.9 dated 2026-02-08
DESCRIPTION | 10 +++++----- MD5 | 34 +++++++++++++++++----------------- NEWS.md | 3 +++ R/huberwb.R | 2 +- R/huberwob.R | 2 +- build/vignette.rds |binary inst/doc/eq_group_fit_en.html | 9 +++++---- inst/doc/eq_group_fit_ptbr.html | 9 +++++---- inst/doc/invent_vol_plot_en.html | 7 ++++--- inst/doc/invent_vol_plot_ptbr.html | 7 ++++--- inst/doc/phyto_ana_en.html | 7 ++++--- inst/doc/phyto_ana_ptbr.html | 7 ++++--- inst/doc/sampling_en.html | 5 +++-- inst/doc/sampling_ptbr.html | 5 +++-- inst/doc/volume_est_en.html | 9 +++++---- inst/doc/volume_est_ptbr.html | 9 +++++---- inst/doc/yield_growth_en.html | 7 ++++--- inst/doc/yield_growth_ptbr.html | 7 ++++--- 18 files changed, 77 insertions(+), 62 deletions(-)
Title: R Data Science Supporting Rattle
Description: The R Analytic Tool To Learn Easily (Rattle) provides a
collection of utilities functions for the data scientist. This
package (v5.6.0) supports the companion graphical interface with
the aim to provide a simple and intuitive introduction to R
for data science, allowing a user to quickly load data from a CSV file
transform and explore the data, and to build and evaluate models.
A key aspect of the GUI is that all R commands are logged and
commented through the log tab.
This can be saved as a standalone R script file and as
an aid for the user to
learn R or to copy-and-paste directly into R itself. If you
want to use the older Rattle implementing the GUI in RGtk2
(which is no longer available from CRAN) then please install
the Rattle package v5.5.1.
See rattle.togaware.com for instructions on installing
the modern Rattle graphical user interface.
Author: Graham Williams [aut, cph, cre],
Mark Vere Culp [cph],
Ed Cox [ctb],
Anthony Nolan [ctb],
Denis White [cph],
Daniele Medri [ctb],
Akbar Waljee [ctb] ,
Brian Ripley [cph] ,
Jose Magana [ctb] ,
Surendra Tipparaju [ctb] ,
Durga Prasad Chappidi [ctb] ,
D [...truncated...]
Maintainer: Graham Williams <Graham.Williams@togaware.com>
Diff between rattle versions 5.5.1 dated 2022-03-21 and 5.6.2 dated 2026-02-08
rattle-5.5.1/rattle/inst/extdata |only rattle-5.6.2/rattle/DESCRIPTION | 68 rattle-5.6.2/rattle/MD5 | 128 rattle-5.6.2/rattle/R/associate.R | 118 rattle-5.6.2/rattle/R/data.R | 1455 ---------- rattle-5.6.2/rattle/R/evaluate.R | 604 ---- rattle-5.6.2/rattle/R/executeBoxPlot2.R | 6 rattle-5.6.2/rattle/R/explore.R | 634 ++-- rattle-5.6.2/rattle/R/export.R | 195 - rattle-5.6.2/rattle/R/hclust.R | 204 - rattle-5.6.2/rattle/R/kmeans.R | 75 rattle-5.6.2/rattle/R/log.R | 116 rattle-5.6.2/rattle/R/model.R | 178 - rattle-5.6.2/rattle/R/projects.R | 526 --- rattle-5.6.2/rattle/R/rattle.R | 1989 --------------- rattle-5.6.2/rattle/R/rattleng.R |only rattle-5.6.2/rattle/R/survival.R | 33 rattle-5.6.2/rattle/R/textview.R | 19 rattle-5.6.2/rattle/R/zzz.R | 63 rattle-5.6.2/rattle/build/vignette.rds |binary rattle-5.6.2/rattle/data/locationsAUS.RData |binary rattle-5.6.2/rattle/data/weather.RData |binary rattle-5.6.2/rattle/data/weatherAUS.RData |binary rattle-5.6.2/rattle/inst/CITATION | 28 rattle-5.6.2/rattle/inst/NEWS | 24 rattle-5.6.2/rattle/inst/doc/rattle.R | 11 rattle-5.6.2/rattle/inst/doc/rattle.Rnw | 76 rattle-5.6.2/rattle/inst/doc/rattle.pdf |binary rattle-5.6.2/rattle/inst/etc/rattle.ui | 2 rattle-5.6.2/rattle/man/acquireAuditData.Rd | 6 rattle-5.6.2/rattle/man/asRules.Rd | 2 rattle-5.6.2/rattle/man/asRules.rpart.Rd | 2 rattle-5.6.2/rattle/man/binning.Rd | 2 rattle-5.6.2/rattle/man/calcInitialDigitDistr.Rd | 2 rattle-5.6.2/rattle/man/calculateAUC.Rd | 2 rattle-5.6.2/rattle/man/centers.hclust.Rd | 2 rattle-5.6.2/rattle/man/comcat.Rd | 2 rattle-5.6.2/rattle/man/drawTreeNodes.Rd | 2 rattle-5.6.2/rattle/man/drawTreesAda.Rd | 2 rattle-5.6.2/rattle/man/errorMatrix.Rd | 2 rattle-5.6.2/rattle/man/evaluateRisk.Rd | 2 rattle-5.6.2/rattle/man/fancyRpartPlot.Rd | 2 rattle-5.6.2/rattle/man/find_fewest_levels.Rd |only rattle-5.6.2/rattle/man/genPlotTitleCmd.Rd | 2 rattle-5.6.2/rattle/man/ggVarImp.Rd | 2 rattle-5.6.2/rattle/man/grouper.Rd | 2 rattle-5.6.2/rattle/man/internal.Rd | 2 rattle-5.6.2/rattle/man/listAdaVarsUsed.Rd | 2 rattle-5.6.2/rattle/man/listTreesAda.Rd | 2 rattle-5.6.2/rattle/man/meta_data.Rd |only rattle-5.6.2/rattle/man/plotOptimalLine.Rd | 2 rattle-5.6.2/rattle/man/plotRisk.Rd | 2 rattle-5.6.2/rattle/man/printRandomForests.Rd | 2 rattle-5.6.2/rattle/man/randomForest2Rules.Rd | 2 rattle-5.6.2/rattle/man/rattle.Rd | 22 rattle-5.6.2/rattle/man/rattle.print.summary.multinom.Rd | 2 rattle-5.6.2/rattle/man/rattleInfo.Rd | 2 rattle-5.6.2/rattle/man/riskchart.Rd | 2 rattle-5.6.2/rattle/man/savePlotToFile.Rd | 2 rattle-5.6.2/rattle/man/setupDataset.Rd | 2 rattle-5.6.2/rattle/man/theme_rattle.Rd |only rattle-5.6.2/rattle/man/treeset.randomForest.Rd | 2 rattle-5.6.2/rattle/man/unique_columns.Rd |only rattle-5.6.2/rattle/man/weather.Rd | 25 rattle-5.6.2/rattle/man/weatherAUS.Rd | 32 rattle-5.6.2/rattle/man/whichNumerics.Rd | 2 rattle-5.6.2/rattle/man/wine.Rd | 42 rattle-5.6.2/rattle/vignettes/rattle.Rnw | 76 68 files changed, 968 insertions(+), 5845 deletions(-)
Title: Waffle Style Chart with a Brick Layout in 'ggplot2'
Description: A new take on the bar chart. Similar to a waffle style chart but
instead of squares the layout resembles a brick wall.
Author: Daniel Oehm [aut, cre]
Maintainer: Daniel Oehm <danieloehm@gmail.com>
Diff between ggbrick versions 0.3.1 dated 2025-09-14 and 0.3.2 dated 2026-02-08
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 6 ++---- R/geom-brick.R | 2 +- 4 files changed, 9 insertions(+), 11 deletions(-)
Title: Assess Study Cohorts Using a Common Data Model
Description: Phenotype study cohorts in data mapped to the
Observational Medical Outcomes Partnership Common Data Model. Diagnostics
are run at the database, code list, cohort, and population level to assess
whether study cohorts are ready for research.
Author: Edward Burn [aut, cre] ,
Marti Catala [aut] ,
Xihang Chen [aut] ,
Marta Alcalde-Herraiz [aut] ,
Nuria Mercade-Besora [aut] ,
Albert Prats-Uribe [aut]
Maintainer: Edward Burn <edward.burn@ndorms.ox.ac.uk>
Diff between PhenotypeR versions 0.3.1 dated 2026-01-28 and 0.3.2 dated 2026-02-08
PhenotypeR-0.3.1/PhenotypeR/R/utils-pipe.R |only PhenotypeR-0.3.1/PhenotypeR/inst/shiny/data/appData.RData |only PhenotypeR-0.3.1/PhenotypeR/inst/shiny/data/raw/results.csv |only PhenotypeR-0.3.1/PhenotypeR/man/pipe.Rd |only PhenotypeR-0.3.2/PhenotypeR/DESCRIPTION | 36 PhenotypeR-0.3.2/PhenotypeR/MD5 | 51 PhenotypeR-0.3.2/PhenotypeR/NAMESPACE | 2 PhenotypeR-0.3.2/PhenotypeR/R/codelistDiagnostics.R | 36 PhenotypeR-0.3.2/PhenotypeR/R/cohortDiagnostics.R | 4 PhenotypeR-0.3.2/PhenotypeR/R/drugDiagnostics.R |only PhenotypeR-0.3.2/PhenotypeR/R/getCohortExpectations.R | 6 PhenotypeR-0.3.2/PhenotypeR/R/utilities.R |only PhenotypeR-0.3.2/PhenotypeR/inst/doc/CodelistDiagnostics.html | 726 ++-- PhenotypeR-0.3.2/PhenotypeR/inst/doc/DatabaseDiagnostics.html | 1752 ++-------- PhenotypeR-0.3.2/PhenotypeR/inst/doc/PhenotypeExpectations.html | 24 PhenotypeR-0.3.2/PhenotypeR/inst/doc/PopulationDiagnostics.html | 220 - PhenotypeR-0.3.2/PhenotypeR/inst/doc/ShinyDiagnostics.R | 37 PhenotypeR-0.3.2/PhenotypeR/inst/doc/ShinyDiagnostics.Rmd | 104 PhenotypeR-0.3.2/PhenotypeR/inst/doc/ShinyDiagnostics.html | 85 PhenotypeR-0.3.2/PhenotypeR/inst/shiny/global.R | 5 PhenotypeR-0.3.2/PhenotypeR/inst/shiny/server.R | 60 PhenotypeR-0.3.2/PhenotypeR/man/PhenotypeR-package.Rd | 2 PhenotypeR-0.3.2/PhenotypeR/tests/testthat/test-drugDiagnostics.R |only PhenotypeR-0.3.2/PhenotypeR/vignettes/ShinyDiagnostics.Rmd | 104 PhenotypeR-0.3.2/PhenotypeR/vignettes/ShinyDiagnosticsFigures |only 25 files changed, 1231 insertions(+), 2023 deletions(-)