Title: Query Composite Hypotheses
Description: Provides functions for the joint analysis of Q sets of
p-values obtained for the same list of items. This joint analysis is
performed by querying a composite hypothesis, i.e. an arbitrary
complex combination of simple hypotheses, as described in Mary-Huard
et al. (2021) <doi:10.1093/bioinformatics/btab592> and De Walsche et
al.(2025) <doi: 10.1093/nargab/lqaf118>. In this approach, the Q-uplet
of p-values associated with each item is distributed as a multivariate
mixture, where each of the 2^Q components corresponds to a specific
combination of simple hypotheses. The dependence between the p-value
series is considered using a Gaussian copula function. A p-value for
the composite hypothesis test is derived from the posterior
probabilities.
Author: Tristan Mary-Huard [aut, cre] ,
Annaig De Walsche [aut] ,
Franck Gauthier [ctb]
Maintainer: Tristan Mary-Huard <tristan.mary-huard@agroparistech.fr>
Diff between qch versions 2.1.2 dated 2026-02-16 and 2.1.3 dated 2026-05-27
COPYING |only DESCRIPTION | 10 MD5 | 53 - NAMESPACE | 1 R/Data.R | 54 - R/EM_functions.R | 842 +++++++++++----------- R/FastKerFDR_functions.R | 762 ++++++++++--------- R/GetHinfo.R | 505 ++++++------- R/RcppExports.R | 39 + R/pi0est_from_pkg_qvalue.R |only R/qch_fit.R | 665 ++++++++--------- R/qch_test.R | 473 ++++++------ inst/WORDLIST | 98 +- man/EM_calibration_gaussian.Rd | 87 +- man/EM_calibration_gaussian_memory.Rd | 5 man/EM_calibration_indep.Rd | 4 man/EM_calibration_indep_memory.Rd | 5 man/FastKerFdr_signed.Rd | 84 +- man/FastKerFdr_unsigned.Rd | 85 +- man/GetH1AtLeast.Rd | 62 - man/GetH1Equal.Rd | 62 - man/PvalSets_cor.Rd | 42 - man/f1_separation_signed.Rd | 64 - man/last_incomplete_trapezoid_arma.Rd |only man/qch-package.Rd | 74 - man/qch.fit.Rd | 13 man/remove_decreasing_values_cpp.Rd |only man/remove_decreasing_values_cpp_slow_ordering.Rd |only src/RcppExports.cpp | 43 + src/updatePrior_rcpp.cpp | 786 +++++++++++--------- 30 files changed, 2617 insertions(+), 2301 deletions(-)
Title: Bayesian Screening and Variable Selection
Description: Performs Bayesian variable screening and selection for ultra-high dimensional linear regression models.Also contains an user friendly web application to perform multi trait GWAS.
Author: Dongjin Li [aut, cre],
Debarshi Chakraborty [aut],
Somak Dutta [aut],
Vivekananda Roy [ctb]
Maintainer: Dongjin Li <liyangxiaobei@gmail.com>
Diff between bravo versions 3.2.2 dated 2024-10-29 and 4.0.0 dated 2026-05-27
DESCRIPTION | 38 +++++++++++++++----------------------- MD5 | 35 +++++++++++++++++++++++++++++++++-- NAMESPACE | 30 ++++++++++++++++++++++++++---- R/calc_functions.R |only R/sparse_convert.R |only R/svenetics.R |only R/xzpredIntv.R |only R/xzpredPoint.R |only R/xzpredict.sven.R |only R/xzsven_new.R |only inst |only man/FDR_WS.Rd |only man/FDR_corrected.Rd |only man/FPR_WS.Rd |only man/FPR_corrected.Rd |only man/TPR_WS.Rd |only man/TPR_corrected.Rd |only man/basic.sven.model.Rd |only man/bwas.Rd |only man/calc.runtime.Rd |only man/clean.Rd |only man/create_param_mat.Rd |only man/dense2sparse.Rd |only man/dense_to_sparse_converter.Rd |only man/jcidx.Rd |only man/parameter_selection.Rd |only man/pipeline_single_trait.Rd |only man/run_all_params.Rd |only man/svenetics.Rd |only man/svenetics_pipeline.Rd |only man/tune.sven.Rd |only man/tune.sven.all.Rd |only man/unite.sven.Rd |only 33 files changed, 74 insertions(+), 29 deletions(-)
Title: Workflows for Health Technology Assessments in R using Discrete
EveNts
Description: Toolkit to support and perform discrete event simulations with and without
resource constraints in the context of health technology assessments (HTA).
The package focuses on cost-effectiveness modelling and aims to be submission-ready
to relevant HTA bodies in alignment with 'NICE TSD 15'
<https://sheffield.ac.uk/nice-dsu/tsds/patient-level-simulation>.
More details an examples can be found in the package website <https://jsanchezalv.github.io/WARDEN/>.
Author: Javier Sanchez Alvarez [aut, cre],
Gabriel Lemyre [ctb],
Valerie Aponte Ribero [ctb]
Maintainer: Javier Sanchez Alvarez <javiersanchezeco@gmail.com>
Diff between WARDEN versions 2.0.2 dated 2026-03-18 and 2.0.3 dated 2026-05-27
WARDEN-2.0.2/WARDEN/tests/testthat/test_model_runs.R |only WARDEN-2.0.2/WARDEN/tests/testthat/test_queues.R |only WARDEN-2.0.3/WARDEN/DESCRIPTION | 11 WARDEN-2.0.3/WARDEN/MD5 | 55 WARDEN-2.0.3/WARDEN/NAMESPACE | 2 WARDEN-2.0.3/WARDEN/NEWS.md | 9 WARDEN-2.0.3/WARDEN/R/RcppExports.R | 4 WARDEN-2.0.3/WARDEN/R/engine_helper_f.R | 359 +-- WARDEN-2.0.3/WARDEN/R/input_f.R | 353 ++ WARDEN-2.0.3/WARDEN/R/results_summary_f.R | 34 WARDEN-2.0.3/WARDEN/R/run_engine.R | 52 WARDEN-2.0.3/WARDEN/R/run_engine_constrained.R | 43 WARDEN-2.0.3/WARDEN/R/run_sim.R | 102 WARDEN-2.0.3/WARDEN/R/run_sim_parallel.R | 232 + WARDEN-2.0.3/WARDEN/inst/doc/example_ssd.R | 101 WARDEN-2.0.3/WARDEN/inst/doc/example_ssd.Rmd | 122 - WARDEN-2.0.3/WARDEN/inst/doc/example_ssd.html | 571 ++-- WARDEN-2.0.3/WARDEN/man/add_item.Rd | 25 WARDEN-2.0.3/WARDEN/man/input_block.Rd |only WARDEN-2.0.3/WARDEN/man/run_sim.Rd | 7 WARDEN-2.0.3/WARDEN/man/run_sim_parallel.Rd | 5 WARDEN-2.0.3/WARDEN/src/RcppExports.cpp | 12 WARDEN-2.0.3/WARDEN/src/condq.cpp | 137 - WARDEN-2.0.3/WARDEN/src/evt_queue.cpp | 16 WARDEN-2.0.3/WARDEN/src/resource_constrained.cpp | 11 WARDEN-2.0.3/WARDEN/tests/testthat/test-input_f.R | 1193 ++++++++++ WARDEN-2.0.3/WARDEN/tests/testthat/test-model_runs.R |only WARDEN-2.0.3/WARDEN/tests/testthat/test-queues.R |only WARDEN-2.0.3/WARDEN/tests/testthat/test-regression_eBC.R |only WARDEN-2.0.3/WARDEN/tests/testthat/test-regression_inputs_selector.R |only WARDEN-2.0.3/WARDEN/tests/testthat/test-regression_ssd.R |only WARDEN-2.0.3/WARDEN/tests/testthat/test-regression_ssd_constrained.R |only WARDEN-2.0.3/WARDEN/vignettes/example_ssd.Rmd | 122 - 33 files changed, 2649 insertions(+), 929 deletions(-)
Title: Computation of Topp-Leone Cauchy Rayleigh (TLCAR )
distribution's properties
Description: Provides a comprehensive suite of statistical tools for analyzing, simulating, and computing properties of the Topp-Leone Cauchy Rayleigh (TLCAR) distribution, a versatile distribution amalgamating features of the Topp-Leone, Cauchy, and Rayleigh distributions, ideal for modeling intricate, heterogeneous data across scientific domains. See Atchadé, M.N., Bogninou, M.J., and Djibril, A.M. (2023) <doi:10.1007/s44199-023-00066-4> and Atchadé, M.N., Bogninou, M.J., and Djibril, A.M. (2024) <doi:10.1007/s44199-023-00069-1> for further insights.
Author: Mintode Nicodeme Atchade [aut],
Jude Mahoule Bogninou [aut, cre]
Maintainer: Jude Mahoule Bogninou <mahoulejude2001@gmail.com>
Diff between TLCAR versions 0.1.0 dated 2024-02-19 and 0.1.1 dated 2026-05-27
DESCRIPTION | 10 ++-- MD5 | 12 ++--- R/analysis.R | 2 R/fitTLCAR.R | 1 build/vignette.rds |binary inst/doc/Practical-Guide-to-Using-TLCAR-in-R.html | 45 +++++++++++----------- man/sTLCAR.Rd | 1 7 files changed, 38 insertions(+), 33 deletions(-)
Title: Interactive Reliability Probability Plots
Description: Build interactive Reliability Probability Plots with 'plotly' by Carson Sievert (2020) <https://plotly.com/r/>, an interactive web-based graphing library.
Author: Paul Govan [aut, cre, cph]
Maintainer: Paul Govan <paul.govan2@gmail.com>
Diff between ReliaPlotR versions 0.5 dated 2026-04-18 and 0.6 dated 2026-05-27
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 6 ++++++ R/plotly_nhpp.R | 32 ++++++++++++++++---------------- man/plotly_nhpp.Rd | 16 ++++++++-------- tests/testthat/test-nhpp.R | 2 +- 6 files changed, 39 insertions(+), 33 deletions(-)
Title: Lightweight Framework for Orchestrating Multi-Agent Large
Language Models
Description: Provides tools for creating agents with persistent state using
R6 classes <https://cran.r-project.org/package=R6> and the 'ellmer'
package <https://cran.r-project.org/package=ellmer>. Tracks prompts,
messages, and agent metadata for reproducible, multi-turn large language
model sessions.
Author: Mohamed El Fodil Ihaddaden [aut, cre]
Maintainer: Mohamed El Fodil Ihaddaden <ihaddaden.fodeil@gmail.com>
Diff between mini007 versions 0.3.0 dated 2026-01-12 and 0.4.0 dated 2026-05-27
DESCRIPTION | 8 MD5 | 23 NAMESPACE | 2 NEWS.md | 8 R/Agent.R | 68 - R/Workflow.R |only README.md | 1980 +----------------------------- man/Agent.Rd | 65 man/LeadAgent.Rd | 1 man/Workflow.Rd |only man/WorkflowAgent.Rd |only man/figures/README-unnamed-chunk-23-1.png |binary man/figures/README-unnamed-chunk-24-1.png |only tests/testthat/test-agent.R | 20 tests/testthat/test-workflow.R |only 15 files changed, 307 insertions(+), 1868 deletions(-)
Title: Spatially Explicit Capture-Recapture
Description: Functions to estimate the density and size of a spatially
distributed animal population sampled with an array of passive detectors,
such as traps, or by searching polygons or transects. Models incorporating
distance-dependent detection are fitted by maximizing the likelihood.
Tools are included for data manipulation and model selection.
Author: Murray Efford [aut, cre] ,
Philipp Jund [ctb] ,
David Fletcher [ctb] ,
Yan Ru Choo [ctb]
Maintainer: Murray Efford <murray.efford@otago.ac.nz>
Diff between secr versions 5.4.2 dated 2026-02-24 and 5.4.3 dated 2026-05-27
DESCRIPTION | 8 ++++---- MD5 | 26 ++++++++++++++------------ NAMESPACE | 2 ++ NEWS | 10 ++++++++++ R/binCovariate.R | 20 +++++++++++++++----- R/exportedutility.R | 9 +++++---- R/fillNA.R |only inst/doc/secr-datainput.pdf |binary inst/doc/secr-overview.pdf |binary man/addCovariates.Rd | 6 +++++- man/binCovariate.Rd | 16 ++++++++++++---- man/fillNA.Rd |only man/secr-internal.Rd | 4 ++-- man/secr-package.Rd | 4 ++-- src/makegk.cpp | 18 ++++++++++++++++-- 15 files changed, 87 insertions(+), 36 deletions(-)
Title: Learning Modules for Reliability Analysis
Description: Learning modules for reliability analysis including modules for Reliability,
Availability, and Maintainability (RAM) Analysis, Life Data Analysis, Reliability Testing,
Repairable Systems Analysis, and Reliability Block Diagrams.
Author: Paul Govan [aut, cre, cph]
Maintainer: Paul Govan <paul.govan2@gmail.com>
Diff between ReliaLearnR versions 0.3 dated 2026-01-06 and 0.5 dated 2026-05-27
ReliaLearnR-0.3/ReliaLearnR/inst/paper |only ReliaLearnR-0.5/ReliaLearnR/DESCRIPTION | 20 ReliaLearnR-0.5/ReliaLearnR/MD5 | 78 ++- ReliaLearnR-0.5/ReliaLearnR/NAMESPACE | 2 ReliaLearnR-0.5/ReliaLearnR/NEWS.md | 28 + ReliaLearnR-0.5/ReliaLearnR/R/helpers.R | 39 - ReliaLearnR-0.5/ReliaLearnR/R/rbd.R |only ReliaLearnR-0.5/ReliaLearnR/R/rs.R |only ReliaLearnR-0.5/ReliaLearnR/README.md | 35 + ReliaLearnR-0.5/ReliaLearnR/inst/CITATION | 24 - ReliaLearnR-0.5/ReliaLearnR/inst/doc/helpers.R | 2 ReliaLearnR-0.5/ReliaLearnR/inst/doc/helpers.Rmd | 14 ReliaLearnR-0.5/ReliaLearnR/inst/doc/helpers.html | 21 ReliaLearnR-0.5/ReliaLearnR/inst/tutorials/lda/lda.Rmd | 106 ++++ ReliaLearnR-0.5/ReliaLearnR/inst/tutorials/lda/lda.html |only ReliaLearnR-0.5/ReliaLearnR/inst/tutorials/lda/lda_files |only ReliaLearnR-0.5/ReliaLearnR/inst/tutorials/ram/ram.Rmd | 260 +++++++++++- ReliaLearnR-0.5/ReliaLearnR/inst/tutorials/ram/ram.html |only ReliaLearnR-0.5/ReliaLearnR/inst/tutorials/ram/ram_files |only ReliaLearnR-0.5/ReliaLearnR/inst/tutorials/ram/rsconnect |only ReliaLearnR-0.5/ReliaLearnR/inst/tutorials/rbd |only ReliaLearnR-0.5/ReliaLearnR/inst/tutorials/rs |only ReliaLearnR-0.5/ReliaLearnR/inst/tutorials/rt/rt.Rmd | 85 +++ ReliaLearnR-0.5/ReliaLearnR/inst/tutorials/rt/rt.html |only ReliaLearnR-0.5/ReliaLearnR/inst/tutorials/rt/rt_files |only ReliaLearnR-0.5/ReliaLearnR/man/ReliaLearnR-package.Rd | 2 ReliaLearnR-0.5/ReliaLearnR/man/rbd.Rd |only ReliaLearnR-0.5/ReliaLearnR/man/rs.Rd |only ReliaLearnR-0.5/ReliaLearnR/tests/testthat/test-helpers.R | 44 +- ReliaLearnR-0.5/ReliaLearnR/tests/testthat/test-launchers.R | 10 ReliaLearnR-0.5/ReliaLearnR/vignettes/helpers.Rmd | 14 31 files changed, 670 insertions(+), 114 deletions(-)
Title: Power for Meta-Analysis of Dependent Effects
Description: Provides functions to compute and plot power levels, minimum detectable effect sizes, and minimum required sample sizes for the test of the overall average effect size in meta-analysis of dependent effect sizes.
Author: Mikkel H. Vembye [aut, cre] ,
James E. Pustejovsky [aut]
Maintainer: Mikkel H. Vembye <mikkel.vembye@gmail.com>
Diff between POMADE versions 0.2.0 dated 2024-02-13 and 0.2.1 dated 2026-05-27
DESCRIPTION | 17 MD5 | 46 - NEWS.md | 20 R/MDES_MADE.R | 10 R/data-documentation.R | 58 +- R/min_studies_MADE.R | 10 R/plot_MADE.R | 49 + R/plot_MADE.mdes.R | 8 R/plot_MADE.min_studies.R | 77 +- R/plot_MADE.power.R | 17 R/power_MADE.R | 1087 ++++++++++++++++++-------------------- build/partial.rdb |binary man/VWB23_pilot.Rd | 78 +- man/figures/README-example2-1.png |binary man/figures/README-example3-1.png |binary man/figures/README-example4-1.png |binary man/figures/README-example5-1.png |binary man/figures/README-example7-1.png |binary man/figures/README-example8-1.png |only man/figures/README-example9-1.png |only man/plot_MADE.Rd | 40 + man/plot_MADE.mdes.Rd | 36 - man/plot_MADE.min_studies.Rd | 36 - man/plot_MADE.power.Rd | 36 - tests/testthat/test-plot_MADE.R | 112 +++ 25 files changed, 984 insertions(+), 753 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 0.6.2 dated 2026-03-17 and 0.6.3 dated 2026-05-27
DESCRIPTION | 8 ++--- MD5 | 46 +++++++++++++++--------------- NEWS.md | 6 +++ R/jskm.R | 37 +++++++++++++++--------- R/svyjskm.R | 35 +++++++++++++++------- README.md | 4 +- inst/doc/jskm.html | 18 +++-------- man/figures/README-unnamed-chunk-1-1.png |binary man/figures/README-unnamed-chunk-1-2.png |binary man/figures/README-unnamed-chunk-10-1.png |binary man/figures/README-unnamed-chunk-2-1.png |binary man/figures/README-unnamed-chunk-3-1.png |binary man/figures/README-unnamed-chunk-3-2.png |binary man/figures/README-unnamed-chunk-4-1.png |binary man/figures/README-unnamed-chunk-4-2.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-7-2.png |binary man/figures/README-unnamed-chunk-7-3.png |binary man/figures/README-unnamed-chunk-8-1.png |binary man/figures/README-unnamed-chunk-8-2.png |binary man/figures/README-unnamed-chunk-8-3.png |binary man/figures/README-unnamed-chunk-9-1.png |binary 24 files changed, 87 insertions(+), 67 deletions(-)
Title: Graphical Models Estimation from Multiple Sources
Description: Estimates networks of conditional dependencies (Gaussian graphical models) from multiple classes of data (similar but not exactly, i.e. measurements on different equipment, in different locations or for various sub-types). Package also allows to generate simulation data and evaluate the performance. Implementation of the method described in Angelini, De Canditiis and Plaksienko (2022) <doi:10.3390/math10213983>.
Author: Anna Plaksienko [aut, cre] ,
Claudia Angelini [aut] ,
Daniela De Canditiis [aut]
Maintainer: Anna Plaksienko <anna@plaxienko.com>
Diff between jewel versions 2.0.2 dated 2024-05-22 and 2.0.3 dated 2026-05-27
DESCRIPTION | 16 +++++++++------- MD5 | 8 ++++---- R/generateData_rewire.R | 2 +- build/vignette.rds |binary inst/doc/jewel_vignette.html | 28 +++++++++++++++------------- 5 files changed, 29 insertions(+), 25 deletions(-)
Title: Study Design Toolbox for Movement Ecology Studies
Description: Toolbox and 'shiny' application to help researchers design
movement ecology studies, focusing on two key objectives: estimating
home range areas, and estimating fine-scale movement behavior,
specifically speed and distance traveled. It provides interactive
simulations and methodological guidance to support study planning and
decision-making. The application is described in Silva et al. (2023)
<doi:10.1111/2041-210X.14153>.
Author: Ines Silva [cre, aut, cph]
Maintainer: Ines Silva <i.simoes-silva@hzdr.de>
Diff between movedesign versions 0.3.2 dated 2025-07-30 and 0.3.3 dated 2026-05-27
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More information about CoalescentPhylo at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-06-27 4.0.0
2017-08-15 3.1.2
2017-07-27 3.1.1
2017-05-21 3.1.0
2017-04-19 3.0.1
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2025-07-01 0.2.2
2023-06-10 0.2.1
2023-01-15 0.2.0
2022-09-11 0.1.3
2022-06-20 0.1.2
2022-01-11 0.1.1
2022-01-07 0.1.0
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2018-08-31 1.0
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2018-06-19 0.1.1
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2021-10-06 0.4.0
2021-07-16 0.3.0
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2018-05-02 2.0.1
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2016-12-21 1.0
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2025-11-23 1.1.5
2024-12-20 1.1.4
2023-07-14 1.0.2
2023-06-16 1.0.1
2023-02-01 0.6.1
2022-07-06 0.5.1
2022-03-29 0.4.0
2021-10-07 0.3.1
2021-06-17 0.2.1
2021-04-08 0.1.6
2020-11-30 0.1.5
2020-11-12 0.1.4
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2024-07-04 0.0.1.4
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2022-05-18 3.3
2021-04-22 3.2
2020-05-16 3.1
2020-03-29 3.0
2019-10-07 2.1
2019-09-06 2.0
2019-08-05 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-10-06 1.0
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2025-09-14 2.0.0
2023-10-19 1.2.0
2022-10-25 1.1.0
2020-12-17 1.0.0
2019-12-04 0.9.81
2019-08-03 0.9.8
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-10-09 5.2
2018-10-05 5.1
2018-10-04 5.0
2018-08-15 4.2
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2018-04-13 3.0
2018-02-08 2.1
2018-01-05 1.4
2017-11-16 1.3
Title: Download Australian Energy Market Operator Data
Description: Fetch Australian Energy Market Operator (AEMO)
public data from 'NEMweb' <http://nemweb.com.au> and the
Market Management System Data Model (MMSDM) historical
archive. Provides tidy access to 5-minute and 30-minute
wholesale electricity prices, regional demand, dispatch-unit
output, interconnector flows, rooftop photovoltaic generation,
generator bids, predispatch forecasts, frequency control
ancillary services markets, and gas market data across the
National Electricity Market (NEM) regions. Data is published
by AEMO under its Copyright Permissions Notice
<https://www.aemo.com.au/privacy-and-legal-notices/copyright-permissions>.
Author: Charles Coverdale [aut, cre]
Maintainer: Charles Coverdale <charlesfcoverdale@gmail.com>
Diff between aemo versions 0.4.0 dated 2026-04-28 and 0.4.1 dated 2026-05-27
DESCRIPTION | 12 ++++++------ MD5 | 8 ++++---- NEWS.md | 10 ++++++++++ man/aemo-package.Rd | 1 + tests/testthat/test-reference.R | 22 +++++++++++++++++++++- 5 files changed, 42 insertions(+), 11 deletions(-)
Title: Serology-Based Data Analysis and Visualization
Description: Data wrangling and cleaning, quality control checks and
implementation of machine learning classification algorithm.
Author: Dionne Argyropoulos [aut, cre]
Maintainer: Dionne Argyropoulos <argyropoulos.d@wehi.edu.au>
Diff between SeroTrackR versions 1.1.0 dated 2026-05-22 and 1.1.1 dated 2026-05-27
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 6 ++++++ R/MFItoRAU.R | 2 +- R/readSeroData.R | 4 ++-- 5 files changed, 16 insertions(+), 10 deletions(-)
Title: Regression with Interval-Censored Covariates
Description: Provides functions to simulate and analyze data for a regression model with an interval censored covariate, as described in Morrison et al. (2021) <doi:10.1111/biom.13472>.
Author: Douglas Ezra Morrison [aut, cre, cph] ,
Ron Brookmeyer [aut]
Maintainer: Douglas Ezra Morrison <demorrison@ucdavis.edu>
This is a re-admission after prior archival of version 0.1.3 dated 2022-03-09
Diff between rwicc versions 0.1.3 dated 2022-03-09 and 0.2.0 dated 2026-05-27
DESCRIPTION | 26 LICENSE | 4 MD5 | 109 +- NAMESPACE | 117 +- NEWS.md | 39 R/build_event_date_possibilities_table.R |only R/build_omega_table.R |only R/check_pt_data.R |only R/filter_data_by_ID.R |only R/fit_joint_model.R | 1182 +++++++++++------------ R/fit_midpoint_model.R | 154 +-- R/fit_uniform_model.R | 187 +-- R/graph_S.R |only R/graph_omega.R |only R/graph_simulated_densities.R |only R/graph_simulated_hazards.R |only R/graph_simulated_survival_curves.R |only R/plot_CDF.R | 227 ++-- R/plot_censoring_data.R |only R/plot_phi_curves.R | 299 +++--- R/rwicc-package.R |only R/rwicc.R | 44 R/seroconversion_inverse_survival_function.R | 28 R/seroconversion_survival_function.R |only R/simulate_interval_censoring.R | 171 ++- R/standard_ggplot.R |only R/update_possible_subj_data.R |only R/utils.R | 37 README.md | 122 +- build/partial.rdb |binary build/vignette.rds |binary inst/WORDLIST | 7 inst/doc/how-to-use-rwicc.R | 236 ++-- inst/doc/how-to-use-rwicc.Rmd | 395 ++++--- inst/doc/how-to-use-rwicc.html | 1188 +++++++++++++++--------- inst/doc/visualize-study-design.R |only inst/doc/visualize-study-design.Rmd |only inst/doc/visualize-study-design.html |only inst/extdata |only man/build_event_date_possibilities_table.Rd |only man/build_omega_table.Rd |only man/build_phi_function_from_coefs.Rd | 34 man/check_pt_data.Rd |only man/compute_mu.Rd | 36 man/filter_data_by_ID.Rd |only man/fit_joint_model.Rd | 247 ++-- man/fit_midpoint_model.Rd | 14 man/fit_uniform_model.Rd | 14 man/graph_S.Rd |only man/graph_omega.Rd |only man/graph_simulated_densities.Rd |only man/graph_simulated_hazards.Rd |only man/graph_simulated_survival_curves.Rd |only man/plot_CDF.Rd | 19 man/plot_censoring_data.Rd |only man/plot_phi_curves.Rd | 30 man/rwicc-package.Rd |only man/rwicc.Rd | 69 - man/seroconversion_cumhaz_function.Rd |only man/seroconversion_density_function.Rd |only man/seroconversion_hazard_function.Rd |only man/seroconversion_inverse_survival_function.Rd | 65 - man/seroconversion_survival_function.Rd |only man/simulate_interval_censoring.Rd | 180 +-- man/standard_ggplot.Rd |only man/update_possible_subj_data.Rd |only tests/testthat |only tests/testthat.R | 2 vignettes/how-to-use-rwicc.Rmd | 395 ++++--- vignettes/visualize-study-design.Rmd |only 70 files changed, 3132 insertions(+), 2545 deletions(-)
Title: R to Solr Interface
Description: A comprehensive R API for querying Apache Solr databases.
A Solr core is represented as a data frame or list that
supports Solr-side filtering, sorting,
transformation and aggregation, all through the familiar
base R API. Queries are processed
lazily, i.e., a query is only sent to the database when
the data are required.
Author: Michael Lawrence [aut, cre],
Gabe Becker [aut],
Jan Vogel [aut]
Maintainer: Michael Lawrence <lawremi@gmail.com>
Diff between rsolr versions 0.0.13 dated 2022-05-18 and 0.0.14 dated 2026-05-27
rsolr-0.0.13/rsolr/vignettes/auto |only rsolr-0.0.14/rsolr/DESCRIPTION | 18 +++++++++++++----- rsolr-0.0.14/rsolr/MD5 | 19 +++++++++---------- rsolr-0.0.14/rsolr/R/Solr-class.R | 3 ++- rsolr-0.0.14/rsolr/R/SolrQuery-class.R | 18 ++++++++++-------- rsolr-0.0.14/rsolr/build/vignette.rds |binary rsolr-0.0.14/rsolr/inst/doc/intro.R | 2 +- rsolr-0.0.14/rsolr/inst/doc/intro.Rnw | 2 +- rsolr-0.0.14/rsolr/inst/doc/intro.pdf |binary rsolr-0.0.14/rsolr/inst/unitTests/test_SolrQuery.R | 6 +++--- rsolr-0.0.14/rsolr/vignettes/intro.Rnw | 2 +- 11 files changed, 40 insertions(+), 30 deletions(-)
Title: Work with AppsFlyer API
Description: Loading data from AppsFlyer Pull API
<https://support.appsflyer.com/hc/en-us/articles/207034346-Pull-API-aggregate-data>.
Author: Alexey Seleznev [aut, cre]
Maintainer: Alexey Seleznev <selesnow@gmail.com>
Diff between rappsflyer versions 0.2.0 dated 2021-03-22 and 0.3.2 dated 2026-05-27
rappsflyer-0.2.0/rappsflyer/NEWS |only rappsflyer-0.2.0/rappsflyer/README |only rappsflyer-0.3.2/rappsflyer/DESCRIPTION | 20 rappsflyer-0.3.2/rappsflyer/MD5 | 44 - rappsflyer-0.3.2/rappsflyer/NEWS.md |only rappsflyer-0.3.2/rappsflyer/R/af_aggregate_daily_data.R | 26 - rappsflyer-0.3.2/rappsflyer/R/af_get_ad_revenue_raw_data.R | 8 rappsflyer-0.3.2/rappsflyer/R/af_get_aggregate_daily_data.R | 32 - rappsflyer-0.3.2/rappsflyer/R/af_get_data.R | 29 - rappsflyer-0.3.2/rappsflyer/R/af_get_raw_data.R | 8 rappsflyer-0.3.2/rappsflyer/R/af_get_targeting_validation_rules.R | 8 rappsflyer-0.3.2/rappsflyer/R/zzz.R | 2 rappsflyer-0.3.2/rappsflyer/README.md |only rappsflyer-0.3.2/rappsflyer/build/partial.rdb |binary rappsflyer-0.3.2/rappsflyer/build/vignette.rds |binary rappsflyer-0.3.2/rappsflyer/inst/doc/rappsflyer-intro.R | 2 rappsflyer-0.3.2/rappsflyer/inst/doc/rappsflyer-intro.Rmd | 12 rappsflyer-0.3.2/rappsflyer/inst/doc/rappsflyer-intro.html | 247 +++++----- rappsflyer-0.3.2/rappsflyer/man/af_get_ad_revenue_raw_data.Rd | 13 rappsflyer-0.3.2/rappsflyer/man/af_get_aggregate_data.Rd | 11 rappsflyer-0.3.2/rappsflyer/man/af_get_data.Rd | 13 rappsflyer-0.3.2/rappsflyer/man/af_get_raw_data.Rd | 13 rappsflyer-0.3.2/rappsflyer/man/af_get_targeting_validation_rules.Rd | 13 rappsflyer-0.3.2/rappsflyer/man/af_set_api_token.Rd | 7 rappsflyer-0.3.2/rappsflyer/vignettes/rappsflyer-intro.Rmd | 12 25 files changed, 265 insertions(+), 255 deletions(-)
Title: 'Opal' Data Repository Client and 'DataSHIELD' Utils
Description: Data integration Web application for biobanks by 'OBiBa'. 'Opal' is
the core database application for biobanks. Participant data, once
collected from any data source, must be integrated and stored in a central
data repository under a uniform model. 'Opal' is such a central repository.
It can import, process, validate, query, analyze, report, and export data.
'Opal' is typically used in a research center to analyze the data acquired at
assessment centres. Its ultimate purpose is to achieve seamless
data-sharing among biobanks. This 'Opal' client allows to interact with 'Opal'
web services and to perform operations on the R server side. 'DataSHIELD'
administration tools are also provided.
Author: Yannick Marcon [aut, cre] ,
Amadou Gaye [ctb] ,
OBiBa group [cph]
Maintainer: Yannick Marcon <yannick.marcon@obiba.org>
Diff between opalr versions 3.6.0 dated 2026-04-17 and 3.6.1 dated 2026-05-27
DESCRIPTION | 8 MD5 | 358 ++++++++++++++--------------- R/opal.admin.R | 176 +++++++------- R/opal.perm.R | 37 +- build/vignette.rds |binary inst/doc/datashield-admin.html | 4 inst/doc/opal-files.html | 4 inst/doc/opal-projects.html | 4 inst/doc/opal-rsession.html | 4 man/dsadmin.get_method.Rd | 40 +-- man/dsadmin.get_methods.Rd | 40 +-- man/dsadmin.get_options.Rd | 40 +-- man/dsadmin.install_github_package.Rd | 40 +-- man/dsadmin.install_local_package.Rd | 40 +-- man/dsadmin.install_package.Rd | 40 +-- man/dsadmin.installed_package.Rd | 40 +-- man/dsadmin.package_description.Rd | 40 +-- man/dsadmin.package_descriptions.Rd | 40 +-- man/dsadmin.profile.Rd | 24 - man/dsadmin.profile_access.Rd | 24 - man/dsadmin.profile_create.Rd | 24 - man/dsadmin.profile_delete.Rd | 24 - man/dsadmin.profile_enable.Rd | 24 - man/dsadmin.profile_exists.Rd | 24 - man/dsadmin.profile_init.Rd | 24 - man/dsadmin.profile_perm.Rd | 24 - man/dsadmin.profile_perm_add.Rd | 24 - man/dsadmin.profile_perm_delete.Rd | 24 - man/dsadmin.profile_rparser.Rd | 24 - man/dsadmin.profiles.Rd | 24 - man/dsadmin.publish_package.Rd | 40 +-- man/dsadmin.remove_package.Rd | 40 +-- man/dsadmin.rm_method.Rd | 40 +-- man/dsadmin.rm_methods.Rd | 40 +-- man/dsadmin.rm_option.Rd | 40 +-- man/dsadmin.rm_options.Rd | 40 +-- man/dsadmin.rm_package_methods.Rd | 40 +-- man/dsadmin.set_method.Rd | 40 +-- man/dsadmin.set_option.Rd | 40 +-- man/dsadmin.set_package_methods.Rd | 40 +-- man/dsadmin.unpublish_package.Rd | 40 +-- man/oadmin.install_bioconductor_package.Rd | 22 - man/oadmin.install_cran_package.Rd | 22 - man/oadmin.install_devtools.Rd | 22 - man/oadmin.install_github_package.Rd | 22 - man/oadmin.install_local_package.Rd | 22 - man/oadmin.install_package.Rd | 22 - man/oadmin.installed_devtools.Rd | 22 - man/oadmin.installed_package.Rd | 22 - man/oadmin.installed_packages.Rd | 22 - man/oadmin.package_description.Rd | 22 - man/oadmin.remove_package.Rd | 22 - man/oadmin.system_perm_add.Rd | 2 man/oadmin.user_add.Rd | 16 - man/oadmin.user_delete.Rd | 16 - man/oadmin.user_enable.Rd | 16 - man/oadmin.user_exists.Rd | 16 - man/oadmin.user_profile_delete.Rd | 16 - man/oadmin.user_profiles.Rd | 16 - man/oadmin.user_reset_password.Rd | 16 - man/oadmin.users.Rd | 16 - man/opal.annotate.Rd | 22 - man/opal.annotations.Rd | 22 - man/opal.assign.Rd | 12 man/opal.assign.data.Rd | 12 man/opal.assign.resource.Rd | 12 man/opal.assign.script.Rd | 12 man/opal.assign.table.Rd | 12 man/opal.assign.table.tibble.Rd | 12 man/opal.attribute_values.Rd | 22 - man/opal.command.Rd | 10 man/opal.command_result.Rd | 10 man/opal.command_rm.Rd | 10 man/opal.commands.Rd | 10 man/opal.commands_rm.Rd | 10 man/opal.datasource.Rd | 22 - man/opal.datasources.Rd | 22 - man/opal.delete.Rd | 8 man/opal.execute.Rd | 8 man/opal.execute.source.Rd | 8 man/opal.file.Rd | 26 +- man/opal.file_cp.Rd | 26 +- man/opal.file_download.Rd | 26 +- man/opal.file_info.Rd | 26 +- man/opal.file_ls.Rd | 26 +- man/opal.file_mkdir.Rd | 26 +- man/opal.file_mkdir_tmp.Rd | 26 +- man/opal.file_mv.Rd | 26 +- man/opal.file_read.Rd | 26 +- man/opal.file_rm.Rd | 26 +- man/opal.file_unzip.Rd | 26 +- man/opal.file_upload.Rd | 26 +- man/opal.file_write.Rd | 26 +- man/opal.get.Rd | 8 man/opal.load_package.Rd | 8 man/opal.login.Rd | 6 man/opal.logout.Rd | 6 man/opal.perms.Rd | 38 +-- man/opal.post.Rd | 8 man/opal.profiles.Rd | 6 man/opal.project.Rd | 12 man/opal.project_create.Rd | 12 man/opal.project_delete.Rd | 12 man/opal.project_exists.Rd | 12 man/opal.projects.Rd | 12 man/opal.projects_databases.Rd | 12 man/opal.put.Rd | 8 man/opal.resource.Rd | 26 +- man/opal.resource_create.Rd | 26 +- man/opal.resource_delete.Rd | 26 +- man/opal.resource_exists.Rd | 26 +- man/opal.resource_extension_create.Rd | 26 +- man/opal.resource_get.Rd | 26 +- man/opal.resource_perm.Rd | 26 +- man/opal.resource_perm_add.Rd | 26 +- man/opal.resource_perm_delete.Rd | 26 +- man/opal.resource_view_create.Rd | 36 +- man/opal.resource_view_reconnect.Rd | 36 +- man/opal.resources.Rd | 26 +- man/opal.resources_perm.Rd | 26 +- man/opal.resources_perm_add.Rd | 26 +- man/opal.resources_perm_delete.Rd | 26 +- man/opal.rm.Rd | 10 man/opal.session.Rd | 12 man/opal.session_delete.Rd | 12 man/opal.session_events.Rd | 12 man/opal.session_exists.Rd | 12 man/opal.session_get.Rd | 12 man/opal.session_running.Rd | 12 man/opal.symbol_import.Rd | 10 man/opal.symbol_rm.Rd | 10 man/opal.symbol_save.Rd | 10 man/opal.symbols.Rd | 10 man/opal.table.Rd | 22 - man/opal.table_create.Rd | 36 +- man/opal.table_delete.Rd | 36 +- man/opal.table_dictionary_get.Rd | 36 +- man/opal.table_dictionary_update.Rd | 36 +- man/opal.table_exists.Rd | 36 +- man/opal.table_export.Rd | 36 +- man/opal.table_get.Rd | 36 +- man/opal.table_import.Rd | 36 +- man/opal.table_perm.Rd | 36 +- man/opal.table_perm_add.Rd | 36 +- man/opal.table_perm_delete.Rd | 36 +- man/opal.table_save.Rd | 36 +- man/opal.table_truncate.Rd | 36 +- man/opal.table_view_create.Rd | 36 +- man/opal.table_view_update.Rd | 36 +- man/opal.tables.Rd | 22 - man/opal.task.Rd | 10 man/opal.task_cancel.Rd | 10 man/opal.task_delete.Rd | 10 man/opal.task_wait.Rd | 10 man/opal.tasks.Rd | 10 man/opal.taxonomies.Rd | 16 - man/opal.taxonomy.Rd | 16 - man/opal.taxonomy_delete.Rd | 16 - man/opal.taxonomy_download.Rd | 16 - man/opal.taxonomy_upload.Rd | 16 - man/opal.terms.Rd | 16 - man/opal.token.Rd | 14 - man/opal.token_datashield_create.Rd | 14 - man/opal.token_delete.Rd | 14 - man/opal.token_r_create.Rd | 14 - man/opal.token_renew.Rd | 14 - man/opal.token_sql_create.Rd | 14 - man/opal.tokens.Rd | 14 - man/opal.unload_package.Rd | 8 man/opal.valueset.Rd | 22 - man/opal.variable.Rd | 22 - man/opal.variable_summary.Rd | 22 - man/opal.variables.Rd | 22 - man/opal.vocabularies.Rd | 16 - man/opal.vocabulary.Rd | 16 - man/opal.workspace_restore.Rd | 8 man/opal.workspace_rm.Rd | 8 man/opal.workspace_save.Rd | 8 man/opal.workspaces.Rd | 8 man/opalr-package.Rd | 5 180 files changed, 2170 insertions(+), 2164 deletions(-)
Title: G-Wishart Normalising Constants for Gaussian Graphical Models
Description: Computes G-Wishart normalising constants through a Fourier approach. Either exact analytical results, numerical integration or Monte Carlo estimation are employed. Details at C. Wong, G. Moffa and J. Kuipers (2024), <doi:10.48550/arXiv.2404.06803>. Also includes approximations of the ratio of normalising constants, see details at C. Wong, G. Moffa and J. Kuipers (2025), <doi:10.48550/arXiv.2503.13046>.
Author: Ching Wong [aut],
Jack Kuipers [aut, cre]
Maintainer: Jack Kuipers <jack.kuipers@bsse.ethz.ch>
Diff between GWnorm versions 1.0 dated 2026-04-16 and 1.0.1 dated 2026-05-27
DESCRIPTION | 13 +++-- MD5 | 31 +++++++++---- NAMESPACE | 7 +++ R/I_Gapprox.R |only R/I_Gfns.R | 97 +++++++++++++++++++++++++++++++----------- R/I_Gnorm.R | 26 +++++++---- R/I_Gspecial.R |only R/Integrand_fns.R | 11 ++-- R/special_tests.R |only man/I_G_MC.Rd | 5 +- man/I_G_chordal.Rd | 13 ++++- man/I_G_complete.Rd | 6 +- man/I_G_ratio_approx.Rd |only man/I_G_ratio_approx_prime.Rd |only man/I_G_special.Rd |only man/I_Gnorm.Rd | 15 +++--- man/Iss_cmat.Rd |only man/Iss_mat.Rd |only man/form_triangle.Rd |only man/is_6_cycle.Rd |only man/is_k_partite.Rd |only src/compute_dets.cpp | 8 +-- 22 files changed, 161 insertions(+), 71 deletions(-)
Title: Download and Process Brazilian Education Data from INEP
Description: Download and process public education data from INEP (Instituto
Nacional de Estudos e Pesquisas Educacionais Anísio Teixeira). Provides
functions to access microdata from the School Census (Censo Escolar),
ENEM (Exame Nacional do Ensino Médio), SAEB (Sistema de Avaliação da
Educação Básica), Higher Education Census (Censo da Educação Superior),
ENADE (Exame Nacional de Desempenho dos Estudantes),
ENCCEJA (Exame Nacional para Certificação de Competências de Jovens e Adultos),
IDD (Indicador de Diferença entre os Desempenhos Observado e Esperado),
CPC (Conceito Preliminar de Curso),
IGC (Índice Geral de Cursos),
CAPES graduate education data,
FUNDEB (Fundo de Manutencao e Desenvolvimento da Educacao Basica),
IDEB (Índice de Desenvolvimento da Educação Básica),
and other educational datasets. Returns data in
tidy format ready for analysis. Data source: INEP Open Data Portal
<https://www.gov.br/inep/pt-br/acesso-a-informacao/dados-abertos>.
Author: Sidney da Silva Pereira Bissoli [aut, cre]
Maintainer: Sidney da Silva Pereira Bissoli <sbissoli76@gmail.com>
Diff between educabR versions 0.9.1 dated 2026-04-06 and 1.0.0 dated 2026-05-27
educabR-0.9.1/educabR/man/find_enade_file.Rd |only educabR-1.0.0/educabR/DESCRIPTION | 12 educabR-1.0.0/educabR/MD5 | 160 educabR-1.0.0/educabR/NEWS.md | 511 - educabR-1.0.0/educabR/R/educabR-package.R | 210 educabR-1.0.0/educabR/R/get-capes.R | 484 - educabR-1.0.0/educabR/R/get-censo-escolar.R | 710 + educabR-1.0.0/educabR/R/get-censo-superior.R | 574 - educabR-1.0.0/educabR/R/get-cpc.R | 407 - educabR-1.0.0/educabR/R/get-enade.R | 409 - educabR-1.0.0/educabR/R/get-encceja.R | 366 educabR-1.0.0/educabR/R/get-enem-escola.R | 296 educabR-1.0.0/educabR/R/get-enem.R | 686 - educabR-1.0.0/educabR/R/get-fundeb.R | 1424 +-- educabR-1.0.0/educabR/R/get-idd.R | 324 educabR-1.0.0/educabR/R/get-ideb.R | 1457 +-- educabR-1.0.0/educabR/R/get-saeb.R | 464 - educabR-1.0.0/educabR/R/utils-cache.R | 460 - educabR-1.0.0/educabR/R/utils-download.R | 1651 ++-- educabR-1.0.0/educabR/R/utils-validation.R | 644 - educabR-1.0.0/educabR/build/vignette.rds |binary educabR-1.0.0/educabR/inst/bench |only educabR-1.0.0/educabR/inst/doc/basic-education-assessments.R | 276 educabR-1.0.0/educabR/inst/doc/basic-education-assessments.html | 1118 +- educabR-1.0.0/educabR/inst/doc/cpc-public-vs-private.R | 210 educabR-1.0.0/educabR/inst/doc/cpc-public-vs-private.html | 974 +- educabR-1.0.0/educabR/inst/doc/education-funding.R | 354 educabR-1.0.0/educabR/inst/doc/education-funding.Rmd | 4 educabR-1.0.0/educabR/inst/doc/education-funding.html | 1410 +-- educabR-1.0.0/educabR/inst/doc/enem-performance-by-state.R | 218 educabR-1.0.0/educabR/inst/doc/enem-performance-by-state.html | 940 +- educabR-1.0.0/educabR/inst/doc/getting-started.R | 856 +- educabR-1.0.0/educabR/inst/doc/getting-started.html | 4066 +++++----- educabR-1.0.0/educabR/inst/doc/higher-education.R | 415 - educabR-1.0.0/educabR/inst/doc/higher-education.Rmd | 20 educabR-1.0.0/educabR/inst/doc/higher-education.html | 1447 +-- educabR-1.0.0/educabR/inst/doc/ideb-improvement-by-municipality.R | 240 educabR-1.0.0/educabR/inst/doc/ideb-improvement-by-municipality.html | 992 +- educabR-1.0.0/educabR/inst/doc/mapping-education-with-geobr.R | 194 educabR-1.0.0/educabR/inst/doc/mapping-education-with-geobr.Rmd | 2 educabR-1.0.0/educabR/inst/doc/mapping-education-with-geobr.html | 958 +- educabR-1.0.0/educabR/inst/doc/school-infrastructure.R | 408 - educabR-1.0.0/educabR/inst/doc/school-infrastructure.html | 1190 +- educabR-1.0.0/educabR/man/clear_cache.Rd | 68 educabR-1.0.0/educabR/man/educabR-package.Rd | 274 educabR-1.0.0/educabR/man/enem_summary.Rd | 76 educabR-1.0.0/educabR/man/find_censo_file.Rd | 2 educabR-1.0.0/educabR/man/find_censo_file_by_name.Rd |only educabR-1.0.0/educabR/man/find_enade_files.Rd |only educabR-1.0.0/educabR/man/get_cache_dir.Rd | 48 educabR-1.0.0/educabR/man/get_censo_escolar.Rd | 160 educabR-1.0.0/educabR/man/get_censo_superior.Rd | 188 educabR-1.0.0/educabR/man/get_cpc.Rd | 142 educabR-1.0.0/educabR/man/get_enem.Rd | 170 educabR-1.0.0/educabR/man/get_enem_escola.Rd | 128 educabR-1.0.0/educabR/man/get_enem_itens.Rd | 74 educabR-1.0.0/educabR/man/get_fundeb_distribution.Rd | 202 educabR-1.0.0/educabR/man/get_fundeb_enrollment.Rd | 168 educabR-1.0.0/educabR/man/get_ideb.Rd | 210 educabR-1.0.0/educabR/man/get_ideb_series.Rd | 94 educabR-1.0.0/educabR/man/get_igc.Rd | 140 educabR-1.0.0/educabR/man/ideb_keep_cols.Rd |only educabR-1.0.0/educabR/man/list_cache.Rd | 58 educabR-1.0.0/educabR/man/list_censo_files.Rd | 65 educabR-1.0.0/educabR/man/list_censo_superior_files.Rd | 56 educabR-1.0.0/educabR/man/list_ideb_available.Rd | 46 educabR-1.0.0/educabR/man/normalize_utf8_nfc.Rd |only educabR-1.0.0/educabR/man/read_ideb_excel.Rd | 53 educabR-1.0.0/educabR/man/read_inep_file.Rd | 50 educabR-1.0.0/educabR/man/set_cache_dir.Rd | 70 educabR-1.0.0/educabR/tests/testthat/test-coverage-gaps.R | 22 educabR-1.0.0/educabR/tests/testthat/test-cpc.R | 420 - educabR-1.0.0/educabR/tests/testthat/test-enade.R | 25 educabR-1.0.0/educabR/tests/testthat/test-enem-summary.R | 134 educabR-1.0.0/educabR/tests/testthat/test-file-finders.R | 62 educabR-1.0.0/educabR/tests/testthat/test-get-censo-escolar.R | 64 educabR-1.0.0/educabR/tests/testthat/test-get-ideb.R | 822 +- educabR-1.0.0/educabR/tests/testthat/test-get-pipelines-excel.R | 2218 ++--- educabR-1.0.0/educabR/tests/testthat/test-utils-cache.R | 4 educabR-1.0.0/educabR/tests/testthat/test-utils-download.R | 1614 ++- educabR-1.0.0/educabR/tests/testthat/test-utils-validation.R | 190 educabR-1.0.0/educabR/vignettes/education-funding.Rmd | 4 educabR-1.0.0/educabR/vignettes/higher-education.Rmd | 20 educabR-1.0.0/educabR/vignettes/mapping-education-with-geobr.Rmd | 2 84 files changed, 18473 insertions(+), 17211 deletions(-)
Title: Automatic Toolkit for Construction, Optimization, Scoring and
Simulation of Forced-Choice Tests
Description: Forced-choice (FC) response has gained increasing popularity
and interest for its resistance to faking when well-designed (Cao &
Drasgow, 2019 <doi:10.1037/apl0000414>). To established well-designed
FC scales, typically each item within a block should measure different
trait and have similar level of social desirability (Zhang et al.,
2020 <doi:10.1177/1094428119836486>). Recent study also suggests the
importance of high inter-item agreement of social desirability between
items within a block (Pavlov et al., 2021
<doi:10.31234/osf.io/hmnrc>). In addition to this, FC developers may
also need to maximize factor loading differences (Brown &
Maydeu-Olivares, 2011 <doi:10.1177/0013164410375112>) or minimize item
location differences (Cao & Drasgow, 2019 <doi:10.1037/apl0000414>)
depending on scoring models. Decision of which items should be
assigned to the same block, also called as item pairing, is thus critical
to the quality of an FC test. Becau [...truncated...]
Author: Mengtong Li [cre, aut] ,
Tianjun Sun [aut] ,
Bo Zhang [aut]
Maintainer: Mengtong Li <mt_li@fudan.edu.cn>
Diff between autoFC versions 0.2.0.1010 dated 2026-04-29 and 1.0.0.1000 dated 2026-05-27
autoFC-0.2.0.1010/autoFC/R/build_TIRT_var_names.R |only autoFC-0.2.0.1010/autoFC/R/build_scale_with_blueprint.R |only autoFC-0.2.0.1010/autoFC/R/construct_blueprint.R |only autoFC-0.2.0.1010/autoFC/R/convert_to_TIRT_response.R |only autoFC-0.2.0.1010/autoFC/R/fit_TIRT_model.R |only autoFC-0.2.0.1010/autoFC/R/fit_TIRT_mplus_new.R |only autoFC-0.2.0.1010/autoFC/R/get_TIRT_long_data.R |only autoFC-0.2.0.1010/autoFC/R/make_mplus_code_new.R |only autoFC-0.2.0.1010/autoFC/R/predict_scores.R |only autoFC-0.2.0.1010/autoFC/R/sa_pairing_generalized.R |only autoFC-0.2.0.1010/autoFC/R/triplet_block_info.R |only autoFC-0.2.0.1010/autoFC/R/triplet_example_data.R |only autoFC-0.2.0.1010/autoFC/data/triplet_block_info.rda |only autoFC-0.2.0.1010/autoFC/data/triplet_example_data.rda |only autoFC-0.2.0.1010/autoFC/inst/CITATION |only autoFC-0.2.0.1010/autoFC/inst/doc/autoFC.R |only autoFC-0.2.0.1010/autoFC/inst/doc/autoFC.Rmd |only autoFC-0.2.0.1010/autoFC/inst/doc/autoFC.html |only autoFC-0.2.0.1010/autoFC/man/build_TIRT_var_names.Rd |only autoFC-0.2.0.1010/autoFC/man/build_scale_with_blueprint.Rd |only autoFC-0.2.0.1010/autoFC/man/construct_blueprint.Rd |only autoFC-0.2.0.1010/autoFC/man/convert_to_TIRT_response.Rd |only autoFC-0.2.0.1010/autoFC/man/fit_TIRT_model.Rd |only autoFC-0.2.0.1010/autoFC/man/get_TIRT_long_data.Rd |only autoFC-0.2.0.1010/autoFC/man/predict_scores.Rd |only autoFC-0.2.0.1010/autoFC/man/sa_pairing_generalized.Rd |only autoFC-0.2.0.1010/autoFC/man/triplet_block_info.Rd |only autoFC-0.2.0.1010/autoFC/man/triplet_example_data.Rd |only autoFC-0.2.0.1010/autoFC/vignettes/autoFC.Rmd |only autoFC-1.0.0.1000/autoFC/DESCRIPTION | 83 ++--- autoFC-1.0.0.1000/autoFC/MD5 | 140 +++++--- autoFC-1.0.0.1000/autoFC/NAMESPACE | 82 ++-- autoFC-1.0.0.1000/autoFC/R/FC_blocks.R |only autoFC-1.0.0.1000/autoFC/R/FC_item_info.R |only autoFC-1.0.0.1000/autoFC/R/HEXACO_example_data.R | 101 ++++-- autoFC-1.0.0.1000/autoFC/R/MOLE_data.R |only autoFC-1.0.0.1000/autoFC/R/RMSE_range.R | 73 ++-- autoFC-1.0.0.1000/autoFC/R/autoFC-package.R |only autoFC-1.0.0.1000/autoFC/R/bp.coeff.raw.R | 68 +--- autoFC-1.0.0.1000/autoFC/R/build_blueprint_blocks.R |only autoFC-1.0.0.1000/autoFC/R/build_target_dist.R |only autoFC-1.0.0.1000/autoFC/R/cal_block_energy.R | 131 +------ autoFC-1.0.0.1000/autoFC/R/cal_block_energy_with_iia.R | 199 +++--------- autoFC-1.0.0.1000/autoFC/R/check_target_feasibility.R |only autoFC-1.0.0.1000/autoFC/R/convert_mole_to_pairwise.R |only autoFC-1.0.0.1000/autoFC/R/convert_ranks_to_pairwise.R |only autoFC-1.0.0.1000/autoFC/R/create_blueprint_template.R |only autoFC-1.0.0.1000/autoFC/R/empirical_reliability.R | 91 +++-- autoFC-1.0.0.1000/autoFC/R/extract_adjacent_pairs_stan.R |only autoFC-1.0.0.1000/autoFC/R/extract_tirt_stan_scores.R |only autoFC-1.0.0.1000/autoFC/R/facfun.R | 55 +-- autoFC-1.0.0.1000/autoFC/R/generate_tirt_lavaan_syntax.R |only autoFC-1.0.0.1000/autoFC/R/generate_tirt_mplus_syntax.R |only autoFC-1.0.0.1000/autoFC/R/generate_tirt_stan_syntax.R |only autoFC-1.0.0.1000/autoFC/R/get_CFA_estimates.R | 118 ++----- autoFC-1.0.0.1000/autoFC/R/get_simulation_matrices.R | 184 ++++------- autoFC-1.0.0.1000/autoFC/R/gwet.ac1.raw.R | 133 ++++---- autoFC-1.0.0.1000/autoFC/R/make_random_block.R | 172 ++++------ autoFC-1.0.0.1000/autoFC/R/optimize_blocks.R |only autoFC-1.0.0.1000/autoFC/R/plot_scores.R | 54 +-- autoFC-1.0.0.1000/autoFC/R/predict_tirt_stan.R |only autoFC-1.0.0.1000/autoFC/R/prepare_tirt_stan_data.R |only autoFC-1.0.0.1000/autoFC/R/score_tirt_ipsative.R |only autoFC-1.0.0.1000/autoFC/R/score_tirt_lavaan.R |only autoFC-1.0.0.1000/autoFC/R/score_tirt_mplus.R |only autoFC-1.0.0.1000/autoFC/R/score_tirt_stan.R |only autoFC-1.0.0.1000/autoFC/R/summarize_trait_pairs.R |only autoFC-1.0.0.1000/autoFC/R/tally_block_pairs.R |only autoFC-1.0.0.1000/autoFC/README.md | 183 +++++------ autoFC-1.0.0.1000/autoFC/build/partial.rdb |only autoFC-1.0.0.1000/autoFC/build/vignette.rds |binary autoFC-1.0.0.1000/autoFC/data/FC_blocks.rda |only autoFC-1.0.0.1000/autoFC/data/FC_item_info.rda |only autoFC-1.0.0.1000/autoFC/data/HEXACO_example_data.rda |binary autoFC-1.0.0.1000/autoFC/data/MOLE_data.rda |only autoFC-1.0.0.1000/autoFC/inst/doc/intro-to-autoFC.R |only autoFC-1.0.0.1000/autoFC/inst/doc/intro-to-autoFC.Rmd |only autoFC-1.0.0.1000/autoFC/inst/doc/intro-to-autoFC.html |only autoFC-1.0.0.1000/autoFC/inst/stan |only autoFC-1.0.0.1000/autoFC/man/FC_blocks.Rd |only autoFC-1.0.0.1000/autoFC/man/FC_item_info.Rd |only autoFC-1.0.0.1000/autoFC/man/HEXACO_example_data.Rd | 122 +++++-- autoFC-1.0.0.1000/autoFC/man/MOLE_data.Rd |only autoFC-1.0.0.1000/autoFC/man/RMSE_range.Rd | 71 ++-- autoFC-1.0.0.1000/autoFC/man/build_blueprint_blocks.Rd |only autoFC-1.0.0.1000/autoFC/man/build_target_dist.Rd |only autoFC-1.0.0.1000/autoFC/man/cal_block_energy.Rd | 104 +----- autoFC-1.0.0.1000/autoFC/man/cal_block_energy_with_iia.Rd | 151 ++------- autoFC-1.0.0.1000/autoFC/man/convert_mole_to_pairwise.Rd |only autoFC-1.0.0.1000/autoFC/man/convert_ranks_to_pairwise.Rd |only autoFC-1.0.0.1000/autoFC/man/create_blueprint_template.Rd |only autoFC-1.0.0.1000/autoFC/man/empirical_reliability.Rd | 89 +++-- autoFC-1.0.0.1000/autoFC/man/examples |only autoFC-1.0.0.1000/autoFC/man/extract_adjacent_pairs_stan.Rd |only autoFC-1.0.0.1000/autoFC/man/extract_tirt_stan_scores.Rd |only autoFC-1.0.0.1000/autoFC/man/generate_tirt_lavaan_syntax.Rd |only autoFC-1.0.0.1000/autoFC/man/generate_tirt_mplus_syntax.Rd |only autoFC-1.0.0.1000/autoFC/man/generate_tirt_stan_syntax.Rd |only autoFC-1.0.0.1000/autoFC/man/get_CFA_estimates.Rd | 100 +----- autoFC-1.0.0.1000/autoFC/man/get_iia.Rd | 62 +-- autoFC-1.0.0.1000/autoFC/man/get_simulation_matrices.Rd | 134 ++------ autoFC-1.0.0.1000/autoFC/man/make_random_block.Rd | 104 ++---- autoFC-1.0.0.1000/autoFC/man/optimize_blocks.Rd |only autoFC-1.0.0.1000/autoFC/man/plot_scores.Rd | 74 ++-- autoFC-1.0.0.1000/autoFC/man/predict_tirt_stan.Rd |only autoFC-1.0.0.1000/autoFC/man/prepare_tirt_stan_data.Rd |only autoFC-1.0.0.1000/autoFC/man/score_tirt_ipsative.Rd |only autoFC-1.0.0.1000/autoFC/man/score_tirt_lavaan.Rd |only autoFC-1.0.0.1000/autoFC/man/score_tirt_mplus.Rd |only autoFC-1.0.0.1000/autoFC/man/score_tirt_stan.Rd |only autoFC-1.0.0.1000/autoFC/man/summarize_trait_pairs.Rd |only autoFC-1.0.0.1000/autoFC/vignettes/fit_FC_lavaan.rds |only autoFC-1.0.0.1000/autoFC/vignettes/fit_FC_stan.rds |only autoFC-1.0.0.1000/autoFC/vignettes/intro-to-autoFC.Rmd |only 114 files changed, 1310 insertions(+), 1568 deletions(-)
Title: Utility Functions and Development Tools for the Admiral Package
Family
Description: Utility functions to check data, variables and conditions for
functions used in 'admiral' and 'admiral' extension packages.
Additional utility helper functions to assist developers with
maintaining documentation, testing and general upkeep of 'admiral' and
'admiral' extension packages.
Author: Edoardo Mancini [aut, cre] ,
Stefan Bundfuss [aut] ,
Arianna Cascone [aut] ,
Jeffrey Dickinson [aut],
Ross Farrugia [aut],
Fanny Gautier [aut],
Gordon Miller [aut],
Daniel Sjoberg [aut] ,
Ben Straub [aut],
Stefan Thoma [aut] ,
F. Hoffmann-La Roche AG [...truncated...]
Maintainer: Edoardo Mancini <edoardo.mancini@roche.com>
Diff between admiraldev versions 1.4.0 dated 2026-01-14 and 1.4.1 dated 2026-05-27
DESCRIPTION | 19 ++++++++++--------- MD5 | 24 ++++++++++++------------ NEWS.md | 4 ++++ build/vignette.rds |binary inst/doc/package_extensions.Rmd | 2 +- inst/doc/package_extensions.html | 4 ++-- inst/doc/rcmd_issues.html | 5 +++-- inst/doc/writing_custom_examples.html | 5 +++-- man/admiraldev-package.Rd | 4 ++-- man/capture_output.Rd | 4 ++-- man/deprecate_inform.Rd | 13 ++++++++----- man/execute_example.Rd | 4 ++-- vignettes/package_extensions.Rmd | 2 +- 13 files changed, 50 insertions(+), 40 deletions(-)
Title: Accessibility Enhancements to Popular R Shiny Functions
Description: Accessible wrappers for popular 'shiny' UI components, enforcing
ARIA attributes and structural requirements in line with BITV 2.0
(Barrierefreie-Informationstechnik-Verordnung) and WCAG 2.1 AA.
Covers action buttons, text and select inputs, fluid page layouts with
HTML landmarks and skip links, 'DT' data tables, and bar and line
graphs from 'ggplot2'. Components validate label presence, expose
keyboard-accessible ARIA states, and provide a high-contrast toggle.
This package was developed by d-fine GmbH on behalf of the German
Federal Ministry of Research, Technology and Space (BMFTR).
Author: Jan Liebnitzky [aut, cre]
Maintainer: Jan Liebnitzky <datenlabor@bmftr.bund.de>
Diff between a11yShiny versions 0.1.3 dated 2026-03-30 and 0.1.4 dated 2026-05-27
DESCRIPTION | 6 +++--- MD5 | 4 ++-- build/vignette.rds |binary 3 files changed, 5 insertions(+), 5 deletions(-)
Title: Modeling and Forecasting Visitor Counts Using Social Media
Description: Performs modeling and forecasting of park visitor counts
using social media data and (partial) on-site visitor counts.
Specifically, the model is built based on an automatic decomposition
of the trend and seasonal components of the social media-based park visitor counts,
from which short-term forecasts of the visitor counts and percent changes
in the visitor counts can be made. A reference for the underlying model that 'VisitorCounts' uses can be found at
Russell Goebel, Austin Schmaltz, Beth Ann Brackett, Spencer A. Wood, Kimihiro Noguchi (2023) <doi:10.1002/for.2965> .
Author: Robert Bowen [aut, cre],
Russell Goebel [aut],
Beth Ann Brackett [ctb],
Kimihiro Noguchi [aut],
Dylan Way [aut]
Maintainer: Robert Bowen <robertbowen.bham@gmail.com>
Diff between VisitorCounts versions 2.0.3 dated 2025-01-15 and 2.0.4 dated 2026-05-27
DESCRIPTION | 10 +++++----- LICENSE |only MD5 | 13 +++++++------ NEWS.md | 4 ++++ inst/doc/VisitorCounts.R | 4 +++- inst/doc/VisitorCounts.Rmd | 4 +++- inst/doc/VisitorCounts.html | 29 +++++++++++++++-------------- vignettes/VisitorCounts.Rmd | 4 +++- 8 files changed, 40 insertions(+), 28 deletions(-)
Title: Venn Diagram
Description: Generate Venn plots, summary tables, and ellipse paths for polygon clipping.
Provides direct access to subsets of interest and offers flexible customization of Venn diagrams.
Summary tables are also available when Venn diagram visualization is not suitable.
Author: Joon-Keat Lai [aut, cre, cph]
Maintainer: Joon-Keat Lai <p10911004@gmail.com>
Diff between venny versions 0.0.2 dated 2026-05-21 and 0.0.3 dated 2026-05-27
DESCRIPTION | 10 +- MD5 | 32 ++++-- NAMESPACE | 2 NEWS.md | 10 +- R/params.R | 98 ++++++++++++++++++++- R/polyclip.R | 9 + R/utils.R | 5 - R/venny.R | 6 - README.md | 204 +++++++++++++++++++++++++++++++++++++++++--- man/figures |only man/highlight.Rd | 6 - man/set_label_default.Rd | 3 man/set_label_position.Rd | 3 man/venn_summary.Rd | 2 man/venny.Rd | 3 tests/testthat/test-venny.R |only 16 files changed, 346 insertions(+), 47 deletions(-)
Title: Estimation of the Weights Attached to the Two-Way Fixed Effects
Regressions
Description: Computes the implicit weights attached to two-way fixed effects regressions, as well as summary measures of these regressions' robustness to heterogeneous treatment effects. Based on de Chaisemartin and D'Haultfoeuille (2020) <DOI:10.1257/aer.20181169>.
Author: Anzony Quispe [aut, cre],
Diego Ciccia [aut],
Felix Knau [aut],
Melitine Malezieux [aut],
Doulo Sow [aut],
Shuo Zhang [aut],
Clement de Chaisemartin [aut],
Grant McDermott [ctb]
Maintainer: Anzony Quispe <anzony.quispe@gmail.com>
Diff between TwoWayFEWeights versions 2.0.4 dated 2024-07-26 and 2.1.0 dated 2026-05-27
DESCRIPTION | 32 +- LICENSE | 4 MD5 | 26 +- NAMESPACE | 38 +-- NEWS.md | 25 +- R/RcppExports.R |only R/twowayfeweights.R | 469 +++++++++++++++++++------------------- R/twowayfeweights_calculate.R | 425 +++++++++++++++++----------------- R/twowayfeweights_normalize_var.R | 59 ++-- R/twowayfeweights_result.R | 219 ++++++++--------- R/utils.R | 378 +++++++++++++++--------------- R/zzz.R |only man/print.twowayfeweights.Rd | 112 ++++----- man/twowayfeweights.Rd | 392 +++++++++++++++---------------- src |only 15 files changed, 1112 insertions(+), 1067 deletions(-)
More information about TwoWayFEWeights at CRAN
Permanent link
Title: Tipping Point Analysis for Bayesian Dynamic Borrowing
Description: Tipping point analysis for clinical trials that employ
Bayesian dynamic borrowing via robust meta-analytic predictive (MAP)
priors. Further functions facilitate expert elicitation of a primary
weight of the informative component of the robust MAP prior and
computation of operating characteristics. Intended use is the
planning, analysis and interpretation of extrapolation studies in
pediatric drug development, but applicability is generally wider.
Author: Christian Stock [aut, cre] ,
Morten Dreher [aut],
Lars Andersen [aut],
Emma Torrini [ctb],
Boehringer Ingelheim Pharma GmbH & Co. KG [cph, fnd]
Maintainer: Christian Stock <christian.stock@boehringer-ingelheim.com>
Diff between tipmap versions 0.5.2 dated 2023-08-14 and 1.0.0 dated 2026-05-27
DESCRIPTION | 64 MD5 | 142 NAMESPACE | 1 NEWS.md | 103 R/create_new_trial_data.R | 48 R/create_posterior_data.R | 190 - R/create_prior_data.R | 62 R/create_tipmap_data.R | 173 R/draw_beta_mixture_nsamples.R | 59 R/fit_beta_1exp.R | 70 R/fit_beta_mult_exp.R | 33 R/get_cum_probs_1exp.R | 17 R/get_model_input_1exp.R | 30 R/get_posterior_by_weight.R | 18 R/get_summary_mult_exp.R | 35 R/get_tipping_points.R | 115 R/load_tipmap_data.R | 9 R/oc_bias.R | 228 - R/oc_coverage.R | 233 - R/oc_pos.R | 266 - R/tipmap-package.R | 1 R/tipmap_plot.R | 676 +-- README.md | 266 - build/vignette.rds |binary inst/doc/expert_elicitation.R | 272 - inst/doc/expert_elicitation.Rmd | 440 +- inst/doc/expert_elicitation.html | 3684 ++++++++++---------- inst/doc/introduction.R | 380 +- inst/doc/introduction.Rmd | 685 +-- inst/doc/introduction.html | 4102 +++++++++++------------ man/create_new_trial_data.Rd | 60 man/create_posterior_data.Rd | 147 man/create_prior_data.Rd | 66 man/create_tipmap_data.Rd | 93 man/default_quantiles.Rd | 32 man/default_weights.Rd | 32 man/draw_beta_mixture_nsamples.Rd | 78 man/figures |only man/fit_beta_1exp.Rd | 60 man/fit_beta_mult_exp.Rd | 64 man/get_cum_probs_1exp.Rd | 54 man/get_model_input_1exp.Rd | 60 man/get_posterior_by_weight.Rd | 58 man/get_summary_mult_exp.Rd | 64 man/get_tipping_points.Rd | 60 man/load_tipmap_data.Rd | 48 man/oc_bias.Rd | 2 man/oc_coverage.Rd | 2 man/oc_pos.Rd | 4 man/tipmap-package.Rd | 4 man/tipmap_darkblue.Rd | 32 man/tipmap_lightred.Rd | 32 man/tipmap_plot.Rd | 116 tests/testthat.R | 24 tests/testthat/test-create_new_trial_data.R | 21 tests/testthat/test-create_posterior_data.R | 84 tests/testthat/test-create_prior_data.R | 31 tests/testthat/test-create_tipmap_data.R | 50 tests/testthat/test-draw_beta_mixture_nsamples.R | 56 tests/testthat/test-fit_beta_1exp.R | 16 tests/testthat/test-fit_beta_mult_exp.R |only tests/testthat/test-get_cum_probs_1exp.R | 16 tests/testthat/test-get_model_input_1exp.R | 23 tests/testthat/test-get_posterior_by_weight.R |only tests/testthat/test-get_summary_mult_exp.R | 61 tests/testthat/test-get_tipping_points.R | 40 tests/testthat/test-load_tipmap_data.R | 14 tests/testthat/test-oc_bias.R |only tests/testthat/test-oc_coverage.R |only tests/testthat/test-oc_pos.R |only tests/testthat/test-tipmap_plot.R | 279 + vignettes/expert_elicitation.Rmd | 440 +- vignettes/introduction.Rmd | 685 +-- vignettes/jrss_style.csl | 610 +-- vignettes/references.bib | 424 +- 75 files changed, 8651 insertions(+), 7793 deletions(-)
Title: Symbolic Central and Noncentral Moments of the Multivariate
Normal Distribution
Description: Symbolic central and non-central moments of the multivariate normal
distribution. Computes a standard representation, LateX code, and values at
specified mean and covariance matrices.
Author: Kem Phillips [aut],
Florian Schuberth [aut, cre]
Maintainer: Florian Schuberth <f.schuberth@utwente.nl>
Diff between symmoments versions 1.2.1.1 dated 2025-12-12 and 1.2.2 dated 2026-05-27
symmoments-1.2.1.1/symmoments/R/symmoments.R |only symmoments-1.2.1.1/symmoments/inst/doc/symmoments.R |only symmoments-1.2.1.1/symmoments/man/print.moment.rd |only symmoments-1.2.1.1/symmoments/man/tomatching.Rd |only symmoments-1.2.1.1/symmoments/man/tomoment.Rd |only symmoments-1.2.1.1/symmoments/vignettes/jss.dtx |only symmoments-1.2.1.1/symmoments/vignettes/jsslogo.jpg |only symmoments-1.2.1.1/symmoments/vignettes/moments.bib |only symmoments-1.2.2/symmoments/DESCRIPTION | 40 symmoments-1.2.2/symmoments/MD5 | 74 symmoments-1.2.2/symmoments/NAMESPACE | 55 symmoments-1.2.2/symmoments/NEWS.md |only symmoments-1.2.2/symmoments/R/callmultmoments.R |only symmoments-1.2.2/symmoments/R/convert.R |only symmoments-1.2.2/symmoments/R/evaluate.R |only symmoments-1.2.2/symmoments/R/integrate.polynomial.R |only symmoments-1.2.2/symmoments/R/make.all.moments.R |only symmoments-1.2.2/symmoments/R/multmoments.R |only symmoments-1.2.2/symmoments/R/print.moment.R |only symmoments-1.2.2/symmoments/R/simulate.moment.R |only symmoments-1.2.2/symmoments/R/symmoments-packageinternal.R |only symmoments-1.2.2/symmoments/R/toLatex.R |only symmoments-1.2.2/symmoments/R/toMatching.R |only symmoments-1.2.2/symmoments/R/toMoment.R |only symmoments-1.2.2/symmoments/R/toNewick.R |only symmoments-1.2.2/symmoments/R/tounsorted.R |only symmoments-1.2.2/symmoments/R/utils.R |only symmoments-1.2.2/symmoments/README.md |only symmoments-1.2.2/symmoments/build/partial.rdb |only symmoments-1.2.2/symmoments/build/vignette.rds |binary symmoments-1.2.2/symmoments/inst/REFERENCES.bib |only symmoments-1.2.2/symmoments/inst/doc/symmoments.pdf |binary symmoments-1.2.2/symmoments/inst/doc/symmoments.rnw | 1063 ---------- symmoments-1.2.2/symmoments/man/callmultmoments.Rd | 98 symmoments-1.2.2/symmoments/man/convert.mpoly.Rd | 92 symmoments-1.2.2/symmoments/man/convert.multipol.Rd | 102 symmoments-1.2.2/symmoments/man/evaluate.Rd |only symmoments-1.2.2/symmoments/man/evaluate.moment.Rd | 83 symmoments-1.2.2/symmoments/man/evaluate_expected.polynomial.Rd | 106 symmoments-1.2.2/symmoments/man/evaluate_noncentral.Rd | 106 symmoments-1.2.2/symmoments/man/integrate.polynomial.Rd | 120 - symmoments-1.2.2/symmoments/man/make.all.moments.Rd | 111 - symmoments-1.2.2/symmoments/man/multmoments.Rd | 73 symmoments-1.2.2/symmoments/man/print.moment.Rd |only symmoments-1.2.2/symmoments/man/simulate.moment.Rd | 84 symmoments-1.2.2/symmoments/man/symmoments-package.Rd | 319 +-- symmoments-1.2.2/symmoments/man/toLatex.moment.Rd | 67 symmoments-1.2.2/symmoments/man/toLatex_noncentral.Rd | 74 symmoments-1.2.2/symmoments/man/toMatching.Rd |only symmoments-1.2.2/symmoments/man/toMoment.Rd |only symmoments-1.2.2/symmoments/man/toNewick.Rd | 120 - symmoments-1.2.2/symmoments/man/tounsorted.Rd | 84 symmoments-1.2.2/symmoments/vignettes/Phillips2010.pdf |only symmoments-1.2.2/symmoments/vignettes/symmoments.rnw | 1063 ---------- 54 files changed, 1084 insertions(+), 2850 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 0.4.0 dated 2026-04-16 and 0.5.0 dated 2026-05-27
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Title: Optimal Project Prioritization
Description: A decision support tool for prioritizing conservation projects.
Prioritizations can be developed by maximizing expected feature richness,
expected phylogenetic diversity, the number of features that meet
persistence targets, or identifying a set of projects that meet persistence
targets for minimal cost. Constraints (e.g. lock in specific actions) and
feature weights can also be specified to further customize prioritizations.
After defining a project prioritization problem, solutions can be obtained
using exact algorithms, heuristic algorithms, or random processes. In
particular, it is recommended to install the 'Gurobi' optimizer (available
from <https://www.gurobi.com>) because it can identify optimal solutions
very quickly. The 'rcbc' R package (available at
<https://github.com/dirkschumacher/rcbc>) can also be used to generate
solutions using the CBC optimization software
(<https://github.com/coin-or/Cbc>). Finally, methods are provided for
comparing different pri [...truncated...]
Author: Jeffrey O Hanson [aut, cre] ,
Richard Schuster [aut] ,
Matthew Strimas-Mackey [aut] ,
Joseph R Bennett [aut]
Maintainer: Jeffrey O Hanson <jeffrey.hanson@uqconnect.edu.au>
Diff between oppr versions 1.0.5 dated 2025-06-27 and 1.1.0 dated 2026-05-27
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oppr-1.1.0/oppr/man/oppr-deprecated.Rd |only oppr-1.1.0/oppr/man/oppr.Rd | 57 oppr-1.1.0/oppr/man/plot.ProjectProblem.Rd | 60 oppr-1.1.0/oppr/man/plot_solution_barplot.Rd |only oppr-1.1.0/oppr/man/plot_solution_phylogram.Rd |only oppr-1.1.0/oppr/man/problem.Rd | 86 oppr-1.1.0/oppr/man/problem_names.Rd |only oppr-1.1.0/oppr/man/project_cost_effectiveness.Rd | 50 oppr-1.1.0/oppr/man/project_names.Rd | 24 oppr-1.1.0/oppr/man/rank_importance.Rd |only oppr-1.1.0/oppr/man/reexports.Rd |only oppr-1.1.0/oppr/man/replacement_costs.Rd | 58 oppr-1.1.0/oppr/man/roxygen |only oppr-1.1.0/oppr/man/run_example.Rd |only oppr-1.1.0/oppr/man/show.Rd | 11 oppr-1.1.0/oppr/man/sim_data.Rd | 119 - oppr-1.1.0/oppr/man/sim_multi_data.Rd |only oppr-1.1.0/oppr/man/simulate_multi_ppp_data.Rd |only oppr-1.1.0/oppr/man/simulate_ppp_data.Rd | 150 + oppr-1.1.0/oppr/man/simulate_ptm_data.Rd | 153 + oppr-1.1.0/oppr/man/solution_statistics.Rd | 80 oppr-1.1.0/oppr/man/solve.Rd | 93 oppr-1.1.0/oppr/man/solvers.Rd | 165 - oppr-1.1.0/oppr/man/targets.Rd | 57 oppr-1.1.0/oppr/man/tibble-methods.Rd | 10 oppr-1.1.0/oppr/man/weights.Rd | 65 oppr-1.1.0/oppr/src/RcppExports.cpp | 134 + oppr-1.1.0/oppr/src/functions.cpp | 80 oppr-1.1.0/oppr/src/init.c | 96 oppr-1.1.0/oppr/src/optimization_problem.cpp | 52 oppr-1.1.0/oppr/src/optimization_problem.h | 3 oppr-1.1.0/oppr/src/package.h | 5 oppr-1.1.0/oppr/src/rcpp_add_raw_data.cpp | 191 + oppr-1.1.0/oppr/src/rcpp_apply_decisions.cpp | 9 oppr-1.1.0/oppr/src/rcpp_apply_feature_weights.cpp | 20 oppr-1.1.0/oppr/src/rcpp_apply_locked_action_constraints.cpp |only oppr-1.1.0/oppr/src/rcpp_apply_locked_project_constraints.cpp |only oppr-1.1.0/oppr/src/rcpp_apply_max_phylo_div_objective.cpp | 61 oppr-1.1.0/oppr/src/rcpp_apply_max_targets_met_objective.cpp | 29 oppr-1.1.0/oppr/src/rcpp_apply_min_set_objective.cpp | 9 oppr-1.1.0/oppr/src/rcpp_compile_multi_obj_problem.cpp |only oppr-1.1.0/oppr/src/rcpp_convert_abs_constraint_approach.cpp |only oppr-1.1.0/oppr/src/rcpp_convert_pwlobj.cpp |only oppr-1.1.0/oppr/src/rcpp_convert_ref_point_method_step1.cpp |only oppr-1.1.0/oppr/src/rcpp_convert_ref_point_method_step2.cpp |only oppr-1.1.0/oppr/src/rcpp_convert_wtd_goal_method.cpp |only oppr-1.1.0/oppr/src/rcpp_evaluate.cpp | 14 oppr-1.1.0/oppr/src/rcpp_heuristic_solution.cpp | 2 oppr-1.1.0/oppr/src/rcpp_random_solution.cpp | 10 oppr-1.1.0/oppr/tests/testthat/helper_dual_wtd_sum_multi_compile.R |only oppr-1.1.0/oppr/tests/testthat/helper_functions.R | 248 -- oppr-1.1.0/oppr/tests/testthat/helper_max_phylo_div_mip_formulation.R |only oppr-1.1.0/oppr/tests/testthat/helper_max_richness_mip_formulation.R |only oppr-1.1.0/oppr/tests/testthat/helper_max_targets_met_mip_formulation.R |only oppr-1.1.0/oppr/tests/testthat/helper_max_wtd_sum_objective.R |only oppr-1.1.0/oppr/tests/testthat/helper_min_set_mip_formulation.R |only oppr-1.1.0/oppr/tests/testthat/test_OptimizationProblem.R | 60 oppr-1.1.0/oppr/tests/testthat/test_Waiver.R | 5 oppr-1.1.0/oppr/tests/testthat/test_add_abs_constraint_approach.R |only oppr-1.1.0/oppr/tests/testthat/test_add_absolute_targets.R | 60 oppr-1.1.0/oppr/tests/testthat/test_add_binary_decisions.R |only oppr-1.1.0/oppr/tests/testthat/test_add_cbc_solver.R |only oppr-1.1.0/oppr/tests/testthat/test_add_default_solver.R |only oppr-1.1.0/oppr/tests/testthat/test_add_feature_weights.R | 35 oppr-1.1.0/oppr/tests/testthat/test_add_gurobi_solver.R |only oppr-1.1.0/oppr/tests/testthat/test_add_heuristic_solver.R |only oppr-1.1.0/oppr/tests/testthat/test_add_highs_solver.R |only oppr-1.1.0/oppr/tests/testthat/test_add_locked_in_action_constraints.R |only oppr-1.1.0/oppr/tests/testthat/test_add_locked_in_project_constraints.R |only oppr-1.1.0/oppr/tests/testthat/test_add_locked_out_action_constraints.R |only oppr-1.1.0/oppr/tests/testthat/test_add_locked_out_project_constraints.R |only oppr-1.1.0/oppr/tests/testthat/test_add_lpsolveapi_solver.R |only oppr-1.1.0/oppr/tests/testthat/test_add_lpsymphony_solver.R |only oppr-1.1.0/oppr/tests/testthat/test_add_manual_locked_actions_constraints.R |only oppr-1.1.0/oppr/tests/testthat/test_add_manual_locked_project_constraints.R |only oppr-1.1.0/oppr/tests/testthat/test_add_manual_targets.R | 227 +- oppr-1.1.0/oppr/tests/testthat/test_add_max_phylo_div_objective.R | 826 ++------ oppr-1.1.0/oppr/tests/testthat/test_add_max_richness_objective.R | 973 +--------- oppr-1.1.0/oppr/tests/testthat/test_add_max_targets_met_objective.R | 700 +------ oppr-1.1.0/oppr/tests/testthat/test_add_max_wtd_sum_objective.R |only oppr-1.1.0/oppr/tests/testthat/test_add_min_set_objective.R | 488 ----- oppr-1.1.0/oppr/tests/testthat/test_add_random_solver.R | 534 +++-- oppr-1.1.0/oppr/tests/testthat/test_add_ref_point_approach.R |only oppr-1.1.0/oppr/tests/testthat/test_add_relative_targets.R | 74 oppr-1.1.0/oppr/tests/testthat/test_add_rsymphony_solver.R |only oppr-1.1.0/oppr/tests/testthat/test_as_Matrix.R | 18 oppr-1.1.0/oppr/tests/testthat/test_branch_matrix.R | 35 oppr-1.1.0/oppr/tests/testthat/test_citation.R | 4 oppr-1.1.0/oppr/tests/testthat/test_data.R | 66 oppr-1.1.0/oppr/tests/testthat/test_deprecated.R |only oppr-1.1.0/oppr/tests/testthat/test_internal_rcpp.R | 10 oppr-1.1.0/oppr/tests/testthat/test_multi_compile.R |only oppr-1.1.0/oppr/tests/testthat/test_multi_problem.R |only oppr-1.1.0/oppr/tests/testthat/test_plot.R | 149 - oppr-1.1.0/oppr/tests/testthat/test_plot_solution_barplot.R |only oppr-1.1.0/oppr/tests/testthat/test_plot_solution_phylogram.R |only oppr-1.1.0/oppr/tests/testthat/test_problem.R | 403 ++-- oppr-1.1.0/oppr/tests/testthat/test_project_cost_effectiveness.R | 119 - oppr-1.1.0/oppr/tests/testthat/test_rake_phylogeny.R | 8 oppr-1.1.0/oppr/tests/testthat/test_rank_importance.R |only oppr-1.1.0/oppr/tests/testthat/test_replacement_costs.R | 182 + oppr-1.1.0/oppr/tests/testthat/test_simulate_multi_ppp_data.R |only oppr-1.1.0/oppr/tests/testthat/test_simulate_ppp_data.R | 474 +++- oppr-1.1.0/oppr/tests/testthat/test_simulate_ptm_data.R | 519 +++-- oppr-1.1.0/oppr/tests/testthat/test_solution_statistics.R |only oppr-1.1.0/oppr/tests/testthat/test_star_phylogeny.R | 8 oppr-1.1.0/oppr/tests/testthat/test_wtd_goal_approach.R |only oppr-1.1.0/oppr/vignettes/oppr.Rmd | 220 +- 332 files changed, 12104 insertions(+), 10158 deletions(-)
Title: Cyclic Coordinate Descent for Logistic, Poisson and Survival
Analysis
Description: This model fitting tool incorporates cyclic coordinate descent and
majorization-minimization approaches to fit a variety of regression models
found in large-scale observational healthcare data. Implementations focus
on computational optimization and fine-scale parallelization to yield
efficient inference in massive datasets. Please see:
Suchard, Simpson, Zorych, Ryan and Madigan (2013) <doi:10.1145/2414416.2414791>.
Author: Marc A. Suchard [aut, cre],
Martijn J. Schuemie [aut],
Trevor R. Shaddox [aut],
Yuxi Tian [aut],
Jianxiao Yang [aut],
Eric Kawaguchi [aut],
Sushil Mittal [ctb],
Observational Health Data Sciences and Informatics [cph],
Marcus Geelnard [cph, ctb] ,
Ru [...truncated...]
Maintainer: Marc A. Suchard <msuchard@ucla.edu>
Diff between Cyclops versions 3.7.0 dated 2026-02-28 and 3.7.1 dated 2026-05-27
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 7 +++++++ tests/testthat/test-bootstrap.R | 4 ++-- 4 files changed, 15 insertions(+), 8 deletions(-)
Title: Execute Pharmacometric Models Using 'shiny'
Description: Execute Nonlinear Mixed Effects (NLME) models for pharmacometrics using a 'shiny'
interface. Specify engine parameters and select from different run options, including
simple estimation, stepwise covariate search, bootstrapping, simulation, visual predictive
check, and more. Models are executed using the 'Certara.RsNLME' package.
Author: James Craig [aut, cre],
Mike Talley [aut],
Vitalii Nazarov [aut],
Certara USA, Inc [cph, fnd]
Maintainer: James Craig <james.craig@certara.com>
Diff between Certara.RsNLME.ModelExecutor versions 3.0.2 dated 2025-03-19 and 3.1.0 dated 2026-05-27
DESCRIPTION | 8 +- MD5 | 11 +- R/app_styling.R | 61 ++++++++++------ R/generate_ui.R | 26 ++---- R/modelExecutorUI.R | 21 +++-- R/tables.R | 197 +++++++++++++++++++++++++++++++++++++++++++++++++++- inst/www |only 7 files changed, 269 insertions(+), 55 deletions(-)
More information about Certara.RsNLME.ModelExecutor at CRAN
Permanent link
Title: Bayesian Seemingly Unrelated Regression Models in
High-Dimensional Settings
Description: Bayesian seemingly unrelated regression with general variable selection and dense/sparse covariance matrix. The sparse seemingly unrelated regression is described in Bottolo et al. (2021) <doi:10.1111/rssc.12490>, the software paper is in Zhao et al. (2021) <doi:10.18637/jss.v100.i11>, and the model with random effects is described in Zhao et al. (2024) <doi:10.1093/jrsssc/qlad102>.
Author: Marco Banterle [aut],
Zhi Zhao [aut, cre],
Leonardo Bottolo [ctb],
Sylvia Richardson [ctb],
Waldir Leoncio [ctb],
Alex Lewin [aut],
Manuela Zucknick [aut]
Maintainer: Zhi Zhao <zhi.zhao@medisin.uio.no>
Diff between BayesSUR versions 2.3-2 dated 2026-05-15 and 2.3-3 dated 2026-05-27
BayesSUR-2.3-2/BayesSUR/src/pugiconfig.hpp |only BayesSUR-2.3-2/BayesSUR/src/pugixml.cpp |only BayesSUR-2.3-2/BayesSUR/src/pugixml.hpp |only BayesSUR-2.3-3/BayesSUR/DESCRIPTION | 10 +++--- BayesSUR-2.3-3/BayesSUR/MD5 | 27 +++++++--------- BayesSUR-2.3-3/BayesSUR/NAMESPACE | 2 - BayesSUR-2.3-3/BayesSUR/NEWS.md | 4 ++ BayesSUR-2.3-3/BayesSUR/R/BayesSUR.R | 30 ++++++++++-------- BayesSUR-2.3-3/BayesSUR/R/RcppExports.R | 4 +- BayesSUR-2.3-3/BayesSUR/inst/doc/BayesSUR.pdf |binary BayesSUR-2.3-3/BayesSUR/src/BayesSUR.cpp | 14 ++++++-- BayesSUR-2.3-3/BayesSUR/src/RcppExports.cpp | 8 ++-- BayesSUR-2.3-3/BayesSUR/src/drive.cpp | 42 +++++++++++++++++++------- BayesSUR-2.3-3/BayesSUR/src/drive.h | 4 +- BayesSUR-2.3-3/BayesSUR/src/utils.cpp | 2 + BayesSUR-2.3-3/BayesSUR/src/utils.h | 3 - 16 files changed, 90 insertions(+), 60 deletions(-)
Title: Access Data from the Atlas do Estado Brasileiro
Description: Facilitates access to the data from the Atlas do Estado Brasileiro
(<https://www.ipea.gov.br/atlasestado/>), maintained by the Instituto de
Pesquisa Econômica Aplicada (Ipea). It allows users to search for specific
series, list series or themes, and download data when available.
Author: Hugo Macedo [aut, cre, cph]
Maintainer: Hugo Macedo <aebdata@hhmace.do>
This is a re-admission after prior archival of version 0.1.5 dated 2026-05-16
Diff between aebdata versions 0.1.5 dated 2026-05-16 and 0.1.6 dated 2026-05-27
DESCRIPTION | 8 +- MD5 | 10 +- NEWS.md | 2 R/get.R | 205 ++++++++++++++++++++++++++--------------------------- R/list.R | 33 ++++---- build/vignette.rds |binary 6 files changed, 132 insertions(+), 126 deletions(-)
Title: Multiple Grubbs-Beck Low-Outlier Test
Description: Compute the multiple Grubbs-Beck low-outlier test on positively distributed
data and utilities for noninterpretive U.S. Geological Survey annual peak-streamflow
data processing discussed in Cohn et al. (2013) and
England et al. (2017) <doi:10.3133/tm4B5>. Other utilities for working with peak streamflow
are provided.
Author: William H. Asquith [aut, cre] ,
John F. England [aut, ctb] ,
George R. Herrmann [ctb]
Maintainer: William H. Asquith <wasquith@usgs.gov>
Diff between MGBT versions 1.0.7 dated 2021-07-21 and 1.1.6 dated 2026-05-27
MGBT-1.0.7/MGBT/README.md |only MGBT-1.0.7/MGBT/inst/README.md |only MGBT-1.0.7/MGBT/inst/helpers/README.md |only MGBT-1.0.7/MGBT/inst/legend/README.md |only MGBT-1.0.7/MGBT/inst/sources/README.md |only MGBT-1.0.7/MGBT/inst/www/README.md |only MGBT-1.1.6/MGBT/DESCRIPTION | 32 ++- MGBT-1.1.6/MGBT/MD5 | 76 +++---- MGBT-1.1.6/MGBT/NAMESPACE | 10 MGBT-1.1.6/MGBT/NEWS | 281 ++++++++++++++++++---------- MGBT-1.1.6/MGBT/R/jointPeaks.R |only MGBT-1.1.6/MGBT/R/makeWaterYear.R | 58 ++++- MGBT-1.1.6/MGBT/R/peakTMtoHRS.R |only MGBT-1.1.6/MGBT/R/plotPeaks.R | 46 +++- MGBT-1.1.6/MGBT/R/ratioPeakMax1Day.R |only MGBT-1.1.6/MGBT/R/readNWISwatstore.R | 39 ++- MGBT-1.1.6/MGBT/R/splitPeakCodes.R | 11 - MGBT-1.1.6/MGBT/build/partial.rdb |binary MGBT-1.1.6/MGBT/inst/CITATION | 7 MGBT-1.1.6/MGBT/man/ASlo.Rd | 4 MGBT-1.1.6/MGBT/man/BLlo.Rd | 2 MGBT-1.1.6/MGBT/man/CondMomsChi2.Rd | 2 MGBT-1.1.6/MGBT/man/CondMomsZ.Rd | 4 MGBT-1.1.6/MGBT/man/CritK.Rd | 2 MGBT-1.1.6/MGBT/man/EMS.Rd | 6 MGBT-1.1.6/MGBT/man/GGBK.Rd | 2 MGBT-1.1.6/MGBT/man/MGBT-package.Rd | 2 MGBT-1.1.6/MGBT/man/MGBT.Rd | 10 MGBT-1.1.6/MGBT/man/RSlo.Rd | 2 MGBT-1.1.6/MGBT/man/RthOrderPValueOrthoT.Rd | 4 MGBT-1.1.6/MGBT/man/V.Rd | 4 MGBT-1.1.6/MGBT/man/VMS.Rd | 4 MGBT-1.1.6/MGBT/man/critK10.Rd | 4 MGBT-1.1.6/MGBT/man/figures |only MGBT-1.1.6/MGBT/man/gtmoms.Rd | 6 MGBT-1.1.6/MGBT/man/jointPeaks.Rd |only MGBT-1.1.6/MGBT/man/makeWaterYear.Rd | 27 +- MGBT-1.1.6/MGBT/man/peakTMtoHRS.Rd |only MGBT-1.1.6/MGBT/man/peta.Rd | 2 MGBT-1.1.6/MGBT/man/plotFFQevol.Rd | 16 - MGBT-1.1.6/MGBT/man/plotPeaks.Rd | 45 +++- MGBT-1.1.6/MGBT/man/plotPeaks_batch.Rd | 8 MGBT-1.1.6/MGBT/man/ratioPeakMax1Day.Rd |only MGBT-1.1.6/MGBT/man/readNWISwatstore.Rd | 47 +++- MGBT-1.1.6/MGBT/man/splitPeakCodes.Rd | 59 +++++ 45 files changed, 565 insertions(+), 257 deletions(-)
Title: Differentiating Through Cone Programs
Description: A port of the 'python' 'diffcp' package. Computes the
derivative of the optimal solution map of a convex cone program,
treating the program as an implicit function of its data
(constraint matrix, offset, objective coefficients, and optionally
a quadratic), mirroring Agrawal et al. (2019)
<doi:10.48550/arXiv.1904.09043>.
Author: Balasubramanian Narasimhan [aut, cre],
Akshay Agrawal [aut],
Shane Barratt [aut],
Stephen Boyd [aut],
Enzo Busseti [aut],
Walaa Moursi [aut]
Maintainer: Balasubramanian Narasimhan <naras@stanford.edu>
Diff between diffcp versions 0.1.0 dated 2026-05-19 and 0.1.1 dated 2026-05-27
DESCRIPTION | 10 +++++----- MD5 | 14 +++++++------- NEWS.md | 6 ++++++ inst/doc/diffcp.Rmd | 8 ++++---- inst/doc/diffcp.html | 16 ++++++++-------- tests/testthat/test-canonical.R | 12 ++++++++---- tests/testthat/test-cone-diff.R | 2 +- vignettes/diffcp.Rmd | 8 ++++---- 8 files changed, 43 insertions(+), 33 deletions(-)
Title: Clean and Simple Argument Checking
Description: Checks function arguments, ideally for use in R packages. Uses a simple interface and produces clean, informative error messages using 'cli'.
Author: Noah Greifer [aut, cre]
Maintainer: Noah Greifer <noah.greifer@gmail.com>
Diff between arg versions 0.1.0 dated 2026-04-09 and 0.1.1 dated 2026-05-27
DESCRIPTION | 8 +-- MD5 | 66 +++++++++++++-------------- NEWS.md | 19 +++++++ R/arg_between.R | 46 +++++++++---------- R/arg_character.R | 23 +++++++-- R/arg_data.R | 69 +++++++++++++++++++++++----- R/arg_dots_supplied.R | 14 +++++ R/arg_element.R | 44 +++++++++++++++--- R/arg_equal.R | 20 ++++++-- R/arg_formula.R | 25 ++++++---- R/arg_function.R | 7 ++ R/arg_index.R | 69 ++++++++++++++++++---------- R/arg_is.R | 26 ++++++++-- R/arg_length.R | 10 +++- R/arg_logical.R | 24 +++++++--- R/arg_named.R | 14 +++++ R/arg_no_NA.R | 27 +++++++---- R/arg_non_null.R | 14 +++++ R/arg_numeric.R | 82 ++++++++++++++++++++++------------ R/arg_or.R | 66 ++++++++++++++++----------- R/arg_supplied.R | 6 +- R/arg_symmetric.R | 119 ++++++++++++++++++++++++++++++++++++-------------- R/arg_unique.R | 7 ++ R/err.R | 64 ++++++++++++++++++-------- R/failures.R | 20 ++++---- R/match_arg.R | 24 ++++++---- R/utils.R | 43 +++++++++++++----- R/when_supplied.R | 52 +++++++++++++-------- README.md | 8 ++- man/arg-package.Rd | 5 ++ man/arg_character.Rd | 2 man/arg_logical.Rd | 2 man/arg_supplied.Rd | 2 man/err.Rd | 18 ++++--- 34 files changed, 716 insertions(+), 329 deletions(-)
Title: Working with Healthcare Databases
Description: A system for identifying diseases or events from healthcare databases and
preparing data for epidemiological studies. It includes capabilities not
supported by 'SQL', such as matching strings by 'stringr' style regular
expressions, and can compute comorbidity scores (Quan et al. (2005)
<doi:10.1097/01.mlr.0000182534.19832.83>) directly on a database server. The
implementation is based on 'dbplyr' with full 'tidyverse' compatibility.
Author: Kevin Hu [aut, cre, cph]
Maintainer: Kevin Hu <kevin.hu@bccdc.ca>
Diff between healthdb versions 0.5.0 dated 2026-01-07 and 0.5.1 dated 2026-05-26
DESCRIPTION | 13 ++-- MD5 | 32 +++++----- NEWS.md | 6 + R/identify_rows_sql.R | 40 ++++--------- R/if_dates.R | 2 inst/doc/healthdb.html | 135 ++++++++++++++++++++++---------------------- man/collapse_episode.Rd | 2 man/compute_comorbidity.Rd | 2 man/define_case.Rd | 2 man/define_case_with_age.Rd | 2 man/exclude.Rd | 8 +- man/fetch_var.Rd | 2 man/healthdb-package.Rd | 5 + man/identify_row.Rd | 4 - man/if_date.Rd | 2 man/restrict_date.Rd | 2 man/restrict_n.Rd | 2 17 files changed, 134 insertions(+), 127 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 0.2.5 dated 2026-03-13 and 0.2.6 dated 2026-05-26
DESCRIPTION | 12 + MD5 | 54 ++++---- NAMESPACE | 1 NEWS.md | 7 - R/ipcw.R | 8 - R/ipe.R | 6 R/msm.R | 8 - R/preptdc.R | 13 + R/rpsftm.R | 6 R/trtswitch-package.R | 2 R/tsegest.R | 6 R/tsesimp.R | 6 README.md |only build/vignette.rds |binary man/figures |only man/ipcw.Rd | 2 man/ipe.Rd | 2 man/msm.Rd | 2 man/preptdc.Rd | 8 - man/rpsftm.Rd | 2 man/tsegest.Rd | 2 man/tsesimp.Rd | 2 src/dataframe_list.h | 306 +++++++++++++++++++++++----------------------- src/logistic_regression.h | 13 - src/splines.h | 22 +-- src/survival_analysis.h | 18 +- src/thread_utils.h | 11 - src/utilities.cpp | 31 +++- src/utilities.h | 157 +++++++++++------------ 29 files changed, 377 insertions(+), 330 deletions(-)
Title: Data from all Seasons of Survivor (US) TV Series in Tidy Format
Description: Datasets detailing the results, castaways, and events of each
season of Survivor for the US, Australia, South Africa, New Zealand, and the
UK. This includes details on the cast, voting history, immunity and reward
challenges, jury votes, boot order, advantage details, and episode ratings.
Use this for analysis of trends and statistics of the game.
Author: Daniel Oehm [aut, cre],
Carly Levitz [ctb]
Maintainer: Daniel Oehm <danieloehm@gmail.com>
Diff between survivoR versions 2.3.10 dated 2026-02-05 and 2.3.12 dated 2026-05-26
DESCRIPTION | 6 MD5 | 71 ++++---- NAMESPACE | 1 NEWS.md | 12 + R/datasets.R | 61 +++++-- R/filters.R | 35 +++- README.md | 330 ++++++++++++++++++++++----------------- data/advantage_details.rda |binary data/advantage_movement.rda |binary data/advantage_timeline.rda |only data/auction_details.rda |binary data/boot_mapping.rda |binary data/boot_order.rda |binary data/castaway_details.rda |binary data/castaway_scores.rda |binary data/castaways.rda |binary data/challenge_description.rda |binary data/challenge_results.rda |binary data/challenge_summary.rda |binary data/confessionals.rda |binary data/episodes.rda |binary data/journeys.rda |binary data/jury_votes.rda |binary data/season_summary.rda |binary data/survivor_auction.rda |binary data/tribe_colours.rda |binary data/tribe_mapping.rda |binary data/viewers.rda |binary data/vote_history.rda |binary man/advantage_timeline.Rd |only man/castaway_scores.Rd | 31 +-- man/challenge_description.Rd | 3 man/confessionals.Rd | 2 man/filter_au.Rd |only man/filter_us.Rd | 2 man/season_summary.Rd | 1 tests/testthat/tests-functions.R | 8 tests/testthat/tests.R | 85 +++++----- 38 files changed, 392 insertions(+), 256 deletions(-)
Title: 'DataRobot' Predictive Modeling API
Description: For working with the 'DataRobot' predictive modeling platform's API <https://www.datarobot.com/>.
Author: Ron Pearson [aut],
Zachary Deane-Mayer [aut],
David Chudzicki [aut],
Dallin Akagi [aut],
Sergey Yurgenson [aut],
Thakur Raj Anand [aut],
Peter Hurford [aut],
Chester Ismay [aut],
AJ Alon [aut, cre],
Andrew Watson [aut],
Gregory Williams [aut],
Anasta [...truncated...]
Maintainer: AJ Alon <api-maintainer@datarobot.com>
Diff between datarobot versions 2.18.7 dated 2025-10-02 and 2.18.8 dated 2026-05-26
DESCRIPTION | 8 +++--- MD5 | 40 +++++++++++++++--------------- NEWS.md | 28 ++++++++++++++++++--- inst/doc/AdvancedTuning.html | 4 +-- inst/doc/AdvancedVignette.R | 21 ++++++++------- inst/doc/AdvancedVignette.Rmd | 33 +++++++++++++----------- inst/doc/AdvancedVignette.html | 30 ++++++++++++---------- inst/doc/Calendars.html | 4 +-- inst/doc/ComparingSubsets.html | 4 +-- inst/doc/ComplianceDocumentation.html | 4 +-- inst/doc/DatetimePartitionedProjects.html | 4 +-- inst/doc/Deployment.html | 4 +-- inst/doc/IntroductionToDataRobot.html | 4 +-- inst/doc/Multiclass.html | 4 +-- inst/doc/PartialDependence.html | 4 +-- inst/doc/PredictionExplanations.html | 4 +-- inst/doc/RatingTables.html | 4 +-- inst/doc/TimeSeries.html | 4 +-- inst/doc/TrainingPredictions.html | 4 +-- inst/doc/VariableImportance.html | 4 +-- vignettes/AdvancedVignette.Rmd | 33 +++++++++++++----------- 21 files changed, 141 insertions(+), 108 deletions(-)
Title: Heterogeneous Treatment Effects in Regression Discontinuity
Designs
Description: Understanding heterogeneous causal effects based on pretreatment covariates is a crucial step in modern empirical work in data science. Building on the recent developments in Calonico et al (2025) <doi:10.48550/arXiv.2503.13696>, this package provides tools for estimation and inference of heterogeneous treatment effects in Regression Discontinuity (RD) Designs. The package includes two main commands: 'rdhte' to conduct estimation and robust bias-corrected inference for conditional RD treatment effects (given choice of bandwidth parameter); 'rdbwhte', which implements automatic bandwidth selection methods; and 'rdhte_lincom' to test linear combinations of parameters.
Author: Sebastian Calonico [aut, cre],
Matias D. Cattaneo [aut],
Max H. Farrell [aut],
Filippo Palomba [aut],
Rocio Titiunik [aut]
Maintainer: Sebastian Calonico <scalonico@ucdavis.edu>
Diff between rdhte versions 0.1.0 dated 2025-07-18 and 0.2.0 dated 2026-05-26
rdhte-0.1.0/rdhte/inst/doc/rdhte-examples.R |only rdhte-0.1.0/rdhte/inst/doc/rdhte-examples.Rmd |only rdhte-0.1.0/rdhte/inst/doc/rdhte-examples.html |only rdhte-0.1.0/rdhte/vignettes/rdhte-examples.Rmd |only rdhte-0.2.0/rdhte/DESCRIPTION | 23 rdhte-0.2.0/rdhte/MD5 | 59 rdhte-0.2.0/rdhte/NAMESPACE | 60 rdhte-0.2.0/rdhte/NEWS.md |only rdhte-0.2.0/rdhte/R/helpers.R |only rdhte-0.2.0/rdhte/R/plot.rdhte.R |only rdhte-0.2.0/rdhte/R/rdbwhte.R | 953 ++++++---- rdhte-0.2.0/rdhte/R/rdhte-package.R | 112 - rdhte-0.2.0/rdhte/R/rdhte.R | 1840 +++++++++++---------- rdhte-0.2.0/rdhte/R/rdhte_contrast.R |only rdhte-0.2.0/rdhte/R/rdhte_lincom.R | 310 ++- rdhte-0.2.0/rdhte/build/vignette.rds |binary rdhte-0.2.0/rdhte/data |only rdhte-0.2.0/rdhte/inst/doc/rdhte-illustration.R |only rdhte-0.2.0/rdhte/inst/doc/rdhte-illustration.Rmd |only rdhte-0.2.0/rdhte/inst/doc/rdhte-illustration.html |only rdhte-0.2.0/rdhte/man/glance.rdbwhte.Rd |only rdhte-0.2.0/rdhte/man/glance.rdhte.Rd |only rdhte-0.2.0/rdhte/man/plot.rdhte.Rd |only rdhte-0.2.0/rdhte/man/print.rdbwhte.Rd | 36 rdhte-0.2.0/rdhte/man/print.rdhte.Rd | 36 rdhte-0.2.0/rdhte/man/print.summary.rdbwhte.Rd |only rdhte-0.2.0/rdhte/man/print.summary.rdhte.Rd |only rdhte-0.2.0/rdhte/man/rdbwhte.Rd | 274 +-- rdhte-0.2.0/rdhte/man/rdhte-package.Rd | 75 rdhte-0.2.0/rdhte/man/rdhte.Rd | 359 ++-- rdhte-0.2.0/rdhte/man/rdhte_contrast.Rd |only rdhte-0.2.0/rdhte/man/rdhte_dataset.Rd |only rdhte-0.2.0/rdhte/man/rdhte_lincom.Rd | 170 + rdhte-0.2.0/rdhte/man/summary.rdbwhte.Rd | 39 rdhte-0.2.0/rdhte/man/summary.rdhte.Rd | 39 rdhte-0.2.0/rdhte/man/tidy.rdbwhte.Rd |only rdhte-0.2.0/rdhte/man/tidy.rdhte.Rd |only rdhte-0.2.0/rdhte/tests |only rdhte-0.2.0/rdhte/vignettes/rdhte-illustration.Rmd |only 39 files changed, 2533 insertions(+), 1852 deletions(-)
Title: Phylogeny-Guided Bayesian Microbial Network Inference
Description: Implements a phylogeny-aware Bayesian graphical modeling
framework for microbial network inference using a shrinkage
precision estimator guided by a phylogenetic kernel, with optional
hyperparameter-ensemble edge reliability analysis.
Author: Rosa Aghdam [aut, cre]
Maintainer: Rosa Aghdam <rosaaghdam@gmail.com>
Diff between phymapnet versions 0.1.2 dated 2026-02-25 and 0.1.3 dated 2026-05-26
DESCRIPTION | 8 ++--- MD5 | 24 ++++++++-------- R/core-fit.R | 10 ++++-- R/normalization.R | 15 ++-------- R/preprocess.R | 42 ++++++++++++++++++++-------- R/reliability.R | 17 ++++++++--- R/utils-checks.R | 42 ++++++++++++++++++++++++++++ README.md | 32 +++++++++++++++++++--- man/phymapnet_fit.Rd | 10 ++++-- man/phymapnet_prepare_inputs.Rd | 11 ++++--- man/phymapnet_reliability.Rd | 9 +++--- tests/testthat/test-core.R | 58 ++++++++++++++++++++++++++++++++++++++++ tests/testthat/test-prepare.R | 58 +++++++++++++++++++++++++++++++++++++++- 13 files changed, 270 insertions(+), 66 deletions(-)
Title: Electricity Load Curves Forecasting at Individual Level
Description: Implements forecasting methods for individual electricity load
curves, including Kernel Wavelet Functional (KWF), clustered KWF,
Generalized Additive Models (GAM), Multivariate Adaptive Regression
Splines (MARS), and Long Short-Term Memory (LSTM) models. Provides
normalized dataset adapters for iFlex, StoreNet, Smart-Grid Smart-City,
Low Carbon London, and REFIT; download and read support for IDEAL and GX;
explicit Python backend selection for TensorFlow-based LSTM fits; helpers
for daily segmentation and rolling-origin benchmarking; and compact
shipped example panels and benchmark-result datasets.
Author: Frederic Bertrand [cre, aut] ,
Fatima Fahs [aut],
Myriam Maumy-Bertrand [aut]
Maintainer: Frederic Bertrand <frederic.bertrand@lecnam.net>
Diff between elcf4R versions 0.4.0 dated 2026-04-21 and 0.4.2 dated 2026-05-26
DESCRIPTION | 18 - MD5 | 36 +- NAMESPACE | 2 NEWS.md | 11 R/download_datasets.R | 71 +++++ R/elcf4R-package.R | 7 R/preprocess_segments.R | 425 ++++++++++++++++++++++++++++++++ R/sgsc_datasets.R |only README.md | 23 + data/elcf4r_sgsc_example.rda |only inst/CITATION | 5 inst/doc/elcf4R-datasets-vignette.R | 15 + inst/doc/elcf4R-datasets-vignette.Rmd | 23 + inst/doc/elcf4R-datasets-vignette.html | 96 ++++--- inst/doc/elcf4R-iflex-workflow.html | 8 man/elcf4R-package.Rd | 7 man/elcf4r_download_sgsc.Rd |only man/elcf4r_read_sgsc.Rd |only man/elcf4r_sgsc_example.Rd |only tests/testthat/test-release-hardening.R | 1 tests/testthat/test-sgsc.R |only vignettes/elcf4R-datasets-vignette.Rmd | 23 + 22 files changed, 694 insertions(+), 77 deletions(-)
Title: Extract 'REDCap' Databases into Tidy 'Tibble's
Description: Convert 'REDCap' exports into tidy tables for easy handling of 'REDCap' repeat instruments and event arms.
Author: Richard Hanna [aut, cre] ,
Stephan Kadauke [aut] ,
Ezra Porter [aut]
Maintainer: Richard Hanna <hannar1@chop.edu>
Diff between REDCapTidieR versions 1.2.4 dated 2025-07-28 and 1.2.5 dated 2026-05-26
DESCRIPTION | 8 MD5 | 68 +++--- NAMESPACE | 3 NEWS.md | 10 + R/REDCapTidieR-package.R | 6 R/bind_tibbles.R | 6 R/checks.R | 236 ++++++++++++++++++++--- R/clean_redcap.R | 21 -- R/clean_redcap_long.R | 46 ++-- R/combine_checkboxes.R | 62 ++---- R/extract_tibble.R | 6 R/labelled.R | 6 R/read_redcap.R | 110 +++++++---- R/skimr.R | 11 - R/utils.R | 37 +-- R/write.R | 131 +++++++------ README.md | 8 build/vignette.rds |binary inst/WORDLIST | 5 inst/doc/REDCapTidieR.html | 5 inst/doc/glossary.Rmd | 6 inst/doc/glossary.html | 13 - man/add_skimr_metadata.Rd | 4 man/check_metadata_field_types.Rd |only man/checkmate.Rd | 3 man/read_redcap.Rd | 33 +++ tests/testthat/test-checks.R | 196 +++++++++++++------ tests/testthat/test-clean_redcap_long.R | 121 ++++++------ tests/testthat/test-combine_checkboxes.R | 165 ++++++++-------- tests/testthat/test-labelled.R | 84 ++++---- tests/testthat/test-read_redcap.R | 309 +++++++++++++++++-------------- tests/testthat/test-skimr.R | 6 tests/testthat/test-utils.R | 197 +++++++++++-------- tests/testthat/test-write.R | 166 +++++++++------- tests/testthat/testthat-problems.rds |only vignettes/glossary.Rmd | 6 36 files changed, 1264 insertions(+), 830 deletions(-)
Title: Spatial Structural Change Detection by an Analysis of
Variability Between Blocks of Observations
Description: Provides methods to detect structural changes in time series or random fields (spatial data). Focus is on the detection of abrupt changes or trends in independent data, but the package also provides a function to de-correlate data with dependence. The functions are based on the test suggested in Schmidt (2024) <DOI:10.3150/23-BEJ1686> and the work in Görz and Fried (2025) <DOI:10.48550/arXiv.2512.11599>.
Author: Sheila Goerz [aut, cre],
Roland Fried [ctb, ths]
Maintainer: Sheila Goerz <sheila.goerz@tu-dortmund.de>
Diff between SChangeBlock versions 0.1.0 dated 2026-01-09 and 0.1.1 dated 2026-05-26
SChangeBlock-0.1.0/SChangeBlock/inst |only SChangeBlock-0.1.1/SChangeBlock/DESCRIPTION | 9 +-- SChangeBlock-0.1.1/SChangeBlock/MD5 | 31 +++++----- SChangeBlock-0.1.1/SChangeBlock/NAMESPACE | 1 SChangeBlock-0.1.1/SChangeBlock/R/RcppExports.R | 6 +- SChangeBlock-0.1.1/SChangeBlock/R/block_pValue.R | 2 SChangeBlock-0.1.1/SChangeBlock/R/block_stat.R | 35 +++++++++-- SChangeBlock-0.1.1/SChangeBlock/R/decorr.R | 37 +++++++++--- SChangeBlock-0.1.1/SChangeBlock/R/genField.R | 60 +++++++++++--------- SChangeBlock-0.1.1/SChangeBlock/README.md | 2 SChangeBlock-0.1.1/SChangeBlock/man/Mu.Rd | 2 SChangeBlock-0.1.1/SChangeBlock/man/changeRegion.Rd | 4 - SChangeBlock-0.1.1/SChangeBlock/man/decorr.Rd | 8 ++ SChangeBlock-0.1.1/SChangeBlock/man/genField.Rd | 7 +- SChangeBlock-0.1.1/SChangeBlock/man/genTheta.Rd | 4 - SChangeBlock-0.1.1/SChangeBlock/src/Mu.cpp | 2 SChangeBlock-0.1.1/SChangeBlock/src/dependency.cpp | 16 ++++- 17 files changed, 144 insertions(+), 82 deletions(-)
Title: Integration Unit Tests for Pharmacoepidemiological Studies
Description: An R interface to load testing data in the 'OMOP' Common Data Model ('CDM'). An input file, csv or xlsx, can be converted to a 'CDMConnector' object. This object can be used to execute and test studies that use the 'CDM' <https://www.ohdsi.org/data-standardization/>.
Author: Cesar Barboza [aut, cre] ,
Ioanna Nika [aut],
Ger Inberg [aut] ,
Adam Black [aut]
Maintainer: Cesar Barboza <c.barboza@darwin-eu.org>
Diff between TestGenerator versions 0.7.0 dated 2026-04-30 and 0.8.0 dated 2026-05-26
TestGenerator-0.7.0/TestGenerator/inst/cdmTableSpecifications/emptycdm_5.4/Archive.zip |only TestGenerator-0.7.0/TestGenerator/inst/testCases |only TestGenerator-0.7.0/TestGenerator/man/figures |only TestGenerator-0.7.0/TestGenerator/tests/testthat/test-visualisations.R |only TestGenerator-0.7.0/TestGenerator/tests/testthat/testCases/basic.json |only TestGenerator-0.7.0/TestGenerator/tests/testthat/testCases/basic2.json |only TestGenerator-0.7.0/TestGenerator/tests/testthat/testCases/basic3.json |only TestGenerator-0.7.0/TestGenerator/tests/testthat/testCases/diabetes.json |only TestGenerator-0.7.0/TestGenerator/tests/testthat/testCases/test33.json |only TestGenerator-0.7.0/TestGenerator/tests/testthat/testCases/test44.json |only TestGenerator-0.7.0/TestGenerator/tests/testthat/testCases/tests323.json |only TestGenerator-0.8.0/TestGenerator/DESCRIPTION | 23 TestGenerator-0.8.0/TestGenerator/MD5 | 60 + TestGenerator-0.8.0/TestGenerator/NAMESPACE | 6 TestGenerator-0.8.0/TestGenerator/NEWS.md | 12 TestGenerator-0.8.0/TestGenerator/R/patients.R | 263 -------- TestGenerator-0.8.0/TestGenerator/R/patientsRemote.R |only TestGenerator-0.8.0/TestGenerator/R/useGithubAction.R |only TestGenerator-0.8.0/TestGenerator/R/visualisations.R | 71 -- TestGenerator-0.8.0/TestGenerator/README.md | 304 ++++------ TestGenerator-0.8.0/TestGenerator/build/vignette.rds |binary TestGenerator-0.8.0/TestGenerator/inst/doc/gettingStarted.R | 33 - TestGenerator-0.8.0/TestGenerator/inst/doc/gettingStarted.Rmd | 61 -- TestGenerator-0.8.0/TestGenerator/inst/doc/gettingStarted.html | 138 ---- TestGenerator-0.8.0/TestGenerator/inst/doc/githubActions.R |only TestGenerator-0.8.0/TestGenerator/inst/doc/githubActions.Rmd |only TestGenerator-0.8.0/TestGenerator/inst/doc/githubActions.html |only TestGenerator-0.8.0/TestGenerator/inst/doc/remoteDatabases.R |only TestGenerator-0.8.0/TestGenerator/inst/doc/remoteDatabases.Rmd |only TestGenerator-0.8.0/TestGenerator/inst/doc/remoteDatabases.html |only TestGenerator-0.8.0/TestGenerator/inst/workflows |only TestGenerator-0.8.0/TestGenerator/man/cleanupTestCdm.Rd | 2 TestGenerator-0.8.0/TestGenerator/man/graphCohort.Rd | 30 TestGenerator-0.8.0/TestGenerator/man/patientsCDM.Rd | 2 TestGenerator-0.8.0/TestGenerator/man/useGithubAction.Rd |only TestGenerator-0.8.0/TestGenerator/tests/testthat/test-databricks.R |only TestGenerator-0.8.0/TestGenerator/tests/testthat/test-patients.R | 22 TestGenerator-0.8.0/TestGenerator/tests/testthat/test-patientsRemote.R |only TestGenerator-0.8.0/TestGenerator/tests/testthat/test-postgresql.R |only TestGenerator-0.8.0/TestGenerator/tests/testthat/test-sqlserver.R |only TestGenerator-0.8.0/TestGenerator/tests/testthat/test-useGithubAction.R |only TestGenerator-0.8.0/TestGenerator/vignettes/gettingStarted.Rmd | 61 -- TestGenerator-0.8.0/TestGenerator/vignettes/githubActions.Rmd |only TestGenerator-0.8.0/TestGenerator/vignettes/remoteDatabases.Rmd |only 44 files changed, 251 insertions(+), 837 deletions(-)
Title: Get Spanish Origin-Destination Data
Description: Gain seamless access to origin-destination (OD) data from the
Spanish Ministry of Transport, hosted at
<https://www.transportes.gob.es/ministerio/proyectos-singulares/estudios-de-movilidad-con-big-data/opendata-movilidad>.
This package simplifies the management of these large datasets by
providing tools to download zone boundaries, handle associated
origin-destination data, and process it efficiently with the 'duckdb'
database interface. Local caching minimizes repeated downloads,
streamlining workflows for researchers and analysts. Methods
described in Kotov et al. (2026) <doi:10.1177/23998083251415040>.
Extensive documentation is available at
<https://ropenspain.github.io/spanishoddata/index.html>, offering
guides on creating static and dynamic mobility flow visualizations and
transforming large datasets into analysis-ready formats.
Author: Egor Kotov [aut, cre] ,
Robin Lovelace [aut] ,
Eugeni Vidal-Tortosa [ctb]
Maintainer: Egor Kotov <kotov.egor@gmail.com>
Diff between spanishoddata versions 0.2.4 dated 2026-04-09 and 0.2.5 dated 2026-05-26
DESCRIPTION | 10 +- MD5 | 46 ++++++------- NEWS.md | 9 ++ R/available-data.R | 76 ++++++++++++++-------- R/check-files.R | 3 R/dev-tools.R | 25 +++++-- R/download_data.R | 3 R/get-zones.R | 1 README.md | 33 ++++++++- build/partial.rdb |binary build/vignette.rds |binary inst/doc/convert.html | 2 inst/doc/quick-get.html | 2 inst/doc/v1-2020-2021-mitma-data-codebook.html | 2 inst/doc/v2-2022-onwards-mitma-data-codebook.html | 2 inst/schemaorg.json | 4 - man/spod_available_data.Rd | 4 - man/spod_available_data_v1.Rd | 4 - man/spod_available_data_v2.Rd | 2 tests/testthat/test-available-data-coverage.R | 37 ++++++++-- tests/testthat/test-available-data-s3-coverage.R |only tests/testthat/test-available-data.R | 2 tests/testthat/test-data-dir-coverage.R | 53 +++++++++++++++ tests/testthat/test-folders-coverage.R |only tests/testthat/test-internal_utils.R | 18 +++++ 25 files changed, 251 insertions(+), 87 deletions(-)
Title: 'Rcpp' Bindings for 'hnswlib', a Library for Approximate Nearest
Neighbors
Description: 'Hnswlib' is a C++ library for Approximate Nearest Neighbors.
This package provides a minimal R interface by relying on the 'Rcpp'
package. See <https://github.com/nmslib/hnswlib> for more on
'hnswlib'. 'hnswlib' is released under Version 2.0 of the Apache
License.
Author: James Melville [aut, cre, cph],
Aaron Lun [ctb],
Samuel Granjeaud [ctb],
Dmitriy Selivanov [ctb],
Yuxing Liao [ctb]
Maintainer: James Melville <jlmelville@gmail.com>
Diff between RcppHNSW versions 0.6.0 dated 2024-02-04 and 0.7.0 dated 2026-05-26
RcppHNSW-0.6.0/RcppHNSW/inst/include/RcppPerpendicular |only RcppHNSW-0.7.0/RcppHNSW/DESCRIPTION | 8 RcppHNSW-0.7.0/RcppHNSW/MD5 | 58 - RcppHNSW-0.7.0/RcppHNSW/NAMESPACE | 8 RcppHNSW-0.7.0/RcppHNSW/NEWS.md | 246 ++-- RcppHNSW-0.7.0/RcppHNSW/R/hnsw.R | 694 ++++++------ RcppHNSW-0.7.0/RcppHNSW/R/rcpphnsw-package.R | 64 - RcppHNSW-0.7.0/RcppHNSW/R/util.R | 59 - RcppHNSW-0.7.0/RcppHNSW/inst/include/hnswalg.h | 2 RcppHNSW-0.7.0/RcppHNSW/inst/include/pforr |only RcppHNSW-0.7.0/RcppHNSW/man/RcppHnsw-package.Rd | 2 RcppHNSW-0.7.0/RcppHNSW/man/hnsw_build.Rd | 10 RcppHNSW-0.7.0/RcppHNSW/man/hnsw_knn.Rd | 7 RcppHNSW-0.7.0/RcppHNSW/man/hnsw_search.Rd | 4 RcppHNSW-0.7.0/RcppHNSW/src/Makevars | 1 RcppHNSW-0.7.0/RcppHNSW/src/RcppExports.cpp | 2 RcppHNSW-0.7.0/RcppHNSW/src/hnsw.cpp | 109 + RcppHNSW-0.7.0/RcppHNSW/tests/testthat.R | 8 RcppHNSW-0.7.0/RcppHNSW/tests/testthat/helper_data.R | 114 - RcppHNSW-0.7.0/RcppHNSW/tests/testthat/test_add_get_all.R | 104 - RcppHNSW-0.7.0/RcppHNSW/tests/testthat/test_build_search.R | 44 RcppHNSW-0.7.0/RcppHNSW/tests/testthat/test_cosine.R | 86 - RcppHNSW-0.7.0/RcppHNSW/tests/testthat/test_get_items.R | 62 - RcppHNSW-0.7.0/RcppHNSW/tests/testthat/test_get_knn.R | 46 RcppHNSW-0.7.0/RcppHNSW/tests/testthat/test_increase_size.R | 94 - RcppHNSW-0.7.0/RcppHNSW/tests/testthat/test_l2.R | 98 - RcppHNSW-0.7.0/RcppHNSW/tests/testthat/test_parallel.R | 100 - RcppHNSW-0.7.0/RcppHNSW/tests/testthat/test_random_seed.R |only RcppHNSW-0.7.0/RcppHNSW/tests/testthat/test_resize_index.R | 86 - RcppHNSW-0.7.0/RcppHNSW/tests/testthat/test_save_load.R |only RcppHNSW-0.7.0/RcppHNSW/tests/testthat/test_search_one.R | 72 - RcppHNSW-0.7.0/RcppHNSW/tests/testthat/test_verbose.R | 24 32 files changed, 1180 insertions(+), 1032 deletions(-)
Title: NHDPlus Tools
Description: Tools for traversing and working with National Hydrography Dataset Plus (NHDPlus) data. All methods implemented in 'nhdplusTools' are available in the NHDPlus documentation available from the US Environmental Protection Agency <https://www.epa.gov/waterdata/basic-information>.
Author: David Blodgett [aut, cre] ,
Mike Johnson [aut] ,
Marc Weber [ctb] ,
Josh Erickson [ctb],
Lauren Koenig [ctb]
Maintainer: David Blodgett <dblodgett@usgs.gov>
Diff between nhdplusTools versions 1.4.2 dated 2026-01-21 and 1.5.0 dated 2026-05-26
DESCRIPTION | 8 MD5 | 110 +- NAMESPACE | 7 NEWS.md | 793 +++++++-------- R/A_nhdplusTools.R | 1146 +++++++++++----------- R/arcrest_tools.R | 4 R/downloading_tools.R | 824 +++++++-------- R/get_codes.R | 4 R/get_drainage_area_estimates.R |only R/get_hydro.R | 76 + R/get_nhdplus.R | 35 R/get_nldi.R | 11 R/get_vaa.R | 850 +++++++++------- R/oafeat_tools.R | 137 +- R/plot_nhdplus.R | 24 R/prep_nhdplus.R | 10 R/rescale_catchments.R | 14 R/subset_nhdplus.R | 162 --- README.md | 81 - build/vignette.rds |binary inst/CITATION | 26 inst/doc/drainage_area_estimation.R |only inst/doc/drainage_area_estimation.Rmd |only inst/doc/drainage_area_estimation.html |only inst/doc/get_3dhp_data.R | 2 inst/doc/get_3dhp_data.Rmd | 2 inst/doc/get_3dhp_data.html | 12 inst/doc/get_data_overview.Rmd | 686 ++++++------- inst/doc/get_data_overview.html | 42 inst/doc/nhdplusTools.html | 74 - inst/doc/nhdplushr.html | 81 - inst/doc/plot_nhdplus.html | 12 inst/extdata/hex.R | 20 man/get_3dhp.Rd | 6 man/get_catchment_characteristics.Rd | 28 man/get_characteristics_metadata.Rd | 9 man/get_drainage_area_estimates.Rd |only man/get_gagesII.Rd | 3 man/get_huc.Rd | 26 man/get_nhdarea.Rd | 3 man/get_nhdplus.Rd | 10 man/get_nldi_basin.Rd | 3 man/get_nldi_index.Rd | 8 man/get_nwis.Rd | 3 man/get_waterbodies.Rd | 3 man/query_usgs_oafeat.Rd | 13 man/rescale_catchment_characteristics.Rd | 12 tests/testthat/data/negotiate_outlet_fixture.rds |only tests/testthat/test_01_get_nldi.R | 8 tests/testthat/test_02_subset.R | 4 tests/testthat/test_02_subset_extras.R | 36 tests/testthat/test_03_get_functions.R | 105 +- tests/testthat/test_get_3dhp.R | 11 tests/testthat/test_get_drainage_area_estimates.R |only tests/testthat/test_get_network.R | 3 tests/testthat/test_get_vaa.R | 78 + tests/testthat/test_rebuild_topology.R | 7 vignettes/drainage_area_estimation.Rmd |only vignettes/get_3dhp_data.Rmd | 2 vignettes/get_data_overview.Rmd | 686 ++++++------- 60 files changed, 3402 insertions(+), 2918 deletions(-)
Title: Missingness Alleviation for Network Analysis
Description: Provides functionality for estimating cross-sectional network structures representing partial correlations while accounting for missing data. Networks are estimated via neighborhood selection or regularization, with model selection guided by information criteria. Missing data can be handled primarily via multiple imputation or a maximum likelihood-based approach, as demonstrated by Nehler and Schultze (2025) <doi:10.1080/00273171.2025.2503833> and Nehler and Schultze (2026) <doi:10.1037/met0000828>. Deletion-based approaches are also available but play a secondary role.
Author: Kai Jannik Nehler [aut, cre]
Maintainer: Kai Jannik Nehler <nehler@psych.uni-frankfurt.de>
Diff between mantar versions 0.2.0 dated 2026-01-17 and 0.3.0 dated 2026-05-26
DESCRIPTION | 8 MD5 | 58 +- NEWS.md | 21 + R/checker.R | 141 +++++-- R/cor_calc.R | 99 ++++ R/ics.R | 2 R/neighborhood_net.R | 83 +++- R/regularization_net.R | 168 ++++++-- R/search_regression.R | 2 build/partial.rdb |binary build/stage23.rdb |binary data/mantar_dummy_full_cat.rda |binary data/mantar_dummy_full_cont.rda |binary data/mantar_dummy_full_mix.rda |binary data/mantar_dummy_mis_cat.rda |binary data/mantar_dummy_mis_cont.rda |binary data/mantar_dummy_mis_mix.rda |binary inst/REFERENCES.bib | 13 inst/doc/mantar.R | 20 - inst/doc/mantar.Rmd | 53 +- inst/doc/mantar.html | 619 ++++++++++++++++--------------- man/cor_calc.Rd | 16 man/neighborhood_net.Rd | 15 man/regression_opt.Rd | 2 man/regularization_net.Rd | 67 ++- tests/testthat/test-cor_calc.R | 76 +++ tests/testthat/test-neighborhood_net.R | 43 ++ tests/testthat/test-regularization_net.R | 434 +++++++++++++++++++++ tests/testthat/test-search_regression.R | 1 vignettes/mantar.Rmd | 53 +- 30 files changed, 1498 insertions(+), 496 deletions(-)
Title: Facilitate Writing Documents in American Psychological
Association Style, Seventh Edition
Description: Create American Psychological Association Style, Seventh
Edition documents. Format numbers and text consistent with APA style.
Create tables that comply with APA style by extending flextable
functions.
Author: W. Joel Schneider [aut, cre]
Maintainer: W. Joel Schneider <w.joel.schneider@gmail.com>
Diff between apa7 versions 0.1.0 dated 2025-09-10 and 0.1.3 dated 2026-05-26
apa7-0.1.0/apa7/R/formating.R |only apa7-0.1.3/apa7/DESCRIPTION | 18 apa7-0.1.3/apa7/MD5 | 68 apa7-0.1.3/apa7/NEWS.md | 51 apa7-0.1.3/apa7/R/apaquarto.R | 65 apa7-0.1.3/apa7/R/formatting.R |only apa7-0.1.3/apa7/R/tables.R | 1367 ++++++++++-------- apa7-0.1.3/apa7/R/zzz.R | 7 apa7-0.1.3/apa7/README.md | 8 apa7-0.1.3/apa7/build/vignette.rds |binary apa7-0.1.3/apa7/inst/WORDLIST | 12 apa7-0.1.3/apa7/inst/doc/apa7.html | 82 - apa7-0.1.3/apa7/man/add_list_column.Rd | 17 apa7-0.1.3/apa7/man/align_chr.Rd | 2 apa7-0.1.3/apa7/man/apa7-package.Rd | 5 apa7-0.1.3/apa7/man/apa7_defaults.Rd | 2 apa7-0.1.3/apa7/man/apa_cor.Rd | 8 apa7-0.1.3/apa7/man/apa_format_columns.Rd | 2 apa7-0.1.3/apa7/man/apa_loadings.Rd | 6 apa7-0.1.3/apa7/man/apa_p.Rd | 4 apa7-0.1.3/apa7/man/apa_p_star_note.Rd | 2 apa7-0.1.3/apa7/man/column_format.Rd | 2 apa7-0.1.3/apa7/man/column_formats.Rd | 2 apa7-0.1.3/apa7/man/column_spanner_label.Rd | 2 apa7-0.1.3/apa7/man/hanging_indent.Rd | 2 apa7-0.1.3/apa7/man/is_numeric_like.Rd | 2 apa7-0.1.3/apa7/man/make_apaquarto.Rd | 2 apa7-0.1.3/apa7/man/num_pad.Rd | 2 apa7-0.1.3/apa7/man/p2stars.Rd | 2 apa7-0.1.3/apa7/man/pivot_wider_name_first.Rd | 6 apa7-0.1.3/apa7/man/star_balance.Rd | 2 apa7-0.1.3/apa7/man/str_wrap_equal.Rd | 2 apa7-0.1.3/apa7/man/tagger.Rd | 2 apa7-0.1.3/apa7/tests/testthat/test-column-spanner.R |only apa7-0.1.3/apa7/tests/testthat/test-tables.R |only apa7-0.1.3/apa7/tests/testthat/test-tagger.R |only apa7-0.1.3/apa7/tests/testthat/test-text-formatting.R |only apa7-0.1.3/apa7/tests/testthat/tests.R | 221 +- 38 files changed, 1186 insertions(+), 789 deletions(-)
Title: Conditional Mutual Information Estimation for Multi-Omics Data
Description: The biases introduced in association measures, particularly mutual information,
are influenced by factors such as tumor purity, mutation burden, and hypermethylation.
This package provides the estimation of conditional mutual information (CMI) and its
statistical significance with a focus on its application to multi-omics data. Utilizing
B-spline functions (inspired by Daub et al. (2004) <doi:10.1186/1471-2105-5-118>), the package offers tools to estimate the association between heterogeneous multi-
omics data, while removing the effects of confounding factors. This helps to unravel complex
biological interactions. In addition, it includes methods to evaluate the statistical significance
of these associations, providing a robust framework for multi-omics data integration and
analysis. This package is ideal for researchers in computational biology, bioinformatics,
and systems biology seeking a comprehensive tool for understanding interdependencies in
omics data.
Author: Gaojianyong Wang [aut, cre]
Maintainer: Gaojianyong Wang <gjywang@gmail.com>
Diff between conMItion versions 0.3.0 dated 2026-04-14 and 0.3.1 dated 2026-05-26
DESCRIPTION | 6 - MD5 | 15 +-- NAMESPACE | 3 R/ComputeMatrix.R | 210 +++++++++++++++++++++++++++++++++++++++++++- man/CMIBiCondimat2mat.Rd | 2 man/CMIBiCondimat2matAll.Rd |only man/CMImat2mat.Rd | 2 man/CMImat2matAll.Rd |only man/MImat2mat.Rd | 2 man/MImat2matAll.Rd |only 10 files changed, 225 insertions(+), 15 deletions(-)
Title: Estimation in Staggered First Switch Designs, where Groups
Experience their First Treatment Change at Different Points in
Time
Description: Estimation of heterogeneity-robust difference-in-differences estimators, with a binary, discrete, or continuous treatment, in designs where past treatments may affect the current outcome.
Author: Anzony Quispe [aut, cre],
Diego Ciccia [aut],
Felix Knau [aut],
Melitine Malezieux [aut],
Doulo Sow [aut],
Clement de Chaisemartin [aut]
Maintainer: Anzony Quispe <anzony.quispe@gmail.com>
Diff between DIDmultiplegtDYN versions 2.3.3 dated 2026-03-17 and 2.3.4 dated 2026-05-26
DESCRIPTION | 13 MD5 | 7 NAMESPACE | 1 R/did_multiplegt_bootstrap.R | 607 ++++++++++++++++++++++++++++------------ R/did_multiplegt_main_smaller.R |only 5 files changed, 438 insertions(+), 190 deletions(-)
More information about DIDmultiplegtDYN at CRAN
Permanent link
Title: Modelling Relative Sea Level Data
Description: The Bayesian modelling of relative sea-level data
using a comprehensive approach that incorporates
various statistical models within a unifying framework.
Details regarding each statistical models;
linear regression (Ashe et al 2019) <doi:10.1016/j.quascirev.2018.10.032>,
change point models (Cahill et al 2015) <doi:10.1088/1748-9326/10/8/084002>,
integrated Gaussian process models (Cahill et al 2015) <doi:10.1214/15-AOAS824>,
temporal splines (Upton et al 2025) <doi:10.32614/RJ-2024-018>,
spatio-temporal splines (Upton et al 2025) <doi:10.32614/RJ-2024-018> and
generalised additive models (Upton et al 2025) <doi:10.1093/jrsssc/qlae044>.
This package facilitates data loading,
model fitting and result summarisation.
Notably, it accommodates the inherent measurement errors
found in relative sea-level data across multiple dimensions,
allowing for their inclusion in the statistical models.
Author: Maeve Upton [cph, aut, cre] ,
Andrew Parnell [aut],
Niamh Cahill [aut]
Maintainer: Maeve Upton <uptonmaeve010@gmail.com>
This is a re-admission after prior archival of version 0.1.1 dated 2023-06-15
Diff between reslr versions 0.1.1 dated 2023-06-15 and 0.2.0 dated 2026-05-26
DESCRIPTION | 17 MD5 | 42 - NEWS.md | 6 R/internal_functions.R | 31 - R/reslr_load.R | 10 R/reslr_mcmc.R | 8 build/vignette.rds |binary inst/doc/advanced_reslr.R | 270 +++++----- inst/doc/advanced_reslr.Rmd | 5 inst/doc/advanced_reslr.html | 441 ++++++++-------- inst/doc/quick_start.R | 29 - inst/doc/quick_start.Rmd | 3 inst/doc/quick_start.html | 116 ++-- inst/doc/reslr.R | 388 +++++++------- inst/doc/reslr.Rmd | 32 - inst/doc/reslr.html | 1140 +++++++++++++++++++++---------------------- man/reslr_mcmc.Rd | 8 tests/testthat/_snaps |only vignettes/advanced_reslr.Rmd | 5 vignettes/quick_start.Rmd | 3 vignettes/reslr.Rmd | 32 - 21 files changed, 1314 insertions(+), 1272 deletions(-)
Title: Multivariate Synthetic Control Method Using Time Series
Description: Three generalizations of the synthetic control method (which has
already an implementation in package 'Synth') are implemented: first,
'MSCMT' allows for using multiple outcome variables, second, time series
can be supplied as economic predictors, and third, a well-defined
cross-validation approach can be used.
Much effort has been taken to make the implementation as stable as possible
(including edge cases) without losing computational efficiency.
A detailed description of the main algorithms is given in
Becker and Klößner (2018) <doi:10.1016/j.ecosta.2017.08.002>.
Author: Martin Becker [aut, cre] ,
Stefan Kloessner [aut],
Karline Soetaert [com],
Jack Dongarra [cph],
R.J. Hanson [cph],
K.H. Haskell [cph],
Cleve Moler [cph],
LAPACK authors [cph]
Maintainer: Martin Becker <martin.becker@mx.uni-saarland.de>
Diff between MSCMT versions 1.4.2 dated 2026-05-19 and 1.4.3 dated 2026-05-26
DESCRIPTION | 14 MD5 | 38 +- NAMESPACE | 4 NEWS | 12 R/ModularOptimization.r | 6 R/atomOpt.r | 2 R/ggplot.r | 134 ++++---- R/improveSynth.r | 618 ++++++++++++++++++++--------------------- R/multiOpt.r | 7 R/wnnls.r | 172 +++++------ build/partial.rdb |binary build/vignette.rds |binary inst/doc/CheckingSynth.html | 380 ++++++++++++++----------- inst/doc/UsingTimeSeries.html | 302 ++++++++++++-------- inst/doc/WorkingWithMSCMT.html | 588 ++++++++++++++++++++++++--------------- man/MSCMTpackage.Rd | 9 man/ggplot.mscmt.Rd | 2 src/DE.c | 4 src/inverse.f | 38 +- src/solve.f | 18 - 20 files changed, 1334 insertions(+), 1014 deletions(-)
Title: Assessing the Integrity and Trustworthiness of Clinical Trials
Data
Description: The integrity package implements the IPD Integrity Tool, a
structured and transparent framework for evaluating the integrity of
individual participant data (IPD) from randomised trials (see Hunter et
al. (2024) <doi:10.1002/jrsm.1738> and <doi:10.32614/RJ-2017-008>). It
supports users to identify potential issues, such as unusual data
patterns, implausible values, lack of expected correlations, date
violations, and inconsistencies. The package provides reproducible
workflows for screening, documenting and summarising integrity concerns,
and may be applied by evidence synthesists, editors, and others to
determine whether a randomised trial may be considered sufficiently
trustworthy to contribute to the evidence base that informs policy and
practice.
Author: Sol Libesman [aut, cre],
Kylie Hunter [aut],
David Nguyen [aut],
Dario Strbenac [aut],
Anne Lene Seidler [aut],
Jie Kang [aut]
Maintainer: Sol Libesman <sol.libesman@sydney.edu.au>
Diff between integrity versions 1.0 dated 2026-04-08 and 1.0.1 dated 2026-05-26
DESCRIPTION | 40 MD5 | 50 NAMESPACE | 48 NEWS.md |only R/checks.R | 1235 +++++++--- R/metadata_io.R |only R/prepare_data.R | 138 - R/run_checks.R | 460 +++ README.md | 4 build/vignette.rds |binary inst/doc/integrity.R | 199 + inst/doc/integrity.Rmd | 582 +++- inst/doc/integrity.html | 3581 +++++++++++++++++++----------- inst/extdata/variables.yaml | 68 inst/extdata/variables_template.R |only inst/extdata/variables_template.xlsx |only inst/scripts/about.txt | 2 man/private_differential_variability.Rd | 56 man/private_imbalance_day_intervention.Rd | 56 man/private_implausible_values.Rd | 52 man/private_prepare_data.Rd | 50 man/private_repeating_baseline.Rd | 50 man/private_terminal_digits.Rd | 50 man/private_unexpectedly_uncorrelated.Rd | 50 man/read_metadata_excel.Rd |only man/read_metadata_r.Rd |only man/run_checks.Rd | 67 tests |only vignettes/integrity.Rmd | 582 +++- 29 files changed, 5139 insertions(+), 2281 deletions(-)
Title: Visualization and Tools for Ichimoku Kinko Hyo Strategies
Description: An implementation of 'Ichimoku Kinko Hyo', also commonly
known as cloud charts. Static and interactive visualizations with
tools for creating, backtesting and development of quantitative
ichimoku strategies. As described in Sasaki (1996, ISBN:4925152009),
the technique is a refinement on candlestick charting, originating
from Japan and now in widespread use in technical analysis worldwide.
Translating as one-glance equilibrium chart, it allows the price
action and market structure of financial securities to be determined
at-a-glance. Incorporates an interface with the 'OANDA fxTrade' API
<https://developer.oanda.com/> for retrieving historical and live
streaming price data for major currencies, metals, commodities,
government bonds and stock indices.
Author: Charlie Gao [aut, cre] ,
Hibiki AI Limited [cph]
Maintainer: Charlie Gao <charlie.gao@shikokuchuo.net>
This is a re-admission after prior archival of version 1.5.6 dated 2025-03-14
Diff between ichimoku versions 1.5.6 dated 2025-03-14 and 1.5.7 dated 2026-05-26
DESCRIPTION | 57 +++--- MD5 | 58 +++--- NAMESPACE | 2 NEWS.md | 4 R/archive.R | 4 R/ichimoku-package.R | 23 -- R/mltools.R | 368 ++++++++++++++++++++++++++++---------------- R/oanda.R | 16 - R/switch.R | 17 -- README.md | 11 - build/vignette.rds |binary inst/doc/reference.R | 38 ++-- inst/doc/reference.Rmd | 68 +++++--- inst/doc/reference.html | 20 +- inst/doc/strategies.R | 30 +-- inst/doc/strategies.Rmd | 46 +++-- inst/doc/strategies.html | 7 inst/doc/utilities.R | 18 +- inst/doc/utilities.Rmd | 27 ++- inst/doc/utilities.html | 9 - inst/doc/xoanda.R | 28 +-- inst/doc/xoanda.Rmd | 54 ++++-- inst/doc/xoanda.html | 7 man/ichimoku-package.Rd | 15 + src/shikokuchuo.c | 46 ----- tests/testthat/test-oanda.R | 39 +++- vignettes/reference.Rmd | 68 +++++--- vignettes/strategies.Rmd | 46 +++-- vignettes/utilities.Rmd | 27 ++- vignettes/xoanda.Rmd | 54 ++++-- 30 files changed, 725 insertions(+), 482 deletions(-)
Title: Local Large Language Model Inference Engine
Description: Enables R users to run large language models locally using 'GGUF' model files
and the 'llama.cpp' inference engine. Provides a complete R interface for loading models,
generating text completions, extracting vector representations, and streaming responses in real-time.
Includes grammar-constrained generation for structured output, text classification,
and retrieval-augmented generation (RAG) pipelines. Supports local inference without
requiring cloud APIs or internet connectivity, ensuring complete data privacy and
control. Based on the 'llama.cpp' project by Georgi Gerganov (2023) <https://github.com/ggml-org/llama.cpp>.
Author: Pawan Rama Mali [aut, cre, cph],
Georgi Gerganov [aut, cph] ,
The ggml authors [cph] ,
Jeffrey Quesnelle [ctb, cph] ,
Bowen Peng [ctb, cph] ,
pi6am [ctb] ,
Ivan Yurchenko [ctb] ,
Dirk Eddelbuettel [ctb, rev]
Maintainer: Pawan Rama Mali <prm@outlook.in>
Diff between edgemodelr versions 0.2.0 dated 2026-02-25 and 0.4.1 dated 2026-05-26
edgemodelr-0.2.0/edgemodelr/src/llama/llama-sampling.cpp |only edgemodelr-0.2.0/edgemodelr/src/llama/llama-sampling.h |only edgemodelr-0.4.1/edgemodelr/DESCRIPTION | 17 edgemodelr-0.4.1/edgemodelr/MD5 | 352 edgemodelr-0.4.1/edgemodelr/NAMESPACE | 30 edgemodelr-0.4.1/edgemodelr/NEWS.md | 185 edgemodelr-0.4.1/edgemodelr/R/RcppExports.R | 36 edgemodelr-0.4.1/edgemodelr/R/api.R | 1758 + edgemodelr-0.4.1/edgemodelr/R/zzz.R | 21 edgemodelr-0.4.1/edgemodelr/inst/examples/08_rag_pipeline.R |only edgemodelr-0.4.1/edgemodelr/man/build_chat_prompt.Rd | 14 edgemodelr-0.4.1/edgemodelr/man/dot-compute_sha256.Rd | 36 edgemodelr-0.4.1/edgemodelr/man/dot-is_writable_dir.Rd | 24 edgemodelr-0.4.1/edgemodelr/man/dot-known_hashes_path.Rd | 24 edgemodelr-0.4.1/edgemodelr/man/edge_ask.Rd |only edgemodelr-0.4.1/edgemodelr/man/edge_cache_info.Rd | 34 edgemodelr-0.4.1/edgemodelr/man/edge_chat_completion.Rd |only edgemodelr-0.4.1/edgemodelr/man/edge_classify.Rd |only edgemodelr-0.4.1/edgemodelr/man/edge_completion.Rd | 30 edgemodelr-0.4.1/edgemodelr/man/edge_cuda_info.Rd |only edgemodelr-0.4.1/edgemodelr/man/edge_download_model.Rd | 62 edgemodelr-0.4.1/edgemodelr/man/edge_download_url.Rd | 44 edgemodelr-0.4.1/edgemodelr/man/edge_embeddings.Rd |only edgemodelr-0.4.1/edgemodelr/man/edge_extract.Rd |only edgemodelr-0.4.1/edgemodelr/man/edge_extract_batch.Rd |only edgemodelr-0.4.1/edgemodelr/man/edge_grammar_completion.Rd |only edgemodelr-0.4.1/edgemodelr/man/edge_index_documents.Rd |only edgemodelr-0.4.1/edgemodelr/man/edge_install_cuda.Rd |only edgemodelr-0.4.1/edgemodelr/man/edge_install_cuda_toolkit.Rd |only edgemodelr-0.4.1/edgemodelr/man/edge_json_grammar.Rd |only edgemodelr-0.4.1/edgemodelr/man/edge_load_model.Rd | 7 edgemodelr-0.4.1/edgemodelr/man/edge_map.Rd |only edgemodelr-0.4.1/edgemodelr/man/edge_model_n_embd.Rd |only edgemodelr-0.4.1/edgemodelr/man/edge_quick_setup.Rd | 42 edgemodelr-0.4.1/edgemodelr/man/edge_reload_cuda.Rd |only edgemodelr-0.4.1/edgemodelr/man/edge_resolve_model_name.Rd | 40 edgemodelr-0.4.1/edgemodelr/man/edge_search.Rd |only edgemodelr-0.4.1/edgemodelr/man/edge_serve.Rd |only edgemodelr-0.4.1/edgemodelr/man/edge_similarity.Rd |only edgemodelr-0.4.1/edgemodelr/man/edge_similarity_matrix.Rd |only edgemodelr-0.4.1/edgemodelr/man/edge_stream_completion.Rd | 32 edgemodelr-0.4.1/edgemodelr/src/Makevars | 49 edgemodelr-0.4.1/edgemodelr/src/Makevars.win | 49 edgemodelr-0.4.1/edgemodelr/src/RcppExports.cpp | 113 edgemodelr-0.4.1/edgemodelr/src/bindings.cpp | 391 edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-alloc.c | 526 edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-alloc.h | 9 edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-backend-dl.cpp |only edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-backend-dl.h |only edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-backend-impl.h | 10 edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-backend-reg.cpp | 247 edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-backend.cpp | 225 edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-backend.h | 23 edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-cpu.h | 8 edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-cpu/amx |only edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-cpu/arch-fallback.h | 170 edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-cpu/arch/x86/quants.c | 18 edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-cpu/arch/x86/repack.cpp | 122 edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-cpu/binary-ops.cpp | 8 edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-cpu/common.h | 22 edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-cpu/ggml-cpu-impl.h | 30 edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-cpu/ggml-cpu.c | 518 edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-cpu/ggml-cpu.cpp | 46 edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-cpu/hbm.cpp |only edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-cpu/hbm.h |only edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-cpu/ops.cpp | 2873 + edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-cpu/ops.h | 21 edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-cpu/repack.cpp | 1784 + edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-cpu/repack.h | 82 edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-cpu/simd-gemm.h |only edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-cpu/simd-mappings.h | 279 edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-cpu/unary-ops.cpp | 165 edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-cpu/unary-ops.h | 7 edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-cpu/vec.cpp | 321 edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-cpu/vec.h | 536 edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-impl.h | 139 edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-opt.cpp | 108 edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-quants.c | 72 edgemodelr-0.4.1/edgemodelr/src/ggml/ggml-version.h | 17 edgemodelr-0.4.1/edgemodelr/src/ggml/ggml.c | 859 edgemodelr-0.4.1/edgemodelr/src/ggml/ggml.cpp | 10 edgemodelr-0.4.1/edgemodelr/src/ggml/ggml.h | 365 edgemodelr-0.4.1/edgemodelr/src/ggml/gguf.cpp | 273 edgemodelr-0.4.1/edgemodelr/src/llama/llama-adapter.cpp | 112 edgemodelr-0.4.1/edgemodelr/src/llama/llama-adapter.h | 13 edgemodelr-0.4.1/edgemodelr/src/llama/llama-arch.cpp | 4241 +- edgemodelr-0.4.1/edgemodelr/src/llama/llama-arch.h | 125 edgemodelr-0.4.1/edgemodelr/src/llama/llama-batch.cpp | 108 edgemodelr-0.4.1/edgemodelr/src/llama/llama-batch.h | 21 edgemodelr-0.4.1/edgemodelr/src/llama/llama-chat.cpp | 136 edgemodelr-0.4.1/edgemodelr/src/llama/llama-chat.h | 7 edgemodelr-0.4.1/edgemodelr/src/llama/llama-context.cpp | 1724 - edgemodelr-0.4.1/edgemodelr/src/llama/llama-context.h | 116 edgemodelr-0.4.1/edgemodelr/src/llama/llama-cparams.h | 6 edgemodelr-0.4.1/edgemodelr/src/llama/llama-cpp.h | 4 edgemodelr-0.4.1/edgemodelr/src/llama/llama-grammar.cpp | 366 edgemodelr-0.4.1/edgemodelr/src/llama/llama-grammar.h | 23 edgemodelr-0.4.1/edgemodelr/src/llama/llama-graph.cpp | 1124 edgemodelr-0.4.1/edgemodelr/src/llama/llama-graph.h | 280 edgemodelr-0.4.1/edgemodelr/src/llama/llama-hparams.cpp | 83 edgemodelr-0.4.1/edgemodelr/src/llama/llama-hparams.h | 152 edgemodelr-0.4.1/edgemodelr/src/llama/llama-impl.cpp | 26 edgemodelr-0.4.1/edgemodelr/src/llama/llama-impl.h | 19 edgemodelr-0.4.1/edgemodelr/src/llama/llama-kv-cache-iswa.cpp | 51 edgemodelr-0.4.1/edgemodelr/src/llama/llama-kv-cache-iswa.h | 8 edgemodelr-0.4.1/edgemodelr/src/llama/llama-kv-cache.cpp | 1129 edgemodelr-0.4.1/edgemodelr/src/llama/llama-kv-cache.h | 111 edgemodelr-0.4.1/edgemodelr/src/llama/llama-kv-cells.h | 82 edgemodelr-0.4.1/edgemodelr/src/llama/llama-memory-hybrid-iswa.cpp |only edgemodelr-0.4.1/edgemodelr/src/llama/llama-memory-hybrid-iswa.h |only edgemodelr-0.4.1/edgemodelr/src/llama/llama-memory-hybrid.cpp | 87 edgemodelr-0.4.1/edgemodelr/src/llama/llama-memory-hybrid.h | 42 edgemodelr-0.4.1/edgemodelr/src/llama/llama-memory-recurrent.cpp | 91 edgemodelr-0.4.1/edgemodelr/src/llama/llama-memory-recurrent.h | 25 edgemodelr-0.4.1/edgemodelr/src/llama/llama-memory.h | 13 edgemodelr-0.4.1/edgemodelr/src/llama/llama-mmap.cpp | 242 edgemodelr-0.4.1/edgemodelr/src/llama/llama-mmap.h | 11 edgemodelr-0.4.1/edgemodelr/src/llama/llama-model-loader.cpp | 117 edgemodelr-0.4.1/edgemodelr/src/llama/llama-model-loader.h | 6 edgemodelr-0.4.1/edgemodelr/src/llama/llama-model-saver.cpp | 4 edgemodelr-0.4.1/edgemodelr/src/llama/llama-model.cpp |15208 +--------- edgemodelr-0.4.1/edgemodelr/src/llama/llama-model.h | 112 edgemodelr-0.4.1/edgemodelr/src/llama/llama-quant.cpp | 406 edgemodelr-0.4.1/edgemodelr/src/llama/llama-sampler.cpp |only edgemodelr-0.4.1/edgemodelr/src/llama/llama-sampler.h |only edgemodelr-0.4.1/edgemodelr/src/llama/llama-vocab.cpp | 351 edgemodelr-0.4.1/edgemodelr/src/llama/llama-vocab.h | 89 edgemodelr-0.4.1/edgemodelr/src/llama/llama.cpp | 866 edgemodelr-0.4.1/edgemodelr/src/llama/llama.h | 396 edgemodelr-0.4.1/edgemodelr/src/llama/models |only edgemodelr-0.4.1/edgemodelr/src/llama/unicode.cpp | 329 edgemodelr-0.4.1/edgemodelr/src/llama/unicode.h | 44 edgemodelr-0.4.1/edgemodelr/tests/testthat/fake_model.gguf |only edgemodelr-0.4.1/edgemodelr/tests/testthat/test-model-aliases.R | 26 edgemodelr-0.4.1/edgemodelr/tests/testthat/test-model-management.R | 6 edgemodelr-0.4.1/edgemodelr/tests/testthat/test-streaming.R | 19 136 files changed, 22403 insertions(+), 19437 deletions(-)
Title: Wrapper for MUMPS Library
Description: Some basic features of 'MUMPS' (Multifrontal Massively Parallel
sparse direct Solver) are wrapped in a class whose methods can be used
for sequentially solving a sparse linear system (symmetric or not)
with one or many right hand sides (dense or sparse).
There is a possibility to do separately symbolic analysis,
LU (or LDL^t) factorization and system solving.
Third part ordering libraries are included and can be used: 'PORD', 'METIS', 'SCOTCH'.
'MUMPS' method was first described in Amestoy et al. (2001) <doi:10.1137/S0895479899358194>
and Amestoy et al. (2006) <doi:10.1016/j.parco.2005.07.004>.
Author: Serguei Sokol [aut, cre],
Emmanuel Agullo [ctb],
Patrick Amestoy [ctb, cph],
Maurice Bremond [ctb],
Alfredo Buttari [ctb],
Philippe Combes [ctb],
Marie Durand [ctb],
Aurelia Fevre [ctb],
Abdou Guermouche [ctb],
Guillaume Joslin [ctb],
Jacko Koster [c [...truncated...]
Maintainer: Serguei Sokol <sokol@insa-toulouse.fr>
Diff between rmumps versions 5.2.1-41 dated 2026-03-13 and 5.2.1-42 dated 2026-05-26
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS | 6 ++++++ src/init.c | 15 +++++++++++++++ 4 files changed, 27 insertions(+), 6 deletions(-)
Title: Nearest Neighbor Descent Method for Approximate Nearest
Neighbors
Description: The Nearest Neighbor Descent method for finding approximate
nearest neighbors by Dong and co-workers (2010)
<doi:10.1145/1963405.1963487>. Based on the 'Python' package
'PyNNDescent' <https://github.com/lmcinnes/pynndescent>.
Author: James Melville [aut, cre, cph],
Vitalie Spinu [ctb],
Ralf Stubner [ctb]
Maintainer: James Melville <jlmelville@gmail.com>
Diff between rnndescent versions 0.1.8 dated 2025-09-05 and 0.2.0 dated 2026-05-26
DESCRIPTION | 8 MD5 | 132 ++++++------- NEWS.md | 43 ++++ R/hubness.R | 10 - R/internals.R | 318 +++++++++++++++++++++++++++++++- R/rnndescent.R | 110 +++++++---- R/rptree.R | 32 ++- R/util.R | 18 + build/partial.rdb |binary build/vignette.rds |binary inst/doc/brute-force.html | 5 inst/doc/hubness.html | 71 +++---- inst/doc/metrics.Rmd | 6 inst/doc/metrics.html | 28 +- inst/doc/nearest-neighbor-descent.html | 12 - inst/doc/querying-data.Rmd | 2 inst/doc/querying-data.html | 23 +- inst/doc/random-partition-forests.html | 23 +- inst/doc/rnndescent.html | 20 +- inst/include/pforr.h | 112 ++++++++--- inst/include/tdoann/bitvec.h | 5 inst/include/tdoann/bruteforce.h | 13 - inst/include/tdoann/distance.h | 25 ++ inst/include/tdoann/nngraph.h | 21 ++ inst/include/tdoann/prepare.h | 7 inst/include/tdoann/randnbrs.h | 5 inst/include/tdoann/search.h | 4 inst/include/tdoann/sparse.h | 4 man/brute_force_knn.Rd | 3 man/brute_force_knn_query.Rd | 3 man/graph_knn_query.Rd | 3 man/nnd_knn.Rd | 3 man/prepare_search_graph.Rd | 3 man/random_knn.Rd | 3 man/random_knn_query.Rd | 3 man/rnnd_build.Rd | 3 man/rnnd_knn.Rd | 3 man/rnndescent-package.Rd | 5 man/rpf_build.Rd | 5 man/rpf_knn.Rd | 3 src/rnn_distance.h | 56 +++++ src/rnn_hub.cpp | 7 src/rnn_parallel.h | 1 src/rnn_progress.h | 34 +-- src/rnn_rptree.cpp | 43 +++- src/rnn_search.cpp | 9 src/rnn_util.h | 29 ++ tests/testthat/helper_nncheck.R | 17 - tests/testthat/test_binary.R | 20 +- tests/testthat/test_brute_force.R | 118 +++++++++-- tests/testthat/test_correlation.R | 26 +- tests/testthat/test_descent_bhamming.R | 14 - tests/testthat/test_descent_cosine.R | 36 +-- tests/testthat/test_descent_euclidean.R | 318 ++++++++++++++++++++++++++------ tests/testthat/test_descent_hamming.R | 18 - tests/testthat/test_descent_manhattan.R | 12 - tests/testthat/test_distance.R | 126 +++++++++--- tests/testthat/test_idx_to_graph.R | 68 +++++- tests/testthat/test_koccurrences.R | 31 ++- tests/testthat/test_merge.R | 66 +++++- tests/testthat/test_random_nbrs.R | 104 +++++++--- tests/testthat/test_rnnd.R | 77 +++++++ tests/testthat/test_rptree.R | 280 +++++++++++++++++++++++++--- tests/testthat/test_search_prep.R | 162 ++++++++++++++++ tests/testthat/test_sparse_search.R | 40 ++-- vignettes/metrics.Rmd | 6 vignettes/querying-data.Rmd | 2 67 files changed, 2229 insertions(+), 588 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 0.1.2 dated 2026-02-12 and 0.1.3 dated 2026-05-26
DESCRIPTION | 8 +-- MD5 | 26 +++++----- NEWS.md | 4 + R/gradient.R | 11 +++- R/zzz.R | 2 README.md | 1 build/partial.rdb |binary inst/CITATION | 16 +++--- inst/doc/compatibility-with-numDeriv.html | 23 ++++---- inst/doc/fast-and-accurate.html | 78 +++++++++++++++--------------- inst/doc/step-size-selection.html | 29 +++++------ man/Jacobian.Rd | 13 ----- tests/testthat/Rplots.pdf |binary tests/testthat/test-Jacobian.R | 8 +++ 14 files changed, 116 insertions(+), 103 deletions(-)
Title: A Comprehensive Toolkit for Clinical HLA Informatics
Description: A comprehensive toolkit for clinical Human Leukocyte Antigen (HLA) informatics, built on 'tidyverse' <https://tidyverse.tidyverse.org/> principles and making use of genotype list string (GL string, Mack et al. (2023) <doi:10.1111/tan.15126>) for storing and computing HLA genotype data. Specific functionalities include: coercion of HLA data in tabular format to and from GL string; calculation of matching and mismatching in all directions, with multiple output formats; automatic formatting of HLA data for searching within a GL string; truncation of molecular HLA data to a specific number of fields; and reading HLA genotypes in HML files and extracting the GL string. This library is intended for research use. Any application making use of this package in a clinical setting will need to be independently validated according to local regulations.
Author: Nicholas Brown [cre, aut] ,
Busra Coskun [aut]
Maintainer: Nicholas Brown <nicholas.brown@pennmedicine.upenn.edu>
Diff between immunogenetr versions 1.2.0 dated 2026-04-14 and 1.3.0 dated 2026-05-26
DESCRIPTION | 19 MD5 | 65 +- NAMESPACE | 31 - NEWS.md | 168 ++++-- R/GLstring_expand_longer.R | 137 ++++- R/GLstring_gene_copies_combine.R | 111 +++- R/GLstring_genes.R | 90 ++- R/GLstring_genes_expanded.R | 80 ++- R/HLA_columns_to_GLstring.R | 343 ++++++++----- R/HLA_match_number.R | 63 +- R/HLA_match_summary_HCT.R | 187 +++---- R/HLA_mismatch_base.R | 257 +++++----- R/HLA_mismatch_logical.R | 121 ++-- R/HLA_mismatch_number.R | 203 ++++---- R/HLA_mismatched_alleles.R | 43 - R/HLA_prefix_remove.R | 61 +- R/HLA_truncate.R | 218 +++++--- R/ambiguity_table_to_GLstring.R | 184 ++++++- R/read_HML.R | 3 R/utils-validation.R | 33 + README.md | 152 +++--- build/partial.rdb |binary build/vignette.rds |binary inst/doc/immunogenetr.R | 16 inst/doc/immunogenetr.Rmd | 20 inst/doc/immunogenetr.html | 554 +++++++++++++++------- man/HLA_columns_to_GLstring.Rd | 14 man/immunogenetr-package.Rd | 2 tests/testthat/test-GLstring_genes.R | 23 tests/testthat/test-HLA_columns_to_GLstring.R | 38 + tests/testthat/test-ambiguity_table_to_GLstring.R | 30 + tests/testthat/test-round_trip.R |only tests/testthat/test-validation.R | 50 + vignettes/immunogenetr.Rmd | 20 34 files changed, 2204 insertions(+), 1132 deletions(-)
Title: Interactive Structural Equation Modeling (SEM) and Multi-Group
Path Diagrams
Description: Provides an interactive workflow for visualizing structural equation modeling (SEM), multi-group path diagrams, and network diagrams in R. Users can directly manipulate nodes and edges to create publication-quality figures while maintaining statistical model integrity. Supports integration with 'lavaan', 'OpenMx', 'tidySEM', and 'blavaan' etc. Features include parameter-based aesthetic mapping, generative AI assistance, and complete reproducibility by exporting metadata for script-based workflows.
Author: Seung Hyun Min [aut, cre]
Maintainer: Seung Hyun Min <seung.min@mail.mcgill.ca>
Diff between ggsem versions 0.9.9 dated 2026-01-28 and 1.0.0 dated 2026-05-26
DESCRIPTION | 6 - MD5 | 14 +-- R/create_bundle.R | 10 +- R/ggsem_app.R | 12 +-- R/reproduce_metadata.R | 12 +-- R/utils_model.R | 99 +++++++++++++++++-------- README.md | 4 - inst/shiny/app.R | 193 ++++++++++++++++++++++++++++++++++++------------- 8 files changed, 242 insertions(+), 108 deletions(-)
Title: Unidimensional and Multidimensional Methods for Recurrence
Quantification Analysis
Description: Auto, Cross and Multi-dimensional recurrence quantification analysis.
Different methods for computing recurrence, cross vs. multidimensional
or profile iti.e., only looking at the diagonal recurrent points,
as well as functions for optimization and plotting are proposed.
in-depth measures of the whole cross-recurrence plot,
Please refer to Coco and others (2021) <doi:10.32614/RJ-2021-062>,
Coco and Dale (2014) <doi:10.3389/fpsyg.2014.00510>
and Wallot (2018) <doi: 10.1080/00273171.2018.1512846>
for further details about the method.
Author: Moreno I. Coco [cre, aut],
Dan Moenster [aut],
Giuseppe Leonardi [aut],
Rick Dale [aut],
Sebastian Wallot [aut],
James D. Dixon [ctb],
John C. Nash [ctb],
Alexandra Paxton [ctb],
Polyphony Bruna [ctb]
Maintainer: Moreno I. Coco <moreno.cocoi@gmail.com>
Diff between crqa versions 2.0.7 dated 2025-06-25 and 2.1.0 dated 2026-05-26
crqa-2.0.7/crqa/src/init.c |only crqa-2.0.7/crqa/src/jspd.f90 |only crqa-2.1.0/crqa/DESCRIPTION | 31 crqa-2.1.0/crqa/MD5 | 64 crqa-2.1.0/crqa/NAMESPACE | 11 crqa-2.1.0/crqa/R/RcppExports.R |only crqa-2.1.0/crqa/R/aRQA.R |only crqa-2.1.0/crqa/R/crqa.R | 416 ++++-- crqa-2.1.0/crqa/R/crqa_helpers.R | 1365 ++++++++++++--------- crqa-2.1.0/crqa/R/drpfromts.R | 148 +- crqa-2.1.0/crqa/R/optimizeParam.R | 52 crqa-2.1.0/crqa/R/piecewiseRQA.R | 380 ++--- crqa-2.1.0/crqa/R/plot_rp.R | 11 crqa-2.1.0/crqa/R/rosslerattractor.R |only crqa-2.1.0/crqa/R/spdiags.R | 61 crqa-2.1.0/crqa/R/wincrqa.R | 230 +-- crqa-2.1.0/crqa/R/windowdrp.R | 208 +-- crqa-2.1.0/crqa/build/vignette.rds |binary crqa-2.1.0/crqa/inst/doc/crqa_tutorial.R | 193 ++ crqa-2.1.0/crqa/inst/doc/crqa_tutorial.Rmd | 540 ++++++-- crqa-2.1.0/crqa/inst/doc/crqa_tutorial.html | 702 +++++++++- crqa-2.1.0/crqa/man/aRQA.Rd |only crqa-2.1.0/crqa/man/crqa-package.Rd | 134 +- crqa-2.1.0/crqa/man/crqa.Rd | 242 ++- crqa-2.1.0/crqa/man/drpfromts.Rd | 17 crqa-2.1.0/crqa/man/figures |only crqa-2.1.0/crqa/man/lorenzattractor.Rd | 5 crqa-2.1.0/crqa/man/optimizeParam.Rd | 298 ++-- crqa-2.1.0/crqa/man/piecewiseRQA.Rd | 265 ++-- crqa-2.1.0/crqa/man/rosslerattractor.Rd |only crqa-2.1.0/crqa/man/spdiags.Rd | 20 crqa-2.1.0/crqa/man/theiler_exclusion.Rd |only crqa-2.1.0/crqa/man/wincrqa.Rd | 299 ++-- crqa-2.1.0/crqa/man/windowdrp.Rd | 270 ++-- crqa-2.1.0/crqa/src/Makevars |only crqa-2.1.0/crqa/src/Makevars.win |only crqa-2.1.0/crqa/src/RcppExports.cpp |only crqa-2.1.0/crqa/src/crqa_fused.cpp |only crqa-2.1.0/crqa/vignettes/crqa_tutorial.Rmd | 540 ++++++-- crqa-2.1.0/crqa/vignettes/figure3_speed_memory.png |only 40 files changed, 4177 insertions(+), 2325 deletions(-)
Title: Reliable Comparison of Floating Point Numbers
Description: Comparisons of floating point numbers are problematic due to errors
associated with the binary representation of decimal numbers.
Despite being aware of these problems, people still use numerical methods
that fail to account for these and other rounding errors (this pitfall is
the first to be highlighted in Circle 1 of Burns (2012)
'The R Inferno' <https://www.burns-stat.com/pages/Tutor/R_inferno.pdf>).
This package provides new relational operators useful for performing
floating point number comparisons with a set tolerance.
Author: Alex M Chubaty [aut, cre] ,
His Majesty the King in Right of Canada, as represented by the Minister
of Natural Resources Canada [cph]
Maintainer: Alex M Chubaty <achubaty@for-cast.ca>
Diff between fpCompare versions 0.2.4 dated 2022-08-15 and 0.2.6 dated 2026-05-26
fpCompare-0.2.4/fpCompare/tests/test-all.R |only fpCompare-0.2.6/fpCompare/DESCRIPTION | 38 +- fpCompare-0.2.6/fpCompare/MD5 | 32 - fpCompare-0.2.6/fpCompare/NEWS.md | 36 + fpCompare-0.2.6/fpCompare/R/fpCompare-package.R |only fpCompare-0.2.6/fpCompare/R/fpCompare.R | 57 +-- fpCompare-0.2.6/fpCompare/R/zzz.R | 2 fpCompare-0.2.6/fpCompare/README.md | 64 +-- fpCompare-0.2.6/fpCompare/build/vignette.rds |binary fpCompare-0.2.6/fpCompare/inst/CITATION |only fpCompare-0.2.6/fpCompare/inst/WORDLIST | 5 fpCompare-0.2.6/fpCompare/inst/doc/fpCompare.R |only fpCompare-0.2.6/fpCompare/inst/doc/fpCompare.Rmd | 43 +- fpCompare-0.2.6/fpCompare/inst/doc/fpCompare.html | 187 +++++----- fpCompare-0.2.6/fpCompare/inst/examples/examples.R | 6 fpCompare-0.2.6/fpCompare/man/fpCompare-package.Rd |only fpCompare-0.2.6/fpCompare/man/relational-operators.Rd | 38 -- fpCompare-0.2.6/fpCompare/tests/testthat.R |only fpCompare-0.2.6/fpCompare/tests/testthat/test-numerical-comparisons.R | 73 ++- fpCompare-0.2.6/fpCompare/vignettes/fpCompare.Rmd | 43 +- 20 files changed, 358 insertions(+), 266 deletions(-)
Title: Visualisation and Annotation of 360 Degree Imagery
Description: Provides a customisable R 'shiny' app for immersively
visualising, mapping and annotating panospheric (360 degree) imagery.
The flexible interface allows annotation of any geocoded images using
up to 4 user specified drop-down menus. The app uses 'leaflet' to
render maps that display the geo-locations of images and Panellum
<https://pannellum.org/>, a lightweight panorama viewer for the web,
to render images in virtual 360 degree viewing mode. Key functions
include the ability to draw on & export parts of 360 images for
downstream applications. Users can also draw polygons and points on
map imagery related to the panoramic images and export them for
further analysis. Downstream applications include using annotations to
train Artificial Intelligence/Machine Learning (AI/ML) models and
geospatial modelling and analysis of camera based survey data.
Author: Nunzio Knerr [aut, cre] ,
Robert Godfree [aut] ,
Matthew Petroff [ctb],
CSIRO [cph]
Maintainer: Nunzio Knerr <Nunzio.Knerr@csiro.au>
Diff between pannotator versions 1.0.1 dated 2026-03-16 and 1.1.0 dated 2026-05-25
pannotator-1.0.1/pannotator/R/utils-pipe.R |only pannotator-1.0.1/pannotator/man/pipe.Rd |only pannotator-1.1.0/pannotator/DESCRIPTION | 18 pannotator-1.1.0/pannotator/MD5 | 93 pannotator-1.1.0/pannotator/NAMESPACE | 2 pannotator-1.1.0/pannotator/NEWS.md | 15 pannotator-1.1.0/pannotator/R/app_config.R | 407 ++ pannotator-1.1.0/pannotator/R/app_server.R | 26 pannotator-1.1.0/pannotator/R/app_ui.R | 694 ++++ pannotator-1.1.0/pannotator/R/exiftool_support.R |only pannotator-1.1.0/pannotator/R/fct_helpers.R | 1089 +++++-- pannotator-1.1.0/pannotator/R/lookup_validation.R |only pannotator-1.1.0/pannotator/R/mod_360_image.R | 712 ++--- pannotator-1.1.0/pannotator/R/mod_annotation_table.R |only pannotator-1.1.0/pannotator/R/mod_control_form.R | 1404 +--------- pannotator-1.1.0/pannotator/R/mod_leaflet_map.R | 386 +- pannotator-1.1.0/pannotator/R/mod_panel_host.R |only pannotator-1.1.0/pannotator/R/mod_settings.R |only pannotator-1.1.0/pannotator/R/panel_registry.R |only pannotator-1.1.0/pannotator/R/project_settings_export.R |only pannotator-1.1.0/pannotator/R/run_app.R | 29 pannotator-1.1.0/pannotator/R/runtime_context.R |only pannotator-1.1.0/pannotator/R/tour.R |only pannotator-1.1.0/pannotator/README.md | 52 pannotator-1.1.0/pannotator/build/vignette.rds |binary pannotator-1.1.0/pannotator/inst/WORDLIST | 98 pannotator-1.1.0/pannotator/inst/app/www/Pannellum_license.txt | 36 pannotator-1.1.0/pannotator/inst/app/www/helpfiles/kml_overlay_loader_help.md | 60 pannotator-1.1.0/pannotator/inst/app/www/helpfiles/kmz_file_loader_help.md | 50 pannotator-1.1.0/pannotator/inst/app/www/helpfiles/lookup_csv_help.md | 72 pannotator-1.1.0/pannotator/inst/app/www/helpfiles/lookup_label_help.md | 68 pannotator-1.1.0/pannotator/inst/app/www/helpfiles/lookup_pdf_help.md | 78 pannotator-1.1.0/pannotator/inst/app/www/helpfiles/user_name_csv_help.md | 74 pannotator-1.1.0/pannotator/inst/doc/pannotator.R | 12 pannotator-1.1.0/pannotator/inst/doc/pannotator.Rmd | 407 +- pannotator-1.1.0/pannotator/inst/doc/pannotator.html | 439 +-- pannotator-1.1.0/pannotator/inst/golem-config.yml | 2 pannotator-1.1.0/pannotator/man/run_app.Rd | 13 pannotator-1.1.0/pannotator/tests/testthat/test-annotation-table.R |only pannotator-1.1.0/pannotator/tests/testthat/test-app.R | 6 pannotator-1.1.0/pannotator/tests/testthat/test-control-form.R |only pannotator-1.1.0/pannotator/tests/testthat/test-exiftool-support.R |only pannotator-1.1.0/pannotator/tests/testthat/test-fct_helpers.R | 208 + pannotator-1.1.0/pannotator/tests/testthat/test-golem-recommended.R | 17 pannotator-1.1.0/pannotator/tests/testthat/test-image-panel.R |only pannotator-1.1.0/pannotator/tests/testthat/test-map-panel.R |only pannotator-1.1.0/pannotator/tests/testthat/test-panel-layout.R |only pannotator-1.1.0/pannotator/tests/testthat/test-project-settings-export.R |only pannotator-1.1.0/pannotator/tests/testthat/test-runtime-context.R |only pannotator-1.1.0/pannotator/tests/testthat/test-settings-csv-editors.R |only pannotator-1.1.0/pannotator/tests/testthat/test-settings-tour.R |only pannotator-1.1.0/pannotator/vignettes/Images/Figure10_small.jpg |only pannotator-1.1.0/pannotator/vignettes/Images/Figure11_small.jpg |only pannotator-1.1.0/pannotator/vignettes/Images/Figure12_small.jpg |only pannotator-1.1.0/pannotator/vignettes/Images/Figure1_small.jpg |only pannotator-1.1.0/pannotator/vignettes/Images/Figure2_small.jpg |only pannotator-1.1.0/pannotator/vignettes/Images/Figure3_small.jpg |only pannotator-1.1.0/pannotator/vignettes/Images/Figure4_small.jpg |only pannotator-1.1.0/pannotator/vignettes/Images/Figure5_small.jpg |only pannotator-1.1.0/pannotator/vignettes/Images/Figure6_small.jpg |only pannotator-1.1.0/pannotator/vignettes/Images/Figure7_small.jpg |only pannotator-1.1.0/pannotator/vignettes/Images/Figure8_small.jpg |only pannotator-1.1.0/pannotator/vignettes/Images/Figure9_small.jpg |only pannotator-1.1.0/pannotator/vignettes/pannotator.Rmd | 407 +- 64 files changed, 3746 insertions(+), 3228 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 0.3.1 dated 2026-04-27 and 0.3.2 dated 2026-05-25
MetaNet-0.3.1/MetaNet/man/figures/MetaNet_GA.jpg |only MetaNet-0.3.2/MetaNet/DESCRIPTION | 6 MetaNet-0.3.2/MetaNet/MD5 | 10 MetaNet-0.3.2/MetaNet/R/MetaNet-package.R | 2 MetaNet-0.3.2/MetaNet/README.md | 403 +++++++++++--------- MetaNet-0.3.2/MetaNet/inst/doc/MetaNet.html | 4 MetaNet-0.3.2/MetaNet/man/figures/MetaNet_GA_v2.png |only 7 files changed, 240 insertions(+), 185 deletions(-)
Title: Pathwise Estimation of Covariate Balancing Propensity Scores
Description: Provides pathwise estimation of regularized logistic propensity
score models using covariate balancing loss functions rather than maximum
likelihood. Regularization paths are fit via the 'adelie' elastic-net
solver with a 'glmnet'-like interface, yielding balancing weights that target
covariate balance for the ATE and ATT. Under lasso penalization, lambda
bounds the maximum covariate imbalance, so the regularization path traces a
sequence of decreasing imbalance tolerances. For details, see Sverdrup &
Hastie (2026) <doi:10.48550/arXiv.2602.18577>.
Author: Erik Sverdrup [aut, cre],
Trevor Hastie [aut],
James Yang [ctb]
Maintainer: Erik Sverdrup <erik.sverdrup@monash.edu>
Diff between balnet versions 0.0.2 dated 2026-05-04 and 0.0.3 dated 2026-05-25
DESCRIPTION | 17 ++-- MD5 | 20 ++-- NAMESPACE | 6 + R/balnet.R | 106 ++++++++++++++++++++++---- R/cv.balnet.R | 13 +++ inst/include/adelie_ext/solver_cbps_naive.hpp | 2 man/balnet.Rd | 6 - man/balweights.Rd | 20 +++- man/coef.balnet.Rd | 13 ++- man/predict.balnet.Rd | 4 man/summary.balnet.Rd |only man/summary.cv.balnet.Rd |only 12 files changed, 163 insertions(+), 44 deletions(-)
Title: Geographical Risk Analysis Based on Habitat Connectivity
Description: The 'geohabnet' package is designed to perform a geographically or spatially explicit risk analysis of habitat connectivity. Xing et al (2021) <doi:10.1093/biosci/biaa067> proposed the concept of cropland connectivity as a risk factor for plant pathogen or pest invasions. As the functions in 'geohabnet' were initially developed thinking on cropland connectivity, users are recommended to first be familiar with the concept by looking at the Xing et al paper. In a nutshell, a habitat connectivity analysis combines information from maps of host density, estimates the relative likelihood of pathogen movement between habitat locations in the area of interest, and applies network analysis to calculate the connectivity of habitat locations.
The functions of 'geohabnet' are built to conduct a habitat connectivity analysis relying on geographic parameters (spatial resolution and spatial extent), dispersal parameters (in two commonly used dispersal kernels: inverse power law and negative ex [...truncated...]
Author: Krishna Keshav [aut, cre],
Aaron Plex [aut] ,
Garrett Lab [ctb] ,
Karen Garrett [aut] ,
University of Florida [cph, fnd]
Maintainer: Krishna Keshav <krishnakeshav.pes@gmail.com>
Diff between geohabnet versions 2.2 dated 2025-05-21 and 2.3 dated 2026-05-25
DESCRIPTION | 8 +- MD5 | 50 +++++++------ NAMESPACE | 1 R/connectivity.R | 40 +++++------ R/geo_network.R | 40 +++++------ R/geo_rasters.R | 20 ++--- R/gplot.R | 6 - R/maps.R | 62 ++++++++++------- R/riskmap.R | 68 ++++++++++++++---- R/sean.R | 134 +++++++++++++++++++++---------------- README.md | 14 +-- inst/defaultParams.yaml | 4 - inst/extdata |only inst/parameters.yaml | 4 - man/GeoNetwork-class.Rd | 16 ++-- man/GeoRasters-class.Rd | 2 man/Gmap-class.Rd | 14 +-- man/RiskMap-class.Rd | 16 ---- man/dot-indices.Rd | 6 - man/habitat_density-set.Rd | 2 man/hci_diff.Rd | 4 - man/hci_mean.Rd | 8 +- man/hci_variance.Rd | 5 + man/sa_onrasters.Rd | 17 +++- man/sean.Rd | 79 +++++++++++++-------- tests/testthat/params.yaml | 6 - tests/testthat/test-mseanExample.R |only 27 files changed, 355 insertions(+), 271 deletions(-)
Title: Bayesian Estimation of the Temporal and Spatio-Temporal ETAS
Models for Earthquake Occurrences
Description: The Epidemic Type Aftershock Sequence (ETAS) model is widely
used for modelling and forecasting earthquake occurrences. This package
implements Bayesian estimation routines for both the temporal and spatial ETAS
model, allowing samples to be drawn from the full posterior distribution
of the model parameters given an earthquake catalogue. The methods are
described in Ross (2021) "Bayesian Estimation of the ETAS Model for
Earthquake Occurrences" <doi:10.1785/0120200198>.
Author: Gordon J. Ross [aut, cre]
Maintainer: Gordon J. Ross <gordon@gordonjross.co.uk>
Diff between bayesianETAS versions 2.0.0 dated 2026-05-21 and 2.0.1 dated 2026-05-25
DESCRIPTION | 6 +++--- MD5 | 7 ++++--- src/etas.cpp | 28 +++++++++++++++++++--------- src/etas.h |only src/init.c | 25 +++++++++---------------- 5 files changed, 35 insertions(+), 31 deletions(-)
Title: Frequency Distribution Tables, Histograms and Polygons
Description: Perform frequency distribution tables, associated histograms
and polygons from vector, data.frame and matrix objects for
numerical and categorical variables.
Author: J. C. Faria [aut, cre],
I. B. Allaman [aut],
E. G. Jelihovschi [aut]
Maintainer: J. C. Faria <joseclaudio.faria@gmail.com>
Diff between fdth versions 1.3-4 dated 2026-05-11 and 1.5-0 dated 2026-05-25
DESCRIPTION | 27 +- MD5 | 127 +++++---- NAMESPACE | 44 ++- NEWS.md | 76 +++++ R/fdt-utils.R |only R/fdt.data.frame.R | 24 - R/fdt.default.R | 34 +- R/fdt.matrix.R | 16 - R/fdt_cat.data.frame.R | 8 R/fdt_cat.default.R | 8 R/fdt_cat.matrix.R | 10 R/make.fdt.R | 26 - R/make.fdt.format.classes.R | 17 - R/make.fdt.multiple.R | 35 +- R/make.fdt.simple.R | 24 - R/make.fdt_cat.R | 20 - R/make.fdt_cat.multiple.R | 8 R/make.fdt_cat.simple.R | 2 R/median.fdt.R | 6 R/mfv.fdt_cat.R | 5 R/mfv.fdt_cat.multiple.R | 36 +- R/plot.fdt.default.R | 408 ++++++++++++++----------------- R/plot.fdt.multiple.R | 363 ++++++++++++++------------- R/plot.fdt_cat.default.R | 252 +++++++++---------- R/plot.fdt_cat.multiple.R | 85 +++--- R/print.fdt.default.R | 49 +-- R/print.fdt.multiple.R | 20 - R/print.fdt_cat.default.R | 30 -- R/print.fdt_cat.multiple.R | 16 - R/quantile.fdt.R | 38 +- R/sd.fdt.R | 17 - R/summary.fdt.default.R | 51 +-- R/summary.fdt.multiple.R | 20 - R/summary.fdt_cat.default.R | 33 -- R/summary.fdt_cat.multiple.R | 18 - R/xtable.fdt.R | 34 +- R/xtable.fdt.multiple.R | 34 +- R/xtable.fdt_cat.multiple.R | 22 - README.md | 5 build/vignette.rds |binary inst/doc/fdth_intro.R |only inst/doc/fdth_intro.Rmd |only inst/doc/fdth_intro.html |only inst/doc/latex_fdt.R | 30 -- inst/doc/latex_fdt.Rnw | 30 -- inst/doc/latex_fdt.pdf |binary man/fdt.Rd | 117 ++++---- man/fdt_cat.Rd | 64 ++-- man/fdth-package.Rd | 288 ++++++++++++--------- man/make.fdt.Rd | 24 - man/mean.fdt.Rd | 18 - man/median.fdt.Rd | 18 - man/mfv.Rd | 34 +- man/plot.Rd | 373 ++++++++++++++-------------- man/print.Rd | 170 ++++++------ man/quantile.fdt.Rd | 108 ++++---- man/sd.Rd | 18 - man/summary.Rd | 170 ++++++------ man/var.Rd | 18 - man/xtable.fdt.Rd | 42 +-- tests/testthat/test-fdt-cat.R |only tests/testthat/test-fdt-data-frame.R |only tests/testthat/test-mean-median-var-sd.R |only tests/testthat/test-quantile-mfv.R | 20 - tests/testthat/test-summary-pattern.R | 5 vignettes/fdth_intro.Rmd |only vignettes/latex_fdt-concordance.tex |only vignettes/latex_fdt.Rnw | 30 -- vignettes/latex_fdt.fdb_latexmk |only vignettes/latex_fdt.fls |only 70 files changed, 1856 insertions(+), 1769 deletions(-)
Title: Spy on Your R Session
Description: Conveniently log everything you type into the R console. Logs are
are stored as tidy data frames which can then be analyzed using 'tidyverse'
style tools.
Author: Sean Kross [aut, cre] ,
Lucy D'Agostino McGowan [aut] ,
Jeff Leek [ldr]
Maintainer: Sean Kross <sean@seankross.com>
Diff between matahari versions 0.1.3 dated 2020-02-06 and 0.1.4 dated 2026-05-25
DESCRIPTION | 19 + MD5 | 22 +- NEWS.md | 6 R/dance.R | 2 README.md | 2 build/vignette.rds |binary inst/doc/matahari.R | 78 ++++---- inst/doc/matahari.Rmd | 31 ++- inst/doc/matahari.html | 351 +++++++++++++++++++++--------------- man/dance_recital.Rd | 2 tests/testthat/test_dance_recital.R | 26 +- vignettes/matahari.Rmd | 31 ++- 12 files changed, 348 insertions(+), 222 deletions(-)
Title: Ab Initio Uncertainty Quantification
Description: Uncertainty quantification and inverse estimation by probabilistic generative models from the beginning of the data analysis. An example is a Fourier basis method for inverse estimation in scattering analysis of microscopy videos. It does not require specifying a certain range of Fourier bases and it substantially reduces computational cost via the generalized Schur algorithm. See the reference: Mengyang Gu, Yue He, Xubo Liu and Yimin Luo (2023), <doi:10.48550/arXiv.2309.02468>.
Author: Yue He [aut],
Xubo Liu [aut],
Tong Lin [aut],
Mengyang Gu [aut, cre]
Maintainer: Mengyang Gu <mengyang@pstat.ucsb.edu>
Diff between AIUQ versions 0.5.3 dated 2024-07-02 and 0.5.4 dated 2026-05-25
CHANGELOG | 4 DESCRIPTION | 14 MD5 | 94 ++-- NAMESPACE | 1 R/SAM.R | 126 ++++- R/SAM_model_free_workflow.R |only R/aniso_SAM.R | 12 R/functions.R | 163 ++++--- R/functions_model_free.R |only R/structure.R | 93 ++-- build/partial.rdb |binary build/vignette.rds |binary inst/doc/AIUQ.R | 46 ++ inst/doc/AIUQ.Rmd | 63 ++ inst/doc/AIUQ.html | 362 +++++++++-------- inst/extdata |only man/AIUQ-package.Rd | 3 man/Get_Gp_Gpp_GSER.Rd |only man/SAM-class.Rd | 20 man/SAM.Rd | 138 +++++- man/SAM_Dqt.Rd | 4 man/aniso_SAM-class.Rd | 10 man/aniso_SAM.Rd | 12 man/aniso_simulation-class.Rd | 10 man/anisotropic_bm_particle_intensity.Rd | 2 man/anisotropic_fbm_ou_particle_intensity.Rd | 2 man/anisotropic_fbm_particle_intensity.Rd | 2 man/anisotropic_numerical_msd.Rd | 2 man/anisotropic_ou_particle_intensity.Rd | 2 man/bm_particle_intensity.Rd | 2 man/fbm_ou_particle_intensity.Rd | 2 man/fbm_particle_intensity.Rd | 2 man/fill_intensity.Rd | 10 man/get_MSD.Rd | 12 man/get_MSD_with_grad.Rd | 12 man/get_dqt.Rd | 2 man/get_est_parameters_MSD_SAM_interval.Rd | 12 man/get_est_parameters_MSD_SAM_interval_anisotropic.Rd | 12 man/get_isf.Rd | 2 man/l2_estAB.Rd | 4 man/l2_fixedAB.Rd | 4 man/numerical_msd.Rd | 2 man/ou_particle_intensity.Rd | 2 man/param_uncertainty.Rd | 12 man/param_uncertainty_anisotropic.Rd | 8 man/plot_intensity.Rd | 10 man/simulation-class.Rd | 10 man/theta_est_l2_dqt_estAB.Rd | 4 man/theta_est_l2_dqt_fixedAB.Rd | 4 vignettes/AIUQ.Rmd | 63 ++ 50 files changed, 899 insertions(+), 477 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 0.5.0 dated 2026-02-09 and 0.5.1 dated 2026-05-25
DESCRIPTION | 8 ++-- MD5 | 58 +++++++++++++++++------------------ NEWS.md | 8 ++++ R/font-caching.R | 32 +++++++++++++------ R/font_set.R | 4 +- R/liberation.R | 12 +++---- README.md | 36 +++++++++++++++++++++ configure | 2 - man/addGFontHtmlDependency.Rd | 24 +++++++------- man/font_google.Rd | 10 +++--- man/font_liberation.Rd | 10 +++--- man/font_set.Rd | 10 +++--- man/font_set_auto.Rd | 10 +++--- man/font_set_liberation.Rd | 10 +++--- man/fonts_cache_dir.Rd | 24 +++++++------- man/gfontHtmlDependency.Rd | 24 +++++++------- man/install_gfont_script.Rd | 24 +++++++------- man/installed_gfonts.Rd | 24 +++++++------- man/liberationmonoHtmlDependency.Rd | 24 +++++++------- man/liberationsansHtmlDependency.Rd | 24 +++++++------- man/liberationserifHtmlDependency.Rd | 24 +++++++------- man/m_str_extents.Rd | 6 +-- man/register_gfont.Rd | 24 +++++++------- man/register_liberationmono.Rd | 24 +++++++------- man/register_liberationsans.Rd | 24 +++++++------- man/register_liberationserif.Rd | 24 +++++++------- man/str_metrics.Rd | 6 +-- man/strings_sizes.Rd | 6 +-- tests/testthat/test-fonts.R | 2 - tests/testthat/test-utils.R | 11 ++++++ 30 files changed, 298 insertions(+), 231 deletions(-)
Title: Biplot Analysis for Multivariate Data Using Principal Components
Description: Provides tools for creating 2D and 3D biplots of multivariate data
based on principal components analysis, together with diagnostics for
reduction quality and enhanced visualization of variables and objects.
Author: Jose C. Faria [aut, cre],
Ivan B. Allaman [aut],
Clarice G. B. Demetrio [aut]
Maintainer: Jose C. Faria <joseclaudio.faria@gmail.com>
Diff between bpca versions 1.4-3 dated 2026-05-11 and 1.5-0 dated 2026-05-25
DESCRIPTION | 11 MD5 | 84 ++-- NAMESPACE | 2 NEWS.md | 26 + R/bpca-utils.R |only R/bpca.R | 5 R/bpca.default.R | 252 ++++++------- R/bpca.prcomp.R | 38 +- R/dt.tools.R | 86 ++-- R/plot.bpca.2d.R | 754 ++++++++-------------------------------- R/plot.bpca.2d.helpers.R |only R/plot.bpca.2d.types.R |only R/plot.bpca.3d.R | 451 +++++++++++++---------- R/plot.qbpca.R | 190 +++++----- R/print.xtable.bpca.R | 281 ++++++++------ R/qbpca.R | 32 + R/summary.bpca.R | 97 +++-- R/var.rbf.R | 35 - R/var.rdf.R | 68 ++- R/xtable.bpca.R | 66 ++- demo/bpca-dinamic-3d.R | 45 +- demo/bpca-static-2d.R | 29 - demo/bpca-static-3d.R | 43 +- demo/bpca.R | 469 +++++++++++++++--------- demo/dt-tools.R | 15 demo/gge-check.R | 28 - demo/iris-var-rd.R | 90 +++- demo/iris.R | 82 ++-- demo/rock-var-rd.R | 45 +- demo/var-rb-2d.R | 67 ++- demo/var-rb-3d.R | 75 ++- demo/var-rd-2d.R | 81 ++-- inst/doc/bpca-overview.Rmd | 76 ++-- inst/doc/bpca-overview.html | 242 ++++++------ inst/doc/latex-bpca.Rnw | 4 inst/doc/latex-bpca.pdf |binary man/bpca-package.Rd | 25 + man/bpca.Rd | 25 + man/plot.Rd | 67 ++- man/summary.bpca.Rd | 36 + man/var.rdf.Rd | 16 tests/bpca-Ex.R |only tests/testthat/test-bpca-core.R | 402 ++++++++++++++++++++- vignettes/bpca-overview.Rmd | 76 ++-- vignettes/latex-bpca.Rnw | 4 45 files changed, 2537 insertions(+), 1983 deletions(-)
Title: Community Ecology Package
Description: Ordination methods, diversity analysis and other
functions for community and vegetation ecologists.
Author: Jari Oksanen [aut, cre] ,
Gavin L. Simpson [aut] ,
F. Guillaume Blanchet [aut],
Roeland Kindt [aut],
Pierre Legendre [aut],
Peter R. Minchin [aut],
R.B. O'Hara [aut],
Peter Solymos [aut],
M. Henry H. Stevens [aut],
Eduard Szoecs [aut],
Helene Wagner [...truncated...]
Maintainer: Jari Oksanen <jhoksane@gmail.com>
Diff between vegan versions 2.7-3 dated 2026-03-04 and 2.7-5 dated 2026-05-25
vegan-2.7-3/vegan/R/zzz.R |only vegan-2.7-5/vegan/DESCRIPTION | 49 ++++---- vegan-2.7-5/vegan/MD5 | 127 ++++++++++------------ vegan-2.7-5/vegan/NEWS.md | 59 ++++++++++ vegan-2.7-5/vegan/R/add1.cca.R | 7 - vegan-2.7-5/vegan/R/anosim.R | 3 vegan-2.7-5/vegan/R/cascadeKM.R | 12 +- vegan-2.7-5/vegan/R/estaccumR.R | 5 vegan-2.7-5/vegan/R/mantel.R | 4 vegan-2.7-5/vegan/R/mantel.partial.R | 4 vegan-2.7-5/vegan/R/metaMDSiter.R | 4 vegan-2.7-5/vegan/R/mrpp.R | 3 vegan-2.7-5/vegan/R/oecosimu.R | 3 vegan-2.7-5/vegan/R/ordiArrowTextXY.R | 2 vegan-2.7-5/vegan/R/ordiR2step.R | 14 +- vegan-2.7-5/vegan/R/ordiareatest.R | 3 vegan-2.7-5/vegan/R/ordiellipse.R | 19 +-- vegan-2.7-5/vegan/R/ordihull.R | 20 +-- vegan-2.7-5/vegan/R/ordipointlabel.R | 8 - vegan-2.7-5/vegan/R/ordistep.R | 6 - vegan-2.7-5/vegan/R/permutest.betadisper.R | 5 vegan-2.7-5/vegan/R/permutest.cca.R | 3 vegan-2.7-5/vegan/R/plot.cascadeKM.R | 46 +++---- vegan-2.7-5/vegan/R/plot.cca.R | 2 vegan-2.7-5/vegan/R/plot.envfit.R | 3 vegan-2.7-5/vegan/R/plot.renyi.R | 1 vegan-2.7-5/vegan/R/plot.renyiaccum.R | 2 vegan-2.7-5/vegan/R/print.wcmdscale.R | 12 +- vegan-2.7-5/vegan/R/scores.cca.R | 6 - vegan-2.7-5/vegan/R/scores.decorana.R | 6 - vegan-2.7-5/vegan/R/scores.default.R | 7 - vegan-2.7-5/vegan/R/scores.envfit.R | 24 +++- vegan-2.7-5/vegan/R/scores.metaMDS.R | 7 - vegan-2.7-5/vegan/R/scores.rda.R | 5 vegan-2.7-5/vegan/R/text.ordiplot.R | 13 +- vegan-2.7-5/vegan/build/partial.rdb |binary vegan-2.7-5/vegan/build/vignette.rds |binary vegan-2.7-5/vegan/inst/doc/FAQ-vegan.Rmd | 26 ++++ vegan-2.7-5/vegan/inst/doc/FAQ-vegan.html | 22 +++ vegan-2.7-5/vegan/inst/doc/decision-vegan.R | 2 vegan-2.7-5/vegan/inst/doc/decision-vegan.pdf |binary vegan-2.7-5/vegan/inst/doc/diversity-vegan.R | 67 +++++------ vegan-2.7-5/vegan/inst/doc/diversity-vegan.Rnw | 16 -- vegan-2.7-5/vegan/inst/doc/diversity-vegan.pdf |binary vegan-2.7-5/vegan/inst/doc/intro-vegan.R | 2 vegan-2.7-5/vegan/inst/doc/intro-vegan.pdf |binary vegan-2.7-5/vegan/inst/doc/partitioning.R | 2 vegan-2.7-5/vegan/inst/doc/partitioning.pdf |binary vegan-2.7-5/vegan/man/biplot.rda.Rd | 6 - vegan-2.7-5/vegan/man/decorana.Rd | 4 vegan-2.7-5/vegan/man/envfit.Rd | 8 - vegan-2.7-5/vegan/man/metaMDS.Rd | 11 + vegan-2.7-5/vegan/man/monoMDS.Rd | 9 - vegan-2.7-5/vegan/man/ordiArrowTextXY.Rd | 9 - vegan-2.7-5/vegan/man/ordihull.Rd | 2 vegan-2.7-5/vegan/man/ordipointlabel.Rd | 7 - vegan-2.7-5/vegan/man/plot.cca.Rd | 11 + vegan-2.7-5/vegan/man/radfit.Rd | 4 vegan-2.7-5/vegan/man/renyi.Rd | 10 + vegan-2.7-5/vegan/man/scores.Rd | 4 vegan-2.7-5/vegan/man/specpool.Rd | 2 vegan-2.7-5/vegan/man/vegan-deprecated-lattice.Rd | 6 - vegan-2.7-5/vegan/man/wcmdscale.Rd | 5 vegan-2.7-5/vegan/vignettes/FAQ-vegan.Rmd | 26 ++++ vegan-2.7-5/vegan/vignettes/diversity-vegan.Rnw | 16 -- 65 files changed, 451 insertions(+), 320 deletions(-)
Title: A More Scalable Alternative to Venn and Euler Diagrams for
Visualizing Intersecting Sets
Description: Creates visualizations of intersecting sets using a novel matrix
design, along with visualizations of several common set, element and attribute
related tasks (Conway 2017) <doi:10.1093/bioinformatics/btx364>.
Author: Jake Conway [aut],
Nils Gehlenborg [aut, cre]
Maintainer: Nils Gehlenborg <nils@hms.harvard.edu>
Diff between UpSetR versions 1.4.0 dated 2019-05-22 and 1.4.1 dated 2026-05-25
DESCRIPTION | 25 - MD5 | 28 - R/MainBar.R | 17 - R/upset.R | 22 - README.md | 6 build/vignette.rds |binary inst/doc/attribute.plots.R | 14 inst/doc/attribute.plots.html | 529 +++++++++++++++++++++++++++-------- inst/doc/basic.usage.R | 22 - inst/doc/basic.usage.html | 477 +++++++++++++++++++++++++------- inst/doc/queries.R | 16 - inst/doc/queries.html | 472 ++++++++++++++++++++++++-------- inst/doc/set.metadata.plots.R | 28 - inst/doc/set.metadata.plots.html | 574 +++++++++++++++++++++++++++++---------- man/upset.Rd | 77 +++-- 15 files changed, 1720 insertions(+), 587 deletions(-)
Title: Detection and Localization of Executable Files
Description: A set of functions to locate some programs available on the
user machine. It can locate 'Node.js', 'npm', 'LibreOffice',
'Microsoft Word', 'Microsoft PowerPoint', 'Microsoft Excel', 'Python',
'pip', 'Mozilla Firefox', 'Google Chrome', 'Air' and 'Pandoc'. The
user can test the availability of a program, optionally with a
required version, and call it with the functions system2() or
system(). This allows the use of a single function to retrieve the
path to a program regardless of the operating system and its
configuration.
Author: David Gohel [aut, cre],
ArData [cph]
Maintainer: David Gohel <david.gohel@ardata.fr>
Diff between locatexec versions 0.1.1 dated 2021-05-19 and 0.2.0 dated 2026-05-25
DESCRIPTION | 41 ++-- MD5 | 66 +++--- NAMESPACE | 4 NEWS.md | 10 + R/absolute_path.R | 7 R/detect_os.R | 7 R/exec_available.R | 12 + R/exec_locate.R | 476 ++++++++++++++++++++++++++++++++++-------------- R/exec_paths.R | 30 +++ R/exec_version.R | 7 R/read_version.R | 32 ++- R/utils.R | 179 +++++++++++++----- README.md | 61 +++--- man/air_exec.Rd |only man/chrome_exec.Rd | 22 +- man/excel_exec.Rd | 22 +- man/exec_available.Rd | 8 man/exec_locate.Rd | 7 man/exec_version.Rd | 6 man/firefox_exec.Rd | 22 +- man/is_osx.Rd | 6 man/is_unix.Rd | 6 man/is_windows.Rd | 6 man/libreoffice_exec.Rd | 22 +- man/node_exec.Rd | 22 +- man/npm_exec.Rd | 22 +- man/pandoc_exec.Rd |only man/pip_exec.Rd | 22 +- man/powerpoint_exec.Rd | 22 +- man/python_exec.Rd | 22 +- man/word_exec.Rd | 22 +- tests |only 32 files changed, 811 insertions(+), 380 deletions(-)
Title: Immune Oncology Biological Research
Description: Provides six modules for tumor microenvironment (TME)
analysis based on multi-omics data. These modules cover data
preprocessing, TME estimation, TME infiltrating patterns, cellular
interactions, genome and TME interaction, and visualization for TME
relevant features, as well as modelling based on key features. It
integrates multiple microenvironmental analysis algorithms and
signature estimation methods, simplifying the analysis and downstream
visualization of the TME. In addition to providing a quick and easy
way to construct gene signatures from single-cell RNA-seq data, it
also provides a way to construct a reference matrix for TME
deconvolution from single-cell RNA-seq data. The analysis pipeline and
feature visualization are user-friendly and provide a comprehensive
description of the complex TME, offering insights into tumour-immune
interactions (Zeng D, et al. (2024)
<doi:10.1016/j.crmeth.2024.100910>. Fang Y, et al. (2025)
<doi:10.1002/mdr2.70001>).
Author: Dongqiang Zeng [aut],
Yiran Fang [aut],
Shixiang Wang [aut, cre] ,
Qingcong Luo [aut],
Hongqian Qian [aut]
Maintainer: Shixiang Wang <w_shixiang@163.com>
Diff between IOBR versions 2.2.1 dated 2026-05-15 and 2.2.2 dated 2026-05-25
DESCRIPTION | 25 +++++++++++++------------ MD5 | 16 ++++++++-------- NEWS.md | 11 +++++++++++ R/download_data.R | 36 ++++++++++++++++++++++++++++-------- R/eset_distribution.R | 11 +++++++---- README.md | 11 ++++++++--- inst/doc/IOBR-user-manual.html | 4 ++-- man/add_iobr_mirror.Rd | 4 +++- man/eset_distribution.Rd | 11 +++++++---- 9 files changed, 87 insertions(+), 42 deletions(-)
Title: Mixture and Hidden Markov Models with R: Datasets and Example
Code
Description: Datasets and code examples that accompany our book Visser & Speekenbrink (2021), "Mixture and Hidden Markov Models with R", <https://depmix.github.io/hmmr/>.
Author: Ingmar Visser [aut, cre],
Maarten Speekenbrink [aut]
Maintainer: Ingmar Visser <i.visser@uva.nl>
Diff between hmmr versions 1.0-0.1 dated 2025-03-08 and 1.0-1 dated 2026-05-25
DESCRIPTION | 14 ++++----- MD5 | 56 +++++++++++++++++++-------------------- NAMESPACE | 2 + NEWS | 5 +++ data/IGT.rda |binary data/MAR_simulation_results.rda |binary data/MNAR_simulation_results.rda |binary data/SEsamples.rda |binary data/WPT.rda |binary data/balance8.rda |binary data/balance8pars.rda |binary data/confint.rda |binary data/conservation.rda |binary data/dccs.rda |binary data/dccs_boot_LR.rda |binary data/dccslong.rda |binary data/disc42.rda |binary data/discrimination.rda |binary data/perth.rda |binary data/simplehmm.rda |binary data/speed1.rda |binary data/speed_boot_LR.rda |binary data/speed_boot_LR_extra.rda |binary data/speed_boot_par.rda |binary inst/CITATION | 20 ++++++------- man/MAR_simulation_results.Rd | 4 +- man/MNAR_simulation_results.Rd | 4 +- man/speed_boot_LR.Rd | 6 ++-- man/speed_boot_LR_extra.Rd | 6 ++-- 29 files changed, 62 insertions(+), 55 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 1.8.0 dated 2026-05-19 and 1.8.1 dated 2026-05-25
DESCRIPTION | 12 +- MD5 | 37 ++++----- NAMESPACE | 3 NEWS.md | 1 R/acs.R | 17 +--- R/census.R | 20 ++-- R/estimates.R | 41 +++++++--- R/helpers.R | 162 +++++++++++++++++++--------------------- R/load_data.R | 59 +++++++++----- R/search_variables.R | 74 ++---------------- R/tidycensus-package.R | 5 - R/validate_call.R | 4 man/census_api_key.Rd | 2 man/get_acs.Rd | 11 -- man/get_decennial.Rd | 13 +-- man/get_estimates.Rd | 5 - man/load_variables.Rd | 6 - tests/testthat/test-api-key.R | 132 +++++++++++++++++++++----------- tests/testthat/test-estimates.R |only tests/testthat/test-helpers.R | 21 ++++- 20 files changed, 330 insertions(+), 295 deletions(-)
Title: Efficient and Precise Single-Cell Reference Atlas Mapping
Description: Implements the Symphony single-cell reference building and query mapping algorithms and additional functions described in Kang et al <https://www.nature.com/articles/s41467-021-25957-x>.
Author: Joyce Kang [aut, cre] ,
Ilya Korsunsky [aut] ,
Soumya Raychaudhuri [aut]
Maintainer: Joyce Kang <joyce.b.kang@gmail.com>
Diff between symphony versions 0.1.2 dated 2025-10-30 and 0.1.3 dated 2026-05-25
DESCRIPTION | 10 - MD5 | 20 +- NEWS.md | 3 R/buildReference.R | 15 - R/buildReferenceFromHarmonyObj.R | 12 - build/vignette.rds |binary inst/doc/quickstart_tutorial.R | 9 - inst/doc/quickstart_tutorial.Rmd | 9 - inst/doc/quickstart_tutorial.html | 322 +++++++++++++++++++------------------- man/symphony-package.Rd | 2 vignettes/quickstart_tutorial.Rmd | 9 - 11 files changed, 209 insertions(+), 202 deletions(-)
Title: Read, Write and Edit 'xlsx' Files
Description: Simplifies the creation of 'xlsx' files by
providing a high level interface to writing, styling and editing
worksheets.
Author: Jordan Mark Barbone [aut] ,
Jan Marvin Garbuszus [aut, cre],
Olivier Roy [ctb],
openxlsx authors [cph] ,
Arseny Kapoulkine [ctb, cph]
Maintainer: Jan Marvin Garbuszus <jan.garbuszus@ruhr-uni-bochum.de>
Diff between openxlsx2 versions 1.26 dated 2026-04-17 and 1.27 dated 2026-05-25
DESCRIPTION | 12 MD5 | 158 NEWS.md | 14 R/RcppExports.R | 12 R/asserts.R | 26 R/class-workbook-wrappers.R | 2 R/class-workbook.R | 262 - R/class-worksheet.R | 3 R/helper-functions.R | 4 R/utils.R | 11 R/wb_load.R | 56 R/write.R | 38 build/vignette.rds |binary inst/doc/conditional-formatting.html | 104 inst/doc/openxlsx2_charts_manual.R | 99 inst/doc/openxlsx2_charts_manual.Rmd | 117 inst/doc/openxlsx2_charts_manual.html | 182 inst/doc/openxlsx2_style_manual.html | 8 man/base_font-wb.Rd | 38 man/col_widths-wb.Rd | 54 man/create_border.Rd | 16 man/create_cell_style.Rd | 16 man/create_colors_xml.Rd | 16 man/create_dxfs_style.Rd | 16 man/create_fill.Rd | 16 man/create_font.Rd | 16 man/create_numfmt.Rd | 16 man/create_tablestyle.Rd | 16 man/creators-wb.Rd | 32 man/filter-wb.Rd | 22 man/grouping-wb.Rd | 76 man/named_region-wb.Rd | 22 man/openxlsx2-package.Rd | 1 man/row_heights-wb.Rd | 54 man/wbWorkbook.Rd | 5398 ++++++++++++-------------- man/wb_add_border.Rd | 12 man/wb_add_cell_style.Rd | 12 man/wb_add_chartsheet.Rd | 30 man/wb_add_conditional_formatting.Rd | 20 man/wb_add_data.Rd | 50 man/wb_add_data_table.Rd | 50 man/wb_add_dxfs_style.Rd | 4 man/wb_add_fill.Rd | 12 man/wb_add_font.Rd | 12 man/wb_add_formula.Rd | 50 man/wb_add_hyperlink.Rd | 50 man/wb_add_named_style.Rd | 12 man/wb_add_numfmt.Rd | 12 man/wb_add_pivot_table.Rd | 52 man/wb_add_plot.Rd | 2 man/wb_add_slicer.Rd | 52 man/wb_add_style.Rd | 4 man/wb_add_thread.Rd | 20 man/wb_add_worksheet.Rd | 30 man/wb_base_colors.Rd | 38 man/wb_cell_style.Rd | 14 man/wb_clone_worksheet.Rd | 30 man/wb_copy_cells.Rd | 32 man/wb_freeze_pane.Rd | 50 man/wb_merge_cells.Rd | 50 man/wb_save.Rd | 30 man/wb_set_last_modified_by.Rd | 30 man/wb_workbook.Rd | 30 man/write_xlsx.Rd | 2 src/RcppExports.cpp | 33 src/date.cpp | 2 src/helper_functions.cpp | 138 src/load_workbook.cpp | 134 src/openxlsx2.h | 17 src/openxlsx2_types.h | 31 src/write_file.cpp | 14 tests/testthat/test-class-workbook-wrappers.R | 22 tests/testthat/test-class-workbook.R | 133 tests/testthat/test-date_time_conversion.R | 1 tests/testthat/test-formulas.R | 4 tests/testthat/test-save.R | 1 tests/testthat/test-utils.R | 7 tests/testthat/test-wb_functions.R | 4 tests/testthat/test-write.R | 8 vignettes/openxlsx2_charts_manual.Rmd | 117 80 files changed, 4221 insertions(+), 4170 deletions(-)
Title: General utilities, workspace organization, code and doc editing,
live package maintenance, etc
Description: Hierarchical workspace tree, code editing and backup, easy package prep, editing of packages while loaded, per-object lazy-loading, easy documentation, macro functions, and miscellaneous utilities. Needed by various packages including debug, offarray, and kinference.
Author: Mark V. Bravington [aut, cre]
Maintainer: Mark V. Bravington <markb2@summerinsouth.net>
Diff between mvbutils versions 2.8.232 dated 2018-12-12 and 2.12.120 dated 2026-05-25
mvbutils-2.12.120/mvbutils/.Rinstignore |only mvbutils-2.12.120/mvbutils/DESCRIPTION | 25 mvbutils-2.12.120/mvbutils/INDEX | 148 mvbutils-2.12.120/mvbutils/MD5 | 119 mvbutils-2.12.120/mvbutils/NAMESPACE | 74 mvbutils-2.12.120/mvbutils/NEWS |only mvbutils-2.12.120/mvbutils/R/mvbutils.R |13130 ++++++++-- mvbutils-2.12.120/mvbutils/R/sysdata.rda |binary mvbutils-2.12.120/mvbutils/inst/demostuff/original.dochelp.rrr | 1 mvbutils-2.12.120/mvbutils/inst/demostuff/sample.fun.rrr | 13 mvbutils-2.12.120/mvbutils/man/00mvbutils-package.Rd | 19 mvbutils-2.12.120/mvbutils/man/A2D.Rd |only mvbutils-2.12.120/mvbutils/man/Clink_packages.Rd |only mvbutils-2.12.120/mvbutils/man/D2A.Rd |only mvbutils-2.12.120/mvbutils/man/DYN.UNLOAD.Rd |only mvbutils-2.12.120/mvbutils/man/RENEWS.Rd |only mvbutils-2.12.120/mvbutils/man/REPORTO.Rd |only mvbutils-2.12.120/mvbutils/man/Save.Rd | 8 mvbutils-2.12.120/mvbutils/man/add.flatdoc.to.Rd | 5 mvbutils-2.12.120/mvbutils/man/autodate.Rd |only mvbutils-2.12.120/mvbutils/man/bugfix_Rd2roxygen.Rd |only mvbutils-2.12.120/mvbutils/man/cdfind.Rd | 2 mvbutils-2.12.120/mvbutils/man/compare_spacks.Rd |only mvbutils-2.12.120/mvbutils/man/dedoc_namespace.Rd |only mvbutils-2.12.120/mvbutils/man/do.in.envir.Rd | 12 mvbutils-2.12.120/mvbutils/man/doc2Rd.Rd | 21 mvbutils-2.12.120/mvbutils/man/docattr.Rd |only mvbutils-2.12.120/mvbutils/man/dont.lock.me.Rd | 12 mvbutils-2.12.120/mvbutils/man/dont.lockBindings.Rd | 14 mvbutils-2.12.120/mvbutils/man/find.documented.Rd | 3 mvbutils-2.12.120/mvbutils/man/fix.order.Rd | 16 mvbutils-2.12.120/mvbutils/man/fixr.Rd | 37 mvbutils-2.12.120/mvbutils/man/foodweb.Rd | 40 mvbutils-2.12.120/mvbutils/man/generic.dll.loader.Rd | 29 mvbutils-2.12.120/mvbutils/man/get.backup.Rd | 64 mvbutils-2.12.120/mvbutils/man/get_ncores_CRANal.Rd |only mvbutils-2.12.120/mvbutils/man/gitup_pkg.Rd |only mvbutils-2.12.120/mvbutils/man/hack.Rd | 6 mvbutils-2.12.120/mvbutils/man/help2flatdoc.Rd | 2 mvbutils-2.12.120/mvbutils/man/install.pkg.Rd | 53 mvbutils-2.12.120/mvbutils/man/local.return.Rd | 4 mvbutils-2.12.120/mvbutils/man/localfuncs.Rd | 3 mvbutils-2.12.120/mvbutils/man/lsize.Rd | 31 mvbutils-2.12.120/mvbutils/man/maintain.packages.Rd | 16 mvbutils-2.12.120/mvbutils/man/make.NAMESPACE.Rd | 6 mvbutils-2.12.120/mvbutils/man/make.arguments.section.Rd |only mvbutils-2.12.120/mvbutils/man/make_CRANtidote.Rd |only mvbutils-2.12.120/mvbutils/man/make_dull.Rd | 26 mvbutils-2.12.120/mvbutils/man/mdeparse.Rd |only mvbutils-2.12.120/mvbutils/man/mlazy.Rd | 22 mvbutils-2.12.120/mvbutils/man/move.Rd | 14 mvbutils-2.12.120/mvbutils/man/multimatch.Rd |only mvbutils-2.12.120/mvbutils/man/mvb.session.env.Rd |only mvbutils-2.12.120/mvbutils/man/mvboption.Rd |only mvbutils-2.12.120/mvbutils/man/mvbutils.operators.Rd | 49 mvbutils-2.12.120/mvbutils/man/mvbutils.packaging.tools.Rd | 14 mvbutils-2.12.120/mvbutils/man/mvbutils.utils.Rd | 193 mvbutils-2.12.120/mvbutils/man/numvbderiv_parallel.Rd |only mvbutils-2.12.120/mvbutils/man/pre.install.Rd | 124 mvbutils-2.12.120/mvbutils/man/print.Rd | 9 mvbutils-2.12.120/mvbutils/man/rm.pkg.Rd | 8 mvbutils-2.12.120/mvbutils/man/screen_masked_imports.Rd |only mvbutils-2.12.120/mvbutils/man/search.for.regexpr.Rd | 44 mvbutils-2.12.120/mvbutils/man/search.task.trees.Rd | 11 mvbutils-2.12.120/mvbutils/man/set.finalizer.Rd | 28 mvbutils-2.12.120/mvbutils/man/set.presave.hook.mvb.Rd | 7 mvbutils-2.12.120/mvbutils/man/source.mvb.Rd | 2 mvbutils-2.12.120/mvbutils/man/task.home.Rd | 6 mvbutils-2.12.120/mvbutils/man/unpackage.Rd | 15 mvbutils-2.12.120/mvbutils/man/vignette.pkg.Rd |only mvbutils-2.12.120/mvbutils/man/visify.Rd |only mvbutils-2.12.120/mvbutils/man/write.sourceable.function.Rd | 24 mvbutils-2.12.120/mvbutils/man/write_sourceable_function.Rd |only mvbutils-2.8.232/mvbutils/man/flatdoc.Rd |only mvbutils-2.8.232/mvbutils/man/make.usage.section.Rd |only 75 files changed, 11799 insertions(+), 2710 deletions(-)
Title: Minimal LLM Chat Interface
Description: A minimal-dependency client for Large Language Model chat APIs.
Supports 'OpenAI' <https://openai.com/>, 'Anthropic' 'Claude'
<https://claude.com/>, 'Moonshot' 'Kimi' <https://www.moonshot.ai/>,
'Ollama' <https://ollama.com/>, and other 'OpenAI'-compatible
endpoints. Includes an agent loop with tool use and a 'Model Context
Protocol' client <https://modelcontextprotocol.io/>. API design is
derived from the 'ellmer' package, reimplemented with only base R,
'curl', and 'jsonlite'.
Author: Troy Hernandez [aut, cre] ,
cornball.ai [cph],
ellmer team [cph]
Maintainer: Troy Hernandez <troy@cornball.ai>
Diff between llm.api versions 0.1.3 dated 2026-05-15 and 0.1.4 dated 2026-05-25
DESCRIPTION | 7 MD5 | 50 +++--- NAMESPACE | 2 NEWS.md | 131 ++++++++++++++++ R/agent.R | 221 ++++++++++++++++++++++------ R/chat.R | 122 +++++++++++++-- R/cost.R | 213 ++++++++++++++++++++++++-- R/providers.R | 18 +- R/session.R | 15 + R/sysdata.rda |binary README.md | 6 inst/tinytest/test_agent_extensions.R |only inst/tinytest/test_agent_history_callback.R |only inst/tinytest/test_cost.R | 156 +++++++++++++++++++ inst/tinytest/test_providers.R | 12 - man/agent.Rd | 29 +++ man/chat.Rd | 15 + man/chat_claude.Rd | 2 man/chat_ollama.Rd | 4 man/chat_openai.Rd | 6 man/chat_session.Rd | 2 man/chat_session_anthropic.Rd | 5 man/chat_session_ollama.Rd | 4 man/chat_session_openai.Rd | 4 man/history_tool_calls.Rd | 3 man/prices_snapshot_date.Rd | 31 +++ man/prices_snapshot_stale.Rd |only man/usage_cost.Rd |only 28 files changed, 904 insertions(+), 154 deletions(-)
Title: 'GGML' Tensor Operations for Machine Learning
Description: Provides 'R' bindings to the 'GGML' tensor library for machine
learning, optimized for 'Vulkan' GPU acceleration with a transparent CPU
fallback. The package features a 'Keras'-like sequential API and a
'PyTorch'-style 'autograd' engine for building, training, and deploying
neural networks. Key capabilities include high-performance 5D tensor
operations, 'f16' precision, and efficient quantization. It supports
native 'ONNX' model import (50+ operators) and 'GGUF' weight loading
from the 'llama.cpp' and 'Hugging Face' ecosystems. Designed for
zero-overhead inference via dedicated weight buffering, it integrates
seamlessly as a 'parsnip' engine for 'tidymodels' and provides
first-class learners for the 'mlr3' framework.
See <https://github.com/ggml-org/ggml> for more information about the
underlying library.
Author: Yuri Baramykov [aut, cre] ,
Georgi Gerganov [ctb, cph] ,
Jeffrey Quesnelle [ctb, cph] ,
Bowen Peng [ctb, cph] ,
Mozilla Foundation [ctb, cph]
Maintainer: Yuri Baramykov <lbsbmsu@mail.ru>
Diff between ggmlR versions 0.7.6 dated 2026-04-22 and 0.7.7 dated 2026-05-25
ggmlR-0.7.6/ggmlR/inst/include |only ggmlR-0.7.6/ggmlR/tests/testthat/Rplots.pdf |only ggmlR-0.7.7/ggmlR/DESCRIPTION | 12 ggmlR-0.7.7/ggmlR/MD5 | 507 +++---- ggmlR-0.7.7/ggmlR/NAMESPACE | 16 ggmlR-0.7.7/ggmlR/NEWS.md | 9 ggmlR-0.7.7/ggmlR/R/autograd.R | 3 ggmlR-0.7.7/ggmlR/R/backend.R | 76 + ggmlR-0.7.7/ggmlR/R/gguf.R | 1 ggmlR-0.7.7/ggmlR/R/nn_functional.R | 2 ggmlR-0.7.7/ggmlR/R/nn_layers.R | 18 ggmlR-0.7.7/ggmlR/R/operations.R | 181 ++ ggmlR-0.7.7/ggmlR/R/quants.R | 58 ggmlR-0.7.7/ggmlR/README.md | 43 ggmlR-0.7.7/ggmlR/cleanup | 4 ggmlR-0.7.7/ggmlR/configure | 17 ggmlR-0.7.7/ggmlR/configure.win | 8 ggmlR-0.7.7/ggmlR/inst/doc/autograd-engine.Rmd | 1 ggmlR-0.7.7/ggmlR/inst/doc/autograd-engine.html | 14 ggmlR-0.7.7/ggmlR/inst/doc/gpu-vulkan.R | 4 ggmlR-0.7.7/ggmlR/inst/doc/gpu-vulkan.Rmd | 4 ggmlR-0.7.7/ggmlR/inst/doc/gpu-vulkan.html | 14 ggmlR-0.7.7/ggmlR/inst/doc/keras-like-api.html | 2 ggmlR-0.7.7/ggmlR/inst/doc/mlr3-integration.html | 4 ggmlR-0.7.7/ggmlR/inst/examples/bench_conv2d_paths.R |only ggmlR-0.7.7/ggmlR/inst/examples/benchmark_coopmat.R |only ggmlR-0.7.7/ggmlR/inst/examples/check_new_bindings.R |only ggmlR-0.7.7/ggmlR/inst/examples/coopmat_configs.R |only ggmlR-0.7.7/ggmlR/inst/examples/gpu_stress_test.R |only ggmlR-0.7.7/ggmlR/inst/examples/test_onnx_repeated.R |only ggmlR-0.7.7/ggmlR/inst/examples/vulkan_caps.R | 62 ggmlR-0.7.7/ggmlR/man/dequantize_row_iq2_xxs.Rd | 4 ggmlR-0.7.7/ggmlR/man/dequantize_row_mxfp4.Rd | 4 ggmlR-0.7.7/ggmlR/man/dequantize_row_nvfp4.Rd |only ggmlR-0.7.7/ggmlR/man/dequantize_row_q1_0.Rd |only ggmlR-0.7.7/ggmlR/man/dequantize_row_q2_K.Rd | 4 ggmlR-0.7.7/ggmlR/man/dequantize_row_q4_0.Rd | 4 ggmlR-0.7.7/ggmlR/man/dequantize_row_tq1_0.Rd | 4 ggmlR-0.7.7/ggmlR/man/ggmlR-package.Rd | 2 ggmlR-0.7.7/ggmlR/man/ggml_add_rel_pos.Rd |only ggmlR-0.7.7/ggmlR/man/ggml_arange.Rd |only ggmlR-0.7.7/ggmlR/man/ggml_backend_buffer_clear.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_buffer_get_usage.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_buffer_is_host.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_buffer_is_multi_buffer.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_buffer_reset.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_buffer_set_usage.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_buffer_usage_any.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_buffer_usage_compute.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_buffer_usage_weights.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_dev_by_name.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_dev_by_type.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_dev_count.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_dev_description.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_dev_get.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_dev_get_props.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_dev_init.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_dev_memory.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_dev_name.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_dev_offload_op.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_dev_supports_buft.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_dev_supports_op.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_dev_type.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_device_register.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_device_type_accel.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_device_type_cpu.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_device_type_gpu.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_device_type_igpu.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_event_free.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_event_new.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_event_record.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_event_synchronize.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_event_wait.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_get_device.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_graph_compute_async.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_graph_plan_compute.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_graph_plan_create.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_graph_plan_free.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_init_best.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_init_by_name.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_init_by_type.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_load.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_load_all.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_meta_device.Rd |only ggmlR-0.7.7/ggmlR/man/ggml_backend_multi_buffer_alloc_buffer.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_multi_buffer_set_usage.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_reg_by_name.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_reg_count.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_reg_dev_count.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_reg_dev_get.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_reg_get.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_reg_name.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_register.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_synchronize.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_tensor_copy_async.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_tensor_get_async.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_tensor_set_async.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_backend_unload.Rd | 1 ggmlR-0.7.7/ggmlR/man/ggml_conv_1d_dw.Rd |only ggmlR-0.7.7/ggmlR/man/ggml_conv_2d_dw.Rd |only ggmlR-0.7.7/ggmlR/man/ggml_conv_2d_dw_direct.Rd |only ggmlR-0.7.7/ggmlR/man/ggml_conv_transpose_2d_p0.Rd |only ggmlR-0.7.7/ggmlR/man/ggml_get_rel_pos.Rd |only ggmlR-0.7.7/ggmlR/man/ggml_pad_reflect_1d.Rd |only ggmlR-0.7.7/ggmlR/man/ggml_quant_block_info.Rd | 4 ggmlR-0.7.7/ggmlR/man/ggml_roll.Rd |only ggmlR-0.7.7/ggmlR/man/ggml_win_part.Rd |only ggmlR-0.7.7/ggmlR/man/ggml_win_unpart.Rd |only ggmlR-0.7.7/ggmlR/man/gguf_free.Rd | 3 ggmlR-0.7.7/ggmlR/man/iq2xs_free_impl.Rd | 4 ggmlR-0.7.7/ggmlR/man/iq2xs_init_impl.Rd | 4 ggmlR-0.7.7/ggmlR/man/iq3xs_free_impl.Rd | 4 ggmlR-0.7.7/ggmlR/man/iq3xs_init_impl.Rd | 4 ggmlR-0.7.7/ggmlR/man/is_ag_tensor.Rd | 6 ggmlR-0.7.7/ggmlR/man/nn_apply_activation.Rd | 3 ggmlR-0.7.7/ggmlR/man/nn_build_batch_norm.Rd | 3 ggmlR-0.7.7/ggmlR/man/nn_build_conv_1d.Rd | 3 ggmlR-0.7.7/ggmlR/man/nn_build_conv_2d.Rd | 3 ggmlR-0.7.7/ggmlR/man/nn_build_dense.Rd | 3 ggmlR-0.7.7/ggmlR/man/nn_build_dropout.Rd | 3 ggmlR-0.7.7/ggmlR/man/nn_build_embedding.Rd | 3 ggmlR-0.7.7/ggmlR/man/nn_build_flatten.Rd | 3 ggmlR-0.7.7/ggmlR/man/nn_build_functional_node.Rd | 3 ggmlR-0.7.7/ggmlR/man/nn_build_global_average_pooling_2d.Rd | 3 ggmlR-0.7.7/ggmlR/man/nn_build_global_max_pooling_2d.Rd | 3 ggmlR-0.7.7/ggmlR/man/nn_build_gru.Rd | 3 ggmlR-0.7.7/ggmlR/man/nn_build_layer.Rd | 3 ggmlR-0.7.7/ggmlR/man/nn_build_lstm.Rd | 3 ggmlR-0.7.7/ggmlR/man/nn_build_max_pooling_2d.Rd | 3 ggmlR-0.7.7/ggmlR/man/nn_functional_output_shape.Rd | 3 ggmlR-0.7.7/ggmlR/man/nn_init_glorot_uniform.Rd | 3 ggmlR-0.7.7/ggmlR/man/nn_init_he_uniform.Rd | 3 ggmlR-0.7.7/ggmlR/man/nn_init_recurrent_uniform.Rd | 3 ggmlR-0.7.7/ggmlR/man/nn_init_zeros.Rd | 3 ggmlR-0.7.7/ggmlR/man/print.ag_tensor.Rd | 3 ggmlR-0.7.7/ggmlR/man/quantize_iq2_xxs.Rd | 4 ggmlR-0.7.7/ggmlR/man/quantize_mxfp4.Rd | 4 ggmlR-0.7.7/ggmlR/man/quantize_nvfp4.Rd |only ggmlR-0.7.7/ggmlR/man/quantize_q1_0.Rd |only ggmlR-0.7.7/ggmlR/man/quantize_q2_K.Rd | 4 ggmlR-0.7.7/ggmlR/man/quantize_q4_0.Rd | 4 ggmlR-0.7.7/ggmlR/man/quantize_row_iq3_xxs_ref.Rd | 4 ggmlR-0.7.7/ggmlR/man/quantize_row_mxfp4_ref.Rd | 4 ggmlR-0.7.7/ggmlR/man/quantize_row_q2_K_ref.Rd | 4 ggmlR-0.7.7/ggmlR/man/quantize_row_q4_0_ref.Rd | 4 ggmlR-0.7.7/ggmlR/man/quantize_row_tq1_0_ref.Rd | 4 ggmlR-0.7.7/ggmlR/man/quantize_tq1_0.Rd | 4 ggmlR-0.7.7/ggmlR/src/Makevars.in | 6 ggmlR-0.7.7/ggmlR/src/Makevars.win.in | 4 ggmlR-0.7.7/ggmlR/src/ggml-alloc.c | 17 ggmlR-0.7.7/ggmlR/src/ggml-backend-impl.h | 26 ggmlR-0.7.7/ggmlR/src/ggml-backend-meta.cpp |only ggmlR-0.7.7/ggmlR/src/ggml-backend-reg.cpp | 26 ggmlR-0.7.7/ggmlR/src/ggml-backend.cpp | 180 ++ ggmlR-0.7.7/ggmlR/src/ggml-backend.h | 87 + ggmlR-0.7.7/ggmlR/src/ggml-common.h | 30 ggmlR-0.7.7/ggmlR/src/ggml-context.c | 58 ggmlR-0.7.7/ggmlR/src/ggml-core.c | 51 ggmlR-0.7.7/ggmlR/src/ggml-cpu.h | 5 ggmlR-0.7.7/ggmlR/src/ggml-cpu/arch-fallback.h | 2 ggmlR-0.7.7/ggmlR/src/ggml-cpu/arch/x86/quants.c | 9 ggmlR-0.7.7/ggmlR/src/ggml-cpu/binary-ops.cpp | 8 ggmlR-0.7.7/ggmlR/src/ggml-cpu/common.h | 8 ggmlR-0.7.7/ggmlR/src/ggml-cpu/ggml-cpu-backend.c | 45 ggmlR-0.7.7/ggmlR/src/ggml-cpu/ggml-cpu-impl.h | 3 ggmlR-0.7.7/ggmlR/src/ggml-cpu/ggml-cpu.cpp | 17 ggmlR-0.7.7/ggmlR/src/ggml-cpu/ops-elemwise.cpp | 6 ggmlR-0.7.7/ggmlR/src/ggml-cpu/ops-misc.cpp | 90 + ggmlR-0.7.7/ggmlR/src/ggml-cpu/ops-recurrent.cpp | 190 ++ ggmlR-0.7.7/ggmlR/src/ggml-cpu/ops-ssm.cpp | 512 ++++++- ggmlR-0.7.7/ggmlR/src/ggml-cpu/ops-tensor.cpp | 8 ggmlR-0.7.7/ggmlR/src/ggml-cpu/ops.h | 2 ggmlR-0.7.7/ggmlR/src/ggml-cpu/quants.c | 95 + ggmlR-0.7.7/ggmlR/src/ggml-cpu/quants.h | 6 ggmlR-0.7.7/ggmlR/src/ggml-cpu/simd-gemm.h |only ggmlR-0.7.7/ggmlR/src/ggml-cpu/unary-ops.cpp | 2 ggmlR-0.7.7/ggmlR/src/ggml-graph.c | 77 - ggmlR-0.7.7/ggmlR/src/ggml-impl.h | 71 ggmlR-0.7.7/ggmlR/src/ggml-misc.c | 49 ggmlR-0.7.7/ggmlR/src/ggml-ops-builders.c | 81 - ggmlR-0.7.7/ggmlR/src/ggml-opt.cpp | 1 ggmlR-0.7.7/ggmlR/src/ggml-opt.h | 2 ggmlR-0.7.7/ggmlR/src/ggml-quants-iq.c | 29 ggmlR-0.7.7/ggmlR/src/ggml-quants-new.c |only ggmlR-0.7.7/ggmlR/src/ggml-quants-new.h |only ggmlR-0.7.7/ggmlR/src/ggml-quants-validate.c | 10 ggmlR-0.7.7/ggmlR/src/ggml-quants.h | 8 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/ggml-vulkan-attn.cpp | 258 ++- ggmlR-0.7.7/ggmlR/src/ggml-vulkan/ggml-vulkan-device.cpp | 441 +++++- ggmlR-0.7.7/ggmlR/src/ggml-vulkan/ggml-vulkan-elemwise.cpp | 132 + ggmlR-0.7.7/ggmlR/src/ggml-vulkan/ggml-vulkan-graph.cpp | 375 ++++- ggmlR-0.7.7/ggmlR/src/ggml-vulkan/ggml-vulkan-matmul.cpp | 309 +++- ggmlR-0.7.7/ggmlR/src/ggml-vulkan/ggml-vulkan-misc.cpp | 91 - ggmlR-0.7.7/ggmlR/src/ggml-vulkan/ggml-vulkan-shaders.cpp | 279 +++ ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/acc.comp | 9 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/copy_from_quant.comp | 2 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/copy_to_quant.comp | 25 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/cumsum_multipass1.comp |only ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/cumsum_multipass2.comp |only ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/dequant_funcs.glsl | 24 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/dequant_funcs_cm2.glsl | 36 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/dequant_nvfp4.comp |only ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/dequant_q1_0.comp |only ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/elu.comp | 9 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/flash_attn.comp | 720 +++++++--- ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/flash_attn_base.glsl | 239 ++- ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/flash_attn_cm1.comp | 590 +++++--- ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/flash_attn_cm2.comp | 250 ++- ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/flash_attn_mask_opt.comp |only ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/flash_attn_mmq_funcs.glsl |only ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/flash_attn_split_k_reduce.comp | 17 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/gated_delta_net.comp |only ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/glu_head.glsl | 10 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/glu_main.glsl | 22 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/im2col.comp | 100 - ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/im2col_v2.comp |only ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/l2_norm.comp | 21 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/mul_mat_vec_base.glsl | 5 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/mul_mat_vec_iface.glsl | 12 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/mul_mat_vec_q2_k.comp | 2 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/mul_mat_vec_q4_k.comp | 2 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/mul_mat_vec_q5_k.comp | 2 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/mul_mat_vecq.comp | 13 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/mul_mat_vecq_funcs.glsl | 148 +- ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/mul_mm.comp | 38 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/mul_mm_cm2.comp | 16 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/mul_mm_funcs.glsl | 352 ++-- ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/mul_mm_id_funcs.glsl | 4 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/mul_mmq.comp | 16 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/mul_mmq_funcs.glsl | 24 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/mul_mmq_shmem_types.glsl | 22 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/quantize_q8_1.comp | 16 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/rms_norm.comp | 5 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/rope_funcs.glsl | 99 - ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/rope_multi.comp | 11 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/rope_neox.comp | 11 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/rope_norm.comp | 11 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/rope_params.glsl | 14 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/rope_vision.comp | 11 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/sgn.comp |only ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/ssm_conv.comp | 26 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/ssm_scan.comp | 108 - ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/topk_moe.comp | 47 ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/types.glsl | 354 ++++ ggmlR-0.7.7/ggmlR/src/ggml-vulkan/vulkan-shaders/vulkan-shaders-gen.cpp | 155 +- ggmlR-0.7.7/ggmlR/src/ggml.h | 74 - ggmlR-0.7.7/ggmlR/src/gguf.cpp | 163 +- ggmlR-0.7.7/ggmlR/src/gguf.h | 2 ggmlR-0.7.7/ggmlR/src/r_interface.c | 43 ggmlR-0.7.7/ggmlR/src/r_interface_backend.c | 218 +++ ggmlR-0.7.7/ggmlR/src/r_interface_graph.c | 223 +++ ggmlR-0.7.7/ggmlR/src/r_interface_quants.c | 12 ggmlR-0.7.7/ggmlR/tests/testthat.R | 4 ggmlR-0.7.7/ggmlR/tests/testthat/test-backend-extended.R | 54 ggmlR-0.7.7/ggmlR/tests/testthat/test-conv-transpose-numeric.R |only ggmlR-0.7.7/ggmlR/tests/testthat/test-conv2d-dw-numeric.R |only ggmlR-0.7.7/ggmlR/tests/testthat/test-conv2d-numeric.R |only ggmlR-0.7.7/ggmlR/tests/testthat/test-flash-attn-quants.R |only ggmlR-0.7.7/ggmlR/tests/testthat/test-functional-shared-layers.R |only ggmlR-0.7.7/ggmlR/tests/testthat/test-getrows-offload-vulkan.R |only ggmlR-0.7.7/ggmlR/tests/testthat/test-ggml.R | 2 ggmlR-0.7.7/ggmlR/tests/testthat/test-meta-backend.R |only ggmlR-0.7.7/ggmlR/tests/testthat/test-new-ops-numeric.R |only ggmlR-0.7.7/ggmlR/tests/testthat/test-print-methods.R | 3 ggmlR-0.7.7/ggmlR/tests/testthat/test-q4k-matmul-vulkan.R |only ggmlR-0.7.7/ggmlR/tests/testthat/test-quantize-fns.R |only ggmlR-0.7.7/ggmlR/tests/testthat/test-quants-iq-degenerate.R |only ggmlR-0.7.7/ggmlR/tests/testthat/test-quants-missing.R | 97 + ggmlR-0.7.7/ggmlR/tests/testthat/test-rope-multi.R |only ggmlR-0.7.7/ggmlR/tests/testthat/test-upscale.R |only ggmlR-0.7.7/ggmlR/tests/testthat/test-version.R | 2 ggmlR-0.7.7/ggmlR/vignettes/autograd-engine.Rmd | 1 ggmlR-0.7.7/ggmlR/vignettes/gpu-vulkan.Rmd | 4 273 files changed, 7587 insertions(+), 1889 deletions(-)
Title: Models for Skewed Count Distributions Relevant to Networks
Description: Likelihood-based inference for skewed count distributions, typically of degrees used in network modeling. "degreenet" is a part of the "statnet" suite of packages for network analysis. See Jones and Handcock <doi:10.1098/rspb.2003.2369>.
Author: Mark S. Handcock [aut, cre, cph]
Maintainer: Mark S. Handcock <handcock@stat.ucla.edu>
Diff between degreenet versions 1.3-6 dated 2024-09-25 and 1.3-7 dated 2026-05-25
DESCRIPTION | 12 ++++++------ MD5 | 8 ++++---- R/reedmolloy.R | 6 +++--- R/ryule.R | 6 +++--- build/partial.rdb |binary 5 files changed, 16 insertions(+), 16 deletions(-)
Title: Congruence Class Models for Networks
Description: Provides an implementation of Congruence Class Models (CCMs) for
generating networks. For additional details on CCMs see Goyal, Blitzstein,
and De Gruttola (2014) <doi:10.1017/nws.2014.2> and
Goyal, De Gruttola, Martin, Rennert, and Onnela <doi:10.48550/arXiv.2603.02467>.
'ccmnet' facilitates sampling networks based on specific topological properties
and attribute mixing patterns using a Markov Chain Monte Carlo framework.
The implementation builds upon code from the 'ergm' package;
see Handcock, Hunter, Butts, Goodreau, and Morris (2008) <doi:10.18637/jss.v024.i01>.
Author: Ravi Goyal [aut, cre],
Statnet Development Team [ctb, cph]
Maintainer: Ravi Goyal <ravi.j.goyal@gmail.com>
Diff between CCMnet versions 1.0.0 dated 2026-03-02 and 1.1.0 dated 2026-05-25
CCMnet-1.0.0/CCMnet/man/sample_theoretical.Rd |only CCMnet-1.0.0/CCMnet/tests |only CCMnet-1.1.0/CCMnet/DESCRIPTION | 19 CCMnet-1.1.0/CCMnet/MD5 | 111 - CCMnet-1.1.0/CCMnet/NAMESPACE | 4 CCMnet-1.1.0/CCMnet/R/CCMnet_Sample.R | 111 - CCMnet-1.1.0/CCMnet/R/CCMnet_Sample_methods.R | 54 CCMnet-1.1.0/CCMnet/R/CCMnet_constr.R | 9 CCMnet-1.1.0/CCMnet/R/CCMnet_constr_bi.R | 2 CCMnet-1.1.0/CCMnet/R/CCMnet_constr_uni.R | 44 CCMnet-1.1.0/CCMnet/R/CCMnet_constr_uni_initalstat.R | 36 CCMnet-1.1.0/CCMnet/R/CCMnet_constr_uni_initalstat_degdist.R | 6 CCMnet-1.1.0/CCMnet/R/CCMnet_constr_uni_initalstat_degmxing.R | 2 CCMnet-1.1.0/CCMnet/R/CCMnet_constr_uni_initalstat_degmxing_clustering.R | 2 CCMnet-1.1.0/CCMnet/R/CCMnet_constr_uni_initalstat_edges.R | 2 CCMnet-1.1.0/CCMnet/R/CCMnet_constr_uni_initalstat_mixing.R | 20 CCMnet-1.1.0/CCMnet/R/CCMnet_constr_uni_initalstat_mixing_degdist.R | 2 CCMnet-1.1.0/CCMnet/R/CCMnet_constr_uni_obs_stats.R | 28 CCMnet-1.1.0/CCMnet/R/CCMnet_constr_uni_verifyinput.R | 99 - CCMnet-1.1.0/CCMnet/R/CCMnet_constr_uni_verifyinput_degdist.R | 63 CCMnet-1.1.0/CCMnet/R/CCMnet_constr_uni_verifyinput_degmxing.R | 58 CCMnet-1.1.0/CCMnet/R/CCMnet_constr_uni_verifyinput_degmxing_clustering.R | 74 CCMnet-1.1.0/CCMnet/R/CCMnet_constr_uni_verifyinput_edges.R | 80 CCMnet-1.1.0/CCMnet/R/CCMnet_constr_uni_verifyinput_mixing.R | 32 CCMnet-1.1.0/CCMnet/R/CCMnet_constr_uni_verifyinput_mixing_degdist.R | 140 - CCMnet-1.1.0/CCMnet/R/CCMnet_prob_distr_config.R |only CCMnet-1.1.0/CCMnet/R/CCMnet_sample_ccm_validate_input.R |only CCMnet-1.1.0/CCMnet/R/CCMnet_theoretical_check.R | 10 CCMnet-1.1.0/CCMnet/R/CCMnet_theoretical_check_degmix.R | 63 CCMnet-1.1.0/CCMnet/R/CCMnet_theoretical_check_degmixclustering.R | 84 CCMnet-1.1.0/CCMnet/R/CCMnet_theoretical_check_degree.R | 35 CCMnet-1.1.0/CCMnet/R/CCMnet_theoretical_check_degree_mixing.R | 62 CCMnet-1.1.0/CCMnet/R/CCMnet_theoretical_check_density.R | 27 CCMnet-1.1.0/CCMnet/R/CCMnet_theoretical_check_edges.R | 37 CCMnet-1.1.0/CCMnet/R/CCMnet_theoretical_check_mixing.R | 57 CCMnet-1.1.0/CCMnet/R/CCMnet_utils.R | 54 CCMnet-1.1.0/CCMnet/R/documentation.R |only CCMnet-1.1.0/CCMnet/inst/doc/CCMnet_introduction.R | 30 CCMnet-1.1.0/CCMnet/inst/doc/CCMnet_introduction.Rmd | 30 CCMnet-1.1.0/CCMnet/inst/doc/CCMnet_introduction.html | 46 CCMnet-1.1.0/CCMnet/man/ccm_distributions.Rd |only CCMnet-1.1.0/CCMnet/man/ccm_properties.Rd |only CCMnet-1.1.0/CCMnet/man/plot.ccm_sample.Rd | 10 CCMnet-1.1.0/CCMnet/man/sample_ccm.Rd | 81 CCMnet-1.1.0/CCMnet/man/sample_target_distr.Rd |only CCMnet-1.1.0/CCMnet/src/CCMnet_netprop_degdist.c | 114 - CCMnet-1.1.0/CCMnet/src/CCMnet_netprop_degdist.h | 4 CCMnet-1.1.0/CCMnet/src/CCMnet_netprop_degmixing.c | 388 +++ CCMnet-1.1.0/CCMnet/src/CCMnet_netprop_degmixing.h | 24 CCMnet-1.1.0/CCMnet/src/CCMnet_netprop_edges.c | 52 CCMnet-1.1.0/CCMnet/src/CCMnet_netprop_edges.h | 4 CCMnet-1.1.0/CCMnet/src/CCMnet_netprop_mixing.c | 75 CCMnet-1.1.0/CCMnet/src/CCMnet_netprop_mixing.h | 8 CCMnet-1.1.0/CCMnet/src/CCMnet_netprop_mixing_degdist.c | 196 +- CCMnet-1.1.0/CCMnet/src/CCMnet_netprop_mixing_degdist.h | 14 CCMnet-1.1.0/CCMnet/src/CCMnet_netprop_prob_dist.c |only CCMnet-1.1.0/CCMnet/src/CCMnet_netprop_prob_dist.h |only CCMnet-1.1.0/CCMnet/src/MCMC.c | 18 CCMnet-1.1.0/CCMnet/src/MCMC_prob.c |only CCMnet-1.1.0/CCMnet/src/MCMC_prob.h | 974 ---------- CCMnet-1.1.0/CCMnet/src/MCMC_prob_bi.h | 2 CCMnet-1.1.0/CCMnet/vignettes/CCMnet_introduction.Rmd | 30 62 files changed, 1071 insertions(+), 2456 deletions(-)
Title: Tools for Wikidata and Wikipedia
Description: A set of wrappers intended to check, read and download information from the Wikimedia sources. It is specifically created to work with names of celebrities, in which case their information and statistics can be downloaded. Additionally, it also builds links and snippets to use in combination with the function gallery() in netCoin package.
Author: Modesto Escobar [aut, cph, cre] ,
Angel Zazo [aut],
Carlos Prieto [aut] ,
David Barrios [aut],
Cristina Calvo [aut]
Maintainer: Modesto Escobar <modesto@usal.es>
Diff between wikiTools versions 1.2.21 dated 2026-03-16 and 1.2.24 dated 2026-05-25
DESCRIPTION | 8 MD5 | 25 - NAMESPACE | 3 R/wiki_utils.R | 984 +++++++++++++++++++++++++++++++-------------- inst/doc/wiki_utils.R | 282 ++++++------ inst/doc/wiki_utils.Rmd | 159 +++---- inst/doc/wiki_utils.html | 805 ++++++++++++++++++++++++++++-------- man/v_AutoSuggest.Rd | 2 man/v_Extract.Rd | 2 man/v_GetRecord.Rd | 37 + man/v_Search.Rd | 76 +-- man/v_dfVIAF.Rd |only man/w_SearchByAuthority.Rd | 2 vignettes/wiki_utils.Rmd | 159 +++---- 14 files changed, 1661 insertions(+), 883 deletions(-)
Title: Taxonomic Distance and Phylogenetic Lineage Computation
Description: Computes phylogenetic distances between any two taxa using
hierarchical lineage data retrieved from The Taxonomicon
<http://taxonomicon.taxonomy.nl>, a comprehensive curated classification
of all life based on Systema Naturae 2000 (Brands, 1989
<http://taxonomicon.taxonomy.nl>). Given any two taxon names, retrieves their
full lineages, identifies the most recent common ancestor (MRCA),
and computes a dissimilarity index based on lineage depth. Outputs
native dist objects, enabling direct integration with the R statistical
ecosystem for hierarchical clustering, principal coordinate analysis (PCoA),
and multivariate ecological analyses. Supports individual distance queries,
pairwise distance matrices, clade filtering, and lineage utilities.
Author: Rodrigo Fonseca Villa [aut, cre]
Maintainer: Rodrigo Fonseca Villa <rodrigo03.villa@gmail.com>
Diff between taxodist versions 0.3.0 dated 2026-05-05 and 0.4.0 dated 2026-05-25
taxodist-0.3.0/taxodist/tests/testthat/Rplots.pdf |only taxodist-0.4.0/taxodist/DESCRIPTION | 6 taxodist-0.4.0/taxodist/MD5 | 13 - taxodist-0.4.0/taxodist/NEWS.md | 32 ++ taxodist-0.4.0/taxodist/R/distance.R | 88 +++++++ taxodist-0.4.0/taxodist/R/fetch.R | 69 +++++ taxodist-0.4.0/taxodist/R/utils.R | 15 + taxodist-0.4.0/taxodist/tests/testthat/test-distance.R | 213 +++++++++++++++++ 8 files changed, 422 insertions(+), 14 deletions(-)
Title: Modular Monte Carlo Risk Analysis
Description: Framework for building modular Monte Carlo risk analysis models. It extends the capabilities of 'mc2d' to facilitate working with multiple risk pathways, variates and scenarios. It provides tools to organize risk analysis in independent flexible modules, align multivariate mcnodes, automate the creation of mcnodes, visualise model structure, assess convergence, and perform sensitivity analysis. For more details see Ciria (2026) <https://nataliaciria.com/mcmodule/>.
Author: Natalia Ciria [aut, cre, cph] ,
Alberto Allepuz [ths] ,
Giovanna Ciaravino [ths]
Maintainer: Natalia Ciria <nataliaciria@hotmail.com>
Diff between mcmodule versions 1.2.0 dated 2026-03-02 and 1.3.0 dated 2026-05-25
mcmodule-1.2.0/mcmodule/R/mcnode_na_rm.R |only mcmodule-1.3.0/mcmodule/DESCRIPTION | 10 mcmodule-1.3.0/mcmodule/MD5 | 158 mcmodule-1.3.0/mcmodule/NAMESPACE | 9 mcmodule-1.3.0/mcmodule/NEWS.md | 52 mcmodule-1.3.0/mcmodule/R/add_prefix.R | 27 mcmodule-1.3.0/mcmodule/R/create_mcnodes.R | 59 mcmodule-1.3.0/mcmodule/R/dim_match.R | 229 mcmodule-1.3.0/mcmodule/R/eval_module.R | 656 +- mcmodule-1.3.0/mcmodule/R/get_node_list.R | 54 mcmodule-1.3.0/mcmodule/R/imports_exp.R | 16 mcmodule-1.3.0/mcmodule/R/imports_mcmodule.R | 8 mcmodule-1.3.0/mcmodule/R/imports_mctable.R | 2 mcmodule-1.3.0/mcmodule/R/mc_analysis.R | 2495 ++++++---- mcmodule-1.3.0/mcmodule/R/mc_compare.R |only mcmodule-1.3.0/mcmodule/R/mc_filter.R | 77 mcmodule-1.3.0/mcmodule/R/mc_network.R | 17 mcmodule-1.3.0/mcmodule/R/mc_plot.R | 329 + mcmodule-1.3.0/mcmodule/R/mc_summary.R | 15 mcmodule-1.3.0/mcmodule/R/mcmodule_info.R | 214 mcmodule-1.3.0/mcmodule/R/mcnode_rm.R |only mcmodule-1.3.0/mcmodule/R/sample_design.R |only mcmodule-1.3.0/mcmodule/R/set_mctable.R | 52 mcmodule-1.3.0/mcmodule/R/totals.R | 273 - mcmodule-1.3.0/mcmodule/R/utils.R | 107 mcmodule-1.3.0/mcmodule/README.md | 258 - mcmodule-1.3.0/mcmodule/build/vignette.rds |binary mcmodule-1.3.0/mcmodule/data/imports_exp.rda |binary mcmodule-1.3.0/mcmodule/data/imports_mcmodule.rda |binary mcmodule-1.3.0/mcmodule/data/imports_mctable.rda |binary mcmodule-1.3.0/mcmodule/inst/CITATION | 16 mcmodule-1.3.0/mcmodule/inst/doc/mcmodule.R | 46 mcmodule-1.3.0/mcmodule/inst/doc/mcmodule.Rmd | 78 mcmodule-1.3.0/mcmodule/inst/doc/mcmodule.html | 542 +- mcmodule-1.3.0/mcmodule/inst/doc/multivariate_operations.R | 8 mcmodule-1.3.0/mcmodule/inst/doc/multivariate_operations.Rmd | 10 mcmodule-1.3.0/mcmodule/inst/doc/multivariate_operations.html | 33 mcmodule-1.3.0/mcmodule/inst/doc/sensitivity_analysis.R |only mcmodule-1.3.0/mcmodule/inst/doc/sensitivity_analysis.Rmd |only mcmodule-1.3.0/mcmodule/inst/doc/sensitivity_analysis.html |only mcmodule-1.3.0/mcmodule/man/agg_totals.Rd | 8 mcmodule-1.3.0/mcmodule/man/check_mctable.Rd | 8 mcmodule-1.3.0/mcmodule/man/eval_module.Rd | 61 mcmodule-1.3.0/mcmodule/man/imports_exp.Rd | 8 mcmodule-1.3.0/mcmodule/man/imports_mcmodule.Rd | 8 mcmodule-1.3.0/mcmodule/man/imports_mctable.Rd | 2 mcmodule-1.3.0/mcmodule/man/keys_match.Rd | 5 mcmodule-1.3.0/mcmodule/man/matrix_to_mcnodes.Rd |only mcmodule-1.3.0/mcmodule/man/mc_compare.Rd |only mcmodule-1.3.0/mcmodule/man/mc_filter.Rd | 13 mcmodule-1.3.0/mcmodule/man/mc_keys.Rd | 6 mcmodule-1.3.0/mcmodule/man/mc_match.Rd | 14 mcmodule-1.3.0/mcmodule/man/mc_match_data.Rd | 16 mcmodule-1.3.0/mcmodule/man/mc_network.Rd | 13 mcmodule-1.3.0/mcmodule/man/mc_plot.Rd | 5 mcmodule-1.3.0/mcmodule/man/mc_summary.Rd | 5 mcmodule-1.3.0/mcmodule/man/mcmodule_converg.Rd | 11 mcmodule-1.3.0/mcmodule/man/mcmodule_corr.Rd | 23 mcmodule-1.3.0/mcmodule/man/mcmodule_dim_check.Rd | 1 mcmodule-1.3.0/mcmodule/man/mcmodule_info.Rd | 2 mcmodule-1.3.0/mcmodule/man/mcmodule_tornado.Rd |only mcmodule-1.3.0/mcmodule/man/mcnode_na_rm.Rd | 2 mcmodule-1.3.0/mcmodule/man/mcnode_null_rm.Rd |only mcmodule-1.3.0/mcmodule/man/mctable_bounds.Rd |only mcmodule-1.3.0/mcmodule/man/mctable_sobol_matrices.Rd |only mcmodule-1.3.0/mcmodule/man/optim_ndvar.Rd |only mcmodule-1.3.0/mcmodule/man/reset_sample_design.Rd |only mcmodule-1.3.0/mcmodule/man/set_mctable.Rd | 20 mcmodule-1.3.0/mcmodule/man/set_sample_design.Rd |only mcmodule-1.3.0/mcmodule/man/tidy_mcnode.Rd | 1 mcmodule-1.3.0/mcmodule/man/trial_totals.Rd | 10 mcmodule-1.3.0/mcmodule/tests/testthat/test-add_prefix.R | 96 mcmodule-1.3.0/mcmodule/tests/testthat/test-combine_modules.R | 10 mcmodule-1.3.0/mcmodule/tests/testthat/test-create_mcnodes.R | 57 mcmodule-1.3.0/mcmodule/tests/testthat/test-dim_match.R | 573 ++ mcmodule-1.3.0/mcmodule/tests/testthat/test-eval_module.R | 502 +- mcmodule-1.3.0/mcmodule/tests/testthat/test-get_node_list.R | 103 mcmodule-1.3.0/mcmodule/tests/testthat/test-imports_exp.R | 2 mcmodule-1.3.0/mcmodule/tests/testthat/test-mc_analysis.R | 546 ++ mcmodule-1.3.0/mcmodule/tests/testthat/test-mc_compare.R |only mcmodule-1.3.0/mcmodule/tests/testthat/test-mc_filter.R | 71 mcmodule-1.3.0/mcmodule/tests/testthat/test-mc_network.R | 199 mcmodule-1.3.0/mcmodule/tests/testthat/test-mc_plot.R | 438 + mcmodule-1.3.0/mcmodule/tests/testthat/test-mc_summary.R | 185 mcmodule-1.3.0/mcmodule/tests/testthat/test-mcnode_rm.R |only mcmodule-1.3.0/mcmodule/tests/testthat/test-sample_design.R |only mcmodule-1.3.0/mcmodule/tests/testthat/test-totals.R | 246 mcmodule-1.3.0/mcmodule/vignettes/mcmodule.Rmd | 78 mcmodule-1.3.0/mcmodule/vignettes/multivariate_operations.Rmd | 10 mcmodule-1.3.0/mcmodule/vignettes/sensitivity_analysis.Rmd |only 90 files changed, 6933 insertions(+), 2275 deletions(-)
Title: 'Serpstat' API Wrapper
Description: The primary goal of 'Serpstat' API <https://api-docs.serpstat.com/docs/serpstat-public-api/jenasqbwtxdlr-introduction-to-serpstat-api>
is to reduce manual SEO (search engine optimization) and PPC (pay-per-click)
tasks. You can automate your keywords research or competitors analysis
with this API wrapper.
Author: Alex Danilin [aut, cre]
Maintainer: Alex Danilin <alexnikdanilin@gmail.com>
Diff between serpstatr versions 0.4.0 dated 2025-08-20 and 0.4.1 dated 2026-05-25
DESCRIPTION | 8 - MD5 | 50 ++++---- NEWS.md | 4 R/audit.R | 12 +- R/project_management.R | 18 ++- R/rank_tracker.R | 8 - R/search_analytics.R | 6 - R/utility_functions.R | 58 +++++---- README.md | 2 man/serpstatr.Rd | 5 man/sst_au_get_summary.Rd | 84 +++++++------- man/sst_au_start.Rd | 81 +++++++------ man/sst_pm_create_project.Rd | 100 ++++++++--------- man/sst_pm_delete_project.Rd | 82 +++++++------ man/sst_pm_list_projects.Rd | 96 ++++++++-------- man/sst_rt_competitors.Rd | 2 man/sst_rt_positions_history.Rd | 2 man/sst_rt_project_regions.Rd | 2 man/sst_rt_serp_history.Rd | 2 man/sst_sa_domain_history.Rd | 182 +++++++++++++++---------------- man/sst_sa_domain_keywords_per_region.Rd | 106 +++++++++--------- man/sst_sa_domain_organic_competitors.Rd | 164 +++++++++++++-------------- man/sst_sa_domain_top_pages.Rd | 176 ++++++++++++++--------------- man/sst_sa_keywords.Rd | 3 man/sst_sa_related_keywords.Rd | 126 ++++++++++----------- tests/testthat/test_utils.R | 10 + 26 files changed, 726 insertions(+), 663 deletions(-)
Title: R Client for the 'OMOPHub' Medical Vocabulary API
Description: Provides an R interface to the 'OMOPHub' API for accessing
'OHDSI ATHENA' standardized medical vocabularies. Supports concept search,
semantic search using neural embeddings, concept similarity, vocabulary
exploration, hierarchy navigation, relationship queries, concept
mappings, and FHIR-to-OMOP concept resolution with automatic pagination.
Author: Alex Chen [aut, cre, cph],
Observational Health Data Science and Informatics [cph]
Maintainer: Alex Chen <alex@omophub.com>
Diff between omophub versions 1.7.0 dated 2026-04-30 and 1.8.0 dated 2026-05-25
DESCRIPTION | 6 - MD5 | 20 +++--- NEWS.md | 25 +++++++ R/fhir.R | 45 +++++++++++-- README.md | 22 ++++++ inst/doc/getting-started.Rmd | 22 ++++++ inst/doc/getting-started.html | 139 +++++++++++++++++++++++------------------- inst/examples/fhir_resolver.R | 75 ++++++++++++++++++++++ man/FhirResource.Rd | 16 ++++ tests/testthat/test-fhir.R | 138 +++++++++++++++++++++++++++++++++++++++++ vignettes/getting-started.Rmd | 22 ++++++ 11 files changed, 441 insertions(+), 89 deletions(-)
Title: Bayesian Error Propagation and Forecast Uncertainty
Decomposition
Description: Provides a full pipeline from regularized or standard regression
models (elastic net, linear models, generalized linear models, random
forests) to informed Bayesian priors, structured forecast uncertainty
decomposition (parameter / environmental / residual, plus a temporal
component when the model carries an autocorrelation term), and forecast
shelf life analysis (the quantification of when a forecast becomes
uninformative). Designed for ecological and genomic forecasting with
climate or environmental covariates. Methods build on Bürkner (2017)
<doi:10.18637/jss.v080.i01> for Bayesian regression via 'Stan',
Friedman, Hastie, and Tibshirani (2010) <doi:10.18637/jss.v033.i01>
for elastic net regularization, Wright and Ziegler (2017)
<doi:10.18637/jss.v077.i01> for random forests, and Vehtari, Gelman,
and Gabry (2017) <doi:10.1007/s11222-016-9696-4> for leave-one-out
cross-validation.
Author: Luis Javier Madrigal-Roca [aut, cre],
John Kelly [aut]
Maintainer: Luis Javier Madrigal-Roca <madrigalrocalj@yahoo.com>
Diff between ErrorTracer versions 1.0.2 dated 2026-05-04 and 1.1.0 dated 2026-05-25
DESCRIPTION | 17 - MD5 | 57 +-- NEWS.md | 54 +++ R/data.R | 36 +- R/decompose.R | 48 ++ R/plot.R | 64 ++- R/predict.R | 463 ++++++++++++++++++++++------ R/sensitivity.R | 35 +- R/shelf_life.R | 102 ++++-- R/utils.R | 34 ++ README.md | 8 build/vignette.rds |binary data/et_sim.rda |binary inst/doc/introduction.Rmd | 14 inst/doc/introduction.html | 33 + inst/doc/worked_example.R |only inst/doc/worked_example.Rmd |only inst/doc/worked_example.html |only man/decompose_uncertainty.Rd | 42 +- man/et_plot_calibration.Rd | 9 man/et_plot_decomposition.Rd | 7 man/et_predict.Rd | 38 +- man/et_sensitivity_profile.Rd | 14 man/et_sim.Rd | 36 +- man/shelf_life.Rd | 47 +- tests/testthat/test-decompose-nongaussian.R |only tests/testthat/test-decompose.R | 87 ++++- tests/testthat/test-shelf-life-projection.R |only tests/testthat/test-shelf_life.R | 62 ++- tests/testthat/test-utils.R | 8 tests/testthat/test-v-env-stability.R |only vignettes/introduction.Rmd | 14 vignettes/worked_example.Rmd |only 33 files changed, 1004 insertions(+), 325 deletions(-)
Title: A Lightweight Toolkit for Displaying Customizable Tables
Description: A lightweight toolkit that provides functions for printing tables from
input data in the R console or terminal with customizable formatting. Supported
outputs include American Psychological Association (APA)-style tables
(American Psychological Association, 2020, ISBN:9781433832178),
correlation matrices, contingency tables, and two-column summary tables.
Author: Joshua Marie [aut, cre]
Maintainer: Joshua Marie <joshua.marie.k@gmail.com>
Diff between tabstats versions 0.1.0 dated 2026-03-24 and 0.2.0 dated 2026-05-25
tabstats-0.1.0/tabstats/R/helpers-corr_matrix-extra.R |only tabstats-0.1.0/tabstats/R/helpers-corr_matrix.R |only tabstats-0.1.0/tabstats/R/new_corr_data.R |only tabstats-0.1.0/tabstats/R/table-corr_matrix.R |only tabstats-0.1.0/tabstats/man/corr_matrix.Rd |only tabstats-0.1.0/tabstats/man/new_corr_data.Rd |only tabstats-0.2.0/tabstats/DESCRIPTION | 6 - tabstats-0.2.0/tabstats/MD5 | 27 ++--- tabstats-0.2.0/tabstats/NAMESPACE | 2 tabstats-0.2.0/tabstats/NEWS.md | 8 + tabstats-0.2.0/tabstats/R/helpers-pairwise_matrix-extra.R |only tabstats-0.2.0/tabstats/R/helpers-pairwise_matrix.R |only tabstats-0.2.0/tabstats/R/helpers-table_default-extra.R | 4 tabstats-0.2.0/tabstats/R/new_pairwise_data.R |only tabstats-0.2.0/tabstats/R/table-pairwise_matrix.R |only tabstats-0.2.0/tabstats/R/table_default.R | 4 tabstats-0.2.0/tabstats/R/table_summary.R | 51 ++++++---- tabstats-0.2.0/tabstats/man/new_pairwise_data.Rd |only tabstats-0.2.0/tabstats/man/pairwise_matrix.Rd |only tabstats-0.2.0/tabstats/tests/testthat/test-corr_matrix.R | 16 +-- tabstats-0.2.0/tabstats/tests/testthat/test-pairwise_matrix.R |only 21 files changed, 72 insertions(+), 46 deletions(-)
Title: Building and Estimating Structural Equation Models
Description: A powerful, easy to use syntax for specifying and estimating complex
Structural Equation Models. Models can be estimated using Partial
Least Squares Path Modeling or Covariance-Based Structural Equation
Modeling or covariance based Confirmatory Factor Analysis (Ray, Danks, and Valdez 2021 <doi:10.2139/ssrn.3900621>).
Author: Soumya Ray [aut, ths],
Nicholas Patrick Danks [aut, cre],
Andre Calero Valdez [aut],
Juan Manuel Velasquez Estrada [ctb],
James Uanhoro [ctb],
Johannes Nakayama [ctb],
Lilian Koyan [ctb],
Laura Burbach [ctb],
Arturo Heynar Cano Bejar [ctb],
Susanne A [...truncated...]
Maintainer: Nicholas Patrick Danks <nicholasdanks@hotmail.com>
Diff between seminr versions 2.4.2 dated 2026-02-18 and 2.5.0 dated 2026-05-25
seminr-2.4.2/seminr/R/inspect_mmMatrix.R |only seminr-2.4.2/seminr/R/inspect_smMatrix.R |only seminr-2.4.2/seminr/man/get_construct_type.Rd |only seminr-2.4.2/seminr/man/is_sink.Rd |only seminr-2.5.0/seminr/DESCRIPTION | 10 seminr-2.5.0/seminr/MD5 | 124 + seminr-2.5.0/seminr/NAMESPACE | 23 seminr-2.5.0/seminr/NEWS.md | 52 seminr-2.5.0/seminr/R/boot_utils.R | 12 seminr-2.5.0/seminr/R/compute_metrics.R | 11 seminr-2.5.0/seminr/R/estimate_bootstrap.R | 30 seminr-2.5.0/seminr/R/estimate_cbsem.R | 8 seminr-2.5.0/seminr/R/estimate_pls.R | 13 seminr-2.5.0/seminr/R/estimate_pls_mga.R | 26 seminr-2.5.0/seminr/R/estimate_simplePLS.R | 13 seminr-2.5.0/seminr/R/evaluate_effects.R | 20 seminr-2.5.0/seminr/R/evaluate_measurement_model.R | 18 seminr-2.5.0/seminr/R/evaluate_model.R | 86 - seminr-2.5.0/seminr/R/evaluate_reliability.R | 62 seminr-2.5.0/seminr/R/evaluate_validity.R | 28 seminr-2.5.0/seminr/R/evaluate_warnings.R | 34 seminr-2.5.0/seminr/R/feature_consistent.R | 14 seminr-2.5.0/seminr/R/feature_higher_order.R | 48 seminr-2.5.0/seminr/R/feature_plspredict.R | 702 ++++++----- seminr-2.5.0/seminr/R/helpers-mmMatrix.R |only seminr-2.5.0/seminr/R/helpers-model.R |only seminr-2.5.0/seminr/R/helpers-smMatrix.R |only seminr-2.5.0/seminr/R/lavaan_syntax.R | 29 seminr-2.5.0/seminr/R/library.R | 114 - seminr-2.5.0/seminr/R/library_parallel.R |only seminr-2.5.0/seminr/R/plot_dot.R | 187 +- seminr-2.5.0/seminr/R/report_descriptives.R | 2 seminr-2.5.0/seminr/R/report_lavaan.R | 6 seminr-2.5.0/seminr/R/report_paths_and_intervals.R | 4 seminr-2.5.0/seminr/R/specify_interactions.R | 108 + seminr-2.5.0/seminr/README.md | 5 seminr-2.5.0/seminr/build/partial.rdb |binary seminr-2.5.0/seminr/build/vignette.rds |binary seminr-2.5.0/seminr/inst/doc/SEMinR.R | 38 seminr-2.5.0/seminr/inst/doc/SEMinR.Rmd | 72 + seminr-2.5.0/seminr/inst/doc/SEMinR.html | 97 + seminr-2.5.0/seminr/man/all_composites.Rd |only seminr-2.5.0/seminr/man/all_factors.Rd |only seminr-2.5.0/seminr/man/all_non_interactions.Rd |only seminr-2.5.0/seminr/man/as.reflective.Rd | 2 seminr-2.5.0/seminr/man/as.reflective.construct.Rd | 2 seminr-2.5.0/seminr/man/as.reflective.interaction.Rd | 2 seminr-2.5.0/seminr/man/as.reflective.measurement_model.Rd | 2 seminr-2.5.0/seminr/man/construct_items.Rd |only seminr-2.5.0/seminr/man/construct_mode.Rd |only seminr-2.5.0/seminr/man/construct_name.Rd |only seminr-2.5.0/seminr/man/construct_names.Rd |only seminr-2.5.0/seminr/man/construct_type.Rd |only seminr-2.5.0/seminr/man/dot_graph.Rd | 13 seminr-2.5.0/seminr/man/figures/model.png |binary seminr-2.5.0/seminr/man/figures/model2.png |binary seminr-2.5.0/seminr/man/is_only_endogenous.Rd |only seminr-2.5.0/seminr/man/plot.seminr_model.Rd | 4 seminr-2.5.0/seminr/man/predict.seminr_model.Rd |only seminr-2.5.0/seminr/man/predict_pls.Rd | 6 seminr-2.5.0/seminr/man/quadratic_term.Rd |only seminr-2.5.0/seminr/tests/testthat/_snaps |only seminr-2.5.0/seminr/tests/testthat/test-accessors-mmMatrix.R |only seminr-2.5.0/seminr/tests/testthat/test-assess-model.R | 39 seminr-2.5.0/seminr/tests/testthat/test-bootstrap.R | 12 seminr-2.5.0/seminr/tests/testthat/test-equal-item-count.R |only seminr-2.5.0/seminr/tests/testthat/test-hoc-bootstrap.R |only seminr-2.5.0/seminr/tests/testthat/test-parallel-setup.R |only seminr-2.5.0/seminr/tests/testthat/test-plot-bootstrapped.R | 5 seminr-2.5.0/seminr/tests/testthat/test-plot-dot-snapshots.R |only seminr-2.5.0/seminr/tests/testthat/test-pls-mga.R | 2 seminr-2.5.0/seminr/tests/testthat/test-plspredict.R | 201 ++- seminr-2.5.0/seminr/tests/testthat/test-quadratic.R |only seminr-2.5.0/seminr/tests/testthat/test-summary-cbsem.R | 10 seminr-2.5.0/seminr/tests/testthat/test-summary.R | 6 seminr-2.5.0/seminr/vignettes/SEMinR.Rmd | 72 + 76 files changed, 1494 insertions(+), 880 deletions(-)
Title: General Package for Meta-Analysis
Description: User-friendly general package providing standard methods for meta-analysis and supporting Schwarzer, Carpenter, and Rücker <DOI:10.1007/978-3-319-21416-0>, "Meta-Analysis with R" (2015):
- common effect and random effects meta-analysis;
- several plots (forest, funnel, Galbraith / radial, L'Abbe, Baujat, bubble);
- three-level meta-analysis model;
- generalised linear mixed model;
- logistic regression with penalised likelihood for rare events;
- Hartung-Knapp method for random effects model;
- Kenward-Roger method for random effects model;
- prediction interval and density of the prediction distribution;
- expected proportion of comparable studies with clinically important benefit or harm;
- statistical tests for funnel plot asymmetry;
- trim-and-fill method to evaluate bias in meta-analysis;
- meta-regression;
- cumulative meta-analysis and leave-one-out meta-analysis;
- import data from 'RevMan 5';
- produce forest plot summarising several (subgroup) meta-analyses.
Author: Guido Schwarzer [cre, aut]
Maintainer: Guido Schwarzer <guido.schwarzer@uniklinik-freiburg.de>
Diff between meta versions 8.3-0 dated 2026-04-02 and 8.5-0 dated 2026-05-25
DESCRIPTION | 17 MD5 | 84 - NAMESPACE | 22 NEWS.md | 61 - R/baujat.R | 2 R/blup.meta.R | 4 R/drapery.R | 4 R/estimates.R | 6 R/forest-internal.R | 56 R/forest.R | 2742 ++++++++++++++++++++------------------------- R/forest.metacum.R | 6 R/forest_dims.R |only R/forest_dims_internal.R |only R/forest_meta_internal.R |only R/labbe.R | 4 R/meta-het.R | 4 R/meta-internal.R | 40 R/meta-is.R | 3 R/meta-math.R | 7 R/meta-package.R | 48 R/meta-set.R | 10 R/meta-xlab.R | 7 R/metabin.R | 5 R/metacr.R | 2 R/metagen.R | 5 R/metainc.R | 5 R/metaprop.R | 2 R/metarate.R | 2 R/nnt.R | 2 R/print.meta.R | 14 R/print.metacum.R | 10 R/print.summary.meta.R | 2 R/rd.R | 2 R/read.cdir-internal.R |only R/read.cdir.R | 238 ++- R/save_plot.R |only R/settings.meta.R | 10 R/trimfill.R | 9 build/vignette.rds |binary inst/doc/meta-tutorial.pdf |binary inst/doc/meta-workflow.pdf |binary man/forest.meta.Rd | 173 +- man/forest_dims.Rd |only man/meta-package.Rd | 6 man/read.cdir.Rd | 9 man/settings.meta.Rd | 4 46 files changed, 1793 insertions(+), 1834 deletions(-)
Title: Fractional Factorial Designs with 2-Level Factors
Description: Regular and non-regular Fractional Factorial 2-level designs
can be created. Furthermore, analysis tools for Fractional
Factorial designs with 2-level factors are offered (main
effects and interaction plots for all factors simultaneously,
cube plot for looking at the simultaneous effects of three
factors, full or half normal plot, alias structure in a more
readable format than with the built-in function alias).
Author: Ulrike Groemping [aut, cre]
Maintainer: Ulrike Groemping <ulrike.groemping@bht-berlin.de>
Diff between FrF2 versions 2.3-4 dated 2025-04-16 and 2.3-5 dated 2026-05-25
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- R/CIG.R | 4 ++-- R/colpick.R | 4 ++-- R/estimable2fis.R | 20 ++++++++++---------- R/mapcalc.block.R | 20 ++++++++++---------- build/partial.rdb |binary inst/NEWS | 6 ++++++ man/DanielPlot.Rd | 2 +- 9 files changed, 43 insertions(+), 37 deletions(-)
Title: Read and Write from the System Clipboard
Description: Simple utility functions to read from and write to
the Windows, OS X, and X11 clipboards.
Author: Matthew Lincoln [aut, cre] ,
Louis Maddox [ctb],
Steve Simpson [ctb],
Jennifer Bryan [ctb]
Maintainer: Matthew Lincoln <matthew.d.lincoln@gmail.com>
Diff between clipr versions 0.8.0 dated 2022-02-21 and 0.8.1 dated 2026-05-25
DESCRIPTION | 11 - MD5 | 28 +-- NEWS.md | 6 R/clipboard.R | 2 R/clipr-package.R | 6 R/linux_clipboard.R | 23 +-- R/read_clip_tbl.R | 7 README.md | 29 ++- build/vignette.rds |binary inst/doc/developing-with-clipr.html | 274 ++++++++++++++++++++++++++++++++---- man/clipr-package.Rd |only man/clipr.Rd | 1 man/read_clip_tbl.Rd | 3 man/write_clip.Rd | 2 tests/testthat/test-render.R | 17 ++ tests/testthat/test-sizes.R |only 16 files changed, 337 insertions(+), 72 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-06-15 0.1.1
Title: Extend 'ggplot2' with Layers and Scales for Spatial Uncertainty
Visualization
Description: Provide specialized 'ggplot2' layers and scales for spatial
uncertainty visualization, including bivariate choropleth maps, pixel maps,
glyph maps, and exceedance probability maps.
Author: Xueqi Ma [aut, cre, cph],
Emi Tanaka [aut, ths] ,
Weihao Li [ths] ,
Quan Vu [ths],
Francis Hui [ths]
Maintainer: Xueqi Ma <maggiexma07@gmail.com>
Diff between ggincerta versions 0.1.0 dated 2025-11-11 and 0.2.0 dated 2026-05-25
ggincerta-0.1.0/ggincerta/R/guide-glyph.r |only ggincerta-0.1.0/ggincerta/R/scale-exceed.R |only ggincerta-0.1.0/ggincerta/man/ggsfgl.Rd |only ggincerta-0.1.0/ggincerta/man/ggsfpi.Rd |only ggincerta-0.1.0/ggincerta/man/scale_bivariate.Rd |only ggincerta-0.1.0/ggincerta/man/scale_exceed.Rd |only ggincerta-0.1.0/ggincerta/tests/testthat/_snaps/geom-sf-exceed |only ggincerta-0.1.0/ggincerta/tests/testthat/_snaps/geom-sf-glyph/glyph-map.svg |only ggincerta-0.1.0/ggincerta/tests/testthat/_snaps/geom-sf-glyph/icone-glyph-map.svg |only ggincerta-0.1.0/ggincerta/tests/testthat/_snaps/geom-sf-glyph/pixel-map-with-bottom-horizontal-guides.svg |only ggincerta-0.1.0/ggincerta/tests/testthat/_snaps/geom-sf-glyph/semi-glyph-map.svg |only ggincerta-0.1.0/ggincerta/tests/testthat/_snaps/geom-sf-pixel/pixel-map-with-nas.svg |only ggincerta-0.1.0/ggincerta/tests/testthat/_snaps/scale-bivariate/bivariate-map-with-nas.svg |only ggincerta-0.1.0/ggincerta/tests/testthat/test-geom-sf-exceed.R |only ggincerta-0.2.0/ggincerta/DESCRIPTION | 24 ggincerta-0.2.0/ggincerta/MD5 | 108 ggincerta-0.2.0/ggincerta/NAMESPACE | 27 ggincerta-0.2.0/ggincerta/NEWS.md | 24 ggincerta-0.2.0/ggincerta/R/bivar-fade-palette.R |only ggincerta-0.2.0/ggincerta/R/bivar-palette.R | 63 ggincerta-0.2.0/ggincerta/R/duo.R | 30 ggincerta-0.2.0/ggincerta/R/geom-sf-chernoff.R |only ggincerta-0.2.0/ggincerta/R/geom-sf-glyph.R | 246 - ggincerta-0.2.0/ggincerta/R/geom-sf-pin.R |only ggincerta-0.2.0/ggincerta/R/geom-sf-pixel.R | 227 - ggincerta-0.2.0/ggincerta/R/geom_sf_dualmap.R |only ggincerta-0.2.0/ggincerta/R/guide-bivariate.R | 551 +- ggincerta-0.2.0/ggincerta/R/guide-glyph.R |only ggincerta-0.2.0/ggincerta/R/guide-vsup.R |only ggincerta-0.2.0/ggincerta/R/internal-imports.R | 1 ggincerta-0.2.0/ggincerta/R/scale-bivariate-manual.R |only ggincerta-0.2.0/ggincerta/R/scale-bivariate.R | 551 +- ggincerta-0.2.0/ggincerta/R/scale-chernoff.R |only ggincerta-0.2.0/ggincerta/R/scale-glyph-continuous.R | 50 ggincerta-0.2.0/ggincerta/R/scale-pixel.R |only ggincerta-0.2.0/ggincerta/R/scale-vsup.R |only ggincerta-0.2.0/ggincerta/R/vsup-quantize.R |only ggincerta-0.2.0/ggincerta/R/vsup_palette.R |only ggincerta-0.2.0/ggincerta/README.md | 162 ggincerta-0.2.0/ggincerta/build |only ggincerta-0.2.0/ggincerta/data/nc.rda |binary ggincerta-0.2.0/ggincerta/man/bivar_fade_palette.Rd |only ggincerta-0.2.0/ggincerta/man/bivar_palette.Rd |only ggincerta-0.2.0/ggincerta/man/bivariate_scale.Rd |only ggincerta-0.2.0/ggincerta/man/duo.Rd | 16 ggincerta-0.2.0/ggincerta/man/figures/README-unnamed-chunk-10-1.png |only ggincerta-0.2.0/ggincerta/man/figures/README-unnamed-chunk-3-1.png |binary ggincerta-0.2.0/ggincerta/man/figures/README-unnamed-chunk-4-1.png |binary ggincerta-0.2.0/ggincerta/man/figures/README-unnamed-chunk-5-1.png |binary ggincerta-0.2.0/ggincerta/man/figures/README-unnamed-chunk-6-1.png |binary ggincerta-0.2.0/ggincerta/man/figures/README-unnamed-chunk-7-1.png |binary ggincerta-0.2.0/ggincerta/man/figures/README-unnamed-chunk-8-1.png |binary ggincerta-0.2.0/ggincerta/man/figures/README-unnamed-chunk-9-1.png |only ggincerta-0.2.0/ggincerta/man/geom_sf_dualmap.Rd |only ggincerta-0.2.0/ggincerta/man/geom_sf_glyph.Rd |only ggincerta-0.2.0/ggincerta/man/geom_sf_pixel.Rd |only ggincerta-0.2.0/ggincerta/man/ggincerta-package.Rd | 4 ggincerta-0.2.0/ggincerta/man/guide_bivariate.Rd |only ggincerta-0.2.0/ggincerta/man/guide_glyph.Rd |only ggincerta-0.2.0/ggincerta/man/guide_vsup.Rd |only ggincerta-0.2.0/ggincerta/man/manual_bivariate_scale.Rd |only ggincerta-0.2.0/ggincerta/man/scale_fill_pixel.Rd |only ggincerta-0.2.0/ggincerta/man/vsup_palette.Rd |only ggincerta-0.2.0/ggincerta/man/vsup_quantize.Rd |only ggincerta-0.2.0/ggincerta/man/vsup_scale.Rd |only ggincerta-0.2.0/ggincerta/tests/testthat/_snaps/geom-sf-dualmap |only ggincerta-0.2.0/ggincerta/tests/testthat/_snaps/geom-sf-glyph/glyph-map-chernoff.svg |only ggincerta-0.2.0/ggincerta/tests/testthat/_snaps/geom-sf-glyph/glyph-map-drop.svg |only ggincerta-0.2.0/ggincerta/tests/testthat/_snaps/geom-sf-glyph/glyph-map-regular.svg |only ggincerta-0.2.0/ggincerta/tests/testthat/_snaps/geom-sf-pixel/pixel-map.svg | 2161 +++++++--- ggincerta-0.2.0/ggincerta/tests/testthat/_snaps/scale-bivariate.md |only ggincerta-0.2.0/ggincerta/tests/testthat/_snaps/scale-bivariate/bivariate-map-with-left-guide.svg | 416 - ggincerta-0.2.0/ggincerta/tests/testthat/_snaps/scale-bivariate/bivariate-map.svg | 396 - ggincerta-0.2.0/ggincerta/tests/testthat/_snaps/scale-vsup |only ggincerta-0.2.0/ggincerta/tests/testthat/test-duo.R | 6 ggincerta-0.2.0/ggincerta/tests/testthat/test-geom-sf-dualmap.R |only ggincerta-0.2.0/ggincerta/tests/testthat/test-geom-sf-glyph.R | 84 ggincerta-0.2.0/ggincerta/tests/testthat/test-geom-sf-pixel.R | 98 ggincerta-0.2.0/ggincerta/tests/testthat/test-scale-bivariate.R | 247 + ggincerta-0.2.0/ggincerta/tests/testthat/test-scale-vsup.R |only 80 files changed, 3708 insertions(+), 1784 deletions(-)
Title: An Automated Way to Estimate EC50 for Stratified Datasets
Description: Estimates effective concentrations that reduce growth by 50 percent
(EC50) in multi-isolate and stratified dose-response experiments. The package
wraps model fitting from drc, returns data-frame outputs, and provides helper
functions for data checks, model selection, fitted-curve plotting, prediction,
diagnostics, and reporting. Information about drc is available in Ritz C,
Baty F, Streibig JC, Gerhard D (2015) <doi:10.1371/journal.pone.0146021>.
Author: Kaique dos S. Alves [aut, cre]
Maintainer: Kaique dos S. Alves <kaiquedsalves@gmail.com>
Diff between ec50estimator versions 0.1.0 dated 2020-09-15 and 1.0.0 dated 2026-05-24
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Title: Analysis of Bivariate Survival Data Based on Copulas
Description: Simulating bivariate survival data from various copula models.
Estimating bivariate copula models with semiparametric or Weibull margins under various copulas.
Two different ways to estimate the association parameter in copula models are implemented.
A goodness-of-fit test for the Gumbel and Clayton copulas is also implemented for semiparametric models.
See Emura, Lin and Wang (2010) <doi:10.1016/j.csda.2010.03.013> for details.
Author: Takeshi Emura [aut, cre]
Maintainer: Takeshi Emura <takeshiemura@gmail.com>
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Title: Hierarchical Bayesian Area-Level Small Area Estimation Models
Description: Fits area-level Hierarchical Bayesian Small Area Estimation
models. The methodological foundation follows the standard area-level
Small Area Estimation literature, primarily Rao and Molina (2015,
ISBN: 9781118735787) <doi:10.1002/9781118735855>, while computational
implementation is adapted to the parameterisation and
prior-specification conventions of the 'brms' package
<doi:10.18637/jss.v080.i01>, which targets the
Stan back-end. Supports a principled Bayesian workflow
<doi:10.48550/arXiv.2011.01808>, with prior
predictive checks, convergence diagnostics, model comparison,
spatial random effects, custom distributions, missing-data
handling, and a bilingual 'shiny' application for non-programmer
analysts.
Author: Achmad Syahrul Choir [aut, cre] ,
Saniyyah Sri Nurhayati [aut],
Sofi Zamzanah [aut],
Arsyka Laila Oktalia Siregar [aut]
Maintainer: Achmad Syahrul Choir <madsyair@stis.ac.id>
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hbsaems-1.0.0/hbsaems/tests/testthat/test-sae-benchmark.R |only hbsaems-1.0.0/hbsaems/tests/testthat/test-sae-transforms.R |only hbsaems-1.0.0/hbsaems/tests/testthat/test-shiny-suggests-prefixes.R |only hbsaems-1.0.0/hbsaems/tests/testthat/test-shiny-translations.R |only hbsaems-1.0.0/hbsaems/tests/testthat/test-spatial-arg-validation.R |only hbsaems-1.0.0/hbsaems/tests/testthat/test-spatial-validate.R |only hbsaems-1.0.0/hbsaems/tests/testthat/test-spatial-weight.R |only hbsaems-1.0.0/hbsaems/tests/testthat/test-update-hbm-mock.R |only hbsaems-1.0.0/hbsaems/vignettes/complete-workflow.Rmd |only 213 files changed, 9112 insertions(+), 4481 deletions(-)
Title: Causal Inference with Spatio-Temporal Data
Description: Spatio-temporal causal inference based on point process data.
You provide the raw data of locations and timings of treatment and
outcome events, specify counterfactual scenarios, and the package
estimates causal effects over specified spatial and temporal windows.
See Papadogeorgou, et al. (2022) <doi:10.1111/rssb.12548> and
Mukaigawara, et al. (2024) <doi:10.31219/osf.io/5kc6f>.
Author: Mitsuru Mukaigawara [cre, aut] ,
Lingxiao Zhou [aut],
Georgia Papadogeorgou [aut] ,
Jason Lyall [aut] ,
Kosuke Imai [aut]
Maintainer: Mitsuru Mukaigawara <mitsuru_mukaigawara@g.harvard.edu>
Diff between geocausal versions 0.4.0 dated 2026-02-18 and 0.4.1 dated 2026-05-24
DESCRIPTION | 10 +++++----- MD5 | 13 ++++++++++--- NAMESPACE | 2 ++ NEWS.md | 4 ++++ R/get_cate_sens.R |only R/get_sens.R |only R/sens_utils.R |only man/get_cate_sens.Rd |only man/get_linear_prog.Rd |only man/get_sens.Rd |only man/sens_weighted_surf.Rd |only 11 files changed, 21 insertions(+), 8 deletions(-)
Title: Framework for Easy Statistical Modeling, Visualization, and
Reporting
Description: A meta-package that installs and loads a set of packages from
'easystats' ecosystem in a single step. This collection of packages provide
a unifying and consistent framework for statistical modeling, visualization,
and reporting. Additionally, it provides articles targeted at instructors for
teaching 'easystats', and a dashboard targeted at new R users for easily
conducting statistical analysis by accessing summary results, model fit indices,
and visualizations with minimal programming.
Author: Daniel Luedecke [aut, cre] ,
Dominique Makowski [aut] ,
Mattan S. Ben-Shachar [aut] ,
Indrajeet Patil [aut] ,
Brenton M. Wiernik [aut] ,
Etienne Bacher [aut] ,
Remi Theriault [aut]
Maintainer: Daniel Luedecke <d.luedecke@uke.de>
Diff between easystats versions 0.7.5 dated 2025-07-11 and 0.7.6 dated 2026-05-24
DESCRIPTION | 16 ++-- MD5 | 43 ++++++------ NAMESPACE | 5 + NEWS.md | 10 ++ R/easystats_citations.R | 89 +++++++++++-------------- R/easystats_downloads.R |only R/print.R |only R/utils.R | 37 +++++++++- R/zzz.R | 67 +++++++++++++++++- README.md | 106 ++++++++++++++++++++++-------- build/vignette.rds |binary inst/WORDLIST | 3 man/easystats_citations.Rd | 2 man/easystats_downloads.Rd |only man/easystats_update.Rd | 2 man/figures/README-6-1.png |binary man/figures/depnetwork-1.png |binary man/figures/logo.png |binary man/figures/logo_wall.png |binary man/install_latest.Rd | 2 man/model_dashboard.Rd | 2 man/reexports.Rd | 2 tests/testthat/test-easystats-downloads.R |only tests/testthat/test-load-quietly.R |only tests/testthat/test-model-dashboard.R | 7 + 25 files changed, 271 insertions(+), 122 deletions(-)
Title: Analysis and Visualization of Circular Data
Description: Circumplex models, which organize constructs in a circle around two
underlying dimensions, are popular for studying interpersonal functioning,
mood/affect, and vocational preferences/environments. This package provides
tools for analyzing and visualizing circular data, including scoring
functions for relevant instruments and a generalization of the bootstrapped
structural summary method from Zimmermann & Wright (2017)
<doi:10.1177/1073191115621795> and functions for creating publication-ready
tables and figures from the results.
Author: Jeffrey Girard [aut, cre] ,
Johannes Zimmermann [aut] ,
Aidan Wright [aut]
Maintainer: Jeffrey Girard <me@jmgirard.com>
Diff between circumplex versions 1.0.2 dated 2025-09-23 and 1.1.0 dated 2026-05-24
DESCRIPTION | 8 MD5 | 94 NAMESPACE | 1 NEWS.md | 20 R/RcppExports.R | 78 R/ssm_bootstrap.R | 37 build/partial.rdb |binary build/vignette.rds |binary inst/doc/intermediate-ssm-analysis.R | 308 inst/doc/intermediate-ssm-analysis.html | 3726 +++++----- inst/doc/introduction-to-ssm-analysis.R | 648 - inst/doc/introduction-to-ssm-analysis.html | 2136 ++--- inst/doc/using-instruments.R | 120 inst/doc/using-instruments.Rmd | 16 inst/doc/using-instruments.html | 1794 ++-- man/anchors.Rd | 10 man/circumplex-package.Rd | 1 man/figures/README-plot-1.png |binary man/figures/README-plot2-1.png |binary man/figures/README-plot3-1.png |binary man/html_render.Rd | 4 man/instruments.Rd | 10 man/ipsatize.Rd | 8 man/items.Rd | 10 man/norm_standardize.Rd | 8 man/norms.Rd | 10 man/scales.Rd | 10 man/score.Rd | 8 man/self_standardize.Rd | 8 man/ssm_analyze.Rd | 14 man/ssm_parameters.Rd | 14 man/ssm_score.Rd | 14 man/ssm_table.Rd | 12 src/RcppExports.cpp | 6 src/circular.cpp | 2 src/parameters.cpp | 31 tests/testthat/_snaps/ssm_plot/cross-zero-circle.svg | 136 tests/testthat/_snaps/ssm_plot/group-constrast-correlation-ssm.svg | 494 - tests/testthat/_snaps/ssm_plot/many-circle-plots.svg | 174 tests/testthat/_snaps/ssm_plot/many-circle-repel.svg | 172 tests/testthat/_snaps/ssm_plot/measure-contrast-circle-ssm.svg | 154 tests/testthat/_snaps/ssm_plot/measure-contrast-ssm.svg | 352 tests/testthat/_snaps/ssm_plot/single-group-correlation-ssm.svg | 136 tests/testthat/_snaps/ssm_plot/single-group-mean-ssm-no-palette.svg | 136 tests/testthat/_snaps/ssm_plot/single-group-mean-ssm-with-labels.svg | 186 tests/testthat/_snaps/ssm_plot/single-group-mean-ssm.svg | 136 tests/testthat/test-ssm_bootstrap.R | 49 vignettes/using-instruments.Rmd | 16 48 files changed, 5695 insertions(+), 5612 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 1.2.3 dated 2026-02-11 and 1.2.4 dated 2026-05-24
DESCRIPTION | 8 +++---- MD5 | 57 +++++++++++++++++++++++++++++++++++----------------- R/dataset.R | 13 ++++++++++- build |only man/AIG.Rd |only man/DATAstudio.Rd | 15 +++++++------ man/alps.Rd | 3 +- man/bournemouth.Rd |only man/california.Rd | 7 ++---- man/china_storm.Rd |only man/crypto.Rd |only man/danube.Rd | 5 +--- man/dataset.Rd | 9 ++++---- man/epilepsy.Rd | 16 +++++++------- man/eurorain.Rd |only man/faang.Rd | 13 +++++------ man/flights.Rd | 27 ++++++++++++------------ man/fort.Rd |only man/heatwaves.Rd |only man/hongkong.Rd | 5 +--- man/hurricane.Rd | 6 ++--- man/kfrench.Rd |only man/landslide.Rd | 8 ++----- man/lisbon.Rd | 7 ++++-- man/logreturns.Rd |only man/loss.Rd | 8 +++---- man/madeira.Rd | 13 +++++++++-- man/maxtemps.Rd |only man/netherlands.Rd |only man/pandemics.Rd |only man/pnw.Rd |only man/rain_germany.Rd |only man/seine.Rd |only man/sp500a.Rd |only man/streamflow.Rd |only man/sydney.Rd | 7 +++++- man/thefts.Rd | 9 ++++---- man/us_torn.Rd |only man/venice.Rd |only man/waveheights.Rd |only 40 files changed, 141 insertions(+), 95 deletions(-)
Title: Interval Estimation by Likelihood Method
Description: Currently used CI method has its limitation when the test statistics are asymmetrical (chi-square test, F-test) or the model functions are non-linear. It can be overcome by using the likelihood functions for the interval estimation. 'inteli' package now supports interval estimation for the mean, variance, variance ratio, binomial distribution, Poisson distribution, odds ratio, risk difference, relative risk and their likelihood function plots. Testing functions are also provided.
Author: Minkyu Kim [aut, cre],
Kyun-Seop Bae [aut]
Maintainer: Minkyu Kim <mkim@acr.kr>
Diff between inteli versions 0.1.2 dated 2026-01-07 and 0.2.0 dated 2026-05-24
DESCRIPTION | 8 +-- MD5 | 34 +++++++-------- R/lib.R | 100 ++++++++++++++++++++-------------------------- R/lim.R | 100 ++++++++++++++++++++-------------------------- R/liod.R | 108 ++++++++++++++++++++++---------------------------- R/lipois.R | 97 ++++++++++++++++++++------------------------ R/lir.R | 101 ++++++++++++++++++++++------------------------ R/lird.R | 103 +++++++++++++++++++++-------------------------- R/lirr.R | 103 +++++++++++++++++++++-------------------------- R/liv.R | 98 ++++++++++++++++++++------------------------- man/inteli-package.Rd | 2 man/lib.Rd | 1 man/lim.Rd | 46 ++++++++++----------- man/liod.Rd | 54 ++++++++++++------------- man/lir.Rd | 50 +++++++++++------------ man/lird.Rd | 54 ++++++++++++------------- man/lirr.Rd | 54 ++++++++++++------------- man/liv.Rd | 48 +++++++++++----------- 18 files changed, 539 insertions(+), 622 deletions(-)
Title: Genetic Analysis Package
Description: As first reported [Zhao, J. H. 2007. "gap: Genetic Analysis Package". J Stat Soft 23(8):1-18.
<doi:10.18637/jss.v023.i08>], it is designed as an integrated package for genetic data
analysis of both population and family data. Currently, it contains functions for
sample size calculations of both population-based and family-based designs, probability
of familial disease aggregation, kinship calculation, statistics in linkage analysis,
and association analysis involving genetic markers including haplotype analysis with or
without environmental covariates. Over years, the package has been developed in-between
many projects hence also in line with the name (gap).
Author: Jing Hua Zhao [aut, cre] ,
Kurt Hornik [ctb],
Brian Ripley [ctb],
Uwe Ligges [ctb],
Achim Zeileis [ctb]
Maintainer: Jing Hua Zhao <jinghuazhao@hotmail.com>
Diff between gap versions 1.14 dated 2026-02-19 and 1.15.1 dated 2026-05-24
gap-1.14/gap/vignettes/nature-genetics.csl |only gap-1.15.1/gap/ChangeLog | 20 gap-1.15.1/gap/DESCRIPTION | 19 gap-1.15.1/gap/MD5 | 135 +++--- gap-1.15.1/gap/NAMESPACE | 24 + gap-1.15.1/gap/R/ACDE.R |only gap-1.15.1/gap/R/AE3.R | 4 gap-1.15.1/gap/R/ESplot.R | 168 +++++--- gap-1.15.1/gap/R/METAL_forestplot.R | 12 gap-1.15.1/gap/R/ccsize.R | 233 +++++------ gap-1.15.1/gap/R/cs.R | 45 +- gap-1.15.1/gap/R/fbsize.R | 16 gap-1.15.1/gap/R/gap.R | 15 gap-1.15.1/gap/R/gcontrol.R | 2 gap-1.15.1/gap/R/hwe.R | 347 ++++++++++------ gap-1.15.1/gap/R/kin.morgan.R | 2 gap-1.15.1/gap/R/metap.R | 262 ++++++++---- gap-1.15.1/gap/R/metareg.R | 283 ++++++------- gap-1.15.1/gap/R/mhtplot.R | 599 +++++++++++++++++++--------- gap-1.15.1/gap/R/mhtplot.trunc.R | 603 ++++++++++++++++++++--------- gap-1.15.1/gap/R/mhtplot2.R | 70 +-- gap-1.15.1/gap/R/mr.R | 296 ++++++++------ gap-1.15.1/gap/R/mr_forestplot.R | 110 +++-- gap-1.15.1/gap/R/mvmeta.R | 346 ++++++++++++---- gap-1.15.1/gap/R/pbsize.R | 10 gap-1.15.1/gap/R/pedtodot_verbatim.R | 13 gap-1.15.1/gap/R/qqfun.R | 115 +++-- gap-1.15.1/gap/R/qqunif.R | 198 ++++++--- gap-1.15.1/gap/R/utils.R | 2 gap-1.15.1/gap/build/partial.rdb |binary gap-1.15.1/gap/build/vignette.rds |binary gap-1.15.1/gap/data/hg18.rda |binary gap-1.15.1/gap/data/hg19.rda |binary gap-1.15.1/gap/data/hg38.rda |binary gap-1.15.1/gap/inst/REFERENCES.bib | 13 gap-1.15.1/gap/inst/doc/gap.R |only gap-1.15.1/gap/inst/doc/gap.Rmd |only gap-1.15.1/gap/inst/doc/gap.html |only gap-1.15.1/gap/inst/doc/gap_incl.html |only gap-1.15.1/gap/inst/doc/shinygap.Rmd | 5 gap-1.15.1/gap/inst/doc/shinygap.html | 7 gap-1.15.1/gap/inst/nature-genetics.csl |only gap-1.15.1/gap/man/ACDE.Rd |only gap-1.15.1/gap/man/AE3.Rd | 4 gap-1.15.1/gap/man/ESplot.Rd | 93 +++- gap-1.15.1/gap/man/METAL_forestplot.Rd | 1 gap-1.15.1/gap/man/ccsize.Rd | 189 ++++----- gap-1.15.1/gap/man/cs.Rd | 35 + gap-1.15.1/gap/man/fbsize.Rd | 12 gap-1.15.1/gap/man/gap.Rd | 1 gap-1.15.1/gap/man/gcontrol.Rd | 3 gap-1.15.1/gap/man/hg18.Rd | 2 gap-1.15.1/gap/man/hg19.Rd | 2 gap-1.15.1/gap/man/hg38.Rd | 2 gap-1.15.1/gap/man/hmht.control.Rd | 39 + gap-1.15.1/gap/man/hwe.Rd | 160 +++++-- gap-1.15.1/gap/man/kin.morgan.Rd | 2 gap-1.15.1/gap/man/metap.Rd | 176 +++++--- gap-1.15.1/gap/man/metareg.Rd | 138 ++++-- gap-1.15.1/gap/man/mht.control.Rd | 57 +- gap-1.15.1/gap/man/mhtplot.Rd | 311 ++++++++++---- gap-1.15.1/gap/man/mhtplot.trunc.Rd | 179 +++++--- gap-1.15.1/gap/man/mhtplot2.Rd | 47 -- gap-1.15.1/gap/man/mr.Rd | 115 +++-- gap-1.15.1/gap/man/mr_forestplot.Rd | 90 +++- gap-1.15.1/gap/man/mvmeta.Rd | 141 ++++-- gap-1.15.1/gap/man/pbsize.Rd | 10 gap-1.15.1/gap/man/pedtodot_verbatim.Rd | 10 gap-1.15.1/gap/man/qqfun.Rd | 13 gap-1.15.1/gap/man/qqunif.Rd | 42 -- gap-1.15.1/gap/src/pfc.sim.f | 6 gap-1.15.1/gap/vignettes/gap.Rmd |only gap-1.15.1/gap/vignettes/shinygap.Rmd | 5 73 files changed, 3723 insertions(+), 2136 deletions(-)
Title: Fragment Analysis in R
Description: Performs fragment analysis using genetic data coming from capillary electrophoresis machines. These are files with FSA extension which stands for FASTA-type file, and .txt files from Beckman CEQ 8000 system, both contain DNA fragment intensities read by machinery. In addition to visualization, it performs automatic scoring of SSRs (Sample Sequence Repeats; a type of genetic marker very common across the genome) and other type of PCR markers (standing for Polymerase Chain Reaction) in biparental populations such as F1, F2, BC (backcross), and diversity panels (collection of genetic diversity).
Author: Giovanny Covarrubias-Pazaran [aut, cre] ,
Luis Diaz-Garcia [aut],
Brandon Schlautman [aut],
Walter Salazar [aut],
Juan Zalapa [aut]
Maintainer: Giovanny Covarrubias-Pazaran <cova_ruber@live.com.mx>
Diff between Fragman versions 1.0.9 dated 2018-01-14 and 1.1.0 dated 2026-05-24
Fragman-1.0.9/Fragman/data/datalist |only Fragman-1.1.0/Fragman/DESCRIPTION | 32 ++++++++++++++++-------- Fragman-1.1.0/Fragman/MD5 | 19 +++++++------- Fragman-1.1.0/Fragman/R/find.ladder.R | 2 - Fragman-1.1.0/Fragman/R/ladder.info.attach.R | 36 ++++----------------------- Fragman-1.1.0/Fragman/R/read.abif.R | 1 Fragman-1.1.0/Fragman/R/storing.inds.R | 5 ++- Fragman-1.1.0/Fragman/R/utils.R |only Fragman-1.1.0/Fragman/README.md |only Fragman-1.1.0/Fragman/data/my.plants.RData |binary Fragman-1.1.0/Fragman/inst/CITATION | 22 ++++++++++------ Fragman-1.1.0/Fragman/man/read.abif.Rd | 1 12 files changed, 57 insertions(+), 61 deletions(-)
Title: Convenient Functions for Exploratory Data Analysis
Description: A collection of convenient functions to facilitate common tasks in exploratory data analysis.
Some common tasks include generating summary tables of variables,
displaying tables as a 'flextable' or a 'kable' and visualising variables using 'ggplot2'.
Labels stating the source file with run time can be easily generated
for annotation in tables and plots.
Author: Tomas Sou [aut, cre]
Maintainer: Tomas Sou <tomas.sou@carexer.com>
Diff between edar versions 0.0.6 dated 2025-11-25 and 0.0.7 dated 2026-05-24
DESCRIPTION | 13 +-- MD5 | 55 ++++++++------ NAMESPACE | 5 + NEWS.md | 24 ++++++ R/func_all.R | 120 ++++++++++++++++++++++++++++--- R/func_gg.R | 53 ++++++++++--- README.md | 51 +++++-------- man/edar-package.Rd | 1 man/figures/README-unnamed-chunk-3-1.png |binary man/figures/README-unnamed-chunk-4-1.png |binary man/figures/README-unnamed-chunk-4-2.png |binary man/figures/README-unnamed-chunk-4-3.png |binary man/figures/README-unnamed-chunk-4-4.png |binary man/figures/README-unnamed-chunk-4-5.png |only man/figures/README-unnamed-chunk-5-1.png |binary man/figures/README-unnamed-chunk-5-2.png |binary man/figures/README-unnamed-chunk-5-3.png |binary man/figures/README-unnamed-chunk-5-4.png |binary man/figures/README-unnamed-chunk-5-5.png |only man/figures/README-unnamed-chunk-5-6.png |only man/figures/README-unnamed-chunk-6-1.png |only man/figures/README-unnamed-chunk-6-2.png |only man/figures/README-unnamed-chunk-6-3.png |only man/figures/README-unnamed-chunk-6-4.png |only man/figures/README-unnamed-chunk-6-5.png |only man/geo_cv.Rd |only man/geo_mean.Rd |only man/geo_sd.Rd |only man/ggout.Rd |only man/ggsrc.Rd | 3 man/ggxy.Rd | 14 +-- man/label_src.Rd | 2 man/summ_by.Rd | 15 +++ man/summ_cat.Rd | 6 + man/tab2v.Rd |only 35 files changed, 270 insertions(+), 92 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-05-25 1.0.10
2015-07-15 1.0.8
2015-01-13 1.0-3
2013-03-29 1.0-2
2011-11-02 1.0-1
2010-12-21 1.0
Title: Nonparametric Bounds for the Average Causal Effect Due to Balke
and Pearl and Extensions
Description: Implementation of the nonparametric bounds for the average
causal effect under an instrumental variable model by Balke and Pearl
(Bounds on Treatment Effects from Studies with Imperfect Compliance,
JASA, 1997, 92, 439, 1171-1176, <doi:10.1080/01621459.1997.10474074>). The package
can calculate bounds for a binary outcome, a binary
treatment/phenotype, and an instrument with either 2 or 3 categories.
The package implements bounds for situations where these 3 variables
are measured in the same dataset (trivariate data) or where the
outcome and instrument are measured in one study and the
treatment/phenotype and instrument are measured in another study
(bivariate data).
Author: Tom Palmer [aut, cre] ,
Roland Ramsahai [aut] ,
Vanessa Didelez [aut] ,
Nuala Sheehan [aut]
Maintainer: Tom Palmer <remlapmot@hotmail.com>
Diff between bpbounds versions 0.1.6 dated 2024-06-13 and 0.1.7 dated 2026-05-24
bpbounds-0.1.6/bpbounds/R/bpbounds-package.r |only bpbounds-0.1.7/bpbounds/DESCRIPTION | 26 bpbounds-0.1.7/bpbounds/MD5 | 34 - bpbounds-0.1.7/bpbounds/NEWS.md | 8 bpbounds-0.1.7/bpbounds/R/bpbounds-package.R |only bpbounds-0.1.7/bpbounds/R/bpbounds.R | 32 - bpbounds-0.1.7/bpbounds/R/bpbounds_calc_tri_z3.R | 13 bpbounds-0.1.7/bpbounds/R/bpbounds_tri_x2y2z2.R | 3 bpbounds-0.1.7/bpbounds/README.md | 2 bpbounds-0.1.7/bpbounds/build/partial.rdb |binary bpbounds-0.1.7/bpbounds/build/vignette.rds |binary bpbounds-0.1.7/bpbounds/inst/doc/bpbounds.R | 37 - bpbounds-0.1.7/bpbounds/inst/doc/bpbounds.Rmd | 66 +- bpbounds-0.1.7/bpbounds/inst/doc/bpbounds.html | 450 ++++++++--------- bpbounds-0.1.7/bpbounds/man/bpbounds-package.Rd | 6 bpbounds-0.1.7/bpbounds/man/bpbounds.Rd | 10 bpbounds-0.1.7/bpbounds/tests/testthat/test-bpbounds.R | 154 +++-- bpbounds-0.1.7/bpbounds/vignettes/bibliography.bib | 5 bpbounds-0.1.7/bpbounds/vignettes/bpbounds.Rmd | 66 +- 19 files changed, 476 insertions(+), 436 deletions(-)
Title: Fast Iterative Filtering (FIF) with Portable FFT Backend
Description: Provides an R interface to a C implementation of Fast Iterative Filtering (FIF)
for decomposing a univariate signal into intrinsic mode functions (IMFs) and a residual.
The package uses Fast Fourier Transform library FFTW, if found. If not, it provides
instructions to install it for your OS. This is recommended, as R's internal fft(), while
avoiding external FFT dependencies, is two orders of magnitude slower. See vignette
'Installing FFTW for RFIF' for RFIF installation instructions.
Author: Chuck Coleman [aut, cre]
Maintainer: Chuck Coleman <cdcoleman113@gmail.com>
This is a re-admission after prior archival of version 1.0.1 dated 2026-04-10
Diff between RFIF versions 1.0.1 dated 2026-04-10 and 1.0.2 dated 2026-05-24
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NEWS.md | 4 ++++ build/vignette.rds |binary inst/doc/install-fftw3l.html | 4 ++-- src/FFT.h | 8 -------- src/Fif.c | 15 ++++++--------- 7 files changed, 21 insertions(+), 28 deletions(-)
Title: Scraper for National Hockey League Data
Description: Scrapes and cleans data from the 'NHL' and 'ESPN' APIs into data.frames and lists. Wraps 125+ endpoints documented in <https://github.com/RentoSaijo/nhlscraper/wiki> from high-level multi-season summaries and award winners to low-level decisecond replays and bookmakers' odds, making them more accessible. Features cleaning and visualization tools, primarily for play-by-plays.
Author: Rento Saijo [aut, cre, cph] ,
Lars Skytte [ctb],
Jack Pallotta [ctb]
Maintainer: Rento Saijo <rentosaijo0527@gmail.com>
Diff between nhlscraper versions 0.6.0 dated 2026-04-07 and 0.6.1 dated 2026-05-24
nhlscraper-0.6.0/nhlscraper/man/dot-html_on_ice_can_override_strength_context.Rd |only nhlscraper-0.6.0/nhlscraper/man/dot-html_on_ice_matches_event_actors.Rd |only nhlscraper-0.6.0/nhlscraper/man/dot-html_on_ice_matches_late_empty_net.Rd |only nhlscraper-0.6.0/nhlscraper/man/dot-html_on_ice_matches_reconstructed_strength.Rd |only nhlscraper-0.6.0/nhlscraper/man/dot-html_on_ice_matches_situation_code.Rd |only nhlscraper-0.6.0/nhlscraper/man/dot-override_strength_context_from_html.Rd |only nhlscraper-0.6.0/nhlscraper/man/dot-reconstruct_skater_counts_from_penalties.Rd |only nhlscraper-0.6.1/nhlscraper/DESCRIPTION | 6 nhlscraper-0.6.1/nhlscraper/MD5 | 43 nhlscraper-0.6.1/nhlscraper/NAMESPACE | 2 nhlscraper-0.6.1/nhlscraper/NEWS.md | 6 nhlscraper-0.6.1/nhlscraper/R/Clean.R | 16 nhlscraper-0.6.1/nhlscraper/R/Game.R | 1018 +++------- nhlscraper-0.6.1/nhlscraper/R/Load.R | 32 nhlscraper-0.6.1/nhlscraper/R/Skater.R | 13 nhlscraper-0.6.1/nhlscraper/README.md | 2 nhlscraper-0.6.1/nhlscraper/inst/doc/back-to-back-tax.html | 92 nhlscraper-0.6.1/nhlscraper/inst/doc/play-by-play-pipeline.Rmd | 34 nhlscraper-0.6.1/nhlscraper/inst/doc/play-by-play-pipeline.html | 89 nhlscraper-0.6.1/nhlscraper/inst/doc/playoff-size.html | 200 - nhlscraper-0.6.1/nhlscraper/man/shift_chart_summaries.Rd |only nhlscraper-0.6.1/nhlscraper/man/shift_chart_summary.Rd |only nhlscraper-0.6.1/nhlscraper/src/on_ice_shift_timings.c | 6 nhlscraper-0.6.1/nhlscraper/tests/testthat/test-html_on_ice_pbp.R | 161 + nhlscraper-0.6.1/nhlscraper/tests/testthat/test-load_shift_chart_summaries.R |only nhlscraper-0.6.1/nhlscraper/tests/testthat/test-on_ice_shift_timings.R |only nhlscraper-0.6.1/nhlscraper/tests/testthat/test-shift_chart.R | 84 nhlscraper-0.6.1/nhlscraper/vignettes/play-by-play-pipeline.Rmd | 34 28 files changed, 842 insertions(+), 996 deletions(-)
Title: Geolocalização De Endereços Brasileiros (Geocoding Brazilian
Addresses)
Description: Método simples e eficiente de geolocalizar dados no Brasil. O
pacote é baseado em conjuntos de dados espaciais abertos de endereços
brasileiros, utilizando como fonte principal o Cadastro Nacional de Endereços
para Fins Estatísticos (CNEFE). O CNEFE é publicado pelo Instituto Brasileiro
de Geografia e Estatística (IBGE), órgão oficial de estatísticas e geografia
do Brasil. (A simple and efficient method for geolocating data in Brazil. The
package is based on open spatial datasets of Brazilian addresses, primarily
using the Cadastro Nacional de Endereços para Fins Estatísticos (CNEFE),
published by the Instituto Brasileiro de Geografia e Estatística (IBGE),
Brazil's official statistics and geography agency.)
Author: Rafael H. M. Pereira [aut, cre] ,
Daniel Herszenhut [aut] ,
Gabriel Garcia de Almeida [aut] ,
Arthur Bazolli [ctb],
Pedro Milreu Cunha [ctb],
ITpS - Instituto Todos pela Saude [fnd],
Ipea - Instituto de Pesquisa Economica Aplicada [cph, fnd]
Maintainer: Rafael H. M. Pereira <rafa.pereira.br@gmail.com>
Diff between geocodebr versions 0.6.2 dated 2026-04-13 and 0.6.3 dated 2026-05-24
geocodebr-0.6.2/geocodebr/R/onLoad.R |only geocodebr-0.6.3/geocodebr/DESCRIPTION | 18 geocodebr-0.6.3/geocodebr/MD5 | 55 - geocodebr-0.6.3/geocodebr/NEWS.md | 67 + geocodebr-0.6.3/geocodebr/R/geocode.R | 49 + geocodebr-0.6.3/geocodebr/R/geocode_reverso.R | 65 - geocodebr-0.6.3/geocodebr/README.md | 10 geocodebr-0.6.3/geocodebr/inst/doc/geocode.Rmd | 2 geocodebr-0.6.3/geocodebr/inst/doc/geocode.html | 6 geocodebr-0.6.3/geocodebr/inst/doc/geocode_reverso.Rmd | 2 geocodebr-0.6.3/geocodebr/inst/doc/geocode_reverso.html | 10 geocodebr-0.6.3/geocodebr/inst/doc/geocodebr.R | 2 geocodebr-0.6.3/geocodebr/inst/doc/geocodebr.Rmd | 6 geocodebr-0.6.3/geocodebr/inst/doc/geocodebr.html | 28 geocodebr-0.6.3/geocodebr/inst/extdata/large_sample.parquet |binary geocodebr-0.6.3/geocodebr/inst/extdata/munis_bbox_2022.parquet |binary geocodebr-0.6.3/geocodebr/man/definir_pasta_cache.Rd | 2 geocodebr-0.6.3/geocodebr/man/geocodebr.Rd | 9 geocodebr-0.6.3/geocodebr/tests/tests_rafa/benchmark_20k.R | 13 geocodebr-0.6.3/geocodebr/tests/tests_rafa/generate_sample_data.R | 3 geocodebr-0.6.3/geocodebr/tests/tests_rafa/munis_bbox.R | 86 +- geocodebr-0.6.3/geocodebr/tests/tests_rafa/reverse_geocode_tests.R | 348 ---------- geocodebr-0.6.3/geocodebr/tests/testthat/_snaps/cache.md | 60 - geocodebr-0.6.3/geocodebr/tests/testthat/_snaps/definir_campos.md | 16 geocodebr-0.6.3/geocodebr/tests/testthat/_snaps/message.md | 14 geocodebr-0.6.3/geocodebr/tests/testthat/test-geocode.R | 66 + geocodebr-0.6.3/geocodebr/vignettes/geocode.Rmd | 2 geocodebr-0.6.3/geocodebr/vignettes/geocode_reverso.Rmd | 2 geocodebr-0.6.3/geocodebr/vignettes/geocodebr.Rmd | 6 29 files changed, 372 insertions(+), 575 deletions(-)
Title: Understand and Describe Bayesian Models and Posterior
Distributions
Description: Provides utilities to describe posterior
distributions and Bayesian models. It includes point-estimates such as
Maximum A Posteriori (MAP), measures of dispersion (Highest Density
Interval - HDI; Kruschke, 2015 <doi:10.1016/C2012-0-00477-2>) and
indices used for null-hypothesis testing (such as ROPE percentage, pd
and Bayes factors). References: Makowski et al. (2021) <doi:10.21105/joss.01541>.
Author: Dominique Makowski [aut, cre] ,
Daniel Luedecke [aut] ,
Mattan S. Ben-Shachar [aut] ,
Indrajeet Patil [aut] ,
Micah K. Wilson [aut] ,
Brenton M. Wiernik [aut] ,
Paul-Christian Buerkner [rev],
Tristan Mahr [rev] ,
Henrik Singmann [ctb] ,
Quentin F. Gron [...truncated...]
Maintainer: Dominique Makowski <officialeasystats@gmail.com>
Diff between bayestestR versions 0.18.0 dated 2026-05-21 and 0.18.1 dated 2026-05-24
DESCRIPTION | 6 MD5 | 18 NEWS.md | 14 R/describe_posterior.R | 642 ++++++++++++++++------------- R/diagnostic_posterior.R | 18 R/mcse.R | 25 + man/contr.equalprior.Rd | 2 man/diagnostic_posterior.Rd | 6 man/mcse.Rd | 16 tests/testthat/test-diagnostic_posterior.R | 10 10 files changed, 453 insertions(+), 304 deletions(-)
Title: Collection of Utility Functions for Data Analysis and Computing
Description: Provides utility functions for data analysis and computing. Includes functions for logging, parallel processing, and other computational tasks to streamline workflows.
Author: Meng Xu [aut, cre] ,
Haoliang Zhu [aut]
Maintainer: Meng Xu <mengxu98@qq.com>
Diff between thisutils versions 0.4.5 dated 2026-04-24 and 0.4.7 dated 2026-05-24
thisutils-0.4.5/thisutils/man/compute_simpson_index.Rd |only thisutils-0.4.7/thisutils/DESCRIPTION | 18 thisutils-0.4.7/thisutils/MD5 | 19 thisutils-0.4.7/thisutils/NAMESPACE | 1 thisutils-0.4.7/thisutils/NEWS.md | 7 thisutils-0.4.7/thisutils/R/RcppExports.R | 8 thisutils-0.4.7/thisutils/R/lisi.R | 271 ----- thisutils-0.4.7/thisutils/man/compute_lisi.Rd | 21 thisutils-0.4.7/thisutils/src/RcppExports.cpp | 25 thisutils-0.4.7/thisutils/src/lisi.cpp | 894 ++++++++++++++--- thisutils-0.4.7/thisutils/tests/testthat/test-lisi.R | 232 +--- 11 files changed, 904 insertions(+), 592 deletions(-)
Title: Model Visualisation Toolbox for 'easystats' and 'ggplot2'
Description: Provides plotting utilities supporting packages in the 'easystats'
ecosystem (<https://github.com/easystats/easystats>) and some extra themes,
geoms, and scales for 'ggplot2'. Color scales are based on
<https://materialui.co/>.
References: Lüdecke et al. (2021) <doi:10.21105/joss.03393>.
Author: Daniel Luedecke [aut, cre] ,
Dominique Makowski [aut, inv] ,
Indrajeet Patil [aut] ,
Mattan S. Ben-Shachar [aut, ctb] ,
Brenton M. Wiernik [aut, ctb] ,
Remi Theriault [aut, ctb] ,
Philip Waggoner [aut, ctb] ,
Jeffrey R. Stevens [ctb] ,
Matthew Smith [ [...truncated...]
Maintainer: Daniel Luedecke <officialeasystats@gmail.com>
Diff between see versions 0.13.0 dated 2026-01-30 and 0.14.0 dated 2026-05-24
DESCRIPTION | 16 MD5 | 51 +-- NAMESPACE | 4 NEWS.md | 22 + R/geom_point2.R | 98 ++++- R/plot.check_dag.R | 2 R/plot.check_model.R | 425 ++++++++++--------------- R/plot.check_normality.R | 24 - R/plot.check_outliers.dots.R | 25 - R/plot.check_predictions.R | 179 ++++++---- R/plot.compare_parameters.R | 81 +--- R/plot.dw_data_tabulate.R | 32 - R/plot.estimate_contrasts.R | 20 - R/plot.p_direction.R | 169 +++++---- R/plot.parameters_pca.R | 76 ++++ R/plot.parameters_pca_graph.R |only R/print.check_model.R | 1 R/utils.R | 6 build/partial.rdb |binary man/geom_point2.Rd | 45 +- man/ggplot2-ggproto.Rd | 1 man/plot.see_parameters_pca.Rd | 49 ++ man/scale_color_okabeito.Rd | 4 man/see-package.Rd | 1 tests/testthat/test-discovr_book.R |only tests/testthat/test-vdiffr_check_model.R | 39 ++ tests/testthat/test-vdiffr_check_predictions.R |only tests/testthat/test-vdiffr_factor_analysis.R |only tests/testthat/test-vdiffr_geoms_borderless.R |only 29 files changed, 810 insertions(+), 560 deletions(-)
Title: The ScottKnott Clustering Algorithm
Description: Performs the Scott & Knott (1974) clustering algorithm as a
multiple comparison method in the Analysis of Variance context, for
both balanced and unbalanced <doi:10.1590/1984-70332017v17n1a1>
designs. Accepts input from 'formula', 'aov', 'lm', 'aovlist', and 'lmerMod'
objects.
Author: J. C. Faria [aut],
E. G. Jelihovschi [aut],
I. B. Allaman [aut, cre]
Maintainer: I. B. Allaman <ivanalaman@gmail.com>
Diff between ScottKnott versions 1.3-3 dated 2025-03-15 and 1.4-0 dated 2026-05-24
ScottKnott-1.3-3/ScottKnott/ChangeLog |only ScottKnott-1.3-3/ScottKnott/man/LS.Rd |only ScottKnott-1.4-0/ScottKnott/DESCRIPTION | 54 +- ScottKnott-1.4-0/ScottKnott/MD5 | 104 ++- ScottKnott-1.4-0/ScottKnott/NAMESPACE | 67 +- ScottKnott-1.4-0/ScottKnott/NEWS.md |only ScottKnott-1.4-0/ScottKnott/R/MaxValue.R | 361 ++++++------- ScottKnott-1.4-0/ScottKnott/R/SK.aovlist.R | 478 ++++++++---------- ScottKnott-1.4-0/ScottKnott/R/SK.default.R | 8 ScottKnott-1.4-0/ScottKnott/R/SK.formula.R | 130 ++-- ScottKnott-1.4-0/ScottKnott/R/SK.lm.R | 367 ++++++------- ScottKnott-1.4-0/ScottKnott/R/SK.lmerMod.R | 388 +++++++------- ScottKnott-1.4-0/ScottKnott/R/SK.nest.aovlist.R | 285 +++++----- ScottKnott-1.4-0/ScottKnott/R/SK.nest.lm.R | 288 +++++----- ScottKnott-1.4-0/ScottKnott/R/SK.nest.lmerMod.R | 289 +++++----- ScottKnott-1.4-0/ScottKnott/R/boxplot.SK.R | 361 ++++++------- ScottKnott-1.4-0/ScottKnott/R/m.infos.lm.R | 14 ScottKnott-1.4-0/ScottKnott/R/m.infos.lmerMod.R | 69 +- ScottKnott-1.4-0/ScottKnott/R/m.infos.nest.lm.R | 14 ScottKnott-1.4-0/ScottKnott/R/m.infos.nest.lmerMod.R | 117 ++-- ScottKnott-1.4-0/ScottKnott/R/plot.SK.R | 182 ++---- ScottKnott-1.4-0/ScottKnott/R/print.SK.R | 22 ScottKnott-1.4-0/ScottKnott/R/summary.SK.R | 31 - ScottKnott-1.4-0/ScottKnott/R/xtable.SK.R | 51 + ScottKnott-1.4-0/ScottKnott/README.md | 121 +++- ScottKnott-1.4-0/ScottKnott/build |only ScottKnott-1.4-0/ScottKnott/demo/00Index | 14 ScottKnott-1.4-0/ScottKnott/demo/CRD.R | 139 +++-- ScottKnott-1.4-0/ScottKnott/demo/FE.R | 66 +- ScottKnott-1.4-0/ScottKnott/demo/LSD.R | 49 + ScottKnott-1.4-0/ScottKnott/demo/RCBD.R | 61 +- ScottKnott-1.4-0/ScottKnott/demo/SPE.R | 86 +-- ScottKnott-1.4-0/ScottKnott/demo/SPET.R | 97 +-- ScottKnott-1.4-0/ScottKnott/demo/SSPE.R | 90 +-- ScottKnott-1.4-0/ScottKnott/inst/CITATION | 46 - ScottKnott-1.4-0/ScottKnott/inst/doc |only ScottKnott-1.4-0/ScottKnott/man/CRD1.Rd | 4 ScottKnott-1.4-0/ScottKnott/man/CRD2.Rd | 4 ScottKnott-1.4-0/ScottKnott/man/FE.Rd | 6 ScottKnott-1.4-0/ScottKnott/man/LSD.Rd |only ScottKnott-1.4-0/ScottKnott/man/RCBD.Rd | 6 ScottKnott-1.4-0/ScottKnott/man/SK.Rd | 128 ++-- ScottKnott-1.4-0/ScottKnott/man/SPE.Rd | 10 ScottKnott-1.4-0/ScottKnott/man/SSPE.Rd | 12 ScottKnott-1.4-0/ScottKnott/man/ScottKnott-package.Rd | 206 +++---- ScottKnott-1.4-0/ScottKnott/man/boxplot.SK.Rd | 203 +++---- ScottKnott-1.4-0/ScottKnott/man/plot.SK.Rd | 57 +- ScottKnott-1.4-0/ScottKnott/man/print.SK.Rd | 12 ScottKnott-1.4-0/ScottKnott/man/sorghum.Rd | 26 ScottKnott-1.4-0/ScottKnott/man/summary.Rd | 11 ScottKnott-1.4-0/ScottKnott/man/xtable.Rd |only ScottKnott-1.4-0/ScottKnott/man/xtable.SK.Rd | 35 - ScottKnott-1.4-0/ScottKnott/tests |only ScottKnott-1.4-0/ScottKnott/vignettes |only 54 files changed, 2693 insertions(+), 2476 deletions(-)
Title: Processing of Model Parameters
Description: Utilities for processing the parameters of various
statistical models. Beyond computing p values, CIs, and other indices
for a wide variety of models (see list of supported models using the
function 'insight::supported_models()'), this package implements
features like bootstrapping or simulating of parameters and models,
feature reduction (feature extraction and variable selection) as well
as functions to describe data and variable characteristics (e.g.
skewness, kurtosis, smoothness or distribution).
Author: Daniel Luedecke [aut, cre] ,
Dominique Makowski [aut] ,
Mattan S. Ben-Shachar [aut] ,
Indrajeet Patil [aut] ,
Soeren Hoejsgaard [aut],
Brenton M. Wiernik [aut] ,
Zen J. Lau [ctb],
Vincent Arel-Bundock [ctb] ,
Jeffrey Girard [ctb] ,
Christina Maimone [re [...truncated...]
Maintainer: Daniel Luedecke <officialeasystats@gmail.com>
Diff between parameters versions 0.29.0 dated 2026-05-09 and 0.29.1 dated 2026-05-24
DESCRIPTION | 10 MD5 | 65 +- NEWS.md | 19 R/1_model_parameters.R | 14 R/3_p_value.R | 41 - R/4_standard_error.R | 6 R/bootstrap_model.R | 68 +- R/bootstrap_parameters.R | 49 + R/format.R | 747 ++++++++++--------------- R/methods_aod.R | 44 - R/methods_brms.R | 105 ++- R/methods_htest.R | 122 ++-- R/methods_nestedLogit.R | 155 ++--- R/methods_plm.R | 63 +- R/utils_model_parameters.R | 160 ++--- man/bootstrap_model.Rd | 2 man/model_parameters.compare.loo.Rd | 2 man/model_parameters.default.Rd | 11 man/model_parameters.glimML.Rd | 4 man/p_function.Rd | 2 man/parameters-package.Rd | 1 man/principal_components.Rd | 4 man/reexports.Rd | 6 man/standardize_info.Rd | 4 man/standardize_parameters.Rd | 4 tests/testthat/test-brms.R | 32 + tests/testthat/test-coxph.R | 1 tests/testthat/test-discovr_book.R |only tests/testthat/test-factor_analysis.R | 33 - tests/testthat/test-glmer.R | 29 tests/testthat/test-glmmTMB.R | 19 tests/testthat/test-model_parameters.mixed.R | 104 ++- tests/testthat/test-random_effects_covstruct.R | 5 tests/testthat/test-serp.R | 8 34 files changed, 1045 insertions(+), 894 deletions(-)
Title: Conventional Tukey Test
Description: Performs multiple comparison analyses using Tukey's
Honestly Significant Difference (HSD) test, with intuitive letter
grouping of means for balanced and unbalanced designs. Accepts
input from 'formula', 'aov', 'lm', 'aovlist', and 'lmerMod' objects,
including straightforward handling of interactions. For more
details see Tukey (1949) <doi:10.2307/3001913>.
Author: J. C. Faria [aut],
E. G. Jelihovschi [aut],
I. B. Allaman [aut, cre]
Maintainer: I. B. Allaman <ivanalaman@gmail.com>
Diff between TukeyC versions 1.3-44 dated 2026-02-25 and 1.4-0 dated 2026-05-24
TukeyC-1.3-44/TukeyC/ChangeLog |only TukeyC-1.4-0/TukeyC/DESCRIPTION | 58 ++- TukeyC-1.4-0/TukeyC/MD5 | 111 ++++--- TukeyC-1.4-0/TukeyC/NAMESPACE | 2 TukeyC-1.4-0/TukeyC/NEWS.md |only TukeyC-1.4-0/TukeyC/R/TukeyC.R | 2 TukeyC-1.4-0/TukeyC/R/TukeyC.aovlist.R | 297 ++++++++++-------- TukeyC-1.4-0/TukeyC/R/TukeyC.default.R | 13 TukeyC-1.4-0/TukeyC/R/TukeyC.formula.R | 129 ++++---- TukeyC-1.4-0/TukeyC/R/TukeyC.lm.R | 317 ++++++++++---------- TukeyC-1.4-0/TukeyC/R/TukeyC.lmerMod.R | 329 +++++++++++--------- TukeyC-1.4-0/TukeyC/R/TukeyC.nest.aovlist.R | 143 ++++----- TukeyC-1.4-0/TukeyC/R/TukeyC.nest.lm.R | 156 +++++---- TukeyC-1.4-0/TukeyC/R/TukeyC.nest.lmerMod.R | 156 +++++---- TukeyC-1.4-0/TukeyC/R/boxplot.TukeyC.R | 408 ++++++++++++++------------ TukeyC-1.4-0/TukeyC/R/cv.R | 71 ++-- TukeyC-1.4-0/TukeyC/R/m.infos.aovlist.R | 57 ++- TukeyC-1.4-0/TukeyC/R/m.infos.lm.R | 63 ++-- TukeyC-1.4-0/TukeyC/R/m.infos.lmerMod.R | 66 ++-- TukeyC-1.4-0/TukeyC/R/m.infos.nest.aovlist.R | 100 +++--- TukeyC-1.4-0/TukeyC/R/m.infos.nest.lm.R | 94 +++-- TukeyC-1.4-0/TukeyC/R/m.infos.nest.lmerMod.R | 106 +++--- TukeyC-1.4-0/TukeyC/R/make.TukeyC.groups.R | 169 ++++++---- TukeyC-1.4-0/TukeyC/R/make.TukeyC.test.R | 160 +++++----- TukeyC-1.4-0/TukeyC/R/plot.TukeyC.R | 372 +++++++++++++---------- TukeyC-1.4-0/TukeyC/R/print.TukeyC.R | 36 +- TukeyC-1.4-0/TukeyC/R/summary.TukeyC.R | 31 + TukeyC-1.4-0/TukeyC/R/tukeyc-utils.R |only TukeyC-1.4-0/TukeyC/R/xtable.TukeyC.R | 63 +++- TukeyC-1.4-0/TukeyC/README.md | 106 +++++- TukeyC-1.4-0/TukeyC/build |only TukeyC-1.4-0/TukeyC/demo/CRD.R | 18 - TukeyC-1.4-0/TukeyC/demo/RCBD.R | 4 TukeyC-1.4-0/TukeyC/demo/SPE.R | 8 TukeyC-1.4-0/TukeyC/demo/SPET.R | 16 - TukeyC-1.4-0/TukeyC/demo/SSPE.R | 18 - TukeyC-1.4-0/TukeyC/inst/doc |only TukeyC-1.4-0/TukeyC/man/CRD2.Rd | 2 TukeyC-1.4-0/TukeyC/man/FE.Rd | 2 TukeyC-1.4-0/TukeyC/man/LS.Rd | 4 TukeyC-1.4-0/TukeyC/man/RCBD.Rd | 4 TukeyC-1.4-0/TukeyC/man/SPE.Rd | 2 TukeyC-1.4-0/TukeyC/man/SSPE.Rd | 2 TukeyC-1.4-0/TukeyC/man/TukeyC-package.Rd | 26 - TukeyC-1.4-0/TukeyC/man/TukeyC.Rd | 45 +- TukeyC-1.4-0/TukeyC/man/boxplot.TukeyC.Rd | 14 TukeyC-1.4-0/TukeyC/man/cv.Rd | 12 TukeyC-1.4-0/TukeyC/man/make.TukeyC.groups.Rd | 37 +- TukeyC-1.4-0/TukeyC/man/make.TukeyC.test.Rd | 55 +-- TukeyC-1.4-0/TukeyC/man/plot.TukeyC.Rd | 24 - TukeyC-1.4-0/TukeyC/man/print.TukeyC.Rd | 12 TukeyC-1.4-0/TukeyC/man/summary.Rd | 16 - TukeyC-1.4-0/TukeyC/man/xtable.Rd |only TukeyC-1.4-0/TukeyC/man/xtable.TukeyC.Rd | 49 +-- TukeyC-1.4-0/TukeyC/tests |only TukeyC-1.4-0/TukeyC/vignettes |only 56 files changed, 2222 insertions(+), 1763 deletions(-)
Title: Aggregate Matrix Population Models
Description: Aggregates matrix population models (MPMs) in both the lambda (stable
growth rate) and R0 (net reproductive rate) frameworks, including standard and
elasticity-consistent aggregators. Standard aggregation in the lambda framework
maintains consistent lambda and stable stage distribution, while standard aggregation
in the R0 framework maintains consistent R0 and cohort stable stage distribution.
Elasticity-consistent aggregators maintain these same consistencies with respect
to the chosen framework and additionally preserve consistent reproductive values in
the lambda framework and cohort reproductive values in the R0 framework. Aggregation
can take the form of general-to-general MPM (mpm_aggregate) or Leslie-to-Leslie
MPM (leslie_aggregate).
Author: Richard A. Hinrichsen [aut, cre] ,
Roberto Salguero-Gomez [aut] ,
Hiroyuki Yokomizo [aut]
Maintainer: Richard A. Hinrichsen <r.hinrichsen.ecology@gmail.com>
Diff between mpmaggregate versions 0.2.5 dated 2026-04-03 and 0.2.6 dated 2026-05-24
DESCRIPTION | 10 +++++----- MD5 | 14 +++++++------- NEWS.md | 8 ++++++++ README.md | 14 ++++++++++---- build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 7 ++++--- man/mpmaggregate-package.Rd | 1 + 8 files changed, 35 insertions(+), 19 deletions(-)
Title: Likelihood-Based Statistical Inference in the Fisherian
Tradition
Description: Facilitates building likelihood models in the Fisherian tradition
following Richard Royall (1997, ISBN:978-0412044113) "Statistical Evidence: A
Likelihood Paradigm". Defines generic methods for working with likelihoods
(loglik(), score(), hess_loglik(), fim()) and provides functions for pure
likelihood-based inference (support(), relative_likelihood(),
likelihood_interval(), profile_loglik()).
Author: Alexander Towell [aut, cre]
Maintainer: Alexander Towell <lex@metafunctor.com>
Diff between likelihood.model versions 1.0.0 dated 2026-03-19 and 1.0.1 dated 2026-05-24
DESCRIPTION | 6 +- MD5 | 14 +++--- NEWS.md | 27 ++++++++++++ R/core-generics.R | 19 +++++++-- inst/doc/exponential-lifetime.html | 2 inst/doc/getting-started.html | 2 man/fim.likelihood_model.Rd | 17 +++++++- tests/test.R | 77 ++++++++++++++++++++++++++++++++++--- 8 files changed, 142 insertions(+), 22 deletions(-)
More information about likelihood.model at CRAN
Permanent link
Title: Health Geography Toolbox for Model-Based Analysis of Infections
Panel Data
Description: Within epidemic outbreaks, infections grow and decline differently between regions, and the velocity of spatial spread differs between countries. The swash library offers a set of model-based analyses for these topics. Spread velocity may be analysed with the Swash-Backwash Model for the Single Epidemic Wave and corresponding functions for bootstrap confidence intervals, country comparison, and visualization of results. Differences in epidemic growth between regions may be analysed using logistic growth models, exponential growth models, Hawkes processes and breakpoint analyses. All functionalities are accessed by the class "infpan" for infections panel data defined in this package, which is built from a data.frame provided by the user.
Author: Thomas Wieland [aut, cre]
Maintainer: Thomas Wieland <geowieland@googlemail.com>
Diff between swash versions 2.0.0 dated 2026-04-06 and 2.0.1 dated 2026-05-24
DESCRIPTION | 8 ++-- MD5 | 74 +++++++++++++++++++------------------- NEWS.md | 19 +-------- build/partial.rdb |binary data/C19dNUTSdata.rda |binary data/COVID19Cases_geoRegion.rda |binary data/Infections.rda |binary data/Oesterreich_Faelle.rda |binary data/RKI_Corona_counties.rda |binary data/did_fatalities_splm_coef.rda |binary man/COVID19Cases_geoRegion.Rd | 13 +++++- man/Oesterreich_Faelle.Rd | 14 ++++++- man/as_balanced.Rd | 8 +++- man/binary_metrics.Rd | 2 - man/binary_metrics_glm.Rd | 4 +- man/breaks_growth.Rd | 8 ++-- man/calculate_Rt.Rd | 6 +++ man/calculate_cum-method.Rd | 3 + man/calculate_rollsum-method.Rd | 2 - man/compare_countries.Rd | 14 ++++++- man/countries-class.Rd | 5 +- man/did_fatalities_splm_coef.Rd | 19 +++++++++ man/expgrowth-class.Rd | 2 - man/exponential_growth.Rd | 4 +- man/growth.Rd | 2 - man/growth_breaks.Rd | 2 - man/growthmodels-class.Rd | 6 +-- man/hawkes-class.Rd | 6 +-- man/hawkes_growth.Rd | 2 - man/infpan-class.Rd | 2 + man/load_infections_paneldata.Rd | 2 - man/logistic_growth.Rd | 2 - man/metrics.Rd | 2 - man/nbmatrix.Rd | 2 - man/plot-methods.Rd | 10 +++-- man/print-methods.Rd | 10 ++--- man/sbm-class.Rd | 4 -- man/swash-package.Rd | 26 ++++++++----- 38 files changed, 170 insertions(+), 113 deletions(-)
Title: Exploratory Data Analysis for the 'spatstat' Family
Description: Functionality for exploratory data analysis and nonparametric analysis of
spatial data, mainly spatial point patterns,
in the 'spatstat' family of packages.
(Excludes analysis of spatial data on a linear network,
which is covered by the separate package 'spatstat.linnet'.)
Methods include quadrat counts, K-functions and their simulation envelopes, nearest neighbour distance and empty space statistics, Fry plots, pair correlation function, kernel smoothed intensity, relative risk estimation with cross-validated bandwidth selection, mark correlation functions, segregation indices, mark dependence diagnostics, and kernel estimates of covariate effects. Formal hypothesis tests of random pattern (chi-squared, Kolmogorov-Smirnov, Monte Carlo, Diggle-Cressie-Loosmore-Ford, Dao-Genton, two-stage Monte Carlo) and tests for covariate effects (Cox-Berman-Waller-Lawson, Kolmogorov-Smirnov, ANOVA) are also supported.
Author: Adrian Baddeley [aut, cre, cph] ,
Rolf Turner [aut, cph] ,
Ege Rubak [aut, cph] ,
Kasper Klitgaard Berthelsen [ctb],
Warick Brown [cph],
Achmad Choiruddin [ctb],
Ya-Mei Chang [ctb],
Jean-Francois Coeurjolly [ctb],
Lucia Cobo Sanchez [ctb, cph],
Ottma [...truncated...]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat.explore versions 3.8-0 dated 2026-03-22 and 3.8-1 dated 2026-05-24
DESCRIPTION | 16 MD5 | 118 +++--- NAMESPACE | 8 NEWS | 126 +++++++ R/Kest.R | 11 R/Kinhom.R | 12 R/Kmeasure.R | 42 +- R/Kmulti.R | 16 R/Kmulti.inhom.R | 12 R/Kscaled.R | 11 R/Ksector.R | 10 R/bw.pcf.R | 5 R/bw.stoyan.R | 37 +- R/circdensity.R | 23 - R/density.ppp.R | 25 - R/density.psp.R | 6 R/densityHeat.ppp.R | 13 R/edgeRipley.R | 12 R/envelopeEngine.R | 27 + R/fv.R | 8 R/localK.R | 7 R/localKcross.R | 7 R/markcorr.R | 5 R/nnorient.R | 4 R/pairorient.R | 13 R/pcf.R | 214 ++++++++---- R/pcfinhom.R | 46 +- R/pcfmulti.R | 52 ++ R/pcfmulti.inhom.R | 55 ++- R/plot.fv.R | 35 + R/rose.R | 692 ++++++++++++++++++++++++++------------- R/wtdclosepair.R | 7 build/partial.rdb |binary inst/doc/packagesizes.txt | 1 inst/info/packagesizes.txt | 1 man/Smooth.ppp.Rd | 18 - man/as.fv.Rd | 16 man/bw.stoyan.Rd | 57 ++- man/circdensity.Rd | 18 - man/density.ppp.Rd | 19 + man/density.psp.Rd | 15 man/edge.Ripley.Rd | 21 - man/edge.Trans.Rd | 3 man/macros/defns.Rd | 1 man/nnorient.Rd | 14 man/pcf.ppp.Rd | 75 +++- man/pcfcross.Rd | 5 man/pcfcross.inhom.Rd | 5 man/pcfdot.Rd | 5 man/pcfdot.inhom.Rd | 5 man/pcfinhom.Rd | 39 +- man/pcfmulti.Rd | 14 man/pcfmulti.inhom.Rd | 24 + man/plot.fv.Rd | 3 man/relrisk.ppp.Rd | 12 man/rose.Rd | 225 ++++++++++-- man/spatstat.explore-internal.Rd | 35 + man/spatstat.explore-package.Rd | 2 src/ripleypoly.h | 16 tests/testsD.R | 13 60 files changed, 1693 insertions(+), 644 deletions(-)
More information about spatstat.explore at CRAN
Permanent link
Title: Clinical Publication
Description: Accelerate the process from clinical data to medical publication,
including clinical data cleaning, significant result screening, and the
generation of publish-ready tables and figures.
Author: Yue Niu [aut, cre, cph] ,
Keyun Wang [aut]
Maintainer: Yue Niu <niuyuesam@163.com>
Diff between clinpubr versions 1.3.0 dated 2026-03-07 and 1.4.0 dated 2026-05-24
DESCRIPTION | 17 MD5 | 115 - NAMESPACE | 2 NEWS.md | 12 R/baseline_table.R | 13 R/check_nonnum.R | 2 R/classif_model_compare.R | 2 R/combine_files.R | 2 R/data_overview.R | 14 R/data_screen.R | 43 R/exclusion_count.R | 9 R/extract_num.R | 64 R/get_valid_subset.R | 348 ++- R/initial_cleaning.R | 144 + R/merge.R | 1048 +++++++++- R/misc.R | 8 R/predictor_effect_plot.R | 4 R/regressions.R | 16 R/time_roc.R | 19 R/to_date.R | 59 R/unit_standardize.R | 355 ++- README.md | 3 build |only inst |only man/auto_encoding_repair.Rd |only man/detect_outliers.Rd | 94 man/first_mode.Rd | 2 man/get_valid_subset.Rd | 23 man/keep_by_keyword.Rd | 110 - man/merge_by_range.Rd |only man/merge_by_substring.Rd | 23 man/regression_scan.Rd | 2 man/screen_data_list.Rd | 290 +- man/time_roc_plot.Rd | 11 man/unit_standardize.Rd | 5 man/unit_view.Rd | 5 man/value_initial_cleaning.Rd | 12 tests/testthat/_snaps/predictor_effect_plot/predictor-effect-logistic-categorical-sex.svg | 4 tests/testthat/_snaps/regressions.md | 40 tests/testthat/test-check_nonnum.R | 3 tests/testthat/test-data_overview.R | 539 ++--- tests/testthat/test-data_screen.R | 86 tests/testthat/test-exclusion_count.R | 9 tests/testthat/test-get_valid_subset.R | 184 + tests/testthat/test-initial_cleaning.R | 214 +- tests/testthat/test-mark_outlier.R | 276 +- tests/testthat/test-merge.R | 257 ++ tests/testthat/test-misc.R | 2 tests/testthat/test-multichoice.R | 14 tests/testthat/test-regressions.R | 3 tests/testthat/test-unit_standardize.R | 3 vignettes |only 52 files changed, 3312 insertions(+), 1198 deletions(-)
Title: Utility Functions for Plotting
Description: Provides utility functions for plotting. Includes functions for color manipulation, plot customization, panel size control, data optimization for plots, and layout adjustments.
Author: Meng Xu [aut, cre] ,
Haoliang Zhu [aut]
Maintainer: Meng Xu <mengxu98@qq.com>
Diff between thisplot versions 0.3.8 dated 2026-04-24 and 0.4.0 dated 2026-05-24
DESCRIPTION | 31 ++++++++++++++----------- MD5 | 14 ++++++----- NAMESPACE | 1 NEWS.md | 10 ++++++++ R/DimDataPlot.R |only R/StatPlot.R | 64 ++++++++++++++++++++++++++++++++++++++++++++++++++--- R/reexports.R | 8 +++++- man/DimDataPlot.Rd |only man/StatPlot.Rd | 7 +++-- 9 files changed, 108 insertions(+), 27 deletions(-)
Title: Profile Boosting Framework for Parametric Models
Description: A profile boosting framework for feature selection in parametric models.
It offers a unified interface pboost() and several wrapped models, including linear model, generalized linear models, quantile regression, Cox proportional hazards model, beta regression, spatial auto-regressive models.
Author: Zengchao Xu [aut, cre, cph]
Maintainer: Zengchao Xu <zengc.xu@aliyun.com>
Diff between pboost versions 0.4.8 dated 2026-05-13 and 0.4.11 dated 2026-05-24
DESCRIPTION | 11 ++-- MD5 | 70 ++++++++++++++++--------------- NAMESPACE | 19 +++++++- NEWS.md | 23 ++++++++++ R/fbetareg.R | 3 - R/fcoxph.R | 3 - R/fglm.R | 7 --- R/flm.R | 7 --- R/frq.R | 74 +++++++++++++++++++++++++++++++-- R/frs.R | 4 - R/fsar.R | 103 ++++++++++++++++++++++++++++++++++++---------- R/pbetareg.R | 4 - R/pboost-package.R | 4 + R/pboost.R | 6 +- R/pcoxph.R | 4 - R/penalization.R | 3 - R/penalty-glmnet.R | 4 - R/penalty-ncvreg.R | 4 - R/penalty-rq.R | 4 - R/penalty-sar.R | 2 R/pglm.R | 12 +---- R/plm.R | 16 ++----- R/prq.R | 69 ++++++++++++++++++++++++++++-- R/psar.R | 100 +++++++++++++++++++++++++++++++++++++------- build/partial.rdb |binary man/coef.penaltyglmnet.Rd |only man/coef.penaltyncvreg.Rd |only man/coef.penaltyrq.Rd |only man/frq.Rd | 23 ++++++++++ man/frs.Rd | 6 +- man/fsar.Rd | 59 ++++++++++++++++++++++++-- man/pboost-package.Rd | 5 ++ man/pboost.Rd | 6 +- man/penalization.Rd |only man/pglm.Rd | 4 - man/plm.Rd | 8 +-- man/prq.Rd | 26 ++++++++++- man/psar.Rd | 80 ++++++++++++++++++++++++++++++----- 38 files changed, 603 insertions(+), 170 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-06-23 1.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-03-31 0.0.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-02-16 0.1.0
Title: Random Generation Functionality for the 'spatstat' Family
Description: Functionality for random generation of spatial data in the 'spatstat' family of packages.
Generates random spatial patterns of points according to many simple rules (complete spatial randomness,
Poisson, binomial, random grid, systematic, cell), randomised alteration of patterns
(thinning, random shift, jittering), simulated realisations of random point processes including
simple sequential inhibition, Matern inhibition models, Neyman-Scott cluster processes
(using direct, Brix-Kendall, or hybrid algorithms),
log-Gaussian Cox processes, product shot noise cluster processes
and Gibbs point processes (using Metropolis-Hastings birth-death-shift algorithm,
alternating Gibbs sampler, or coupling-from-the-past perfect simulation).
Also generates random spatial patterns of line segments,
random tessellations, and random images (random noise, random mosaics).
Excludes random generation on a linear network,
which is covered by the separate package 'spatstat.linnet'.
Author: Adrian Baddeley [aut, cre, cph] ,
Rolf Turner [aut, cph] ,
Ege Rubak [aut, cph] ,
Tilman Davies [aut, cph] ,
Kasper Klitgaard Berthelsen [ctb, cph],
David Bryant [ctb, cph],
Ya-Mei Chang [ctb, cph],
Ute Hahn [ctb],
Abdollah Jalilian [ctb],
Dominic Sc [...truncated...]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat.random versions 3.4-5 dated 2026-03-22 and 3.5-0 dated 2026-05-24
DESCRIPTION | 16 ++--- MD5 | 31 +++++----- NAMESPACE | 17 +++++ NEWS | 28 +++++++++ R/clusterinfo.R | 55 ++++++++++++++---- R/random.R | 61 ++++++++++++++++++++ R/rdiffuse.R |only R/truncpois.R | 117 +++++++++++++++++++++++++++++++++++++++- build/partial.rdb |binary inst/doc/packagesizes.txt | 1 inst/info/packagesizes.txt | 1 man/macros/defns.Rd | 1 man/rUnround.Rd |only man/rdiffuse.Rd |only man/rpoistrunc.Rd | 45 ++++++++++++--- man/spatstat.random-internal.Rd | 5 + man/spatstat.random-package.Rd | 33 ++++++++--- tests/Random.R | 91 ++++++++++++++++++++++++++++++- 18 files changed, 446 insertions(+), 56 deletions(-)
More information about spatstat.random at CRAN
Permanent link
Title: Fused Extended Two-Way Fixed Effects
Description: Calculates the fused extended two-way fixed effects (FETWFE) estimator for unbiased and efficient estimation of difference-in-differences in panel data with staggered treatment adoption. This estimator eliminates bias inherent in conventional two-way fixed effects estimators, while also employing a novel bridge regression regularization approach to improve efficiency and yield valid standard errors. Also implements extended TWFE (etwfe) and bridge-penalized ETWFE (betwfe). Provides S3 classes for streamlined workflow and supports flexible tuning (ridge and rank-condition guarantees), automatic covariate centering/scaling, and detailed overall and cohort-specific effect estimates with valid standard errors. Includes simulation and formatting utilities, extensive diagnostic tools, vignettes, and examples. See Faletto (2025) (<doi:10.48550/arXiv.2312.05985>).
Author: Gregory Faletto [aut, cre]
Maintainer: Gregory Faletto <gfaletto@gmail.com>
Diff between fetwfe versions 1.5.0 dated 2025-07-02 and 1.10.0 dated 2026-05-23
fetwfe-1.10.0/fetwfe/DESCRIPTION | 13 fetwfe-1.10.0/fetwfe/MD5 | 156 fetwfe-1.10.0/fetwfe/NAMESPACE | 30 fetwfe-1.10.0/fetwfe/NEWS.md | 891 ++++ fetwfe-1.10.0/fetwfe/R/betwfe_class.R |only fetwfe-1.10.0/fetwfe/R/betwfe_core.R | 525 +- fetwfe-1.10.0/fetwfe/R/broom_methods.R |only fetwfe-1.10.0/fetwfe/R/class_helpers.R |only fetwfe-1.10.0/fetwfe/R/convert_dfs.R | 85 fetwfe-1.10.0/fetwfe/R/core_funcs.R | 1035 +++-- fetwfe-1.10.0/fetwfe/R/design_matrix.R |only fetwfe-1.10.0/fetwfe/R/etwfe_class.R | 259 - fetwfe-1.10.0/fetwfe/R/etwfe_core.R | 1825 --------- fetwfe-1.10.0/fetwfe/R/event_study.R |only fetwfe-1.10.0/fetwfe/R/fetwfe.R | 643 ++- fetwfe-1.10.0/fetwfe/R/fetwfe_class.R | 290 - fetwfe-1.10.0/fetwfe/R/fetwfe_core.R | 1948 +--------- fetwfe-1.10.0/fetwfe/R/fusion_transforms.R |only fetwfe-1.10.0/fetwfe/R/gen_coefs.R |only fetwfe-1.10.0/fetwfe/R/gen_data.R |only fetwfe-1.10.0/fetwfe/R/getTes_class.R |only fetwfe-1.10.0/fetwfe/R/sim_classes.R |only fetwfe-1.10.0/fetwfe/R/sim_helpers.R |only fetwfe-1.10.0/fetwfe/R/twfeCovs.R | 425 +- fetwfe-1.10.0/fetwfe/R/twfeCovs_class.R |only fetwfe-1.10.0/fetwfe/R/utility.R | 1241 +++++- fetwfe-1.10.0/fetwfe/R/variance_machinery.R |only fetwfe-1.10.0/fetwfe/README.md | 28 fetwfe-1.10.0/fetwfe/build/vignette.rds |binary fetwfe-1.10.0/fetwfe/inst/CITATION | 2 fetwfe-1.10.0/fetwfe/inst/WORDLIST |only fetwfe-1.10.0/fetwfe/inst/doc/etwfe_betwfe_vignette.R |only fetwfe-1.10.0/fetwfe/inst/doc/etwfe_betwfe_vignette.Rmd |only fetwfe-1.10.0/fetwfe/inst/doc/etwfe_betwfe_vignette.html |only fetwfe-1.10.0/fetwfe/inst/doc/inference_vignette.R |only fetwfe-1.10.0/fetwfe/inst/doc/inference_vignette.Rmd |only fetwfe-1.10.0/fetwfe/inst/doc/inference_vignette.html |only fetwfe-1.10.0/fetwfe/inst/doc/simulation_vignette.Rmd | 1 fetwfe-1.10.0/fetwfe/inst/doc/simulation_vignette.html | 46 fetwfe-1.10.0/fetwfe/inst/doc/vignette.R | 108 fetwfe-1.10.0/fetwfe/inst/doc/vignette.Rmd | 164 fetwfe-1.10.0/fetwfe/inst/doc/vignette.html | 505 +- fetwfe-1.10.0/fetwfe/man/FETWFE_coefs-class.Rd |only fetwfe-1.10.0/fetwfe/man/FETWFE_simulated-class.Rd |only fetwfe-1.10.0/fetwfe/man/FETWFE_tes-class.Rd |only fetwfe-1.10.0/fetwfe/man/attgtToFetwfeDf.Rd | 24 fetwfe-1.10.0/fetwfe/man/augment.betwfe.Rd |only fetwfe-1.10.0/fetwfe/man/augment.etwfe.Rd |only fetwfe-1.10.0/fetwfe/man/augment.fetwfe.Rd |only fetwfe-1.10.0/fetwfe/man/betwfe-class.Rd |only fetwfe-1.10.0/fetwfe/man/betwfe.Rd | 115 fetwfe-1.10.0/fetwfe/man/betwfeWithSimulatedData.Rd | 63 fetwfe-1.10.0/fetwfe/man/etwfe.Rd | 106 fetwfe-1.10.0/fetwfe/man/etwfeToFetwfeDf.Rd | 15 fetwfe-1.10.0/fetwfe/man/etwfeWithSimulatedData.Rd | 58 fetwfe-1.10.0/fetwfe/man/eventStudy.Rd |only fetwfe-1.10.0/fetwfe/man/fetwfe.Rd | 98 fetwfe-1.10.0/fetwfe/man/fetwfeWithSimulatedData.Rd | 49 fetwfe-1.10.0/fetwfe/man/genCoefs.Rd | 2 fetwfe-1.10.0/fetwfe/man/genCoefsCore.Rd | 2 fetwfe-1.10.0/fetwfe/man/getTes.Rd | 29 fetwfe-1.10.0/fetwfe/man/glance.betwfe.Rd |only fetwfe-1.10.0/fetwfe/man/glance.etwfe.Rd |only fetwfe-1.10.0/fetwfe/man/glance.fetwfe.Rd |only fetwfe-1.10.0/fetwfe/man/simulateData.Rd | 6 fetwfe-1.10.0/fetwfe/man/simulateDataCore.Rd | 6 fetwfe-1.10.0/fetwfe/man/tidy.FETWFE_tes.Rd |only fetwfe-1.10.0/fetwfe/man/tidy.betwfe.Rd |only fetwfe-1.10.0/fetwfe/man/tidy.etwfe.Rd |only fetwfe-1.10.0/fetwfe/man/tidy.eventStudy.Rd |only fetwfe-1.10.0/fetwfe/man/tidy.fetwfe.Rd |only fetwfe-1.10.0/fetwfe/man/twfeCovs-class.Rd |only fetwfe-1.10.0/fetwfe/man/twfeCovs.Rd | 103 fetwfe-1.10.0/fetwfe/man/twfeCovsWithSimulatedData.Rd | 62 fetwfe-1.10.0/fetwfe/tests/testthat.R |only fetwfe-1.10.0/fetwfe/tests/testthat/_snaps |only fetwfe-1.10.0/fetwfe/tests/testthat/helper-panel-fixture.R |only fetwfe-1.10.0/fetwfe/tests/testthat/test-assemble-cluster-sandwich-78.R |only fetwfe-1.10.0/fetwfe/tests/testthat/test-augment-treatment-parity.R |only fetwfe-1.10.0/fetwfe/tests/testthat/test-betwfe-add-ridge-basis.R |only fetwfe-1.10.0/fetwfe/tests/testthat/test-betwfe-se-fix.R |only fetwfe-1.10.0/fetwfe/tests/testthat/test-betwfe.R | 510 +- fetwfe-1.10.0/fetwfe/tests/testthat/test-broom-methods.R |only fetwfe-1.10.0/fetwfe/tests/testthat/test-build-selected-out-result-80.R |only fetwfe-1.10.0/fetwfe/tests/testthat/test-class-helpers.R |only fetwfe-1.10.0/fetwfe/tests/testthat/test-class-validators.R |only fetwfe-1.10.0/fetwfe/tests/testthat/test-doc-slot-parity.R |only fetwfe-1.10.0/fetwfe/tests/testthat/test-est-omega-sqrt-inv.R |only fetwfe-1.10.0/fetwfe/tests/testthat/test-estimator-entry-snapshot.R |only fetwfe-1.10.0/fetwfe/tests/testthat/test-etwfe.R | 652 ++- fetwfe-1.10.0/fetwfe/tests/testthat/test-event_study.R |only fetwfe-1.10.0/fetwfe/tests/testthat/test-fetwfe-var2-fix.R |only fetwfe-1.10.0/fetwfe/tests/testthat/test-fetwfe.R | 577 ++ fetwfe-1.10.0/fetwfe/tests/testthat/test-genCoefs.R | 46 fetwfe-1.10.0/fetwfe/tests/testthat/test-getCohortATTsFinal-unification.R |only fetwfe-1.10.0/fetwfe/tests/testthat/test-getTes.R | 84 fetwfe-1.10.0/fetwfe/tests/testthat/test-idcohorts-collect-violations.R |only fetwfe-1.10.0/fetwfe/tests/testthat/test-lex-cohort-sort.R |only fetwfe-1.10.0/fetwfe/tests/testthat/test-method-preconditions.R |only fetwfe-1.10.0/fetwfe/tests/testthat/test-micro-helpers-83.R |only fetwfe-1.10.0/fetwfe/tests/testthat/test-prep-helpers-81.R |only fetwfe-1.10.0/fetwfe/tests/testthat/test-print-method-snapshot.R |only fetwfe-1.10.0/fetwfe/tests/testthat/test-simulateData.R | 80 fetwfe-1.10.0/fetwfe/tests/testthat/test-soft-bugs-56.R |only fetwfe-1.10.0/fetwfe/tests/testthat/test-twfeCovs.R | 397 +- fetwfe-1.10.0/fetwfe/vignettes/etwfe_betwfe_vignette.Rmd |only fetwfe-1.10.0/fetwfe/vignettes/inference_vignette.Rmd |only fetwfe-1.10.0/fetwfe/vignettes/simulation_vignette.Rmd | 1 fetwfe-1.10.0/fetwfe/vignettes/vignette.Rmd | 164 fetwfe-1.5.0/fetwfe/R/gen_funcs.R |only fetwfe-1.5.0/fetwfe/R/ols_calcs.R |only 111 files changed, 7641 insertions(+), 5828 deletions(-)
Title: Beta Autoregressive Moving Average Models
Description: Fits Beta Autoregressive Moving Average (BARMA) models for time series data distributed in the standard unit interval (0, 1). The estimation is performed via the conditional maximum likelihood method using the Broyden-Fletcher-Goldfarb-Shanno (BFGS) quasi-Newton algorithm. A ridge penalization scheme is available to improve numerical stability of the estimation, as proposed by Cribari-Neto, Costa and Fonseca (2025) <doi:10.1214/25-BJPS645>. The package includes tools for model fitting, diagnostic checking, and forecasting, along with two hydro-environmental datasets from Brazil. Based on the work of Rocha and Cribari-Neto (2009) <doi:10.1007/s11749-008-0112-z> and the associated erratum Rocha and Cribari-Neto (2017) <doi:10.1007/s11749-017-0528-4>. The original code was developed by Fabio M. Bayer.
Author: Everton da Costa [aut, cre] ,
Francisco Cribari-Neto [ctb, ths] ,
Vinicius Scher [ctb]
Maintainer: Everton da Costa <everto.cost@gmail.com>
Diff between betaARMA versions 1.1.0 dated 2026-04-15 and 1.2.0 dated 2026-05-23
DESCRIPTION | 19 - MD5 | 54 ++-- NAMESPACE | 31 ++ NEWS.md | 54 +++- R/barma.R | 603 +++++++++++++++++++++++----------------------- R/data.R |only R/fim_barma.R | 95 +++++-- R/forecast.barma.R | 25 + R/loglik_barma.R | 92 +++++-- R/plot.barma.R |only R/print.barma.R | 6 R/print.summary.barma.R | 96 +++++-- R/residuals.barma.R | 270 ++++++++++++++------ R/score_vector_barma.R | 132 +++++++--- R/summary.barma.R | 19 - R/utils_internal.R |only R/utils_optimizer.R |only README.md | 305 ++++++++++++++++++----- build/vignette.rds |only data |only inst/CITATION |only inst/REFERENCES.bib |only inst/WORDLIST | 61 +++- inst/doc |only man/barma.Rd | 205 ++++++++++----- man/brasilia_df.Rd |only man/brasilia_ts.Rd |only man/fim_barma.Rd | 31 +- man/loglik_barma.Rd | 47 +++ man/plot.barma.Rd |only man/residuals.barma.Rd | 112 ++++++-- man/score_vector_barma.Rd | 65 ++-- vignettes |only 33 files changed, 1585 insertions(+), 737 deletions(-)
Title: Animated Glass-Style Tabs and Multi-Select Filter for 'Shiny'
Description: Tools for creating animated glassmorphism-style tab
navigation and select filter widgets in 'Shiny' applications.
Provides a tab navigation component with a sliding glass halo
animation, a searchable multi-select dropdown, and a single-select
dropdown — all with multiple colour themes and server-side update
helpers. Tabs support icons, numeric badges, disable/enable toggling,
runtime append/remove, reactive rendering via 'renderGlassTabs()',
URL bookmarking, and compact mode for dashboard card layouts.
'glassTabCondition()' generates 'conditionalPanel()' condition strings
without needing to recall the internal input key pattern.
'glasstabs_news()' displays the release notes from the R console.
Built-in example apps can be launched with 'runGlassExample()'.
All widgets are compatible with standard 'Shiny' layouts and
'bs4Dash' dashboards.
For full documentation and examples see Arthur (2026)
<https://prigasg.github.io/glasstabs/>.
Author: George Arthur [aut, cre]
Maintainer: George Arthur <prigasgenthian48@gmail.com>
Diff between glasstabs versions 0.2.1 dated 2026-04-11 and 0.3.2 dated 2026-05-23
glasstabs-0.2.1/glasstabs/inst/examples/basic/testing_js_select.R |only glasstabs-0.3.2/glasstabs/DESCRIPTION | 26 glasstabs-0.3.2/glasstabs/MD5 | 111 - glasstabs-0.3.2/glasstabs/NAMESPACE | 8 glasstabs-0.3.2/glasstabs/NEWS.md | 185 +- glasstabs-0.3.2/glasstabs/R/dependencies.R | 97 + glasstabs-0.3.2/glasstabs/R/glassSelect.R | 90 glasstabs-0.3.2/glasstabs/R/glass_multiselect.R | 102 - glasstabs-0.3.2/glasstabs/R/glass_select_theme.R | 69 glasstabs-0.3.2/glasstabs/R/glass_tab_theme.R | 91 glasstabs-0.3.2/glasstabs/R/glass_tabs.R | 562 +++++- glasstabs-0.3.2/glasstabs/R/zzz.R | 115 + glasstabs-0.3.2/glasstabs/README.md | 80 glasstabs-0.3.2/glasstabs/inst/WORDLIST | 26 glasstabs-0.3.2/glasstabs/inst/cheatsheet |only glasstabs-0.3.2/glasstabs/inst/doc/cheatsheet.R | 123 + glasstabs-0.3.2/glasstabs/inst/doc/cheatsheet.Rmd | 157 + glasstabs-0.3.2/glasstabs/inst/doc/cheatsheet.html | 362 ++- glasstabs-0.3.2/glasstabs/inst/doc/getting-started.R | 10 glasstabs-0.3.2/glasstabs/inst/doc/getting-started.Rmd | 10 glasstabs-0.3.2/glasstabs/inst/doc/getting-started.html | 10 glasstabs-0.3.2/glasstabs/inst/doc/glassSelect.R | 6 glasstabs-0.3.2/glasstabs/inst/doc/glassSelect.Rmd | 6 glasstabs-0.3.2/glasstabs/inst/doc/glassSelect.html | 6 glasstabs-0.3.2/glasstabs/inst/doc/multiselect.R | 6 glasstabs-0.3.2/glasstabs/inst/doc/multiselect.Rmd | 6 glasstabs-0.3.2/glasstabs/inst/doc/multiselect.html | 6 glasstabs-0.3.2/glasstabs/inst/doc/tabs.R | 2 glasstabs-0.3.2/glasstabs/inst/doc/tabs.Rmd | 2 glasstabs-0.3.2/glasstabs/inst/doc/tabs.html | 2 glasstabs-0.3.2/glasstabs/inst/examples/basic/app.R | 2 glasstabs-0.3.2/glasstabs/inst/examples/bs4dash/app.R | 25 glasstabs-0.3.2/glasstabs/inst/examples/dashboard/app.R | 2 glasstabs-0.3.2/glasstabs/inst/examples/smoke-test/app.R | 30 glasstabs-0.3.2/glasstabs/inst/www/glass.css | 482 ++++- glasstabs-0.3.2/glasstabs/inst/www/glass.js | 912 +++++++--- glasstabs-0.3.2/glasstabs/man/disableGlassTab.Rd |only glasstabs-0.3.2/glasstabs/man/glassFilterTags.Rd | 5 glasstabs-0.3.2/glasstabs/man/glassMultiSelect.Rd | 14 glasstabs-0.3.2/glasstabs/man/glassSelect.Rd | 8 glasstabs-0.3.2/glasstabs/man/glassTabCondition.Rd |only glasstabs-0.3.2/glasstabs/man/glassTabPanel.Rd | 15 glasstabs-0.3.2/glasstabs/man/glassTabsOutput.Rd |only glasstabs-0.3.2/glasstabs/man/glassTabsServer.Rd | 63 glasstabs-0.3.2/glasstabs/man/glassTabsUI.Rd | 15 glasstabs-0.3.2/glasstabs/man/glass_select_theme.Rd | 52 glasstabs-0.3.2/glasstabs/man/glass_tab_theme.Rd | 52 glasstabs-0.3.2/glasstabs/man/glasstabs_news.Rd |only glasstabs-0.3.2/glasstabs/man/renderGlassTabs.Rd |only glasstabs-0.3.2/glasstabs/man/runGlassExample.Rd |only glasstabs-0.3.2/glasstabs/man/updateGlassMultiSelect.Rd | 4 glasstabs-0.3.2/glasstabs/man/updateGlassTabBadge.Rd |only glasstabs-0.3.2/glasstabs/man/useGlassTabs.Rd | 4 glasstabs-0.3.2/glasstabs/tests/testthat/test-new-features.R |only glasstabs-0.3.2/glasstabs/tests/testthat/test-public-readiness.R |only glasstabs-0.3.2/glasstabs/tests/testthat/test-roadmap-phase1.R |only glasstabs-0.3.2/glasstabs/tests/testthat/test-tabs.R | 60 glasstabs-0.3.2/glasstabs/vignettes/cheatsheet.Rmd | 157 + glasstabs-0.3.2/glasstabs/vignettes/getting-started.Rmd | 10 glasstabs-0.3.2/glasstabs/vignettes/glassSelect.Rmd | 6 glasstabs-0.3.2/glasstabs/vignettes/multiselect.Rmd | 6 glasstabs-0.3.2/glasstabs/vignettes/tabs.Rmd | 2 62 files changed, 3380 insertions(+), 822 deletions(-)
Title: Examples of Datasets on Allometry
Description: Examples of datasets on allometry, the study of the relationship of biological traits to body size. This package contains the datasets of morphological measurement taken from 113 maritime earwigs (Anisolabis maritima) by Matsuzawa and Konuma (2025) <doi:10.1093/biolinnean/blaf031>, and taken from 507 Helm’s stag beetles (Geodorcus helmsi) collected by Grey et al. (2025) <doi:10.1093/biolinnean/blae024>.
Author: Takeshi Abe [aut, cre]
Maintainer: Takeshi Abe <tabe@fixedpoint.jp>
Diff between allometry versions 0.1.1 dated 2025-07-17 and 0.2.0 dated 2026-05-23
allometry-0.1.1/allometry/COPYING |only allometry-0.2.0/allometry/DESCRIPTION | 10 +++-- allometry-0.2.0/allometry/MD5 | 12 +++--- allometry-0.2.0/allometry/NEWS.md | 4 ++ allometry-0.2.0/allometry/R/data.R | 30 ++++++++++++++++- allometry-0.2.0/allometry/README.md | 15 ++++++-- allometry-0.2.0/allometry/data/helmsi.rda |only allometry-0.2.0/allometry/man/helmsi.Rd |only allometry-0.2.0/allometry/tests/testthat/test-helmsi.R |only 9 files changed, 58 insertions(+), 13 deletions(-)
Title: Spatial Projection of Network Signals along Geodesic Paths
Description: For a given graph containing vertices, edges, and a signal
associated with the vertices, the 'PathwaySpace' package performs a convolution
operation, which involves a weighted combination of neighboring vertices and
their associated signals. The package uses a decay function to project these
signals, creating geodesic paths on a 2D-image space. 'PathwaySpace' has various
applications, such as visualizing network data in a graphical format that
highlights the relationships and signal strengths between vertices. By
combining graph theory, signal processing, and visualization, 'PathwaySpace'
provides a way of representing graph data on a continuous projection space.
Based on methods introduced in Tercan et al. (2025)
<doi:10.1016/j.xpro.2025.103681> and Ellrott et al. (2025)
<doi:10.1016/j.ccell.2024.12.002>.
Author: Sysbiolab Team [aut],
Victor Apolonio [ctb],
Jonathan Back [ctb],
Lana Querne [ctb],
Vinicius Chagas [ctb],
Bahar Tercan [ctb],
Mauro Castro [cre]
Maintainer: Mauro Castro <mauro.a.castro@gmail.com>
Diff between PathwaySpace versions 1.2.0 dated 2026-04-25 and 1.3.0 dated 2026-05-23
DESCRIPTION | 8 +-- MD5 | 78 ++++++++++++++++++------------------ R/pspaceDecay.R | 6 +- R/pspaceMisc.R | 30 ++----------- R/pspacePlots.R | 2 R/pspaceWatershed.R | 2 build/partial.rdb |binary build/vignette.rds |binary inst/NEWS.Rd | 19 ++++++++ inst/doc/PathwaySpace.R | 2 inst/doc/PathwaySpace.Rmd | 6 +- inst/doc/PathwaySpace.html | 47 +++++++++++---------- man/CGC_20211118.Rd | 2 man/Hallmarks_v2023_1_Hs_symbols.Rd | 6 +- man/PCv12_pruned_igraph.Rd | 14 +++--- man/PathwaySpace-package.Rd | 53 +++++++++++++----------- man/buildPathwaySpace.Rd | 12 ++--- man/circularProjection-methods.Rd | 32 +++++++------- man/expDecay.Rd | 42 +++++++++---------- man/getNearestNode.Rd | 4 - man/getPathwaySpace-methods.Rd | 6 +- man/linearDecay.Rd | 46 ++++++++++----------- man/pathDistances.Rd | 4 - man/plotPathDistances.Rd | 2 man/plotPathwaySpace-methods.Rd | 30 ++++++------- man/polarProjection-methods.Rd | 44 ++++++++++---------- man/pspace.pals.Rd | 4 - man/signalAggregation.Rd | 8 +-- man/signalDecay.Rd | 2 man/silhouetteMapping-methods.Rd | 10 ++-- man/summitMapping-methods.Rd | 8 +-- man/summitWatershed.Rd | 2 man/vertexSignal-accessors.Rd | 2 man/weibullDecay.Rd | 48 +++++++++++----------- vignettes/PathwaySpace.Rmd | 6 +- vignettes/bibliography.bib | 28 +++++++++++- vignettes/figures/fig1.png |binary vignettes/figures/fig3.png |binary vignettes/figures/fig4.png |binary vignettes/figures/fig8.png |binary 40 files changed, 321 insertions(+), 294 deletions(-)
Title: Object-Oriented Diagram Plots with 'ggplot2'
Description: Creates diagrams with an object-oriented approach. Geometric
objects have computed properties with information about themselves
(e.g., their area) or about their relationships with other objects
(e.g, the distance between their edges). The objects have methods to
convert them to geoms that can be plotted in 'ggplot2'.
Author: W. Joel Schneider [aut, cre]
Maintainer: W. Joel Schneider <w.joel.schneider@gmail.com>
Diff between ggdiagram versions 0.1.1 dated 2025-09-14 and 0.2.0 dated 2026-05-23
DESCRIPTION | 24 MD5 | 158 +- NAMESPACE | 170 +- NEWS.md | 21 R/a_early.R | 988 +++++++++------ R/angles.R | 283 ++-- R/arcs.R | 741 ++++++----- R/bezier.R | 624 ++++++--- R/circles.R | 407 +++--- R/colors.R | 150 +- R/distances.R | 63 R/ellipses.R | 1485 ++++++++++++---------- R/equations.R | 227 ++- R/inside.R | 92 - R/intersections.R | 1192 ++++++++++-------- R/labels.R | 575 ++++---- R/lines.R | 466 +++---- R/paths.R | 418 +++--- R/points.R | 830 +++++++----- R/polygons.R | 2354 +++++++++++++++++------------------- R/rectangles.R | 469 ++++--- R/rescale.R |only R/rotate.R | 104 - R/segments.R | 388 +++-- R/str.R | 124 - R/style.R | 183 +- R/zzz.R | 2 README.md | 3 build/vignette.rds |binary inst/WORDLIST | 4 inst/doc/ggdiagram.R | 2 inst/doc/ggdiagram.html | 7 inst/doc/ggdiagram.qmd | 2 man/class_color.Rd | 30 man/class_margin.Rd |only man/data2shape.Rd | 3 man/equation.Rd | 13 man/ggdiagram-package.Rd | 5 man/ggdiagram.Rd | 2 man/lead_cycle.Rd |only man/map2_ob.Rd |only man/map_ob.Rd | 2 man/mean_color.Rd | 9 man/ob_angle.Rd | 18 man/ob_arc.Rd | 62 man/ob_array.Rd | 15 man/ob_bezier.Rd | 37 man/ob_circle.Rd | 64 man/ob_covariance.Rd | 35 man/ob_ellipse.Rd | 42 man/ob_intercept.Rd | 29 man/ob_label.Rd | 22 man/ob_latex.Rd | 6 man/ob_line.Rd | 22 man/ob_ngon.Rd | 59 man/ob_path.Rd | 25 man/ob_point.Rd | 36 man/ob_polygon.Rd | 18 man/ob_rectangle.Rd | 33 man/ob_reuleaux.Rd | 47 man/ob_segment.Rd | 32 man/ob_style.Rd | 4 man/ob_variance.Rd | 31 man/reexports.Rd | 2 man/rescale.Rd |only man/subscript.Rd | 5 tests/testthat/test-addition.R | 133 -- tests/testthat/test-angle.R | 81 + tests/testthat/test-arc.R |only tests/testthat/test-bezier.R |only tests/testthat/test-circle.R | 287 +--- tests/testthat/test-color.R |only tests/testthat/test-distance.R |only tests/testthat/test-ellipse.R |only tests/testthat/test-equation.R |only tests/testthat/test-inside.R |only tests/testthat/test-intersections.R |only tests/testthat/test-label.R |only tests/testthat/test-latex.R |only tests/testthat/test-line.R | 138 ++ tests/testthat/test-misc.R | 173 ++ tests/testthat/test-path.R |only tests/testthat/test-point.R | 161 ++ tests/testthat/test-polygon.R |only tests/testthat/test-rectangle.R |only tests/testthat/test-rescale.R |only tests/testthat/test-rotate.R |only tests/testthat/test-segment.R |only tests/testthat/test-str.R |only tests/testthat/test-style.R | 301 ++++ vignettes/ggdiagram.qmd | 2 91 files changed, 8486 insertions(+), 6054 deletions(-)
Title: Risk Tool Library - Trading, Risk, Analytics for Commodities
Description: A toolkit for Commodities 'analytics', risk management and
trading professionals. Includes functions for API calls to
<https://www.zema.global/platforms/zema-marketplace>, <https://developer.genscape.com/>,
and <https://www.bankofcanada.ca/valet/docs>.
Author: Philippe Cote [aut, cre],
Nima Safaian [aut]
Maintainer: Philippe Cote <pcote@ualberta.ca>
Diff between RTL versions 1.3.7 dated 2025-02-25 and 1.3.9 dated 2026-05-23
RTL-1.3.7/RTL/R/morningstar.R |only RTL-1.3.7/RTL/data/eurodollar.rda |only RTL-1.3.7/RTL/data/fxfwd.rda |only RTL-1.3.7/RTL/data/tradeprocess.rda |only RTL-1.3.7/RTL/man/eurodollar.Rd |only RTL-1.3.7/RTL/man/fxfwd.Rd |only RTL-1.3.7/RTL/man/tradeprocess.Rd |only RTL-1.3.9/RTL/DESCRIPTION | 19 - RTL-1.3.9/RTL/MD5 | 96 ++++----- RTL-1.3.9/RTL/NAMESPACE | 1 RTL-1.3.9/RTL/NEWS.md | 280 ----------------------------- RTL-1.3.9/RTL/R/chart_spreads.R | 6 RTL-1.3.9/RTL/R/data.R | 26 -- RTL-1.3.9/RTL/R/efficientFrontier.R | 1 RTL-1.3.9/RTL/R/promptBeta.R | 31 --- RTL-1.3.9/RTL/R/swapInfo.R | 6 RTL-1.3.9/RTL/R/tradeStats.R | 1 RTL-1.3.9/RTL/R/tradeStrategyDY.R | 1 RTL-1.3.9/RTL/R/tradeStrategySMA.R | 1 RTL-1.3.9/RTL/R/zema.R |only RTL-1.3.9/RTL/README.md | 12 - RTL-1.3.9/RTL/data/cma.rda |binary RTL-1.3.9/RTL/data/cushing.rda |binary RTL-1.3.9/RTL/data/dflong.rda |binary RTL-1.3.9/RTL/data/dfwide.rda |binary RTL-1.3.9/RTL/data/eiaStocks.rda |binary RTL-1.3.9/RTL/data/eiaStorageCap.rda |binary RTL-1.3.9/RTL/data/expiry_table.rda |binary RTL-1.3.9/RTL/data/fizdiffs.rda |binary RTL-1.3.9/RTL/data/futuresRef.rda |binary RTL-1.3.9/RTL/data/holidaysOil.rda |binary RTL-1.3.9/RTL/data/spot2futConvergence.rda |binary RTL-1.3.9/RTL/data/steo.rda |binary RTL-1.3.9/RTL/data/stocks.rda |binary RTL-1.3.9/RTL/data/tickers_eia.rda |binary RTL-1.3.9/RTL/data/tradeCycle.rda |binary RTL-1.3.9/RTL/data/tsQuotes.rda |binary RTL-1.3.9/RTL/data/usSwapCurves.rda |binary RTL-1.3.9/RTL/data/usSwapCurvesPar.rda |binary RTL-1.3.9/RTL/data/wtiSwap.rda |binary RTL-1.3.9/RTL/inst/WORDLIST | 35 --- RTL-1.3.9/RTL/man/RTL-package.Rd | 3 RTL-1.3.9/RTL/man/chart_spreads.Rd | 6 RTL-1.3.9/RTL/man/dflong.Rd | 3 RTL-1.3.9/RTL/man/dfwide.Rd | 3 RTL-1.3.9/RTL/man/getCurve.Rd | 16 - RTL-1.3.9/RTL/man/getPrice.Rd | 21 -- RTL-1.3.9/RTL/man/getPrices.Rd | 12 - RTL-1.3.9/RTL/man/spot2futConvergence.Rd | 2 RTL-1.3.9/RTL/man/spot2futCurve.Rd | 3 RTL-1.3.9/RTL/man/swapInfo.Rd | 6 RTL-1.3.9/RTL/man/usSwapCurves.Rd | 3 RTL-1.3.9/RTL/man/wtiSwap.Rd | 3 53 files changed, 115 insertions(+), 482 deletions(-)
Title: Tools for the Analysis of Clustered Data in QCA
Description: Clustered set-relational data in Qualitative Comparative Analysis
(QCA) can have a hierarchical structure, a panel structure or repeated cross
sections. 'QCAcluster' allows researchers to supplement the analysis
of pooled the data with a differentiated perspective focusing on selected
partitions of the data. The pooled data can be partitioned along the
dimensions of the clustered data (individual cross sections or time series)
to perform partition-specific truth table minimization. Empirical
researchers can further calculate the weight that each partition has on the
parameters of the pooled solution and the diversity of the cases under
analysis within and across partitions
(see <https://ingorohlfing.github.io/QCAcluster/>).
Author: Ingo Rohlfing [aut, cre] ,
Ayjeren Bekmuratovna [aut],
Jan Schwalbach [aut]
Maintainer: Ingo Rohlfing <ingo.rohlfing@uni-passau.de>
This is a re-admission after prior archival of version 0.1.0 dated 2021-10-26
Diff between QCAcluster versions 0.1.0 dated 2021-10-26 and 0.2.0 dated 2026-05-23
DESCRIPTION | 37 - MD5 | 57 +-- NEWS.md |only R/partition_div.R | 4 R/partition_min.R | 12 R/partition_min_inter.R | 4 R/upset_conditions.R | 8 R/upset_configurations.R | 6 R/wop.R | 6 R/wop_inter.R | 4 README.md | 10 build/vignette.rds |binary inst/doc/Aggregation-over-partitions.R | 6 inst/doc/Aggregation-over-partitions.html | 427 +++++++++++++++++----- inst/doc/Diversity-of-partitions.R | 2 inst/doc/Diversity-of-partitions.html | 493 ++++++++++++++++++------- inst/doc/Minimization-of-partitions.R | 6 inst/doc/Minimization-of-partitions.html | 569 ++++++++++++++++++++++-------- inst/doc/Weight-of-partitions.R | 26 - inst/doc/Weight-of-partitions.html | 457 ++++++++++++++++++------ man/Grauvogel2014.Rd | 76 ++-- man/Schwarz2016.Rd | 66 +-- man/Thiem2011.Rd | 78 ++-- man/partition_div.Rd | 4 man/partition_min.Rd | 10 man/partition_min_inter.Rd | 4 man/upset_conditions.Rd | 84 ++-- man/upset_configurations.Rd | 6 man/wop.Rd | 6 man/wop_inter.Rd | 4 30 files changed, 1749 insertions(+), 723 deletions(-)
Title: Machine Learning Feature Selection for High Dimensional Survival
Data
Description: A unified, flexible framework for high dimensional feature
selection in the presence of a survival outcome. Provides multiple
machine learning approaches (Cox elastic net, random survival forest,
accelerated oblique random survival forest, gradient-boosted Cox,
stability selection, classical univariate Cox screening, pseudo-
observation bridging to arbitrary regression learners, and Fine-Gray
competing risks selection) under a single interface. Adds causal
survival forest estimation of heterogeneous treatment effects on
survival (experimental), conformal survival prediction with finite-
sample coverage guarantees, and time-dependent 'SHAP' explanations via
'SurvSHAP(t)'. Methodology is based on regularised Cox regression
(2011) <doi:10.18637/jss.v039.i05>, random survival forests (2008)
<doi:10.1214/08-AOAS169>, oblique random survival forests (2024)
<doi:10.1080/10618600.2023.2231048>, stability selection (2010)
<doi:10.1111/j.1467-9868.2010.00740.x>, causal su [...truncated...]
Author: Atanu Bhattacharjee [aut, cre]
Maintainer: Atanu Bhattacharjee <atanustat@gmail.com>
Diff between highMLR versions 0.1.1 dated 2022-07-18 and 1.0.1 dated 2026-05-23
highMLR-0.1.1/highMLR/R/hnscc.R |only highMLR-0.1.1/highMLR/R/mlclassCox.R |only highMLR-0.1.1/highMLR/R/mlclassKap.R |only highMLR-0.1.1/highMLR/R/mlhighCox.R |only highMLR-0.1.1/highMLR/R/mlhighFrail.R |only highMLR-0.1.1/highMLR/R/mlhighHet.R |only highMLR-0.1.1/highMLR/R/mlhighKap.R |only highMLR-0.1.1/highMLR/R/srdata.R |only highMLR-0.1.1/highMLR/man/mlclassCox.Rd |only highMLR-0.1.1/highMLR/man/mlclassKap.Rd |only highMLR-0.1.1/highMLR/man/mlhighCox.Rd |only highMLR-0.1.1/highMLR/man/mlhighFrail.Rd |only highMLR-0.1.1/highMLR/man/mlhighHet.Rd |only highMLR-0.1.1/highMLR/man/mlhighKap.Rd |only highMLR-1.0.1/highMLR/DESCRIPTION | 67 +++++++++++------- highMLR-1.0.1/highMLR/MD5 | 69 +++++++++++++------ highMLR-1.0.1/highMLR/NAMESPACE | 45 +++++++----- highMLR-1.0.1/highMLR/NEWS.md |only highMLR-1.0.1/highMLR/R/causal.R |only highMLR-1.0.1/highMLR/R/class-highmlr-fit.R |only highMLR-1.0.1/highMLR/R/companions.R |only highMLR-1.0.1/highMLR/R/conformal.R |only highMLR-1.0.1/highMLR/R/fit-aorsf.R |only highMLR-1.0.1/highMLR/R/fit-coxnet.R |only highMLR-1.0.1/highMLR/R/fit-finegray.R |only highMLR-1.0.1/highMLR/R/fit-pseudo.R |only highMLR-1.0.1/highMLR/R/fit-rsf.R |only highMLR-1.0.1/highMLR/R/fit-stability.R |only highMLR-1.0.1/highMLR/R/fit-univariate.R |only highMLR-1.0.1/highMLR/R/fit-xgboost.R |only highMLR-1.0.1/highMLR/R/highMLR-package.R |only highMLR-1.0.1/highMLR/R/highmlr.R |only highMLR-1.0.1/highMLR/README.md |only highMLR-1.0.1/highMLR/build |only highMLR-1.0.1/highMLR/data/hnscc.rda |binary highMLR-1.0.1/highMLR/data/srdata.rda |binary highMLR-1.0.1/highMLR/inst |only highMLR-1.0.1/highMLR/man/coef.highmlr_fit.Rd |only highMLR-1.0.1/highMLR/man/highMLR-package.Rd |only highMLR-1.0.1/highMLR/man/highmlr.Rd |only highMLR-1.0.1/highMLR/man/highmlr_causal.Rd |only highMLR-1.0.1/highMLR/man/highmlr_compare.Rd |only highMLR-1.0.1/highMLR/man/highmlr_conformal.Rd |only highMLR-1.0.1/highMLR/man/highmlr_explain.Rd |only highMLR-1.0.1/highMLR/man/highmlr_report.Rd |only highMLR-1.0.1/highMLR/man/highmlr_screen.Rd |only highMLR-1.0.1/highMLR/man/highmlr_stability.Rd |only highMLR-1.0.1/highMLR/man/hnscc.Rd | 28 ++++--- highMLR-1.0.1/highMLR/man/new_highmlr_fit.Rd |only highMLR-1.0.1/highMLR/man/plot.highmlr_conformal.Rd |only highMLR-1.0.1/highMLR/man/plot.highmlr_fit.Rd |only highMLR-1.0.1/highMLR/man/predict.highmlr_fit.Rd |only highMLR-1.0.1/highMLR/man/print.highmlr_conformal.Rd |only highMLR-1.0.1/highMLR/man/print.highmlr_fit.Rd |only highMLR-1.0.1/highMLR/man/srdata.Rd | 27 +++---- highMLR-1.0.1/highMLR/man/summary.highmlr_fit.Rd |only highMLR-1.0.1/highMLR/tests |only highMLR-1.0.1/highMLR/vignettes |only 58 files changed, 148 insertions(+), 88 deletions(-)
Title: Modeling Species Distributions in Three Dimensions
Description: Facilitates modeling species' ecological niches and
geographic distributions based on occurrences and environments that
have a vertical as well as horizontal component, and projecting models
into three-dimensional geographic space. Working in three dimensions is
useful in an aquatic context when the organisms one wishes to model can
be found across a wide range of depths in the water column. The package
also contains functions to automatically generate marine training
model training regions using machine learning, and interpolate and smooth
patchily sampled environmental rasters using thin plate splines.
Davis Rabosky AR, Cox CL, Rabosky DL, Title PO, Holmes IA, Feldman A, McGuire JA (2016) <doi:10.1038/ncomms11484>.
Nychka D, Furrer R, Paige J, Sain S (2021) <doi:10.5065/D6W957CT>.
Pateiro-Lopez B, Rodriguez-Casal A (2022) <https://CRAN.R-project.org/package=alphahull>.
Author: Hannah L. Owens [aut, cre, cph] ,
Emmaline Sheahan [aut] ,
Carsten Rahbek [aut]
Maintainer: Hannah L. Owens <hannah.owens@gmail.com>
This is a re-admission after prior archival of version 0.2.3 dated 2025-07-18
Diff between voluModel versions 0.2.3 dated 2025-07-18 and 0.2.4 dated 2026-05-23
voluModel-0.2.3/voluModel/man/figures/SoMePreview-01.png |only voluModel-0.2.3/voluModel/man/figures/SoMePreview.eps |only voluModel-0.2.4/voluModel/.aspell |only voluModel-0.2.4/voluModel/DESCRIPTION | 19 +-- voluModel-0.2.4/voluModel/MD5 | 62 ++++++---- voluModel-0.2.4/voluModel/NAMESPACE | 9 + voluModel-0.2.4/voluModel/NEWS.md | 5 voluModel-0.2.4/voluModel/R/cleanDepth.R |only voluModel-0.2.4/voluModel/R/depthMatch.R |only voluModel-0.2.4/voluModel/R/env_stack_transform.R |only voluModel-0.2.4/voluModel/R/maxent_3D.R |only voluModel-0.2.4/voluModel/R/modelDiagnostics.R | 21 +-- voluModel-0.2.4/voluModel/R/partition_3D.R |only voluModel-0.2.4/voluModel/R/threshold_3D.R |only voluModel-0.2.4/voluModel/R/visualizations.R | 2 voluModel-0.2.4/voluModel/build/vignette.rds |binary voluModel-0.2.4/voluModel/inst/doc/a_Introduction.Rmd | 2 voluModel-0.2.4/voluModel/inst/doc/a_Introduction.html | 20 +-- voluModel-0.2.4/voluModel/inst/doc/b_RasterProcessing.html | 12 - voluModel-0.2.4/voluModel/inst/doc/c_DataSampling.Rmd | 2 voluModel-0.2.4/voluModel/inst/doc/c_DataSampling.html | 28 ++-- voluModel-0.2.4/voluModel/inst/doc/d_Visualization.Rmd | 2 voluModel-0.2.4/voluModel/inst/doc/d_Visualization.html | 14 +- voluModel-0.2.4/voluModel/inst/doc/e_GLMWorkflow.R | 7 - voluModel-0.2.4/voluModel/inst/doc/e_GLMWorkflow.Rmd | 9 + voluModel-0.2.4/voluModel/inst/doc/e_GLMWorkflow.html | 39 +++--- voluModel-0.2.4/voluModel/man/MESS3D.Rd | 11 + voluModel-0.2.4/voluModel/man/cleanDepth.Rd |only voluModel-0.2.4/voluModel/man/depthMatch.Rd |only voluModel-0.2.4/voluModel/man/env_stack_transform.Rd |only voluModel-0.2.4/voluModel/man/maxent_3D.Rd |only voluModel-0.2.4/voluModel/man/partition_3D.Rd |only voluModel-0.2.4/voluModel/man/threshold_3D.Rd |only voluModel-0.2.4/voluModel/tests/testthat/test-MaxentModellingFunctions.R |only voluModel-0.2.4/voluModel/tests/testthat/test-cleanDepth.R |only voluModel-0.2.4/voluModel/tests/testthat/test-depthMatch.R |only voluModel-0.2.4/voluModel/tests/testthat/test-env_stack_transform.R |only voluModel-0.2.4/voluModel/tests/testthat/test-modelDiagnostics.R | 15 +- voluModel-0.2.4/voluModel/vignettes/a_Introduction.Rmd | 2 voluModel-0.2.4/voluModel/vignettes/c_DataSampling.Rmd | 2 voluModel-0.2.4/voluModel/vignettes/d_Visualization.Rmd | 2 voluModel-0.2.4/voluModel/vignettes/e_GLMWorkflow.Rmd | 9 + 42 files changed, 177 insertions(+), 117 deletions(-)
Title: Compare and Verify File Contents
Description: Extendable 'R6' file comparison classes, including a 'shiny' app for combining the comparison functionality into a file comparison application. The package idea originates from pharma companies' drug development processes, where statisticians and statistical programmers need to review and compare different versions of the same outputs and datasets. The package implementation itself is not tied to any specific industry and can be used in any context for easy file comparisons between different file version sets.
Author: Juha Javanainen [aut, cre],
Tiina Kirsilae [ctb],
Anna Wiksten [ctb]
Maintainer: Juha Javanainen <ejuhjav@gmail.com>
Diff between verifyr2 versions 1.1.0 dated 2026-01-08 and 1.2.0 dated 2026-05-23
DESCRIPTION | 10 MD5 | 56 - NEWS.md | 21 R/BinaryFileComparator.R | 10 R/Config.R | 138 ++- R/RtfFileComparator.R | 25 R/TxtFileComparator.R | 45 - R/list_folder_files.R | 4 inst/extdata/base_files/file11_spaces.txt |only inst/extdata/compare_files/file11_spaces.txt |only inst/shiny_examples/app/app.R | 437 +++++++--- inst/shiny_examples/app/report_styles.css |only inst/shiny_examples/app/report_template.Rmd |only inst/shiny_examples/app/styles.css | 8 inst/shiny_examples/app/www/verifyr2.ico |binary man/BinaryFileComparator.Rd | 4 man/Config.Rd | 25 man/RtfFileComparator.Rd | 19 man/TxtFileComparator.Rd | 4 tests/testthat.R | 26 tests/testthat/_snaps |only tests/testthat/test-Config.R | 4 tests/testthat/test-app-app.R |only tests/testthat/test-details_comparison_txt.R | 49 + tests/testthat/test-summary_comparison_rtf.R | 19 tests/testthat/test-summary_comparison_txt.R | 33 tests/testthat/test_configs/config1.json | 4 tests/testthat/test_outputs/rtf/base_corrupted.rtf |only tests/testthat/test_outputs/rtf/changes_five_rows_content_corrupted.rtf |only tests/testthat/test_outputs/txt/additional_spaces_and_tabs.txt |only 30 files changed, 743 insertions(+), 198 deletions(-)
Title: Geometrical Functionality of the 'spatstat' Family
Description: Defines spatial data types and supports geometrical operations
on them. Data types include point patterns, windows (domains),
pixel images, line segment patterns, tessellations and hyperframes.
Capabilities include creation and manipulation of data
(using command line or graphical interaction),
plotting, geometrical operations (rotation, shift, rescale,
affine transformation), convex hull, discretisation and
pixellation, Dirichlet tessellation, Delaunay triangulation,
pairwise distances, nearest-neighbour distances,
distance transform, morphological operations
(erosion, dilation, closing, opening), quadrat counting,
geometrical measurement, geometrical covariance,
colour maps, calculus on spatial domains,
Gaussian blur, level sets of images, transects of images,
intersections between objects, minimum distance matching.
(Excludes spatial data on a network, which are supported by
the package 'spatstat.linnet'.)
Author: Adrian Baddeley [aut, cre, cph] ,
Rolf Turner [aut, cph] ,
Ege Rubak [aut, cph] ,
Warick Brown [ctb],
Tilman Davies [ctb],
Ute Hahn [ctb],
Martin Hazelton [ctb],
Abdollah Jalilian [ctb],
Greg McSwiggan [ctb, cph],
Sebastian Meyer [ctb, cph],
Jens Oeh [...truncated...]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat.geom versions 3.7-3 dated 2026-03-23 and 3.8-1 dated 2026-05-23
DESCRIPTION | 18 ++--- MD5 | 82 ++++++++++++------------- NEWS | 80 ++++++++++++++++++++++++ R/as.im.R | 44 ++++++++----- R/distbdry.R | 22 ++---- R/distfun.R | 9 +- R/exactPdt.R | 47 ++++++++++---- R/images.R | 10 ++- R/layered.R | 13 ++- R/nearestsegment.R | 137 +++++++++++++++++++++++++----------------- R/nnfun.R | 11 +-- R/nnmap.R | 4 - R/owin2mask.R | 31 +++++---- R/pixellate.R | 14 ++-- R/plot.im.R | 10 +-- R/plot.ppp.R | 9 +- R/ppp.R | 18 +++-- R/psp2pix.R | 14 ++-- R/randombasic.R | 2 R/util.R | 4 - R/window.R | 31 ++++++--- R/wingeom.R | 92 ++++++++++++++++++---------- inst/doc/packagesizes.txt | 1 inst/info/packagesizes.txt | 1 man/Extract.im.Rd | 8 ++ man/as.im.Rd | 23 +++++++ man/as.mask.Rd | 3 man/as.ppp.Rd | 25 +++++++ man/intensity.Rd | 14 ++-- man/intersect.owin.Rd | 14 +++- man/macros/defns.Rd | 1 man/owin2mask.Rd | 78 ++++++++++++----------- man/pixellate.owin.Rd | 19 +++++ man/pixellate.ppp.Rd | 22 +++++- man/pixellate.psp.Rd | 17 ++++- man/plot.im.Rd | 15 +++- man/plot.ppp.Rd | 18 +++++ man/ppp.Rd | 18 +++-- man/project2set.Rd | 55 ++++++++++++---- man/spatstat.geom-internal.Rd | 64 +++++++++---------- tests/testsGtoJ.R | 1 tests/testsUtoZ.R | 24 ++++++- 42 files changed, 753 insertions(+), 370 deletions(-)
Title: Core Utilities for Developing and Running Spatially Explicit
Discrete Event Models
Description: Provides the core framework for a discrete event system to
implement a complete data-to-decisions, reproducible workflow.
The core components facilitate the development of modular pieces,
and enable the user to include additional functionality by running user-built modules.
Includes conditional scheduling, restart after interruption, packaging of
reusable modules, tools for developing arbitrary automated workflows,
automated interweaving of modules of different temporal resolution,
and tools for visualizing and understanding the within-project dependencies.
Author: Alex M Chubaty [aut] ,
Eliot J B McIntire [aut, cre] ,
Yong Luo [ctb],
Steve Cumming [ctb],
Ceres Barros [ctb] ,
His Majesty the King in Right of Canada, as represented by the Minister
of Natural Resources Canada [cph]
Maintainer: Eliot J B McIntire <eliot.mcintire@canada.ca>
Diff between SpaDES.core versions 3.1.0 dated 2026-05-19 and 3.1.2 dated 2026-05-23
DESCRIPTION | 14 +--- MD5 | 27 ++++---- NEWS.md | 35 ++++++++++ R/module-define.R | 2 inst/doc/i-introduction.html | 2 inst/doc/ii-modules.html | 2 inst/doc/iii-cache.R | 31 +-------- inst/doc/iii-cache.Rmd | 41 ++---------- inst/doc/iii-cache.html | 43 +++---------- inst/doc/iv-advanced.html | 2 inst/doc/v-automated-testing.html | 2 inst/sampleModules/randomLandscapes/randomLandscapes.R | 55 +++++++++++------ tests/testthat/setup.R |only tests/testthat/test-module-deps-methods.R | 7 ++ vignettes/iii-cache.Rmd | 41 ++---------- 15 files changed, 139 insertions(+), 165 deletions(-)
Title: Series System Distributions from Dynamic Failure Rate Components
Description: Compose multiple dynamic failure rate distributions into
series system distributions where the system hazard equals the sum
of component hazards. Supports hazard, survival, cumulative
distribution function, density, sampling, and maximum likelihood
estimation fitting via the dfr_dist() class from 'flexhaz'. Series
distributions implement the 'dist.structure' protocol so structural
queries (phi, min_paths, min_cuts, system_signature, structural
importance, reliability, dual) and the importance measures from
'dist.structure' work directly on serieshaz objects. Methods for
series system reliability follow Barlow and Proschan (1975,
ISBN:0898713692).
Author: Alexander Towell [aut, cre]
Maintainer: Alexander Towell <lex@metafunctor.com>
Diff between serieshaz versions 0.1.1 dated 2026-04-13 and 0.2.0 dated 2026-05-23
serieshaz-0.1.1/serieshaz/man/component.Rd |only serieshaz-0.1.1/serieshaz/man/ncomponents.Rd |only serieshaz-0.2.0/serieshaz/DESCRIPTION | 17 + serieshaz-0.2.0/serieshaz/MD5 | 27 +-- serieshaz-0.2.0/serieshaz/NAMESPACE | 14 + serieshaz-0.2.0/serieshaz/NEWS.md | 28 +++ serieshaz-0.2.0/serieshaz/R/dfr_dist_series.R | 10 + serieshaz-0.2.0/serieshaz/R/generic_functions.R | 89 ---------- serieshaz-0.2.0/serieshaz/R/methods.R | 47 ++++- serieshaz-0.2.0/serieshaz/R/reexports.R | 20 ++ serieshaz-0.2.0/serieshaz/man/component_hazard.Rd | 2 serieshaz-0.2.0/serieshaz/man/param_layout.Rd | 2 serieshaz-0.2.0/serieshaz/man/reexports.Rd | 8 serieshaz-0.2.0/serieshaz/man/sample_components.Rd | 2 serieshaz-0.2.0/serieshaz/man/serieshaz-package.Rd | 2 serieshaz-0.2.0/serieshaz/tests/testthat/test-dist-structure-interop.R |only 16 files changed, 148 insertions(+), 120 deletions(-)
Title: Interactive Graphics for QTL Experiments
Description: Web-based interactive charts (using D3.js) for the analysis of
experimental crosses to identify genetic loci (quantitative trait
loci, QTL) contributing to variation in quantitative traits.
Broman (2015) <doi:10.1534/genetics.114.172742>.
Author: Karl W Broman [aut, cre] ,
Michael Bostock [ctb, cph] ,
jQuery Foundation [cph] ,
jQuery contributors [ctb] ,
jQuery UI contributors [ctb]
Maintainer: Karl W Broman <broman@wisc.edu>
Diff between qtlcharts versions 0.18 dated 2025-05-10 and 0.20 dated 2026-05-23
DESCRIPTION | 10 ++--- MD5 | 48 +++++++++++++------------- NEWS.md | 7 +++ R/qtlcharts.R | 3 - README.md | 1 data/geneExpr.rda |binary data/grav.rda |binary inst/htmlwidgets/iboxplot.yaml | 4 +- inst/htmlwidgets/idotplot.yaml | 4 +- inst/htmlwidgets/iheatmap.yaml | 4 +- inst/htmlwidgets/ipleiotropy.yaml | 4 +- inst/htmlwidgets/iplot.yaml | 4 +- inst/htmlwidgets/iplotCorr.yaml | 4 +- inst/htmlwidgets/iplotCurves.yaml | 4 +- inst/htmlwidgets/iplotMScanone.yaml | 4 +- inst/htmlwidgets/iplotMap.yaml | 4 +- inst/htmlwidgets/iplotRF.yaml | 4 +- inst/htmlwidgets/iplotScanone.yaml | 4 +- inst/htmlwidgets/iplotScantwo.yaml | 4 +- inst/htmlwidgets/itriplot.yaml | 4 +- inst/htmlwidgets/lib/d3panels/LICENSE.md | 2 - inst/htmlwidgets/lib/d3panels/d3panels.min.js | 2 - inst/htmlwidgets/lib/d3panels/package.json | 2 - inst/htmlwidgets/scat2scat.yaml | 4 +- man/qtlcharts-package.Rd | 28 ++++++++++++++- 25 files changed, 95 insertions(+), 64 deletions(-)
Title: Benchmark for Publication Bias Correction Methods
Description: Implements a unified interface for benchmarking meta-analytic
publication bias correction methods through simulation studies (see
Bartoš et al., 2025, <doi:10.48550/arXiv.2510.19489>). It provides
1) predefined data-generating mechanisms from the literature, 2) functions
for running meta-analytic methods on simulated data, 3) pre-simulated
datasets and pre-computed results for reproducible benchmarks, 4) tools for
visualizing and comparing method performance.
Author: Frantisek Bartos [aut, cre] ,
Samuel Pawel [aut] ,
Bjoern S. Siepe [aut] ,
Petr Čala [aut]
Maintainer: Frantisek Bartos <f.bartos96@gmail.com>
Diff between PublicationBiasBenchmark versions 0.2.0 dated 2026-03-16 and 0.2.1 dated 2026-05-23
DESCRIPTION | 11 ++++++----- MD5 | 12 ++++++------ NEWS.md | 4 ++++ R/method-RoBMA.R | 17 +++++++++++------ build/partial.rdb |binary build/vignette.rds |binary man/method.RoBMA.Rd | 6 +++--- 7 files changed, 30 insertions(+), 20 deletions(-)
More information about PublicationBiasBenchmark at CRAN
Permanent link
Title: Access Open Target
Description: Interact seamlessly with Open Target GraphQL endpoint to query and retrieve tidy data tables, facilitating the analysis of gene, disease, drug, and genetic data. For more information about the Open Target API (<https://platform.opentargets.org/api>).
Author: Amir Feizi [aut, cre]
Maintainer: Amir Feizi <afeizi@gmail.com>
Diff between otargen versions 2.0.0 dated 2025-07-15 and 2.0.1 dated 2026-05-23
DESCRIPTION | 9 - MD5 | 43 +++---- NEWS.md | 19 +++ R/chemblQuery.R | 12 -- R/clinvarQuery.R | 5 R/geneBurdenQuery.R | 3 R/geneOntologyQuery.R | 2 R/indicationsQuery.R | 8 - R/interactionsQuery.R | 3 R/knownDrugsChemblQuery.R | 72 +++--------- R/knownDrugsGeneQuery.R | 60 ++++------ R/orphanetQuery.R | 3 README.md | 163 +++++++++++++++++----------- inst |only man/knownDrugsChemblQuery.Rd | 20 +-- man/knownDrugsGeneQuery.Rd | 20 +-- tests/testthat/test_chemblQuery.R | 7 - tests/testthat/test_clinVarQuery.R | 2 tests/testthat/test_geneOntologyQuery.R | 2 tests/testthat/test_interactionsQuery.R | 2 tests/testthat/test_knownDrugsChemblQuery.R | 8 - tests/testthat/test_knownDrugsGeneQuery.R | 5 tests/testthat/test_orphanetQuery.R | 2 23 files changed, 237 insertions(+), 233 deletions(-)
Title: Work with Microsoft Access Files
Description: Work with Microsoft Access '.mdb' and '.accdb' files using the
open source 'MDB Tools' library <https://github.com/mdbtools/mdbtools/>.
The library is compiled and bundled with the package, so no external
installation is required. Provides high-level helpers for reading tables,
exporting to CSV or JSON, inspecting table definitions, and running SQL queries.
Also exposes a full read-only 'DBI' interface for use with standard
database workflows.
Author: Kiernan Nicholls [aut, cre, cph] ,
Bruno Tremblay [ctb]
Maintainer: Kiernan Nicholls <k5cents@gmail.com>
Diff between mdbr versions 0.2.1 dated 2024-03-12 and 0.3.0 dated 2026-05-23
DESCRIPTION | 44 ++++++++++------- MD5 | 108 +++++++++++++++++++++++++++++++++++-------- NAMESPACE | 39 ++++++++++++++- NEWS.md | 31 ++++++++++++ R/advanced.R |only R/dbi.R |only R/example.R | 3 + R/export.R | 64 +++++++++++++++---------- R/native.R |only R/read.R | 58 +++++++++++++---------- R/schema.R | 47 ------------------ R/tables.R | 108 ++++++++++++++++++++++++++++++++++++++++--- R/utils.R | 30 +---------- README.md | 103 +++++++++++++++++++---------------------- cleanup |only cleanup.win |only configure |only configure.win |only man/export_mdb.Rd | 10 +-- man/mdb.Rd |only man/mdb_array.Rd |only man/mdb_count.Rd |only man/mdb_example.Rd | 6 ++ man/mdb_export.Rd |only man/mdb_header.Rd |only man/mdb_hexdump.Rd |only man/mdb_import.Rd |only man/mdb_json.Rd |only man/mdb_prop.Rd |only man/mdb_queries.Rd |only man/mdb_schema.Rd | 77 ++++++++++++++++++++++++++---- man/mdb_sql.Rd |only man/mdb_tables.Rd | 28 +++++++++-- man/mdb_ver.Rd |only man/print.mdblist.Rd |only man/read_mdb.Rd | 20 ++++--- src |only tests/testthat/mdbtestdata |only tests/testthat/test-dbi.R |only tests/testthat/test-export.R | 8 +-- tests/testthat/test-native.R |only tests/testthat/test-read.R | 24 +++------ tests/testthat/test-schema.R | 18 +++---- tests/testthat/test-tables.R | 2 44 files changed, 549 insertions(+), 279 deletions(-)
Title: Local Polynomial Density Estimation and Inference
Description: Implements local polynomial distribution and density methods for point estimation, inference and bandwidth selection, documented in Cattaneo, Jansson and Ma (2020) <doi:10.1080/01621459.2019.1635480>, Cattaneo, Jansson and Ma (2022) <doi:10.18637/jss.v101.i02>, and Cattaneo, Jansson and Ma (2024) <doi:10.1016/j.jeconom.2021.01.006>. lpdensity() constructs local polynomial distribution and density estimators with robust bias-corrected inference, and lpbwdensity() implements data-driven bandwidth selection.
Author: Matias D. Cattaneo [aut, cre],
Michael Jansson [aut],
Xinwei Ma [aut]
Maintainer: Matias D. Cattaneo <matias.d.cattaneo@gmail.com>
Diff between lpdensity versions 3.0 dated 2026-05-21 and 3.0.1 dated 2026-05-23
DESCRIPTION | 8 +++---- MD5 | 4 +-- tests/testthat/test-numerical-baseline.R | 32 +++++++++++++++++++++++++++---- 3 files changed, 34 insertions(+), 10 deletions(-)
Title: Access the Intergovernmental Organizations Database
Description: Tools for searching, extracting and recoding information from
the Intergovernmental Organizations ('IGO') Database (v3), distributed
by the Correlates of War Project <https://correlatesofwar.org/>. See
also Pevehouse, J. C. et al. (2020) <doi:10.1177/0022343319881175>.
Author: Diego Hernangomez [aut, cre, cph] ,
The Correlates of War Project [cph]
Maintainer: Diego Hernangomez <diego.hernangomezherrero@gmail.com>
Diff between igoR versions 1.0.1 dated 2026-03-13 and 1.0.2 dated 2026-05-23
DESCRIPTION | 19 +- MD5 | 110 ++++++------- NAMESPACE | 24 +- NEWS.md | 57 +++--- R/data.R | 106 ++++++------ R/igoR-package.R | 12 - R/igo_dyadic.R | 108 ++++++------- R/igo_members.R | 69 +++----- R/igo_recode.R | 26 +-- R/igo_search.R | 57 +++--- R/igo_search_states.R | 34 ++-- R/igo_state_membership.R | 72 +++----- R/sysdata.rda |binary README.md | 62 +++---- build/partial.rdb |binary build/vignette.rds |binary data/igo_year_format3.rda |binary data/state_year_format3.rda |binary data/states2016.rda |binary inst/CITATION | 74 ++++---- inst/COPYRIGHTS | 22 +- inst/REFERENCES.bib | 96 +++++------ inst/WORDLIST | 139 ++++++++-------- inst/doc/igoR.R | 37 ++-- inst/doc/igoR.html | 153 ++++++++---------- inst/doc/igoR.qmd | 95 ++++------- inst/doc/mapping.html | 216 ++++++++++++-------------- inst/doc/mapping.qmd | 98 +++++------ inst/schemaorg.json | 10 - man/igoR-package.Rd | 67 ++++---- man/igo_dyadic.Rd | 182 ++++++++++----------- man/igo_members.Rd | 140 ++++++++-------- man/igo_recode.Rd | 120 ++++++-------- man/igo_search.Rd | 154 +++++++++--------- man/igo_search_states.Rd | 88 +++++----- man/igo_state_membership.Rd | 132 +++++++-------- man/igo_year_format3.Rd | 184 +++++++++++----------- man/state_year_format3.Rd | 140 ++++++++-------- man/states2016.Rd | 136 ++++++++-------- tests/testthat/_snaps/igo_dyadic.md | 30 +-- tests/testthat/_snaps/igo_members.md | 14 - tests/testthat/_snaps/igo_search.md | 2 tests/testthat/_snaps/igo_search_states.md | 6 tests/testthat/_snaps/igo_state_membership.md | 20 +- tests/testthat/test-igo_dyadic.R | 100 ++++++------ tests/testthat/test-igo_members.R | 159 ++++++++----------- tests/testthat/test-igo_recode.R | 58 +++--- tests/testthat/test-igo_search.R | 14 - tests/testthat/test-igo_search_states.R | 44 ++--- tests/testthat/test-igo_state_membership.R | 183 +++++++++------------- vignettes/REFERENCES.bib | 96 +++++------ vignettes/fig-AustShared-1.png |binary vignettes/fig-NAShared-1.png |binary vignettes/fig-UNMaps-1.png |binary vignettes/igoR.qmd | 95 ++++------- vignettes/mapping.qmd | 98 +++++------ 56 files changed, 1927 insertions(+), 2031 deletions(-)
Title: Utilities to Weave Hydrologic Fabrics
Description: A collection of utilities that support creation of network attributes for hydrologic networks. Methods and algorithms implemented are documented in Moore et al. (2019) <doi:10.3133/ofr20191096>), Cormen and Leiserson (2022) <ISBN:9780262046305> and Verdin and Verdin (1999) <doi:10.1016/S0022-1694(99)00011-6>.
Author: David Blodgett [aut, cre] ,
Andrew Psoras [ctb]
Maintainer: David Blodgett <dblodgett@usgs.gov>
Diff between hydroloom versions 1.1.2 dated 2026-02-20 and 1.2.0 dated 2026-05-23
hydroloom-1.1.2/hydroloom/tests/testthat/data/reweight_test.rds |only hydroloom-1.2.0/hydroloom/DESCRIPTION | 18 hydroloom-1.2.0/hydroloom/MD5 | 238 +- hydroloom-1.2.0/hydroloom/NAMESPACE | 61 hydroloom-1.2.0/hydroloom/NEWS.md | 63 hydroloom-1.2.0/hydroloom/R/00_hydroloom.R | 459 ++-- hydroloom-1.2.0/hydroloom/R/accumulate_downstream.R | 580 +++-- hydroloom-1.2.0/hydroloom/R/add_divergence.R | 954 ++++----- hydroloom-1.2.0/hydroloom/R/add_levelpaths.R | 697 +++--- hydroloom-1.2.0/hydroloom/R/add_measures.R | 230 +- hydroloom-1.2.0/hydroloom/R/add_pathlength.R | 143 - hydroloom-1.2.0/hydroloom/R/add_pfafstetter.R | 466 ++-- hydroloom-1.2.0/hydroloom/R/add_streamorder-level.R | 573 +++-- hydroloom-1.2.0/hydroloom/R/add_toids.R | 288 +- hydroloom-1.2.0/hydroloom/R/align_names.R | 278 +- hydroloom-1.2.0/hydroloom/R/check_hy_graph.R | 453 ++-- hydroloom-1.2.0/hydroloom/R/check_valid.R |only hydroloom-1.2.0/hydroloom/R/disambiguate.R | 234 +- hydroloom-1.2.0/hydroloom/R/dissolve_polygons.R |only hydroloom-1.2.0/hydroloom/R/get_bridges.R | 424 ++-- hydroloom-1.2.0/hydroloom/R/get_hydro_location.R | 156 - hydroloom-1.2.0/hydroloom/R/hy.R | 316 +-- hydroloom-1.2.0/hydroloom/R/hy_classes.R |only hydroloom-1.2.0/hydroloom/R/index_points_to_lines.R | 1012 +++++----- hydroloom-1.2.0/hydroloom/R/make_attribute_topology.R | 208 +- hydroloom-1.2.0/hydroloom/R/make_index_ids.R | 942 ++++----- hydroloom-1.2.0/hydroloom/R/make_node_topology.R | 480 ++-- hydroloom-1.2.0/hydroloom/R/navigate_connected_paths.R | 397 +-- hydroloom-1.2.0/hydroloom/R/navigate_network_dfs.R | 530 ++--- hydroloom-1.2.0/hydroloom/R/navigation_network.R | 745 +++---- hydroloom-1.2.0/hydroloom/R/sort_network.R | 586 +++-- hydroloom-1.2.0/hydroloom/R/subset_network.R | 19 hydroloom-1.2.0/hydroloom/R/to_flownetwork.R | 204 +- hydroloom-1.2.0/hydroloom/R/utils.R | 666 +++--- hydroloom-1.2.0/hydroloom/R/zzz.R |only hydroloom-1.2.0/hydroloom/inst/WORDLIST | 275 +- hydroloom-1.2.0/hydroloom/inst/doc/advanced_network.html | 67 hydroloom-1.2.0/hydroloom/inst/doc/flow-table.R | 15 hydroloom-1.2.0/hydroloom/inst/doc/flow-table.Rmd | 15 hydroloom-1.2.0/hydroloom/inst/doc/flow-table.html | 15 hydroloom-1.2.0/hydroloom/inst/doc/hydroloom.R | 27 hydroloom-1.2.0/hydroloom/inst/doc/hydroloom.Rmd | 81 hydroloom-1.2.0/hydroloom/inst/doc/hydroloom.html | 336 ++- hydroloom-1.2.0/hydroloom/inst/doc/network_navigation.R | 55 hydroloom-1.2.0/hydroloom/inst/doc/network_navigation.Rmd | 112 - hydroloom-1.2.0/hydroloom/inst/doc/network_navigation.html | 478 +++- hydroloom-1.2.0/hydroloom/inst/doc/non-dendritic.R | 42 hydroloom-1.2.0/hydroloom/inst/doc/non-dendritic.Rmd | 108 + hydroloom-1.2.0/hydroloom/inst/doc/non-dendritic.html | 258 +- hydroloom-1.2.0/hydroloom/inst/extdata/walker_cats.gpkg |only hydroloom-1.2.0/hydroloom/man/accumulate_downstream.Rd | 227 +- hydroloom-1.2.0/hydroloom/man/add_divergence.Rd | 242 +- hydroloom-1.2.0/hydroloom/man/add_levelpaths.Rd | 206 +- hydroloom-1.2.0/hydroloom/man/add_measures.Rd | 100 hydroloom-1.2.0/hydroloom/man/add_pathlength.Rd | 78 hydroloom-1.2.0/hydroloom/man/add_pfafstetter.Rd | 191 - hydroloom-1.2.0/hydroloom/man/add_return_divergence.Rd | 136 - hydroloom-1.2.0/hydroloom/man/add_streamlevel.Rd | 130 - hydroloom-1.2.0/hydroloom/man/add_streamorder.Rd | 105 - hydroloom-1.2.0/hydroloom/man/add_toids.Rd | 101 hydroloom-1.2.0/hydroloom/man/add_topo_sort.Rd | 69 hydroloom-1.2.0/hydroloom/man/check_hy_graph.Rd | 70 hydroloom-1.2.0/hydroloom/man/check_valid.Rd |only hydroloom-1.2.0/hydroloom/man/disambiguate_indexes.Rd | 130 - hydroloom-1.2.0/hydroloom/man/dissolve_polygons.Rd |only hydroloom-1.2.0/hydroloom/man/format_index_ids.Rd | 46 hydroloom-1.2.0/hydroloom/man/get_bridge_flowlines.Rd | 105 - hydroloom-1.2.0/hydroloom/man/get_hydro_location.Rd | 68 hydroloom-1.2.0/hydroloom/man/get_node.Rd | 72 hydroloom-1.2.0/hydroloom/man/get_partial_length.Rd | 78 hydroloom-1.2.0/hydroloom/man/hy.Rd | 72 hydroloom-1.2.0/hydroloom/man/hy_capabilities.Rd |only hydroloom-1.2.0/hydroloom/man/hy_flownetwork.Rd |only hydroloom-1.2.0/hydroloom/man/hy_leveled.Rd |only hydroloom-1.2.0/hydroloom/man/hy_network_type.Rd |only hydroloom-1.2.0/hydroloom/man/hy_node.Rd |only hydroloom-1.2.0/hydroloom/man/hy_topo.Rd |only hydroloom-1.2.0/hydroloom/man/index_points_to_lines.Rd | 260 +- hydroloom-1.2.0/hydroloom/man/index_points_to_waterbodies.Rd | 112 - hydroloom-1.2.0/hydroloom/man/is_dendritic.Rd |only hydroloom-1.2.0/hydroloom/man/make_attribute_topology.Rd | 100 hydroloom-1.2.0/hydroloom/man/make_fromids.Rd | 52 hydroloom-1.2.0/hydroloom/man/make_index_ids.Rd | 150 - hydroloom-1.2.0/hydroloom/man/make_node_topology.Rd | 123 - hydroloom-1.2.0/hydroloom/man/navigate_connected_paths.Rd | 81 hydroloom-1.2.0/hydroloom/man/navigate_hydro_network.Rd | 167 - hydroloom-1.2.0/hydroloom/man/navigate_network_dfs.Rd | 130 - hydroloom-1.2.0/hydroloom/man/rename_geometry.Rd | 52 hydroloom-1.2.0/hydroloom/man/rescale_measures.Rd | 70 hydroloom-1.2.0/hydroloom/man/sort_network.Rd | 145 - hydroloom-1.2.0/hydroloom/man/subset_network.Rd | 122 - hydroloom-1.2.0/hydroloom/man/to_flownetwork.Rd | 104 - hydroloom-1.2.0/hydroloom/tests/testthat.R | 24 hydroloom-1.2.0/hydroloom/tests/testthat/data/diversions.csv | 120 - hydroloom-1.2.0/hydroloom/tests/testthat/data/diversions.geojson | 132 - hydroloom-1.2.0/hydroloom/tests/testthat/data/simple_diversions.geojson | 78 hydroloom-1.2.0/hydroloom/tests/testthat/setup.R |only hydroloom-1.2.0/hydroloom/tests/testthat/test_accumulate.R | 484 ++-- hydroloom-1.2.0/hydroloom/tests/testthat/test_add_divergence.R | 580 ++--- hydroloom-1.2.0/hydroloom/tests/testthat/test_add_levelpaths.R | 355 +-- hydroloom-1.2.0/hydroloom/tests/testthat/test_add_measures.R | 98 hydroloom-1.2.0/hydroloom/tests/testthat/test_add_pathlength.R | 22 hydroloom-1.2.0/hydroloom/tests/testthat/test_add_pfafstetter.R | 112 - hydroloom-1.2.0/hydroloom/tests/testthat/test_add_toids.R | 92 hydroloom-1.2.0/hydroloom/tests/testthat/test_check_hy_graph.R | 236 +- hydroloom-1.2.0/hydroloom/tests/testthat/test_check_valid.R |only hydroloom-1.2.0/hydroloom/tests/testthat/test_dissolve_polygons.R |only hydroloom-1.2.0/hydroloom/tests/testthat/test_get_bridges.R | 556 ++--- hydroloom-1.2.0/hydroloom/tests/testthat/test_get_hydro_location.R | 64 hydroloom-1.2.0/hydroloom/tests/testthat/test_get_partial_length.R | 90 hydroloom-1.2.0/hydroloom/tests/testthat/test_hy_classes.R |only hydroloom-1.2.0/hydroloom/tests/testthat/test_hydroloom.R | 112 - hydroloom-1.2.0/hydroloom/tests/testthat/test_index.R | 684 +++--- hydroloom-1.2.0/hydroloom/tests/testthat/test_is_outlet.R |only hydroloom-1.2.0/hydroloom/tests/testthat/test_make_attribute_topology.R | 76 hydroloom-1.2.0/hydroloom/tests/testthat/test_make_index_ids.R | 408 ++-- hydroloom-1.2.0/hydroloom/tests/testthat/test_make_node_topology.R | 276 +- hydroloom-1.2.0/hydroloom/tests/testthat/test_navigate_connected_paths.R | 110 - hydroloom-1.2.0/hydroloom/tests/testthat/test_navigate_hydro_network.R | 354 +-- hydroloom-1.2.0/hydroloom/tests/testthat/test_navigate_network_dfs.R | 314 +-- hydroloom-1.2.0/hydroloom/tests/testthat/test_outlet_conventions.R |only hydroloom-1.2.0/hydroloom/tests/testthat/test_sort_network.R | 499 ++-- hydroloom-1.2.0/hydroloom/tests/testthat/test_streamorder-level.R | 182 + hydroloom-1.2.0/hydroloom/tests/testthat/test_subset_network.R | 2 hydroloom-1.2.0/hydroloom/tests/testthat/test_to_flownetwork.R | 89 hydroloom-1.2.0/hydroloom/tests/testthat/test_utils.R | 258 +- hydroloom-1.2.0/hydroloom/vignettes/flow-table-fig.jpeg |only hydroloom-1.2.0/hydroloom/vignettes/flow-table.Rmd | 15 hydroloom-1.2.0/hydroloom/vignettes/hydroloom.Rmd | 81 hydroloom-1.2.0/hydroloom/vignettes/network_navigation.Rmd | 112 - hydroloom-1.2.0/hydroloom/vignettes/non-dendritic.Rmd | 108 + 131 files changed, 13441 insertions(+), 11480 deletions(-)
Title: Estimate Gaps Under an Intervention
Description: Provides functions to estimate the disparities across categories (e.g. Black and white) that persists if a treatment variable (e.g. college) is equalized. Makes estimates by treatment modeling, outcome modeling, and doubly-robust augmented inverse probability weighting estimation, with standard errors calculated by a nonparametric bootstrap. Cross-fitting is supported. Survey weights are supported for point estimation but not for standard error estimation; those applying this package with complex survey samples should consult the data distributor to select an appropriate approach for standard error construction, which may involve calling the functions repeatedly for many sets of replicate weights provided by the data distributor. The methods in this package are described in the accompanying paper: <doi:10.1177/00491241211055769>.
Author: Ian Lundberg [aut, cre]
Maintainer: Ian Lundberg <ianlundberg@ucla.edu>
This is a re-admission after prior archival of version 1.0.2 dated 2021-10-11
Diff between gapclosing versions 1.0.2 dated 2021-10-11 and 1.0.3 dated 2026-05-23
DESCRIPTION | 16 MD5 | 18 NAMESPACE | 2 R/disparityplot.R | 12 R/gapclosing.R | 6 build/vignette.rds |binary inst/CITATION | 6 inst/WORDLIST | 13 inst/doc/gapclosing.R | 24 - inst/doc/gapclosing.html | 1004 +++++++++++++++++++++++++++++++++++------------ 10 files changed, 805 insertions(+), 296 deletions(-)
Title: Fuzzy C-Means for Fuzzy Data
Description: Implements a fuzzy clustering approach for ordinal Likert-type data
using triangular fuzzy numbers (TFNs). The package extends the classical
fuzzy C-means algorithm to better handle uncertainty in ordinal scales and
includes automatic selection of the number of clusters using the Xie-Beni
validity index. References: Coppi, R., D'Urso, P., and Giordani, P. (2012),
"Fuzzy and possibilistic clustering for fuzzy data", <doi:10.1016/j.csda.2010.09.013>. Xie, X. L. and Beni, G.
(1991), "A validity measure for fuzzy clustering", <doi:10.1109/34.85677>.
Author: Jose Ortigas [aut, cre]
Maintainer: Jose Ortigas <jose.ortigas@unmsm.edu.pe>
Diff between fcmfd versions 0.1.0 dated 2026-05-05 and 0.1.1 dated 2026-05-23
DESCRIPTION | 10 +++++----- MD5 | 6 +++--- R/fcmTFN.R | 24 +++++++++--------------- man/fcmTFN.Rd | 24 +++++++++--------------- 4 files changed, 26 insertions(+), 38 deletions(-)
Title: Data Science Infrastructure for Global Health
Description: Supports global health data analysis, including a
publication-ready 'ggplot2' theme, a 'flextable' defaults helper,
a thin pie chart wrapper, built-in regional country-code datasets
with a WHO region lookup helper, a geometric mean function for
indicator aggregation, and convenience clients for the World
Health Organization Global Health Observatory (GHO) OData API
<https://ghoapi.azureedge.net/api/> and the United Nations
Sustainable Development Goals (SDG) API
<https://unstats.un.org/SDGAPI/swagger/>.
Author: Shanlong Ding [aut, cre]
Maintainer: Shanlong Ding <dings@who.int>
Diff between DSIR versions 0.7.0 dated 2026-05-21 and 0.7.1 dated 2026-05-23
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- NEWS.md | 4 ++++ inst/doc/DSIR.html | 46 +++++++++++++++++++++++----------------------- man/DSIR-package.Rd | 4 ++-- 5 files changed, 38 insertions(+), 34 deletions(-)
Title: Optimal Pairing and Matching via Linear Assignment
Description: Solves optimal pairing and matching problems using linear assignment
algorithms. Provides implementations of the Hungarian method (Kuhn 1955)
<doi:10.1002/nav.3800020109>, Jonker-Volgenant shortest path algorithm
(Jonker and Volgenant 1987) <doi:10.1007/BF02278710>, Auction algorithm
(Bertsekas 1988) <doi:10.1007/BF02186476>, cost-scaling
(Goldberg and Kennedy 1995) <doi:10.1007/BF01585996>, scaling algorithms
(Gabow and Tarjan 1989) <doi:10.1137/0218069>, push-relabel (Goldberg and
Tarjan 1988) <doi:10.1145/48014.61051>, and Sinkhorn entropy-regularized
transport (Cuturi 2013) <doi:10.48550/arxiv.1306.0895>. Designed for
matching plots, sites, samples, or any pairwise optimization problem.
Supports rectangular matrices, forbidden assignments, data frame inputs,
batch solving, k-best solutions, and pixel-level image morphing for
visualization. Includes automatic preprocessing with variable health
checks, multiple scaling methods (standardized, [...truncated...]
Author: Gilles Colling [aut, cre, cph]
Maintainer: Gilles Colling <gilles.colling051@gmail.com>
Diff between couplr versions 1.4.0 dated 2026-05-18 and 1.4.1 dated 2026-05-23
DESCRIPTION | 6 MD5 | 34 ++--- NEWS.md | 40 ++++++ R/lap_solve.R | 6 R/matching_constraints.R | 11 + R/matching_core.R | 142 +++++++++++++--------- README.md | 2 inst/doc/algorithms.Rmd | 2 inst/doc/algorithms.html | 14 +- inst/doc/comparison.html | 4 inst/doc/getting-started.html | 22 ++- inst/doc/matching-workflows.html | 80 ++++++------ inst/doc/pixel-morphing.html | 4 inst/doc/troubleshooting.html | 110 +++++++++++------ src/solvers/jv_core.cpp | 15 +- tests/testthat/test-lap-solve-extended-coverage.R | 4 tests/testthat/test-matching-core-coverage-4.R | 4 vignettes/algorithms.Rmd | 2 18 files changed, 320 insertions(+), 182 deletions(-)