Title: A Stable Isotope Mixing Model
Description: Fits Stable Isotope Mixing Models (SIMMs) and is meant as a longer term replacement to the previous widely-used package SIAR. SIMMs are used to infer dietary proportions of organisms consuming various food sources from observations on the stable isotope values taken from the organisms' tissue samples. However SIMMs can also be used in other scenarios, such as in sediment mixing or the composition of fatty acids. The main functions are simmr_load() and simmr_mcmc(). The two vignettes contain a quick start and a full listing of all the features. The methods used are detailed in the papers Parnell et al 2010 <doi:10.1371/journal.pone.0009672>, and Parnell et al 2013 <doi:10.1002/env.2221>.
Author: Emma Govan [aut],
Andrew Parnell [cre, aut]
Maintainer: Andrew Parnell <andrew.parnell1@ucd.ie>
Diff between simmr versions 0.5.1.217 dated 2024-10-16 and 0.5.2 dated 2026-05-11
DESCRIPTION | 20 - MD5 | 30 - NAMESPACE | 1 NEWS.md | 4 R/posterior_predictive.simmr_output.R | 36 +- build/vignette.rds |binary inst/doc/advanced_plotting.R | 4 inst/doc/advanced_plotting.html | 205 ++++++------- inst/doc/quick_start.R | 4 inst/doc/quick_start.html | 96 +++--- inst/doc/simmr.R | 230 +++++++------- inst/doc/simmr.Rmd | 4 inst/doc/simmr.html | 528 ++++++++++++++++++---------------- tests/testthat/Rplots.pdf |binary tests/testthat/test-simmr_ffvb.R | 2 vignettes/simmr.Rmd | 4 16 files changed, 627 insertions(+), 541 deletions(-)
Title: Iterative Bias Reduction
Description: Multivariate smoothing using iterative bias reduction with kernel, thin plate splines, Duchon splines or low rank splines.
Author: Pierre-Andre Cornillon [aut, cre],
Nicolas Hengartner [aut],
Eric Matzner-Lober [aut]
Maintainer: Pierre-Andre Cornillon <pierre-andre.cornillon@univ-rennes2.fr>
Diff between ibr versions 2.4-0 dated 2026-05-03 and 2.4-1 dated 2026-05-11
ibr-2.4-0/ibr/README |only ibr-2.4-1/ibr/DESCRIPTION | 8 ++++---- ibr-2.4-1/ibr/MD5 | 5 ++--- ibr-2.4-1/ibr/src/smoother.c | 1 + 4 files changed, 7 insertions(+), 7 deletions(-)
Title: Create Layout Plots of Biological Culture Plates and Microplates
Description: Enables users to create simple plots of biological culture plates as well as microplates. Both continuous and discrete values can be plotted onto the plate layout.
Author: Jan-Philipp Quast [aut, cre]
Maintainer: Jan-Philipp Quast <jpquast.software@gmail.com>
Diff between ggplate versions 0.3.0 dated 2026-05-08 and 0.3.1 dated 2026-05-11
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 4 ++++ R/plate_plot.R | 55 +++++++++++++++++++++++++++++++------------------------ 4 files changed, 41 insertions(+), 30 deletions(-)
Title: Flexible Simulation Utilities for Pharmacometric Modeling
Description: The goal of 'amp.sim' is to transform 'NONMEM' models into R syntax so they can be used for
simulations using the 'deSolve', 'nlmixr2' or 'mrgsolve' package. Additionally, functionality is included to aid simulations performed
directly in 'NONMEM' and to automatically create shiny apps for simulation models.
Author: Richard Hooijmaijers [aut, cre, cph],
LAPP Consultants [fnd, cph]
Maintainer: Richard Hooijmaijers <richardhooijmaijers@gmail.com>
Diff between amp.sim versions 0.1.0 dated 2026-05-07 and 0.1.1 dated 2026-05-11
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 4 ++++ inst/doc/Vign.01.R_simulations.html | 6 +++--- inst/doc/Vign.02.NONMEM_simulations.html | 12 ++++++------ tests/testthat/test_misc.R | 6 +++--- 6 files changed, 24 insertions(+), 20 deletions(-)
Title: Sampling from Truncated Multivariate Normal and t Distributions
Description: Efficient sampling of truncated multivariate (scale) mixtures of normals under linear inequality constraints is nontrivial due to the analytically intractable normalizing constant. Meanwhile, traditional methods may subject to numerical issues, especially when the dimension is high and dependence is strong. Algorithms proposed by Li and Ghosh (2015) <doi: 10.1080/15598608.2014.996690> are adopted for overcoming difficulties in simulating truncated distributions. Efficient rejection sampling for simulating truncated univariate normal distribution is included in the package, which shows superiority in terms of acceptance rate and numerical stability compared to existing methods and R packages. An efficient function for sampling from truncated multivariate normal distribution subject to convex polytope restriction regions based on Gibbs sampler for conditional truncated univariate distribution is provided. By extending the sampling method, a function for sampling truncated multiv [...truncated...]
Author: Ting Fung Ma [cre, aut],
Sujit K. Ghosh [aut],
Yifang Li [aut]
Maintainer: Ting Fung Ma <tingfung@mailbox.sc.edu>
Diff between tmvmixnorm versions 1.1.1 dated 2020-09-18 and 1.2.0 dated 2026-05-11
tmvmixnorm-1.1.1/tmvmixnorm/R/halfnorm_rejction.R |only tmvmixnorm-1.2.0/tmvmixnorm/DESCRIPTION | 15 ++---- tmvmixnorm-1.2.0/tmvmixnorm/MD5 | 48 ++++++++++---------- tmvmixnorm-1.2.0/tmvmixnorm/NAMESPACE | 22 +++++++-- tmvmixnorm-1.2.0/tmvmixnorm/R/dtuvn.R | 4 + tmvmixnorm-1.2.0/tmvmixnorm/R/exp_acc.R | 7 ++ tmvmixnorm-1.2.0/tmvmixnorm/R/exp_rejection.R | 1 tmvmixnorm-1.2.0/tmvmixnorm/R/halfnorm_acc.R | 4 + tmvmixnorm-1.2.0/tmvmixnorm/R/halfnorm_rejection.R |only tmvmixnorm-1.2.0/tmvmixnorm/R/imp.R | 9 +++ tmvmixnorm-1.2.0/tmvmixnorm/R/imp_acc.R | 2 tmvmixnorm-1.2.0/tmvmixnorm/R/normal_acc.R | 4 + tmvmixnorm-1.2.0/tmvmixnorm/R/normal_rejection.R | 2 tmvmixnorm-1.2.0/tmvmixnorm/R/ptuvn.R | 2 tmvmixnorm-1.2.0/tmvmixnorm/R/rtmvn.R | 2 tmvmixnorm-1.2.0/tmvmixnorm/R/rtmvt.R | 2 tmvmixnorm-1.2.0/tmvmixnorm/R/rtuvn.R | 2 tmvmixnorm-1.2.0/tmvmixnorm/R/unif_acc.R | 4 + tmvmixnorm-1.2.0/tmvmixnorm/R/unif_rejection.R | 2 tmvmixnorm-1.2.0/tmvmixnorm/man/exp_acc_opt.Rd | 1 tmvmixnorm-1.2.0/tmvmixnorm/man/halfnorm_acc.Rd | 40 ++++++++-------- tmvmixnorm-1.2.0/tmvmixnorm/man/halfnorm_rej.Rd | 2 tmvmixnorm-1.2.0/tmvmixnorm/man/norm_acc.Rd | 40 ++++++++-------- tmvmixnorm-1.2.0/tmvmixnorm/man/norm_rej.Rd | 50 ++++++++++----------- tmvmixnorm-1.2.0/tmvmixnorm/man/unif_acc.Rd | 40 ++++++++-------- tmvmixnorm-1.2.0/tmvmixnorm/man/unif_rej.Rd | 50 ++++++++++----------- 26 files changed, 201 insertions(+), 154 deletions(-)
Title: Stepwise Clustered Ensemble
Description: Implementation of Stepwise Clustered Ensemble (SCE) and Stepwise Cluster Analysis (SCA) for multivariate data analysis. The package provides comprehensive tools for feature selection, model training, prediction, and evaluation in hydrological and environmental modeling applications. Key functionalities include recursive feature elimination (RFE), Wilks feature importance analysis, model validation through out-of-bag (OOB) validation, and ensemble prediction capabilities. The package supports both single and multivariate response variables, making it suitable for complex environmental modeling scenarios. For more details see Li et al. (2021) <doi:10.5194/hess-25-4947-2021>.
Author: Kailong Li [aut, cre]
Maintainer: Kailong Li <lkl98509509@gmail.com>
Diff between SCE versions 1.1.3 dated 2026-05-08 and 1.1.4 dated 2026-05-11
DESCRIPTION | 6 - MD5 | 36 +++++----- NEWS.md | 8 ++ R/Model_evaluation.R | 62 +++++++++--------- R/Model_simulation.R | 38 +++++------ R/Prediction.R | 8 +- R/RFE_SCE.R | 52 +++++++-------- R/SCA.R | 110 ++++++++++++++++----------------- R/SCE.R | 135 ++++++++++++++++++++-------------------- R/Training.R | 50 +++++++-------- R/Wilks_importance.R | 4 - README.md | 60 +++++++++--------- man/air_quality.Rd | 108 ++++++++++++++++---------------- man/evaluate.Rd | 8 +- man/importance.Rd | 4 - man/rfe_sce.Rd | 14 ++-- man/sca.Rd | 18 ++--- man/sce.Rd | 22 +++--- man/streamflow.Rd | 170 +++++++++++++++++++++++++-------------------------- 19 files changed, 460 insertions(+), 453 deletions(-)
Title: Cell Type Annotation Using Large Language Models
Description: Automated cell type annotation for single-cell RNA sequencing data
using consensus predictions from multiple large language models. Integrates
with Seurat objects and provides uncertainty quantification for annotations.
Supports various LLM providers including OpenAI, Anthropic, and Google.
For details see Yang et al. (2025) <doi:10.1101/2025.04.10.647852>.
Author: Chen Yang [aut, cre, cph]
Maintainer: Chen Yang <cafferychen777@tamu.edu>
Diff between mLLMCelltype versions 2.0.0 dated 2026-02-08 and 2.0.5 dated 2026-05-11
mLLMCelltype-2.0.0/mLLMCelltype/man/dot-qwen_endpoint_cache.Rd |only mLLMCelltype-2.0.5/mLLMCelltype/DESCRIPTION | 8 mLLMCelltype-2.0.5/mLLMCelltype/MD5 | 129 ++- mLLMCelltype-2.0.5/mLLMCelltype/NAMESPACE | 2 mLLMCelltype-2.0.5/mLLMCelltype/NEWS.md | 56 + mLLMCelltype-2.0.5/mLLMCelltype/R/base_api_processor.R | 5 mLLMCelltype-2.0.5/mLLMCelltype/R/cell_type_annotation.R | 73 +- mLLMCelltype-2.0.5/mLLMCelltype/R/check_consensus.R | 53 + mLLMCelltype-2.0.5/mLLMCelltype/R/compare_model_predictions.R | 197 +++--- mLLMCelltype-2.0.5/mLLMCelltype/R/consensus_annotation.R | 32 mLLMCelltype-2.0.5/mLLMCelltype/R/custom_model_manager.R | 9 mLLMCelltype-2.0.5/mLLMCelltype/R/facilitate_cluster_discussion.R | 50 - mLLMCelltype-2.0.5/mLLMCelltype/R/get_provider.R | 24 mLLMCelltype-2.0.5/mLLMCelltype/R/prompt_templates.R | 101 ++- mLLMCelltype-2.0.5/mLLMCelltype/R/qwen_processor.R | 18 mLLMCelltype-2.0.5/mLLMCelltype/R/response_validation_utils.R |only mLLMCelltype-2.0.5/mLLMCelltype/R/unified_logger.R | 14 mLLMCelltype-2.0.5/mLLMCelltype/R/zhipu_processor.R | 2 mLLMCelltype-2.0.5/mLLMCelltype/inst/doc/advanced-features.R | 60 - mLLMCelltype-2.0.5/mLLMCelltype/inst/doc/advanced-features.Rmd | 60 - mLLMCelltype-2.0.5/mLLMCelltype/inst/doc/advanced-features.html | 64 - mLLMCelltype-2.0.5/mLLMCelltype/inst/doc/consensus-principles.html | 4 mLLMCelltype-2.0.5/mLLMCelltype/inst/doc/contributing-guide.html | 4 mLLMCelltype-2.0.5/mLLMCelltype/inst/doc/faq.Rmd | 52 - mLLMCelltype-2.0.5/mLLMCelltype/inst/doc/faq.html | 104 +-- mLLMCelltype-2.0.5/mLLMCelltype/inst/doc/getting-started.R | 12 mLLMCelltype-2.0.5/mLLMCelltype/inst/doc/getting-started.Rmd | 29 mLLMCelltype-2.0.5/mLLMCelltype/inst/doc/getting-started.html | 35 - mLLMCelltype-2.0.5/mLLMCelltype/inst/doc/installation.R | 2 mLLMCelltype-2.0.5/mLLMCelltype/inst/doc/installation.Rmd | 2 mLLMCelltype-2.0.5/mLLMCelltype/inst/doc/installation.html | 6 mLLMCelltype-2.0.5/mLLMCelltype/inst/doc/introduction.html | 4 mLLMCelltype-2.0.5/mLLMCelltype/inst/doc/mLLMCelltype.R | 54 - mLLMCelltype-2.0.5/mLLMCelltype/inst/doc/mLLMCelltype.Rmd | 72 +- mLLMCelltype-2.0.5/mLLMCelltype/inst/doc/mLLMCelltype.html | 93 +- mLLMCelltype-2.0.5/mLLMCelltype/inst/doc/usage-tutorial.R | 38 - mLLMCelltype-2.0.5/mLLMCelltype/inst/doc/usage-tutorial.Rmd | 74 +- mLLMCelltype-2.0.5/mLLMCelltype/inst/doc/usage-tutorial.html | 98 +-- mLLMCelltype-2.0.5/mLLMCelltype/inst/doc/version-history.html | 4 mLLMCelltype-2.0.5/mLLMCelltype/inst/doc/why-consensus.Rmd | 18 mLLMCelltype-2.0.5/mLLMCelltype/inst/doc/why-consensus.html | 24 mLLMCelltype-2.0.5/mLLMCelltype/man/QwenProcessor.Rd |only mLLMCelltype-2.0.5/mLLMCelltype/man/UnifiedLogger.Rd | 4 mLLMCelltype-2.0.5/mLLMCelltype/man/annotate_cell_types.Rd | 53 - mLLMCelltype-2.0.5/mLLMCelltype/man/compare_model_predictions.Rd | 46 - mLLMCelltype-2.0.5/mLLMCelltype/man/configure_logger.Rd | 4 mLLMCelltype-2.0.5/mLLMCelltype/man/create_annotation_prompt.Rd | 3 mLLMCelltype-2.0.5/mLLMCelltype/man/get_provider.Rd | 22 mLLMCelltype-2.0.5/mLLMCelltype/man/interactive_consensus_annotation.Rd | 6 mLLMCelltype-2.0.5/mLLMCelltype/man/normalize_cluster_gene_list.Rd | 10 mLLMCelltype-2.0.5/mLLMCelltype/man/register_custom_provider.Rd | 2 mLLMCelltype-2.0.5/mLLMCelltype/man/standardize_cell_type_names.Rd | 4 mLLMCelltype-2.0.5/mLLMCelltype/tests/performance/test_api_rate_limits.R | 5 mLLMCelltype-2.0.5/mLLMCelltype/tests/testthat.R |only mLLMCelltype-2.0.5/mLLMCelltype/tests/testthat/helper-integration.R |only mLLMCelltype-2.0.5/mLLMCelltype/tests/testthat/test-cache-core.R | 14 mLLMCelltype-2.0.5/mLLMCelltype/tests/testthat/test-cache-mock.R | 10 mLLMCelltype-2.0.5/mLLMCelltype/tests/testthat/test-cache-performance.R | 4 mLLMCelltype-2.0.5/mLLMCelltype/tests/testthat/test-cache-real-api.R | 152 +--- mLLMCelltype-2.0.5/mLLMCelltype/tests/testthat/test-cache-simple-api.R | 26 mLLMCelltype-2.0.5/mLLMCelltype/tests/testthat/test-input-contract-consistency.R | 323 ++++++++-- mLLMCelltype-2.0.5/mLLMCelltype/vignettes/advanced-features.Rmd | 60 - mLLMCelltype-2.0.5/mLLMCelltype/vignettes/faq.Rmd | 52 - mLLMCelltype-2.0.5/mLLMCelltype/vignettes/getting-started.Rmd | 29 mLLMCelltype-2.0.5/mLLMCelltype/vignettes/installation.Rmd | 2 mLLMCelltype-2.0.5/mLLMCelltype/vignettes/mLLMCelltype.Rmd | 72 +- mLLMCelltype-2.0.5/mLLMCelltype/vignettes/usage-tutorial.Rmd | 74 +- mLLMCelltype-2.0.5/mLLMCelltype/vignettes/why-consensus.Rmd | 18 68 files changed, 1517 insertions(+), 1164 deletions(-)
Title: Optimal Row-Column Designs for Asymmetrical Factorial
Experiments
Description: Constructs and analyzes optimal row-column designs for
mixed-level factorial experiments under square and rectangular field
layouts. For square field layouts, the package implements direct
common-factor constructions by first forming two component treatment
arrays, one for each factor or super-factor, and then combining them
through a symbolic cell-wise product following Gopinath, Parsad and
Mandal (2018) <doi:10.1080/03610926.2017.1376091>. For rectangular
field layouts, the package constructs designs by extracting a balanced
principal block from a mixed-level block design, treating it as the
principal column, taking the complete treatment set as the principal row,
and generating the full row-column design by cyclic modular development.
The package also includes repair utilities for improving disconnected or
partially connected row-column designs through bounded treatment-swap
searches while preserving the row-column layout structure. The package
provides diagnostic tools for co [...truncated...]
Author: Archana A [aut],
Sukanta Dash [aut, cre]
Maintainer: Sukanta Dash <sukanta.iasri@gmail.com>
Diff between MFRCD versions 0.1.0 dated 2026-05-06 and 0.1.1 dated 2026-05-11
MFRCD-0.1.0/MFRCD/man/all_treatment_combinations.Rd |only MFRCD-0.1.0/MFRCD/man/block_balance_score.Rd |only MFRCD-0.1.0/MFRCD/man/check_row_column_balance.Rd |only MFRCD-0.1.0/MFRCD/man/compact_property_checks.Rd |only MFRCD-0.1.0/MFRCD/man/compute_ade_efficiency.Rd |only MFRCD-0.1.0/MFRCD/man/compute_emv_optimality.Rd |only MFRCD-0.1.0/MFRCD/man/connectedness_diagnostics.Rd |only MFRCD-0.1.0/MFRCD/man/connectedness_from_information.Rd |only MFRCD-0.1.0/MFRCD/man/count_connected_components_from_C.Rd |only MFRCD-0.1.0/MFRCD/man/extract_numeric_design.Rd |only MFRCD-0.1.0/MFRCD/man/extract_principal_block_mixedfact.Rd |only MFRCD-0.1.0/MFRCD/man/factor_contrast_basis.Rd |only MFRCD-0.1.0/MFRCD/man/factorial_effect_bases.Rd |only MFRCD-0.1.0/MFRCD/man/format_design.Rd |only MFRCD-0.1.0/MFRCD/man/kronecker_reduce.Rd |only MFRCD-0.1.0/MFRCD/man/labels_to_numeric_array.Rd |only MFRCD-0.1.0/MFRCD/man/level_balance_diagnostics.Rd |only MFRCD-0.1.0/MFRCD/man/make_numeric_array.Rd |only MFRCD-0.1.0/MFRCD/man/make_public_output.Rd |only MFRCD-0.1.0/MFRCD/man/make_row_column_information.Rd |only MFRCD-0.1.0/MFRCD/man/matrix_rank_tol.Rd |only MFRCD-0.1.0/MFRCD/man/mixed_radix_digits.Rd |only MFRCD-0.1.0/MFRCD/man/mod_add_treatment.Rd |only MFRCD-0.1.0/MFRCD/man/parse_treatment_label.Rd |only MFRCD-0.1.0/MFRCD/man/principal_block_to_matrix.Rd |only MFRCD-0.1.0/MFRCD/man/pseudo_inverse_symmetric.Rd |only MFRCD-0.1.0/MFRCD/man/put_zero_treatment_first.Rd |only MFRCD-0.1.0/MFRCD/man/right_shift.Rd |only MFRCD-0.1.0/MFRCD/man/svd_ginv.Rd |only MFRCD-0.1.0/MFRCD/man/symmetrize_matrix.Rd |only MFRCD-0.1.0/MFRCD/man/treatment_index_from_matrix.Rd |only MFRCD-0.1.0/MFRCD/man/treatment_label.Rd |only MFRCD-0.1.0/MFRCD/tests/testthat/test-mfrcd.R |only MFRCD-0.1.1/MFRCD/DESCRIPTION | 56 MFRCD-0.1.1/MFRCD/MD5 | 70 MFRCD-0.1.1/MFRCD/NAMESPACE | 43 MFRCD-0.1.1/MFRCD/NEWS.md |only MFRCD-0.1.1/MFRCD/R/MFRCD.R | 3396 +++++++++++-- MFRCD-0.1.1/MFRCD/man/MFRCD-package.Rd | 8 MFRCD-0.1.1/MFRCD/man/analyse_rcd.Rd |only MFRCD-0.1.1/MFRCD/man/check_rc_factorial_n.Rd | 14 MFRCD-0.1.1/MFRCD/man/make_D2_from_complete_sets.Rd |only MFRCD-0.1.1/MFRCD/man/make_connected_rcd_bounded.Rd |only MFRCD-0.1.1/MFRCD/man/mfrcd.Rd | 38 MFRCD-0.1.1/MFRCD/man/mfrcd_check_repair.Rd |only MFRCD-0.1.1/MFRCD/man/print.mfrcd_check_repair.Rd |only MFRCD-0.1.1/MFRCD/man/print.rcd_analysis.Rd |only MFRCD-0.1.1/MFRCD/man/rc_factorial_n.Rd | 20 MFRCD-0.1.1/MFRCD/man/rc_from_principal_block.Rd | 28 MFRCD-0.1.1/MFRCD/man/rc_method1.Rd | 20 MFRCD-0.1.1/MFRCD/man/rc_method2.Rd | 18 MFRCD-0.1.1/MFRCD/man/rcd_analysis_summary.Rd |only MFRCD-0.1.1/MFRCD/man/rcd_feasibility_check.Rd |only MFRCD-0.1.1/MFRCD/man/summarize_rcd_layout.Rd |only MFRCD-0.1.1/MFRCD/man/tetra_connectedness.Rd |only MFRCD-0.1.1/MFRCD/man/validate_bounded_rcd.Rd |only MFRCD-0.1.1/MFRCD/man/verify_mfrcd.Rd | 23 MFRCD-0.1.1/MFRCD/tests/testthat.R | 24 MFRCD-0.1.1/MFRCD/tests/testthat/test-basic.R |only 59 files changed, 3304 insertions(+), 454 deletions(-)
Title: Weight of Evidence for Quantifying Performance of a Binary
Classifier
Description: The distributions of the weight of evidence (log Bayes factor) favouring case over noncase status in a test dataset (or test folds generated by cross-validation) can be used to quantify the performance of a diagnostic test. This package can be used with any test dataset on which you have computed prior probabilities of case status, posterior probabilities of case status, and you have the observed case-control status. In comparison with the C-statistic (area under ROC curve), the expected weight of evidence (expected information for discrimination) has several advantages as a summary measure of predictive performance. To quantify how the predictor will behave as a risk stratifier, the quantiles of the distributions of weight of evidence in cases and controls can be calculated and plotted.
Author: Paul McKeigue [aut, cre],
Marco Colombo [ctb]
Maintainer: Paul McKeigue <paul.mckeigue@ed.ac.uk>
Diff between wevid versions 0.6.2 dated 2019-09-12 and 0.7.0 dated 2026-05-11
wevid-0.6.2/wevid/data/fitonly.rda |only wevid-0.6.2/wevid/data/pima.rda |only wevid-0.6.2/wevid/inst |only wevid-0.6.2/wevid/man/Wdensities.Rd |only wevid-0.6.2/wevid/man/Wdensities.crude.Rd |only wevid-0.6.2/wevid/man/recalibrate.p.Rd |only wevid-0.6.2/wevid/man/summary-densities.Rd |only wevid-0.6.2/wevid/man/wevid.datasets.Rd |only wevid-0.7.0/wevid/DESCRIPTION | 35 - wevid-0.7.0/wevid/MD5 | 50 +- wevid-0.7.0/wevid/NAMESPACE | 16 wevid-0.7.0/wevid/R/data.R | 48 -- wevid-0.7.0/wevid/R/plots.R | 238 +++++----- wevid-0.7.0/wevid/R/wdists.R | 570 +++++++++---------------- wevid-0.7.0/wevid/R/wevid.R | 71 +-- wevid-0.7.0/wevid/man/Wdensities.fromraw.Rd |only wevid-0.7.0/wevid/man/Wdensities.mix.Rd |only wevid-0.7.0/wevid/man/Wdensities.unadjusted.Rd |only wevid-0.7.0/wevid/man/auroc.model.Rd |only wevid-0.7.0/wevid/man/cleveland.Rd |only wevid-0.7.0/wevid/man/cumfreqs.Rd |only wevid-0.7.0/wevid/man/error.integrals.Rd |only wevid-0.7.0/wevid/man/figures |only wevid-0.7.0/wevid/man/fsmooth.Rd |only wevid-0.7.0/wevid/man/kl.Rd |only wevid-0.7.0/wevid/man/lambda.model.Rd |only wevid-0.7.0/wevid/man/means.densities.Rd |only wevid-0.7.0/wevid/man/plotW.Rd |only wevid-0.7.0/wevid/man/plotWdists.Rd | 37 - wevid-0.7.0/wevid/man/plotcumfreqs.Rd | 15 wevid-0.7.0/wevid/man/plotroc.Rd | 23 - wevid-0.7.0/wevid/man/prop.belowthreshold.Rd | 19 wevid-0.7.0/wevid/man/tobits.Rd |only wevid-0.7.0/wevid/man/weightsofevidence.Rd | 9 wevid-0.7.0/wevid/man/wevid-package.Rd | 65 -- wevid-0.7.0/wevid/man/wtrue.results.Rd |only 36 files changed, 496 insertions(+), 700 deletions(-)
Title: Visualization of Viral Protein Sequence Diversity Dynamics
Description: To ease the visualization of outputs from Diversity Motif Analyser ('DiMA';
<https://github.com/BVU-BILSAB/DiMA>). 'vDiveR' allows visualization of the diversity
motifs (index and its variants – major, minor and unique) for elucidation of
the underlying inherent dynamics. Please refer <https://vdiver-manual.readthedocs.io/en/latest/>
for more information.
Author: Pendy Tok [aut, cre],
Li Chuin Chong [aut],
Evgenia Chikina [aut],
Yin Cheng Chen [aut],
Mohammad Asif Khan [aut]
Maintainer: Pendy Tok <pendytok0518@gmail.com>
This is a re-admission after prior archival of version 2.1.0 dated 2025-09-19
Diff between vDiveR versions 2.1.0 dated 2025-09-19 and 2.2.0 dated 2026-05-11
vDiveR-2.1.0/vDiveR/inst/extdata/city_mapper.csv |only vDiveR-2.2.0/vDiveR/DESCRIPTION | 12 - vDiveR-2.2.0/vDiveR/MD5 | 25 +- vDiveR-2.2.0/vDiveR/NAMESPACE | 10 vDiveR-2.2.0/vDiveR/NEWS.md | 13 - vDiveR-2.2.0/vDiveR/R/json2csv.R | 230 +++++++++++++-------- vDiveR-2.2.0/vDiveR/R/plot_conservation_level.R | 36 +-- vDiveR-2.2.0/vDiveR/R/plot_dynamics_protein.R | 199 ++++++++++-------- vDiveR-2.2.0/vDiveR/R/plot_dynamics_proteome.R | 162 +++++++------- vDiveR-2.2.0/vDiveR/R/plot_entropy.R | 104 +++++++-- vDiveR-2.2.0/vDiveR/R/plot_world_map.R | 28 +- vDiveR-2.2.0/vDiveR/man/plot_dynamics_protein.Rd | 6 vDiveR-2.2.0/vDiveR/man/plot_world_map.Rd | 2 vDiveR-2.2.0/vDiveR/tests/testthat/test-json2csv.R | 5 14 files changed, 501 insertions(+), 331 deletions(-)
Title: Small Sample Size Species Distribution Modeling
Description: Implements a set of distribution modeling methods that are suited to species with small sample sizes (e.g., poorly sampled species or rare species). While these methods can also be used on well-sampled taxa, they are united by the fact that they can be utilized with relatively few data points. More details on the currently implemented methodologies can be found in Maitner et al. (2026) <doi:10.1002/ecog.08112>, Drake and Richards (2018) <doi:10.1002/ecs2.2373>, Drake (2015) <doi:10.1098/rsif.2015.0086>, and Drake (2014) <doi:10.1890/ES13-00202.1>.
Author: Brian S. Maitner [aut, cre] ,
Robert L. Richards [aut],
Ben S. Carlson [aut],
John M. Drake [aut],
Cory Merow [aut]
Maintainer: Brian S. Maitner <bmaitner@usf.edu>
Diff between S4DM versions 0.0.1 dated 2025-01-10 and 0.0.2 dated 2026-05-11
DESCRIPTION | 21 +++--- MD5 | 48 ++++++++------- NAMESPACE | 1 NEWS | 12 +++ R/dr_kliep.R |only R/ensemble_range_map.R | 3 R/evaluate_range_map.R | 20 +++--- R/fit_density_ratio.R | 4 - R/fit_plug_and_play.R | 2 R/get_env_bg.R | 12 +-- R/get_env_pres.R | 2 R/get_response_curves.R | 18 ++--- R/project_plug_and_play.R | 15 ++++ R/stratify_spatial.R | 22 +++---- build/partial.rdb |binary build/vignette.rds |binary inst/REFERENCES.bib | 21 +++++- inst/doc/S4DM.html | 109 +++++++++++++++++------------------ man/dr_kliep.Rd |only man/ensemble_range_map.Rd | 1 man/fit_density_ratio.Rd | 4 - man/fit_plug_and_play.Rd | 2 man/project_plug_and_play.Rd | 4 - man/sample_points.Rd | 48 +++++++-------- tests/testthat/test-dr.R | 38 ++++++++++++ tests/testthat/test-dr_fit_project.R | 2 26 files changed, 245 insertions(+), 164 deletions(-)
Title: Information Bottleneck Methods for Clustering Mixed-Type Data
Description: Implements multiple variants of the Information Bottleneck ('IB') method
for clustering datasets containing continuous, categorical (nominal/ordinal) and mixed-type variables.
The package provides deterministic, agglomerative, generalized,
and standard 'IB' clustering algorithms that preserve relevant information while
forming interpretable clusters. The Deterministic Information Bottleneck is described in
Costa et al. (2026) <doi:10.1016/j.patcog.2026.113580>. The standard 'IB' method
originates from Tishby et al. (2000) <doi:10.48550/arXiv.physics/0004057>,
the agglomerative variant from Slonim and Tishby (1999) <https://papers.nips.cc/paper/1651-agglomerative-information-bottleneck>,
and the generalized 'IB' from Strouse and Schwab (2017) <doi:10.1162/NECO_a_00961>.
Author: Angelos Markos [aut, cre],
Efthymios Costa [aut],
Ioanna Papatsouma [aut]
Maintainer: Angelos Markos <amarkos@gmail.com>
Diff between IBclust versions 1.2.1 dated 2025-09-19 and 1.3 dated 2026-05-11
DESCRIPTION | 30 +-- MD5 | 65 ++++--- NAMESPACE | 47 ++--- R/AIB.R | 5 R/AIBmix.R | 201 ++++++++++++++++++++++- R/DIBmix.R | 320 +++++++++++++++++++++++++++++++++++-- R/DIBmix_iterate.R | 124 +++----------- R/GIBmix.R | 300 ++++++++++++++++++++++++++++++++--- R/GIBmix_iterate.R | 100 ----------- R/IBclust-package.R |only R/IBmix.R | 293 ++++++++++++++++++++++++++++++++-- R/IBmix_iterate.R | 100 ----------- R/RcppExports.R | 32 +++ R/aibclust-class.R | 6 R/aibclust-methods.R | 97 +++++++++-- R/bw_select.R | 216 ++++++++++++++++++------- R/coord_to_pxy_R.R | 12 - R/coord_to_pxy_nystrom_R.R |only R/gibclust-class.R | 8 R/gibclust-methods.R | 106 ++++++++---- R/importance.R |only R/input_checks.R | 51 +++++ R/make_dendrogram.R | 2 R/qsteps.R |only README.md | 4 build/partial.rdb |binary inst/CITATION | 14 - inst/REFERENCES.bib | 24 +- man/AIBmix.Rd | 106 ++++++------ man/DIBmix.Rd | 122 +++++++++----- man/GIBmix.Rd | 116 +++++++++---- man/IBclust-package.Rd |only man/IBmix.Rd | 117 +++++++++---- src/RcppExports.cpp | 126 ++++++++++++++ src/ib_dist.cpp | 116 +++++++++++++ src/qt_x_step.cpp | 383 +++++++++++++++++++++++++++++++++++++++++++-- 36 files changed, 2498 insertions(+), 745 deletions(-)
Title: Differential Item Functioning in Generalized Partial Credit
Models
Description: Provides a framework to detect Differential Item Functioning (DIF) in Generalized Partial Credit Models (GPCM) and special cases of the GPCM as proposed by Schauberger and Mair (2019) <doi:10.3758/s13428-019-01224-2>. A joint model is set up where DIF is explicitly parametrized and penalized likelihood estimation is used for parameter selection. The big advantage of the method called GPCMlasso is that several variables can be treated simultaneously and that both continuous and categorical variables can be used to detect DIF.
Author: Gunther Schauberger [aut, cre]
Maintainer: Gunther Schauberger <gunther.schauberger@tum.de>
Diff between GPCMlasso versions 0.1-8 dated 2025-07-23 and 0.1-9 dated 2026-05-11
DESCRIPTION | 10 +++++----- MD5 | 6 +++--- R/get_designX.R | 7 +++++-- man/GPCMlasso-package.Rd | 5 +++++ 4 files changed, 18 insertions(+), 10 deletions(-)
Title: Be Nice on the Web
Description: Be responsible when scraping data from websites by following polite principles: introduce yourself, ask for permission, take slowly and never ask twice.
Author: Dmytro Perepolkin [aut, cre]
Maintainer: Dmytro Perepolkin <dperepolkin@gmail.com>
Diff between polite versions 0.1.3 dated 2023-06-30 and 0.1.4 dated 2026-05-11
DESCRIPTION | 15 LICENSE | 4 MD5 | 50 - NAMESPACE | 86 +- NEWS.md | 146 ++-- R/scrape.R | 186 +++-- R/use-manners.R | 4 README.md | 952 ++++++++++++++---------------- inst/templates/polite_template.R | 308 ++++----- man/bow.Rd | 102 +-- man/figures/README-unnamed-chunk-10-1.png |binary man/guess_basename.Rd | 42 - man/html_attrs_dfr.Rd | 82 +- man/nod.Rd | 62 - man/nullcoalesce.Rd | 26 man/pipe.Rd | 24 man/politely.Rd | 82 +- man/print.polite.Rd | 32 - man/rip.Rd | 84 +- man/scrape.Rd | 90 +- man/set_delay.Rd | 60 - man/use_manners.Rd | 32 - tests/testthat.R | 8 tests/testthat/test-scrape.R | 120 +-- tests/testthat/test_bow.R | 64 +- tests/testthat/test_nod.R | 8 26 files changed, 1347 insertions(+), 1322 deletions(-)
Title: Highlight Conserved Edits Across Versions of a Document
Description: Input multiple versions of a source document,
and receive HTML code for a highlighted version of the source document
indicating the frequency of occurrence of phrases in the different versions.
This method is described in Chapter 3 of
Rogers (2024) <https://digitalcommons.unl.edu/dissertations/AAI31240449/>.
Author: Center for Statistics and Applications in Forensic Evidence [aut, cph,
fnd],
Rachel Rogers [aut, cre] ,
Susan VanderPlas [aut]
Maintainer: Rachel Rogers <rrogers.rpackages@gmail.com>
Diff between highlightr versions 2.0.0 dated 2026-04-10 and 2.0.1 dated 2026-05-11
DESCRIPTION | 6 MD5 | 30 - NEWS.md | 7 R/collocation_frequency.R | 2 R/highlighted_text.R | 4 README.md | 5 inst/doc/highlightr.R | 7 inst/doc/highlightr.Rmd | 14 inst/doc/highlightr.html | 121 ++-- inst/doc/wikipedia-highlighter.R | 4 inst/doc/wikipedia-highlighter.Rmd | 4 inst/doc/wikipedia-highlighter.html | 54 - tests/testthat/test-collocation_frequency.R | 778 ++++++++++++++-------------- tests/testthat/test-highlighted_text.R | 15 vignettes/highlightr.Rmd | 14 vignettes/wikipedia-highlighter.Rmd | 4 16 files changed, 571 insertions(+), 498 deletions(-)
Title: Tools to Query the 'Algaebase' Online Database, Standardize
Phytoplankton Taxonomic Data, and Perform Functional Group
Classifications
Description: Functions that facilitate the use of accepted taxonomic nomenclature, collection of
functional trait data, and assignment of functional group classifications to phytoplankton
species. Possible classifications include Morpho-functional group (MFG; Salmaso et al. 2015
<doi:10.1111/fwb.12520>) and CSR (Reynolds 1988; Functional morphology and the
adaptive strategies of phytoplankton. In C.D. Sandgren (ed). Growth and reproductive
strategies of freshwater phytoplankton, 388-433. Cambridge University Press, New York).
Versions 2.0.0 and later includes new functions for querying the
'algaebase' online taxonomic database (www.algaebase.org), however these functions require
a valid API key that must be acquired from the 'algaebase' administrators.
Note that none of the 'algaeClassify' authors are affiliated with 'algaebase' in any way. Taxonomic
names can also be checked against a variety of taxonomic databases using
the 'Global Names Resolver' service via its API (<https://resolver.g [...truncated...]
Author: Vijay Patil [aut, cre],
Torsten Seltmann [aut],
Nico Salmaso [aut],
Orlane Anneville [aut],
Marc Lajeunesse [aut],
Dietmar Straile [aut]
Maintainer: Vijay Patil <vij.patil@gmail.com>
Diff between algaeClassify versions 2.0.5 dated 2025-12-01 and 2.0.6 dated 2026-05-11
DESCRIPTION | 16 +- MD5 | 19 +- NEWS.md | 29 ++++ R/genus_search_itis.r | 257 ++++++++++++++++++++++------------------ R/itis_api.r |only R/itis_search_df.r | 152 ++++++++++------------- R/species_search_itis.r | 286 ++++++++++++++++++++++++--------------------- README.md | 2 man/genus_search_itis.Rd | 2 man/itis_search_df.Rd | 9 - man/species_search_itis.Rd | 2 11 files changed, 417 insertions(+), 357 deletions(-)
Title: Visualization of Design of Experiments from the 'agricolae'
Package
Description: Visualization of Design of Experiments from the 'agricolae' package with 'ggplot2' framework
The user provides an experiment design from the 'agricolae' package, calls the corresponding function and will receive a
visualization with 'ggplot2' based functions that are specific for each design. As there are many different designs, each design is tested on its type.
The output can be modified with standard 'ggplot2' commands or with other packages with 'ggplot2' function extensions.
Author: Jens Harbers [aut, cre]
Maintainer: Jens Harbers <jensharbers@gmail.com>
Diff between agricolaeplotr versions 0.6.1 dated 2025-01-30 and 1.0.0 dated 2026-05-11
DESCRIPTION | 11 MD5 | 222 +++++++-- NAMESPACE | 2 NEWS.md | 8 R/hello.R | 813 ++++++++++++++++++++---------------- README.md | 120 ++--- build/vignette.rds |binary inst/CITATION | 30 - inst/application |only inst/doc/FielDHub.Rmd | 274 ++++++------ inst/doc/FielDHub.html | 810 ++++++++++++++++++------------------ inst/doc/vignette.R | 24 - inst/doc/vignette.Rmd | 782 +++++++++++++++++----------------- inst/doc/vignette.html | 850 +++++++++++++++++++++++++------------- inst/exampleData/DOE_EXP.csv | 602 +++++++++++++------------- man/DOE_obj.Rd | 62 +- man/citations.Rd | 52 +- man/full_control_positions.Rd | 274 ++++++------ man/make_polygons.Rd | 94 ++-- man/plot_alpha.Rd | 126 ++--- man/plot_bib.Rd | 112 ++--- man/plot_cyclic.Rd | 110 ++-- man/plot_dau.Rd | 110 ++-- man/plot_design.factorial_crd.Rd | 122 ++--- man/plot_design.factorial_lsd.Rd | 114 ++--- man/plot_design.factorial_rcbd.Rd | 106 ++-- man/plot_design_crd.Rd | 118 ++--- man/plot_fieldhub.Rd | 180 ++++---- man/plot_graeco.Rd | 118 ++--- man/plot_latin_square.Rd | 112 ++--- man/plot_lattice_simple.Rd | 106 ++-- man/plot_lattice_triple.Rd | 108 ++-- man/plot_longest_diagonal.Rd | 94 ++-- man/plot_split_crd.Rd | 142 +++--- man/plot_split_lsd.Rd | 118 ++--- man/plot_split_rcbd.Rd | 130 ++--- man/plot_strip.Rd | 126 ++--- man/plot_youden.Rd | 112 ++--- man/protective_layers.Rd | 80 +-- man/sample_locations.Rd | 82 +-- man/serpentine.Rd | 52 +- man/summary.Rd | 78 +-- man/test_input_extend.Rd | 42 - man/test_input_ncols.Rd | 42 - man/test_input_nrows.Rd | 42 - man/test_input_reverse.Rd | 42 - man/test_input_shift.Rd | 42 - man/test_name_in_column.Rd | 54 +- man/test_names_design.Rd | 50 +- man/test_string.Rd | 42 - man/theme_gi.Rd | 54 +- man/theme_poster.Rd | 52 +- man/theme_pres.Rd | 52 +- man/to_table.Rd | 90 ++-- tests/testthat.R | 8 tests/testthat/_problems |only tests/testthat/testall.R | 462 +------------------- vignettes/FielDHub.Rmd | 274 ++++++------ vignettes/vignette.Rmd | 782 +++++++++++++++++----------------- 59 files changed, 4927 insertions(+), 4789 deletions(-)
More information about agricolaeplotr at CRAN
Permanent link
Title: Economics and Pricing Tools
Description: Functions to aid in micro and macro economic analysis and handling of price and
currency data. Includes extraction of relevant inflation and exchange rate data from World Bank
API, data cleaning/parsing, and standardisation. Inflation adjustment
calculations as found in Principles of Macroeconomics by Gregory Mankiw et al (2014). Current
and historical end of day exchange rates for 171 currencies from the European Central Bank
Statistical Data Warehouse (2020).
Author: Steve Condylios [aut, cre],
Bruno Mioto [ctb],
Bryan Shalloway [ctb]
Maintainer: Steve Condylios <steve.condylios@gmail.com>
Diff between priceR versions 1.0.3 dated 2025-10-28 and 1.0.4 dated 2026-05-10
DESCRIPTION | 8 ++++---- MD5 | 2 +- 2 files changed, 5 insertions(+), 5 deletions(-)
Title: Compositional Statistical Framework for RNA Fractionation
Analysis
Description: A compositional statistical framework for absolute proportion
estimation between fractions in RNA sequencing data. 'FracFixR' addresses
the fundamental challenge in fractionated RNA-seq experiments where library
preparation and sequencing depth obscure the original proportions of RNA
fractions. It reconstructs original fraction proportions using non-negative
linear regression, estimates the "lost" unrecoverable fraction, corrects
individual transcript frequencies, and performs differential proportion
testing between conditions. Supports any RNA fractionation protocol including
polysome profiling, sub-cellular localization, and RNA-protein complex isolation.
Author: Alice Cleynen [aut, cre] ,
Agin Ravindran [aut],
Nikolay Shirokikh [aut]
Maintainer: Alice Cleynen <alice.cleynen@cnrs.fr>
Diff between FracFixR versions 1.0.0 dated 2025-10-21 and 1.1.0 dated 2026-05-10
FracFixR-1.0.0/FracFixR/data/data_documentation.r |only FracFixR-1.1.0/FracFixR/DESCRIPTION | 12 - FracFixR-1.1.0/FracFixR/MD5 | 19 +- FracFixR-1.1.0/FracFixR/NAMESPACE | 2 FracFixR-1.1.0/FracFixR/NEWS.md | 26 +++ FracFixR-1.1.0/FracFixR/R/fracfixr.r | 77 +++++++++- FracFixR-1.1.0/FracFixR/data/data_documentation.rda |only FracFixR-1.1.0/FracFixR/inst/doc/FracFixR-intro.html | 121 ++++++++--------- FracFixR-1.1.0/FracFixR/man/FracFixR.Rd | 15 +- FracFixR-1.1.0/FracFixR/man/ProcessReplicate.Rd | 3 FracFixR-1.1.0/FracFixR/man/get_corrected_counts.Rd |only FracFixR-1.1.0/FracFixR/tests/testthat/test-fracfixr.r | 6 12 files changed, 192 insertions(+), 89 deletions(-)
Title: Unit Root Tests with Structural Breaks and Fully-Modified
Estimators
Description: Procedures include Phillips (1995) FMVAR <doi:10.2307/2171721>, Kitamura and Phillips (1997) FMGMM <doi:10.1016/S0304-4076(97)00004-3>, Park (1992) CCR <doi:10.2307/2951679>, and so on. Tests with 1 or 2 structural breaks include Gregory and Hansen (1996) <doi:10.1016/0304-4076(69)41685-7>, Zivot and Andrews (1992) <doi:10.2307/1391541>, and Kurozumi (2002) <doi:10.1016/S0304-4076(01)00106-3>.
Author: Ho Tsung-wu [aut, cre]
Maintainer: Ho Tsung-wu <tsungwu@ntnu.edu.tw>
Diff between COINT versions 0.0.2 dated 2025-09-30 and 0.0.3 dated 2026-05-10
DESCRIPTION | 8 +- MD5 | 28 +++---- R/fm_coint.R | 8 +- R/uroot_breaks.R | 216 +++++++++++++++++++++++++++---------------------------- man/GHansen.Rd | 7 + man/ZA_1br.Rd | 4 - man/ZA_2br.Rd | 2 man/ccr.Rd | 5 - man/ccrQ.Rd | 3 man/fm.Rd | 3 man/fmQ.Rd | 3 man/fmgive.Rd | 5 - man/fmgmm.Rd | 4 - man/fmols.Rd | 2 man/fmvar.Rd | 3 15 files changed, 155 insertions(+), 146 deletions(-)
Title: Create Tests According to QTI 2.1 Standard
Description: Create tests and tasks compliant with the Question & Test Interoperability (QTI) information model version 2.1. Input sources are Rmd/md description files or S4-class objects. Output formats include standalone zip or xml files. Supports the generation of basic task types (single and multiple choice, order, pair association, matching tables, filling gaps and essay) and provides a comprehensive set of attributes for customizing tests.
Author: Andrey Shevandrin [aut, cre, cph] ,
Petr Bondarenko [ctb] ,
Ivonne Ojeda [ctb],
Johannes Titz [aut, cph] ,
Brian Mottershead [cph] ,
Stiftung fuer Innovation in der Hochschullehre [fnd]
Maintainer: Andrey Shevandrin <shevandrin@gmail.com>
Diff between rqti versions 1.1.0 dated 2026-02-23 and 1.2.0 dated 2026-05-10
rqti-1.1.0/rqti/inst/QTIJS/index.xml |only rqti-1.2.0/rqti/DESCRIPTION | 31 rqti-1.2.0/rqti/MD5 | 487 rqti-1.2.0/rqti/NAMESPACE | 291 rqti-1.2.0/rqti/NEWS.md | 76 rqti-1.2.0/rqti/R/AssessmentItem.R | 6 rqti-1.2.0/rqti/R/AssessmentSection.R | 434 rqti-1.2.0/rqti/R/AssessmentTest.R | 675 rqti-1.2.0/rqti/R/AssessmentTestOpal.R | 29 rqti-1.2.0/rqti/R/AssessmentTestOpenOlat.R |only rqti-1.2.0/rqti/R/DirectedPair.R | 278 rqti-1.2.0/rqti/R/Entry.R | 374 rqti-1.2.0/rqti/R/Essay.R | 13 rqti-1.2.0/rqti/R/Gap.R | 3 rqti-1.2.0/rqti/R/LMS.R | 1004 rqti-1.2.0/rqti/R/MultipleChoiceTable.R | 346 rqti-1.2.0/rqti/R/OneInColTable.R | 248 rqti-1.2.0/rqti/R/OneInRowTable.R | 248 rqti-1.2.0/rqti/R/Opal.R | 1177 rqti-1.2.0/rqti/R/Ordering.R | 346 rqti-1.2.0/rqti/R/QtiMetadata.R | 8 rqti-1.2.0/rqti/R/SingleChoice.R | 344 rqti-1.2.0/rqti/R/character.R | 86 rqti-1.2.0/rqti/R/exams_integration.R |only rqti-1.2.0/rqti/R/extract_results.R | 44 rqti-1.2.0/rqti/R/helpers.R | 113 rqti-1.2.0/rqti/R/knit_functions.R | 374 rqti-1.2.0/rqti/R/object_builder.R | 122 rqti-1.2.0/rqti/R/qti_task.R | 32 rqti-1.2.0/rqti/R/qti_test.R | 40 rqti-1.2.0/rqti/R/response_processing.R | 65 rqti-1.2.0/rqti/R/rqti-package.R |only rqti-1.2.0/rqti/R/rqti.R | 66 rqti-1.2.0/rqti/R/section_builder.R | 789 rqti-1.2.0/rqti/R/utils-pipe.R | 28 rqti-1.2.0/rqti/R/verify_qti.R |only rqti-1.2.0/rqti/R/zzz.R | 18 rqti-1.2.0/rqti/README.md | 234 rqti-1.2.0/rqti/inst/QTIJS/LICENSE | 40 rqti-1.2.0/rqti/inst/QTIJS/README.md |only rqti-1.2.0/rqti/inst/QTIJS/VENDOR_INFO |only rqti-1.2.0/rqti/inst/QTIJS/VERSION | 2 rqti-1.2.0/rqti/inst/QTIJS/id_task_8635.xml |only rqti-1.2.0/rqti/inst/QTIJS/id_test_1681.xml |only rqti-1.2.0/rqti/inst/QTIJS/imsmanifest.xml |only rqti-1.2.0/rqti/inst/QTIJS/qti.js | 180 rqti-1.2.0/rqti/inst/QTIJS/shared |only rqti-1.2.0/rqti/inst/QTIJS/styles |only rqti-1.2.0/rqti/inst/QTIJS/theme/README | 16 rqti-1.2.0/rqti/inst/QTIJS/theme/core.css | 1844 rqti-1.2.0/rqti/inst/QTIJS/theme/images/arrow-left.svg | 4 rqti-1.2.0/rqti/inst/QTIJS/theme/images/arrow-right.svg | 4 rqti-1.2.0/rqti/inst/QTIJS/theme/images/warning-white.svg | 112 rqti-1.2.0/rqti/inst/QTIJS/theme/linear-slideshow.css | 96 rqti-1.2.0/rqti/inst/QTIJS/theme/nonlinear-continuous.css | 72 rqti-1.2.0/rqti/inst/QTIJS/theme/nonlinear-slideshow.css | 90 rqti-1.2.0/rqti/inst/QTIJS/theme/style.css | 6 rqti-1.2.0/rqti/inst/exercises/dp.Rmd | 32 rqti-1.2.0/rqti/inst/exercises/dp.csv | 8 rqti-1.2.0/rqti/inst/exercises/gap1.Rmd | 34 rqti-1.2.0/rqti/inst/exercises/gap2.Rmd | 32 rqti-1.2.0/rqti/inst/exercises/metadata_template.Rmd | 38 rqti-1.2.0/rqti/inst/exercises/mpc1.Rmd | 30 rqti-1.2.0/rqti/inst/exercises/mpc1c.Rmd | 44 rqti-1.2.0/rqti/inst/exercises/sc1b.Rmd | 26 rqti-1.2.0/rqti/inst/exercises/sc1c.Rmd | 54 rqti-1.2.0/rqti/inst/exercises/sc1d.xml | 244 rqti-1.2.0/rqti/inst/imsqti_v2p1p2.xsd |20968 +++++----- rqti-1.2.0/rqti/inst/language-codes_csv.csv | 370 rqti-1.2.0/rqti/inst/mathml2/common/common-attribs.xsd | 80 rqti-1.2.0/rqti/inst/mathml2/common/math.xsd | 250 rqti-1.2.0/rqti/inst/mathml2/common/xlink-href.xsd | 40 rqti-1.2.0/rqti/inst/mathml2/content/arith.xsd | 178 rqti-1.2.0/rqti/inst/mathml2/content/calculus.xsd | 290 rqti-1.2.0/rqti/inst/mathml2/content/common-attrib.xsd | 58 rqti-1.2.0/rqti/inst/mathml2/content/constants.xsd | 164 rqti-1.2.0/rqti/inst/mathml2/content/constructs.xsd | 518 rqti-1.2.0/rqti/inst/mathml2/content/elementary-functions.xsd | 230 rqti-1.2.0/rqti/inst/mathml2/content/functions.xsd | 142 rqti-1.2.0/rqti/inst/mathml2/content/linear-algebra.xsd | 344 rqti-1.2.0/rqti/inst/mathml2/content/logic.xsd | 104 rqti-1.2.0/rqti/inst/mathml2/content/relations.xsd | 108 rqti-1.2.0/rqti/inst/mathml2/content/semantics.xsd | 168 rqti-1.2.0/rqti/inst/mathml2/content/sets.xsd | 470 rqti-1.2.0/rqti/inst/mathml2/content/statistics.xsd | 270 rqti-1.2.0/rqti/inst/mathml2/content/tokens.xsd | 238 rqti-1.2.0/rqti/inst/mathml2/content/vector-calculus.xsd | 174 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208 rqti-1.2.0/rqti/tests/testthat/test-directed_pair.R | 254 rqti-1.2.0/rqti/tests/testthat/test-extract_results.R | 50 rqti-1.2.0/rqti/tests/testthat/test-helpers_provide_file.R |only rqti-1.2.0/rqti/tests/testthat/test-knit_functions.R | 197 rqti-1.2.0/rqti/tests/testthat/test-multiple_choice_table.R | 4 rqti-1.2.0/rqti/tests/testthat/test-object_builder.R | 53 rqti-1.2.0/rqti/tests/testthat/test-qti_exam.R | 257 rqti-1.2.0/rqti/tests/testthat/test-qti_task.R | 19 rqti-1.2.0/rqti/tests/testthat/test-rqti_project.R | 34 rqti-1.2.0/rqti/tests/testthat/test-section.R | 148 rqti-1.2.0/rqti/tests/testthat/test-section_builder.R | 14 rqti-1.2.0/rqti/tests/testthat/test-single_choice.R | 94 rqti-1.2.0/rqti/tests/testthat/test-text_gap.R | 834 rqti-1.2.0/rqti/tests/testthat/test-text_order.R | 441 rqti-1.2.0/rqti/tests/testthat/test-verify_qti.R |only rqti-1.2.0/rqti/tests/testthat/test-wrong_feedback.R | 136 259 files changed, 27840 insertions(+), 25867 deletions(-)
Title: Graphical Visualizations for ROBUST-RCT Risk of Bias Assessments
Description: Provides visual representations of risk-of-bias assessments
using the ROBUST-RCT framework, as described in Wang et al. (2025)
<doi:10.1136/bmj-2024-081199>. The graphical visualization displays
both factual evaluation (Step 1) and judgment (Step 2).
Author: Pedro Rodrigues Vidor [aut, cre],
Yohan Casiraghi [ctb],
Sofia Simoni Rossi Fermo [ctb],
Adolfo Moraes de Souza [ctb],
Maicon Falavigna [ctb]
Maintainer: Pedro Rodrigues Vidor <pedro.vidor@ufrgs.br>
Diff between eclipseplot versions 0.9.6 dated 2026-04-13 and 0.9.7 dated 2026-05-10
DESCRIPTION | 10 +-- MD5 | 18 +++---- NAMESPACE | 78 +++++++++++++++--------------- R/eclipseplot.R | 107 +++++++++++++++++++++++++++++------------- data/sample_brief.rda |binary data/sample_long.rda |binary inst/extdata/sample_brief.csv | 12 ++-- inst/extdata/sample_long.csv | 54 ++++++++++----------- man/eclipsedf.Rd | 6 -- man/eclipseplot.Rd | 4 - 10 files changed, 160 insertions(+), 129 deletions(-)
Title: Calculating Density-Independent Niche Breadth Indices from
Abundance Data
Description: Deriving isodar-based niche breadth indices from
abundance data of two or more habitats, including several methods based on
pairwise isodars, multidimensional isodars, and isodar-adjusted inequality.
Author: Shahar Dubiner [aut, cre] ,
Itai Granot [aut],
Jonathan Belmaker [aut]
Maintainer: Shahar Dubiner <dubiner@mail.tau.ac.il>
Diff between isoniche versions 0.1.0 dated 2026-04-13 and 0.1.1 dated 2026-05-10
isoniche-0.1.0/isoniche/R/isoniche.R |only isoniche-0.1.0/isoniche/man/isoniche.Rd |only isoniche-0.1.1/isoniche/DESCRIPTION | 6 +++--- isoniche-0.1.1/isoniche/MD5 | 16 +++++++--------- isoniche-0.1.1/isoniche/R/fit_isodar.R | 7 +++++-- isoniche-0.1.1/isoniche/R/isodar_adj_niche.R | 16 ++++++++++------ isoniche-0.1.1/isoniche/R/ndim_isoniche.R | 20 +------------------- isoniche-0.1.1/isoniche/man/fit_isodar.Rd | 12 +++++++++++- isoniche-0.1.1/isoniche/man/isodar_adj_niche.Rd | 14 +++++++++----- isoniche-0.1.1/isoniche/man/ndim_isoniche.Rd | 19 +------------------ 10 files changed, 47 insertions(+), 63 deletions(-)
Title: Análisis Computacional de Eventos de Protesta
Description: La librería 'ACEP' contiene funciones específicas para
desarrollar análisis computacional de eventos de protesta. Asimismo,
contiene bases de datos con colecciones de notas sobre protestas y
diccionarios de palabras conflictivas. La colección de diccionarios
reune diccionarios de diferentes orígenes.
The 'ACEP' library contains specific functions to perform computational
analysis of protest events. It also contains a database with collections
of notes on protests and dictionaries of conflicting words. Collection
of dictionaries that brings together dictionaries from different sources.
Author: Agustin Nieto [aut, cre]
Maintainer: Agustin Nieto <agustin.nieto77@gmail.com>
Diff between ACEP versions 0.0.22 dated 2023-10-19 and 0.1.0 dated 2026-05-10
ACEP-0.0.22/ACEP/R/acep_men.R |only ACEP-0.0.22/ACEP/R/acep_rst.R |only ACEP-0.0.22/ACEP/data/acep_bases.RData |only ACEP-0.0.22/ACEP/man/acep_men.Rd |only ACEP-0.0.22/ACEP/man/acep_rst.Rd |only ACEP-0.0.22/ACEP/tests/testthat/Rplots.pdf |only ACEP-0.0.22/ACEP/tests/testthat/test-acep_men.R |only ACEP-0.0.22/ACEP/tests/testthat/test-acep_plot_rst.R |only ACEP-0.0.22/ACEP/tests/testthat/test-acep_plot_st.R |only ACEP-0.0.22/ACEP/tests/testthat/test-acep_rst.R |only ACEP-0.1.0/ACEP/DESCRIPTION | 41 ACEP-0.1.0/ACEP/LICENSE | 4 ACEP-0.1.0/ACEP/MD5 | 205 +++- ACEP-0.1.0/ACEP/NAMESPACE | 86 + ACEP-0.1.0/ACEP/NEWS.md | 119 ++ ACEP-0.1.0/ACEP/R/acep_bases.R | 84 + ACEP-0.1.0/ACEP/R/acep_classes.R |only ACEP-0.1.0/ACEP/R/acep_claude.R |only ACEP-0.1.0/ACEP/R/acep_clean.R | 257 +++-- ACEP-0.1.0/ACEP/R/acep_context.R |only ACEP-0.1.0/ACEP/R/acep_count.R |only ACEP-0.1.0/ACEP/R/acep_db.R | 92 +- ACEP-0.1.0/ACEP/R/acep_detect.R | 76 - ACEP-0.1.0/ACEP/R/acep_diccionarios.R | 70 - ACEP-0.1.0/ACEP/R/acep_extract.R |only ACEP-0.1.0/ACEP/R/acep_frec.R | 44 ACEP-0.1.0/ACEP/R/acep_gemini.R |only ACEP-0.1.0/ACEP/R/acep_gpt.R |only ACEP-0.1.0/ACEP/R/acep_int.R | 64 - 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Title: Tools and Methods for Working with MIDFIELD Data in 'R'
Description: Provides tools and demonstrates methods for working with
individual undergraduate student-level records (registrar's data) in
'R'. Tools include filters for program codes, data sufficiency, and
timely completion. Methods include gathering blocs of records,
computing quantitative metrics such as graduation rate, and creating
charts to visualize comparisons. 'midfieldr' interacts with practice
data provided in 'midfielddata', an R data package available at
<https://midfieldr.github.io/midfielddata/>. 'midfieldr' also
interacts with the full MIDFIELD database for users who have access.
As of the transfer of MIDFIELD to the American Society for Engineering
Education in 2023, the development, expansion, and study of
MIDFIELD has been supported by the National Science Foundation grants
0337629, 0646441, 0729596, 0734062, 0835914, 0935157, 0935058,
0969474, 1025171, 1129383, 1232740, 1329283, 1361058, 1545667,
2142087, 2141903, and 2152441.
Author: Richard Layton [cre, aut, cph],
Russell Long [aut, cph, dtm],
Matthew Ohland [aut, cph],
Marisa Orr [aut, cph],
Susan Lord [aut, cph]
Maintainer: Richard Layton <graphdoctor@gmail.com>
Diff between midfieldr versions 1.0.2 dated 2024-05-16 and 1.0.3 dated 2026-05-10
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midfieldr-1.0.3/midfieldr/man/study_observations.Rd | 96 - midfieldr-1.0.3/midfieldr/man/study_programs.Rd | 4 midfieldr-1.0.3/midfieldr/man/study_results.Rd | 90 - midfieldr-1.0.3/midfieldr/man/toy_course.Rd | 13 midfieldr-1.0.3/midfieldr/man/toy_degree.Rd | 6 midfieldr-1.0.3/midfieldr/man/toy_student.Rd | 68 midfieldr-1.0.3/midfieldr/man/toy_term.Rd | 9 midfieldr-1.0.3/midfieldr/tests/tinytest.R | 4 midfieldr-1.0.3/midfieldr/vignettes/extra.css |only midfieldr-1.0.3/midfieldr/vignettes/midfieldr.Rmd |only midfieldr-1.0.3/midfieldr/vignettes/style.css |only 119 files changed, 2257 insertions(+), 1969 deletions(-)
Title: Tools for Tidy Vowel Normalization
Description: An implementation of tidy speaker vowel normalization.
This includes generic functions for defining new normalization methods for
points, formant tracks, and Discrete Cosine Transform coefficients, as well
as convenience functions implementing established normalization methods.
References for the implemented methods are:
Johnson, Keith (2020) <doi:10.5334/labphon.196>
Lobanov, Boris (1971) <doi:10.1121/1.1912396>
Nearey, Terrance M. (1978) <https://sites.ualberta.ca/~tnearey/Nearey1978_compressed.pdf>
Syrdal, Ann K., and Gopal, H. S. (1986) <doi:10.1121/1.393381>
Watt, Dominic, and Fabricius, Anne (2002) <https://www.latl.leeds.ac.uk/article/evaluation-of-a-technique-for-improving-the-mapping-of-multiple-speakers-vowel-spaces-in-the-f1-f2-plane/>.
Author: Josef Fruehwald [cre, aut, cph]
Maintainer: Josef Fruehwald <JoFrhwld@gmail.com>
Diff between tidynorm versions 0.4.0 dated 2025-10-26 and 0.4.1 dated 2026-05-10
DESCRIPTION | 6 ++-- MD5 | 43 +++++++++++++++---------------- NAMESPACE | 2 - NEWS.md | 6 ++++ R/norm.R | 23 ++++++++-------- R/tidynorm-package.R | 1 R/track_norm.R | 24 +++++++++-------- R/utils.R | 22 +++++++++++++++ README.md | 2 - build/partial.rdb |binary build/vignette.rds |binary inst/doc/checking.html | 5 ++- inst/doc/dct.html | 12 ++++---- inst/doc/norm-methods.html | 16 +++++++---- inst/doc/normalization-overview.html | 14 +++++----- inst/doc/normalizing_formant_tracks.html | 4 +- man/figures/README-norm-1.png |binary man/figures/README-rnorm-1.png |binary man/figures/README-unnorm-1.png |binary man/norm_generic.Rd | 4 +- man/norm_track_generic.Rd | 4 +- tests/testthat/test-dct.R | 1 tests/testthat/test-norminfo.R |only 23 files changed, 112 insertions(+), 77 deletions(-)
Title: Identifies Package Differences
Description: Identifies differences between
versions of a package. Specifically, the functions help
determine if there are breaking changes from one package version
to the next. The package also includes a stability assessment,
to help you determine the overall stability of a package, or even
an entire repository.
Author: David Bosak [aut, cre],
Brian Varney [ctb],
Kevin Putschko [ctb]
Maintainer: David Bosak <dbosak01@gmail.com>
Diff between pkgdiff versions 1.0.2 dated 2026-03-25 and 1.0.3 dated 2026-05-10
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 8 ++++++-- R/pkgdiff.R | 12 +++++++++--- 4 files changed, 21 insertions(+), 11 deletions(-)
Title: Generalized Linear Latent Variable Models
Description: Analysis of multivariate data using generalized linear latent variable models (gllvm).
Estimation is performed using either the Laplace method, variational approximations, or extended variational approximations, implemented via TMB (Kristensen et al. (2016), <doi:10.18637/jss.v070.i05>).
Author: Jenni Niku [aut, cre],
Wesley Brooks [aut],
Riki Herliansyah [aut],
Francis K.C. Hui [aut],
Pekka Korhonen [aut],
Sara Taskinen [aut],
Bert van der Veen [aut],
David I. Warton [aut]
Maintainer: Jenni Niku <jenni.m.e.niku@jyu.fi>
Diff between gllvm versions 2.0.5 dated 2025-07-13 and 2.0.10 dated 2026-05-10
DESCRIPTION | 12 MD5 | 164 - NAMESPACE | 12 NEWS.md | 65 R/TMBtrait.R | 1087 +++++++--- R/VP.gllvm.R | 40 R/aicc.gllvm.R | 33 R/coefplot.gllvm.R | 7 R/confint.gllvm.R | 113 - R/getLV.gllvm.R | 6 R/getPredictErr.gllvm.R | 62 R/getResidualCor.gllvm.R | 6 R/getResidualCov.gllvm.R | 58 R/gllvm.R | 381 ++- R/gllvm.TMB.R | 1467 +++++++++----- R/gllvm.VA.R | 47 R/gllvm.auxiliary.R | 1119 ++++++---- R/gllvm.iter.R | 61 R/gllvm.makeform.R | 180 + R/glmmVA.R |only R/goodnessOfFit.gllvm.R | 98 R/logLik.gllvm.R | 12 R/ordiplot.gllvm.R | 88 R/phyloplot.gllvm.R | 11 R/plot.gllvm.R | 70 R/plotVP.gllvm.R | 33 R/predict.gllvm.R | 654 +++++- R/predictSR.gllvm.R |only R/print.gllvm.R | 2 R/randomCoefplot.R | 2 R/residuals.gllvm.R | 504 ++-- R/se.gllvm.R | 547 +++-- R/simulate.gllvm.R | 100 R/summary.gllvm.R | 112 - R/sysdata.rda |only R/update.gllvm.R | 13 README.md | 6 build/vignette.rds |binary inst/CITATION | 13 inst/doc/vignette1.R | 128 - inst/doc/vignette1.Rmd | 30 inst/doc/vignette1.html | 270 ++ inst/doc/vignette10.Rmd |only inst/doc/vignette10.html |only inst/doc/vignette2.R | 18 inst/doc/vignette2.html | 11 inst/doc/vignette3.R | 30 inst/doc/vignette3.html | 585 ++--- inst/doc/vignette4.R | 40 inst/doc/vignette4.html | 137 - inst/doc/vignette5.R | 6 inst/doc/vignette5.html | 14 inst/doc/vignette6.Rmd | 2 inst/doc/vignette6.html | 9 inst/doc/vignette7.Rmd | 8 inst/doc/vignette7.html | 13 inst/doc/vignette8.R | 34 inst/doc/vignette8.Rmd | 72 inst/doc/vignette8.html | 362 ++- inst/doc/vignette9.html | 5 man/Skabbholmen.Rd | 2 man/VP.gllvm.Rd | 8 man/getResidualCov.gllvm.Rd | 7 man/gllvm.Rd | 20 man/glmmVA.Rd |only man/goodnessOfFit.Rd | 10 man/ordiplot.gllvm.Rd | 2 man/phyloplot.gllvm.Rd | 2 man/plot.gllvm.Rd | 5 man/predict.gllvm.Rd | 17 man/predictPairwise.gllvm.Rd |only man/predictSR.gllvm.Rd |only man/residuals.gllvm.Rd | 3 man/residuals.predictSR.gllvm.Rd |only man/simulate.gllvm.Rd | 4 src/distrib.h | 19 src/gllvm.cpp | 3980 +++++++++++++++++++++++---------------- src/init.h |only src/poissonbinom.h |only src/utils.h | 76 tests/testthat/test-fitgllvm.R | 128 - vignettes/eigencheck-1.png |only vignettes/ex2-1.png |only vignettes/ex2reltol-1.png |only vignettes/grad1-1.png |only vignettes/identifypar-1.png |only vignettes/profilelogL-1.png |only vignettes/vignette1.Rmd | 30 vignettes/vignette10.Rmd |only vignettes/vignette6.Rmd | 2 vignettes/vignette7.Rmd | 8 vignettes/vignette8.Rmd | 72 92 files changed, 8683 insertions(+), 4671 deletions(-)
Title: Query the 'PurpleAir' Application Programming Interface
Description: Send requests to the 'PurpleAir' Application Programming Interface (API; <https://community.purpleair.com/c/data/api/18>). Check a 'PurpleAir' API key and get information about the related organization. Download real-time data from a single 'PurpleAir' sensor or many sensors by sensor identifier, geographical bounding box, or time since modified. Download historical data from a single sensor. Stream real time data from monitors on a local area network.
Author: Cole Brokamp [aut, cre, cph]
Maintainer: Cole Brokamp <cole@colebrokamp.com>
Diff between PurpleAir versions 1.1.0 dated 2025-09-22 and 1.1.1 dated 2026-05-10
DESCRIPTION | 6 - MD5 | 35 ++++---- NEWS.md | 16 +++ R/check_api_key.R | 15 +-- R/get_organization_data.R | 4 R/get_sensor_data.R | 6 - R/get_sensor_history.R | 50 ++++++++---- R/get_sensors_data.R | 29 +++++-- R/purple_air_request.R | 7 + R/validate_args.R |only README.md | 127 +++++++++++++++---------------- man/check_api_key.Rd | 12 +- man/get_organization_data.Rd | 5 - man/get_sensor_data.Rd | 9 -- man/get_sensor_history.Rd | 4 man/get_sensors_data.Rd | 4 tests/testthat/test-get_sensor_data.R | 11 ++ tests/testthat/test-get_sensor_history.R | 44 ++++++++++ tests/testthat/test-get_sensors_data.R | 19 ++++ 19 files changed, 257 insertions(+), 146 deletions(-)
Title: Tidy and Geospatial Kernel Smoothing
Description: Extensions of the kernel smoothing functions from the 'ks' package for compatibility with the tidyverse and geospatial ecosystems <doi:10.1007/s00180-024-01543-9>.
Author: Tarn Duong [aut, cre]
Maintainer: Tarn Duong <tarn.duong@gmail.com>
Diff between eks versions 1.1.2 dated 2025-12-08 and 1.1.3 dated 2026-05-10
eks-1.1.2/eks/inst/doc/tidysf_kde.R |only eks-1.1.2/eks/inst/doc/tidysf_kde.Rmd |only eks-1.1.2/eks/inst/doc/tidysf_kde.html |only eks-1.1.2/eks/vignettes/tidysf_kde.Rmd |only eks-1.1.3/eks/CHANGELOG | 5 ++ eks-1.1.3/eks/DESCRIPTION | 17 ++++--- eks-1.1.3/eks/MD5 | 65 +++++++++++++++-------------- eks-1.1.3/eks/NAMESPACE | 5 -- eks-1.1.3/eks/R/prelim.R | 4 - eks-1.1.3/eks/R/sf-ks-prelim.R | 51 +++++++++------------- eks-1.1.3/eks/R/sf-ks.R | 38 +++++++++------- eks-1.1.3/eks/R/tidy-ks-prelim.R | 18 ++++---- eks-1.1.3/eks/R/tidy-ks.R | 35 ++++++++++++++- eks-1.1.3/eks/README.md |only eks-1.1.3/eks/build/vignette.rds |binary eks-1.1.3/eks/inst/doc/eks.R |only eks-1.1.3/eks/inst/doc/eks.Rmd |only eks-1.1.3/eks/inst/doc/eks.html |only eks-1.1.3/eks/inst/pkgdown.yml |only eks-1.1.3/eks/man/ales_grid.Rd | 2 eks-1.1.3/eks/man/contour.Rd | 3 - eks-1.1.3/eks/man/eks-package.Rd | 6 +- eks-1.1.3/eks/man/grevillea.Rd | 4 - eks-1.1.3/eks/man/theme_sf.Rd |only eks-1.1.3/eks/man/tidyst_intergrid.Rd | 4 - eks-1.1.3/eks/man/tidyst_kcde.Rd | 2 eks-1.1.3/eks/man/tidyst_kcurv.Rd | 3 - eks-1.1.3/eks/man/tidyst_kda.Rd | 6 +- eks-1.1.3/eks/man/tidyst_kdde.Rd | 3 - eks-1.1.3/eks/man/tidyst_kde.Rd | 7 +-- eks-1.1.3/eks/man/tidyst_kde_balloon.Rd | 2 eks-1.1.3/eks/man/tidyst_kde_boundary.Rd | 5 -- eks-1.1.3/eks/man/tidyst_kde_local_test.Rd | 21 +++++---- eks-1.1.3/eks/man/tidyst_kdr.Rd | 2 eks-1.1.3/eks/man/tidyst_kfs.Rd | 3 - eks-1.1.3/eks/man/tidyst_kms.Rd | 2 eks-1.1.3/eks/man/tidyst_kquiver.Rd | 2 eks-1.1.3/eks/man/tidyst_ksupp.Rd | 2 eks-1.1.3/eks/vignettes/eks.Rmd |only 39 files changed, 175 insertions(+), 142 deletions(-)
Title: 'React Router' for 'shiny' Apps and 'Quarto'
Description: Provides a wrapper around the 'react-router-dom' 'React' library for use in
'Shiny' applications and 'Quarto' documents. Enables client-side routing with hash,
memory, and browser history strategies, nested routes, dynamic segments, data loaders,
actions, and navigation hooks.
Author: Felix Luginbuhl [aut, cre, cph] ,
Andryas Waurzenczak [ctb]
Maintainer: Felix Luginbuhl <felix.luginbuhl@protonmail.ch>
Diff between reactRouter versions 0.1.1 dated 2025-07-23 and 0.2.0 dated 2026-05-10
reactRouter-0.1.1/reactRouter/build |only reactRouter-0.1.1/reactRouter/inst/doc |only reactRouter-0.1.1/reactRouter/inst/examples/dynamic-segment/manifest.json |only reactRouter-0.1.1/reactRouter/inst/examples/shiny.fluent |only reactRouter-0.1.1/reactRouter/inst/reactRouter-6.30.0 |only reactRouter-0.1.1/reactRouter/man/figures/reactRouter-with-bslib.png |only reactRouter-0.1.1/reactRouter/man/figures/reactRouter-with-shinyMaterialUI.png |only reactRouter-0.1.1/reactRouter/vignettes |only reactRouter-0.2.0/reactRouter/DESCRIPTION | 35 - reactRouter-0.2.0/reactRouter/MD5 | 211 +++++- reactRouter-0.2.0/reactRouter/NAMESPACE | 41 + reactRouter-0.2.0/reactRouter/NEWS.md | 55 + reactRouter-0.2.0/reactRouter/R/RouterProvider.R |only reactRouter-0.2.0/reactRouter/R/browser.R |only reactRouter-0.2.0/reactRouter/R/components.R | 263 ++++++-- reactRouter-0.2.0/reactRouter/R/dependencies.R | 18 reactRouter-0.2.0/reactRouter/R/helpers.R |only reactRouter-0.2.0/reactRouter/R/hooks.R |only reactRouter-0.2.0/reactRouter/R/inputs.R | 67 +- reactRouter-0.2.0/reactRouter/R/reactRouterExample.R | 36 - reactRouter-0.2.0/reactRouter/README.md | 137 +++- reactRouter-0.2.0/reactRouter/inst/examples/Await |only reactRouter-0.2.0/reactRouter/inst/examples/Form |only reactRouter-0.2.0/reactRouter/inst/examples/MemoryRouter |only reactRouter-0.2.0/reactRouter/inst/examples/README.md |only reactRouter-0.2.0/reactRouter/inst/examples/RouterProvider |only reactRouter-0.2.0/reactRouter/inst/examples/ScrollRestoration |only reactRouter-0.2.0/reactRouter/inst/examples/basic/app.R | 73 +- reactRouter-0.2.0/reactRouter/inst/examples/bslib/app.R | 51 - reactRouter-0.2.0/reactRouter/inst/examples/createHashRouter |only reactRouter-0.2.0/reactRouter/inst/examples/createMemoryRouter |only reactRouter-0.2.0/reactRouter/inst/examples/dataResponse |only reactRouter-0.2.0/reactRouter/inst/examples/dynamic-segment/app.R | 302 +--------- reactRouter-0.2.0/reactRouter/inst/examples/redirect |only reactRouter-0.2.0/reactRouter/inst/examples/redirectDocument |only reactRouter-0.2.0/reactRouter/inst/examples/replaceResponse |only reactRouter-0.2.0/reactRouter/inst/examples/setSearchParams |only reactRouter-0.2.0/reactRouter/inst/examples/shouldRevalidate |only reactRouter-0.2.0/reactRouter/inst/examples/useAsyncError |only reactRouter-0.2.0/reactRouter/inst/examples/useAsyncValue |only reactRouter-0.2.0/reactRouter/inst/examples/useBlocker |only reactRouter-0.2.0/reactRouter/inst/examples/useFetcher |only reactRouter-0.2.0/reactRouter/inst/examples/useFetchers |only reactRouter-0.2.0/reactRouter/inst/examples/useInRouterContext |only reactRouter-0.2.0/reactRouter/inst/examples/useLinkClickHandler |only reactRouter-0.2.0/reactRouter/inst/examples/useLoaderData |only reactRouter-0.2.0/reactRouter/inst/examples/useLoaderData-api |only reactRouter-0.2.0/reactRouter/inst/examples/useLocation |only reactRouter-0.2.0/reactRouter/inst/examples/useNavigate |only reactRouter-0.2.0/reactRouter/inst/examples/useNavigation |only reactRouter-0.2.0/reactRouter/inst/examples/useOutlet |only reactRouter-0.2.0/reactRouter/inst/examples/useOutletContext |only reactRouter-0.2.0/reactRouter/inst/examples/useParams |only reactRouter-0.2.0/reactRouter/inst/examples/useRevalidator |only reactRouter-0.2.0/reactRouter/inst/examples/useRouteError |only reactRouter-0.2.0/reactRouter/inst/examples/useRoutes |only reactRouter-0.2.0/reactRouter/inst/examples/useSearchParams |only reactRouter-0.2.0/reactRouter/inst/examples/useSubmit |only reactRouter-0.2.0/reactRouter/inst/examples/useViewTransitionState |only reactRouter-0.2.0/reactRouter/inst/reactRouter |only reactRouter-0.2.0/reactRouter/man/Await.Rd |only reactRouter-0.2.0/reactRouter/man/BrowserRouter.Rd | 2 reactRouter-0.2.0/reactRouter/man/Form.Rd |only reactRouter-0.2.0/reactRouter/man/HashRouter.Rd | 2 reactRouter-0.2.0/reactRouter/man/Link.Rd | 43 + reactRouter-0.2.0/reactRouter/man/MemoryRouter.Rd | 2 reactRouter-0.2.0/reactRouter/man/NavLink.Rd | 31 - reactRouter-0.2.0/reactRouter/man/Navigate.Rd | 2 reactRouter-0.2.0/reactRouter/man/Outlet.Rd | 2 reactRouter-0.2.0/reactRouter/man/Route.Rd | 70 ++ reactRouter-0.2.0/reactRouter/man/RouterProvider.Rd |only reactRouter-0.2.0/reactRouter/man/Routes.Rd | 2 reactRouter-0.2.0/reactRouter/man/ScrollRestoration.Rd |only reactRouter-0.2.0/reactRouter/man/createBrowserRouter.Rd |only reactRouter-0.2.0/reactRouter/man/createHashRouter.Rd |only reactRouter-0.2.0/reactRouter/man/createMemoryRouter.Rd |only reactRouter-0.2.0/reactRouter/man/createRoutesFromElements.Rd |only reactRouter-0.2.0/reactRouter/man/dataResponse.Rd |only reactRouter-0.2.0/reactRouter/man/hook-wrapper-noselector.Rd |only reactRouter-0.2.0/reactRouter/man/isRouteErrorResponse.Rd |only reactRouter-0.2.0/reactRouter/man/print.reactRouter.Rd |only reactRouter-0.2.0/reactRouter/man/reactRouterExample.Rd | 12 reactRouter-0.2.0/reactRouter/man/reactRouterHelpers.Rd |only reactRouter-0.2.0/reactRouter/man/redirect.Rd |only reactRouter-0.2.0/reactRouter/man/redirectDocument.Rd |only reactRouter-0.2.0/reactRouter/man/replaceResponse.Rd |only reactRouter-0.2.0/reactRouter/man/useActionData.Rd |only reactRouter-0.2.0/reactRouter/man/useAsyncError.Rd |only reactRouter-0.2.0/reactRouter/man/useAsyncValue.Rd |only reactRouter-0.2.0/reactRouter/man/useBlocker.Rd |only reactRouter-0.2.0/reactRouter/man/useFetcher.Rd |only reactRouter-0.2.0/reactRouter/man/useFetchers.Rd |only reactRouter-0.2.0/reactRouter/man/useHref.Rd |only reactRouter-0.2.0/reactRouter/man/useInRouterContext.Rd |only reactRouter-0.2.0/reactRouter/man/useLinkClickHandler.Rd |only reactRouter-0.2.0/reactRouter/man/useLoaderData.Rd |only reactRouter-0.2.0/reactRouter/man/useLocation.Rd |only reactRouter-0.2.0/reactRouter/man/useMatch.Rd |only reactRouter-0.2.0/reactRouter/man/useMatches.Rd |only reactRouter-0.2.0/reactRouter/man/useNavigate.Rd |only reactRouter-0.2.0/reactRouter/man/useNavigation.Rd |only reactRouter-0.2.0/reactRouter/man/useNavigationType.Rd |only reactRouter-0.2.0/reactRouter/man/useOutlet.Rd |only reactRouter-0.2.0/reactRouter/man/useOutletContext.Rd |only reactRouter-0.2.0/reactRouter/man/useParams.Rd |only reactRouter-0.2.0/reactRouter/man/useResolvedPath.Rd |only reactRouter-0.2.0/reactRouter/man/useRevalidator.Rd |only reactRouter-0.2.0/reactRouter/man/useRouteError.Rd |only reactRouter-0.2.0/reactRouter/man/useRouteLoaderData.Rd |only reactRouter-0.2.0/reactRouter/man/useRoutes.Rd |only reactRouter-0.2.0/reactRouter/man/useSearchParams.Rd |only reactRouter-0.2.0/reactRouter/man/useSubmit.Rd |only reactRouter-0.2.0/reactRouter/man/useViewTransitionState.Rd |only reactRouter-0.2.0/reactRouter/tests/testthat/test-Await.R |only reactRouter-0.2.0/reactRouter/tests/testthat/test-BrowserRouter.R |only reactRouter-0.2.0/reactRouter/tests/testthat/test-HashRouter.R | 54 - reactRouter-0.2.0/reactRouter/tests/testthat/test-Link.R |only reactRouter-0.2.0/reactRouter/tests/testthat/test-MemoryRouter.R |only reactRouter-0.2.0/reactRouter/tests/testthat/test-Navigate.R |only reactRouter-0.2.0/reactRouter/tests/testthat/test-UseBlocker.R |only reactRouter-0.2.0/reactRouter/tests/testthat/test-UseFetcher.R |only reactRouter-0.2.0/reactRouter/tests/testthat/test-UseFetchers.R |only reactRouter-0.2.0/reactRouter/tests/testthat/test-UseLoaderData.R |only reactRouter-0.2.0/reactRouter/tests/testthat/test-UseLocation.R |only reactRouter-0.2.0/reactRouter/tests/testthat/test-UseMatch.R |only reactRouter-0.2.0/reactRouter/tests/testthat/test-UseMatchesActionData.R |only reactRouter-0.2.0/reactRouter/tests/testthat/test-UseNavigation.R |only reactRouter-0.2.0/reactRouter/tests/testthat/test-UseNavigationType.R |only reactRouter-0.2.0/reactRouter/tests/testthat/test-UseOutletContext.R |only reactRouter-0.2.0/reactRouter/tests/testthat/test-UseParams.R |only reactRouter-0.2.0/reactRouter/tests/testthat/test-UseResolvedPath.R |only reactRouter-0.2.0/reactRouter/tests/testthat/test-UseRevalidator.R |only reactRouter-0.2.0/reactRouter/tests/testthat/test-UseRouteError.R |only reactRouter-0.2.0/reactRouter/tests/testthat/test-UseRouteLoaderData.R |only reactRouter-0.2.0/reactRouter/tests/testthat/test-UseSearchParams.R |only reactRouter-0.2.0/reactRouter/tests/testthat/test-apps/Await |only reactRouter-0.2.0/reactRouter/tests/testthat/test-apps/BrowserRouter |only reactRouter-0.2.0/reactRouter/tests/testthat/test-apps/HashRouter/App.R | 48 - reactRouter-0.2.0/reactRouter/tests/testthat/test-apps/Link |only reactRouter-0.2.0/reactRouter/tests/testthat/test-apps/MemoryRouter |only reactRouter-0.2.0/reactRouter/tests/testthat/test-apps/Navigate |only reactRouter-0.2.0/reactRouter/tests/testthat/test-apps/UseBlocker |only reactRouter-0.2.0/reactRouter/tests/testthat/test-apps/UseFetcher |only reactRouter-0.2.0/reactRouter/tests/testthat/test-apps/UseFetchers |only reactRouter-0.2.0/reactRouter/tests/testthat/test-apps/UseHrefResolvedPath |only reactRouter-0.2.0/reactRouter/tests/testthat/test-apps/UseLoaderData |only reactRouter-0.2.0/reactRouter/tests/testthat/test-apps/UseLocation |only reactRouter-0.2.0/reactRouter/tests/testthat/test-apps/UseMatch |only reactRouter-0.2.0/reactRouter/tests/testthat/test-apps/UseMatchesActionData |only reactRouter-0.2.0/reactRouter/tests/testthat/test-apps/UseNavigation |only reactRouter-0.2.0/reactRouter/tests/testthat/test-apps/UseNavigationType |only reactRouter-0.2.0/reactRouter/tests/testthat/test-apps/UseOutletContext |only reactRouter-0.2.0/reactRouter/tests/testthat/test-apps/UseParams |only reactRouter-0.2.0/reactRouter/tests/testthat/test-apps/UseRevalidator |only reactRouter-0.2.0/reactRouter/tests/testthat/test-apps/UseRouteError |only reactRouter-0.2.0/reactRouter/tests/testthat/test-apps/UseRouteLoaderData |only reactRouter-0.2.0/reactRouter/tests/testthat/test-apps/UseSearchParams |only reactRouter-0.2.0/reactRouter/tests/testthat/test-helpers.R |only reactRouter-0.2.0/reactRouter/tests/testthat/test-validation.R |only 159 files changed, 964 insertions(+), 595 deletions(-)
Title: Fit Neutral Community Model to Microbiome or Ecological Data
Description: Provides tools for fitting the neutral community model (NCM) to
assess the role of stochastic processes in community assembly. The package
implements the framework of Sloan et al. (2006) <doi:10.1111/j.1462-2920.2005.00956.x>,
enabling users to evaluate neutral dynamics in ecological and microbial communities.
Author: Yuxuan He [aut, cre, cph]
Maintainer: Yuxuan He <heyuxuan0525@outlook.com>
Diff between ncmR versions 0.2.0 dated 2026-04-19 and 0.3.1 dated 2026-05-10
ncmR-0.2.0/ncmR/man/ggsave_unicode.Rd |only ncmR-0.2.0/ncmR/man/print.unicode_ggplot.Rd |only ncmR-0.3.1/ncmR/DESCRIPTION | 9 - ncmR-0.3.1/ncmR/MD5 | 19 +-- ncmR-0.3.1/ncmR/NAMESPACE | 8 + ncmR-0.3.1/ncmR/NEWS.md | 21 +++ ncmR-0.3.1/ncmR/R/fit_ncm.R | 17 ++ ncmR-0.3.1/ncmR/R/plot.R | 164 +++++++--------------------- ncmR-0.3.1/ncmR/R/run_app.R |only ncmR-0.3.1/ncmR/README.md | 8 + ncmR-0.3.1/ncmR/inst |only ncmR-0.3.1/ncmR/man/run_app.Rd |only 12 files changed, 104 insertions(+), 142 deletions(-)
Title: Interface to 'TA-Lib' for Technical Analysis and Candlestick
Patterns
Description: Interface to the 'TA-Lib' (Technical Analysis Library) 'C'
library, providing access to 150+ indicators (e.g. Average Directional
Movement Index (ADX), Moving Average Convergence Divergence (MACD),
Relative Strength Index (RSI), Stochastic Oscillator, Bollinger Bands),
candlestick pattern recognition, and rolling-window utilities. Core
computations are implemented in 'C' for fast Open-High-Low-Close-Volume
(OHLCV) time-series feature engineering and rule-based signal
generation, with optional interactive visualization via 'plotly'.
Author: Serkan Korkmaz [cre, aut, cph] ,
Mario Fortier [cph] )
Maintainer: Serkan Korkmaz <serkor1@duck.com>
Diff between talib versions 0.9-1 dated 2026-04-23 and 0.9-2 dated 2026-05-10
DESCRIPTION | 8 MD5 | 788 +++++++++--------- NEWS.md | 8 R/chart_theme.R | 10 R/series.R | 320 ++++--- R/ta_ACCBANDS.R | 6 R/ta_AD.R | 6 R/ta_ADOSC.R | 6 R/ta_ADX.R | 6 R/ta_ADXR.R | 6 R/ta_APO.R | 6 R/ta_AROON.R | 6 R/ta_AROONOSC.R | 6 R/ta_ATR.R | 6 R/ta_AVGPRICE.R | 2 R/ta_BBANDS.R | 6 R/ta_BOP.R | 6 R/ta_CCI.R | 6 R/ta_CDL2CROWS.R | 6 R/ta_CDL3BLACKCROWS.R | 6 R/ta_CDL3INSIDE.R | 6 R/ta_CDL3LINESTRIKE.R | 6 R/ta_CDL3OUTSIDE.R | 6 R/ta_CDL3STARSINSOUTH.R | 6 R/ta_CDL3WHITESOLDIERS.R | 6 R/ta_CDLABANDONEDBABY.R | 6 R/ta_CDLADVANCEBLOCK.R | 6 R/ta_CDLBELTHOLD.R | 6 R/ta_CDLBREAKAWAY.R | 6 R/ta_CDLCLOSINGMARUBOZU.R | 6 R/ta_CDLCONCEALBABYSWALL.R | 6 R/ta_CDLCOUNTERATTACK.R | 6 R/ta_CDLDARKCLOUDCOVER.R | 6 R/ta_CDLDOJI.R | 6 R/ta_CDLDOJISTAR.R | 6 R/ta_CDLDRAGONFLYDOJI.R | 6 R/ta_CDLENGULFING.R | 6 R/ta_CDLEVENINGDOJISTAR.R | 6 R/ta_CDLEVENINGSTAR.R | 6 R/ta_CDLGAPSIDESIDEWHITE.R | 6 R/ta_CDLGRAVESTONEDOJI.R | 6 R/ta_CDLHAMMER.R | 6 R/ta_CDLHANGINGMAN.R | 6 R/ta_CDLHARAMI.R | 6 R/ta_CDLHARAMICROSS.R | 6 R/ta_CDLHIGHWAVE.R | 6 R/ta_CDLHIKKAKE.R | 6 R/ta_CDLHIKKAKEMOD.R | 6 R/ta_CDLHOMINGPIGEON.R | 6 R/ta_CDLIDENTICAL3CROWS.R | 6 R/ta_CDLINNECK.R | 6 R/ta_CDLINVERTEDHAMMER.R | 6 R/ta_CDLKICKING.R | 6 R/ta_CDLKICKINGBYLENGTH.R | 6 R/ta_CDLLADDERBOTTOM.R | 6 R/ta_CDLLONGLEGGEDDOJI.R | 6 R/ta_CDLLONGLINE.R | 6 R/ta_CDLMARUBOZU.R | 6 R/ta_CDLMATCHINGLOW.R | 6 R/ta_CDLMATHOLD.R | 6 R/ta_CDLMORNINGDOJISTAR.R | 6 R/ta_CDLMORNINGSTAR.R | 6 R/ta_CDLONNECK.R | 6 R/ta_CDLPIERCING.R | 6 R/ta_CDLRICKSHAWMAN.R | 6 R/ta_CDLRISEFALL3METHODS.R | 6 R/ta_CDLSEPARATINGLINES.R | 6 R/ta_CDLSHOOTINGSTAR.R | 6 R/ta_CDLSHORTLINE.R | 6 R/ta_CDLSPINNINGTOP.R | 6 R/ta_CDLSTALLEDPATTERN.R | 6 R/ta_CDLSTICKSANDWICH.R | 6 R/ta_CDLTAKURI.R | 6 R/ta_CDLTASUKIGAP.R | 6 R/ta_CDLTHRUSTING.R | 6 R/ta_CDLTRISTAR.R | 6 R/ta_CDLUNIQUE3RIVER.R | 6 R/ta_CDLUPSIDEGAP2CROWS.R | 6 R/ta_CDLXSIDEGAP3METHODS.R | 6 R/ta_CMO.R | 6 R/ta_DEMA.R | 6 R/ta_DX.R | 6 R/ta_EMA.R | 6 R/ta_HT_DCPERIOD.R | 6 R/ta_HT_DCPHASE.R | 6 R/ta_HT_PHASOR.R | 6 R/ta_HT_SINE.R | 6 R/ta_HT_TRENDLINE.R | 6 R/ta_HT_TRENDMODE.R | 6 R/ta_IMI.R | 6 R/ta_KAMA.R | 6 R/ta_MACD.R | 6 R/ta_MACDEXT.R | 6 R/ta_MACDFIX.R | 6 R/ta_MAMA.R | 6 R/ta_MEDPRICE.R | 2 R/ta_MFI.R | 6 R/ta_MIDPRICE.R | 2 R/ta_MINUS_DI.R | 6 R/ta_MINUS_DM.R | 6 R/ta_MOM.R | 6 R/ta_NATR.R | 6 R/ta_OBV.R | 6 R/ta_PLUS_DI.R | 6 R/ta_PLUS_DM.R | 6 R/ta_PPO.R | 6 R/ta_ROC.R | 6 R/ta_ROCR.R | 6 R/ta_RSI.R | 6 R/ta_SAR.R | 6 R/ta_SAREXT.R | 6 R/ta_SMA.R | 6 R/ta_STOCH.R | 6 R/ta_STOCHF.R | 6 R/ta_STOCHRSI.R | 6 R/ta_T3.R | 6 R/ta_TEMA.R | 6 R/ta_TRANGE.R | 6 R/ta_TRIMA.R | 6 R/ta_TRIX.R | 6 R/ta_TYPPRICE.R | 2 R/ta_ULTOSC.R | 6 R/ta_VOLUME.R | 6 R/ta_WCLPRICE.R | 2 R/ta_WILLR.R | 6 R/ta_WMA.R | 6 README.md | 5 build/vignette.rds |binary configure | 221 +++-- configure.win | 59 + inst/doc/candlestick.html | 8 inst/doc/charting.html | 92 +- inst/doc/talib.html | 4 man/abandoned_baby.Rd | 122 +- man/absolute_price_oscillator.Rd | 58 - man/acceleration_bands.Rd | 28 man/advance_block.Rd | 122 +- man/aroon.Rd | 58 - man/aroon_oscillator.Rd | 58 - man/average_directional_movement_index.Rd | 58 - man/average_directional_movement_index_rating.Rd | 58 - man/average_price.Rd | 10 man/average_true_range.Rd | 6 man/balance_of_power.Rd | 58 - man/belt_hold.Rd | 122 +- man/bollinger_bands.Rd | 28 man/break_away.Rd | 122 +- man/chaikin_accumulation_distribution_line.Rd | 8 man/chaikin_accumulation_distribution_oscillator.Rd | 8 man/chande_momentum_oscillator.Rd | 58 - man/chart.Rd | 6 man/chart_themes.Rd | 15 man/closing_marubozu.Rd | 122 +- man/commodity_channel_index.Rd | 58 - man/concealing_baby_swallow.Rd | 122 +- man/counter_attack.Rd | 122 +- man/dark_cloud_cover.Rd | 122 +- man/directional_movement_index.Rd | 58 - man/doji.Rd | 122 +- man/doji_star.Rd | 122 +- man/dominant_cycle_period.Rd | 10 man/dominant_cycle_phase.Rd | 10 man/double_exponential_moving_average.Rd | 28 man/dragonfly_doji.Rd | 122 +- man/engulfing.Rd | 122 +- man/evening_doji_star.Rd | 122 +- man/evening_star.Rd | 122 +- man/exponential_moving_average.Rd | 28 man/extended_moving_average_convergence_divergence.Rd | 58 - man/extended_parabolic_stop_and_reverse.Rd | 28 man/fast_stochastic.Rd | 58 - man/fixed_moving_average_convergence_divergence.Rd | 58 - man/gaps_side_white.Rd | 122 +- man/gravestone_doji.Rd | 122 +- man/hammer.Rd | 122 +- man/hanging_man.Rd | 122 +- man/harami.Rd | 122 +- man/harami_cross.Rd | 122 +- man/high_wave.Rd | 122 +- man/hikakke.Rd | 122 +- man/hikakke_mod.Rd | 122 +- man/homing_pigeon.Rd | 122 +- man/in_neck.Rd | 122 +- man/indicator.Rd | 6 man/intraday_movement_index.Rd | 58 - man/inverted_hammer.Rd | 122 +- man/kaufman_adaptive_moving_average.Rd | 28 man/kicking.Rd | 122 +- man/kicking_baby_length.Rd | 122 +- man/ladder_bottom.Rd | 122 +- man/long_legged_doji.Rd | 122 +- man/long_line.Rd | 122 +- man/marubozu.Rd | 122 +- man/mat_hold.Rd | 122 +- man/matching_low.Rd | 122 +- man/median_price.Rd | 10 man/mesa_adaptive_moving_average.Rd | 28 man/midpoint_price.Rd | 10 man/minus_directional_indicator.Rd | 58 - man/minus_directional_movement.Rd | 58 - man/momentum.Rd | 58 - man/money_flow_index.Rd | 58 - man/morning_doji_star.Rd | 122 +- man/morning_star.Rd | 122 +- man/moving_average_convergence_divergence.Rd | 58 - man/normalized_average_true_range.Rd | 6 man/on_balance_volume.Rd | 8 man/on_neck.Rd | 122 +- man/parabolic_stop_and_reverse.Rd | 28 man/percentage_price_oscillator.Rd | 58 - man/phasor_components.Rd | 10 man/piercing.Rd | 122 +- man/plus_directional_indicator.Rd | 58 - man/plus_directional_movement.Rd | 58 - man/rate_of_change.Rd | 58 - man/ratio_of_change.Rd | 58 - man/relative_strength_index.Rd | 58 - man/rickshaw_man.Rd | 122 +- man/rise_fall_3_methods.Rd | 122 +- man/rolling_beta.Rd | 14 man/rolling_correlation.Rd | 14 man/rolling_max.Rd | 14 man/rolling_min.Rd | 14 man/rolling_standard_deviation.Rd | 14 man/rolling_sum.Rd | 14 man/rolling_variance.Rd | 14 man/separating_lines.Rd | 122 +- man/set_theme.Rd | 9 man/shooting_star.Rd | 122 +- man/short_line.Rd | 122 +- man/simple_moving_average.Rd | 28 man/sine_wave.Rd | 10 man/spinning_top.Rd | 122 +- man/stalled_pattern.Rd | 122 +- man/stick_sandwich.Rd | 122 +- man/stochastic.Rd | 58 - man/stochastic_relative_strength_index.Rd | 58 - man/t3_exponential_moving_average.Rd | 28 man/takuri.Rd | 122 +- man/tasuki_gap.Rd | 122 +- man/three_black_crows.Rd | 122 +- man/three_identical_crows.Rd | 122 +- man/three_inside.Rd | 122 +- man/three_line_strike.Rd | 122 +- man/three_outside.Rd | 122 +- man/three_stars_in_the_south.Rd | 122 +- man/three_white_soldiers.Rd | 122 +- man/thrusting.Rd | 122 +- man/trading_volume.Rd | 8 man/trend_cycle_mode.Rd | 10 man/trendline.Rd | 28 man/triangular_moving_average.Rd | 28 man/triple_exponential_average.Rd | 58 - man/triple_exponential_moving_average.Rd | 28 man/tristar.Rd | 122 +- man/true_range.Rd | 6 man/two_crows.Rd | 122 +- man/typical_price.Rd | 10 man/ultimate_oscillator.Rd | 58 - man/unique_3_river.Rd | 122 +- man/upside_gap_2_crows.Rd | 122 +- man/weighted_close_price.Rd | 10 man/weighted_moving_average.Rd | 28 man/williams_oscillator.Rd | 58 - man/xside_gap_3_methods.Rd | 122 +- src/dataframe.c | 17 tests/parity/snapshot/ACCBANDS.rds |binary tests/parity/snapshot/AD.rds |binary tests/parity/snapshot/ADOSC.rds |binary tests/parity/snapshot/ADX.rds |binary tests/parity/snapshot/ADXR.rds |binary tests/parity/snapshot/APO.rds |binary tests/parity/snapshot/AROON.rds |binary tests/parity/snapshot/AROONOSC.rds |binary tests/parity/snapshot/ATR.rds |binary tests/parity/snapshot/AVGPRICE.rds |binary tests/parity/snapshot/BBANDS.rds |binary tests/parity/snapshot/BETA.rds |binary tests/parity/snapshot/BOP.rds |binary tests/parity/snapshot/CCI.rds |binary tests/parity/snapshot/CDL2CROWS.rds |binary tests/parity/snapshot/CDL3BLACKCROWS.rds |binary tests/parity/snapshot/CDL3INSIDE.rds |binary tests/parity/snapshot/CDL3LINESTRIKE.rds |binary tests/parity/snapshot/CDL3OUTSIDE.rds |binary tests/parity/snapshot/CDL3STARSINSOUTH.rds |binary tests/parity/snapshot/CDL3WHITESOLDIERS.rds |binary tests/parity/snapshot/CDLABANDONEDBABY.rds |binary tests/parity/snapshot/CDLADVANCEBLOCK.rds |binary tests/parity/snapshot/CDLBELTHOLD.rds |binary tests/parity/snapshot/CDLBREAKAWAY.rds |binary tests/parity/snapshot/CDLCLOSINGMARUBOZU.rds |binary tests/parity/snapshot/CDLCONCEALBABYSWALL.rds |binary tests/parity/snapshot/CDLCOUNTERATTACK.rds |binary tests/parity/snapshot/CDLDARKCLOUDCOVER.rds |binary tests/parity/snapshot/CDLDOJI.rds |binary tests/parity/snapshot/CDLDOJISTAR.rds |binary tests/parity/snapshot/CDLDRAGONFLYDOJI.rds |binary tests/parity/snapshot/CDLENGULFING.rds |binary tests/parity/snapshot/CDLEVENINGDOJISTAR.rds |binary tests/parity/snapshot/CDLEVENINGSTAR.rds |binary tests/parity/snapshot/CDLGAPSIDESIDEWHITE.rds |binary tests/parity/snapshot/CDLGRAVESTONEDOJI.rds |binary tests/parity/snapshot/CDLHAMMER.rds |binary tests/parity/snapshot/CDLHANGINGMAN.rds |binary tests/parity/snapshot/CDLHARAMI.rds |binary tests/parity/snapshot/CDLHARAMICROSS.rds |binary tests/parity/snapshot/CDLHIGHWAVE.rds |binary tests/parity/snapshot/CDLHIKKAKE.rds |binary tests/parity/snapshot/CDLHIKKAKEMOD.rds |binary tests/parity/snapshot/CDLHOMINGPIGEON.rds |binary tests/parity/snapshot/CDLIDENTICAL3CROWS.rds |binary tests/parity/snapshot/CDLINNECK.rds |binary tests/parity/snapshot/CDLINVERTEDHAMMER.rds |binary tests/parity/snapshot/CDLKICKING.rds |binary tests/parity/snapshot/CDLKICKINGBYLENGTH.rds |binary tests/parity/snapshot/CDLLADDERBOTTOM.rds |binary tests/parity/snapshot/CDLLONGLEGGEDDOJI.rds |binary tests/parity/snapshot/CDLLONGLINE.rds |binary tests/parity/snapshot/CDLMARUBOZU.rds |binary tests/parity/snapshot/CDLMATCHINGLOW.rds |binary tests/parity/snapshot/CDLMATHOLD.rds |binary tests/parity/snapshot/CDLMORNINGDOJISTAR.rds |binary tests/parity/snapshot/CDLMORNINGSTAR.rds |binary tests/parity/snapshot/CDLONNECK.rds |binary tests/parity/snapshot/CDLPIERCING.rds |binary tests/parity/snapshot/CDLRICKSHAWMAN.rds |binary tests/parity/snapshot/CDLRISEFALL3METHODS.rds |binary tests/parity/snapshot/CDLSEPARATINGLINES.rds |binary tests/parity/snapshot/CDLSHOOTINGSTAR.rds |binary tests/parity/snapshot/CDLSHORTLINE.rds |binary tests/parity/snapshot/CDLSPINNINGTOP.rds |binary tests/parity/snapshot/CDLSTALLEDPATTERN.rds |binary tests/parity/snapshot/CDLSTICKSANDWICH.rds |binary tests/parity/snapshot/CDLTAKURI.rds |binary tests/parity/snapshot/CDLTASUKIGAP.rds |binary tests/parity/snapshot/CDLTHRUSTING.rds |binary tests/parity/snapshot/CDLTRISTAR.rds |binary tests/parity/snapshot/CDLUNIQUE3RIVER.rds |binary tests/parity/snapshot/CDLUPSIDEGAP2CROWS.rds |binary tests/parity/snapshot/CDLXSIDEGAP3METHODS.rds |binary tests/parity/snapshot/CMO.rds |binary tests/parity/snapshot/CORREL.rds |binary tests/parity/snapshot/DEMA.rds |binary tests/parity/snapshot/DX.rds |binary tests/parity/snapshot/EMA.rds |binary tests/parity/snapshot/HT_DCPERIOD.rds |binary tests/parity/snapshot/HT_DCPHASE.rds |binary tests/parity/snapshot/HT_PHASOR.rds |binary tests/parity/snapshot/HT_SINE.rds |binary tests/parity/snapshot/HT_TRENDLINE.rds |binary tests/parity/snapshot/HT_TRENDMODE.rds |binary tests/parity/snapshot/IMI.rds |binary tests/parity/snapshot/KAMA.rds |binary tests/parity/snapshot/MACD.rds |binary tests/parity/snapshot/MACDEXT.rds |binary tests/parity/snapshot/MACDFIX.rds |binary tests/parity/snapshot/MAMA.rds |binary tests/parity/snapshot/MAX.rds |binary tests/parity/snapshot/MEDPRICE.rds |binary tests/parity/snapshot/MFI.rds |binary tests/parity/snapshot/MIDPRICE.rds |binary tests/parity/snapshot/MIN.rds |binary tests/parity/snapshot/MINUS_DI.rds |binary tests/parity/snapshot/MINUS_DM.rds |binary tests/parity/snapshot/MOM.rds |binary tests/parity/snapshot/NATR.rds |binary tests/parity/snapshot/OBV.rds |binary tests/parity/snapshot/PLUS_DI.rds |binary tests/parity/snapshot/PLUS_DM.rds |binary tests/parity/snapshot/PPO.rds |binary tests/parity/snapshot/ROC.rds |binary tests/parity/snapshot/ROCR.rds |binary tests/parity/snapshot/RSI.rds |binary tests/parity/snapshot/SAR.rds |binary tests/parity/snapshot/SAREXT.rds |binary tests/parity/snapshot/SMA.rds |binary tests/parity/snapshot/STDDEV.rds |binary tests/parity/snapshot/STOCH.rds |binary tests/parity/snapshot/STOCHF.rds |binary tests/parity/snapshot/STOCHRSI.rds |binary tests/parity/snapshot/SUM.rds |binary tests/parity/snapshot/T3.rds |binary tests/parity/snapshot/TEMA.rds |binary tests/parity/snapshot/TRANGE.rds |binary tests/parity/snapshot/TRIMA.rds |binary tests/parity/snapshot/TRIX.rds |binary tests/parity/snapshot/TYPPRICE.rds |binary tests/parity/snapshot/ULTOSC.rds |binary tests/parity/snapshot/VAR.rds |binary tests/parity/snapshot/VOLUME.rds |binary tests/parity/snapshot/WCLPRICE.rds |binary tests/parity/snapshot/WILLR.rds |binary tests/parity/snapshot/WMA.rds |binary tests/testthat/test-series.R | 14 395 files changed, 6139 insertions(+), 5921 deletions(-)
Title: A Finer Way to Render 3D Illustrated Objects in 'grid' Using
Affine Transformations
Description: Dilate, permute, project, reflect, rotate, shear, and translate 2D and 3D points. Supports parallel projections including oblique projections such as the cabinet projection as well as axonometric projections such as the isometric projection. Use 'grid's "affine transformation" feature to render illustrated flat surfaces.
Author: Trevor L. Davis [aut, cre]
Maintainer: Trevor L. Davis <trevor.l.davis@gmail.com>
Diff between affiner versions 0.2.1 dated 2026-01-28 and 0.3.1 dated 2026-05-10
affiner-0.2.1/affiner/R/R_to_AA.r |only affiner-0.2.1/affiner/R/affine-methods.r |only affiner-0.2.1/affiner/R/affine.r |only affiner-0.2.1/affiner/R/affineGrob.r |only affiner-0.2.1/affiner/R/affiner-package.r |only affiner-0.2.1/affiner/R/affiner_options.r |only affiner-0.2.1/affiner/R/angle.r |only affiner-0.2.1/affiner/R/as_coord.r |only affiner-0.2.1/affiner/R/autolayer.r |only affiner-0.2.1/affiner/R/coord-methods.r |only affiner-0.2.1/affiner/R/coord.r |only affiner-0.2.1/affiner/R/distance.r |only affiner-0.2.1/affiner/R/has_intersection.r |only affiner-0.2.1/affiner/R/intersection.r |only affiner-0.2.1/affiner/R/is_congruent.r |only affiner-0.2.1/affiner/R/is_degenerate.r |only affiner-0.2.1/affiner/R/is_equivalent.r |only affiner-0.2.1/affiner/R/is_methods.r |only affiner-0.2.1/affiner/R/is_parallel.r |only affiner-0.2.1/affiner/R/isocubeGrob.r |only affiner-0.2.1/affiner/R/isotoxal_2ngon_inner_radius.r |only affiner-0.2.1/affiner/R/line_plane-methods.r |only affiner-0.2.1/affiner/R/line_plane.r |only affiner-0.2.1/affiner/R/normal.r |only affiner-0.2.1/affiner/R/plot.r |only affiner-0.2.1/affiner/R/roxygen2_inline.r |only affiner-0.2.1/affiner/R/standalone-affine-settings.r |only affiner-0.2.1/affiner/R/standardize.r |only affiner-0.2.1/affiner/R/trigonometry.r |only affiner-0.2.1/affiner/R/z-affine-settings-docs.r |only affiner-0.2.1/affiner/R/zzz.r |only affiner-0.2.1/affiner/tests/testthat/test-affine-settings.r |only affiner-0.2.1/affiner/tests/testthat/test-affine.r |only affiner-0.2.1/affiner/tests/testthat/test-affineGrob.r |only affiner-0.2.1/affiner/tests/testthat/test-affiner_options.r |only affiner-0.2.1/affiner/tests/testthat/test-angle.r |only affiner-0.2.1/affiner/tests/testthat/test-coord.r |only affiner-0.2.1/affiner/tests/testthat/test-distance.r |only affiner-0.2.1/affiner/tests/testthat/test-intersection.r |only affiner-0.2.1/affiner/tests/testthat/test-is_parallel.r |only affiner-0.2.1/affiner/tests/testthat/test-isocubeGrob.r |only affiner-0.2.1/affiner/tests/testthat/test-isotoxal_2ngon_inner_radius.r |only affiner-0.2.1/affiner/tests/testthat/test-line.r |only affiner-0.2.1/affiner/tests/testthat/test-plane.r |only affiner-0.2.1/affiner/tests/testthat/test-plot.r |only affiner-0.2.1/affiner/tests/testthat/test-point.r |only affiner-0.2.1/affiner/tests/testthat/test-trigonometry.r |only affiner-0.3.1/affiner/DESCRIPTION | 8 affiner-0.3.1/affiner/MD5 | 271 ++++--- affiner-0.3.1/affiner/NAMESPACE | 68 + affiner-0.3.1/affiner/NEWS.md | 36 affiner-0.3.1/affiner/R/R_to_AA.R |only affiner-0.3.1/affiner/R/affine-methods.R |only affiner-0.3.1/affiner/R/affine.R |only affiner-0.3.1/affiner/R/affineGrob.R |only affiner-0.3.1/affiner/R/affiner-package.R |only affiner-0.3.1/affiner/R/affiner_options.R |only affiner-0.3.1/affiner/R/angle.R |only affiner-0.3.1/affiner/R/as_coord.R |only affiner-0.3.1/affiner/R/autolayer.R |only affiner-0.3.1/affiner/R/coord-methods.R |only affiner-0.3.1/affiner/R/coord.R |only affiner-0.3.1/affiner/R/distance.R |only affiner-0.3.1/affiner/R/ellipse.R |only affiner-0.3.1/affiner/R/has_intersection.R |only affiner-0.3.1/affiner/R/has_overlap2d.R |only affiner-0.3.1/affiner/R/intersection.R |only affiner-0.3.1/affiner/R/is_congruent.R |only affiner-0.3.1/affiner/R/is_degenerate.R |only affiner-0.3.1/affiner/R/is_equivalent.R |only affiner-0.3.1/affiner/R/is_methods.R |only affiner-0.3.1/affiner/R/is_parallel.R |only affiner-0.3.1/affiner/R/isocubeGrob.R |only affiner-0.3.1/affiner/R/isotoxal_2ngon_inner_radius.R |only affiner-0.3.1/affiner/R/isotoxal_2ngon_polygon2d.R |only affiner-0.3.1/affiner/R/line_plane-methods.R |only affiner-0.3.1/affiner/R/line_plane.R |only affiner-0.3.1/affiner/R/normal.R |only affiner-0.3.1/affiner/R/painter_depth.R |only affiner-0.3.1/affiner/R/plot.R |only affiner-0.3.1/affiner/R/polygon.R |only affiner-0.3.1/affiner/R/rectangle_polygon2d.R |only affiner-0.3.1/affiner/R/regular_ngon_polygon2d.R |only affiner-0.3.1/affiner/R/roxygen2_inline.R |only affiner-0.3.1/affiner/R/segment.R |only affiner-0.3.1/affiner/R/standalone-affine-settings.R |only affiner-0.3.1/affiner/R/standardize.R |only affiner-0.3.1/affiner/R/trigonometry.R |only affiner-0.3.1/affiner/R/z-affine-settings-docs.R |only affiner-0.3.1/affiner/R/zzz.R |only affiner-0.3.1/affiner/build/vignette.rds |binary affiner-0.3.1/affiner/inst/doc/affiner.html | 2 affiner-0.3.1/affiner/inst/doc/geometry.Rmd | 6 affiner-0.3.1/affiner/inst/doc/geometry.html | 4 affiner-0.3.1/affiner/man/Coord1D.Rd | 258 +++--- affiner-0.3.1/affiner/man/Coord2D.Rd | 348 ++++----- affiner-0.3.1/affiner/man/Coord3D.Rd | 379 +++++----- affiner-0.3.1/affiner/man/Ellipse2D.Rd |only affiner-0.3.1/affiner/man/Line2D.Rd | 117 +-- affiner-0.3.1/affiner/man/Plane3D.Rd | 118 +-- affiner-0.3.1/affiner/man/Point1D.Rd | 110 +- affiner-0.3.1/affiner/man/Polygon2D.Rd |only affiner-0.3.1/affiner/man/Segment2D.Rd |only affiner-0.3.1/affiner/man/abs.Coord.Rd | 2 affiner-0.3.1/affiner/man/affineGrob.Rd | 14 affiner-0.3.1/affiner/man/affine_settings.Rd | 4 affiner-0.3.1/affiner/man/affiner-package.Rd | 7 affiner-0.3.1/affiner/man/affiner_options.Rd | 4 affiner-0.3.1/affiner/man/angle-methods.Rd | 2 affiner-0.3.1/affiner/man/angle.Rd | 2 affiner-0.3.1/affiner/man/angular_unit.Rd | 2 affiner-0.3.1/affiner/man/as_angle.Rd | 2 affiner-0.3.1/affiner/man/as_coord1d.Rd | 2 affiner-0.3.1/affiner/man/as_coord2d.Rd | 10 affiner-0.3.1/affiner/man/as_coord3d.Rd | 2 affiner-0.3.1/affiner/man/as_ellipse2d.Rd |only affiner-0.3.1/affiner/man/as_line2d.Rd | 2 affiner-0.3.1/affiner/man/as_plane3d.Rd | 2 affiner-0.3.1/affiner/man/as_point1d.Rd | 2 affiner-0.3.1/affiner/man/as_polygon2d.Rd |only affiner-0.3.1/affiner/man/as_segment2d.Rd |only affiner-0.3.1/affiner/man/as_transform1d.Rd | 2 affiner-0.3.1/affiner/man/as_transform2d.Rd | 2 affiner-0.3.1/affiner/man/as_transform3d.Rd | 2 affiner-0.3.1/affiner/man/bounding_ranges.Rd | 2 affiner-0.3.1/affiner/man/centroid.Rd | 2 affiner-0.3.1/affiner/man/convex_hull2d.Rd | 30 affiner-0.3.1/affiner/man/cross_product3d.Rd | 5 affiner-0.3.1/affiner/man/distance1d.Rd | 2 affiner-0.3.1/affiner/man/distance2d.Rd | 2 affiner-0.3.1/affiner/man/distance3d.Rd | 2 affiner-0.3.1/affiner/man/dot_product.Rd |only affiner-0.3.1/affiner/man/graphics.Rd | 75 + affiner-0.3.1/affiner/man/has_intersection.Rd | 2 affiner-0.3.1/affiner/man/has_overlap2d.Rd |only affiner-0.3.1/affiner/man/intersection.Rd | 20 affiner-0.3.1/affiner/man/inverse-trigonometric-functions.Rd | 2 affiner-0.3.1/affiner/man/is_angle.Rd | 2 affiner-0.3.1/affiner/man/is_congruent.Rd | 2 affiner-0.3.1/affiner/man/is_coord1d.Rd | 2 affiner-0.3.1/affiner/man/is_coord2d.Rd | 2 affiner-0.3.1/affiner/man/is_coord3d.Rd | 2 affiner-0.3.1/affiner/man/is_ellipse2d.Rd |only affiner-0.3.1/affiner/man/is_equivalent.Rd | 2 affiner-0.3.1/affiner/man/is_line2d.Rd | 2 affiner-0.3.1/affiner/man/is_parallel.Rd | 2 affiner-0.3.1/affiner/man/is_plane3d.Rd | 2 affiner-0.3.1/affiner/man/is_point1d.Rd | 2 affiner-0.3.1/affiner/man/is_polygon2d.Rd |only affiner-0.3.1/affiner/man/is_segment2d.Rd |only affiner-0.3.1/affiner/man/is_transform1d.Rd | 2 affiner-0.3.1/affiner/man/is_transform2d.Rd | 2 affiner-0.3.1/affiner/man/is_transform3d.Rd | 2 affiner-0.3.1/affiner/man/isocubeGrob.Rd | 6 affiner-0.3.1/affiner/man/isotoxal_2ngon_inner_radius.Rd | 8 affiner-0.3.1/affiner/man/isotoxal_2ngon_polygon2d.Rd |only affiner-0.3.1/affiner/man/normal2d.Rd | 2 affiner-0.3.1/affiner/man/normal3d.Rd | 2 affiner-0.3.1/affiner/man/painter_depth.Rd |only affiner-0.3.1/affiner/man/rectangle_polygon2d.Rd |only affiner-0.3.1/affiner/man/regular_ngon_polygon2d.Rd |only affiner-0.3.1/affiner/man/rotate3d_to_AA.Rd | 2 affiner-0.3.1/affiner/man/transform1d.Rd | 8 affiner-0.3.1/affiner/man/transform2d.Rd | 6 affiner-0.3.1/affiner/man/transform3d.Rd | 6 affiner-0.3.1/affiner/man/trigonometric-functions.Rd | 2 affiner-0.3.1/affiner/tests/testthat/_snaps/ellipse.md |only affiner-0.3.1/affiner/tests/testthat/_snaps/plot/autolayer-ellipse2d-circle.svg |only affiner-0.3.1/affiner/tests/testthat/_snaps/plot/autolayer-ellipse2d-multiple.svg |only affiner-0.3.1/affiner/tests/testthat/_snaps/plot/autolayer-polygon2d.svg |only affiner-0.3.1/affiner/tests/testthat/_snaps/plot/autolayer-segment2d.svg |only affiner-0.3.1/affiner/tests/testthat/_snaps/plot/lines-coord2d.svg |only affiner-0.3.1/affiner/tests/testthat/_snaps/plot/lines-ellipse2d-circle.svg |only affiner-0.3.1/affiner/tests/testthat/_snaps/plot/lines-ellipse2d-ellipse.svg |only affiner-0.3.1/affiner/tests/testthat/_snaps/plot/lines-polygon2d.svg |only affiner-0.3.1/affiner/tests/testthat/_snaps/plot/lines-segment2d.svg |only affiner-0.3.1/affiner/tests/testthat/_snaps/plot/plot-coord2d-project.svg | 66 - affiner-0.3.1/affiner/tests/testthat/_snaps/plot/plot-coord2d-reflect.svg | 60 - 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affiner-0.3.1/affiner/tests/testthat/test-is_parallel.R |only affiner-0.3.1/affiner/tests/testthat/test-isocubeGrob.R |only affiner-0.3.1/affiner/tests/testthat/test-isotoxal_2ngon_inner_radius.R |only affiner-0.3.1/affiner/tests/testthat/test-line.R |only affiner-0.3.1/affiner/tests/testthat/test-painter_depth.R |only affiner-0.3.1/affiner/tests/testthat/test-plane.R |only affiner-0.3.1/affiner/tests/testthat/test-plot.R |only affiner-0.3.1/affiner/tests/testthat/test-point.R |only affiner-0.3.1/affiner/tests/testthat/test-polygon.R |only affiner-0.3.1/affiner/tests/testthat/test-segment.R |only affiner-0.3.1/affiner/tests/testthat/test-trigonometry.R |only affiner-0.3.1/affiner/vignettes/geometry.Rmd | 6 205 files changed, 1206 insertions(+), 928 deletions(-)
Title: Spatial Data Analysis
Description: Methods for spatial data analysis with vector (points, lines, polygons) and raster (grid) data. Methods for vector data include geometric operations such as intersect and buffer. Raster methods include local, focal, global, zonal and geometric operations. The predict and interpolate methods facilitate the use of regression type (interpolation, machine learning) models for spatial prediction, including with satellite remote sensing data. Processing of very large files is supported. See the manual and tutorials on <https://rspatial.org/> to get started.
Author: Robert J. Hijmans [cre, aut] ,
Andrew Brown [aut] ,
Marcia Barbosa [aut] ,
Krzysztof Dyba [ctb] ,
Roger Bivand [ctb] ,
Michael Chirico [ctb] ,
Emanuele Cordano [ctb] ,
Edzer Pebesma [ctb] ,
Barry Rowlingson [ctb] ,
Michael D. Sumner [ctb]
Maintainer: Robert J. Hijmans <r.hijmans@gmail.com>
Diff between terra versions 1.9-25 dated 2026-05-06 and 1.9-27 dated 2026-05-10
terra-1.9-25/terra/inst/tinytest/test_proj_pipelines.R |only terra-1.9-27/terra/DESCRIPTION | 8 ++++---- terra-1.9-27/terra/MD5 | 14 +++++++------- terra-1.9-27/terra/NEWS.md | 9 +++++++++ terra-1.9-27/terra/R/generics.R | 2 +- terra-1.9-27/terra/inst/tinytest/test_project.R |only terra-1.9-27/terra/src/crs.cpp | 6 +----- terra-1.9-27/terra/src/raster_methods.cpp | 2 +- terra-1.9-27/terra/src/tessellate.cpp | 2 ++ 9 files changed, 25 insertions(+), 18 deletions(-)
Title: Utility Functions for 'spatstat'
Description: Contains utility functions for the 'spatstat' family of packages
which may also be useful for other purposes.
Author: Adrian Baddeley [aut, cre] ,
Rolf Turner [aut] ,
Ege Rubak [aut]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat.utils versions 3.2-2 dated 2026-03-10 and 3.2-3 dated 2026-05-10
spatstat.utils-3.2-2/spatstat.utils/R/xysegment.R |only spatstat.utils-3.2-3/spatstat.utils/DESCRIPTION | 8 spatstat.utils-3.2-3/spatstat.utils/MD5 | 28 - spatstat.utils-3.2-3/spatstat.utils/NEWS | 8 spatstat.utils-3.2-3/spatstat.utils/R/distppll.R |only spatstat.utils-3.2-3/spatstat.utils/R/utilseq.R | 16 spatstat.utils-3.2-3/spatstat.utils/inst/doc/packagesizes.txt | 2 spatstat.utils-3.2-3/spatstat.utils/inst/info/packagesizes.txt | 2 spatstat.utils-3.2-3/spatstat.utils/man/macros/defns.Rd | 1 spatstat.utils-3.2-3/spatstat.utils/man/spatstat.utils-internal.Rd | 4 spatstat.utils-3.2-3/spatstat.utils/src/distseg.c | 24 + spatstat.utils-3.2-3/spatstat.utils/src/distseg.h | 189 ++++++++-- spatstat.utils-3.2-3/spatstat.utils/src/init.c | 1 spatstat.utils-3.2-3/spatstat.utils/src/longvec.c | 33 + spatstat.utils-3.2-3/spatstat.utils/src/proto.h | 7 spatstat.utils-3.2-3/spatstat.utils/tests/segments.R | 8 16 files changed, 252 insertions(+), 79 deletions(-)
More information about spatstat.utils at CRAN
Permanent link
Title: SQLite Interface for R
Description: Embeds the SQLite database engine in R and provides an
interface compliant with the DBI package. The source for the SQLite
engine and for various extensions is included.
System libraries will never be consulted because this package relies
on static linking for the plugins it includes; this also ensures a
consistent experience across all installations.
Author: Kirill Mueller [aut, cre] ,
Hadley Wickham [aut],
David A. James [aut],
Seth Falcon [aut],
D. Richard Hipp [ctb] ,
Dan Kennedy [ctb] ,
Joe Mistachkin [ctb] ,
SQLite Authors [ctb] ,
Liam Healy [ctb] ,
R Consortium [fnd],
RStudio [cph]
Maintainer: Kirill Mueller <kirill@cynkra.com>
Diff between RSQLite versions 2.4.6 dated 2026-02-06 and 3.52.0 dated 2026-05-10
DESCRIPTION | 15 MD5 | 38 NEWS.md | 11 R/dbListObjects_SQLiteConnection.R |only R/table.R | 4 build/vignette.rds |binary man/SQLite.Rd | 8 man/SQLiteConnection-class.Rd | 9 man/SQLiteDriver-class.Rd | 6 man/SQLiteResult-class.Rd | 4 man/keywords-dep.Rd | 2 man/query-dep.Rd | 4 man/reexports.Rd | 2 man/sqlite-transaction.Rd | 4 man/sqliteSetBusyHandler.Rd | 2 src/Makevars | 1 src/vendor/extensions/sqlite3ext.h | 11 src/vendor/sqlite3/sqlite3.c | 8543 +++++++++++++++++++++--------------- src/vendor/sqlite3/sqlite3.h | 251 - tests/testthat/_snaps |only tests/testthat/test-dbListObjects.R |only tests/testthat/test-percentile.R |only 22 files changed, 5298 insertions(+), 3617 deletions(-)
Title: Estimation of Model-Based Predictions, Contrasts and Means
Description: Implements a general interface for model-based estimations
for a wide variety of models, used in the computation of
marginal means, contrast analysis and predictions. For a list of supported models,
see 'insight::supported_models()'.
Author: Dominique Makowski [aut, cre] ,
Daniel Luedecke [aut] ,
Mattan S. Ben-Shachar [aut] ,
Indrajeet Patil [aut] ,
Remi Theriault [aut]
Maintainer: Dominique Makowski <officialeasystats@gmail.com>
Diff between modelbased versions 0.14.0 dated 2026-02-17 and 0.15.0 dated 2026-05-10
DESCRIPTION | 32 ++-- MD5 | 98 +++++++------ NEWS.md | 16 ++ R/clean_names.R | 5 R/estimate_contrasts.R | 82 ++++++++++- R/estimate_predicted.R | 162 ++++++++++++++--------- R/format.R | 149 ++++++++++++++++----- R/get_contexteffects.R |only R/get_inequalitycontrasts.R | 33 +++- R/get_marginalcontrasts.R | 145 ++++++++++++++++---- R/get_marginalmeans.R | 28 +++ R/table_footer.R | 57 ++++++-- R/visualisation_recipe.R | 12 - R/visualisation_recipe_internal.R | 2 build/partial.rdb |binary build/vignette.rds |binary inst/WORDLIST | 3 inst/doc/overview_of_vignettes.Rmd | 1 inst/doc/overview_of_vignettes.html | 2 man/estimate_contrasts.Rd | 86 +++++++++++- man/estimate_expectation.Rd | 5 man/figures/derivative.png |binary man/figures/logo.png |binary man/figures/unnamed-chunk-10-1.png |binary man/figures/unnamed-chunk-11-1.png |binary man/figures/unnamed-chunk-12-1.png |binary man/figures/unnamed-chunk-13-1.png |binary man/figures/unnamed-chunk-14-1.png |binary man/figures/unnamed-chunk-15-1.png |binary man/figures/unnamed-chunk-16-1.png |binary man/figures/unnamed-chunk-17-1.png |binary man/figures/unnamed-chunk-3-1.png |binary man/figures/unnamed-chunk-4-1.png |binary man/figures/unnamed-chunk-5-1.png |binary man/figures/unnamed-chunk-6-1.png |binary man/figures/unnamed-chunk-7-1.png |binary man/figures/unnamed-chunk-8-1.png |binary man/figures/unnamed-chunk-9-1.png |binary man/get_emmeans.Rd | 21 ++ man/puppy_love.Rd | 64 ++++----- man/visualisation_recipe.estimate_predicted.Rd | 10 - tests/testthat/test-attributes_estimatefun.R | 18 +- tests/testthat/test-estimate_contrasts.R | 72 +++++----- tests/testthat/test-estimate_contrasts_context.R |only tests/testthat/test-estimate_predicted.R | 150 ++++++++++++++++----- tests/testthat/test-keep_iterations.R | 18 +- tests/testthat/test-plot-facet.R | 76 ++++------ tests/testthat/test-plot.R | 13 + tests/testthat/test-visualisation_recipe.R | 72 ++++++++-- vignettes/bibliography.bib | 38 +++++ vignettes/overview_of_vignettes.Rmd | 1 51 files changed, 1053 insertions(+), 418 deletions(-)
Title: A Lightweight, Modern and Flexible Logging Utility
Description: Inspired by the the 'futile.logger' R package and 'logging'
Python module, this utility provides a flexible and extensible way of
formatting and delivering log messages with low overhead.
Author: Gergely Daroczi [aut, cre] ,
Hadley Wickham [aut] ,
Jonathan Carroll [ctb] ,
Spare Cores [fnd],
System1 [fnd]
Maintainer: Gergely Daroczi <daroczig@rapporter.net>
Diff between logger versions 0.4.1 dated 2025-09-11 and 0.4.2 dated 2026-05-10
DESCRIPTION | 15 MD5 | 61 +-- NAMESPACE | 1 NEWS.md | 10 R/appenders.R | 28 + R/helpers.R | 4 R/layouts.R | 2 R/utils.R | 2 build/vignette.rds |binary inst/doc/Intro.html | 43 +- inst/doc/anatomy.html | 333 +++++++++++++++++- inst/doc/customize_logger.html | 81 ++-- inst/doc/migration.R | 166 --------- inst/doc/migration.Rmd | 4 inst/doc/migration.html | 618 +++------------------------------- inst/doc/performance.html | 5 inst/doc/r_packages.html | 16 inst/doc/write_custom_extensions.html | 96 +++-- man/appender_async.Rd | 1 man/appender_console.Rd | 1 man/appender_file.Rd | 1 man/appender_kinesis.Rd | 1 man/appender_ntfy.Rd |only man/appender_pushbullet.Rd | 1 man/appender_slack.Rd | 1 man/appender_stdout.Rd | 1 man/appender_syslog.Rd | 1 man/appender_tee.Rd | 1 man/appender_telegram.Rd | 1 man/logger-package.Rd | 1 tests/testthat/test-helpers.R | 2 vignettes/migration.Rmd | 4 32 files changed, 626 insertions(+), 876 deletions(-)
Title: Create Common Tables and Listings Used in Clinical Trials
Description: Structure and formatting requirements for clinical trial table and listing outputs
vary between pharmaceutical companies. 'junco' provides additional tooling for use alongside
the 'rtables', 'rlistings' and 'tern' packages when creating table and listing outputs. While
motivated by the specifics of Johnson and Johnson Clinical and Statistical Programming's
table and listing shells, 'junco' provides functionality that is general and reusable.
Major features include a) alternative and extended statistical analyses beyond what 'tern'
supports for use in standard safety and efficacy tables, b) a robust production-grade
Rich Text Format (RTF) and DOCX exporter for tables, listings and graphs, c) structural support
for spanning column headers and risk difference columns in tables, and d) robust
font-aware automatic column width algorithms for both listings and tables.
Author: Gabriel Becker [cre, aut] ,
Ilse Augustyns [aut],
Paul Jenkins [aut],
Daniel Hofstaedter [aut],
Joseph Kovach [aut],
David Munoz Tord [aut],
Daniel Sabanes Bove [aut],
Ezequiel Anokian [ctb],
Renfei Mao [ctb],
Mrinal Das [ctb],
Wojciech Wojciak [ctb] [...truncated...]
Maintainer: Gabriel Becker <gabembecker@gmail.com>
Diff between junco versions 0.1.4 dated 2026-02-11 and 0.1.6 dated 2026-05-10
junco-0.1.4/junco/R/s_functions.R |only junco-0.1.4/junco/inst/doc/table_and_listing_customizations.rmd |only junco-0.1.4/junco/man/lsmeans_wide_cfun.Rd |only junco-0.1.4/junco/man/lsmeans_wide_first_split_fun_fct.Rd |only junco-0.1.4/junco/man/lsmeans_wide_second_split_fun_fct.Rd |only junco-0.1.4/junco/tests/testthat/sas_comparison |only junco-0.1.4/junco/vignettes/table_and_listing_customizations.rmd |only junco-0.1.6/junco/DESCRIPTION | 43 junco-0.1.6/junco/MD5 | 273 - junco-0.1.6/junco/NAMESPACE | 33 junco-0.1.6/junco/NEWS.md | 118 junco-0.1.6/junco/R/a_eair_j.R | 8 junco-0.1.6/junco/R/a_freq_combos_j.R | 3 junco-0.1.6/junco/R/a_freq_j.R | 31 junco-0.1.6/junco/R/a_freq_resp_var_j.R | 21 junco-0.1.6/junco/R/a_freq_subcol_j.R | 2 junco-0.1.6/junco/R/a_summarize_aval_chg_diff.R | 53 junco-0.1.6/junco/R/a_summary.r |only junco-0.1.6/junco/R/a_summary_diff_mvars.r |only junco-0.1.6/junco/R/blank_line.R | 102 junco-0.1.6/junco/R/cmhrms.R | 2 junco-0.1.6/junco/R/column_stats.R | 59 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deletions(-)
Title: Tools for Creating and Visualizing Fixed-Effects Event Study
Models
Description: Provides functions for creating, analyzing, and visualizing event study models using fixed-effects regression. Supports staggered adoption, multiple confidence intervals, flexible clustering, and panel/time transformations in a simple workflow.
Author: Yosuke Abe [aut, cre]
Maintainer: Yosuke Abe <yosuke.abe0507@gmail.com>
Diff between fixes versions 0.7.2 dated 2026-05-02 and 0.8.1 dated 2026-05-10
DESCRIPTION | 17 - MD5 | 54 ++- NAMESPACE | 4 NEWS.md | 65 ++++ R/RcppExports.R |only R/bootstrap_cs.R |only R/estimators_bjs.R |only R/estimators_cs.R |only R/estimators_sa.R |only R/fixes-package.R |only R/plot_att_gt.R |only R/plot_es.R | 234 +++++++++------ R/plot_es_interactive.R | 419 +++++++++++++++------------ R/run_es.R | 425 +++++++++++++++++++++++++++ README.md | 489 ++++++++++++++++++++------------ inst/doc/fixes-intro.R | 71 ++++ inst/doc/fixes-intro.Rmd | 160 ++++++++++ inst/doc/fixes-intro.html | 156 +++++++++- man/figures/README-bjs-plot-1.png |only man/figures/README-classic-plot-1.png |only man/figures/README-cs-facet-1.png |only man/figures/README-cs-heatmap-1.png |only man/figures/README-cs-plot-1.png |only man/figures/README-plot-ci-1.png |only man/figures/README-plot-options-1.png |only man/figures/README-sa-plot-1.png |only man/plot_att_gt.Rd |only man/plot_es.Rd | 8 man/plot_es_interactive.Rd | 8 man/run_es.Rd | 43 ++ src |only tests/testthat/test-bjs.R |only tests/testthat/test-bootstrap-cs.R |only tests/testthat/test-cs-rcpp.R |only tests/testthat/test-cs.R |only tests/testthat/test-plot-att-gt.R |only tests/testthat/test-plot-simultaneous.R |only tests/testthat/test-sa-optim.R |only tests/testthat/test-sa.R |only vignettes/fixes-intro.Rmd | 160 ++++++++++ 40 files changed, 1822 insertions(+), 491 deletions(-)
Title: ARDL, ECM and Bounds-Test for Cointegration
Description: Creates complex autoregressive distributed lag (ARDL) models and
constructs the underlying unrestricted and restricted error correction
model (ECM) automatically, just by providing the order. It also performs
the bounds-test for cointegration as described in Pesaran et al. (2001)
<doi:10.1002/jae.616> and provides the multipliers and the cointegrating
equation. The validity and the accuracy of this package have been verified
by successfully replicating the results of Pesaran et al. (2001) in
Natsiopoulos and Tzeremes (2022) <doi:10.1002/jae.2919>.
Author: Kleanthis Natsiopoulos [aut, cre] ,
Nickolaos Tzeremes [ths] ,
Daniel Finnan [aut]
Maintainer: Kleanthis Natsiopoulos <klnatsio@gmail.com>
Diff between ARDL versions 0.2.4 dated 2023-08-21 and 0.2.5 dated 2026-05-10
ARDL-0.2.4/ARDL/man/figures/README-unnamed-chunk-4-1.png |only ARDL-0.2.5/ARDL/DESCRIPTION | 28 ARDL-0.2.5/ARDL/MD5 | 124 - ARDL-0.2.5/ARDL/NAMESPACE | 49 ARDL-0.2.5/ARDL/NEWS.md | 378 ++- ARDL-0.2.5/ARDL/R/ardl-package.R | 42 ARDL-0.2.5/ARDL/R/ardl.R | 359 +-- ARDL-0.2.5/ARDL/R/auto_ardl.R | 866 ++++---- ARDL-0.2.5/ARDL/R/bounds_test.R | 1252 ++++++------- ARDL-0.2.5/ARDL/R/coint_eq.R | 310 +-- ARDL-0.2.5/ARDL/R/crit_val_bounds_sim.R | 656 +++--- ARDL-0.2.5/ARDL/R/data.R | 166 - ARDL-0.2.5/ARDL/R/delta_method.R | 204 +- ARDL-0.2.5/ARDL/R/formula_builders.R | 462 ++-- ARDL-0.2.5/ARDL/R/helper-functions.R | 23 ARDL-0.2.5/ARDL/R/multipliers.R | 725 +++---- ARDL-0.2.5/ARDL/R/parsers.R | 542 ++--- ARDL-0.2.5/ARDL/R/plot_delay.R | 174 - ARDL-0.2.5/ARDL/R/plot_lr.R | 211 +- ARDL-0.2.5/ARDL/R/predict.R |only ARDL-0.2.5/ARDL/R/recm.R | 331 +-- ARDL-0.2.5/ARDL/R/to_lm.R | 276 +- ARDL-0.2.5/ARDL/R/uecm.R | 333 +-- ARDL-0.2.5/ARDL/README.md | 773 ++++---- ARDL-0.2.5/ARDL/build/partial.rdb |binary ARDL-0.2.5/ARDL/inst/CITATION | 73 ARDL-0.2.5/ARDL/man/ARDL-package.Rd | 60 ARDL-0.2.5/ARDL/man/NT2022.Rd | 82 ARDL-0.2.5/ARDL/man/PSS2001.Rd | 90 ARDL-0.2.5/ARDL/man/ardl.Rd | 286 +- ARDL-0.2.5/ARDL/man/auto_ardl.Rd | 500 ++--- ARDL-0.2.5/ARDL/man/bounds_f_test.Rd | 539 ++--- ARDL-0.2.5/ARDL/man/bounds_t_test.Rd | 458 ++-- ARDL-0.2.5/ARDL/man/build_ardl_formula.Rd | 62 ARDL-0.2.5/ARDL/man/build_recm_formula.Rd | 74 ARDL-0.2.5/ARDL/man/build_uecm_formula.Rd | 64 ARDL-0.2.5/ARDL/man/coint_eq.Rd | 252 +- ARDL-0.2.5/ARDL/man/delta_method.Rd | 96 ARDL-0.2.5/ARDL/man/denmark.Rd | 74 ARDL-0.2.5/ARDL/man/f_bounds_sim.Rd | 84 ARDL-0.2.5/ARDL/man/f_test_custom.Rd | 74 ARDL-0.2.5/ARDL/man/figures/README-Predict-ardl-1.png |only ARDL-0.2.5/ARDL/man/figures/README-delay-multipliers-1.png |only ARDL-0.2.5/ARDL/man/figures/README-lr-plot-1.png |binary ARDL-0.2.5/ARDL/man/multipliers.Rd | 358 +-- ARDL-0.2.5/ARDL/man/parse_case.Rd | 84 ARDL-0.2.5/ARDL/man/parse_formula.Rd | 104 - ARDL-0.2.5/ARDL/man/parse_order.Rd | 88 ARDL-0.2.5/ARDL/man/plot_delay.Rd | 158 - ARDL-0.2.5/ARDL/man/plot_lr.Rd | 124 - ARDL-0.2.5/ARDL/man/predict.ardl.Rd |only ARDL-0.2.5/ARDL/man/recm.Rd | 274 +- ARDL-0.2.5/ARDL/man/t_bounds_sim.Rd | 80 ARDL-0.2.5/ARDL/man/to_lm.Rd | 226 +- ARDL-0.2.5/ARDL/man/uecm.Rd | 282 +- ARDL-0.2.5/ARDL/man/vcov_custom.Rd | 58 ARDL-0.2.5/ARDL/tests/testthat.R | 24 ARDL-0.2.5/ARDL/tests/testthat/test-ardl.R | 108 - ARDL-0.2.5/ARDL/tests/testthat/test-auto_ardl.R | 278 +- ARDL-0.2.5/ARDL/tests/testthat/test-bounds_test.R | 520 ++--- ARDL-0.2.5/ARDL/tests/testthat/test-coint_eq.R | 66 ARDL-0.2.5/ARDL/tests/testthat/test-multipliers.R | 308 +-- ARDL-0.2.5/ARDL/tests/testthat/test-predict.R |only ARDL-0.2.5/ARDL/tests/testthat/test-recm.R | 122 - ARDL-0.2.5/ARDL/tests/testthat/test-to_lm.R | 288 +- ARDL-0.2.5/ARDL/tests/testthat/test-uecm.R | 42 66 files changed, 7423 insertions(+), 7321 deletions(-)
Title: Mars Solar Radiation
Description: A set of functions to calculate solar irradiance and insolation on Mars horizontal and inclined surfaces. Based on NASA Technical Memoranda 102299, 103623, 105216, 106321, and 106700, i.e. the canonical Mars solar radiation papers.
Author: Georges Labreche [aut, cre]
Maintainer: Georges Labreche <georges@tanagraspace.com>
Diff between marsrad versions 1.0.0 dated 2025-11-27 and 1.0.1 dated 2026-05-09
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- README.md | 11 +++++++++++ 3 files changed, 17 insertions(+), 6 deletions(-)
Title: GWAS-to-CRISPR Data Pipeline for High-Throughput SNP Target
Extraction
Description: Provides a reproducible pipeline to conduct genome-wide association studies
(GWAS) and extract single-nucleotide polymorphisms (SNPs) for a human trait or
disease. Given aggregated GWAS dataset(s) and a user-defined significance threshold,
the package retrieves significant SNPs from the GWAS Catalog and the
Experimental Factor Ontology (EFO), annotates their gene context, and can write a
harmonised metadata table in comma-separated values (CSV) format, genomic intervals in the Browser Extensible Data
(BED) format, and sequences in the FASTA (text-based sequence) format with user-defined flanking regions for clustered
regularly interspaced short palindromic repeats (CRISPR) guide design.
For details on the resources and methods see:
Buniello et al. (2019) <doi:10.1093/nar/gky1120>;
Sollis et al. (2023) <doi:10.1093/nar/gkac1010>;
Jinek et al. (2012) <doi:10.1126/science.1225829>;
Malone et al. (2010) <doi:10.1093/bioinformatics/btq099>;
Experimental Factor Ontolo [...truncated...]
Author: Othman S. I. Mohammed [aut, cre],
LEOPARD.LY LTD [cph]
Maintainer: Othman S. I. Mohammed <admin@leopard.ly>
Diff between gwas2crispr versions 0.1.2 dated 2025-08-22 and 0.1.4 dated 2026-05-09
DESCRIPTION | 18 LICENSE | 2 MD5 | 35 - NAMESPACE | 3 NEWS.md | 74 +- R/cran-globals.R |only R/fetch_gwas.R | 970 +++++++++++++++++++++++++++++++--- R/run_gwas2crispr.R | 555 +++++++++++-------- README.md | 430 ++++++--------- build/partial.rdb |only build/vignette.rds |binary inst/doc/gwas2crispr.R | 65 +- inst/doc/gwas2crispr.Rmd | 119 ++-- inst/doc/gwas2crispr.html | 225 ++++--- man/fetch_gwas.Rd | 35 - man/gwas2crispr-package.Rd |only man/run_gwas2crispr.Rd | 65 +- tests/testthat/test-fetch_gwas.R | 199 +++++- tests/testthat/test-run_gwas2crispr.R | 264 ++++++++- vignettes/gwas2crispr.Rmd | 119 ++-- 20 files changed, 2256 insertions(+), 922 deletions(-)
Title: Density and Abundance from Distance-Sampling Surveys
Description: Distance-sampling (<doi:10.1007/978-3-319-19219-2>)
is a field survey and analytical method that estimates density and
abundance of survey targets (e.g., animals) when
detection probability declines with observation distance.
Distance-sampling is popular in ecology,
especially when survey targets are observed from aerial platforms (e.g.,
airplane or drone), surface vessels (e.g., boat or truck), or along
walking transects. Analysis involves fitting smooth (parametric) curves to
histograms of observation distances and using those functions to
adjust density estimates for missed targets. Routines included here
fit curves to observation distance histograms, estimate effective
sampling area, density of targets in surveyed areas, and the abundance
of targets in a surrounding study area. Confidence interval estimation
uses built-in bootstrap resampling. Help files are extensive and have been
vetted by multiple authors. Many tutorials are available on the package's
website (URL below).
Author: Trent McDonald [cre, aut],
Jason Carlisle [aut],
Aidan McDonald [aut] ,
Ryan Nielson [ctb] ,
Ben Augustine [ctb] ,
James Griswald [ctb] ,
Patrick McKann [ctb] ,
Lacey Jeroue [ctb] ,
Hoffman Abigail [ctb] ,
Kleinsausser Michael [ctb] ,
Joel Reynolds [ [...truncated...]
Maintainer: Trent McDonald <trent@mcdonalddatasciences.com>
Diff between Rdistance versions 4.4.0 dated 2026-04-22 and 4.4.2 dated 2026-05-09
DESCRIPTION | 9 MD5 | 413 +++++++++++++++++------------------ NEWS.md | 16 + R/AIC.dfunc.R | 16 - R/EDR.R | 6 R/ESW.r | 10 R/Gamma.like.R | 18 - R/GammaModes.R | 4 R/GammaReparam.R | 6 R/Optim.R | 2 R/RdistDf.R | 114 ++++----- R/Rdistance-package.R | 137 +++++------ R/RdistanceControls.R | 77 ++---- R/abundEstim.R | 115 ++++----- R/autoDistSamp.R | 22 - R/bootstrap.R | 17 + R/bspline.expansion.R | 8 R/checkUnits.R | 8 R/coef.dfunc.r | 2 R/colorize.R | 18 - R/cosine.expansion.R | 24 +- R/dE.single.R | 289 ++++++++++-------------- R/dfuncEstim.R | 16 - R/dfuncEstimErrMessage.R | 2 R/differentiableLikelihoods.R | 6 R/distances.R | 2 R/effectiveDistance.R | 34 +- R/estimateN.r | 6 R/expandW.R | 8 R/expansionTerms.R | 40 +-- R/getNCores.R | 8 R/gxEstim.r | 76 +++--- R/halfnorm.like.R | 64 ++--- R/hermite.expansion.R | 16 - R/huber.cumFunc.R | 20 - R/huber.like.R | 8 R/insertOneStepBreaks.R | 4 R/integrateDfuncs.R | 4 R/integrateGammaLines.R | 10 R/integrateHalfnormLines.R | 8 R/integrateHalfnormPoints.R | 6 R/integrateHazrateLines.R | 8 R/integrateHuberLines.R | 4 R/integrateNegexpLines.R | 6 R/integrateNegexpPoints.R | 4 R/integrateNumeric.R | 26 +- R/integrateOneStepLines.R | 4 R/integrateOneStepNumeric.R | 10 R/integrateOneStepPoints.R | 46 +-- R/integrateTriangleLines.R | 4 R/intercept.only.R | 4 R/is.RdistDf.R | 54 +--- R/is.Unitless.R | 16 - R/lines.dfunc.R | 14 - R/maximize.g.r | 6 R/mlEstimates.R | 6 R/nCovars.R | 4 R/nLL.R | 23 + R/observationType.R | 8 R/oneBsIter.R | 23 + R/oneStep.like.R | 4 R/oneStep.start.limits.R | 2 R/parseModel.R | 8 R/perpDists.R | 14 - R/plot.dfunc.para.R | 76 +++--- R/plot.dfunc.r | 26 +- R/predLikelihood.R | 16 - R/predict.dfunc.R | 128 +++++----- R/print.abund.r | 14 - R/print.dfunc.r | 10 R/secondDeriv.R | 38 +-- R/setOptimizer.R | 80 +++--- R/simple.expansion.r | 16 - R/simpsonCoefs.R | 12 - R/sine.expansion.R | 14 - R/sparrowDetectionData.R | 18 - R/sparrowDf.R | 42 +-- R/sparrowDfuncObserver.R | 8 R/sparrowSiteData.R | 26 +- R/startLimits.R | 10 R/summary.abund.R | 16 - R/summary.dfunc.R | 26 +- R/summary.rowwise_df.R | 10 R/thrasherDetectionData.R | 12 - R/thrasherDf.R | 34 +- R/thrasherSiteData.R | 22 - R/transectType.R | 18 - R/triangle.like.R | 4 R/triangle.start.limits.R | 2 R/unitHelper_%#%.R | 12 - R/unitHelper_%acre%.R | 2 R/unitHelper_%m%.R | 8 R/unitHelper_dropUnits.R | 4 R/unnest.R | 4 R/varcovarEstim.R | 6 R/zzz.R | 6 build/partial.rdb |binary inst |only man/AIC.dfunc.Rd | 60 ++--- man/EDR.Rd | 44 +-- man/ESW.Rd | 66 ++--- man/Gamma.like.Rd | 126 +++++----- man/Gamma.start.limits.Rd | 26 +- man/GammaModes.Rd | 8 man/GammaReparam.Rd | 12 - man/HookeJeeves.Rd | 34 +- man/Nlminb.Rd | 34 +- man/Optim.Rd | 34 +- man/RdistDf.Rd | 334 ++++++++++++++-------------- man/Rdistance-package.Rd | 146 +++++------- man/RdistanceControls.Rd | 150 ++++++------ man/abundEstim.Rd | 326 +++++++++++++-------------- man/autoDistSamp.Rd | 264 +++++++++++----------- man/bcCI.Rd | 2 man/bootstrap.Rd | 52 ++-- man/bspline.expansion.Rd | 22 - man/checkNEvalPts.Rd | 2 man/checkUnits.Rd | 10 man/coef.dfunc.Rd | 10 man/colorize.Rd | 38 +-- man/cosine.expansion.Rd | 42 +-- man/dE.multi.Rd | 312 ++++++++++++-------------- man/dE.single.Rd | 459 ++++++++++++++++++--------------------- man/dfuncEstim.Rd | 421 ++++++++++++++++------------------- man/differentiableLikelihoods.Rd | 6 man/distances.Rd | 22 - man/effectiveDistance.Rd | 58 ++-- man/effort.Rd | 10 man/errDataUnk.Rd | 2 man/estimateN.Rd | 144 ++++++------ man/expandW.Rd | 28 +- man/expansionTerms.Rd | 76 +++--- man/getNCores.Rd | 24 +- man/groupSizes.Rd | 16 - man/gxEstim.Rd | 123 +++++----- man/halfnorm.like.Rd | 118 +++++----- man/halfnorm.start.limits.Rd | 26 +- man/hazrate.like.Rd | 100 ++++---- man/hazrate.start.limits.Rd | 26 +- man/hermite.expansion.Rd | 38 +-- man/huber.cumFunc.Rd | 34 +- man/huber.like.Rd | 104 ++++---- man/huber.start.limits.Rd | 28 +- man/insertOneStepBreaks.Rd | 12 - man/integrateDfuncs.Rd | 62 ++--- man/integrateGammaLines.Rd | 72 +++--- man/integrateHalfnormLines.Rd | 72 +++--- man/integrateHalfnormPoints.Rd | 68 ++--- man/integrateHazrateLines.Rd | 78 +++--- man/integrateHuberLines.Rd | 62 ++--- man/integrateKey.Rd | 8 man/integrateNegexpLines.Rd | 66 ++--- man/integrateNegexpPoints.Rd | 64 ++--- man/integrateNumeric.Rd | 110 ++++----- man/integrateOneStepLines.Rd | 60 ++--- man/integrateOneStepNumeric.Rd | 96 ++++---- man/integrateOneStepPoints.Rd | 62 ++--- man/integrateTriangleLines.Rd | 66 ++--- man/intercept.only.Rd | 8 man/is.RdistDf.Rd | 52 ++-- man/is.Unitless.Rd | 18 - man/is.points.Rd | 10 man/is.smoothed.Rd | 8 man/likeParamNames.Rd | 6 man/lines.dfunc.Rd | 46 +-- man/maximize.g.Rd | 2 man/mlEstimates.Rd | 22 - man/model.matrix.dfunc.Rd | 2 man/nCovars.Rd | 8 man/nLL.Rd | 62 ++--- man/negexp.like.Rd | 90 +++---- man/negexp.start.limits.Rd | 28 +- man/observationType.Rd | 14 - man/oneBsIter.Rd | 84 +++---- man/oneStep.like.Rd | 116 ++++----- man/oneStep.start.limits.Rd | 30 +- man/parseModel.Rd | 146 ++++++------ man/perpDists.Rd | 12 - man/plot.dfunc.Rd | 139 +++++------ man/plot.dfunc.para.Rd | 117 ++++----- man/predDensity.Rd | 20 - man/predDfuncs.Rd | 36 +-- man/predLikelihood.Rd | 34 +- man/predict.dfunc.Rd | 289 ++++++++++++------------ man/print.abund.Rd | 12 - man/print.dfunc.Rd | 10 man/secondDeriv.Rd | 74 +++--- man/setOptimizer.Rd | 26 +- man/simple.expansion.Rd | 38 +-- man/simpsonCoefs.Rd | 18 - man/sine.expansion.Rd | 40 +-- man/sparrowDetectionData.Rd | 48 ++-- man/sparrowDf.Rd | 68 ++--- man/sparrowDfuncObserver.Rd | 14 - man/sparrowSiteData.Rd | 54 ++-- man/startLimits.Rd | 38 +-- man/summary.abund.Rd | 26 +- man/summary.dfunc.Rd | 60 ++--- man/summary.rowwise_df.Rd | 46 +-- man/thrasherDetectionData.Rd | 34 +- man/thrasherDf.Rd | 58 ++-- man/thrasherSiteData.Rd | 38 +-- man/transectType.Rd | 18 - man/triangle.like.Rd | 112 ++++----- man/triangle.start.limits.Rd | 30 +- man/unitHelpers.Rd | 32 +- man/unnest.Rd | 18 - man/varcovarEstim.Rd | 36 +-- 208 files changed, 4926 insertions(+), 5083 deletions(-)
Title: Piecewise Exponential Distribution Prediction Model
Description: Build piecewise exponential survival model for study design (planning) and event/timeline prediction.
Author: Tianchen Xu [aut, cre] ,
Wen Zhang [aut]
Maintainer: Tianchen Xu <zjph602xutianchen@gmail.com>
Diff between PWEXP versions 0.5.0 dated 2024-03-12 and 0.5.1 dated 2026-05-09
DESCRIPTION | 18 +++++++++++------- MD5 | 12 ++++++------ build/vignette.rds |binary inst/NEWS.Rd | 6 ++++++ inst/doc/Theory_Notes.R | 2 +- inst/doc/Theory_Notes.html | 7 ++++--- man/predict.Rd | 2 +- 7 files changed, 29 insertions(+), 18 deletions(-)
Title: Hydro-Meteorology Time-Series
Description: Functions for the management and treatment of hydrology and
meteorology time-series stored in a 'Sqlite' data base.
Author: Pierre Chevallier [aut, cre]
Maintainer: Pierre Chevallier <pierre.chevallier@mailo.com>
Diff between htsr versions 2.1.6 dated 2024-08-17 and 2.1.7 dated 2026-05-09
htsr-2.1.6/htsr/R/d_convert_hubeau.R |only htsr-2.1.6/htsr/man/d_convert_hubeau.Rd |only htsr-2.1.7/htsr/DESCRIPTION | 10 +- htsr-2.1.7/htsr/MD5 | 24 ++--- htsr-2.1.7/htsr/R/d_convert_eaufrance.R |only htsr-2.1.7/htsr/R/d_convert_meteofrance_d.R | 98 +++++++++++++++++--- htsr-2.1.7/htsr/R/d_convert_meteofrance_h.R | 118 ++++++++++++++++++++----- htsr-2.1.7/htsr/build/vignette.rds |binary htsr-2.1.7/htsr/inst/doc/htsr-package.Rmd | 5 - htsr-2.1.7/htsr/inst/doc/htsr-package.html | 7 - htsr-2.1.7/htsr/man/d_convert_eaufrance.Rd |only htsr-2.1.7/htsr/man/d_convert_meteofrance_d.Rd | 79 ++++++++++++++-- htsr-2.1.7/htsr/man/d_convert_meteofrance_h.Rd | 76 +++++++++++++++- htsr-2.1.7/htsr/man/htsr-package.Rd | 5 + htsr-2.1.7/htsr/vignettes/htsr-package.Rmd | 5 - 15 files changed, 349 insertions(+), 78 deletions(-)
Title: Rectangle Nested Lists
Description: A tool to rectangle a nested list, that is to convert it into
a 'tibble'. This is done automatically or according to a given
specification. A common use case is for nested lists coming from
parsing 'JSON' files, or the 'JSON' responses of 'REST' 'APIs'.
'Rectangling' uses the 'vctrs' package, and therefore offers a wide
support of vector types.
Author: Jon Harmon [aut, cre] ,
Maximilian Girlich [aut, cph],
Kirill Mueller [ctb]
Maintainer: Jon Harmon <jonthegeek@gmail.com>
This is a re-admission after prior archival of version 0.3.1 dated 2024-01-11
Diff between tibblify versions 0.3.1 dated 2024-01-11 and 0.4.0 dated 2026-05-09
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tibblify-0.3.1/tibblify/tests/testthat/test-parse-open-api.R |only tibblify-0.3.1/tibblify/tests/testthat/test-spec_guess.R |only tibblify-0.3.1/tibblify/tests/testthat/test-spec_guess_df.R |only tibblify-0.3.1/tibblify/tests/testthat/test-spec_guess_object.R |only tibblify-0.3.1/tibblify/tests/testthat/test-spec_guess_object_list.R |only tibblify-0.3.1/tibblify/tests/testthat/test-tib_spec.R |only tibblify-0.3.1/tibblify/tests/testthat/test-unnest-tree.R |only tibblify-0.3.1/tibblify/tests/testthat/test-unpack-tspec.R |only tibblify-0.3.1/tibblify/vignettes/overview-supported-structures.Rmd |only tibblify-0.4.0/tibblify/DESCRIPTION | 49 tibblify-0.4.0/tibblify/LICENSE |only tibblify-0.4.0/tibblify/MD5 | 718 +- tibblify-0.4.0/tibblify/NAMESPACE | 208 tibblify-0.4.0/tibblify/NEWS.md | 157 tibblify-0.4.0/tibblify/R/aaa-shared_params.R |only tibblify-0.4.0/tibblify/R/data.R | 45 tibblify-0.4.0/tibblify/R/finalize_tspec_object.R |only tibblify-0.4.0/tibblify/R/format-tib.R |only 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tibblify-0.4.0/tibblify/R/spec_combine.R | 802 +- tibblify-0.4.0/tibblify/R/spec_inform_unspecified.R | 155 tibblify-0.4.0/tibblify/R/spec_prep.R |only tibblify-0.4.0/tibblify/R/spec_prep_recursive.R |only tibblify-0.4.0/tibblify/R/spec_prep_unspecified.R |only tibblify-0.4.0/tibblify/R/tib_spec_basics.R |only tibblify-0.4.0/tibblify/R/tib_spec_class.R |only tibblify-0.4.0/tibblify/R/tib_spec_other.R |only tibblify-0.4.0/tibblify/R/tibblify-package.R | 57 tibblify-0.4.0/tibblify/R/tibblify.R | 488 - tibblify-0.4.0/tibblify/R/tspec.R |only tibblify-0.4.0/tibblify/R/unnest_tree.R |only tibblify-0.4.0/tibblify/R/unpack_tspec.R |only tibblify-0.4.0/tibblify/R/untibblify.R | 309 - tibblify-0.4.0/tibblify/R/utils.R | 561 + tibblify-0.4.0/tibblify/R/zzz.R | 29 tibblify-0.4.0/tibblify/README.md | 637 -- tibblify-0.4.0/tibblify/build/vignette.rds |binary tibblify-0.4.0/tibblify/inst/WORDLIST | 74 tibblify-0.4.0/tibblify/inst/doc/supported-structures.R |only 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tibblify-0.4.0/tibblify/man/dot-check_names_not_duplicated.Rd |only tibblify-0.4.0/tibblify/man/dot-check_names_to.Rd |only tibblify-0.4.0/tibblify/man/dot-check_not_df.Rd |only tibblify-0.4.0/tibblify/man/dot-check_object_list.Rd |only tibblify-0.4.0/tibblify/man/dot-check_object_names.Rd |only tibblify-0.4.0/tibblify/man/dot-check_openapi_version.Rd |only tibblify-0.4.0/tibblify/man/dot-check_parent_col.Rd |only tibblify-0.4.0/tibblify/man/dot-check_parent_id_missing.Rd |only tibblify-0.4.0/tibblify/man/dot-check_parent_ids.Rd |only tibblify-0.4.0/tibblify/man/dot-check_print_names_arg.Rd |only tibblify-0.4.0/tibblify/man/dot-check_self_reference.Rd |only tibblify-0.4.0/tibblify/man/dot-check_tspec_combine_dots.Rd |only tibblify-0.4.0/tibblify/man/dot-check_tspec_combine_type.Rd |only tibblify-0.4.0/tibblify/man/dot-check_unnest_col_diff.Rd |only tibblify-0.4.0/tibblify/man/dot-check_unnest_col_name.Rd |only tibblify-0.4.0/tibblify/man/dot-choose_native_ptype.Rd |only tibblify-0.4.0/tibblify/man/dot-col_guess_required.Rd |only tibblify-0.4.0/tibblify/man/dot-col_to_spec.Rd |only tibblify-0.4.0/tibblify/man/dot-col_to_spec_df.Rd |only tibblify-0.4.0/tibblify/man/dot-collapse_with_pad.Rd |only tibblify-0.4.0/tibblify/man/dot-collect_parts.Rd |only tibblify-0.4.0/tibblify/man/dot-collect_tree_levels.Rd |only tibblify-0.4.0/tibblify/man/dot-combine_processed_fields.Rd |only tibblify-0.4.0/tibblify/man/dot-compat_map_chr.Rd |only tibblify-0.4.0/tibblify/man/dot-data_field_name.Rd |only tibblify-0.4.0/tibblify/man/dot-deprecate_arg.Rd |only tibblify-0.4.0/tibblify/man/dot-df_col_to_spec.Rd |only tibblify-0.4.0/tibblify/man/dot-df_guess_required.Rd |only tibblify-0.4.0/tibblify/man/dot-double_quote.Rd |only tibblify-0.4.0/tibblify/man/dot-drop_empty_lists.Rd |only tibblify-0.4.0/tibblify/man/dot-element_subset_string.Rd |only tibblify-0.4.0/tibblify/man/dot-eval_pull.Rd |only tibblify-0.4.0/tibblify/man/dot-extract_children.Rd |only tibblify-0.4.0/tibblify/man/dot-fast_tibble.Rd |only tibblify-0.4.0/tibblify/man/dot-fields_from_schema_properties.Rd |only tibblify-0.4.0/tibblify/man/dot-finalize_tspec_object.Rd |only tibblify-0.4.0/tibblify/man/dot-flatten_fields.Rd |only tibblify-0.4.0/tibblify/man/dot-forget_parse_schema_memoised.Rd |only tibblify-0.4.0/tibblify/man/dot-format_field_canonical_names.Rd |only tibblify-0.4.0/tibblify/man/dot-format_fields.Rd |only tibblify-0.4.0/tibblify/man/dot-format_fill.Rd |only tibblify-0.4.0/tibblify/man/dot-format_fill_arg.Rd |only tibblify-0.4.0/tibblify/man/dot-format_ptype.Rd |only tibblify-0.4.0/tibblify/man/dot-format_ptype_arg.Rd |only tibblify-0.4.0/tibblify/man/dot-format_ptype_inner.Rd |only tibblify-0.4.0/tibblify/man/dot-format_tib_f.Rd |only tibblify-0.4.0/tibblify/man/dot-format_tib_parts.Rd |only tibblify-0.4.0/tibblify/man/dot-format_unspecified_paths.Rd |only tibblify-0.4.0/tibblify/man/dot-get_openapi_type.Rd |only tibblify-0.4.0/tibblify/man/dot-get_ptype_common.Rd |only tibblify-0.4.0/tibblify/man/dot-get_required.Rd |only tibblify-0.4.0/tibblify/man/dot-get_unspecified_paths.Rd |only tibblify-0.4.0/tibblify/man/dot-guess_object_field_spec.Rd |only tibblify-0.4.0/tibblify/man/dot-guess_object_field_spec_df.Rd |only tibblify-0.4.0/tibblify/man/dot-guess_object_field_spec_expand_fields.Rd |only tibblify-0.4.0/tibblify/man/dot-guess_object_field_spec_expand_fields_df.Rd |only tibblify-0.4.0/tibblify/man/dot-guess_object_field_spec_object.Rd |only tibblify-0.4.0/tibblify/man/dot-guess_object_field_spec_object_list.Rd |only tibblify-0.4.0/tibblify/man/dot-guess_object_field_spec_vector.Rd |only tibblify-0.4.0/tibblify/man/dot-guess_object_list_field_spec.Rd |only tibblify-0.4.0/tibblify/man/dot-guess_object_list_field_spec_dont_simplify.Rd |only tibblify-0.4.0/tibblify/man/dot-guess_object_list_field_spec_flat_to_vector.Rd |only tibblify-0.4.0/tibblify/man/dot-guess_object_list_field_spec_object_list_row.Rd |only tibblify-0.4.0/tibblify/man/dot-guess_object_list_field_spec_vector.Rd |only tibblify-0.4.0/tibblify/man/dot-guess_object_list_spec.Rd |only tibblify-0.4.0/tibblify/man/dot-guess_vector_input_form.Rd |only tibblify-0.4.0/tibblify/man/dot-guess_vector_input_form_field_scalar.Rd |only tibblify-0.4.0/tibblify/man/dot-guess_vector_input_form_null.Rd |only tibblify-0.4.0/tibblify/man/dot-imap_col_to_spec.Rd |only tibblify-0.4.0/tibblify/man/dot-imap_guess_object_field_spec.Rd |only tibblify-0.4.0/tibblify/man/dot-is_field_scalar.Rd |only tibblify-0.4.0/tibblify/man/dot-is_list_of_null.Rd |only tibblify-0.4.0/tibblify/man/dot-is_list_of_object_lists.Rd |only tibblify-0.4.0/tibblify/man/dot-is_object.Rd |only tibblify-0.4.0/tibblify/man/dot-is_object_list.Rd |only tibblify-0.4.0/tibblify/man/dot-is_tib.Rd |only tibblify-0.4.0/tibblify/man/dot-is_tib_name_canonical.Rd |only tibblify-0.4.0/tibblify/man/dot-is_tib_row.Rd |only tibblify-0.4.0/tibblify/man/dot-is_tib_scalar.Rd |only tibblify-0.4.0/tibblify/man/dot-is_tib_unspecified.Rd |only tibblify-0.4.0/tibblify/man/dot-is_tib_variant.Rd |only tibblify-0.4.0/tibblify/man/dot-is_tib_vector.Rd |only tibblify-0.4.0/tibblify/man/dot-is_tspec.Rd |only tibblify-0.4.0/tibblify/man/dot-is_unspecified.Rd |only tibblify-0.4.0/tibblify/man/dot-is_url_string.Rd |only tibblify-0.4.0/tibblify/man/dot-is_vec.Rd |only tibblify-0.4.0/tibblify/man/dot-lgl_to_bullet.Rd |only tibblify-0.4.0/tibblify/man/dot-list_col_to_spec.Rd |only tibblify-0.4.0/tibblify/man/dot-list_is_list_of_null.Rd |only tibblify-0.4.0/tibblify/man/dot-list_of_col_to_spec_df.Rd |only tibblify-0.4.0/tibblify/man/dot-loc_name_helper.Rd |only tibblify-0.4.0/tibblify/man/dot-mark_empty_list_argument.Rd |only tibblify-0.4.0/tibblify/man/dot-maybe_inform_unspecified.Rd |only tibblify-0.4.0/tibblify/man/dot-name_exprs.Rd |only tibblify-0.4.0/tibblify/man/dot-nchar_field_names.Rd |only tibblify-0.4.0/tibblify/man/dot-nest_tree_impl.Rd |only tibblify-0.4.0/tibblify/man/dot-nest_tree_lvl.Rd |only tibblify-0.4.0/tibblify/man/dot-non_list_of_col_to_spec_df.Rd |only tibblify-0.4.0/tibblify/man/dot-normalize_child_col_name.Rd |only tibblify-0.4.0/tibblify/man/dot-normalize_id_col.Rd |only tibblify-0.4.0/tibblify/man/dot-normalize_id_col_name.Rd |only tibblify-0.4.0/tibblify/man/dot-normalize_parent_col.Rd |only tibblify-0.4.0/tibblify/man/dot-openapi_resolve_reference.Rd |only tibblify-0.4.0/tibblify/man/dot-pad.Rd |only tibblify-0.4.0/tibblify/man/dot-parse_header_objects.Rd |only tibblify-0.4.0/tibblify/man/dot-parse_media_type_objects.Rd |only tibblify-0.4.0/tibblify/man/dot-parse_operation_object.Rd |only tibblify-0.4.0/tibblify/man/dot-parse_parameters.Rd |only tibblify-0.4.0/tibblify/man/dot-parse_path_item_object.Rd |only tibblify-0.4.0/tibblify/man/dot-parse_path_item_objects.Rd |only tibblify-0.4.0/tibblify/man/dot-parse_request_body.Rd |only tibblify-0.4.0/tibblify/man/dot-parse_response_object.Rd |only tibblify-0.4.0/tibblify/man/dot-parse_responses_object.Rd |only tibblify-0.4.0/tibblify/man/dot-parse_schema.Rd |only tibblify-0.4.0/tibblify/man/dot-paste_multiline.Rd |only tibblify-0.4.0/tibblify/man/dot-path_to_string.Rd |only tibblify-0.4.0/tibblify/man/dot-prep_complex_field.Rd |only tibblify-0.4.0/tibblify/man/dot-prep_nested_keys.Rd |only tibblify-0.4.0/tibblify/man/dot-prep_simple_field.Rd |only tibblify-0.4.0/tibblify/man/dot-prep_spec_fields.Rd |only tibblify-0.4.0/tibblify/man/dot-prep_tib_fill.Rd |only tibblify-0.4.0/tibblify/man/dot-prep_tib_list_of_ptype.Rd |only tibblify-0.4.0/tibblify/man/dot-prep_tib_scalar.Rd |only tibblify-0.4.0/tibblify/man/dot-prep_tib_vector.Rd |only tibblify-0.4.0/tibblify/man/dot-prep_transform.Rd |only tibblify-0.4.0/tibblify/man/dot-process_complex_fields.Rd |only tibblify-0.4.0/tibblify/man/dot-process_simple_fields.Rd |only tibblify-0.4.0/tibblify/man/dot-read_empty_list_argument.Rd |only tibblify-0.4.0/tibblify/man/dot-read_schema.Rd |only tibblify-0.4.0/tibblify/man/dot-read_spec.Rd |only tibblify-0.4.0/tibblify/man/dot-read_spec_impl.Rd |only tibblify-0.4.0/tibblify/man/dot-reduce_ptype.Rd |only tibblify-0.4.0/tibblify/man/dot-remove_first_key.Rd |only tibblify-0.4.0/tibblify/man/dot-schema_has_ref.Rd |only tibblify-0.4.0/tibblify/man/dot-set_spec.Rd |only tibblify-0.4.0/tibblify/man/dot-shared-params-spec_prep.Rd |only tibblify-0.4.0/tibblify/man/dot-shared-params-tib.Rd |only tibblify-0.4.0/tibblify/man/dot-shared-params-tree.Rd |only tibblify-0.4.0/tibblify/man/dot-shared-params.Rd |only tibblify-0.4.0/tibblify/man/dot-should_force_names.Rd |only tibblify-0.4.0/tibblify/man/dot-sort_spec_by_first_key.Rd |only tibblify-0.4.0/tibblify/man/dot-spec_auto_name_fields.Rd |only tibblify-0.4.0/tibblify/man/dot-spec_inform_unspecified.Rd |only tibblify-0.4.0/tibblify/man/dot-spec_prep.Rd |only tibblify-0.4.0/tibblify/man/dot-spec_prep_nonrecursive.Rd |only tibblify-0.4.0/tibblify/man/dot-spec_prep_recursive.Rd |only tibblify-0.4.0/tibblify/man/dot-spec_prep_unspecified.Rd |only tibblify-0.4.0/tibblify/man/dot-spec_replace_unspecified.Rd |only tibblify-0.4.0/tibblify/man/dot-spec_replace_unspecified_impl.Rd |only tibblify-0.4.0/tibblify/man/dot-spec_replace_unspecified_type.Rd |only tibblify-0.4.0/tibblify/man/dot-stabilize_names_to.Rd |only tibblify-0.4.0/tibblify/man/dot-stabilize_unpack_cols.Rd |only tibblify-0.4.0/tibblify/man/dot-stabilize_values_to.Rd |only tibblify-0.4.0/tibblify/man/dot-stop_colmajor_null.Rd |only tibblify-0.4.0/tibblify/man/dot-stop_colmajor_wrong_size_element.Rd |only tibblify-0.4.0/tibblify/man/dot-stop_duplicate_name.Rd |only tibblify-0.4.0/tibblify/man/dot-stop_empty_name.Rd |only tibblify-0.4.0/tibblify/man/dot-stop_names_is_null.Rd |only tibblify-0.4.0/tibblify/man/dot-stop_non_list_element.Rd |only tibblify-0.4.0/tibblify/man/dot-stop_object_vector_names_is_null.Rd |only tibblify-0.4.0/tibblify/man/dot-stop_required.Rd |only tibblify-0.4.0/tibblify/man/dot-stop_required_colmajor.Rd |only tibblify-0.4.0/tibblify/man/dot-stop_scalar.Rd |only tibblify-0.4.0/tibblify/man/dot-stop_vector_non_list_element.Rd |only tibblify-0.4.0/tibblify/man/dot-stop_vector_wrong_size_element.Rd |only tibblify-0.4.0/tibblify/man/dot-tib_collector.Rd |only tibblify-0.4.0/tibblify/man/dot-tib_combine.Rd |only tibblify-0.4.0/tibblify/man/dot-tib_combine_df.Rd |only tibblify-0.4.0/tibblify/man/dot-tib_combine_fill.Rd |only tibblify-0.4.0/tibblify/man/dot-tib_combine_input_form.Rd |only tibblify-0.4.0/tibblify/man/dot-tib_combine_key.Rd |only tibblify-0.4.0/tibblify/man/dot-tib_combine_names_col.Rd |only tibblify-0.4.0/tibblify/man/dot-tib_combine_ptype.Rd |only tibblify-0.4.0/tibblify/man/dot-tib_combine_required.Rd |only tibblify-0.4.0/tibblify/man/dot-tib_combine_specified.Rd |only tibblify-0.4.0/tibblify/man/dot-tib_combine_transform.Rd |only tibblify-0.4.0/tibblify/man/dot-tib_combine_type.Rd |only tibblify-0.4.0/tibblify/man/dot-tib_combine_vector.Rd |only tibblify-0.4.0/tibblify/man/dot-tib_from_all_of.Rd |only tibblify-0.4.0/tibblify/man/dot-tib_from_any_of.Rd |only tibblify-0.4.0/tibblify/man/dot-tib_from_one_of.Rd |only tibblify-0.4.0/tibblify/man/dot-tib_from_schema_array.Rd |only tibblify-0.4.0/tibblify/man/dot-tib_from_schema_object.Rd |only tibblify-0.4.0/tibblify/man/dot-tib_from_schema_type.Rd |only tibblify-0.4.0/tibblify/man/dot-tib_ptype.Rd |only tibblify-0.4.0/tibblify/man/dot-tib_scalar_impl.Rd |only tibblify-0.4.0/tibblify/man/dot-tib_scalar_or_vector_spec.Rd |only tibblify-0.4.0/tibblify/man/dot-tib_type_of.Rd |only tibblify-0.4.0/tibblify/man/dot-tib_vector_impl.Rd |only tibblify-0.4.0/tibblify/man/dot-tib_vector_input_form.Rd |only tibblify-0.4.0/tibblify/man/dot-tibblify_abort.Rd |only tibblify-0.4.0/tibblify/man/dot-tibblify_impl.Rd |only tibblify-0.4.0/tibblify/man/dot-tibblify_width.Rd |only tibblify-0.4.0/tibblify/man/dot-try_tibblify_impl.Rd |only tibblify-0.4.0/tibblify/man/dot-tspec.Rd |only tibblify-0.4.0/tibblify/man/dot-tspec_combine_field_list.Rd |only tibblify-0.4.0/tibblify/man/dot-tspec_from_all_of.Rd |only tibblify-0.4.0/tibblify/man/dot-tspec_from_one_of.Rd |only tibblify-0.4.0/tibblify/man/dot-tspec_from_schema.Rd |only tibblify-0.4.0/tibblify/man/dot-tspec_from_schema_array.Rd |only tibblify-0.4.0/tibblify/man/dot-tspec_from_schema_object.Rd |only tibblify-0.4.0/tibblify/man/dot-tspec_from_schema_type.Rd |only tibblify-0.4.0/tibblify/man/dot-unchop_children.Rd |only tibblify-0.4.0/tibblify/man/dot-unchop_fields.Rd |only tibblify-0.4.0/tibblify/man/dot-unclass_list_of.Rd |only tibblify-0.4.0/tibblify/man/dot-unpack_field.Rd |only tibblify-0.4.0/tibblify/man/dot-unpack_field_recursive.Rd |only tibblify-0.4.0/tibblify/man/dot-unpack_field_row.Rd |only tibblify-0.4.0/tibblify/man/dot-unpack_fields.Rd |only tibblify-0.4.0/tibblify/man/dot-unpack_fields_impl.Rd |only tibblify-0.4.0/tibblify/man/dot-unpack_key.Rd |only tibblify-0.4.0/tibblify/man/dot-untibblify_df.Rd |only tibblify-0.4.0/tibblify/man/dot-untibblify_list.Rd |only tibblify-0.4.0/tibblify/man/dot-untibblify_list_elt.Rd |only tibblify-0.4.0/tibblify/man/dot-untibblify_row.Rd |only tibblify-0.4.0/tibblify/man/dot-update_required_fields.Rd |only tibblify-0.4.0/tibblify/man/dot-vec_flatten.Rd |only tibblify-0.4.0/tibblify/man/dot-vector_col_to_spec.Rd |only tibblify-0.4.0/tibblify/man/dot-walk_tree_levels.Rd |only tibblify-0.4.0/tibblify/man/dot-with_indexed_errors.Rd |only tibblify-0.4.0/tibblify/man/figures |only tibblify-0.4.0/tibblify/man/formatting.Rd | 164 tibblify-0.4.0/tibblify/man/get_spec.Rd | 43 tibblify-0.4.0/tibblify/man/guess_tspec.Rd | 174 tibblify-0.4.0/tibblify/man/nest_tree.Rd | 86 tibblify-0.4.0/tibblify/man/parse_openapi_spec.Rd | 167 tibblify-0.4.0/tibblify/man/politicians.Rd | 32 tibblify-0.4.0/tibblify/man/reexports.Rd | 38 tibblify-0.4.0/tibblify/man/should_inform_unspecified.Rd | 41 tibblify-0.4.0/tibblify/man/tib_spec.Rd |only tibblify-0.4.0/tibblify/man/tibblify-package.Rd | 63 tibblify-0.4.0/tibblify/man/tibblify.Rd | 153 tibblify-0.4.0/tibblify/man/tspec_combine.Rd | 93 tibblify-0.4.0/tibblify/man/tspec_df.Rd | 206 tibblify-0.4.0/tibblify/man/unnest_tree.Rd | 142 tibblify-0.4.0/tibblify/man/unpack_tspec.Rd | 140 tibblify-0.4.0/tibblify/man/untibblify.Rd | 62 tibblify-0.4.0/tibblify/src/Makevars | 3 tibblify-0.4.0/tibblify/src/Path.h | 46 tibblify-0.4.0/tibblify/src/add-value.c | 111 tibblify-0.4.0/tibblify/src/add-value.h | 55 tibblify-0.4.0/tibblify/src/collector.c | 261 tibblify-0.4.0/tibblify/src/collector.h | 357 + tibblify-0.4.0/tibblify/src/conditions.h | 60 tibblify-0.4.0/tibblify/src/finalize.c | 30 tibblify-0.4.0/tibblify/src/finalize.h | 65 tibblify-0.4.0/tibblify/src/init.c | 43 tibblify-0.4.0/tibblify/src/r-vctrs.c |only 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tibblify-0.4.0/tibblify/src/rlang/decl/walk-decl.h | 65 tibblify-0.4.0/tibblify/src/rlang/df.c | 86 tibblify-0.4.0/tibblify/src/rlang/df.h | 14 tibblify-0.4.0/tibblify/src/rlang/dict.c | 462 - tibblify-0.4.0/tibblify/src/rlang/dict.h | 41 tibblify-0.4.0/tibblify/src/rlang/dots-info.c |only tibblify-0.4.0/tibblify/src/rlang/dots-info.h |only tibblify-0.4.0/tibblify/src/rlang/dyn-array.c | 195 tibblify-0.4.0/tibblify/src/rlang/dyn-array.h | 319 - tibblify-0.4.0/tibblify/src/rlang/dyn-list-of.c | 398 - tibblify-0.4.0/tibblify/src/rlang/dyn-list-of.h | 90 tibblify-0.4.0/tibblify/src/rlang/env-binding.c | 352 - tibblify-0.4.0/tibblify/src/rlang/env-binding.h | 50 tibblify-0.4.0/tibblify/src/rlang/env.c | 477 - tibblify-0.4.0/tibblify/src/rlang/env.h | 150 tibblify-0.4.0/tibblify/src/rlang/eval.c | 265 tibblify-0.4.0/tibblify/src/rlang/eval.h | 375 - tibblify-0.4.0/tibblify/src/rlang/export.c | 25 tibblify-0.4.0/tibblify/src/rlang/export.h | 31 tibblify-0.4.0/tibblify/src/rlang/fn.c | 48 tibblify-0.4.0/tibblify/src/rlang/fn.h | 102 tibblify-0.4.0/tibblify/src/rlang/formula.c | 141 tibblify-0.4.0/tibblify/src/rlang/formula.h | 4 tibblify-0.4.0/tibblify/src/rlang/globals.c | 159 tibblify-0.4.0/tibblify/src/rlang/globals.h | 145 tibblify-0.4.0/tibblify/src/rlang/node.c | 113 tibblify-0.4.0/tibblify/src/rlang/node.h | 111 tibblify-0.4.0/tibblify/src/rlang/obj.c | 197 tibblify-0.4.0/tibblify/src/rlang/obj.h | 161 tibblify-0.4.0/tibblify/src/rlang/parse.c | 39 tibblify-0.4.0/tibblify/src/rlang/parse.h | 4 tibblify-0.4.0/tibblify/src/rlang/quo.c | 12 tibblify-0.4.0/tibblify/src/rlang/quo.h | 4 tibblify-0.4.0/tibblify/src/rlang/rlang-types.h | 181 tibblify-0.4.0/tibblify/src/rlang/rlang.c | 147 tibblify-0.4.0/tibblify/src/rlang/rlang.h | 29 tibblify-0.4.0/tibblify/src/rlang/session.c | 84 tibblify-0.4.0/tibblify/src/rlang/session.h | 4 tibblify-0.4.0/tibblify/src/rlang/stack.c | 113 tibblify-0.4.0/tibblify/src/rlang/stack.h | 9 tibblify-0.4.0/tibblify/src/rlang/state.h | 27 tibblify-0.4.0/tibblify/src/rlang/sym.c | 69 tibblify-0.4.0/tibblify/src/rlang/sym.h | 19 tibblify-0.4.0/tibblify/src/rlang/vec-chr.c | 102 tibblify-0.4.0/tibblify/src/rlang/vec-chr.h | 52 tibblify-0.4.0/tibblify/src/rlang/vec-lgl.c | 163 tibblify-0.4.0/tibblify/src/rlang/vec-lgl.h | 4 tibblify-0.4.0/tibblify/src/rlang/vec.c | 469 - tibblify-0.4.0/tibblify/src/rlang/vec.h | 889 +-- tibblify-0.4.0/tibblify/src/rlang/vendor.c | 3 tibblify-0.4.0/tibblify/src/rlang/vendor.h | 4 tibblify-0.4.0/tibblify/src/rlang/walk.c | 827 +- tibblify-0.4.0/tibblify/src/rlang/walk.h | 191 tibblify-0.4.0/tibblify/src/shape_utils.c |only tibblify-0.4.0/tibblify/src/shape_utils.h |only tibblify-0.4.0/tibblify/src/tibblify.c |only tibblify-0.4.0/tibblify/src/tibblify.h | 46 tibblify-0.4.0/tibblify/src/tibblify_types.h | 7 tibblify-0.4.0/tibblify/src/utils.c | 62 tibblify-0.4.0/tibblify/src/utils.h | 78 tibblify-0.4.0/tibblify/tests/testthat.R | 8 tibblify-0.4.0/tibblify/tests/testthat/_snaps/format-tib.md 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|only tibblify-0.4.0/tibblify/tests/testthat/_snaps/tibblify.md | 252 tibblify-0.4.0/tibblify/tests/testthat/_snaps/tspec.md |only tibblify-0.4.0/tibblify/tests/testthat/_snaps/unnest_tree.md |only tibblify-0.4.0/tibblify/tests/testthat/_snaps/unpack_tspec.md |only tibblify-0.4.0/tibblify/tests/testthat/_snaps/untibblify.md | 41 tibblify-0.4.0/tibblify/tests/testthat/data/format_breaks_long_lines.txt | 14 tibblify-0.4.0/tibblify/tests/testthat/data/format_chr.txt | 2 tibblify-0.4.0/tibblify/tests/testthat/data/format_dat.txt | 2 tibblify-0.4.0/tibblify/tests/testthat/data/format_dbl.txt | 2 tibblify-0.4.0/tibblify/tests/testthat/data/format_does_not_break_short_lines.txt | 8 tibblify-0.4.0/tibblify/tests/testthat/data/format_dtt.txt | 2 tibblify-0.4.0/tibblify/tests/testthat/data/format_guess.txt | 2 tibblify-0.4.0/tibblify/tests/testthat/data/format_lcol_df_complex.txt | 84 tibblify-0.4.0/tibblify/tests/testthat/data/format_lcol_df_simple.txt | 8 tibblify-0.4.0/tibblify/tests/testthat/data/format_lcol_vec.txt | 2 tibblify-0.4.0/tibblify/tests/testthat/data/format_lcols_complex.txt | 96 tibblify-0.4.0/tibblify/tests/testthat/data/format_lcols_default.txt | 10 tibblify-0.4.0/tibblify/tests/testthat/data/format_lcols_simple.txt | 8 tibblify-0.4.0/tibblify/tests/testthat/data/format_lgl.txt | 2 tibblify-0.4.0/tibblify/tests/testthat/data/format_lst.txt | 2 tibblify-0.4.0/tibblify/tests/testthat/data/format_lst_flat.txt | 2 tibblify-0.4.0/tibblify/tests/testthat/data/format_lst_of.txt | 2 tibblify-0.4.0/tibblify/tests/testthat/data/format_skip.txt | 2 tibblify-0.4.0/tibblify/tests/testthat/data/format_vector1.txt | 2 tibblify-0.4.0/tibblify/tests/testthat/data/format_vector2.txt | 2 tibblify-0.4.0/tibblify/tests/testthat/data/format_vector3.txt | 2 tibblify-0.4.0/tibblify/tests/testthat/data/format_vector4.txt | 10 tibblify-0.4.0/tibblify/tests/testthat/fixtures |only tibblify-0.4.0/tibblify/tests/testthat/helper-functions.R | 64 tibblify-0.4.0/tibblify/tests/testthat/helper-guess.R |only tibblify-0.4.0/tibblify/tests/testthat/test-finalize_tspec_object.R |only tibblify-0.4.0/tibblify/tests/testthat/test-format-tib.R |only tibblify-0.4.0/tibblify/tests/testthat/test-format-tibblify_object.R |only tibblify-0.4.0/tibblify/tests/testthat/test-format-tspec.R |only tibblify-0.4.0/tibblify/tests/testthat/test-format-utils.R |only tibblify-0.4.0/tibblify/tests/testthat/test-guess_tspec.R |only tibblify-0.4.0/tibblify/tests/testthat/test-guess_tspec_df.R |only tibblify-0.4.0/tibblify/tests/testthat/test-guess_tspec_list.R |only tibblify-0.4.0/tibblify/tests/testthat/test-guess_tspec_object.R |only tibblify-0.4.0/tibblify/tests/testthat/test-guess_tspec_object_list.R |only tibblify-0.4.0/tibblify/tests/testthat/test-guess_tspec_object_utils.R |only tibblify-0.4.0/tibblify/tests/testthat/test-guess_tspec_utils.R |only tibblify-0.4.0/tibblify/tests/testthat/test-nest_tree.R |only tibblify-0.4.0/tibblify/tests/testthat/test-parse_openapi-read_spec.R |only tibblify-0.4.0/tibblify/tests/testthat/test-parse_openapi.R |only tibblify-0.4.0/tibblify/tests/testthat/test-shape_utils.R | 196 tibblify-0.4.0/tibblify/tests/testthat/test-should_inform_unspecified.R |only tibblify-0.4.0/tibblify/tests/testthat/test-spec_combine.R | 350 - tibblify-0.4.0/tibblify/tests/testthat/test-spec_inform_unspecified.R | 69 tibblify-0.4.0/tibblify/tests/testthat/test-spec_prep.R |only tibblify-0.4.0/tibblify/tests/testthat/test-spec_prep_recursive.R |only tibblify-0.4.0/tibblify/tests/testthat/test-spec_prep_unspecified.R |only tibblify-0.4.0/tibblify/tests/testthat/test-tib_spec_basics.R |only tibblify-0.4.0/tibblify/tests/testthat/test-tib_spec_class.R |only tibblify-0.4.0/tibblify/tests/testthat/test-tib_spec_other.R |only tibblify-0.4.0/tibblify/tests/testthat/test-tibblify.R | 2834 ++++------ tibblify-0.4.0/tibblify/tests/testthat/test-tspec.R |only tibblify-0.4.0/tibblify/tests/testthat/test-unnest_tree.R |only tibblify-0.4.0/tibblify/tests/testthat/test-unpack_tspec.R |only tibblify-0.4.0/tibblify/tests/testthat/test-untibblify.R | 386 - tibblify-0.4.0/tibblify/tests/testthat/test-utils.R |only tibblify-0.4.0/tibblify/vignettes/supported-structures.Rmd |only tibblify-0.4.0/tibblify/vignettes/tibblify.Rmd | 678 +- 551 files changed, 13304 insertions(+), 12645 deletions(-)
Title: Ecological Inference of RxC Tables by Latent Structure
Approaches
Description: Estimates RxC (R by C) vote transfer matrices (ecological contingency tables) from aggregate data building on Thomsen (1987) and Park (2008) approaches.
References:
Park, W.-H. (2008). ''Ecological Inference and Aggregate Analysis of Election''. PhD Dissertation. University of Michigan. <https://deepblue.lib.umich.edu/bitstream/handle/2027.42/58525/wpark_1.pdf>
Pavía, J.M. and Thomsen, S.R. (2025) ''ecolRxC: Ecological inference estimation of RxC tables using latent structure approaches''. Political Science Research and Methods, 13(4), 943-961. <doi:10.1017/psrm.2024.57>
Thomsen, S.R. (1987, ISBN:87-7335-037-2). ''Danish Elections 1920 79: a Logit Approach to Ecological Analysis and Inference''. Politica, Aarhus, Denmark.
Acknowledgements:
The authors wish to thank Generalitat Valenciana (Conselleria de Educacion, Cultura y Universidades), grant CIACIO/2023/031, and Ministerio de Economia e Innovacion, grant PID2021-128228NB-I00, for supporting this research.
Author: Jose M. Pavia [aut, cre] ,
Soeren Risbjerg Thomsen [aut]
Maintainer: Jose M. Pavia <jose.m.pavia@uv.es>
Diff between ecolRxC versions 0.1.1-10 dated 2023-03-31 and 0.1.1-16 dated 2026-05-09
DESCRIPTION | 19 MD5 | 25 NAMESPACE | 2 NEWS.md |only R/RcppExports.R |only R/auxiliary_functions.R | 3569 ++++++++++++++++++++++++++++-------------------- R/ecolRxC.R | 538 +++++-- R/plot.R | 300 ++-- R/summary.R | 2 R/zzz.R |only build |only man/ecolRxC.Rd | 108 - man/summary.ecolRxC.Rd | 2 src |only 14 files changed, 2774 insertions(+), 1791 deletions(-)
Title: Composite Likelihood Inference and Diagnostics for Replicated
Spatial Ordinal Data
Description: Composite likelihood parameter estimate and asymptotic covariance matrix are calculated for the spatial ordinal data with replications, where spatial ordinal response with covariate and both spatial exponential covariance within subject and independent and identically distributed measurement error. Parameter estimation can be performed by either solving the gradient function or maximizing composite log-likelihood. Parametric bootstrapping is used to estimate the Godambe information matrix and hence the asymptotic standard error and covariance matrix with parallel processing option. Moreover, the proposed surrogate residual, which extends the results of Liu and Zhang (2017) <doi: 10.1080/01621459.2017.1292915>, can act as a useful tool for model diagnostics.
Author: Ting Fung Ma [cre, aut],
Pingping Wang [aut],
Jun Zhu [aut],
Dipankar Bandyopadhyay [ctb],
Yincai Tang [ctb]
Maintainer: Ting Fung Ma <tingfung@mailbox.sc.edu>
This is a re-admission after prior archival of version 1.7.0 dated 2022-03-25
Diff between clordr versions 1.7.0 dated 2022-03-25 and 1.7.2 dated 2026-05-09
DESCRIPTION | 17 ++++++++--------- MD5 | 4 ++-- NAMESPACE | 36 ++++++++++++++++++------------------ 3 files changed, 28 insertions(+), 29 deletions(-)
Title: Unified Climate Indices for Temperature, Precipitation, and
Drought
Description: Compute the standard suite of climate indices from daily
weather observations. Provides the canonical 'ETCCDI' 27 (Expert
Team on Climate Change Detection and Indices), the 'ET-SCI'
heatwave and cold-wave families plus the Excess Heat Factor of
Nairn and Fawcett (2013), and agroclimatic, drought, and
human-comfort families. Drought indices ('SPI', 'SPEI') accept a
choice of distribution (gamma or Pearson III for SPI; log-logistic
or generalised extreme value for SPEI). Reference
evapotranspiration is available via Hargreaves and the FAO-56
Penman-Monteith method (Allen et al. 1998). Percentile-based
indices support the Zhang (2005) in-base bootstrap. Daily inputs
are numeric vectors plus a 'Date' vector; outputs are tidy data
frames. Optional gridded support via 'terra' applies any index
over a 'SpatRaster' and reads 'netCDF' input. No external API
calls; pairs with data packages such as 'readnoaa'. References:
Alexander et al. (2006) <doi:10.1029/2005JD006290>; Zhang et al.
(201 [...truncated...]
Author: Charles Coverdale [aut, cre]
Maintainer: Charles Coverdale <charlesfcoverdale@gmail.com>
Diff between climatekit versions 0.1.0 dated 2026-03-23 and 0.2.0 dated 2026-05-09
DESCRIPTION | 42 ++-- MD5 | 94 ++++++--- NAMESPACE | 29 ++ NEWS.md | 121 ++++++++++++ R/agroclimatic.R | 75 +++++-- R/bootstrap.R |only R/compute.R | 24 ++ R/convert.R | 3 R/drought.R | 335 +++++++++++++++++++++++++++++++-- R/ehf.R |only R/gridded.R |only R/heatwave.R |only R/metadata.R | 359 +++++++++++++++++++++++++++++++++++- R/precipitation.R | 121 +++++++++++- R/temperature.R | 356 +++++++++++++++++++++++++++++++++++ R/utils.R | 73 +++++++ README.md | 241 ++++++++++++++++-------- build |only inst |only man/ck_apply_grid.Rd |only man/ck_branas.Rd | 17 + man/ck_browse.Rd |only man/ck_catalogue.Rd |only man/ck_csdi.Rd |only man/ck_cwa.Rd |only man/ck_cwd.Rd |only man/ck_cwf.Rd |only man/ck_cwm.Rd |only man/ck_cwn.Rd |only man/ck_ehf.Rd |only man/ck_etccdi_27.Rd |only man/ck_first_frost.Rd | 11 - man/ck_from_netcdf.Rd |only man/ck_hwa.Rd |only man/ck_hwd.Rd |only man/ck_hwf.Rd |only man/ck_hwm.Rd |only man/ck_hwn.Rd |only man/ck_last_frost.Rd | 10 - man/ck_pet_pm.Rd |only man/ck_r95p.Rd |only man/ck_r99p.Rd |only man/ck_spei.Rd | 7 man/ck_spi.Rd | 23 +- man/ck_tn10p.Rd |only man/ck_tn90p.Rd |only man/ck_tnn.Rd |only man/ck_tnx.Rd |only man/ck_total_precip.Rd | 17 + man/ck_tx10p.Rd |only man/ck_tx90p.Rd |only man/ck_txn.Rd |only man/ck_txx.Rd |only man/ck_warm_spell.Rd | 16 + man/ck_wsdi.Rd |only man/climatekit-package.Rd | 3 tests/testthat/test-agroclimatic.R | 39 +++ tests/testthat/test-compute.R | 140 ++++++++++++++ tests/testthat/test-drought.R | 79 +++++++ tests/testthat/test-ehf.R |only tests/testthat/test-gridded.R |only tests/testthat/test-heatwave.R |only tests/testthat/test-precipitation.R | 83 ++++++++ tests/testthat/test-temperature.R | 233 +++++++++++++++++++++++ vignettes |only 65 files changed, 2357 insertions(+), 194 deletions(-)
Title: Credential Chain for Seamless 'OAuth 2.0' Authentication to
'Azure Services'
Description: Implements a credential chain for 'Azure OAuth 2.0' authentication
based on the package 'httr2''s 'OAuth' framework. Sequentially attempts authentication
methods until one succeeds. During development allows interactive
browser-based flows ('Device Code' and 'Auth Code' flows) and non-interactive
flow ('Client Secret') in batch mode.
Author: Pedro Baltazar [aut, cre]
Maintainer: Pedro Baltazar <pedrobtz@gmail.com>
Diff between azr versions 0.3.3 dated 2026-05-04 and 0.3.4 dated 2026-05-09
azr-0.3.3/azr/man/dot-azr_defaults.Rd |only azr-0.3.3/azr/man/set_azr_defaults.Rd |only azr-0.3.4/azr/DESCRIPTION | 6 azr-0.3.4/azr/MD5 | 43 +++--- azr-0.3.4/azr/NAMESPACE | 4 azr-0.3.4/azr/NEWS.md | 5 azr-0.3.4/azr/R/azure-storage-client.R | 82 ++++++++++-- azr-0.3.4/azr/R/constants.R | 26 +-- azr-0.3.4/azr/R/credential-interactive.R | 13 + azr-0.3.4/azr/R/credential-workload-identity.R |only azr-0.3.4/azr/R/default-credential.R | 129 ++++++++++++------- azr-0.3.4/azr/R/defaults.R | 144 +++++++++++----------- azr-0.3.4/azr/R/utils.R | 66 ++++++---- azr-0.3.4/azr/man/AuthCodeCredential.Rd | 4 azr-0.3.4/azr/man/DeviceCodeCredential.Rd | 4 azr-0.3.4/azr/man/InteractiveCredential.Rd | 5 azr-0.3.4/azr/man/WorkloadIdentityCredential.Rd |only azr-0.3.4/azr/man/api_storage_client.Rd | 17 +- azr-0.3.4/azr/man/azr_storage_client.Rd | 13 + azr-0.3.4/azr/man/azure_storage_endpoints.Rd |only azr-0.3.4/azr/man/default_azure_client_id.Rd | 1 azr-0.3.4/azr/man/default_azure_host.Rd | 1 azr-0.3.4/azr/man/default_azure_tenant_id.Rd | 1 azr-0.3.4/azr/man/default_federated_token_file.Rd |only azr-0.3.4/azr/man/default_storage_endpoint.Rd |only azr-0.3.4/azr/man/environment_variables.Rd | 2 26 files changed, 351 insertions(+), 215 deletions(-)
Title: Ultrahigh-Resolution Mass Spectrometry Data Evaluation for
Complex Organic Matter
Description: Provides tools for assigning molecular formulas from exact masses
obtained by ultrahigh-resolution mass spectrometry. The methodology follows
the workflow described in Leefmann et al. (2019) <doi:10.1002/rcm.8315>.
The package supports the inspection, filtering and visualization of
molecular formula data and includes utilities for calculating common
molecular parameters (e.g., double bond equivalents, DBE). A graphical
user interface is available via the 'shiny'-based 'ume' application.
Author: Boris Koch [aut, cre] ,
Stephan Frickenhaus [ctb] ,
Oliver Lechtenfeld [ctb] ,
Tim Leefmann [ctb] ,
Fabian Moye [ctb]
Maintainer: Boris Koch <boris.koch@awi.de>
Diff between ume versions 1.5.2 dated 2025-12-12 and 1.6.1 dated 2026-05-09
ume-1.5.2/ume/R/extract_metadata_from_UFZ_files.R |only ume-1.5.2/ume/R/plots.R |only ume-1.5.2/ume/R/uplot_dbe_vs_ppm.R |only ume-1.5.2/ume/man/extract_metadata_from_ufz_files.Rd |only ume-1.5.2/ume/man/uplot_dbe_vs_ppm.Rd |only ume-1.6.1/ume/DESCRIPTION | 29 ume-1.6.1/ume/MD5 | 262 ++--- ume-1.6.1/ume/NAMESPACE | 9 ume-1.6.1/ume/NEWS.md | 92 + ume-1.6.1/ume/R/add_known_mf.R | 93 + ume-1.6.1/ume/R/assign_formulas.R | 10 ume-1.6.1/ume/R/build_isotope_map.R |only ume-1.6.1/ume/R/calc_dbe.R | 125 +- ume-1.6.1/ume/R/calc_eval_params.R | 6 ume-1.6.1/ume/R/calc_indeces.R | 202 ++-- ume-1.6.1/ume/R/calc_isotope_pattern.R |only ume-1.6.1/ume/R/calc_ma.R | 18 ume-1.6.1/ume/R/calc_neutral_mass.R | 1 ume-1.6.1/ume/R/calc_nm.R | 5 ume-1.6.1/ume/R/calc_recalibrate_ms.R | 2 ume-1.6.1/ume/R/check_neutral_mf.R |only ume-1.6.1/ume/R/classify_files.R | 2 ume-1.6.1/ume/R/convert_data_table_to_molecular_formulas.R | 306 ++++-- ume-1.6.1/ume/R/convert_molecular_formula_to_data_table.R | 484 ++++++++-- ume-1.6.1/ume/R/create_custom_formula_library.R | 18 ume-1.6.1/ume/R/create_isotope_expanded_table.R |only ume-1.6.1/ume/R/create_ume_formula_library.R | 7 ume-1.6.1/ume/R/data.R | 25 ume-1.6.1/ume/R/eval_isotopes.R | 1 ume-1.6.1/ume/R/export_ume_results.R | 2 ume-1.6.1/ume/R/f_colorz.R | 5 ume-1.6.1/ume/R/get_isotope_info.R | 7 ume-1.6.1/ume/R/global.R | 1 ume-1.6.1/ume/R/inchi_to_mf.R |only ume-1.6.1/ume/R/main_docu.R | 14 ume-1.6.1/ume/R/search_mf_targets.R |only ume-1.6.1/ume/R/theme_uplots.R | 34 ume-1.6.1/ume/R/tools.R | 66 + ume-1.6.1/ume/R/uplot_cluster.R | 8 ume-1.6.1/ume/R/uplot_cvm.R | 152 +-- ume-1.6.1/ume/R/uplot_dbe_minus_o_freq.R | 123 +- ume-1.6.1/ume/R/uplot_dbe_vs_c.R | 121 +- ume-1.6.1/ume/R/uplot_dbe_vs_ma.R |only ume-1.6.1/ume/R/uplot_dbe_vs_o.R | 102 +- ume-1.6.1/ume/R/uplot_freq_ma.R | 140 +- ume-1.6.1/ume/R/uplot_freq_vs_ppm.R | 5 ume-1.6.1/ume/R/uplot_hc_vs_m.R | 4 ume-1.6.1/ume/R/uplot_heteroatoms.R | 2 ume-1.6.1/ume/R/uplot_isotope_precision.R | 50 - ume-1.6.1/ume/R/uplot_kmd.R | 127 +- ume-1.6.1/ume/R/uplot_lcms.R | 2 ume-1.6.1/ume/R/uplot_ma_vs_mz.R | 2 ume-1.6.1/ume/R/uplot_ms.R | 144 +- ume-1.6.1/ume/R/uplot_n_mf_per_sample.R | 2 ume-1.6.1/ume/R/uplot_pca.R | 216 +++- ume-1.6.1/ume/R/uplot_ratios.R | 27 ume-1.6.1/ume/R/uplot_reproducibility.R | 2 ume-1.6.1/ume/R/uplot_ri_vs_sample.R | 2 ume-1.6.1/ume/R/uplot_vk.R | 127 -- ume-1.6.1/ume/R/uplots_layout_internal.R |only ume-1.6.1/ume/R/validate_isotope_presence.R |only ume-1.6.1/ume/README.md | 10 ume-1.6.1/ume/data/known_mf.rda |binary ume-1.6.1/ume/data/nice_labels_dt.rda |binary ume-1.6.1/ume/data/ume_logo_raster.rda |only ume-1.6.1/ume/inst/doc/ume.R | 109 +- ume-1.6.1/ume/inst/doc/ume.Rmd | 152 ++- ume-1.6.1/ume/inst/doc/ume.html | 375 ++++--- ume-1.6.1/ume/man/add_known_mf.Rd | 22 ume-1.6.1/ume/man/as_peaklist.Rd | 98 +- ume-1.6.1/ume/man/assign_formulas.Rd | 10 ume-1.6.1/ume/man/build_isotope_map.Rd |only ume-1.6.1/ume/man/calc_dbe.Rd | 34 ume-1.6.1/ume/man/calc_eval_params.Rd | 9 ume-1.6.1/ume/man/calc_isotope_pattern.Rd |only ume-1.6.1/ume/man/calc_iterr.Rd | 11 ume-1.6.1/ume/man/calc_ma.Rd | 14 ume-1.6.1/ume/man/check_neutral_mf.Rd |only ume-1.6.1/ume/man/check_table_schema.Rd | 44 ume-1.6.1/ume/man/classify_files.Rd | 162 +-- ume-1.6.1/ume/man/convert_data_table_to_molecular_formulas.Rd | 63 - ume-1.6.1/ume/man/convert_molecular_formula_to_data_table.Rd | 68 - ume-1.6.1/ume/man/create_custom_formula_library.Rd | 6 ume-1.6.1/ume/man/create_isotope_expanded_table.Rd |only ume-1.6.1/ume/man/create_ume_formula_library.Rd | 5 ume-1.6.1/ume/man/dot-as_peaklist_from_numeric.Rd | 72 - ume-1.6.1/ume/man/dot-extract_library_version.Rd | 36 ume-1.6.1/ume/man/dot-f_label.Rd | 76 - ume-1.6.1/ume/man/dot-filter_peaklist_basic.Rd | 62 - ume-1.6.1/ume/man/dot-load_peaklist_file.Rd | 66 - ume-1.6.1/ume/man/dot-msg.Rd | 60 - ume-1.6.1/ume/man/dot-palette_builders.Rd | 32 ume-1.6.1/ume/man/dot-prepare_peaklist_columns.Rd | 54 - ume-1.6.1/ume/man/dot-ume_schema_peaklist.Rd | 32 ume-1.6.1/ume/man/dot-uplots_require_columns.Rd |only ume-1.6.1/ume/man/download_library.Rd | 76 - ume-1.6.1/ume/man/eval_isotopes.Rd | 6 ume-1.6.1/ume/man/export_ume_results.Rd | 232 ++-- ume-1.6.1/ume/man/extract_aquisition_params.Rd | 6 ume-1.6.1/ume/man/extract_aquisition_params_from_folder.Rd | 6 ume-1.6.1/ume/man/f_colorz.Rd | 2 ume-1.6.1/ume/man/f_colpal_selection.Rd | 48 ume-1.6.1/ume/man/get_isotope_info.Rd | 6 ume-1.6.1/ume/man/inchi_to_mf.Rd |only ume-1.6.1/ume/man/is_ume_peaklist.Rd | 34 ume-1.6.1/ume/man/load_ume_results.Rd | 66 - ume-1.6.1/ume/man/main_docu.Rd | 14 ume-1.6.1/ume/man/masses.Rd | 6 ume-1.6.1/ume/man/order_columns.Rd | 2 ume-1.6.1/ume/man/read_xml_peaklist.Rd | 4 ume-1.6.1/ume/man/revert_column_names.Rd | 36 ume-1.6.1/ume/man/search_mf_targets.Rd |only ume-1.6.1/ume/man/theme_uplots.Rd | 46 ume-1.6.1/ume/man/ume_assign_formulas.Rd | 4 ume-1.6.1/ume/man/ume_logo_raster.Rd |only ume-1.6.1/ume/man/uplot_cluster.Rd | 6 ume-1.6.1/ume/man/uplot_cvm.Rd | 106 +- ume-1.6.1/ume/man/uplot_dbe_minus_o_freq.Rd | 79 + ume-1.6.1/ume/man/uplot_dbe_vs_c.Rd | 83 + ume-1.6.1/ume/man/uplot_dbe_vs_ma.Rd |only ume-1.6.1/ume/man/uplot_dbe_vs_o.Rd | 87 + ume-1.6.1/ume/man/uplot_freq_ma.Rd | 61 - ume-1.6.1/ume/man/uplot_freq_vs_ppm.Rd | 6 ume-1.6.1/ume/man/uplot_hc_vs_m.Rd | 6 ume-1.6.1/ume/man/uplot_heteroatoms.Rd | 6 ume-1.6.1/ume/man/uplot_isotope_precision.Rd | 58 + ume-1.6.1/ume/man/uplot_kmd.Rd | 105 +- ume-1.6.1/ume/man/uplot_lcms.Rd | 6 ume-1.6.1/ume/man/uplot_ma_vs_mz.Rd | 6 ume-1.6.1/ume/man/uplot_ms.Rd | 33 ume-1.6.1/ume/man/uplot_n_mf_per_sample.Rd | 6 ume-1.6.1/ume/man/uplot_pca.Rd | 66 - ume-1.6.1/ume/man/uplot_ratios.Rd | 18 ume-1.6.1/ume/man/uplot_reproducibility.Rd | 6 ume-1.6.1/ume/man/uplot_ri_vs_sample.Rd | 6 ume-1.6.1/ume/man/uplot_vk.Rd | 35 ume-1.6.1/ume/man/uplot_wrapper.Rd |only ume-1.6.1/ume/man/uplots_add_ume_label.Rd |only ume-1.6.1/ume/man/uplots_add_ume_logo.Rd |only ume-1.6.1/ume/man/uplots_map_labels.Rd |only ume-1.6.1/ume/man/validate_isotope_presence.Rd |only ume-1.6.1/ume/man/validate_peaklist.Rd | 120 +- ume-1.6.1/ume/tests/testthat/test-add_known_mf.R |only ume-1.6.1/ume/tests/testthat/test-convert_molecular_formula_to_data_table.R | 85 + ume-1.6.1/ume/tests/testthat/test-create_isotope_expanded_table.R |only ume-1.6.1/ume/tests/testthat/test-validate_isotope_presence.R |only ume-1.6.1/ume/vignettes/ume.Rmd | 152 ++- ume-1.6.1/ume/vignettes/vignette_ume.pdf |binary 148 files changed, 4115 insertions(+), 2487 deletions(-)
Title: Connect to ODBC Compatible Databases (using the DBI Interface)
Description: A DBI-compatible interface to ODBC databases.
Author: Jim Hester [aut],
Hadley Wickham [aut, cre],
Oliver Gjoneski [aut],
Simon Couch [aut],
lexicalunit [cph] ,
Google Inc. [cph] ,
Posit Software, PBC [cph, fnd]
Maintainer: Hadley Wickham <hadley@posit.co>
Diff between odbc versions 1.6.4.1 dated 2025-12-24 and 1.7.0 dated 2026-05-09
DESCRIPTION | 14 - MD5 | 76 ++++---- NAMESPACE | 3 NEWS.md | 52 +++++ R/connection-pane.R | 31 --- R/dbi-connection.R | 3 R/dbi-result.R | 7 R/dbi-table.R | 8 R/driver-databricks.R | 232 +++++++++++++++++++++--- R/driver-oracle.R | 2 R/driver-snowflake.R | 153 +++++++++++----- R/driver-sql-server.R | 10 - R/odbc-connection.R | 42 ---- R/utils.R | 75 +++++++- build/vignette.rds |binary configure | 15 - inst/doc/develop.Rmd | 2 inst/doc/develop.html | 4 man/Oracle.Rd | 2 man/SQLServer.Rd | 8 man/databricks.Rd | 27 +- man/driver-Snowflake.Rd | 4 man/odbcConnectionActions.Rd | 2 man/odbcConnectionColumns.Rd | 4 man/odbcConnectionIcon.Rd | 1 man/snowflake.Rd | 16 + src/nanodbc/nanodbc.cpp | 22 ++ src/odbc_result.cpp | 91 +++++++-- src/odbc_result.h | 40 ++++ src/utils.cpp | 11 - src/utils.h | 11 - tests/testthat/_snaps/driver-databricks.md | 66 ++++++- tests/testthat/_snaps/driver-snowflake.md | 12 - tests/testthat/test-driver-databricks.R | 219 +++++++++++++++++++++++ tests/testthat/test-driver-snowflake.R | 271 ++++++++++++++++++++++++++++- tests/testthat/test-driver-sql-server.R | 46 ++++ tests/testthat/test-odbc-connection.R | 33 --- tests/testthat/test-utils.R | 50 +++++ vignettes/develop.Rmd | 2 39 files changed, 1348 insertions(+), 319 deletions(-)
Title: Data Cleaner for Anthropometric Measurements
Description: Identifies implausible anthropometric (e.g., height,
weight) measurements in irregularly spaced longitudinal datasets, such as those from electronic health records.
Author: Carrie Daymont [ctb, cre],
Robert Grundmeier [aut],
Jeffrey Miller [aut],
Diego Campos [aut],
Dan Chudnov [ctb],
Hannah De los Santos [ctb],
Lusha Cao [ctb],
Steffani Silva [ctb],
Hanzhe Zhang [ctb],
Matt Boyas [ctb],
David Freedman [ctb],
Andreas Ac [...truncated...]
Maintainer: Carrie Daymont <cdaymont@pennstatehealth.psu.edu>
Diff between growthcleanr versions 2.2.1 dated 2026-02-18 and 2.2.3 dated 2026-05-09
growthcleanr-2.2.1/growthcleanr/inst/extdata/fentlms_foraga.csv.gz |only growthcleanr-2.2.1/growthcleanr/inst/extdata/fentlms_forz.csv.gz |only growthcleanr-2.2.1/growthcleanr/man/fentlms_foraga.Rd |only growthcleanr-2.2.1/growthcleanr/man/fentlms_forz.Rd |only growthcleanr-2.2.3/growthcleanr/DESCRIPTION | 6 - growthcleanr-2.2.3/growthcleanr/MD5 | 18 +-- growthcleanr-2.2.3/growthcleanr/NEWS.md | 13 ++ growthcleanr-2.2.3/growthcleanr/R/extdata.R | 23 ++-- growthcleanr-2.2.3/growthcleanr/R/growth.R | 48 +++++----- growthcleanr-2.2.3/growthcleanr/README.md | 10 -- growthcleanr-2.2.3/growthcleanr/inst/extdata/ref_for_corraga.csv.gz |only growthcleanr-2.2.3/growthcleanr/inst/extdata/ref_for_corrz.csv.gz |only growthcleanr-2.2.3/growthcleanr/man/ref_for_corraga.Rd |only growthcleanr-2.2.3/growthcleanr/man/ref_for_corrz.Rd |only 14 files changed, 65 insertions(+), 53 deletions(-)
Title: Graphical Diagnostics for Pharmacometric Models: Extension to
'nlmixr2'
Description: Extension to 'xpose' to support 'nlmixr2'. Provides functions to import 'nlmixr2' fit data into an 'xpose' data object, allowing the use of 'xpose' for 'nlmixr2' model diagnostics.
Author: Justin Wilkins [aut, cre, cph],
Matthew Fidler [aut, cph],
Benjamin Guiastrennec [aut],
Andrew C. Hooker [aut],
Anna Olofsson [aut, cph],
Sebastian Ueckert [aut],
Ron Keizer [aut],
Kajsa Harling [ctb],
Mike K. Smith [ctb],
Elodie Plan [ctb],
Mats O. [...truncated...]
Maintainer: Justin Wilkins <justin.wilkins@occams.com>
Diff between xpose.nlmixr2 versions 0.4.1 dated 2025-06-27 and 0.4.2 dated 2026-05-09
DESCRIPTION | 11 - MD5 | 17 +- NEWS.md | 8 + R/nlmixr_vpc_theme.R | 44 +++--- R/summarise_nlmixr_model.R | 318 +++++++++++++++++++++++++++++---------------- R/theme_xp_nlmixr.R | 153 +++++++++++---------- R/xpose_data_nlmixr.R | 266 +++++++++++++++++++++++++++---------- man/xpose_data_nlmixr2.Rd | 4 tests |only 9 files changed, 529 insertions(+), 292 deletions(-)
Title: Create Waterfall Charts using 'ggplot2' Simply
Description: A not uncommon task for quants is to create 'waterfall charts'. There seems to be no simple way to do this in 'ggplot2' currently. This package contains a single function (waterfall) that simply draws a waterfall chart in a 'ggplot2' object. Some flexibility is provided, though often the object created will need to be modified through a theme.
Author: Hugh Parsonage [aut, cre]
Maintainer: Hugh Parsonage <hugh.parsonage+waterfall@gmail.com>
Diff between waterfalls versions 1.0.0 dated 2022-11-20 and 1.1.4 dated 2026-05-09
DESCRIPTION | 16 +++++++++----- MD5 | 9 ++++---- NAMESPACE | 1 NEWS.md | 10 +++++++++ R/rlang-imports.R |only R/waterfall.R | 60 ++++++++++++++++++++++++++++++++++++++++-------------- 6 files changed, 71 insertions(+), 25 deletions(-)
Title: Parse 'User-Agent' Strings
Description: Despite there being a section in RFC 7231
<https://datatracker.ietf.org/doc/html/rfc7231#section-5.5.3> defining a suggested
structure for 'User-Agent' headers this data is notoriously difficult
to parse consistently. Tools are provided that will take in user agent
strings and return structured R objects. This is a 'V8'-backed package
based on the 'ua-parser' project <https://github.com/ua-parser>.
Author: Bob Rudis [aut, cph],
Greg Hunt [aut, cre, cph],
Lindsey Simon [aut] ,
Tobie Langel [aut] ,
Colman Humphrey [ctb]
Maintainer: Greg Hunt <greg@firmansyah.com>
Diff between uaparserjs versions 0.3.7 dated 2026-04-01 and 0.3.8 dated 2026-05-09
DESCRIPTION | 8 MD5 | 8 NEWS.md | 3 inst/js/bundle.js | 2 inst/tinytest/tests/test_ua.yaml | 420 +++++++++++++++++++++++++++++++++++++++ 5 files changed, 432 insertions(+), 9 deletions(-)
Title: Calculate and Map Distances Between Phylogenetic Trees
Description: Implements measures of tree similarity, including
information-based generalized Robinson-Foulds distances
(Phylogenetic Information Distance, Clustering Information Distance,
Matching Split Information Distance; Smith 2020)
<doi:10.1093/bioinformatics/btaa614>;
Jaccard-Robinson-Foulds distances (Bocker et al. 2013)
<doi:10.1007/978-3-642-40453-5_13>,
including the Nye et al. (2006) metric <doi:10.1093/bioinformatics/bti720>;
the Matching Split Distance (Bogdanowicz & Giaro 2012)
<doi:10.1109/TCBB.2011.48>;
the Hierarchical Mutual Information (Perotti et al. 2015)
<doi:10.1103/PhysRevE.92.062825>;
Maximum Agreement Subtree distances;
the Kendall-Colijn (2016) distance <doi:10.1093/molbev/msw124>, and the
Nearest Neighbour Interchange (NNI) distance, approximated per Li et al.
(1996) <doi:10.1007/3-540-61332-3_168>.
Includes tools for visualizing mappings of tree space (Smith 2022)
<doi:10.1093/sysbio/syab100>,
for identifying islands o [...truncated...]
Author: Martin R. Smith [aut, cre, cph, prg] ,
Roy Jonker [prg, cph] ,
Yong Yang [ctb, cph] ,
Yi Cao [ctb, cph] ,
Neil Kaye [cph]
Maintainer: Martin R. Smith <martin.smith@durham.ac.uk>
Diff between TreeDist versions 2.12.0 dated 2026-02-13 and 2.14.0 dated 2026-05-09
TreeDist-2.12.0/TreeDist/tests/testthat/test-real-data.R |only TreeDist-2.14.0/TreeDist/DESCRIPTION | 21 TreeDist-2.14.0/TreeDist/MD5 | 384 TreeDist-2.14.0/TreeDist/NAMESPACE | 456 - TreeDist-2.14.0/TreeDist/NEWS.md | 122 TreeDist-2.14.0/TreeDist/R/3Dplot.R | 202 TreeDist-2.14.0/TreeDist/R/HPart.R | 352 TreeDist-2.14.0/TreeDist/R/Information.R | 760 - TreeDist-2.14.0/TreeDist/R/Islands.R | 156 TreeDist-2.14.0/TreeDist/R/MSTSegments.R | 158 TreeDist-2.14.0/TreeDist/R/Plot3.R | 168 TreeDist-2.14.0/TreeDist/R/RcppExports.R | 453 TreeDist-2.14.0/TreeDist/R/Reduce.R | 134 TreeDist-2.14.0/TreeDist/R/TreeDist-package.R | 286 TreeDist-2.14.0/TreeDist/R/VisualizeMatching.R | 450 TreeDist-2.14.0/TreeDist/R/cluster_stats.R | 548 - TreeDist-2.14.0/TreeDist/R/hierarchical_mutual_information.R | 366 TreeDist-2.14.0/TreeDist/R/kmeanspp.R | 208 TreeDist-2.14.0/TreeDist/R/lap.R | 130 TreeDist-2.14.0/TreeDist/R/median.R | 172 TreeDist-2.14.0/TreeDist/R/parallel.R | 198 TreeDist-2.14.0/TreeDist/R/plot.R | 150 TreeDist-2.14.0/TreeDist/R/shiny.R | 258 TreeDist-2.14.0/TreeDist/R/spectral_clustering.R | 162 TreeDist-2.14.0/TreeDist/R/transfer_consensus.R |only TreeDist-2.14.0/TreeDist/R/tree_distance.R | 472 - 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Title: Transformation Models
Description: Formula-based user-interfaces to specific transformation models
implemented in package 'mlt' (<DOI:10.32614/CRAN.package.mlt>, <DOI:10.32614/CRAN.package.mlt.docreg>).
Available models include Cox models, some parametric
survival models (Weibull, etc.), models for ordered categorical variables,
normal and non-normal (Box-Cox type) linear models, and continuous outcome logistic regression
(Lohse et al., 2017, <DOI:10.12688/f1000research.12934.1>). The underlying theory
is described in Hothorn et al. (2018) <DOI:10.1111/sjos.12291>. An extension to
transformation models for clustered data is provided (Barbanti and Hothorn, 2022,
<DOI:10.1093/biostatistics/kxac048>) and a tutorial explains applications in survival analysis
(Siegfried et al., 2025, <DOI:10.48550/arXiv.2402.06428>). Multivariate conditional transformation models
(Klein et al, 2022, <DOI:10.1111/sjos.12501>) and shift-scale transformation models (Siegfried et al, 2023,
<DOI:10.108 [...truncated...]
Author: Torsten Hothorn [aut, cre] ,
Luisa Barbanti [ctb] ,
Sandra Siegfried [aut] ,
Lucas Kook [aut] ,
Susanne Dandl [ctb] ,
Brian Ripley [ctb],
Bill Venables [ctb],
Douglas M. Bates [ctb],
Nadja Klein [ctb]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between tram versions 1.4-1 dated 2026-03-08 and 1.4-2 dated 2026-05-09
DESCRIPTION | 13 MD5 | 64 - NAMESPACE | 3 R/methods.R | 1 R/mmlt.R | 73 + build/partial.rdb |binary demo/NAMI.Rout.save | 109 +- demo/hcc.R | 1055 +++++++++++++++++++ demo/hcc.Rout.save | 1459 +++++++++++++++++++++------ demo/mtram.Rout.save | 70 - demo/npb.R | 1775 +++++++++++++++++++++++++++++++++ demo/npb.Rout.save | 2225 ++++++++++++++++++++++++++++++------------ demo/npn.R | 303 +++++ demo/npn.Rout.save | 311 +++++ demo/survtram.Rout.save | 267 +---- demo/undernutrition.Rout.save | 33 inst/NEWS.Rd | 8 inst/REFERENCES.bib | 13 inst/doc/NAMI.pdf |binary inst/doc/mtram.R | 724 +++++++++++++ inst/doc/mtram.pdf |binary inst/doc/survtram.pdf |binary inst/doc/tram.pdf |binary inst/npnsimulations |only man/perm_test.Rd | 28 tests/bugfixes.R | 11 tests/stram-Ex.Rout.save | 7 27 files changed, 7314 insertions(+), 1238 deletions(-)
Title: Extension to 'tmap' for Creating Network Visualizations
Description: Provides functions for visualizing networks with 'tmap'. It supports 'sfnetworks' objects natively but is not limited to them. Useful for adding network layers such as edges and nodes to 'tmap' maps. More features may be added in future versions.
Author: Martijn Tennekes [aut, cre],
Andrea Gilardi [aut] ,
Robin Lovelace [ctb]
Maintainer: Martijn Tennekes <mtennekes@gmail.com>
Diff between tmap.networks versions 0.1 dated 2025-05-30 and 0.2 dated 2026-05-09
DESCRIPTION | 10 - MD5 | 34 +++-- NAMESPACE | 16 ++ NEWS | 243 +------------------------------------ R/onLoad.R | 16 +- R/sublines.R |only R/tm_layers_edges.R | 10 + R/tm_layers_nodes.R | 5 R/tmapGridDataPlot.R |only R/tmapLeafletDataPlot.R |only R/tmapMapboxDataPlot.R |only R/tmapMaplibreDataPlot.R |only R/tmapShape_linnet.R |only R/tmapShape_sfnetworks.R | 12 + man/internal_network.Rd |only man/tm_edges.Rd | 13 + man/tm_network.Rd | 5 man/tm_nodes.Rd | 10 + man/tmapGetShapeMeta1.linnet.Rd |only man/tmapGetShapeMeta1.sfnetwork.Rd | 2 man/tmapGetShapeMeta2.linnet.Rd |only man/tmapShape.sfnetwork.Rd | 14 +- man/tmapSubsetShp.linnet.Rd |only 23 files changed, 119 insertions(+), 271 deletions(-)
Title: Extensions to 'tmap' with Two New Modes: 'mapbox' and 'maplibre'
Description: The 'tmap' package provides two plotting modes for static and interactive thematic maps. This package extends 'tmap' with two additional modes based on 'Mapbox GL JS' and 'MapLibre GL JS'. These modes feature interactive vector tiles, globe views, and other modern web-mapping capabilities, while maintaining a consistent 'tmap' interface across all plotting modes.
Author: Martijn Tennekes [aut, cre]
Maintainer: Martijn Tennekes <mtennekes@gmail.com>
Diff between tmap.mapgl versions 0.1.0 dated 2025-09-22 and 0.2-1 dated 2026-05-09
tmap.mapgl-0.1.0/tmap.mapgl/R/mapgl_components.R |only tmap.mapgl-0.2-1/tmap.mapgl/DESCRIPTION | 10 tmap.mapgl-0.2-1/tmap.mapgl/MD5 | 47 tmap.mapgl-0.2-1/tmap.mapgl/NAMESPACE | 18 tmap.mapgl-0.2-1/tmap.mapgl/NEWS | 15 tmap.mapgl-0.2-1/tmap.mapgl/R/from_tmap.R | 227 ++++ tmap.mapgl-0.2-1/tmap.mapgl/R/global-variables.R |only tmap.mapgl-0.2-1/tmap.mapgl/R/mapgl_comp_leg.R | 3 tmap.mapgl-0.2-1/tmap.mapgl/R/mapgl_draw.R |only tmap.mapgl-0.2-1/tmap.mapgl/R/mapgl_geocoder.R |only tmap.mapgl-0.2-1/tmap.mapgl/R/mapgl_init.R | 1 tmap.mapgl-0.2-1/tmap.mapgl/R/mapgl_layers.R | 959 +++++++++++++----- tmap.mapgl-0.2-1/tmap.mapgl/R/mapgl_legend.R | 85 + tmap.mapgl-0.2-1/tmap.mapgl/R/mapgl_misc.R | 23 tmap.mapgl-0.2-1/tmap.mapgl/R/mapgl_run.R | 65 + tmap.mapgl-0.2-1/tmap.mapgl/R/mapgl_shape.R | 2 tmap.mapgl-0.2-1/tmap.mapgl/R/onload.R | 22 tmap.mapgl-0.2-1/tmap.mapgl/R/tm_fullscreen.R |only tmap.mapgl-0.2-1/tmap.mapgl/R/tm_mapbox.R | 10 tmap.mapgl-0.2-1/tmap.mapgl/R/tmapMapboxDataPlot.R | 32 tmap.mapgl-0.2-1/tmap.mapgl/R/tmapMaplibreDataPlot.R | 32 tmap.mapgl-0.2-1/tmap.mapgl/man/tm_draw.Rd |only tmap.mapgl-0.2-1/tmap.mapgl/man/tm_fullscreen.Rd |only tmap.mapgl-0.2-1/tmap.mapgl/man/tm_geocoder.Rd | 10 tmap.mapgl-0.2-1/tmap.mapgl/man/tm_mapbox.Rd | 10 tmap.mapgl-0.2-1/tmap.mapgl/man/tm_maplibre.Rd | 8 tmap.mapgl-0.2-1/tmap.mapgl/man/tmap.mapgl-package.Rd | 2 tmap.mapgl-0.2-1/tmap.mapgl/man/tmapMapbox.Rd | 79 + 28 files changed, 1318 insertions(+), 342 deletions(-)
Title: Extension to 'tmap' for Creating Glyphs
Description: Provides new layer functions to 'tmap' for drawing glyphs. A glyph is a small chart (e.g., donut chart) shown at specific map locations to visualize multivariate or time-series data. The functions work with the syntax of 'tmap' and allow flexible control over size, layout, and appearance.
Author: Martijn Tennekes [aut, cre]
Maintainer: Martijn Tennekes <mtennekes@gmail.com>
Diff between tmap.glyphs versions 0.1 dated 2025-05-30 and 0.1-1 dated 2026-05-09
tmap.glyphs-0.1-1/tmap.glyphs/DESCRIPTION | 10 +-- tmap.glyphs-0.1-1/tmap.glyphs/MD5 | 27 ++++---- tmap.glyphs-0.1-1/tmap.glyphs/NAMESPACE | 11 ++- tmap.glyphs-0.1-1/tmap.glyphs/NEWS | 7 +- tmap.glyphs-0.1-1/tmap.glyphs/R/grob_functions.R | 2 tmap.glyphs-0.1-1/tmap.glyphs/R/onload.R | 19 +----- tmap.glyphs-0.1-1/tmap.glyphs/R/tm_layer_donuts.R | 44 ++++++++++++-- tmap.glyphs-0.1-1/tmap.glyphs/R/tm_layer_flowers.R | 6 + tmap.glyphs-0.1-1/tmap.glyphs/R/tmapGridDonuts.R | 39 +++++------- tmap.glyphs-0.1-1/tmap.glyphs/R/tmapGridFlowers.R | 30 +++++---- tmap.glyphs-0.1-1/tmap.glyphs/man/internals_glyphs.Rd |only tmap.glyphs-0.1-1/tmap.glyphs/man/tm_donuts.Rd | 44 ++++++++++++-- tmap.glyphs-0.1-1/tmap.glyphs/man/tm_flowers.Rd | 3 tmap.glyphs-0.1-1/tmap.glyphs/man/tmapScaleComposition.Rd | 3 tmap.glyphs-0.1/tmap.glyphs/man/tmapGridDonuts.Rd |only tmap.glyphs-0.1/tmap.glyphs/man/tmapGridFlowers.Rd |only 16 files changed, 158 insertions(+), 87 deletions(-)
Title: Extension to 'tmap' for Creating Cartograms
Description: Provides new layer functions to 'tmap' for creating various types of cartograms. A cartogram is a type of thematic map in which geographic areas are resized or distorted based on a quantitative variable, such as population. The goal is to make the area sizes proportional to the selected variable while preserving geographic positions as much as possible.
Author: Martijn Tennekes [aut, cre],
Sebastian Jeworutzki [ctb]
Maintainer: Martijn Tennekes <mtennekes@gmail.com>
Diff between tmap.cartogram versions 0.2 dated 2025-05-14 and 0.2-1 dated 2026-05-09
DESCRIPTION | 10 +++++----- MD5 | 17 +++++++++++------ NAMESPACE | 12 ++++++++++++ NEWS | 3 +++ R/onload.R | 3 +++ R/tm_layers_cartogram.R | 9 +++++++-- R/tmapGridDataPlot.R |only R/tmapLeafletDataPlot.R |only R/tmapMapboxDataPlot.R |only R/tmapMaplibreDataPlot.R |only R/tmapTransCartogram.R | 3 +++ man/internal_cartogram.Rd |only 12 files changed, 44 insertions(+), 13 deletions(-)
More information about tmap.cartogram at CRAN
Permanent link
Title: Multidimensional Penalized Splines for (Excess) Hazard Models,
Relative Mortality Ratio Models and Marginal Intensity Models
Description: Fits (excess) hazard, relative mortality ratio or marginal intensity models with multidimensional penalized splines allowing for
time-dependent effects, non-linear effects and interactions between several continuous covariates. In survival and net survival analysis, in addition to modelling the effect of time (via the baseline hazard), one has often to deal with several continuous covariates and model their functional forms, their time-dependent effects, and their interactions. Model specification becomes therefore a complex problem and penalized regression splines represent an appealing solution to that problem as splines offer the required flexibility while penalization limits overfitting issues. Current implementations of penalized survival models can be slow or unstable and sometimes lack some key features like taking into account expected mortality to provide net survival and excess hazard estimates. In contrast, survPen provides an automated, fast, and stable implementation (than [...truncated...]
Author: Mathieu Fauvernier [aut, cre],
Laurent Roche [aut],
Laurent Remontet [aut],
Zoe Uhry [ctb],
Nadine Bossard [ctb],
Elsa Coz [ctb]
Maintainer: Mathieu Fauvernier <mathieu.fauvernier@gmail.com>
Diff between survPen versions 2.0.3 dated 2026-03-20 and 2.0.4 dated 2026-05-09
survPen-2.0.3/survPen/R/survPenV2_03.r |only survPen-2.0.4/survPen/DESCRIPTION | 9 survPen-2.0.4/survPen/MD5 | 88 survPen-2.0.4/survPen/NEWS | 14 survPen-2.0.4/survPen/R/survPenV2_04.r |only survPen-2.0.4/survPen/build/vignette.rds |binary survPen-2.0.4/survPen/inst/doc/survival_analysis_with_survPen.R | 78 survPen-2.0.4/survPen/inst/doc/survival_analysis_with_survPen.Rmd | 440 - survPen-2.0.4/survPen/inst/doc/survival_analysis_with_survPen.html | 3839 +++++----- survPen-2.0.4/survPen/man/HeartFailure.Rd | 2 survPen-2.0.4/survPen/man/NR.beta.Rd | 2 survPen-2.0.4/survPen/man/NR.rho.Rd | 2 survPen-2.0.4/survPen/man/constraint.Rd | 2 survPen-2.0.4/survPen/man/cor.var.Rd | 2 survPen-2.0.4/survPen/man/crs.FP.Rd | 2 survPen-2.0.4/survPen/man/crs.Rd | 2 survPen-2.0.4/survPen/man/datCancer.Rd | 2 survPen-2.0.4/survPen/man/design.matrix.Rd | 2 survPen-2.0.4/survPen/man/expected.table.Rd | 2 survPen-2.0.4/survPen/man/instr.Rd | 2 survPen-2.0.4/survPen/man/inv.repam.Rd | 2 survPen-2.0.4/survPen/man/list.wicss.Rd | 2 survPen-2.0.4/survPen/man/model.cons.Rd | 2 survPen-2.0.4/survPen/man/predSNS.Rd | 2 survPen-2.0.4/survPen/man/predict.survPen.Rd | 2 survPen-2.0.4/survPen/man/print.summary.survPen.Rd | 2 survPen-2.0.4/survPen/man/pwcst.Rd | 2 survPen-2.0.4/survPen/man/rd.Rd | 2 survPen-2.0.4/survPen/man/repam.Rd | 2 survPen-2.0.4/survPen/man/robust.var.Rd | 6 survPen-2.0.4/survPen/man/smf.Rd | 2 survPen-2.0.4/survPen/man/smooth.cons.Rd | 2 survPen-2.0.4/survPen/man/smooth.cons.integral.Rd | 2 survPen-2.0.4/survPen/man/smooth.spec.Rd | 2 survPen-2.0.4/survPen/man/splitmult.Rd | 2 survPen-2.0.4/survPen/man/summary.survPen.Rd | 2 survPen-2.0.4/survPen/man/survPen.Rd | 5 survPen-2.0.4/survPen/man/survPen.fit.Rd | 2 survPen-2.0.4/survPen/man/survPenObject.Rd | 5 survPen-2.0.4/survPen/man/tensor.in.Rd | 2 survPen-2.0.4/survPen/man/tensor.prod.S.Rd | 2 survPen-2.0.4/survPen/man/tensor.prod.X.Rd | 2 survPen-2.0.4/survPen/vignettes/survival_analysis_with_survPen.Rmd | 440 - survPen-2.0.4/survPen/vignettes/survival_analysis_with_survPen_files/figure-html/unnamed-chunk-51-1.png |binary survPen-2.0.4/survPen/vignettes/survival_analysis_with_survPen_files/figure-html/unnamed-chunk-55-1.png |only survPen-2.0.4/survPen/vignettes/survival_analysis_with_survPen_files/figure-html/unnamed-chunk-56-1.png |only survPen-2.0.4/survPen/vignettes/survival_analysis_with_survPen_files/figure-html/unnamed-chunk-8-1.png |binary 47 files changed, 2969 insertions(+), 2015 deletions(-)
Title: Classes and Methods for Simple Feature Objects that Have a Time
Column
Description: Classes and methods for spatial objects that have a registered time
column, in particular for irregular spatiotemporal data. The time column can
be of any type, but needs to be ordinal. Regularly laid out spatiotemporal
data (vector or raster data cubes) are handled by package 'stars'.
Author: Henning Teickner [aut, cre, cph] ,
Edzer Pebesma [aut, cph] ,
Benedikt Graeler [aut, cph]
Maintainer: Henning Teickner <henning.teickner@uni-muenster.de>
Diff between sftime versions 0.3.1 dated 2025-08-19 and 0.3.2 dated 2026-05-09
DESCRIPTION | 15 +-- MD5 | 28 +++--- NEWS.md | 4 R/bind.R | 4 R/st_cast.R | 8 - R/tidyverse.R | 76 ++++++++-------- build/vignette.rds |binary inst/doc/sftime.R | 15 +-- inst/doc/sftime.Rmd | 13 +- inst/doc/sftime.html | 217 +++++++++++++++++++++++------------------------- man/bind.Rd | 4 man/st_cast.Rd | 6 - man/tidyverse.Rd | 100 +++++++++------------- man/transform.sftime.Rd | 2 vignettes/sftime.Rmd | 13 +- 15 files changed, 243 insertions(+), 262 deletions(-)
Title: Methods for Statistical Disclosure Control in Tabular Data
Description: Methods for statistical disclosure control in
tabular data such as primary and secondary cell suppression as described for example
in Hundepol et al. (2012) <doi:10.1002/9781118348239> are covered in this package.
Author: Bernhard Meindl [aut, cre]
Maintainer: Bernhard Meindl <bernhard.meindl@gmail.com>
Diff between sdcTable versions 0.33.0 dated 2025-06-26 and 0.34.0 dated 2026-05-09
sdcTable-0.33.0/sdcTable/vignettes/sdcTable_cache/html/unnamed-chunk-32_ed04826a45385829443b395284217f1d.RData |only sdcTable-0.33.0/sdcTable/vignettes/sdcTable_cache/html/unnamed-chunk-32_ed04826a45385829443b395284217f1d.rdb |only sdcTable-0.33.0/sdcTable/vignettes/sdcTable_cache/html/unnamed-chunk-32_ed04826a45385829443b395284217f1d.rdx |only sdcTable-0.34.0/sdcTable/DESCRIPTION | 16 sdcTable-0.34.0/sdcTable/MD5 | 86 - sdcTable-0.34.0/sdcTable/R/attack.R | 245 ++-- sdcTable-0.34.0/sdcTable/R/contributing_indices.R | 154 +- sdcTable-0.34.0/sdcTable/R/helper_functions.r | 274 +--- sdcTable-0.34.0/sdcTable/R/makeProblem.R | 27 sdcTable-0.34.0/sdcTable/R/primarySuppression.R | 151 -- sdcTable-0.34.0/sdcTable/R/protectTable.R | 12 sdcTable-0.34.0/sdcTable/R/setInfo.R | 1 sdcTable-0.34.0/sdcTable/R/utils.R | 113 + sdcTable-0.34.0/sdcTable/R/utils_simpleheuristic.R | 14 sdcTable-0.34.0/sdcTable/R/zzz.r | 1 sdcTable-0.34.0/sdcTable/build/vignette.rds |binary sdcTable-0.34.0/sdcTable/inst/doc/sdcTable.html | 191 +-- sdcTable-0.34.0/sdcTable/inst/doc/sdcTable.rmd | 588 +++++++--- sdcTable-0.34.0/sdcTable/man/attack.Rd | 35 sdcTable-0.34.0/sdcTable/man/cell_info.Rd | 4 sdcTable-0.34.0/sdcTable/man/change_cellstatus.Rd | 6 sdcTable-0.34.0/sdcTable/man/contributing_indices.Rd | 41 sdcTable-0.34.0/sdcTable/man/createArgusInput.Rd | 4 sdcTable-0.34.0/sdcTable/man/createJJFormat.Rd | 4 sdcTable-0.34.0/sdcTable/man/createRegSDCInput.Rd | 4 sdcTable-0.34.0/sdcTable/man/get_safeobj.Rd | 4 sdcTable-0.34.0/sdcTable/man/makeProblem.Rd | 37 sdcTable-0.34.0/sdcTable/man/primarySuppression.Rd | 134 +- sdcTable-0.34.0/sdcTable/man/protectTable.Rd | 47 sdcTable-0.34.0/sdcTable/man/protect_linked_tables.Rd | 4 sdcTable-0.34.0/sdcTable/man/sdcProb2df.Rd | 4 sdcTable-0.34.0/sdcTable/man/setInfo.Rd | 30 sdcTable-0.34.0/sdcTable/man/writeJJFormat.Rd | 2 sdcTable-0.34.0/sdcTable/tests/testthat/_snaps |only sdcTable-0.34.0/sdcTable/tests/testthat/test-cell_info.R | 4 sdcTable-0.34.0/sdcTable/tests/testthat/test-contributing_indices.r | 5 sdcTable-0.34.0/sdcTable/tests/testthat/test-jjformat.r | 10 sdcTable-0.34.0/sdcTable/tests/testthat/test-linked-tables.r | 2 sdcTable-0.34.0/sdcTable/tests/testthat/test-makeProblem.r | 4 sdcTable-0.34.0/sdcTable/tests/testthat/test-primarySuppression.r | 11 sdcTable-0.34.0/sdcTable/tests/testthat/test-protectTable.r | 14 sdcTable-0.34.0/sdcTable/tests/testthat/test-samplingweights.r | 8 sdcTable-0.34.0/sdcTable/tests/testthat/test-simpleheuristic.R | 6 sdcTable-0.34.0/sdcTable/vignettes/sdcTable.rmd | 588 +++++++--- sdcTable-0.34.0/sdcTable/vignettes/sdcTable_cache/html/unnamed-chunk-32_c600c38d4fcf886edc2534b1e1c0f409.RData |only sdcTable-0.34.0/sdcTable/vignettes/sdcTable_cache/html/unnamed-chunk-32_c600c38d4fcf886edc2534b1e1c0f409.rdb |only sdcTable-0.34.0/sdcTable/vignettes/sdcTable_cache/html/unnamed-chunk-32_c600c38d4fcf886edc2534b1e1c0f409.rdx |only 47 files changed, 1823 insertions(+), 1062 deletions(-)
Title: Tools for Tensor Analysis and Decomposition
Description: A set of tools for creation, manipulation, and modeling
of tensors with arbitrary number of modes. A tensor in the context of data
analysis is a multidimensional array. rTensor does this by providing a S4
class 'Tensor' that wraps around the base 'array' class. rTensor
provides common tensor operations as methods, including matrix unfolding,
summing/averaging across modes, calculating the Frobenius norm, and taking
the inner product between two tensors. Familiar array operations are
overloaded, such as index subsetting via '[' and element-wise operations.
rTensor also implements various tensor decomposition, including CP, GLRAM,
MPCA, PVD, Tucker, INDSCAL, RESCAL, DEDICOM, PARAFAC2, and 2DLDA. For
tensors with 3 modes, rTensor also implements
transpose, t-product, and t-SVD, as defined in Kilmer et al. (2013). Some
auxiliary functions include the Khatri-Rao product, Kronecker product, and
the Hadamard product for a list of matrices.
Author: James Li [aut],
Jacob Bien [aut],
Martin Wells [aut],
Koki Tsuyuzaki [cre, ctb]
Maintainer: Koki Tsuyuzaki <k.t.the-answer@hotmail.co.jp>
Diff between rTensor versions 1.4.9 dated 2025-08-25 and 1.5.0 dated 2026-05-09
DESCRIPTION | 16 - MD5 | 17 + NAMESPACE | 5 R/rTensor_Decomp.R | 674 +++++++++++++++++++++++++++++++++++++++++++++++++++++ man/dedicom.Rd |only man/indscal.Rd |only man/parafac2.Rd |only man/rescal.Rd |only man/twodlda.Rd |only tests |only 10 files changed, 703 insertions(+), 9 deletions(-)
Title: Core Utilities for the 'rtemis' Ecosystem
Description: Utilities used across packages of the 'rtemis' ecosystem. Includes the msg()
messaging system and the fmt() formatting system. Provides a library of 'S7' properties,
test_* functions that return logical values, check_* functions that throw informative errors,
and clean_* functions that return validated and coerced values. This code began as part of the
'rtemis' package (<doi:10.32614/CRAN.package.rtemis>).
Author: E.D. Gennatas [aut, cre, cph]
Maintainer: E.D. Gennatas <gennatas@gmail.com>
Diff between rtemis.core versions 0.0.3 dated 2026-04-21 and 0.1.0 dated 2026-05-09
rtemis.core-0.0.3/rtemis.core/R/0_S7_init.R |only rtemis.core-0.0.3/rtemis.core/R/types.R |only rtemis.core-0.1.0/rtemis.core/DESCRIPTION | 18 rtemis.core-0.1.0/rtemis.core/MD5 | 94 - rtemis.core-0.1.0/rtemis.core/NAMESPACE | 56 rtemis.core-0.1.0/rtemis.core/NEWS.md |only rtemis.core-0.1.0/rtemis.core/R/00_S7_properties.R |only rtemis.core-0.1.0/rtemis.core/R/01_S7_generics.R |only rtemis.core-0.1.0/rtemis.core/R/check.R | 836 +++++++++- rtemis.core-0.1.0/rtemis.core/R/clean.R | 35 rtemis.core-0.1.0/rtemis.core/R/rtemis_color_system.R | 1 rtemis.core-0.1.0/rtemis.core/R/utils_print.R | 21 rtemis.core-0.1.0/rtemis.core/README.md | 7 rtemis.core-0.1.0/rtemis.core/man/bounded_double_property.Rd |only rtemis.core-0.1.0/rtemis.core/man/character_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/check_character_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/check_double_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/check_integer_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/check_logical_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/check_nonneg_double_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/check_nonneg_double_vector.Rd |only rtemis.core-0.1.0/rtemis.core/man/check_optional_character_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/check_optional_double_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/check_optional_integer_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/check_optional_logical_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/check_optional_nonneg_double_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/check_optional_nonneg_double_vector.Rd |only rtemis.core-0.1.0/rtemis.core/man/check_optional_pos_double_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/check_optional_pos_double_vector.Rd |only rtemis.core-0.1.0/rtemis.core/man/check_optional_pos_integer_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/check_optional_prob_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/check_optional_prob_vector.Rd |only rtemis.core-0.1.0/rtemis.core/man/check_optional_scalar_character.Rd | 6 rtemis.core-0.1.0/rtemis.core/man/check_optional_unit_open_vector.Rd |only rtemis.core-0.1.0/rtemis.core/man/check_pos_double_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/check_pos_double_vector.Rd |only rtemis.core-0.1.0/rtemis.core/man/check_pos_integer_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/check_prob_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/check_prob_vector.Rd |only rtemis.core-0.1.0/rtemis.core/man/check_scalar_character.Rd |only rtemis.core-0.1.0/rtemis.core/man/check_scalar_logical.Rd | 6 rtemis.core-0.1.0/rtemis.core/man/check_unit_open_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/check_unit_open_vector.Rd |only rtemis.core-0.1.0/rtemis.core/man/clean_int.Rd | 6 rtemis.core-0.1.0/rtemis.core/man/clean_posint.Rd | 4 rtemis.core-0.1.0/rtemis.core/man/double_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/enum.Rd |only rtemis.core-0.1.0/rtemis.core/man/integer_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/logical_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/nonneg_double_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/nonneg_double_vector.Rd |only rtemis.core-0.1.0/rtemis.core/man/nonneg_integer_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/optional.Rd | 7 rtemis.core-0.1.0/rtemis.core/man/optional_character_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/optional_double_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/optional_integer_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/optional_logical_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/optional_nonneg_double_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/optional_nonneg_double_vector.Rd |only rtemis.core-0.1.0/rtemis.core/man/optional_nonneg_integer_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/optional_pos_double_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/optional_pos_double_vector.Rd |only rtemis.core-0.1.0/rtemis.core/man/optional_pos_integer_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/optional_prob_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/optional_prob_vector.Rd |only rtemis.core-0.1.0/rtemis.core/man/optional_unit_open_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/optional_unit_open_vector.Rd |only rtemis.core-0.1.0/rtemis.core/man/pos_double_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/pos_double_vector.Rd |only rtemis.core-0.1.0/rtemis.core/man/pos_integer_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/prob_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/prob_vector.Rd |only rtemis.core-0.1.0/rtemis.core/man/repr.Rd | 2 rtemis.core-0.1.0/rtemis.core/man/rtemis.core-package.Rd | 5 rtemis.core-0.1.0/rtemis.core/man/rtemis_colors.Rd | 5 rtemis.core-0.1.0/rtemis.core/man/unit_open_scalar.Rd |only rtemis.core-0.1.0/rtemis.core/man/unit_open_vector.Rd |only rtemis.core-0.1.0/rtemis.core/tests/testthat/test-00_S7_properties.R |only rtemis.core-0.1.0/rtemis.core/tests/testthat/test-check.R | 400 ++++ 79 files changed, 1413 insertions(+), 96 deletions(-)
Title: Client for 'mapshaper' for 'Geospatial' Operations
Description: Edit and simplify 'geojson', 'Spatial', and 'sf'
objects. This is wrapper around the 'mapshaper' 'JavaScript' library
by Matthew Bloch <https://github.com/mbloch/mapshaper/> to perform
topologically-aware polygon simplification, as well as other
operations such as clipping, erasing, dissolving, and converting
'multi-part' to 'single-part' geometries.
Author: Andy Teucher [aut, cre] ,
Kenton Russell [aut] ,
Matthew Bloch [cph]
Maintainer: Andy Teucher <andy.teucher@gmail.com>
Diff between rmapshaper versions 0.6.0 dated 2025-12-04 and 0.6.1 dated 2026-05-09
DESCRIPTION | 9 +++++---- MD5 | 38 +++++++++++++++++++------------------- NEWS.md | 4 ++++ README.md | 5 ++--- build/vignette.rds |binary inst/doc/rmapshaper.R | 2 +- inst/doc/rmapshaper.Rmd | 2 +- inst/doc/rmapshaper.html | 6 +++--- man/ms_clip.Rd | 2 +- man/ms_dissolve.Rd | 2 +- man/ms_erase.Rd | 2 +- man/ms_explode.Rd | 2 +- man/ms_filter_fields.Rd | 2 +- man/ms_filter_islands.Rd | 2 +- man/ms_innerlines.Rd | 2 +- man/ms_lines.Rd | 2 +- man/ms_points.Rd | 2 +- man/ms_simplify.Rd | 2 +- man/rmapshaper-package.Rd | 1 + vignettes/rmapshaper.Rmd | 2 +- 20 files changed, 47 insertions(+), 42 deletions(-)
Title: Read and Write 'las' and 'laz' Binary File Formats Used for
Remote Sensing Data
Description: Read and write 'las' and 'laz' binary file formats. The LAS file format is a public file format for the interchange of 3-dimensional point cloud data between data users. The LAS specifications are approved by the American Society for Photogrammetry and Remote Sensing <https://community.asprs.org/leadership-restricted/leadership-content/public-documents/standards>. The LAZ file format is an open and lossless compression scheme for binary LAS format versions 1.0 to 1.4 <https://laszip.org/>.
Author: Jean-Romain Roussel [aut, cre, cph],
Florian De Boissieu [aut, ctb] ,
Martin Isenburg [cph] ,
David Auty [ctb] ,
Pierrick Marie [ctb] ,
Tiago de Conto [ctb]
Maintainer: Jean-Romain Roussel <info@r-lidar.com>
Diff between rlas versions 1.8.6 dated 2026-04-03 and 1.9.0 dated 2026-05-09
rlas-1.8.6/rlas/src/Makevars |only rlas-1.8.6/rlas/src/Makevars.win |only rlas-1.9.0/rlas/DESCRIPTION | 8 +- rlas-1.9.0/rlas/MD5 | 25 +++++--- rlas-1.9.0/rlas/NEWS.md | 4 + rlas-1.9.0/rlas/R/readLAS.r | 41 ++++++++++---- rlas-1.9.0/rlas/cleanup |only rlas-1.9.0/rlas/configure |only rlas-1.9.0/rlas/configure.ac |only rlas-1.9.0/rlas/inst/tinytest/test-remote.R |only rlas-1.9.0/rlas/src/LASlib/lasfilter.cpp | 9 +++ rlas-1.9.0/rlas/src/LASlib/lasreader.cpp | 5 + rlas-1.9.0/rlas/src/LASlib/lasreader_las.cpp | 65 +++++++++++++++++++++++ rlas-1.9.0/rlas/src/LASzip/bytestreamin_gdal.hpp |only rlas-1.9.0/rlas/src/LASzip/mydefs.hpp | 33 +++++++++++ rlas-1.9.0/rlas/src/Makevars.in |only rlas-1.9.0/rlas/src/Makevars.ucrt |only rlas-1.9.0/rlas/src/rlasstreamer.cpp | 11 +++ 18 files changed, 175 insertions(+), 26 deletions(-)
Title: Computes Statistics for Relational Event History Data
Description: Computes a variety of statistics for relational event models (Meijerink et al., 2023, <doi:10.3758/s13428-022-01821-8>). Relational event models enable researchers to investigate exogenous and endogenous factors, and interactions, influencing the evolution of a time-ordered sequence of events. These models are categorized into tie-oriented models (Butts, C., 2008, <doi:10.1111/j.1467-9531.2008.00203.x>), where the probability of a dyad interacting next is modeled in a single step, and actor-oriented models (Stadtfeld, C., & Block, P., 2017, <doi:10.15195/v4.a14>), which first model the probability of a sender initiating an interaction and subsequently the probability of the sender's choice of receiver. The package is designed to compute a variety of statistics that summarize exogenous and endogenous influences on the event stream for both types of models.
Author: Giuseppe Arena [aut] ,
Marlyne Meijerink-Bosman [aut],
Joris Mulder [aut, cre],
Diana Karimova [ctb],
Rumana Lakdawala [ctb],
Mahdi Shafiee Kamalabad [ctb],
Fabio Generoso Vieira [ctb],
Roger Leenders [ctb]
Maintainer: Joris Mulder <j.mulder3@tilburguniversity.edu>
Diff between remstats versions 3.2.5 dated 2026-03-12 and 4.0.0 dated 2026-05-09
remstats-3.2.5/remstats/inst/tinytest/test-endogenous-stats1.R |only remstats-4.0.0/remstats/DESCRIPTION | 47 remstats-4.0.0/remstats/LICENSE | 2 remstats-4.0.0/remstats/MD5 | 179 remstats-4.0.0/remstats/NAMESPACE | 7 remstats-4.0.0/remstats/R/RcppExports.R | 44 remstats-4.0.0/remstats/R/aomstats.R | 147 remstats-4.0.0/remstats/R/effects.R | 177 remstats-4.0.0/remstats/R/helpers.R | 994 ++++- remstats-4.0.0/remstats/R/methods.R | 48 remstats-4.0.0/remstats/R/remstats-package.R | 1 remstats-4.0.0/remstats/R/remstats.R | 101 remstats-4.0.0/remstats/R/stack_stats.R |only remstats-4.0.0/remstats/R/tie_effects.R | 18 remstats-4.0.0/remstats/R/tomstats.R | 833 +++- remstats-4.0.0/remstats/build/partial.rdb |binary remstats-4.0.0/remstats/build/vignette.rds |binary remstats-4.0.0/remstats/data/both_male_long.rda |binary remstats-4.0.0/remstats/data/both_male_wide.rda |binary remstats-4.0.0/remstats/data/history.rda |binary remstats-4.0.0/remstats/data/info.rda |binary remstats-4.0.0/remstats/inst/CITATION |only remstats-4.0.0/remstats/inst/WORDLIST |only remstats-4.0.0/remstats/inst/doc/remstats.R | 118 remstats-4.0.0/remstats/inst/doc/remstats.Rmd | 275 + remstats-4.0.0/remstats/inst/doc/remstats.html | 1200 ++++-- remstats-4.0.0/remstats/inst/tinytest/test-aomstats-memory-types.R |only remstats-4.0.0/remstats/inst/tinytest/test-aomstats-typed.R |only remstats-4.0.0/remstats/inst/tinytest/test-aomstats-vs-tie.R |only remstats-4.0.0/remstats/inst/tinytest/test-bind-remstats.R | 172 remstats-4.0.0/remstats/inst/tinytest/test-compare-sampled-typed-ext-FALSE.R |only remstats-4.0.0/remstats/inst/tinytest/test-compare-sampled-typed-ext-TRUE.R |only remstats-4.0.0/remstats/inst/tinytest/test-endogenous-stats2.R | 42 remstats-4.0.0/remstats/inst/tinytest/test-endogenous-stats3.R | 1045 +---- remstats-4.0.0/remstats/inst/tinytest/test-endogenous-stats4.R | 303 - 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Title: R and C++ Interfaces to 'spdlog' C++ Header Library for Logging
Description: The mature and widely-used C++ logging library 'spdlog' by Gabi Melman provides
many desirable features. This package bundles these header files for easy use by R packages
from both their R and C or C++ code. Explicit use via 'LinkingTo:' is also supported. Also
see the 'spdl' package which enhanced this package with a consistent R and C++ interface.
Author: Dirk Eddelbuettel [aut, cre] ,
Gabi Melman [aut] ,
Victor Zverovic [aut]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppSpdlog versions 0.0.28 dated 2026-03-20 and 0.0.29 dated 2026-05-09
RcppSpdlog-0.0.28/RcppSpdlog/src/Makevars |only RcppSpdlog-0.0.29/RcppSpdlog/ChangeLog | 28 +++++ RcppSpdlog-0.0.29/RcppSpdlog/DESCRIPTION | 8 - RcppSpdlog-0.0.29/RcppSpdlog/MD5 | 18 +-- RcppSpdlog-0.0.29/RcppSpdlog/build/partial.rdb |binary RcppSpdlog-0.0.29/RcppSpdlog/cleanup | 2 RcppSpdlog-0.0.29/RcppSpdlog/configure |only RcppSpdlog-0.0.29/RcppSpdlog/inst/NEWS.Rd | 10 + RcppSpdlog-0.0.29/RcppSpdlog/inst/include/RcppSpdlog | 16 +- RcppSpdlog-0.0.29/RcppSpdlog/src/Makevars.in |only RcppSpdlog-0.0.29/RcppSpdlog/src/Makevars.win |only RcppSpdlog-0.0.29/RcppSpdlog/src/formatter.cpp | 104 ++++--------------- 12 files changed, 83 insertions(+), 103 deletions(-)
Title: Unified Handling of Graphics Devices
Description: Functions for creating plots and image files in a unified way
regardless of output format (EPS, PDF, PNG, SVG, TIFF, WMF, etc.). Default
device options as well as scales and aspect ratios are controlled in a uniform
way across all device types. Switching output format requires minimal changes
in code. This package is ideal for large-scale batch processing, because it
will never leave open graphics devices or incomplete image files behind, even on
errors or user interrupts.
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Diff between R.devices versions 2.17.3 dated 2025-12-18 and 2.17.4 dated 2026-05-09
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NEWS.md | 7 +++++++ R/DevEvalProduct.R | 2 +- R/capturePlot.R | 2 +- build/vignette.rds |binary inst/doc/R.devices-overview.pdf |binary man/R.devices-package.Rd | 5 +++-- 8 files changed, 23 insertions(+), 15 deletions(-)
Title: Qualitative Comparative Analysis
Description: An extensive set of functions to perform Qualitative Comparative Analysis:
crisp sets ('csQCA'), temporal ('tQCA'), multi-value ('mvQCA')
and fuzzy sets ('fsQCA'). 'QCA' is a methodology that bridges
the qualitative and quantitative divide in social science research.
It uses a Boolean minimization algorithm, resulting in a minimal causal
configuration associated with a given phenomenon.
Author: Adrian Dusa [aut, cre, cph] ,
Ciprian Paduraru [ctb] ,
Alrik Thiem [aut]
Maintainer: Adrian Dusa <dusa.adrian@unibuc.ro>
Diff between QCA versions 3.24 dated 2026-03-28 and 3.25 dated 2026-05-09
QCA-3.24/QCA/data/d.BWB.tab.bz2 |only QCA-3.24/QCA/data/d.Bas.tab.bz2 |only QCA-3.24/QCA/data/d.Emm.tab.bz2 |only QCA-3.24/QCA/data/d.autonomy.tab.bz2 |only QCA-3.24/QCA/data/d.biodiversity.tab.bz2 |only QCA-3.24/QCA/data/d.health.tab.bz2 |only QCA-3.24/QCA/data/d.jobsecurity.tab.bz2 |only QCA-3.25/QCA/DESCRIPTION | 20 QCA-3.25/QCA/MD5 | 261 ++-- QCA-3.25/QCA/NAMESPACE | 157 +- QCA-3.25/QCA/R/XYplot.R | 176 ++ QCA-3.25/QCA/R/Xplot.R | 187 +-- QCA-3.25/QCA/R/allExpressions.R | 27 QCA-3.25/QCA/R/calibrate.R | 87 - QCA-3.25/QCA/R/causalChain.R | 484 ++++---- QCA-3.25/QCA/R/complexity.R | 34 QCA-3.25/QCA/R/createMatrix.R | 45 QCA-3.25/QCA/R/dimnames.R | 59 QCA-3.25/QCA/R/findRows.R | 413 +++--- QCA-3.25/QCA/R/findSubsets.R | 34 QCA-3.25/QCA/R/findSupersets.R | 38 QCA-3.25/QCA/R/findTh.R | 31 QCA-3.25/QCA/R/findmin.R | 59 QCA-3.25/QCA/R/fuzzyand.R | 55 QCA-3.25/QCA/R/fuzzyor.R | 60 QCA-3.25/QCA/R/generate.R | 42 QCA-3.25/QCA/R/getRow.R | 33 QCA-3.25/QCA/R/getSolution.R | 92 + QCA-3.25/QCA/R/makeChart.R | 64 - QCA-3.25/QCA/R/minimize.R | 404 +++++- QCA-3.25/QCA/R/modelFit.R | 426 +++---- QCA-3.25/QCA/R/onAttach.R | 28 QCA-3.25/QCA/R/onUnload.R | 28 QCA-3.25/QCA/R/panel.R | 267 ++-- QCA-3.25/QCA/R/pof.R | 277 ++++ QCA-3.25/QCA/R/pofind.R | 306 ++--- QCA-3.25/QCA/R/print.R | 439 ++++++- QCA-3.25/QCA/R/removeRedundants.R | 48 QCA-3.25/QCA/R/replaceCategories.R | 32 QCA-3.25/QCA/R/retention.R | 40 QCA-3.25/QCA/R/rowDominance.R | 29 QCA-3.25/QCA/R/solveChart.R | 50 QCA-3.25/QCA/R/sortMatrix.R | 27 QCA-3.25/QCA/R/sortVector.R | 27 QCA-3.25/QCA/R/string.R | 120 + QCA-3.25/QCA/R/superSubset.R | 120 + QCA-3.25/QCA/R/truthTable.R | 182 ++- QCA-3.25/QCA/R/verifyQCA.R | 198 ++- QCA-3.25/QCA/R/writeSolution.R | 30 QCA-3.25/QCA/build |only QCA-3.25/QCA/cleanup | 1 QCA-3.25/QCA/configure | 59 QCA-3.25/QCA/configure.win | 62 + QCA-3.25/QCA/data/CVF.tab.gz |binary QCA-3.25/QCA/data/Emme.tab.gz |binary QCA-3.25/QCA/data/HC.tab.gz |binary QCA-3.25/QCA/data/HarKem.rda |binary QCA-3.25/QCA/data/Krook.tab.gz |binary QCA-3.25/QCA/data/LC.rda |binary QCA-3.25/QCA/data/LF.rda |binary QCA-3.25/QCA/data/LM.rda |binary QCA-3.25/QCA/data/NF.tab.gz |binary QCA-3.25/QCA/data/d.BWB.tab.gz |only QCA-3.25/QCA/data/d.Bas.tab.gz |only QCA-3.25/QCA/data/d.Emm.tab.gz |only QCA-3.25/QCA/data/d.HK.rda |binary QCA-3.25/QCA/data/d.HMN.tab.gz |binary QCA-3.25/QCA/data/d.Kro.tab.gz |binary QCA-3.25/QCA/data/d.SA.tab.gz |binary QCA-3.25/QCA/data/d.autonomy.tab.gz |only QCA-3.25/QCA/data/d.biodiversity.tab.gz |only QCA-3.25/QCA/data/d.health.tab.gz |only QCA-3.25/QCA/data/d.jobsecurity.tab.gz |only QCA-3.25/QCA/data/d.partybans.rda |binary QCA-3.25/QCA/data/d.represent.tab.gz |binary QCA-3.25/QCA/data/d.socialsecurity.tab.gz |binary QCA-3.25/QCA/data/d.transport.tab.gz |binary QCA-3.25/QCA/data/d.women.tab.gz |binary QCA-3.25/QCA/inst/ChangeLog | 7 QCA-3.25/QCA/man/QCA_package.Rd | 4 QCA-3.25/QCA/src/CCubes.c | 524 ++++++-- QCA-3.25/QCA/src/CCubes.h | 2 QCA-3.25/QCA/src/QCA.c | 1754 ++++++++++++++++++++++++----- QCA-3.25/QCA/src/consistency.c | 44 QCA-3.25/QCA/src/consistent_solution.c | 122 +- QCA-3.25/QCA/src/consistent_solution.h | 2 QCA-3.25/QCA/src/find_consistent_models.c | 292 ++++ QCA-3.25/QCA/src/find_consistent_models.h | 2 QCA-3.25/QCA/src/find_models.c | 275 +++- QCA-3.25/QCA/src/find_models.h | 2 QCA-3.25/QCA/src/findmin_lpsolve.c |only QCA-3.25/QCA/src/findmin_lpsolve.h |only QCA-3.25/QCA/src/findmin_scp.c |only QCA-3.25/QCA/src/findmin_scp.h |only QCA-3.25/QCA/src/generate_matrix.c | 47 QCA-3.25/QCA/src/lp_solve |only QCA-3.25/QCA/src/qca_r.h |only QCA-3.25/QCA/src/qca_rinternals.h |only QCA-3.25/QCA/src/qca_threads.c |only QCA-3.25/QCA/src/qca_threads.h |only QCA-3.25/QCA/src/registerDynamicSymbol.c | 52 QCA-3.25/QCA/src/row_dominance.c | 59 QCA-3.25/QCA/src/scp_solver |only QCA-3.25/QCA/src/solvePIchart_gurobi.c | 78 - QCA-3.25/QCA/src/solvePIchart_gurobi.h | 2 QCA-3.25/QCA/src/solvePIchart_lagrangian.c | 931 ++++++++++++--- QCA-3.25/QCA/src/solvePIchart_lagrangian.h | 7 QCA-3.25/QCA/src/sort_cols.c | 63 - QCA-3.25/QCA/src/sort_matrix.c | 66 - QCA-3.25/QCA/src/super_rows.c | 45 QCA-3.25/QCA/src/truthTable.c | 82 - QCA-3.25/QCA/src/utils.c | 228 ++- QCA-3.25/QCA/src/utils.h | 2 QCA-3.25/QCA/tools/Makevars.in | 20 QCA-3.25/QCA/tools/Makevars.win.in | 20 115 files changed, 7179 insertions(+), 3211 deletions(-)
Title: Easily Visualize Data from 'ERDDAP™' Servers via the 'rerddap'
Package
Description: Easily visualize and animate 'tabledap' and 'griddap' objects obtained via the 'rerddap' package in a simple one-line command, using either base graphics or 'ggplot2' graphics. 'plotdap' handles extracting and reshaping the data, map projections and continental outlines. Optionally the data can be animated through time using the 'gganmiate' package.
Author: Carson Sievert [aut],
Roy Mendelssohn [aut, ctb, cre]
Maintainer: Roy Mendelssohn <roy.mendelssohn@noaa.gov>
Diff between plotdap versions 1.1.1 dated 2026-01-10 and 1.2.0 dated 2026-05-09
DESCRIPTION | 14 +- MD5 | 46 ++++--- NAMESPACE | 1 NEWS.md | 6 R/add_griddap_contours.R |only R/imports.R | 6 README.md | 55 ++++---- build/vignette.rds |binary inst/doc/using_plotdap.R | 44 ++++++ inst/doc/using_plotdap.Rmd | 238 ++++++++++++++++--------------------- inst/doc/using_plotdap.html | 146 ++++++++++++++++------ man/add_griddap_contours.Rd |only man/plotdap-package.Rd | 1 man/reexports.Rd | 2 vignettes/contour1.png |only vignettes/contour2.png |only vignettes/contour3.png |only vignettes/modify2.png |binary vignettes/using_plotdap.Rmd | 238 ++++++++++++++++--------------------- vignettes/viirsSST_10000.png |binary vignettes/viirsSST_100000.png |binary vignettes/viirsSST_100000_mask.png |binary vignettes/viirsSST_50000.png |binary vignettes/viirsSST_gridland.png |binary vignettes/viirsSST_hires_mask.png |only vignettes/viirsSST_landgrid.png |binary vignettes/viirs_hires.png |binary 27 files changed, 425 insertions(+), 372 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 0.28.3 dated 2025-11-25 and 0.29.0 dated 2026-05-09
DESCRIPTION | 39 - MD5 | 115 ++-- NAMESPACE | 2 NEWS.md | 43 + R/1_model_parameters.R | 18 R/4_standard_error.R | 32 - R/extract_parameters.R | 133 ++++- R/extract_random_variances.R | 554 ++++++++++++++++------- R/format.R | 387 +++++++++++----- R/format_p_adjust.R | 96 ++- R/format_parameters.R | 13 R/methods_coxme.R | 72 +- R/methods_gam.R | 44 + R/methods_glmmTMB.R | 4 R/methods_htest.R | 263 ++++++++-- R/methods_lavaan.R | 57 +- R/methods_lavaan.mi.R |only R/methods_lme4.R | 83 +-- R/methods_marginaleffects.R | 30 - R/methods_mjoint.R | 29 - R/methods_panelr.R | 121 ++--- R/methods_psych.R | 65 +- R/methods_survival.R | 69 +- R/methods_svy2lme.R | 29 - R/n_factors.R | 255 ++++++---- R/print.parameters_model.R | 96 ++- R/standardize_parameters.R | 410 +++++++++++------ R/utils_model_parameters.R | 175 +++++-- build/partial.rdb |binary build/vignette.rds |binary man/figures/card.png |binary man/figures/figure1.png |binary man/figures/figure2.png |binary man/figures/logo.png |binary man/figures/unconditional_interpretation.png |binary man/model_parameters.brmsfit.Rd | 9 man/model_parameters.default.Rd | 2 man/model_parameters.principal.Rd | 2 man/n_factors.Rd | 4 man/p_value.Rd | 11 man/standard_error.Rd | 13 man/standardize_parameters.Rd | 4 tests/testthat/test-brms.R | 37 + tests/testthat/test-coxph.R | 66 ++ tests/testthat/test-glmmTMB.R | 124 ++--- tests/testthat/test-lavaan.mi.R |only tests/testthat/test-marginaleffects.R | 156 +++++- tests/testthat/test-model_parameters.cgam.R | 12 tests/testthat/test-model_parameters.epi2x2.R | 15 tests/testthat/test-model_parameters.gam.R | 55 +- tests/testthat/test-model_parameters.htest.R | 256 ++++++++++ tests/testthat/test-model_parameters_std.R | 53 +- tests/testthat/test-model_parameters_std_mixed.R | 20 tests/testthat/test-p_adjust.R | 95 +++ tests/testthat/test-printing.R | 482 ++++++++++++++++---- tests/testthat/test-printing2.R | 399 +++++++++++----- tests/testthat/test-random_effects_ci-glmmTMB.R | 2 tests/testthat/test-random_effects_covstruct.R |only tests/testthat/test-simulate_model.R | 11 tests/testthat/test-standardize_parameters.R | 219 +++++---- 60 files changed, 3716 insertions(+), 1565 deletions(-)
Title: Unified Framework for Numerical Optimizers
Description: Provides a unified object-oriented framework for numerical
optimizers in R. Supports minimization and maximization with any optimizer,
optimization over more than one function argument, computation time
measurement, and time limits for long optimization tasks.
Author: Lennart Oelschlaeger [aut, cre] ,
Marius Oetting [ctb]
Maintainer: Lennart Oelschlaeger <oelschlaeger.lennart@gmail.com>
Diff between optimizeR versions 1.2.1 dated 2025-06-26 and 1.3.0 dated 2026-05-09
DESCRIPTION | 19 +- MD5 | 32 ++-- NEWS.md | 88 ++++++++--- R/objective.R | 229 +++++++++++++++++++++--------- R/optimizeR-package.R | 71 ++++----- R/optimizer.R | 245 +++++++++++++++++++-------------- R/optimizer_dictionary.R | 32 ++-- R/parameter_spaces.R | 53 ++++--- README.md | 131 ++++++++--------- man/Objective.Rd | 36 +++- man/Optimizer.Rd | 123 ++++++++++------ man/ParameterSpaces.Rd | 16 +- man/optimizeR-package.Rd | 60 +++++++- man/optimizer_dictionary.Rd | 40 ++--- tests/testthat/test-objective.R | 54 +++++-- tests/testthat/test-optimizer.R | 95 ++++++++---- tests/testthat/test-parameter_spaces.R | 11 - 17 files changed, 847 insertions(+), 488 deletions(-)
Title: Kernel Smoothing
Description: Kernel smoothers for univariate and multivariate data, with comprehensive visualisation and bandwidth selection capabilities, including for densities, density derivatives, cumulative distributions, clustering, classification, density ridges, significant modal regions, and two-sample hypothesis tests. Chacon & Duong (2018) <doi:10.1201/9780429485572>.
Author: Tarn Duong [aut, cre] ,
Matt Wand [ctb] ,
Jose Chacon [ctb],
Artur Gramacki [ctb]
Maintainer: Tarn Duong <tarn.duong@gmail.com>
Diff between ks versions 1.15.1 dated 2025-05-04 and 1.15.2 dated 2026-05-09
ks-1.15.1/ks/inst/doc/kde.R |only ks-1.15.1/ks/inst/doc/kde.Rnw |only ks-1.15.1/ks/inst/doc/kde.pdf |only ks-1.15.1/ks/vignettes/kde.Rnw |only ks-1.15.2/ks/CHANGELOG | 8 +++++- ks-1.15.2/ks/DESCRIPTION | 16 ++++++++----- ks-1.15.2/ks/MD5 | 48 ++++++++++++++++++++-------------------- ks-1.15.2/ks/NAMESPACE | 2 + ks-1.15.2/ks/R/kdde.R | 33 --------------------------- ks-1.15.2/ks/R/kde.R | 25 ++++++++++++++++---- ks-1.15.2/ks/R/prelim.R | 23 ++++++++++++++++++- ks-1.15.2/ks/README.md |only ks-1.15.2/ks/build/partial.rdb |binary ks-1.15.2/ks/build/vignette.rds |binary ks-1.15.2/ks/inst/doc/ks.R |only ks-1.15.2/ks/inst/doc/ks.Rmd |only ks-1.15.2/ks/inst/doc/ks.html |only ks-1.15.2/ks/inst/pkgdown.yml |only ks-1.15.2/ks/man/air.Rd | 4 +-- ks-1.15.2/ks/man/contour.Rd | 6 ++--- ks-1.15.2/ks/man/grevillea.Rd | 3 -- ks-1.15.2/ks/man/kdr.Rd | 3 +- ks-1.15.2/ks/man/kroc.Rd | 2 - ks-1.15.2/ks/man/ks-internal.Rd | 9 +++++-- ks-1.15.2/ks/man/ks-package.Rd | 2 + ks-1.15.2/ks/man/plot.kdde.Rd | 7 +++-- ks-1.15.2/ks/man/quake.Rd | 8 ++---- ks-1.15.2/ks/man/tempb.Rd | 2 - ks-1.15.2/ks/man/worldbank.Rd | 5 +--- ks-1.15.2/ks/vignettes/ks.Rmd |only 30 files changed, 114 insertions(+), 92 deletions(-)
Title: Antedependence Models for Longitudinal Data
Description: Fitting, simulation, and inference for antedependence models for
longitudinal data, as described in Zimmerman and Nunez-Anton (2009,
ISBN:9781420011074). Supports integer-valued antedependence (INAD) models
for count data with thinning operators (binomial, Poisson, negative binomial)
and flexible innovation distributions (Poisson, Bell, negative binomial),
categorical antedependence models for discrete-state longitudinal outcomes,
and Gaussian antedependence (AD) models for continuous data. Implements
maximum likelihood estimation via time-separable optimization and block
coordinate descent, with confidence intervals based on Louis' identity and
profile likelihood.
Author: Chenyang Li [aut, cre],
Dale Zimmerman [aut, ctb]
Maintainer: Chenyang Li <chenyang-li@uiowa.edu>
Diff between antedep versions 0.1.0 dated 2026-04-24 and 0.2.0 dated 2026-05-09
antedep-0.1.0/antedep/man/aic_cat.Rd |only antedep-0.1.0/antedep/man/aic_gau.Rd |only antedep-0.1.0/antedep/man/aic_inad.Rd |only antedep-0.1.0/antedep/man/bic_cat.Rd |only antedep-0.1.0/antedep/man/bic_inad.Rd |only antedep-0.2.0/antedep/DESCRIPTION | 6 antedep-0.2.0/antedep/MD5 | 201 +++++++-------- antedep-0.2.0/antedep/NAMESPACE | 36 ++ antedep-0.2.0/antedep/NEWS.md | 15 + antedep-0.2.0/antedep/R/bic_cat.R | 55 ---- antedep-0.2.0/antedep/R/bic_gau.R | 44 --- antedep-0.2.0/antedep/R/bic_inad.R | 61 ---- antedep-0.2.0/antedep/R/cat_test_stats.R | 2 antedep-0.2.0/antedep/R/cat_utils.R | 30 ++ antedep-0.2.0/antedep/R/ci_cat.R | 2 antedep-0.2.0/antedep/R/ci_gau.R | 2 antedep-0.2.0/antedep/R/ci_inad.R | 4 antedep-0.2.0/antedep/R/data-bolus_inad.R | 2 antedep-0.2.0/antedep/R/data-cattle_growth.R | 2 antedep-0.2.0/antedep/R/data-cochlear_implant.R | 2 antedep-0.2.0/antedep/R/data-labor_force_cat.R | 2 antedep-0.2.0/antedep/R/data-race_100km.R | 2 antedep-0.2.0/antedep/R/diagnostics.R | 64 ++++ antedep-0.2.0/antedep/R/em_cat.R | 2 antedep-0.2.0/antedep/R/em_gau.R | 2 antedep-0.2.0/antedep/R/em_inad.R | 40 ++ antedep-0.2.0/antedep/R/fit_cat.R | 2 antedep-0.2.0/antedep/R/fit_gau.R | 44 +++ antedep-0.2.0/antedep/R/fit_gau_em.R | 12 antedep-0.2.0/antedep/R/fit_inad.R | 2 antedep-0.2.0/antedep/R/generics.R |only antedep-0.2.0/antedep/R/loglik_cat.R | 2 antedep-0.2.0/antedep/R/loglik_gau.R | 2 antedep-0.2.0/antedep/R/loglik_inad.R | 4 antedep-0.2.0/antedep/R/lrt_homogeneity_cat.R | 36 +- antedep-0.2.0/antedep/R/lrt_homogeneity_gau.R | 28 +- antedep-0.2.0/antedep/R/lrt_homogeneity_inad.R | 47 ++- antedep-0.2.0/antedep/R/lrt_mean_gau.R | 107 ++++--- antedep-0.2.0/antedep/R/lrt_order_cat.R | 30 +- antedep-0.2.0/antedep/R/lrt_order_gau.R | 48 +-- antedep-0.2.0/antedep/R/lrt_order_inad.R | 38 +- antedep-0.2.0/antedep/R/lrt_stationarity_cat.R | 22 + antedep-0.2.0/antedep/R/lrt_stationarity_gau.R | 40 +- antedep-0.2.0/antedep/R/lrt_stationarity_inad.R | 49 ++- antedep-0.2.0/antedep/R/plot_methods.R |only antedep-0.2.0/antedep/R/simulate_cat.R | 10 antedep-0.2.0/antedep/R/simulate_gau.R | 11 antedep-0.2.0/antedep/R/simulate_inad.R | 10 antedep-0.2.0/antedep/inst/doc/antedep-intro.html | 12 antedep-0.2.0/antedep/man/as.ts.antedep_sim.Rd |only antedep-0.2.0/antedep/man/bic_gau.Rd | 39 ++ antedep-0.2.0/antedep/man/bic_order_cat.Rd | 2 antedep-0.2.0/antedep/man/bic_order_gau.Rd | 2 antedep-0.2.0/antedep/man/bic_order_inad.Rd | 2 antedep-0.2.0/antedep/man/bolus_inad.Rd | 2 antedep-0.2.0/antedep/man/cattle_growth.Rd | 2 antedep-0.2.0/antedep/man/ci_cat.Rd | 2 antedep-0.2.0/antedep/man/ci_gau.Rd | 2 antedep-0.2.0/antedep/man/ci_inad.Rd | 2 antedep-0.2.0/antedep/man/cochlear_implant.Rd | 2 antedep-0.2.0/antedep/man/coef.antedep.Rd |only antedep-0.2.0/antedep/man/confint.antedep.Rd |only antedep-0.2.0/antedep/man/deviance.antedep.Rd |only antedep-0.2.0/antedep/man/em_cat.Rd | 2 antedep-0.2.0/antedep/man/em_gau.Rd | 2 antedep-0.2.0/antedep/man/em_inad.Rd | 2 antedep-0.2.0/antedep/man/fit_cat.Rd | 2 antedep-0.2.0/antedep/man/fit_gau.Rd | 2 antedep-0.2.0/antedep/man/fit_inad.Rd | 2 antedep-0.2.0/antedep/man/fitted.gau_fit.Rd |only antedep-0.2.0/antedep/man/labor_force_cat.Rd | 2 antedep-0.2.0/antedep/man/logL_cat.Rd | 2 antedep-0.2.0/antedep/man/logL_gau.Rd | 2 antedep-0.2.0/antedep/man/logL_inad.Rd | 2 antedep-0.2.0/antedep/man/logL_inad_i.Rd | 2 antedep-0.2.0/antedep/man/logLik.antedep.Rd |only antedep-0.2.0/antedep/man/nobs.antedep.Rd |only antedep-0.2.0/antedep/man/partial_corr.Rd | 2 antedep-0.2.0/antedep/man/plot.cat_fit.Rd |only antedep-0.2.0/antedep/man/plot.gau_fit.Rd |only antedep-0.2.0/antedep/man/plot.inad_fit.Rd |only antedep-0.2.0/antedep/man/plot.partial_corr.Rd |only antedep-0.2.0/antedep/man/plot_prism.Rd | 2 antedep-0.2.0/antedep/man/plot_profile.Rd | 2 antedep-0.2.0/antedep/man/print.gau_fit.Rd | 7 antedep-0.2.0/antedep/man/print.inad_fit.Rd | 4 antedep-0.2.0/antedep/man/race_100km.Rd | 2 antedep-0.2.0/antedep/man/run_homogeneity_tests_inad.Rd | 2 antedep-0.2.0/antedep/man/run_order_tests_cat.Rd | 2 antedep-0.2.0/antedep/man/run_stationarity_tests_cat.Rd | 2 antedep-0.2.0/antedep/man/run_stationarity_tests_gau.Rd | 2 antedep-0.2.0/antedep/man/run_stationarity_tests_inad.Rd | 8 antedep-0.2.0/antedep/man/simulate_cat.Rd | 9 antedep-0.2.0/antedep/man/simulate_gau.Rd | 8 antedep-0.2.0/antedep/man/simulate_inad.Rd | 8 antedep-0.2.0/antedep/man/summary.cat_fit.Rd |only antedep-0.2.0/antedep/man/summary.gau_fit.Rd |only antedep-0.2.0/antedep/man/summary.inad_fit.Rd |only antedep-0.2.0/antedep/man/summary.partial_corr.Rd |only antedep-0.2.0/antedep/man/test_contrast_gau.Rd | 2 antedep-0.2.0/antedep/man/test_homogeneity_cat.Rd | 2 antedep-0.2.0/antedep/man/test_homogeneity_gau.Rd | 2 antedep-0.2.0/antedep/man/test_homogeneity_inad.Rd | 2 antedep-0.2.0/antedep/man/test_one_sample_gau.Rd | 2 antedep-0.2.0/antedep/man/test_order_cat.Rd | 2 antedep-0.2.0/antedep/man/test_order_gau.Rd | 2 antedep-0.2.0/antedep/man/test_order_inad.Rd | 6 antedep-0.2.0/antedep/man/test_stationarity_cat.Rd | 2 antedep-0.2.0/antedep/man/test_stationarity_gau.Rd | 2 antedep-0.2.0/antedep/man/test_stationarity_inad.Rd | 6 antedep-0.2.0/antedep/man/test_timeinvariance_cat.Rd | 2 antedep-0.2.0/antedep/man/test_two_sample_gau.Rd | 2 antedep-0.2.0/antedep/man/vcov.gau_fit.Rd |only 113 files changed, 783 insertions(+), 522 deletions(-)
Title: Shiny Application for Latent Structure Analysis with a Graphical
User Interface
Description: Provides an interactive Shiny-based toolkit for conducting latent structure analyses, including Latent Profile Analysis (LPA), Latent Class Analysis (LCA), Latent Trait Analysis (LTA/IRT), Exploratory Factor Analysis (EFA), Confirmatory Factor Analysis (CFA), and Structural Equation Modeling (SEM). The implementation is grounded in established methodological frameworks: LPA is supported through 'tidyLPA' (Rosenberg et al., 2018) <doi:10.21105/joss.00978>, LCA through 'poLCA' (Linzer & Lewis, 2011) <doi:10.32614/CRAN.package.poLCA> & 'glca' (Kim & Kim, 2024) <doi:10.32614/CRAN.package.glca>, LTA/IRT via 'mirt' (Chalmers, 2012) <doi:10.18637/jss.v048.i06>, and EFA via 'psych' (Revelle, 2025). SEM and CFA functionalities build upon the 'lavaan' framework (Rosseel, 2012) <doi:10.18637/jss.v048.i02>. Users can upload datasets or use built-in examples, fit models, compare fit indices, visualize results, and export outputs without programming.
Author: Hasan Djidu [aut, cre] ,
Heri Retnawati [ctb] ,
Samsul Hadi [ctb] ,
Haryanto [ctb]
Maintainer: Hasan Djidu <hasandjidu@gmail.com>
Diff between projectLSA versions 0.0.8 dated 2026-02-07 and 0.0.9 dated 2026-05-09
DESCRIPTION | 21 - MD5 | 27 + NEWS.md | 20 + README.md | 30 +- build/vignette.rds |binary inst/CITATION |only inst/app/app.R | 214 ++++++++++----- inst/app/cfa_report.Rmd |only inst/app/cfa_ui.R | 141 ++++------ inst/app/homepage_ui.R | 19 - inst/app/rsconnect |only inst/app/serverCFA.R | 641 +++++++++++++++++++++++++++++++++++----------- inst/app/serverLCA.R | 29 +- inst/app/serverLPA.R | 2 inst/app/styleCSS.R | 10 man/projectLSA-package.Rd | 12 16 files changed, 817 insertions(+), 349 deletions(-)
Title: 'S7' Framework for Schema-Validated YAML Configuration
Description: Provides a generic framework for working with YAML (YAML
Ain't Markup Language) configuration files. Uses 'ajv' (Another JSON
Schema Validator) via 'V8' to validate configurations against JSON
Schema definitions. Configuration objects inherit from 'S7' classes
and base lists, supporting downstream extension through custom classes
and methods.
Author: Aksel Thomsen [aut, cre],
Matthew Phelps [aut],
Novo Nordisk A/S [cph],
Evgeny Poberezkin [cph] ,
Python Software Foundation [cph] ),
Vladimir Zapparov [cph] ,
Vincent Le Goff [cph] ,
Vsevolod Strukchinsky [cph]
Maintainer: Aksel Thomsen <oath@novonordisk.com>
Diff between S7schema versions 0.1.0 dated 2026-03-13 and 0.1.1 dated 2026-05-09
DESCRIPTION | 6 +++--- MD5 | 28 ++++++++++++++-------------- NEWS.md | 4 ++++ R/z_write.R | 18 +++++++++++------- build/vignette.rds |binary inst/doc/S7schema.R | 2 +- inst/doc/S7schema.Rmd | 2 +- inst/doc/S7schema.html | 14 +++++++------- inst/doc/use-in-package.R | 2 +- inst/doc/use-in-package.Rmd | 2 +- inst/doc/use-in-package.html | 8 ++++---- man/write_config.Rd | 6 +++--- tests/testthat/test-z_write.R | 28 +++++++++++++++++++++++++++- vignettes/S7schema.Rmd | 2 +- vignettes/use-in-package.Rmd | 2 +- 15 files changed, 79 insertions(+), 45 deletions(-)
Title: Bivariate Angular Mixture Models
Description: Fit (using Bayesian methods) and simulate mixtures of univariate and bivariate angular distributions. Chakraborty and Wong (2021) <doi:10.18637/jss.v099.i11>.
Author: Saptarshi Chakraborty [aut, cre],
Samuel W.K. Wong [aut],
Florence Bockting [ctb]
Maintainer: Saptarshi Chakraborty <chakra.saptarshi@gmail.com>
Diff between BAMBI versions 2.3.6 dated 2024-10-25 and 2.3.7 dated 2026-05-09
DESCRIPTION | 19 ++++++++++++------- MD5 | 6 +++--- R/all_model_select.R | 16 +++++++++++----- build/partial.rdb |binary 4 files changed, 26 insertions(+), 15 deletions(-)
Title: Geometric Markov Chain Sampling
Description: Simulates from discrete and continuous target distributions using geometric
Metropolis-Hastings (MH) algorithms. Users specify the target distribution by an R
function that evaluates the log un-normalized pdf or pmf. The package also contains a
function implementing a specific geometric MH algorithm for performing high-dimensional
Bayesian variable selection.
Author: Vivekananda Roy [aut, cre]
Maintainer: Vivekananda Roy <vroy@iastate.edu>
Diff between geommc versions 1.3.1 dated 2026-02-27 and 1.3.2 dated 2026-05-09
DESCRIPTION | 12 +- MD5 | 26 ++--- NAMESPACE | 1 R/auxifns.R | 41 ++++++++- R/geomc.R | 221 ++++++++++++++++++++++++++++++++++++++++--------- build/vignette.rds |binary inst/doc/geomc-vs.html | 22 ++-- inst/doc/geomc.R | 11 +- inst/doc/geomc.Rmd | 11 +- inst/doc/geomc.pdf |binary man/geomc.Rd | 32 +++++-- man/geommc-package.Rd | 5 + vignettes/geomc.Rmd | 11 +- vignettes/geomc.html | 31 +++--- 14 files changed, 313 insertions(+), 111 deletions(-)
Title: Watch the File System for Changes
Description: R binding for 'libfswatch', a file system monitoring library.
Watch files, or directories recursively, for changes in the
background. Log activity, or call an R function, upon every change
event.
Author: Charlie Gao [aut, cre] ,
Posit Software, PBC [cph, fnd] ,
Enrico M. Crisostomo [cph] ,
Alan Dipert [cph]
Maintainer: Charlie Gao <charlie.gao@posit.co>
Diff between watcher versions 0.1.5 dated 2025-12-01 and 0.1.6 dated 2026-05-08
watcher-0.1.5/watcher/src/fswatch-5c443d2p.tar.gz |only watcher-0.1.6/watcher/DESCRIPTION | 19 +- watcher-0.1.6/watcher/MD5 | 86 ++++++++++-- watcher-0.1.6/watcher/NEWS.md | 4 watcher-0.1.6/watcher/README.md | 15 +- watcher-0.1.6/watcher/cleanup | 2 watcher-0.1.6/watcher/cleanup.win | 2 watcher-0.1.6/watcher/configure | 149 ++++++++++++---------- watcher-0.1.6/watcher/configure.ucrt | 25 +-- watcher-0.1.6/watcher/configure.win | 28 +--- watcher-0.1.6/watcher/man/watcher-package.Rd | 7 + watcher-0.1.6/watcher/src/Makevars.in | 19 ++ watcher-0.1.6/watcher/src/Makevars.ucrt | 19 ++ watcher-0.1.6/watcher/src/Makevars.win | 19 ++ watcher-0.1.6/watcher/src/fswatch |only watcher-0.1.6/watcher/tools |only 16 files changed, 264 insertions(+), 130 deletions(-)
Title: Shared Memory for R Objects
Description: Share R objects across processes on the same machine via a
single copy in 'POSIX' shared memory (Linux, macOS) or a 'Win32' file
mapping (Windows). Every process reads from the same physical pages
through the R Alternative Representation ('ALTREP') framework, giving
lazy, zero-copy access. Shared objects serialize compactly as their
shared memory name rather than their full contents.
Author: Charlie Gao [aut, cre] ,
Posit Software, PBC [cph, fnd]
Maintainer: Charlie Gao <charlie.gao@posit.co>
Diff between mori versions 0.1.0 dated 2026-04-21 and 0.2.0 dated 2026-05-08
DESCRIPTION | 10 MD5 | 32 - NEWS.md | 8 R/share.R | 89 ++-- README.md | 208 ++++------ man/figures/mori-diagram.svg | 100 +++-- man/map_shared.Rd | 20 - man/mori-package.Rd | 5 man/share.Rd | 57 +- man/shared_name.Rd | 11 src/altrep.c | 708 +++++++++++++++++++++--------------- src/mori.h | 18 src/shm.c | 99 +++-- tests/testthat/test-api.R | 188 ++++++++- tests/testthat/test-cow.R | 62 +++ tests/testthat/test-nested.R | 5 tests/testthat/test-serialization.R | 15 17 files changed, 1068 insertions(+), 567 deletions(-)
Title: Dyad Ratios Algorithm for Latent Variable Estimation
Description: Implements the Dyad Ratios algorithm for estimating latent
variables from time-series survey data. The algorithm estimates a
latent mood dimension (or two dimensions) from a set of issue opinion
series. Supports annual, quarterly, monthly, and daily aggregation
intervals, optional exponential smoothing, and up to two latent
dimensions. Input data can be provided as a data frame or read from
delimited text files. Based on Stimson's 'MCalc' C++ program.
See Stimson (2018) <doi:10.1177/0759106318761614> for more details.
Author: James Stimson [aut] ,
Dave Armstrong [cre, aut]
Maintainer: Dave Armstrong <davearmstrong.ps@gmail.com>
Diff between DyadRatios versions 1.4 dated 2026-04-08 and 2.0 dated 2026-05-08
DyadRatios-1.4/DyadRatios/R/aggregate.R |only DyadRatios-1.4/DyadRatios/R/boot_dr.R |only DyadRatios-1.4/DyadRatios/R/document_data.R |only DyadRatios-1.4/DyadRatios/R/dominate.R |only DyadRatios-1.4/DyadRatios/R/esmooth.R |only DyadRatios-1.4/DyadRatios/R/extract.R |only DyadRatios-1.4/DyadRatios/R/findper.R |only DyadRatios-1.4/DyadRatios/R/iscorr.R |only DyadRatios-1.4/DyadRatios/R/plot.extract.R |only DyadRatios-1.4/DyadRatios/R/print.extract.R |only DyadRatios-1.4/DyadRatios/R/residmi.R |only DyadRatios-1.4/DyadRatios/R/summary.extract.R |only DyadRatios-2.0/DyadRatios/DESCRIPTION | 41 + DyadRatios-2.0/DyadRatios/MD5 | 55 +- DyadRatios-2.0/DyadRatios/NAMESPACE | 25 - DyadRatios-2.0/DyadRatios/R/RcppExports.R |only DyadRatios-2.0/DyadRatios/R/data_document.R |only DyadRatios-2.0/DyadRatios/R/dyad_ratios.R |only DyadRatios-2.0/DyadRatios/R/dyadratios-package.R |only DyadRatios-2.0/DyadRatios/R/get_mood.R | 51 +- DyadRatios-2.0/DyadRatios/R/globals.R |only DyadRatios-2.0/DyadRatios/R/methods.R |only DyadRatios-2.0/DyadRatios/inst/doc/extract-vignette.R | 41 - DyadRatios-2.0/DyadRatios/inst/doc/extract-vignette.Rmd | 41 - DyadRatios-2.0/DyadRatios/inst/doc/extract-vignette.html | 346 ++++++++------- DyadRatios-2.0/DyadRatios/inst/examples |only DyadRatios-2.0/DyadRatios/man/boot_dr.Rd | 177 ++++--- DyadRatios-2.0/DyadRatios/man/dyadratios-package.Rd |only DyadRatios-2.0/DyadRatios/man/extract.Rd | 217 +++++---- DyadRatios-2.0/DyadRatios/man/get_mood.Rd | 34 + DyadRatios-2.0/DyadRatios/man/jennings.Rd | 2 DyadRatios-2.0/DyadRatios/man/plot.boot_dr.Rd |only DyadRatios-2.0/DyadRatios/man/plot.extract.Rd | 34 - DyadRatios-2.0/DyadRatios/man/print.extract.Rd | 27 - DyadRatios-2.0/DyadRatios/man/summary.extract.Rd | 28 - DyadRatios-2.0/DyadRatios/src |only DyadRatios-2.0/DyadRatios/tests |only DyadRatios-2.0/DyadRatios/vignettes/extract-vignette.Rmd | 41 - 38 files changed, 640 insertions(+), 520 deletions(-)
Title: Access to Global Sub-National Income Data
Description: Provides access to granular sub-national income data from the
MCC-PIK Database Of Sub-national Economic Output (DOSE). The package
downloads and processes the data from its open repository on 'Zenodo'
(<https://zenodo.org/records/20035157>). Functions are provided to
fetch data at multiple geographic levels, match coordinates to
administrative regions, and access associated geometries.
Author: Pablo Garcia Guzman [aut, cre, cph]
Maintainer: Pablo Garcia Guzman <garciagp@ebrd.com>
Diff between subincomeR versions 0.4.0 dated 2025-09-11 and 0.5.0 dated 2026-05-08
DESCRIPTION | 11 LICENSE | 4 MD5 | 34 - NAMESPACE | 38 - NEWS.md | 8 R/getDOSE.R | 270 ++++---- R/getDOSE_geom.r | 346 +++++----- R/matchDOSE.R | 332 +++++----- README.md | 134 ++-- build/vignette.rds |binary inst/WORDLIST | 65 +- inst/doc/regional-convergence.R | 316 +++++----- inst/doc/regional-convergence.html | 1169 ++++++++++++++++++------------------- man/figures/map.png |binary man/getDOSE.Rd | 106 +-- man/matchDOSE.Rd | 174 ++--- man/subincomeR-package.Rd | 2 tests/spelling.R | 6 18 files changed, 1513 insertions(+), 1502 deletions(-)
Title: Optimized Data Analysis System for AI-Based Text Processing
Description: Extracts machine-readable variables from natural language text using
AI APIs. Optimized for speed and cost efficiency through parallel processing
and direct CSV-formatted responses from language models. Supports multiple AI
providers with robust error handling and automatic retry mechanisms for
failed extractions.
Author: Gabriel Loenn [aut, cre],
Sebastian Schutte [ctb]
Maintainer: Gabriel Loenn <g.e.lonn@stv.uio.no>
Diff between rapidcodeR versions 0.1.0 dated 2026-03-10 and 0.1.1 dated 2026-05-08
DESCRIPTION | 12 +- MD5 | 12 +- NAMESPACE | 1 R/calculate_overlap.R | 186 +++++++++++++++++++++++++--------------------- R/track_progress.R | 3 man/calculate_overlap.Rd | 32 ++++--- man/rapidcodeR-package.Rd | 7 + 7 files changed, 141 insertions(+), 112 deletions(-)
Title: Scalable and Flexible Derivation of Custom-Time Bioclimatic and
Environmental Summary Variables
Description: Provides an efficient tool for creating custom-time bioclimatic and derived environmental
summary variables from user-supplied raster data for user-defined timeframes. The package overcomes
computational bottlenecks by automatically switching between an in-memory framework using the 'terra'
package to maximize speed for smaller datasets, and an on-disk tiling framework for rasters that exceed
available RAM, leveraging 'exactextractr' and 'Rfast' to process data in chunks. The core functions,
derive_bioclim() and derive_statistics(), offer a unified interface with flexibility for custom time
periods beyond standard quarters and the use of fixed temporal indices, facilitating the creation of
temporally-matched environmental variables for ecological and biogeographical modeling. Visit
the package website <https://gepinillab.github.io/fastbioclim/> to find tutorials in English and Spanish.
Author: Gonzalo E. Pinilla-Buitrago [aut, cre] ,
Luis Osorio-Olvera [aut]
Maintainer: Gonzalo E. Pinilla-Buitrago <gepinillab@gmail.com>
Diff between fastbioclim versions 0.4.1 dated 2026-03-10 and 0.4.2 dated 2026-05-08
DESCRIPTION | 6 +++--- MD5 | 7 ++++--- NEWS.md | 4 ++++ README.md | 11 +++++++++++ inst/CITATION |only 5 files changed, 22 insertions(+), 6 deletions(-)
Title: Result Stability Checks for Empirical R Projects
Description: Lightweight helpers for checking whether empirical results remain
substantively unchanged across code revisions, platform differences,
and package updates. The package supports regression-style testing of
derived datasets, statistical model outputs, tables, and plots, helping
researchers detect unintended result drift early and distinguish material
from non-material changes in empirical workflows.
Author: Dianyi Yang [aut, cre, ctb]
Maintainer: Dianyi Yang <dianyi.yang@politics.ox.ac.uk>
Diff between resultcheck versions 0.2.0 dated 2026-05-03 and 0.2.1 dated 2026-05-08
DESCRIPTION | 8 MD5 | 18 NEWS.md | 4 R/sandbox.R | 313 ++++++++----- R/snapshot.R | 731 ++++++++++++++++++++++---------- inst/extdata/snapshot-method-defaults.R | 196 ++++---- tests/testthat/test-example-project.R | 33 + tests/testthat/test-integration.R | 27 - tests/testthat/test-sandbox.R | 31 - tests/testthat/test-snapshot.R | 263 ++++++++--- 10 files changed, 1079 insertions(+), 545 deletions(-)
Title: J&J Innovative Medicine ADaM Test Data
Description: A set of Analysis Data Model (ADaM) datasets constructed by
modifying the ADaM datasets in the 'pharmaverseadam' package to meet J&J Innovative Medicine's
standard data structure for Clinical and Statistical Programming.
Author: David Munoz Tord [aut, cre],
Nicholas Masel [aut],
Joe Kovach [aut],
Mahesh Divakaran [ctb],
J&J Innovative Medicine [cph, fnd]
Maintainer: David Munoz Tord <david.munoztord@mailbox.org>
Diff between pharmaverseadamjnj versions 0.0.4 dated 2026-05-07 and 0.0.5 dated 2026-05-08
DESCRIPTION | 9 +-- MD5 | 64 +++++++++++------------ NEWS.md | 26 --------- R/adae.R | 16 ++--- R/adaeocmq.R | 16 ++--- R/adeg.R | 3 - R/adex.R | 10 +-- R/adlb.R | 5 + R/adpc.R | 4 - R/adsl.R | 16 +---- R/advs.R | 16 ----- data/adae.rda |binary data/adaeocmq.rda |binary data/adagocmq.rda |binary data/adcm.rda |binary data/addili.rda |binary data/adeg.rda |binary data/adex.rda |binary data/adexsum.rda |binary data/adlb.rda |binary data/adpc.rda |binary data/adsl.rda |binary data/adttesaf.rda |binary data/advs.rda |binary inst/WORDLIST | 147 +++++++++++++++++++++++++----------------------------- man/adae.Rd | 16 ++--- man/adaeocmq.Rd | 16 ++--- man/adeg.Rd | 3 - man/adex.Rd | 10 +-- man/adlb.Rd | 5 + man/adpc.Rd | 4 - man/adsl.Rd | 16 +---- man/advs.Rd | 16 ----- 33 files changed, 173 insertions(+), 245 deletions(-)
More information about pharmaverseadamjnj at CRAN
Permanent link
Title: A Unified Time Series Event Detection Framework
Description: By analyzing time series, it is possible to observe significant changes in the behavior of observations that frequently characterize events. Events present themselves as anomalies, change points, or motifs. In the literature, there are several methods for detecting events. However, searching for a suitable time series method is a complex task, especially considering that the nature of events is often unknown. This work presents Harbinger, a framework for integrating and analyzing event detection methods. Harbinger contains several state-of-the-art methods described in Salles et al. (2020) <doi:10.5753/sbbd.2020.13626>.
Author: Eduardo Ogasawara [aut, ths, cre] ,
Antonio Castro [aut],
Antonio Mello [aut],
Diego Carvalho [ctb],
Eduardo Bezerra [ctb],
Ellen Paixao [aut],
Fernando Fraga [aut],
Heraldo Borges [aut],
Igor Andrade [aut],
Isabele Rocha [aut],
Janio Lima [aut],
Jan [...truncated...]
Maintainer: Eduardo Ogasawara <eogasawara@ieee.org>
Diff between harbinger versions 1.2.767 dated 2026-02-10 and 2.0.707 dated 2026-05-08
DESCRIPTION | 53 +++++++------ MD5 | 128 ++++++++++++++++++--------------- NAMESPACE | 21 +++++ R/data.R | 8 +- R/hanc_ml.R | 20 ++--- R/hanct_dtw.R | 11 +- R/hanct_kmeans.R | 13 +-- R/hanr_fbiad.R | 11 +- R/hanr_fft.R | 4 - R/hanr_fft_amoc.R | 14 +-- R/hanr_fft_amoc_cusum.R | 19 ---- R/hanr_fft_binseg.R | 15 +-- R/hanr_fft_binseg_cusum.R | 20 +---- R/hanr_fft_sma.R | 13 --- R/hanr_remd.R | 11 +- R/hanr_rtad.R | 42 ++++++---- R/har_ensemble.R | 61 ++++++--------- R/har_ensemble_fuzzy.R |only R/har_eval.R | 9 +- R/har_eval_soft.R | 10 +- R/har_plot.R | 2 R/har_plot_ensemble.R |only R/harbinger.R | 22 ++--- R/harbinger_utils.R | 151 ++++++++++++++++++++------------------- R/hcp_bocpd.R |only R/hcp_chow.R | 7 - R/hcp_garch.R | 6 + R/hcp_gft.R | 2 R/hcp_kswin.R |only R/hcp_page_hinkley.R |only R/hcp_scp.R | 29 +++++-- R/hcp_waypoint.R |only R/hdis_mp.R | 2 R/hmo_mp.R | 2 README.md | 143 ++++++++++++++++++++---------------- build/partial.rdb |binary man/detect.Rd | 4 - man/detect.har_ensemble_fuzzy.Rd |only man/examples_anomalies.Rd | 1 man/examples_changepoints.Rd | 1 man/examples_harbinger.Rd | 1 man/examples_motifs.Rd | 1 man/hanct_dtw.Rd | 11 +- man/hanct_kmeans.Rd | 13 +-- man/hanr_fbiad.Rd | 9 +- man/hanr_fft.Rd | 4 - man/hanr_fft_amoc.Rd | 14 +-- man/hanr_fft_amoc_cusum.Rd | 19 ---- man/hanr_fft_binseg.Rd | 15 +-- man/hanr_fft_binseg_cusum.Rd | 20 +---- man/hanr_fft_sma.Rd | 13 --- man/hanr_remd.Rd | 11 +- man/hanr_rtad.Rd | 20 +++-- man/har_ensemble.Rd | 3 man/har_ensemble_fuzzy.Rd |only man/har_ensemble_plot.Rd |only man/har_ensemble_plot_models.Rd |only man/har_eval.Rd | 7 - man/har_eval_soft.Rd | 4 - man/har_plot.Rd | 2 man/harbinger.Rd | 4 - man/hcp_binseg.Rd | 2 man/hcp_bocpd.Rd |only man/hcp_chow.Rd | 5 - man/hcp_garch.Rd | 6 + man/hcp_kswin.Rd |only man/hcp_page_hinkley.Rd |only man/hcp_scp.Rd | 16 +++- man/hcp_waypoint.Rd |only man/hdis_mp.Rd | 2 man/hmo_mp.Rd | 2 tests |only 72 files changed, 533 insertions(+), 526 deletions(-)
Title: Univariate and Multivariate Model-Based Clustering in
Group-Specific Functional Subspaces
Description: The funHDDC algorithm allows to cluster functional univariate (Bouveyron and Jacques, 2011, <doi:10.1007/s11634-011-0095-6>) or multivariate data (Schmutz et al., 2018) by modeling each group within a specific functional subspace.
Author: A Schmutz [aut],
J. Jacques & C. Bouveyron [aut],
Julien Jacques [cre]
Maintainer: Julien Jacques <julien.jacques@univ-lyon2.fr>
This is a re-admission after prior archival of version 2.3.1 dated 2021-03-17
Diff between funHDDC versions 2.3.1 dated 2021-03-17 and 2.3.1.1 dated 2026-05-08
DESCRIPTION | 24 MD5 | 22 R/funHDDC.R | 20 R/mfpca.R | 12 R/predict.funHDDC.R | 2 build/vignette.rds |binary inst/doc/funHDDC.R | 110 ++-- inst/doc/funHDDC.html | 1230 ++++++++++++++++++++++++++++++++----------------- man/funHDDC.Rd | 121 ++-- man/plot.fd.Rd | 8 man/predict.funHDDC.Rd | 99 +-- man/slopeHeuristic.Rd | 78 +-- 12 files changed, 1066 insertions(+), 660 deletions(-)
Title: Methods for ''A Fast Alternative for the R x C Ecological
Inference Case''
Description: Estimates the probability matrix for the R×C Ecological Inference problem using the Expectation-Maximization Algorithm with four approximation methods for the E-Step, and an exact method as well. It also provides a bootstrap function to estimate the standard deviation of the estimated probabilities. In addition, it has functions that aggregate rows optimally to have more reliable estimates in cases of having few data points. For comparing the probability estimates of two groups, a Wald test routine is implemented. The library has data from the first round of the Chilean Presidential Election 2021 and can also generate synthetic election data. Methods described in Thraves, Charles; Ubilla, Pablo; Hermosilla, Daniel (2024) ''A Fast Ecological Inference Algorithm for the R×C case'' <doi:10.2139/ssrn.4832834>.
Author: Charles Thraves [aut] ,
Pablo Ubilla [aut] ,
Daniel Hermosilla [aut, cre]
Maintainer: Daniel Hermosilla <daniel.hermosilla.r@ug.uchile.cl>
Diff between fastei versions 0.0.0.12 dated 2026-01-09 and 0.0.16 dated 2026-05-08
DESCRIPTION | 12 MD5 | 98 ++++--- NAMESPACE | 4 R/RcppExports.R | 8 R/data-utils.R | 5 R/eim-S3.R |only R/eim-class.R | 415 +++++--------------------------- R/fastei-package.R | 6 R/instancer.R | 2 R/internal.R | 555 +++++++++++++++++++++++++++++++++++++++++++- README.md | 11 inst/doc/demonstration.Rmd | 2 inst/doc/demonstration.html | 127 ++++------ man/eim.Rd | 3 man/fastei-package.Rd | 9 man/get_agg_opt.Rd | 6 man/get_agg_proxy.Rd | 2 man/get_eim_chile.Rd | 4 man/plot.eim.Rd |only man/run_em.Rd | 27 +- man/simulate_election.Rd | 3 src/LP.c | 296 +++++++++++++++++++++-- src/LP.h | 7 src/MCMC.c | 8 src/MCMC.h | 3 src/RcppExports.cpp | 33 ++ src/bootstrap.c | 1 src/exact.c | 8 src/exact.h | 1 src/globals.h | 7 src/main.c | 47 +++ src/main.h | 13 + src/main_symmetric.c |only src/main_symmetric.h |only src/multinomial.c | 8 src/multinomial.h | 3 src/multivariate-cdf.c | 8 src/multivariate-cdf.h | 1 src/multivariate-pdf.c | 66 +++-- src/multivariate-pdf.h | 1 src/utils_matrix.c | 38 +-- src/utils_matrix.h | 16 + src/wrapper.cpp | 171 ++++++++++--- src/wrapper.h | 13 - tests |only vignettes/demonstration.Rmd | 2 46 files changed, 1442 insertions(+), 608 deletions(-)
Title: Bayesian "Now-Cast" Estimation of Event Probabilities in
Multi-Party Democracies
Description: An implementation of a Bayesian framework for the opinion poll
based estimation of event probabilities in multi-party electoral systems
(Bender and Bauer (2018) <doi:10.21105/joss.00606>).
Author: Andreas Bender [aut, cre] ,
Alexander Bauer [aut] ,
Rebekka Schade [ctb]
Maintainer: Andreas Bender <bender.at.R@gmail.com>
This is a re-admission after prior archival of version 0.6.24 dated 2022-08-17
Diff between coalitions versions 0.6.24 dated 2022-08-17 and 0.6.27 dated 2026-05-08
coalitions-0.6.24/coalitions/man/pool_austria.Rd |only coalitions-0.6.24/coalitions/man/scrape_austria.Rd |only coalitions-0.6.27/coalitions/DESCRIPTION | 21 - coalitions-0.6.27/coalitions/MD5 | 116 +++--- coalitions-0.6.27/coalitions/NAMESPACE | 12 coalitions-0.6.27/coalitions/NEWS.md | 26 + coalitions-0.6.27/coalitions/R/DHondt.R | 28 + coalitions-0.6.27/coalitions/R/coalition-probability.R | 36 +- coalitions-0.6.27/coalitions/R/entry-probabilities.R | 2 coalitions-0.6.27/coalitions/R/hare_niemeyer.R | 2 coalitions-0.6.27/coalitions/R/plot_survey.R | 1 coalitions-0.6.27/coalitions/R/pooling.R | 34 - coalitions-0.6.27/coalitions/R/prettify.R | 2 coalitions-0.6.27/coalitions/R/saint-lague-scheppers.R | 25 + coalitions-0.6.27/coalitions/R/scrapers.R | 175 +++------- coalitions-0.6.27/coalitions/R/seat-distribution.R | 10 coalitions-0.6.27/coalitions/R/survey-helpers.R | 19 - coalitions-0.6.27/coalitions/R/sysdata.rda |binary coalitions-0.6.27/coalitions/R/utils-pipe.R | 1 coalitions-0.6.27/coalitions/README.md | 22 - coalitions-0.6.27/coalitions/data/party_colors_de.rda |binary coalitions-0.6.27/coalitions/data/party_labels_de.rda |binary coalitions-0.6.27/coalitions/data/surveys_sample.rda |binary coalitions-0.6.27/coalitions/inst/CITATION | 51 +- coalitions-0.6.27/coalitions/man/as_survey.Rd | 3 coalitions-0.6.27/coalitions/man/calculate_prob.Rd | 5 coalitions-0.6.27/coalitions/man/calculate_probs.Rd | 4 coalitions-0.6.27/coalitions/man/collapse_parties.Rd | 5 coalitions-0.6.27/coalitions/man/dHondt.Rd | 10 coalitions-0.6.27/coalitions/man/effective_samplesize.Rd | 4 coalitions-0.6.27/coalitions/man/extract_num.Rd | 3 coalitions-0.6.27/coalitions/man/filter_superior.Rd | 4 coalitions-0.6.27/coalitions/man/get_eligible.Rd | 4 coalitions-0.6.27/coalitions/man/get_entryprobability.Rd | 2 coalitions-0.6.27/coalitions/man/get_meta.Rd | 4 coalitions-0.6.27/coalitions/man/get_n.Rd | 4 coalitions-0.6.27/coalitions/man/get_pooled.Rd | 5 coalitions-0.6.27/coalitions/man/get_probabilities.Rd | 7 coalitions-0.6.27/coalitions/man/get_seats.Rd | 2 coalitions-0.6.27/coalitions/man/get_superior.Rd | 8 coalitions-0.6.27/coalitions/man/get_surveys.Rd | 9 coalitions-0.6.27/coalitions/man/gg_survey.Rd | 3 coalitions-0.6.27/coalitions/man/hare_niemeyer.Rd | 2 coalitions-0.6.27/coalitions/man/has_majority.Rd | 4 coalitions-0.6.27/coalitions/man/have_majority.Rd | 6 coalitions-0.6.27/coalitions/man/paste_coalitions.Rd | 4 coalitions-0.6.27/coalitions/man/pipe.Rd | 3 coalitions-0.6.27/coalitions/man/pool_surveys.Rd | 6 coalitions-0.6.27/coalitions/man/prettify.Rd | 4 coalitions-0.6.27/coalitions/man/redistribute.Rd | 6 coalitions-0.6.27/coalitions/man/sanitize_colnames.Rd | 4 coalitions-0.6.27/coalitions/man/sanitize_strings.Rd | 4 coalitions-0.6.27/coalitions/man/scrape.Rd | 21 - coalitions-0.6.27/coalitions/man/sls.Rd | 9 coalitions-0.6.27/coalitions/man/try_readHTML.Rd | 3 coalitions-0.6.27/coalitions/tests/testthat/test-basic-functions.R | 19 - coalitions-0.6.27/coalitions/tests/testthat/test-pooling.R | 16 coalitions-0.6.27/coalitions/tests/testthat/test-scrapers.R | 69 +-- coalitions-0.6.27/coalitions/tests/testthat/test-survey-helpers.R | 8 coalitions-0.6.27/coalitions/tests/testthat/test-workflow.R | 4 60 files changed, 478 insertions(+), 383 deletions(-)
Title: Logistic Biplot Estimation Using Machine Learning Algorithms
Description: Implements methods for fitting logistic biplot models to
multivariate binary data. The logistic biplot represents individuals
as points and binary variables as directed vectors in a low-dimensional
subspace; the orthogonal projection of each individual onto a variable
vector approximates the expected probability that the corresponding
characteristic is present. Available fitting methods include conjugate
gradient algorithms, a coordinate descent Majorization-Minimization
(MM) algorithm, and a block coordinate descent algorithm based on data
projection that supports matrices with missing values and allows new
individuals to be projected as supplementary rows without refitting
the model. A cross-validation procedure is provided to select the
number of latent dimensions k.
References: Babativa-Marquez and Vicente-Villardon (2021)
<doi:10.3390/math9162015>;
Vicente-Villardon and Galindo (2006, ISBN:9780470973196).
Author: Jose Giovany Babativa-Marquez [cre, aut]
Maintainer: Jose Giovany Babativa-Marquez <jgbabativam@unal.edu.co>
This is a re-admission after prior archival of version 1.1.0 dated 2022-04-22
Diff between BiplotML versions 1.1.0 dated 2022-04-22 and 1.1.1 dated 2026-05-08
BiplotML-1.1.0/BiplotML/R/bootBLB.R |only BiplotML-1.1.0/BiplotML/README.md |only BiplotML-1.1.0/BiplotML/man/bootBLB.Rd |only BiplotML-1.1.1/BiplotML/DESCRIPTION | 43 + BiplotML-1.1.1/BiplotML/MD5 | 58 +- BiplotML-1.1.1/BiplotML/NAMESPACE | 45 - BiplotML-1.1.1/BiplotML/NEWS.md |only BiplotML-1.1.1/BiplotML/R/BinaryFunctions.R | 480 ++++++++++--------- BiplotML-1.1.1/BiplotML/R/LogBip.R | 300 +++++++----- BiplotML-1.1.1/BiplotML/R/Methylation.R | 35 - BiplotML-1.1.1/BiplotML/R/SVD_MM.R | 159 +++--- BiplotML-1.1.1/BiplotML/R/cv_LogBip.R | 259 ++++++---- BiplotML-1.1.1/BiplotML/R/fitted_LB.R | 43 - BiplotML-1.1.1/BiplotML/R/gradientDesc.R | 220 ++++---- BiplotML-1.1.1/BiplotML/R/performanceBLB.R | 219 ++++---- BiplotML-1.1.1/BiplotML/R/plotBLB.R | 637 +++++++++++++++++--------- BiplotML-1.1.1/BiplotML/R/predict_LB.R | 188 ++++--- BiplotML-1.1.1/BiplotML/R/proj_LogBip.R | 171 ++++-- BiplotML-1.1.1/BiplotML/R/simBin.R | 125 ++--- BiplotML-1.1.1/BiplotML/R/zzz.R |only BiplotML-1.1.1/BiplotML/build |only BiplotML-1.1.1/BiplotML/inst/CITATION | 30 - BiplotML-1.1.1/BiplotML/man/LogBip.Rd | 142 +++-- BiplotML-1.1.1/BiplotML/man/Methylation.Rd | 28 - BiplotML-1.1.1/BiplotML/man/cv_LogBip.Rd | 51 +- BiplotML-1.1.1/BiplotML/man/fitted_LB.Rd | 24 BiplotML-1.1.1/BiplotML/man/gradientDesc.Rd | 59 +- BiplotML-1.1.1/BiplotML/man/performanceBLB.Rd | 64 +- BiplotML-1.1.1/BiplotML/man/plotBLB.Rd | 130 +++-- BiplotML-1.1.1/BiplotML/man/pred_LB.Rd | 38 + BiplotML-1.1.1/BiplotML/man/proj_LogBip.Rd | 63 +- BiplotML-1.1.1/BiplotML/man/sdv_MM.Rd | 48 + BiplotML-1.1.1/BiplotML/man/simBin.Rd | 39 - 33 files changed, 2214 insertions(+), 1484 deletions(-)
Title: Landscape Meteorology Tools
Description: Functions to estimate weather variables at any position of a landscape [De Caceres et al. (2018) <doi:10.1016/j.envsoft.2018.08.003>].
Author: Miquel De Caceres [aut, cre] ,
Victor Granda [aut] ,
Nicolas Martin [aut] ,
Antoine Cabon [aut]
Maintainer: Miquel De Caceres <miquelcaceres@gmail.com>
Diff between meteoland versions 2.2.6 dated 2026-02-18 and 2.2.7 dated 2026-05-08
DESCRIPTION | 10 - MD5 | 30 ++-- NEWS.md | 3 R/RcppExports.R | 15 -- R/tidy_interpolation_cross_validation.R | 2 build/partial.rdb |binary build/vignette.rds |binary inst/doc/reshaping-meteo.html | 206 ++++++++++++++++---------------- inst/doc/tidy-meteoland.html | 204 ++++++++++++++++--------------- inst/include/meteoland/pet_c.hpp | 1 inst/include/meteoland/radiation_c.hpp | 1 inst/include/meteoland/utils_c.hpp | 2 man/interpolator_calibration.Rd | 5 src/radiation.cpp | 7 - src/temperature.cpp | 3 src/utils.cpp | 5 16 files changed, 244 insertions(+), 250 deletions(-)
Title: A Basic Set of Functions for Compositional Data Analysis
Description: A minimum set of functions to perform compositional data analysis
using the log-ratio approach introduced by John Aitchison (1982). Main functions
have been implemented in c++ for better performance.
Author: Marc Comas-Cufi [aut, cre]
Maintainer: Marc Comas-Cufi <mcomas@imae.udg.edu>
Diff between coda.base versions 1.0.5 dated 2026-03-04 and 1.0.6 dated 2026-05-08
coda.base-1.0.5/coda.base/data/statistitian_time.RData |only coda.base-1.0.5/coda.base/man/statistitian_time.Rd |only coda.base-1.0.5/coda.base/man/zero_na_conditional_obasis.Rd |only coda.base-1.0.6/coda.base/DESCRIPTION | 7 coda.base-1.0.6/coda.base/MD5 | 61 + coda.base-1.0.6/coda.base/NAMESPACE | 10 coda.base-1.0.6/coda.base/R/RcppExports.R | 12 coda.base-1.0.6/coda.base/R/basis.R | 8 coda.base-1.0.6/coda.base/R/compositional_ops.R |only coda.base-1.0.6/coda.base/R/data.R | 6 coda.base-1.0.6/coda.base/R/tabu_search.R |only coda.base-1.0.6/coda.base/R/utils.R | 385 +++++++-- coda.base-1.0.6/coda.base/R/zero_replacement_imputation.R | 395 ++-------- coda.base-1.0.6/coda.base/build/partial.rdb |only coda.base-1.0.6/coda.base/data/statistician_time.RData |only coda.base-1.0.6/coda.base/inst/doc/coordinates.html | 6 coda.base-1.0.6/coda.base/inst/doc/features.html | 22 coda.base-1.0.6/coda.base/inst/doc/principal_balances.html | 25 coda.base-1.0.6/coda.base/man/closure.Rd |only coda.base-1.0.6/coda.base/man/coda_replacement.Rd | 27 coda.base-1.0.6/coda.base/man/conditional_obasis.Rd | 68 + coda.base-1.0.6/coda.base/man/dist.Rd | 6 coda.base-1.0.6/coda.base/man/dist_coda.Rd |only coda.base-1.0.6/coda.base/man/partial_pb_constrained.Rd |only coda.base-1.0.6/coda.base/man/partial_pb_exact.Rd |only coda.base-1.0.6/coda.base/man/partial_pb_tabu_search.Rd |only coda.base-1.0.6/coda.base/man/pb_basis.Rd | 3 coda.base-1.0.6/coda.base/man/pb_tabu_search.Rd |only coda.base-1.0.6/coda.base/man/perturbation.Rd |only coda.base-1.0.6/coda.base/man/powering.Rd |only coda.base-1.0.6/coda.base/man/random_composition_with_fixed_pb.Rd |only coda.base-1.0.6/coda.base/man/statistician_time.Rd |only coda.base-1.0.6/coda.base/src/RcppExports.cpp | 52 + coda.base-1.0.6/coda.base/src/balance_incremental.h |only coda.base-1.0.6/coda.base/src/coda_replacement.cpp | 2 coda.base-1.0.6/coda.base/src/partial_pb_exact.cpp |only coda.base-1.0.6/coda.base/src/principal_balances_incremental.cpp |only coda.base-1.0.6/coda.base/src/tabu_search.cpp |only coda.base-1.0.6/coda.base/src/tabu_search_neighbouhood.cpp |only coda.base-1.0.6/coda.base/tests |only 40 files changed, 648 insertions(+), 447 deletions(-)
Title: Calculate Confidence Intervals
Description: This calculates a variety of different CIs for proportions
and difference of proportions that are commonly used in the
pharmaceutical industry including Wald, Wilson, Clopper-Pearson,
Agresti-Coull and Jeffreys for proportions. And Miettinen-Nurminen
(1985) <doi:10.1002/sim.4780040211>, Wald, Haldane, and Mee
<https://www.lexjansen.com/wuss/2016/127_Final_Paper_PDF.pdf> for
difference in proportions.
Author: Christina Fillmore [aut, cre] ,
GlaxoSmithKline Research & Development Limited [cph, fnd],
Mike Sprys [aut],
Dan Lythgoe [aut]
Maintainer: Christina Fillmore <christina.e.fillmore@gsk.com>
Diff between cicalc versions 0.2.0 dated 2026-01-07 and 0.2.1 dated 2026-05-08
DESCRIPTION | 9 ++- MD5 | 12 ++--- NEWS.md | 3 + R/prop_ci.R | 4 - R/prop_ci_mn.R | 61 ++++++++++++++++---------- man/ci_prop_clopper_pearson.Rd | 4 - tests/testthat/test-prop_ci_mn.R | 89 ++++++++++++++++++++++++++++++++++++++- 7 files changed, 142 insertions(+), 40 deletions(-)
Title: Custom Visualizations & Functions for Streamlined Analyses of
Single Cell Sequencing
Description: Collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using 'R'. 'scCustomize' aims to provide 1) Customized visualizations for aid in ease of use and to create more aesthetic and functional visuals. 2) Improve speed/reproducibility of common tasks/pieces of code in scRNA-seq analysis with a single or group of functions. For citation please use: Marsh SE (2021) "Custom Visualizations & Functions for Streamlined Analyses of Single Cell Sequencing" <doi:10.5281/zenodo.5706430> RRID:SCR_024675.
Author: Samuel Marsh [aut, cre] ,
Ming Tang [ctb],
Velina Kozareva [ctb],
Lucas Graybuck [ctb],
Zoe Clarke [ctb]
Maintainer: Samuel Marsh <sccustomize@gmail.com>
Diff between scCustomize versions 3.2.4 dated 2025-12-11 and 3.3.0 dated 2026-05-08
scCustomize-3.2.4/scCustomize/R/QC_Utilities_Seurat.R |only scCustomize-3.3.0/scCustomize/DESCRIPTION | 14 scCustomize-3.3.0/scCustomize/MD5 | 101 - scCustomize-3.3.0/scCustomize/NAMESPACE | 2 scCustomize-3.3.0/scCustomize/NEWS.md | 28 scCustomize-3.3.0/scCustomize/R/Internal_Utilities.R | 4 scCustomize-3.3.0/scCustomize/R/LIGER_Utilities.R | 3 scCustomize-3.3.0/scCustomize/R/Plotting_QC_Seq_10X.R | 671 ++++++---- scCustomize-3.3.0/scCustomize/R/Plotting_QC_Seurat.R | 357 ++++- scCustomize-3.3.0/scCustomize/R/Plotting_Seurat.R | 458 ++++++ scCustomize-3.3.0/scCustomize/R/Plotting_Statistics.R | 92 + scCustomize-3.3.0/scCustomize/R/Plotting_Utilities_Internal.R | 60 scCustomize-3.3.0/scCustomize/R/Read_Write_Data.R | 424 ++++++ scCustomize-3.3.0/scCustomize/R/Utilities.R | 2 scCustomize-3.3.0/scCustomize/R/Utilities_Objects.R | 19 scCustomize-3.3.0/scCustomize/R/Utilities_QC_Seurat.R |only scCustomize-3.3.0/scCustomize/man/Add_CellBender_Diff.Rd | 2 scCustomize-3.3.0/scCustomize/man/Add_Cell_Complexity.Rd | 2 scCustomize-3.3.0/scCustomize/man/Add_Cell_QC_Metrics.Rd | 13 scCustomize-3.3.0/scCustomize/man/Add_Hemo.Rd | 2 scCustomize-3.3.0/scCustomize/man/Add_MALAT1_Threshold.Rd | 6 scCustomize-3.3.0/scCustomize/man/Add_Mito_Ribo.Rd | 2 scCustomize-3.3.0/scCustomize/man/Add_Top_Gene_Pct.Rd | 2 scCustomize-3.3.0/scCustomize/man/ElbowPlot_scCustom.Rd | 14 scCustomize-3.3.0/scCustomize/man/Extract_Sample_Meta.Rd | 8 scCustomize-3.3.0/scCustomize/man/Plot_Cells_per_Sample.Rd | 22 scCustomize-3.3.0/scCustomize/man/QC_Histogram.Rd | 8 scCustomize-3.3.0/scCustomize/man/QC_Plot_GenevsFeature.Rd | 8 scCustomize-3.3.0/scCustomize/man/QC_Plot_UMIvsFeature.Rd | 8 scCustomize-3.3.0/scCustomize/man/QC_Plot_UMIvsGene.Rd | 8 scCustomize-3.3.0/scCustomize/man/QC_Plots_Combined_Vln.Rd | 8 scCustomize-3.3.0/scCustomize/man/QC_Plots_Complexity.Rd | 8 scCustomize-3.3.0/scCustomize/man/QC_Plots_Feature.Rd | 8 scCustomize-3.3.0/scCustomize/man/QC_Plots_Genes.Rd | 8 scCustomize-3.3.0/scCustomize/man/QC_Plots_Mito.Rd | 8 scCustomize-3.3.0/scCustomize/man/QC_Plots_UMIs.Rd | 8 scCustomize-3.3.0/scCustomize/man/Read_Velocity.Rd |only scCustomize-3.3.0/scCustomize/man/Seq_QC_Plot_Alignment_Combined.Rd | 9 scCustomize-3.3.0/scCustomize/man/Seq_QC_Plot_Antisense.Rd | 9 scCustomize-3.3.0/scCustomize/man/Seq_QC_Plot_Basic_Combined.Rd | 9 scCustomize-3.3.0/scCustomize/man/Seq_QC_Plot_Exonic.Rd | 9 scCustomize-3.3.0/scCustomize/man/Seq_QC_Plot_Genes.Rd | 9 scCustomize-3.3.0/scCustomize/man/Seq_QC_Plot_Genome.Rd | 9 scCustomize-3.3.0/scCustomize/man/Seq_QC_Plot_Intergenic.Rd | 9 scCustomize-3.3.0/scCustomize/man/Seq_QC_Plot_Intronic.Rd | 9 scCustomize-3.3.0/scCustomize/man/Seq_QC_Plot_Number_Cells.Rd | 9 scCustomize-3.3.0/scCustomize/man/Seq_QC_Plot_Reads_in_Cells.Rd | 9 scCustomize-3.3.0/scCustomize/man/Seq_QC_Plot_Reads_per_Cell.Rd | 9 scCustomize-3.3.0/scCustomize/man/Seq_QC_Plot_Saturation.Rd | 9 scCustomize-3.3.0/scCustomize/man/Seq_QC_Plot_Total_Genes.Rd | 9 scCustomize-3.3.0/scCustomize/man/Seq_QC_Plot_Transcriptome.Rd | 9 scCustomize-3.3.0/scCustomize/man/Seq_QC_Plot_UMIs.Rd | 9 scCustomize-3.3.0/scCustomize/man/exAM_Scoring.Rd | 6 53 files changed, 1987 insertions(+), 542 deletions(-)
Title: Lagrangian Multiplier Smoothing Splines for Smooth Function
Estimation
Description: Implements Lagrangian multiplier smoothing splines for flexible
nonparametric regression and function estimation. Provides tools for fitting,
prediction, and inference using a constrained optimization approach to
enforce smoothness. Supports generalized linear models, Weibull accelerated
failure time (AFT) models, Cox proportional hazards models,
quadratic programming constraints, and customizable working-correlation
structures, with options for parallel fitting. The core spline construction
builds on Ezhov et al. (2018) <doi:10.1515/jag-2017-0029>.
Quadratic-programming and SQP details follow Goldfarb & Idnani (1983)
<doi:10.1007/BF02591962> and Nocedal & Wright (2006)
<doi:10.1007/978-0-387-40065-5>. For smoothing spline and penalized spline
background, see Wahba (1990) <doi:10.1137/1.9781611970128> and Wood (2017)
<doi:10.1201/9781315370279>. For variance-component and correlation-parameter
estimation, see Searle et al. (2006) <ISBN:978-04700 [...truncated...]
Author: Matthew Davis [aut, cre]
Maintainer: Matthew Davis <matthewlouisdavis@gmail.com>
Diff between lgspline versions 1.0.2 dated 2026-04-13 and 1.1.0 dated 2026-05-08
DESCRIPTION | 22 MD5 | 172 NEWS.md | 13 R/HelperFunctions.R | 1142 +- R/RcppExports.R | 6 R/blockfit_solve.R | 4782 ++++---- R/get_B.R | 7965 +++++++------- R/globals.R |only R/lgspline-details.R | 3802 +++--- R/lgspline.R | 853 - R/methods.R | 7726 ++++++------- R/prior_loglik.R | 103 R/process_qp.R | 711 + R/solver_utils.R | 647 + R/tune_Lambda.R | 1305 +- R/weibull_helpers.R | 2138 +-- inst/WORDLIST | 8 man/Details.Rd | 562 man/armaInv.Rd | 2 man/blockfit_solve.Rd | 37 man/compute_Lambda.Rd | 32 man/compute_dG_u_dlambda_xy.Rd | 3 man/compute_trace_H.Rd | 9 man/dot-active_set_refine.Rd | 7 man/dot-active_set_refine_full.Rd |only man/dot-active_set_refine_woodbury.Rd |only man/dot-bf_case_gauss_gee.Rd | 42 man/dot-bf_case_gauss_no_corr.Rd | 2 man/dot-bf_case_glm_gee.Rd | 7 man/dot-bf_case_glm_no_corr.Rd | 1 man/dot-bf_inner_weighted.Rd | 1 man/dot-bf_lagrangian_project.Rd | 4 man/dot-bf_split_components.Rd | 3 man/dot-build_deriv_qp.Rd | 15 man/dot-build_tuning_env.Rd | 2 man/dot-check_kkt_full.Rd |only man/dot-check_kkt_partitionwise.Rd | 3 man/dot-check_kkt_partitionwise_woodbury.Rd |only man/dot-compute_gcvu_gradient.Rd | 13 man/dot-constraint_col_scales.Rd |only man/dot-damped_bfgs.Rd | 9 man/dot-detect_qp_global.Rd | 7 man/dot-fit_coefficients.Rd | 4 man/dot-get_B_gaussian_nocorr.Rd | 2 man/dot-get_B_gee_gaussian.Rd | 8 man/dot-get_B_gee_glm.Rd | 2 man/dot-get_B_gee_glm_woodbury.Rd | 23 man/dot-get_B_gee_woodbury.Rd | 13 man/dot-get_B_glm_nocorr.Rd | 4 man/dot-lagrangian_project.Rd | 7 man/dot-lagrangian_project_full.Rd |only man/dot-lagrangian_project_woodbury.Rd | 18 man/dot-solver_active_set.Rd |only man/dot-solver_build_active_qp_info.Rd |only man/dot-solver_build_augmented_constraints.Rd |only man/dot-solver_build_constraint_rhs.Rd |only man/dot-solver_check_primal_feasibility.Rd |only man/dot-solver_detect_qp_global.Rd | 9 man/dot-solver_recover_active_multipliers.Rd |only man/dot-solver_resolve_active_set.Rd |only man/dot-solver_stabilize_working_weights.Rd |only man/dot-try_woodbury_active_set.Rd |only man/dot-tune_grid_search.Rd | 2 man/dot-woodbury_decompose_V.Rd | 9 man/dot-woodbury_halfsqrt_components.Rd | 25 man/dot-woodbury_redecompose_weighted.Rd | 8 man/dot-woodbury_transform_constraint_matrix.Rd |only man/dot-woodbury_transform_constraint_matrix_transpose.Rd |only man/generate_posterior.Rd | 4 man/get_B.Rd | 14 man/get_B_verification_examples.Rd | 6 man/gramMatrix.Rd | 4 man/lgspline-package.Rd | 2 man/lgspline.Rd | 438 man/lgspline.fit.Rd | 337 man/logLik.lgspline.Rd | 24 man/make_constraint_matrix.Rd | 10 man/prior_loglik.Rd | 20 man/process_qp.Rd | 88 man/softplus.Rd | 4 man/std.Rd | 8 man/tune_Lambda.Rd | 137 src/cpp_functions.cpp | 27 tests/testthat/test-advanced.R | 120 tests/testthat/test-cox.R | 304 tests/testthat/test-fitting.R | 60 tests/testthat/test-glm-sqp.R | 247 tests/testthat/test-methods.R | 84 tests/testthat/test-negbin.R | 512 tests/testthat/test-parallel-qr.R |only tests/testthat/test-parallel.R | 41 tests/testthat/test-plotting.R | 12 tests/testthat/test-predictions.R | 17 tests/testthat/test-tuning-criterion.R | 1199 +- tests/testthat/test-utilities.R | 20 tests/testthat/test_correlation_structure.R | 396 tests/testthat/test_qp_observations_list.R |only 97 files changed, 20316 insertions(+), 16109 deletions(-)
Title: Event Classification, Visualization and Analysis of Eye Tracking
Data
Description: Functions for analysing eye tracking data, including event detection, visualizations and area of interest (AOI) based analyses.
The package includes implementations of the IV-T, I-DT, adaptive velocity threshold, and Identification by two means clustering (I2MC) algorithms.
See separate documentation for each function. The principles underlying I-VT and I-DT algorithms are described in Salvucci & Goldberg (2000) <doi:10.1145/355017.355028>.
Two-means clustering is described in Hessels et al. (2017), <doi: 10.3758/s13428-016-0822-1>.
The adaptive velocity threshold algorithm is described in Nyström & Holmqvist (2010),<doi:10.3758/BRM.42.1.188>.
A documentation of the 'kollaR' can be found in Kleberg et al (2026) <doi:10.3758/s13428-025-02903-z>. Cite this paper when using 'kollaR'
See a demonstration in the URL.
Author: Johan Lundin Kleberg [aut, cre]
Maintainer: Johan Lundin Kleberg <johan.lundin.kleberg@su.se>
Diff between kollaR versions 1.1.3 dated 2026-02-25 and 1.1.4 dated 2026-05-08
DESCRIPTION | 10 - MD5 | 20 +- NAMESPACE | 2 R/AnalysisFunctions.R | 386 +++++++++++++++++++++++++----------------- R/PreprocessingFunctions.R | 14 + R/VisualizationFunctions.R | 11 - man/aoi_test.Rd | 18 + man/calculate_rms.Rd | 10 - man/draw_aois.Rd | 19 -- man/plot_algorithm_results.Rd | 6 man/plot_filter_results.Rd | 5 11 files changed, 301 insertions(+), 200 deletions(-)
Title: ICA-Based Matrix/Tensor Decomposition
Description: Some functions for performing ICA, MICA, Group ICA, and Multilinear ICA are implemented.
ICA, MICA/Group ICA, and Multilinear ICA extract statistically independent components from single matrix, multiple matrices, and single tensor, respectively.
For the details of these methods, see the reference section of GitHub README.md <https://github.com/rikenbit/iTensor>.
Author: Koki Tsuyuzaki [aut, cre]
Maintainer: Koki Tsuyuzaki <k.t.the-answer@hotmail.co.jp>
Diff between iTensor versions 1.0.2 dated 2023-04-28 and 1.0.4 dated 2026-05-08
DESCRIPTION | 10 - MD5 | 37 ++-- NAMESPACE | 2 R/MultilinearICA.R | 10 - R/groupICA_internal.R |only R/toyModel.R | 1 build/vignette.rds |binary inst/NEWS | 13 + inst/doc/iTensor-1.html | 268 ++++++++++++++++------------------- inst/doc/iTensor-2.html | 220 +++++++++++++--------------- inst/doc/iTensor-3.html | 227 +++++++++++++---------------- man/ICA2.Rd | 4 man/MultilinearICA.Rd | 3 tests/testthat.R | 7 tests/testthat/test-CorrIndex.R |only tests/testthat/test-GroupICA.R | 140 +++++++++++++----- tests/testthat/test-ICA.R | 6 tests/testthat/test-ICA2.R | 44 +++-- tests/testthat/test-MICA.R | 4 tests/testthat/test-MultilinearICA.R | 10 + tests/testthat/test-toyModel.R |only 21 files changed, 522 insertions(+), 484 deletions(-)
Title: Pipeline Audit Trails and Data Diagnostics for 'tidyverse'
Workflows
Description: Provides pipeline audit trails and data diagnostics for
'tidyverse' workflows. The audit trail system captures lightweight
metadata snapshots at each step of a pipeline, building a structured
record without storing the data itself. Operation-aware taps enrich
snapshots with join match rates and filter drop statistics.
Trails can be serialized to 'JSON' or 'RDS' and exported as
self-contained 'HTML' visualizations. Also includes diagnostic
functions for interactive data analysis including frequency tables,
string quality auditing, and data comparison.
Author: Fernando Cordeiro [aut, cre, cph]
Maintainer: Fernando Cordeiro <fernandolpcordeiro@gmail.com>
Diff between tidyaudit versions 0.2.0 dated 2026-03-24 and 0.2.1 dated 2026-05-08
DESCRIPTION | 8 ++-- MD5 | 62 +++++++++++++++++----------------- NEWS.md | 11 ++++++ R/audit-transform.R | 16 ++++++-- build/vignette.rds |binary inst/doc/tidyaudit.html | 28 +++++++-------- man/audit_diff.Rd | 10 ++--- man/audit_export.Rd | 10 ++--- man/audit_report.Rd | 10 ++--- man/audit_tap.Rd | 10 ++--- man/audit_trail.Rd | 10 ++--- man/audit_transform.Rd | 12 +++--- man/compare_tables.Rd | 8 ++-- man/diagnose_nas.Rd | 12 +++--- man/diagnose_strings.Rd | 12 +++--- man/filter_drop.Rd | 4 +- man/filter_keep.Rd | 4 +- man/filter_tap.Rd | 2 - man/get_summary_table.Rd | 12 +++--- man/join_tap.Rd | 4 +- man/read_trail.Rd | 10 ++--- man/summarize_column.Rd | 12 +++--- man/tab.Rd | 12 +++--- man/tab_tap.Rd | 10 ++--- man/tidyaudit-package.Rd | 5 ++ man/trail_to_df.Rd | 10 ++--- man/trail_to_list.Rd | 12 +++--- man/validate_join.Rd | 8 ++-- man/validate_primary_keys.Rd | 8 ++-- man/validate_var_relationship.Rd | 8 ++-- man/write_trail.Rd | 10 ++--- tests/testthat/test-audit-transform.R | 18 +++++++++ 32 files changed, 205 insertions(+), 163 deletions(-)
Title: Non-Negative Tensor Decomposition
Description: Some functions for performing non-negative matrix factorization, non-negative CANDECOMP/PARAFAC (CP) decomposition, non-negative Tucker decomposition, and generating toy model data. See Andrzej Cichock et al (2009) and the reference section of GitHub README.md <https://github.com/rikenbit/nnTensor>, for details of the methods.
Author: Koki Tsuyuzaki [aut, cre],
Itoshi Nikaido [aut]
Maintainer: Koki Tsuyuzaki <k.t.the-answer@hotmail.co.jp>
Diff between nnTensor versions 1.3.0 dated 2024-05-13 and 1.4.0 dated 2026-05-08
DESCRIPTION | 11 - MD5 | 37 ++- NAMESPACE | 7 R/NMF.R | 132 ++++++++++++- R/PSDTF.R |only R/ZITNMF.R |only R/nnTensor-internal.R | 216 ++++++++++++++++++++++ build/partial.rdb |binary build/vignette.rds |binary inst/doc/bibliography.bib |only inst/doc/nnTensor-1.html | 130 ++++++------- inst/doc/nnTensor-2.html | 197 +++++++++----------- inst/doc/nnTensor-3.html | 243 ++++++++++++------------- inst/doc/nnTensor-4.R | 20 +- inst/doc/nnTensor-4.Rmd | 20 +- inst/doc/nnTensor-4.html | 406 +++++++++++++++++++++---------------------- man/NMF.Rd | 84 ++++++++ man/PSDTF.Rd |only man/ZITNMF.Rd |only tests/testthat/test_NMF.R | 11 + tests/testthat/test_PSDTF.R |only tests/testthat/test_ZITNMF.R |only vignettes/nnTensor-4.Rmd | 20 +- 23 files changed, 958 insertions(+), 576 deletions(-)
Title: Fast and Flexible Implementations of Exploratory Factor Analysis
Tools
Description: Provides functions to perform exploratory factor analysis (EFA) procedures and compare their solutions. The goal is to provide state-of-the-art factor retention methods and a high degree of flexibility in the EFA procedures. This way, for example, implementations from R 'psych' and 'SPSS' can be compared. Moreover, functions for Schmid-Leiman transformation and the computation of omegas are provided. To speed up the analyses, some of the iterative procedures, like principal axis factoring (PAF), are implemented in C++.
Author: Markus Steiner [aut, cre],
Silvia Grieder [aut],
William Revelle [ctb],
Max Auerswald [ctb],
Morten Moshagen [ctb],
John Ruscio [ctb],
Brendan Roche [ctb],
Urbano Lorenzo-Seva [ctb],
David Navarro-Gonzalez [ctb],
Johan Braeken [ctb],
Andreas Soteriad [...truncated...]
Maintainer: Markus Steiner <markus.d.steiner@gmail.com>
Diff between EFAtools versions 0.7.0 dated 2026-04-30 and 0.7.1 dated 2026-05-08
DESCRIPTION | 6 MD5 | 30 +- NEWS.md | 10 R/EFA.R | 11 - R/EFA_POOLED.R | 8 R/FACTOR_SCORES.R | 25 ++ R/ROTATE_OBLQ.R | 22 +- R/ROTATE_ORTH.R | 18 + inst/doc/EFAtools.html | 270 +++++++++++++------------- inst/doc/Replicate_SPSS_psych.html | 376 ++++++++++++++++++------------------- man/EFA.Rd | 6 man/FACTOR_SCORES.Rd | 23 ++ tests/testthat/test-EFA.R | 4 tests/testthat/test-ROTATE_OBLQ.R | 28 +- tests/testthat/test-ROTATE_ORTH.R | 12 - tests/testthat/test-SL.R | 4 16 files changed, 464 insertions(+), 389 deletions(-)
Title: MR Spectroscopy Analysis Tools
Description: Tools for reading, visualising and processing Magnetic Resonance
Spectroscopy data. The package includes methods for spectral fitting: Wilson
(2021) <DOI:10.1002/mrm.28385>, Wilson (2025) <DOI:10.1002/mrm.30462> and
spectral alignment: Wilson (2018) <DOI:10.1002/mrm.27605>.
Author: Martin Wilson [cre, aut] ,
Yong Wang [ctb],
John Muschelli [ctb]
Maintainer: Martin Wilson <martin.wilson111@gmail.com>
Diff between spant versions 3.9.0 dated 2026-02-23 and 4.0.0 dated 2026-05-08
DESCRIPTION | 12 +- MD5 | 60 +++++++------ NAMESPACE | 9 + NEWS.md | 11 ++ R/ants_utils.R |only R/dicom_reader.R | 3 R/fit_svs.R | 61 +++++++++---- R/fit_svs_edited.R | 59 +++++++++--- R/fmrs.R | 28 +++++- R/mrs_read_dicom.R | 17 ++- R/qm_simulation.R | 6 - R/rats.R | 27 ++++- R/utils.R | 5 - build/vignette.rds |binary inst/cli_scripts/spant_fit_svs | 4 inst/doc/abfit-baseline-opts.html | 18 +-- inst/doc/spant-basis-simulation.html | 8 - inst/doc/spant-intro.html | 138 +++++++++++++++--------------- inst/doc/spant-metabolite-simulation.html | 10 +- inst/doc/spant-preprocessing.html | 14 +-- man/faceoff.Rd |only man/fit_svs.Rd | 21 ++-- man/fit_svs_edited.Rd | 21 ++-- man/get_ants_dir.Rd |only man/get_spant_resources_dir.Rd |only man/install_ants.Rd |only man/install_faceoff.Rd |only man/install_oasis_template.Rd |only man/mr_data2bids.Rd | 2 man/reexports.Rd | 2 man/segment_t1_ants.Rd |only man/segment_t1_fsl.Rd | 4 man/segment_t1_rpyants.Rd |only man/set_ants_dir.Rd |only man/sim_basis.Rd | 2 man/spant-package.Rd | 5 + 36 files changed, 345 insertions(+), 202 deletions(-)
Title: Self-Controlled Case Series
Description: Execute the self-controlled case series (SCCS) design using observational
data in the OMOP Common Data Model. Extracts all necessary data from the database and
transforms it to the format required for SCCS. Age and season can be modeled
using splines assuming constant hazard within calendar months. Event-dependent
censoring of the observation period can be corrected for. Many exposures can be
included at once (MSCCS), with regularization on all coefficients except for the
exposure of interest. Includes diagnostics for all major assumptions of the SCCS.
Author: Martijn Schuemie [aut, cre],
Patrick Ryan [aut],
Trevor Shaddox [aut],
Marc Suchard [aut]
Maintainer: Martijn Schuemie <schuemie@ohdsi.org>
Diff between SelfControlledCaseSeries versions 6.1.4 dated 2026-03-26 and 6.1.5 dated 2026-05-08
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- NEWS.md | 10 ++++++++++ R/RunAnalyses.R | 2 +- R/SccsDataConversion.R | 18 ++++-------------- R/ScriDataConversion.R | 7 ++----- inst/doc/MultipleAnalyses.pdf |binary inst/doc/ResultsSchema.pdf |binary inst/doc/SingleStudies.pdf |binary tests/testthat/test-eraConstruction.R | 1 + tests/testthat/test-eunomia.R | 10 +++++++++- 11 files changed, 41 insertions(+), 35 deletions(-)
More information about SelfControlledCaseSeries at CRAN
Permanent link
Title: R Interface to the 'OKX' REST API
Description: Provides lightweight R wrappers for the 'OKX' REST API, covering
endpoints for market data, trading, account management, asset balances,
and copy trading. The upstream API reference is available at
<https://www.okx.com/docs-v5/en/>.
Author: Oliver Zhou [aut, cre],
Lily Li [aut]
Maintainer: Oliver Zhou <oliver.yxzhou@gmail.com>
Diff between okxr versions 0.2.4 dated 2026-04-28 and 0.4.5 dated 2026-05-08
DESCRIPTION | 17 MD5 | 214 +- NAMESPACE | 115 + NEWS.md | 206 ++ R/def_constants.R | 1511 +++++++++++++++- R/utils_auth.R | 7 R/utils_parser.R | 38 R/utils_request_helpers.R | 62 R/wrappers_get_account.R | 582 ++++++ R/wrappers_get_asset.R | 264 ++ R/wrappers_get_copy_trade.R | 321 +++ R/wrappers_get_market.R | 702 +++++++ R/wrappers_get_trade.R | 303 +++ R/wrappers_post_asset.R |only R/wrappers_post_configure.R | 302 +++ R/wrappers_post_trade.R | 497 +++++ README.md | 141 + man/dot-execute_get_action.Rd | 7 man/dot-gets.Rd | 2 man/dot-make_parser.Rd | 29 man/dot-posts.Rd | 2 man/get_account_adjust_leverage_info.Rd |only man/get_account_balance.Rd | 9 man/get_account_bills_history_archive.Rd |only man/get_account_collateral_assets.Rd |only man/get_account_config.Rd | 7 man/get_account_greeks.Rd |only man/get_account_instruments.Rd |only man/get_account_interest_accrued.Rd |only man/get_account_interest_limits.Rd |only man/get_account_interest_rate.Rd |only man/get_account_leverage_info.Rd | 14 man/get_account_max_avail_size.Rd |only man/get_account_max_loan.Rd |only man/get_account_max_size.Rd |only man/get_account_max_withdrawal.Rd |only man/get_account_mmp_config.Rd |only man/get_account_move_positions_history.Rd |only man/get_account_position_risk.Rd |only man/get_account_position_tiers.Rd |only man/get_account_positions.Rd | 7 man/get_account_positions_history.Rd | 7 man/get_account_precheck_set_delta_neutral.Rd |only man/get_account_risk_state.Rd |only man/get_account_set_account_switch_precheck.Rd |only man/get_account_spot_borrow_repay_history.Rd |only man/get_account_subaccount_balances.Rd |only man/get_account_subaccount_max_withdrawal.Rd |only man/get_account_subtypes.Rd |only man/get_account_trade_fee.Rd |only man/get_asset_asset_valuation.Rd |only man/get_asset_bills.Rd |only man/get_asset_bills_history.Rd |only man/get_asset_convert_currencies.Rd |only man/get_asset_convert_currency_pair.Rd |only man/get_asset_convert_history.Rd |only man/get_asset_deposit_history.Rd | 34 man/get_asset_deposit_withdraw_status.Rd |only man/get_asset_exchange_list.Rd |only man/get_asset_non_tradable_assets.Rd |only man/get_asset_transfer_state.Rd |only man/get_asset_withdrawal_history.Rd | 34 man/get_copy_trade_config.Rd |only man/get_copy_trade_current_subpos.Rd | 26 man/get_copy_trade_historical_subpos.Rd | 26 man/get_copy_trade_instruments.Rd |only man/get_copy_trade_my_leaders.Rd | 6 man/get_copy_trade_profit_sharing_details.Rd |only man/get_copy_trade_public_config.Rd |only man/get_copy_trade_public_copy_traders.Rd |only man/get_copy_trade_public_current_subpositions.Rd |only man/get_copy_trade_public_lead_traders.Rd |only man/get_copy_trade_public_pnl.Rd |only man/get_copy_trade_public_preference_currency.Rd |only man/get_copy_trade_public_stats.Rd |only man/get_copy_trade_public_subpositions_history.Rd |only man/get_copy_trade_public_weekly_pnl.Rd |only man/get_copy_trade_settings.Rd | 14 man/get_copy_trade_total_profit_sharing.Rd |only man/get_copy_trade_total_unrealized_profit_sharing.Rd |only man/get_copy_trade_unrealized_profit_sharing_details.Rd |only man/get_market_block_ticker.Rd |only man/get_market_block_tickers.Rd |only man/get_market_books.Rd | 7 man/get_market_candles.Rd | 6 man/get_market_exchange_rate.Rd |only man/get_market_history_candles.Rd | 16 man/get_market_history_index_candles.Rd |only man/get_market_history_mark_price_candles.Rd |only man/get_market_index_candles.Rd |only man/get_market_index_components.Rd |only man/get_market_index_tickers.Rd |only man/get_market_mark_price_candles.Rd |only man/get_market_option_instrument_family_trades.Rd |only man/get_market_platform_24_volume.Rd |only man/get_market_trades.Rd | 7 man/get_public_block_trades.Rd |only man/get_public_convert_contract_coin.Rd |only man/get_public_delivery_exercise_history.Rd |only man/get_public_discount_rate_interest_free_quota.Rd |only man/get_public_economic_calendar.Rd |only man/get_public_estimated_price.Rd |only man/get_public_estimated_settlement_info.Rd |only man/get_public_funding_rate.Rd | 6 man/get_public_instrument_tick_bands.Rd |only man/get_public_instruments.Rd | 8 man/get_public_insurance_fund.Rd |only man/get_public_interest_rate_loan_quota.Rd |only man/get_public_mark_price.Rd | 6 man/get_public_opt_summary.Rd |only man/get_public_option_trades.Rd |only man/get_public_position_tiers.Rd |only man/get_public_premium_history.Rd |only man/get_public_price_limit.Rd | 6 man/get_public_settlement_history.Rd |only man/get_public_underlying.Rd |only man/get_trade_account_rate_limit.Rd |only man/get_trade_easy_convert_currency_list.Rd |only man/get_trade_easy_convert_history.Rd |only man/get_trade_fills.Rd | 6 man/get_trade_fills_history.Rd | 6 man/get_trade_one_click_repay_currency_list.Rd |only man/get_trade_one_click_repay_currency_list_v2.Rd |only man/get_trade_one_click_repay_history.Rd |only man/get_trade_one_click_repay_history_v2.Rd |only man/get_trade_order.Rd | 5 man/get_trade_order_algo.Rd |only man/get_trade_orders_algo_history.Rd |only man/get_trade_orders_algo_pending.Rd |only man/get_trade_orders_history.Rd |only man/get_trade_orders_history_7d.Rd | 29 man/get_trade_orders_history_archive.Rd |only man/get_trade_orders_pending.Rd | 7 man/okxr-package.Rd | 5 man/post_account_account_level_switch_preset.Rd |only man/post_account_mmp_config.Rd |only man/post_account_mmp_reset.Rd |only man/post_account_move_positions.Rd |only man/post_account_position_margin_balance.Rd |only man/post_account_set_account_level.Rd |only man/post_account_set_auto_loan.Rd |only man/post_account_set_auto_repay.Rd |only man/post_account_set_collateral_assets.Rd |only man/post_account_set_fee_type.Rd |only man/post_account_set_greeks.Rd |only man/post_account_set_leverage.Rd | 3 man/post_account_set_position_mode.Rd |only man/post_account_spot_manual_borrow_repay.Rd |only man/post_asset_cancel_withdrawal.Rd |only man/post_asset_convert_estimate_quote.Rd |only man/post_asset_convert_trade.Rd |only man/post_asset_transfer.Rd |only man/post_asset_withdrawal.Rd |only man/post_trade_amend_algos.Rd |only man/post_trade_amend_batch_orders.Rd |only man/post_trade_amend_order.Rd |only man/post_trade_batch_orders.Rd |only man/post_trade_cancel_algos.Rd |only man/post_trade_cancel_all_after.Rd |only man/post_trade_cancel_batch_orders.Rd |only man/post_trade_cancel_order.Rd | 13 man/post_trade_mass_cancel.Rd |only man/post_trade_order_precheck.Rd |only man/set_okxr_options.Rd | 6 tests/testthat/test-request-helpers.R | 24 tests/testthat/test-wrapper-queries.R | 944 +++++++++ 166 files changed, 6286 insertions(+), 330 deletions(-)
Title: Minimalist Async Evaluation Framework for R
Description: Evaluates R expressions asynchronously and in parallel,
locally or distributed across networks. An official parallel cluster
type for R. Built on 'nanonext' and 'NNG', its non-polling,
event-driven architecture scales from a laptop to thousands of
processes across high-performance computing clusters and cloud
platforms. Features FIFO scheduling with task cancellation and bounded
queues, promises for reactive programming, 'OpenTelemetry' distributed
tracing, and custom serialization for cross-language data types.
Author: Charlie Gao [aut, cre] ,
Joe Cheng [ctb],
Posit Software, PBC [cph, fnd] ,
Hibiki AI Limited [cph]
Maintainer: Charlie Gao <charlie.gao@posit.co>
Diff between mirai versions 2.6.1 dated 2026-03-02 and 2.7.0 dated 2026-05-08
mirai-2.6.1/mirai/R/dispatcher.R |only mirai-2.6.1/mirai/man/dispatcher.Rd |only mirai-2.7.0/mirai/DESCRIPTION | 19 + mirai-2.7.0/mirai/MD5 | 78 +++---- mirai-2.7.0/mirai/NAMESPACE | 10 - mirai-2.7.0/mirai/NEWS.md | 22 ++ mirai-2.7.0/mirai/R/daemons.R | 132 +++++++------ mirai-2.7.0/mirai/R/launchers.R | 190 ++++++++++++++----- mirai-2.7.0/mirai/R/map.R | 11 - mirai-2.7.0/mirai/R/mirai-package.R | 14 - mirai-2.7.0/mirai/R/mirai.R | 181 ++++++++++++------ mirai-2.7.0/mirai/R/next.R | 5 mirai-2.7.0/mirai/README.md | 204 +++++++++----------- mirai-2.7.0/mirai/build/vignette.rds |binary mirai-2.7.0/mirai/inst/doc/mirai.Rmd | 9 mirai-2.7.0/mirai/inst/doc/mirai.html | 9 mirai-2.7.0/mirai/inst/doc/v01-reference.Rmd | 245 +++++++++++++++++++------ mirai-2.7.0/mirai/inst/doc/v01-reference.html | 205 +++++++++++++++----- mirai-2.7.0/mirai/inst/doc/v06-packages.Rmd | 4 mirai-2.7.0/mirai/inst/doc/v06-packages.html | 2 mirai-2.7.0/mirai/inst/doc/v07-questions.Rmd | 2 mirai-2.7.0/mirai/inst/doc/v07-questions.html | 2 mirai-2.7.0/mirai/man/call_mirai.Rd | 3 mirai-2.7.0/mirai/man/cluster_config.Rd | 5 mirai-2.7.0/mirai/man/collect_mirai.Rd | 4 mirai-2.7.0/mirai/man/daemons.Rd | 30 ++- mirai-2.7.0/mirai/man/dot-flat.Rd | 9 mirai-2.7.0/mirai/man/everywhere.Rd | 3 mirai-2.7.0/mirai/man/figures/architecture.svg | 120 +++++------- mirai-2.7.0/mirai/man/http_config.Rd | 41 ++++ mirai-2.7.0/mirai/man/make_cluster.Rd | 2 mirai-2.7.0/mirai/man/mirai-package.Rd | 11 - mirai-2.7.0/mirai/man/mirai.Rd | 37 +++ mirai-2.7.0/mirai/man/nextstream.Rd | 5 mirai-2.7.0/mirai/man/ssh_config.Rd | 8 mirai-2.7.0/mirai/man/status.Rd | 16 + mirai-2.7.0/mirai/tests/tests.R | 177 ++++++++++++++++-- mirai-2.7.0/mirai/vignettes/mirai.Rmd | 9 mirai-2.7.0/mirai/vignettes/v01-reference.Rmd | 245 +++++++++++++++++++------ mirai-2.7.0/mirai/vignettes/v06-packages.Rmd | 4 mirai-2.7.0/mirai/vignettes/v07-questions.Rmd | 2 41 files changed, 1433 insertions(+), 642 deletions(-)
Title: Create Layout Plots of Biological Culture Plates and Microplates
Description: Enables users to create simple plots of biological culture plates as well as microplates. Both continuous and discrete values can be plotted onto the plate layout.
Author: Jan-Philipp Quast [aut, cre]
Maintainer: Jan-Philipp Quast <jpquast.software@gmail.com>
Diff between ggplate versions 0.2.0 dated 2026-01-09 and 0.3.0 dated 2026-05-08
DESCRIPTION | 6 +++--- MD5 | 16 +++++++++------- NEWS.md | 4 ++++ R/data.R | 13 +++++++++++-- R/plate_plot.R | 27 ++++++++++++++++++++++++--- README.md | 4 ++-- data/data_continuous_1536_Aa.rda |only man/data_continuous_1536.Rd | 4 ++-- man/data_continuous_1536_Aa.Rd |only man/plate_plot.Rd | 9 +++++++++ 10 files changed, 64 insertions(+), 19 deletions(-)
Title: Comparative Cohort Method with Large Scale Propensity and
Outcome Models
Description: Functions for performing comparative cohort studies
in an observational database in the Observational Medical Outcomes Partnership (OMOP) Common
Data Model. Can extract all necessary data from a database. This implements large-scale
propensity scores (LSPS) as described in Tian et al. (2018) <doi:10.1093/ije/dyy120>,
using a large set of covariates, including for example all drugs, diagnoses, procedures,
as well as age, comorbidity indexes, etc. Large scale regularized regression is used to
fit the propensity and outcome models as described in Suchard et al. (2013) <doi:10.1145/2414416.2414791>.
Functions are included for trimming, stratifying, (variable and fixed ratio) matching and
weighting by propensity scores, as well as diagnostic functions, such as propensity score distribution
plots and plots showing covariate balance before and after matching and/or trimming. Supported
outcome models are (conditional) logistic regression, (conditional) Poisson regression, and
(stra [...truncated...]
Author: Martijn Schuemie [aut, cre],
Marc Suchard [aut],
Patrick Ryan [aut]
Maintainer: Martijn Schuemie <schuemie@ohdsi.org>
Diff between CohortMethod versions 6.0.1 dated 2026-03-21 and 6.0.2 dated 2026-05-08
DESCRIPTION | 8 +++---- MD5 | 20 +++++++++---------- NEWS.md | 10 +++++++++ R/DataLoadingSaving.R | 17 +++++++++++++++- R/PsFunctions.R | 2 - R/RunAnalyses.R | 9 +++++++- README.md | 44 +++++++++++++++++++++--------------------- inst/doc/MultipleAnalyses.pdf |binary inst/doc/ResultsSchema.html | 4 +-- inst/doc/SingleStudies.pdf |binary man/createPs.Rd | 2 - 11 files changed, 75 insertions(+), 41 deletions(-)
Title: Early Detection of Public Health Threats from Social Media Data
Description: It allows you to automatically monitor trends of social media messages by time, place and topic aiming at detecting public health threats early through the detection of signals (i.e., an unusual increase in the number of messages per time, topic and location). It was designed to focus on infectious diseases, and it can be extended to all hazards or other fields of study by modifying the topics and keywords. More information on the original package 'epitweetr' is available in the peer-review publication Espinosa et al. (2022) <doi:10.2807/1560-7917.ES.2022.27.39.2200177>.
Author: Laura Espinosa [aut, fnd, cre] ,
Francisco Orchard [aut, ctr] ,
Gianfranco Spiteri [ctb, fnd],
Ariana Wijermans [ctb] ,
Thomas Mollet [ctb] ,
Adrian Prodan [ctb],
Martin Norling [ctb],
Enrique Delgado [ctb],
Thomas Czernichow [ctb],
Maria Prieto Gonz [...truncated...]
Maintainer: Laura Espinosa <laura.espinosa@ecdc.europa.eu>
Diff between episomer versions 3.0.34 dated 2026-04-20 and 3.0.35 dated 2026-05-08
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/plans.R | 4 ++-- java/ecdc-episomer-bundle_2.13-1.0-source.zip |binary 4 files changed, 8 insertions(+), 8 deletions(-)
Title: Integrated Analysis and Visualization of Microbiome Data
Description: A toolkit for working with Biological Observation Matrix ('BIOM') files.
Read/write all 'BIOM' formats. Compute rarefaction, alpha diversity, and
beta diversity (including 'UniFrac'). Summarize counts by taxonomic level.
Subset based on metadata. Generate visualizations and statistical analyses.
Author: Daniel P. Smith [aut, cre] ,
Alkek Center for Metagenomics and Microbiome Research [cph, fnd]
Maintainer: Daniel P. Smith <dansmith01@gmail.com>
Diff between rbiom versions 2.2.1 dated 2025-06-27 and 3.1.0 dated 2026-05-08
rbiom-2.2.1/rbiom/R/rbiom-deprecated.r |only rbiom-2.2.1/rbiom/data |only rbiom-2.2.1/rbiom/man/adiv_matrix.Rd |only rbiom-2.2.1/rbiom/man/rarefy_cols.Rd |only rbiom-2.2.1/rbiom/man/rbiom-deprecated.Rd |only rbiom-2.2.1/rbiom/src |only rbiom-2.2.1/rbiom/tests/testthat/test-rbiom-deprecated.r |only rbiom-3.1.0/rbiom/DESCRIPTION | 33 rbiom-3.1.0/rbiom/MD5 | 215 +--- rbiom-3.1.0/rbiom/NAMESPACE | 105 - rbiom-3.1.0/rbiom/R/adiv_table.r | 222 ++-- rbiom-3.1.0/rbiom/R/apcoa.r | 2 rbiom-3.1.0/rbiom/R/as_rbiom.r | 81 + rbiom-3.1.0/rbiom/R/bdiv_heatmap.r | 71 - rbiom-3.1.0/rbiom/R/bdiv_ord_plot.r | 35 rbiom-3.1.0/rbiom/R/bdiv_ord_table.r | 33 rbiom-3.1.0/rbiom/R/bdiv_table.r | 330 ++---- rbiom-3.1.0/rbiom/R/biom_merge.r | 89 + rbiom-3.1.0/rbiom/R/biom_ply.r | 8 rbiom-3.1.0/rbiom/R/boxplot.r | 36 rbiom-3.1.0/rbiom/R/cache.r | 2 rbiom-3.1.0/rbiom/R/clustering.r | 15 rbiom-3.1.0/rbiom/R/convert.r | 160 ++- rbiom-3.1.0/rbiom/R/corrplot.r | 32 rbiom-3.1.0/rbiom/R/data.r | 47 rbiom-3.1.0/rbiom/R/distmat_stats.r | 2 rbiom-3.1.0/rbiom/R/documentation.r | 79 + rbiom-3.1.0/rbiom/R/import_table.r | 4 rbiom-3.1.0/rbiom/R/rarefy.r | 789 +++++++++++---- rbiom-3.1.0/rbiom/R/rbiom_objects.r | 52 rbiom-3.1.0/rbiom/R/read_biom.r | 156 +- rbiom-3.1.0/rbiom/R/read_tree.r | 65 - rbiom-3.1.0/rbiom/R/reexport.r | 13 rbiom-3.1.0/rbiom/R/s3_methods.r | 16 rbiom-3.1.0/rbiom/R/speed_ups.r | 2 rbiom-3.1.0/rbiom/R/stats_table.r | 15 rbiom-3.1.0/rbiom/R/taxa_heatmap.r | 4 rbiom-3.1.0/rbiom/R/taxa_stacked.r | 3 rbiom-3.1.0/rbiom/R/taxa_table.r | 29 rbiom-3.1.0/rbiom/R/utils.r | 25 rbiom-3.1.0/rbiom/R/validate.r | 129 ++ rbiom-3.1.0/rbiom/R/write_biom.r | 180 +-- rbiom-3.1.0/rbiom/R/write_xlsx.r | 10 rbiom-3.1.0/rbiom/R/zzz.r | 7 rbiom-3.1.0/rbiom/README.md | 90 + rbiom-3.1.0/rbiom/build/partial.rdb |binary rbiom-3.1.0/rbiom/exec/rbiom_subtree.r | 2 rbiom-3.1.0/rbiom/man/adiv_boxplot.Rd | 17 rbiom-3.1.0/rbiom/man/adiv_corrplot.Rd | 15 rbiom-3.1.0/rbiom/man/adiv_stats.Rd | 15 rbiom-3.1.0/rbiom/man/adiv_table.Rd | 80 + rbiom-3.1.0/rbiom/man/babies.Rd | 10 rbiom-3.1.0/rbiom/man/bdiv_boxplot.Rd | 36 rbiom-3.1.0/rbiom/man/bdiv_clusters.Rd | 43 rbiom-3.1.0/rbiom/man/bdiv_corrplot.Rd | 34 rbiom-3.1.0/rbiom/man/bdiv_heatmap.Rd | 38 rbiom-3.1.0/rbiom/man/bdiv_ord_plot.Rd | 32 rbiom-3.1.0/rbiom/man/bdiv_ord_table.Rd | 37 rbiom-3.1.0/rbiom/man/bdiv_stats.Rd | 40 rbiom-3.1.0/rbiom/man/bdiv_table.Rd | 108 +- rbiom-3.1.0/rbiom/man/bdply.Rd | 11 rbiom-3.1.0/rbiom/man/biom_inflate.Rd |only rbiom-3.1.0/rbiom/man/biom_relativize.Rd |only rbiom-3.1.0/rbiom/man/biom_rescale.Rd |only rbiom-3.1.0/rbiom/man/convert_to.Rd | 67 - rbiom-3.1.0/rbiom/man/distmat_stats.Rd | 2 rbiom-3.1.0/rbiom/man/documentation_default.Rd | 67 - rbiom-3.1.0/rbiom/man/export.Rd | 3 rbiom-3.1.0/rbiom/man/figures/README-bdiv-1.png |binary rbiom-3.1.0/rbiom/man/figures/README-bdiv-2.png |binary rbiom-3.1.0/rbiom/man/figures/README-bdiv-3.png |binary rbiom-3.1.0/rbiom/man/figures/README-taxa-1.png |binary rbiom-3.1.0/rbiom/man/figures/README-taxa-2.png |binary rbiom-3.1.0/rbiom/man/gems.Rd | 10 rbiom-3.1.0/rbiom/man/hmp50.Rd | 10 rbiom-3.1.0/rbiom/man/matrix_ops.Rd |only rbiom-3.1.0/rbiom/man/modify_metadata.Rd | 4 rbiom-3.1.0/rbiom/man/rare_corrplot.Rd | 21 rbiom-3.1.0/rbiom/man/rare_multiplot.Rd | 17 rbiom-3.1.0/rbiom/man/rare_stacked.Rd | 5 rbiom-3.1.0/rbiom/man/rarefy.Rd | 90 + rbiom-3.1.0/rbiom/man/reexports.Rd | 11 rbiom-3.1.0/rbiom/man/sample_sums.Rd | 7 rbiom-3.1.0/rbiom/man/slice_metadata.Rd | 17 rbiom-3.1.0/rbiom/man/speed.Rd | 2 rbiom-3.1.0/rbiom/man/subset.Rd | 4 rbiom-3.1.0/rbiom/man/suggest_inflate_depths.Rd |only rbiom-3.1.0/rbiom/man/suggest_rarefy_depth.Rd |only rbiom-3.1.0/rbiom/man/taxa_boxplot.Rd | 5 rbiom-3.1.0/rbiom/man/taxa_clusters.Rd | 3 rbiom-3.1.0/rbiom/man/taxa_corrplot.Rd | 5 rbiom-3.1.0/rbiom/man/taxa_heatmap.Rd | 7 rbiom-3.1.0/rbiom/man/taxa_map.Rd | 3 rbiom-3.1.0/rbiom/man/taxa_matrix.Rd | 7 rbiom-3.1.0/rbiom/man/taxa_stacked.Rd | 7 rbiom-3.1.0/rbiom/man/taxa_stats.Rd | 5 rbiom-3.1.0/rbiom/man/taxa_sums.Rd | 5 rbiom-3.1.0/rbiom/man/with.Rd | 4 rbiom-3.1.0/rbiom/man/write_biom.Rd | 18 rbiom-3.1.0/rbiom/tests/testthat/_test_distance.r | 2 rbiom-3.1.0/rbiom/tests/testthat/inputs/biom.hdf5 |only rbiom-3.1.0/rbiom/tests/testthat/test-adiv_table.r | 18 rbiom-3.1.0/rbiom/tests/testthat/test-bdiv_heatmap.r | 4 rbiom-3.1.0/rbiom/tests/testthat/test-bdiv_ord_plot.r | 4 rbiom-3.1.0/rbiom/tests/testthat/test-bdiv_table.r | 50 rbiom-3.1.0/rbiom/tests/testthat/test-biom_ply.r | 50 rbiom-3.1.0/rbiom/tests/testthat/test-convert.r | 35 rbiom-3.1.0/rbiom/tests/testthat/test-rarefy.r | 22 rbiom-3.1.0/rbiom/tests/testthat/test-read_biom.r | 13 rbiom-3.1.0/rbiom/tests/testthat/test-write_biom.r | 2 110 files changed, 2563 insertions(+), 1747 deletions(-)
Title: Analysis of Experimental Data using ANOVA and Mean Comparison
Description: Provides tools for designing and analyzing agricultural
experiments. It includes functions for generating randomized
treatment layouts for standard experimental designs such as
Completely Randomized Design (CRD), Randomized Block Design (RBD),
Latin Square Design (LSD), Factorial Randomized Block Design
(FRBD), split-plot design, and strip-plot design. The package
implements one-factor and two-factor analysis of variance (ANOVA)
and offers multiple comparison procedures, including Least
Significant Difference (lsd), Tukey, and Duncan tests, to compare
treatment means in single-factor and factorial experiments. The
methods follow classical experimental design principles described
in Gomez and Gomez (1984, Statistical Procedures for Agricultural Research, John Wiley & Sons, New York).
Author: Santosh Patil [aut, cre] ,
Yogesh Garde [aut]
Maintainer: Santosh Patil <patil.sgstat@gmail.com>
Diff between PGaovR versions 0.1.0 dated 2026-04-28 and 0.1.1 dated 2026-05-08
DESCRIPTION | 8 MD5 | 9 NEWS.md |only R/FDlay.R | 655 +++++++++++++++++++++++++++++------------------------------ R/SFaov.R | 255 +++++++++++----------- R/data-doc.R | 12 - 6 files changed, 473 insertions(+), 466 deletions(-)
Title: Argentina's Spatial Data Toolbox
Description: Collection of tools that facilitates data access and workflow for spatial analysis of Argentina. Includes historical information from censuses, administrative limits at different levels of aggregation, location of human settlements, among others. Since it is expected that the majority of users will be Spanish-speaking, the documentation of the package prioritizes this language, although an effort is made to also offer annotations in English.
Author: Juan Pablo Ruiz Nicolini [aut, cre, cph] ,
Patricio Del Boca [aut],
Juan Gabriel Juara [aut]
Maintainer: Juan Pablo Ruiz Nicolini <juanpabloruiznicolini@gmail.com>
Diff between geoAr versions 1.0.0 dated 2024-03-03 and 1.2.2 dated 2026-05-08
DESCRIPTION | 23 MD5 | 55 NAMESPACE | 27 NEWS.md | 39 R/georefar.R | 1897 +++++++++++++++++++++++++++------- README.md | 13 build/vignette.rds |binary inst/doc/geoAr_geofacet.Rmd | 356 +++--- inst/doc/geoAr_leaflet.Rmd | 118 +- man/geoAr.Rd | 3 man/get_asentamientos.Rd | 10 man/get_calles.Rd | 32 man/get_departamentos.Rd | 10 man/get_geodata_dump.Rd |only man/get_localidades.Rd | 10 man/get_localidades_censales.Rd | 10 man/get_municipios.Rd | 10 man/get_provincias.Rd | 8 man/normalizar_direccion.Rd | 20 man/post_asentamientos_bulk.Rd |only man/post_calles_bulk.Rd |only man/post_departamentos_bulk.Rd |only man/post_direcciones_bulk.Rd |only man/post_localidades_bulk.Rd |only man/post_localidades_censales_bulk.Rd |only man/post_municipios_bulk.Rd |only man/post_provincias_bulk.Rd |only man/post_ubicacion_bulk.Rd |only man/replace_null_with_na.Rd |only vignettes/geoAr_geofacet.Rmd | 356 +++--- vignettes/geoAr_geofacet.Rmd.orig | 200 +-- vignettes/geoAr_leaflet.Rmd | 118 +- vignettes/geoAr_leaflet.Rmd.orig | 116 +- vignettes/georefar.Rmd.orig | 276 ++-- 34 files changed, 2515 insertions(+), 1192 deletions(-)
Title: Distribution-Free Goodness-of-Fit Testing for Regression
Description: Implements the distribution-free goodness-of-fit regression testing
procedure, introduced by Estate Khmaladze (2021, <doi:10.1007/s10463-021-00786-3>)
to test whether or not the mean structure of a parametric model belongs to a
specified model family. The test is implemented for general mean functions
with minimal distributional assumptions as well as common models (e.g., lm,
glm) with the usual model assumptions.
Author: Jesse Miller [aut, cre]
Maintainer: Jesse Miller <smallepsilon@proton.me>
Diff between distfreereg versions 1.1 dated 2025-07-02 and 1.2 dated 2026-05-08
distfreereg-1.1/distfreereg/R/combine_dfr_arg_lists.R |only distfreereg-1.1/distfreereg/R/distfreereg.default.R |only distfreereg-1.1/distfreereg/R/distfreereg.formula.R |only distfreereg-1.1/distfreereg/R/distfreereg.function.R |only distfreereg-1.1/distfreereg/R/distfreereg.glm.R |only distfreereg-1.1/distfreereg/R/distfreereg.lm.R |only distfreereg-1.1/distfreereg/R/distfreereg.lmerMod.R |only distfreereg-1.1/distfreereg/R/distfreereg.nls.R |only distfreereg-1.1/distfreereg/R/validate_args_distfreereg_default.R |only distfreereg-1.1/distfreereg/R/validate_args_distfreereg_formula.R |only distfreereg-1.1/distfreereg/R/validate_args_distfreereg_function.R |only distfreereg-1.1/distfreereg/R/validate_args_distfreereg_glm.R |only distfreereg-1.1/distfreereg/R/validate_args_distfreereg_lm.R |only distfreereg-1.1/distfreereg/R/validate_args_distfreereg_lmerMod.R |only distfreereg-1.1/distfreereg/R/validate_args_distfreereg_nls.R |only distfreereg-1.1/distfreereg/R/validate_extra_arg_list.R |only distfreereg-1.2/distfreereg/DESCRIPTION | 23 distfreereg-1.2/distfreereg/MD5 | 221 distfreereg-1.2/distfreereg/NAMESPACE | 24 distfreereg-1.2/distfreereg/NEWS.md | 193 distfreereg-1.2/distfreereg/R/all.equal.compare.R | 25 distfreereg-1.2/distfreereg/R/calc_epsp.R | 17 distfreereg-1.2/distfreereg/R/calc_p.R | 12 distfreereg-1.2/distfreereg/R/compare.R | 70 distfreereg-1.2/distfreereg/R/confband.R | 40 distfreereg-1.2/distfreereg/R/confband_Sigma_hat.R | 13 distfreereg-1.2/distfreereg/R/confband_radii.R | 23 distfreereg-1.2/distfreereg/R/confint.distfreereg.R | 2 distfreereg-1.2/distfreereg/R/create_confband.R | 54 distfreereg-1.2/distfreereg/R/define_data_for_res_order.R | 17 distfreereg-1.2/distfreereg/R/define_r.R | 1 distfreereg-1.2/distfreereg/R/distfreereg.R | 305 + distfreereg-1.2/distfreereg/R/fill_covariance_list.R | 139 distfreereg-1.2/distfreereg/R/fit_model.R |only distfreereg-1.2/distfreereg/R/get_X.R |only distfreereg-1.2/distfreereg/R/get_X.default.R |only distfreereg-1.2/distfreereg/R/get_X.lmerMod.R |only distfreereg-1.2/distfreereg/R/get_X.nls.R |only distfreereg-1.2/distfreereg/R/get_Y.R |only distfreereg-1.2/distfreereg/R/get_Y.default.R |only distfreereg-1.2/distfreereg/R/get_Y.lmerMod.R |only distfreereg-1.2/distfreereg/R/get_Y.nls.R |only distfreereg-1.2/distfreereg/R/get_cov.R | 4 distfreereg-1.2/distfreereg/R/get_cov.default.R |only distfreereg-1.2/distfreereg/R/get_cov.glm.R | 2 distfreereg-1.2/distfreereg/R/get_cov.lm.R | 2 distfreereg-1.2/distfreereg/R/get_cov.lmerMod.R | 2 distfreereg-1.2/distfreereg/R/get_cov.nls.R | 2 distfreereg-1.2/distfreereg/R/get_data.default.R | 4 distfreereg-1.2/distfreereg/R/get_fitted_values.R |only distfreereg-1.2/distfreereg/R/get_fitted_values.default.R |only distfreereg-1.2/distfreereg/R/get_fitted_values.function.R |only distfreereg-1.2/distfreereg/R/get_fitted_values.lmerMod.R |only distfreereg-1.2/distfreereg/R/get_fitted_values.nls.R |only distfreereg-1.2/distfreereg/R/get_jacobian.R | 2 distfreereg-1.2/distfreereg/R/get_jacobian.function.R |only distfreereg-1.2/distfreereg/R/get_jacobian.glm.R | 9 distfreereg-1.2/distfreereg/R/get_jacobian.lm.R | 7 distfreereg-1.2/distfreereg/R/get_jacobian.lmerMod.R | 7 distfreereg-1.2/distfreereg/R/get_jacobian.nls.R | 7 distfreereg-1.2/distfreereg/R/get_theta_hat.R |only distfreereg-1.2/distfreereg/R/get_theta_hat.default.R |only distfreereg-1.2/distfreereg/R/get_theta_hat.function.R |only distfreereg-1.2/distfreereg/R/get_theta_hat.lmerMod.R |only distfreereg-1.2/distfreereg/R/ks.test.compare.R | 21 distfreereg-1.2/distfreereg/R/plot.compare.R | 500 - distfreereg-1.2/distfreereg/R/plot.distfreereg.R | 198 distfreereg-1.2/distfreereg/R/print.distfreereg.R | 11 distfreereg-1.2/distfreereg/R/refit_model.R |only distfreereg-1.2/distfreereg/R/rejection.R | 8 distfreereg-1.2/distfreereg/R/simulate_response.default.R | 2 distfreereg-1.2/distfreereg/R/simulate_response.function.R | 4 distfreereg-1.2/distfreereg/R/simulate_response.nls.R | 4 distfreereg-1.2/distfreereg/R/strict_match.R | 6 distfreereg-1.2/distfreereg/R/update.distfreereg.R | 270 distfreereg-1.2/distfreereg/R/validate_args_compare.R | 4 distfreereg-1.2/distfreereg/R/validate_args_distfreereg.R |only distfreereg-1.2/distfreereg/R/validate_args_plot.compare.R | 2 distfreereg-1.2/distfreereg/R/validate_args_plot.distfreereg.R | 10 distfreereg-1.2/distfreereg/R/validate_args_rejection.R | 4 distfreereg-1.2/distfreereg/R/validate_weights.R |only distfreereg-1.2/distfreereg/R/validate_weights.default.R |only distfreereg-1.2/distfreereg/R/validate_weights.glm.R |only distfreereg-1.2/distfreereg/build/partial.rdb |binary distfreereg-1.2/distfreereg/build/vignette.rds |binary distfreereg-1.2/distfreereg/inst/doc/v1_introduction.html | 1762 +++--- distfreereg-1.2/distfreereg/inst/doc/v1_introduction.rmd | 939 +-- distfreereg-1.2/distfreereg/inst/doc/v2_compare.html | 1058 +-- distfreereg-1.2/distfreereg/inst/doc/v2_compare.rmd | 77 distfreereg-1.2/distfreereg/inst/doc/v3_plotting.html | 1380 ++-- distfreereg-1.2/distfreereg/inst/doc/v3_plotting.rmd | 40 distfreereg-1.2/distfreereg/inst/doc/v4_parameter-estimation.html | 1330 ++-- distfreereg-1.2/distfreereg/inst/doc/v4_parameter-estimation.rmd | 116 distfreereg-1.2/distfreereg/inst/doc/v5_advanced-options.html | 1526 ++--- distfreereg-1.2/distfreereg/inst/doc/v5_advanced-options.rmd | 152 distfreereg-1.2/distfreereg/man/asymptotics.Rd | 2 distfreereg-1.2/distfreereg/man/coef.distfreereg.Rd | 2 distfreereg-1.2/distfreereg/man/compare.Rd | 308 - distfreereg-1.2/distfreereg/man/confint.distfreereg.Rd | 18 distfreereg-1.2/distfreereg/man/distfreereg.Rd | 751 +- distfreereg-1.2/distfreereg/man/fitted.distfreereg.Rd | 2 distfreereg-1.2/distfreereg/man/formula.distfreereg.Rd | 2 distfreereg-1.2/distfreereg/man/ks.test.compare.Rd | 9 distfreereg-1.2/distfreereg/man/plot.compare.Rd | 129 distfreereg-1.2/distfreereg/man/plot.distfreereg.Rd | 290 - distfreereg-1.2/distfreereg/man/predict.distfreereg.Rd | 2 distfreereg-1.2/distfreereg/man/print.compare.Rd | 2 distfreereg-1.2/distfreereg/man/print.distfreereg.Rd | 2 distfreereg-1.2/distfreereg/man/rejection.Rd | 40 distfreereg-1.2/distfreereg/man/residuals.distfreereg.Rd | 8 distfreereg-1.2/distfreereg/man/update.distfreereg.Rd | 52 distfreereg-1.2/distfreereg/man/vcov.distfreereg.Rd | 36 distfreereg-1.2/distfreereg/tests/0-01_preliminaries.R | 3 distfreereg-1.2/distfreereg/tests/0-01_preliminaries.Rout.save | 169 distfreereg-1.2/distfreereg/tests/1-01_distfreereg_function.R | 195 distfreereg-1.2/distfreereg/tests/1-01_distfreereg_function.Rout.save | 2773 +++++----- distfreereg-1.2/distfreereg/tests/1-02_distfreereg_lm.R | 34 distfreereg-1.2/distfreereg/tests/1-02_distfreereg_lm.Rout.save | 872 +-- distfreereg-1.2/distfreereg/tests/1-03_distfreereg_nls.R | 69 distfreereg-1.2/distfreereg/tests/1-03_distfreereg_nls.Rout.save | 123 distfreereg-1.2/distfreereg/tests/1-04_distfreereg_glm.Rout.save | 38 distfreereg-1.2/distfreereg/tests/1-05_distfreereg_lmerMod.Rout.save | 26 distfreereg-1.2/distfreereg/tests/1-06_other.R | 8 distfreereg-1.2/distfreereg/tests/1-06_other.Rout.save | 31 distfreereg-1.2/distfreereg/tests/2-01_compare.R | 112 distfreereg-1.2/distfreereg/tests/2-01_compare.Rout.save | 2447 ++++---- distfreereg-1.2/distfreereg/vignettes/bibliography.bib | 17 distfreereg-1.2/distfreereg/vignettes/v1_introduction.rmd | 939 +-- distfreereg-1.2/distfreereg/vignettes/v2_compare.rmd | 77 distfreereg-1.2/distfreereg/vignettes/v3_plotting.rmd | 40 distfreereg-1.2/distfreereg/vignettes/v4_parameter-estimation.rmd | 116 distfreereg-1.2/distfreereg/vignettes/v5_advanced-options.rmd | 152 132 files changed, 11041 insertions(+), 9506 deletions(-)
Title: Columnar Query Engine for Larger-than-RAM Data
Description: A minimal columnar query engine with lazy execution on datasets
larger than RAM. Provides 'dplyr'-like verbs (filter(), select(), mutate(),
group_by(), summarise(), joins, window functions) and common aggregations
(n(), sum(), mean(), min(), max(), sd(), first(), last()) backed by a
pure C11 pull-based execution engine and a custom on-disk format ('.vtr').
Reads and writes 'GeoTIFF' (including tiled and 'BigTIFF' layouts) and a
tiled raster format ('.vec') with overview pyramids and time cubes for
larger-than-RAM raster data.
Author: Gilles Colling [aut, cre, cph]
Maintainer: Gilles Colling <gilles.colling051@gmail.com>
This is a re-admission after prior archival of version 0.5.1 dated 2026-04-21
Diff between vectra versions 0.5.1 dated 2026-04-21 and 0.6.2 dated 2026-05-08
DESCRIPTION | 12 LICENSE | 4 MD5 | 328 ++--- NAMESPACE | 15 NEWS.md | 601 +++++---- R/across.R | 296 ++-- R/bind.R | 176 +- R/block.R | 218 +-- R/collect.R | 62 R/delete.R | 78 - R/diff.R | 164 +- R/explain.R | 76 - R/index.R | 118 - R/print.R | 154 +- R/raster.R |only R/reframe.R | 134 +- R/schema.R | 580 ++++----- R/tbl.R | 639 ++++++---- R/verbs_basic.R | 486 +++---- R/verbs_grouping.R | 706 +++++------ R/verbs_utility.R | 900 +++++++------- R/windows.R | 242 +-- R/write.R | 136 ++ R/zzz.R | 96 - README.md | 36 build/vignette.rds |binary configure | 16 configure.win | 7 inst/benchmarks/bench_core.R | 690 +++++----- inst/doc/engine.html | 4 inst/doc/formats.Rmd | 920 +++++++------- inst/doc/formats.html | 8 inst/doc/indexing.html | 8 inst/doc/joins.html | 4 inst/doc/large-data.Rmd | 1852 ++++++++++++++--------------- inst/doc/large-data.html | 4 inst/doc/quickstart.html | 4 inst/doc/schema.Rmd | 796 ++++++------ inst/doc/schema.html | 4 inst/doc/string-ops.Rmd | 2024 ++++++++++++++++---------------- inst/doc/string-ops.html | 4 man/across.Rd | 66 - man/append_vtr.Rd | 78 - man/arrange.Rd | 66 - man/bind_rows.Rd | 86 - man/block_fuzzy_lookup.Rd | 94 - man/block_lookup.Rd | 78 - man/collect.Rd | 56 man/count.Rd | 80 - man/create_index.Rd | 78 - man/cross_join.Rd | 66 - man/delete_vtr.Rd | 84 - man/desc.Rd | 48 man/diff_vtr.Rd | 116 - man/distinct.Rd | 68 - man/explain.Rd | 52 man/filter.Rd | 76 - man/fuzzy_join.Rd | 100 - man/glimpse.Rd | 58 man/group_by.Rd | 52 man/has_index.Rd | 56 man/head.vectra_node.Rd | 42 man/left_join.Rd | 120 - man/link.Rd | 66 - man/lookup.Rd | 130 +- man/materialize.Rd | 66 - man/mutate.Rd | 76 - man/print.vectra_node.Rd | 38 man/pull.Rd | 52 man/reframe.Rd | 54 man/relocate.Rd | 60 man/rename.Rd | 52 man/select.Rd | 52 man/slice.Rd | 52 man/slice_head.Rd | 88 - man/summarise.Rd | 94 - man/tbl.Rd | 52 man/tbl_csv.Rd | 58 man/tbl_sqlite.Rd | 68 - man/tbl_tiff.Rd | 78 - man/tbl_xlsx.Rd | 74 - man/tiff_band_names.Rd |only man/tiff_crs.Rd |only man/tiff_extract_points.Rd | 96 - man/tiff_metadata.Rd | 56 man/transmute.Rd | 52 man/ungroup.Rd | 52 man/vec_build_overviews.Rd |only man/vec_close_raster.Rd |only man/vec_extract_points.Rd |only man/vec_open_raster.Rd |only man/vec_raster_layout.Rd |only man/vec_raster_times.Rd |only man/vec_read_pixel_series.Rd |only man/vec_read_time_slice.Rd |only man/vec_read_window.Rd |only man/vec_to_tiff.Rd |only man/vec_write_raster.Rd |only man/vec_write_time_cube.Rd |only man/vtr_schema.Rd | 90 - man/write_csv.Rd | 62 man/write_sqlite.Rd | 66 - man/write_tiff.Rd | 129 +- src/block.c | 15 src/collect.c | 40 src/csv_scan.c | 22 src/expr_string.c | 4 src/fuzzy_join.c | 13 src/grow.h |only src/init.c | 50 src/miniz/UPSTREAM | 90 - src/r_bridge.c | 16 src/r_bridge.h | 7 src/r_bridge_io.c | 131 +- src/r_bridge_raster.c |only src/tdc/VENDORED_FROM | 2 src/tdc/src/entropy/lz.c | 8 src/tdc/src/entropy/lz_streams.c | 11 src/tdc/src/model/float_pred_helpers.h | 26 src/tdc/src/model/pred2d.c | 547 ++++++++ src/tdc/src/model/pred2d_internal.h | 25 src/tdc/src/model/pred3d.c | 86 - src/tdc/src/model/pred3d_float.c | 29 src/tiff_format.c | 1633 ++++++++++++++++++++----- src/tiff_format.h | 72 + src/tiff_write.c | 49 src/tiff_write.h | 20 src/vec_omp.h | 19 src/vec_raster.c |only src/vec_raster.h |only src/vtr1_tdc.c | 10 src/vtr_diff.c | 10 tests/testthat.R | 8 tests/testthat/test-agg.R | 278 ++-- tests/testthat/test-append-delete.R | 496 +++---- tests/testthat/test-binary-search.R | 192 +-- tests/testthat/test-codec-tdc.R | 226 +-- tests/testthat/test-compression.R | 1020 ++++++++-------- tests/testthat/test-count-tally.R | 122 - tests/testthat/test-csv.R | 258 ++-- tests/testthat/test-datetime.R | 246 +-- tests/testthat/test-edge-cases.R | 288 ++-- tests/testthat/test-expressions.R | 512 ++++---- tests/testthat/test-filter.R | 644 +++++----- tests/testthat/test-full-join.R | 352 ++--- tests/testthat/test-groupby.R | 298 ++-- tests/testthat/test-index.R | 250 +-- tests/testthat/test-joins.R | 846 ++++++------- tests/testthat/test-levenshtein.R | 490 +++---- tests/testthat/test-mutate.R | 122 - tests/testthat/test-new-aggs.R | 440 +++--- tests/testthat/test-new-aggs2.R | 260 ++-- tests/testthat/test-optimize.R | 340 ++--- tests/testthat/test-project.R | 38 tests/testthat/test-raster.R |only tests/testthat/test-resolve-propagate.R | 410 +++--- tests/testthat/test-schema.R | 494 +++---- tests/testthat/test-sql-scan.R | 294 ++-- tests/testthat/test-tidyselect.R | 194 +-- tests/testthat/test-tiff-bigtiff.R |only tests/testthat/test-tiff-extract.R | 198 +-- tests/testthat/test-tiff-geotiff.R |only tests/testthat/test-tiff-scan.R | 310 ++-- tests/testthat/test-tiff-typed.R | 306 ++-- tests/testthat/test-topn.R | 362 ++--- tests/testthat/test-types.R | 210 +-- tests/testthat/test-verbs.R | 732 +++++------ tests/testthat/test-vtr1-tdc.R | 800 ++++++------ tests/testthat/test-vtr1.R | 192 +-- tests/testthat/test-windows.R | 436 +++--- tests/testthat/test-write-vtr-node.R | 148 +- tests/testthat/test-xlsx-scan.R | 216 +-- vignettes/formats.Rmd | 920 +++++++------- vignettes/large-data.Rmd | 1852 ++++++++++++++--------------- vignettes/schema.Rmd | 796 ++++++------ vignettes/string-ops.Rmd | 2024 ++++++++++++++++---------------- 176 files changed, 19984 insertions(+), 17606 deletions(-)
Title: Generalized Linear Models with Slab and Shrinkage Estimators
Description: Provides a flexible framework for fitting generalized linear models (GLMs)
with slab and shrinkage estimators. Methods include the Stein estimator (St),
Diagonal Shrinkage (DSh), Simple Slab Regression (SR), Generalized Slab Regression (GSR),
Ledoit-Wolf Linear Shrinkage (LW), Quadratic-Inverse Shrinkage (QIS),
and Shrinkage (Sh), all integrated into the iteratively reweighted least squares (IRLS)
algorithm. This approach enhances estimation accuracy, convergence, and robustness
in the presence of multicollinearity. The best-fitting model is selected based on
the Akaike Information Criterion (AIC). Methods are related to methods described in
Marschner (2011) <doi:10.32614/RJ-2011-012>,
Asimit et al. (2025) <https://openaccess.city.ac.uk/id/eprint/35005/>,
Ledoit and Wolf (2004) <doi:10.1016/S0047-259X(03)00096-4>, and
Ledoit and Wolf (2022) <doi:10.3150/20-BEJ1315>.
Author: Ziwei Chen [aut, cre] ,
Vali Asimit [aut] ,
Claudio Senatore [aut]
Maintainer: Ziwei Chen <Ziwei.Chen.3@citystgeorges.ac.uk>
Diff between savvyGLM versions 0.1.2 dated 2026-05-03 and 0.1.4 dated 2026-05-08
DESCRIPTION | 9 MD5 | 18 R/savvy_glm.fit2.R | 3 R/savvy_glm2.R | 3 inst/doc/savvyGLM.R | 38 -- inst/doc/savvyGLM.Rmd | 48 -- inst/doc/savvyGLM.html | 912 ++++++++++++++++++++++++------------------------- man/savvy_glm.fit2.Rd | 3 man/savvy_glm2.Rd | 3 vignettes/savvyGLM.Rmd | 48 -- 10 files changed, 507 insertions(+), 578 deletions(-)
Title: Merging of Satellite Datasets with Ground Observations using
Random Forests
Description: S3 implementation of the Random Forest MErging Procedure (RF-MEP), which combines two or more satellite-based datasets (e.g., precipitation products, topography) with ground observations to produce a new dataset with improved spatio-temporal distribution of the target field. In particular, this package was developed to merge different Satellite-based Rainfall Estimates (SREs) with measurements from rain gauges, in order to obtain a new precipitation dataset where the time series in the rain gauges are used to correct different types of errors present in the SREs. However, this package might be used to merge other hydrological/environmental gridded datasets with point observations. For details, see Baez-Villanueva et al. (2020) <doi:10.1016/j.rse.2019.111606>. Bugs / comments / questions / collaboration of any kind are very welcomed.
Author: Mauricio Zambrano-Bigiarini [aut, cre, cph] ,
Oscar M. Baez-Villanueva [aut, cph] ,
Juan Giraldo-Osorio [ctb]
Maintainer: Mauricio Zambrano-Bigiarini <mzb.devel@gmail.com>
This is a re-admission after prior archival of version 0.1-10 dated 2020-05-22
Diff between RFmerge versions 0.1-10 dated 2020-05-22 and 0.3-3 dated 2026-05-08
RFmerge-0.1-10/RFmerge/NEWS |only RFmerge-0.1-10/RFmerge/R/buffer_dist.R |only RFmerge-0.1-10/RFmerge/data/ValparaisoSHP.RData |only RFmerge-0.1-10/RFmerge/inst/doc/RFmerge-RainfallExample-minimal.R |only RFmerge-0.1-10/RFmerge/inst/doc/RFmerge-RainfallExample-minimal.Rmd |only RFmerge-0.1-10/RFmerge/inst/doc/RFmerge-RainfallExample-minimal.pdf |only RFmerge-0.1-10/RFmerge/man/ValparaisoSHP.Rd |only RFmerge-0.1-10/RFmerge/vignettes/RFmerge-RainfallExample-minimal.Rmd |only RFmerge-0.3-3/RFmerge/DESCRIPTION | 29 RFmerge-0.3-3/RFmerge/MD5 | 38 RFmerge-0.3-3/RFmerge/NAMESPACE | 5 RFmerge-0.3-3/RFmerge/NEWS.md |only RFmerge-0.3-3/RFmerge/R/RFmerge.R | 891 +++++----- RFmerge-0.3-3/RFmerge/R/zl.R | 4 RFmerge-0.3-3/RFmerge/build/partial.rdb |binary RFmerge-0.3-3/RFmerge/build/vignette.rds |binary RFmerge-0.3-3/RFmerge/inst/CITATION | 35 RFmerge-0.3-3/RFmerge/inst/doc/RFmerge-RainfallExample-link.Rmd |only RFmerge-0.3-3/RFmerge/inst/doc/RFmerge-RainfallExample-link.html |only RFmerge-0.3-3/RFmerge/inst/extdata/ValparaisoSHP.cpg |only RFmerge-0.3-3/RFmerge/inst/extdata/ValparaisoSHP.dbf |only RFmerge-0.3-3/RFmerge/inst/extdata/ValparaisoSHP.prj |only RFmerge-0.3-3/RFmerge/inst/extdata/ValparaisoSHP.shp |only RFmerge-0.3-3/RFmerge/inst/extdata/ValparaisoSHP.shx |only RFmerge-0.3-3/RFmerge/man/RFmerge-package.Rd | 31 RFmerge-0.3-3/RFmerge/man/RFmerge.Rd | 70 RFmerge-0.3-3/RFmerge/man/ValparaisoPPts.Rd | 12 RFmerge-0.3-3/RFmerge/man/figures |only RFmerge-0.3-3/RFmerge/vignettes/RFmerge-RainfallExample-link.Rmd |only 29 files changed, 631 insertions(+), 484 deletions(-)
Title: For Writing Geneva Graduate Institute Documents
Description: A set of tools for writing documents
according to Geneva Graduate Institute conventions and regulations.
The most common use is for writing and compiling theses or thesis
chapters, as drafts or for examination with correct preamble formatting.
However, the package also offers users to create HTML presentation
slides with 'xaringan', complete problem sets, format posters, and,
for course instructors, prepare a syllabus.
The package includes additional functions for institutional color palettes,
an institutional 'ggplot' theme, a function for counting manuscript words,
and a bibliographical analysis toolkit.
Author: James Hollway [aut, cre, cph] ,
Bernhard Bieri [ctb] ,
Henrique Sposito [ctb]
Maintainer: James Hollway <james.hollway@graduateinstitute.ch>
Diff between iheiddown versions 0.9.7 dated 2022-11-09 and 0.9.9 dated 2026-05-08
DESCRIPTION | 21 MD5 | 76 +-- NEWS.md | 16 R/bibfix.R | 8 R/count_words.R | 38 - R/zzz.R | 2 README.md | 12 build/vignette.rds |binary inst/_bookdown.yml | 2 inst/doc/poster.R | 4 inst/doc/poster.Rmd | 2 inst/doc/poster.html | 24 - inst/doc/presentations.R | 78 +-- inst/doc/presentations.Rmd | 10 inst/doc/presentations.html | 223 +++++----- inst/doc/problemset.R | 4 inst/doc/problemset.html | 135 +++--- inst/doc/syllabus.R | 4 inst/doc/syllabus.html | 22 inst/doc/thesis.R | 4 inst/doc/thesis.Rmd | 6 inst/doc/thesis.html | 29 - inst/rmarkdown/lua/color-text.lua | 2 inst/rmarkdown/templates/iheiddown_poster/skeleton/packages.bib | 2 inst/rmarkdown/templates/presentation/skeleton/assets/myBib.bib | 2 inst/rmarkdown/templates/presentation/skeleton/skeleton.Rmd | 4 inst/rmarkdown/templates/problemset/skeleton/references.bib | 2 inst/rmarkdown/templates/syllabus/skeleton/references.bib | 4 inst/rmarkdown/templates/thesis/skeleton/01-introduction.Rmd | 2 inst/rmarkdown/templates/thesis/skeleton/05-conclusion.Rmd | 4 inst/rmarkdown/templates/thesis/skeleton/98-appendices.Rmd | 2 inst/rmarkdown/templates/thesis/skeleton/_bookdown.yml | 2 inst/rmarkdown/templates/thesis/skeleton/bib/references.bib | 2 inst/rmarkdown/templates/thesis/skeleton/front-matter/abbreviations.aux |only inst/rmarkdown/templates/thesis/skeleton/skeleton.Rmd | 2 tests/testthat/test-countwords.R | 7 tests/testthat/test.Rmd |only vignettes/poster.Rmd | 2 vignettes/presentations.Rmd | 10 vignettes/thesis.Rmd | 6 40 files changed, 403 insertions(+), 372 deletions(-)
Title: Easy Study of Patient DICOM Data in Oncology
Description: Read, process, and export DICOM and DICOM-RT files (structures, dosimetry, imagery) for medical physics and clinical research, with patient-oriented 2D-3D visualization.
Author: Cathy Fontbonne [aut, cre] ,
Jean-Marc Fontbonne [aut] ,
Nathan Azemar [ctb]
Maintainer: Cathy Fontbonne <contact.espadon@lpccaen.in2p3.fr>
Diff between espadon versions 1.11.3 dated 2025-11-17 and 1.11.5 dated 2026-05-08
espadon-1.11.3/espadon/build/stage23.rdb |only espadon-1.11.5/espadon/DESCRIPTION | 22 espadon-1.11.5/espadon/MD5 | 479 +- espadon-1.11.5/espadon/NAMESPACE | 1 espadon-1.11.5/espadon/NEWS.md | 18 espadon-1.11.5/espadon/R/Rdcm_inventory.R | 120 espadon-1.11.5/espadon/R/Rdcm_upgrade.R | 46 espadon-1.11.5/espadon/R/add_margin.R | 56 espadon-1.11.5/espadon/R/add_shape.R | 86 espadon-1.11.5/espadon/R/bin_closing.R | 52 espadon-1.11.5/espadon/R/bin_clustering.R | 37 espadon-1.11.5/espadon/R/bin_dilation.R | 52 espadon-1.11.5/espadon/R/bin_erosion.R | 48 espadon-1.11.5/espadon/R/bin_from_roi.R | 321 - espadon-1.11.5/espadon/R/bin_from_vol.R | 28 espadon-1.11.5/espadon/R/bin_intersection.R | 35 espadon-1.11.5/espadon/R/bin_inversion.R | 20 espadon-1.11.5/espadon/R/bin_opening.R | 49 espadon-1.11.5/espadon/R/bin_shape.R | 559 +- espadon-1.11.5/espadon/R/bin_subtraction.R | 34 espadon-1.11.5/espadon/R/bin_sum.R | 35 espadon-1.11.5/espadon/R/castlow_str.R | 7 espadon-1.11.5/espadon/R/castup_str.R | 7 espadon-1.11.5/espadon/R/contour.R | 16 espadon-1.11.5/espadon/R/dicom_browser.R | 18 espadon-1.11.5/espadon/R/dicom_get_UID.R | 84 espadon-1.11.5/espadon/R/dicom_parser.R | 135 espadon-1.11.5/espadon/R/dicom_patient_anonymiser.R | 52 espadon-1.11.5/espadon/R/dicom_raw_data_anonymizer.R | 326 - 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espadon-1.11.5/espadon/R/dist_to_conformity.R | 9 espadon-1.11.5/espadon/R/err_metrics_from_roi.R | 80 espadon-1.11.5/espadon/R/espadon-package.R | 90 espadon-1.11.5/espadon/R/espadon_class.R | 6 espadon-1.11.5/espadon/R/espadon_hidden.R | 3430 ++++++++---------- espadon-1.11.5/espadon/R/export.R | 1326 +++--- espadon-1.11.5/espadon/R/fan_beam.R | 13 espadon-1.11.5/espadon/R/fan_planar.R | 40 espadon-1.11.5/espadon/R/fan_sphere.R | 39 espadon-1.11.5/espadon/R/fan_to_voxel.R | 119 espadon-1.11.5/espadon/R/get_extreme_pt.R | 55 espadon-1.11.5/espadon/R/get_ijk_from_index.R | 7 espadon-1.11.5/espadon/R/get_ijk_from_xyz.R | 23 espadon-1.11.5/espadon/R/get_line.R | 24 espadon-1.11.5/espadon/R/get_obj_connection.R | 80 espadon-1.11.5/espadon/R/get_plane.R | 166 espadon-1.11.5/espadon/R/get_rigid_M.R | 29 espadon-1.11.5/espadon/R/get_roi_connection.R | 38 espadon-1.11.5/espadon/R/get_value_from_ijk.R | 47 espadon-1.11.5/espadon/R/get_value_from_mesh.R | 143 espadon-1.11.5/espadon/R/get_value_from_xyz.R | 50 espadon-1.11.5/espadon/R/get_volume_from_bin.R | 35 espadon-1.11.5/espadon/R/get_volume_from_roi.R | 39 espadon-1.11.5/espadon/R/get_xyz_from_index.R | 22 espadon-1.11.5/espadon/R/grid_equal.R | 22 espadon-1.11.5/espadon/R/histo_2D.R | 139 espadon-1.11.5/espadon/R/histo_DVH.R | 46 espadon-1.11.5/espadon/R/histo_from_bin.R | 55 espadon-1.11.5/espadon/R/histo_from_roi.R | 102 espadon-1.11.5/espadon/R/histo_vol.R | 57 espadon-1.11.5/espadon/R/load_Rdcm_raw_data.R | 165 espadon-1.11.5/espadon/R/load_T_MAT.R | 52 espadon-1.11.5/espadon/R/load_obj_data.R | 28 espadon-1.11.5/espadon/R/load_obj_from_Rdcm.R | 52 espadon-1.11.5/espadon/R/load_obj_from_dicom.R | 48 espadon-1.11.5/espadon/R/load_patient_from_Rdcm.R | 153 espadon-1.11.5/espadon/R/load_patient_from_dicom.R | 167 espadon-1.11.5/espadon/R/mesh_from_bin.R | 72 espadon-1.11.5/espadon/R/mesh_in_new_ref.R | 32 espadon-1.11.5/espadon/R/mesh_repair.R | 130 espadon-1.11.5/espadon/R/mesh_spheric_proj.R | 201 - espadon-1.11.5/espadon/R/nesting_bin.R | 111 espadon-1.11.5/espadon/R/nesting_cube.R | 128 espadon-1.11.5/espadon/R/nesting_roi.R | 144 espadon-1.11.5/espadon/R/obj_create.R | 31 espadon-1.11.5/espadon/R/orientation_create.R | 44 espadon-1.11.5/espadon/R/pal_RVV.R | 64 espadon-1.11.5/espadon/R/pal_rainbow.R | 29 espadon-1.11.5/espadon/R/plot.R | 415 +- espadon-1.11.5/espadon/R/polyg.R | 14 espadon-1.11.5/espadon/R/ref_add.R | 141 espadon-1.11.5/espadon/R/ref_cutplane_add.R | 43 espadon-1.11.5/espadon/R/ref_remove.R | 47 espadon-1.11.5/espadon/R/ref_srctodest_add.R | 117 espadon-1.11.5/espadon/R/rt_chi_index.R | 120 espadon-1.11.5/espadon/R/rt_gamma_index.R | 158 espadon-1.11.5/espadon/R/rt_indices_from_bin.R | 124 espadon-1.11.5/espadon/R/rt_indices_from_roi.R | 1471 ++----- espadon-1.11.5/espadon/R/save_T_MAT.R | 71 espadon-1.11.5/espadon/R/save_to_Rdcm.R | 77 espadon-1.11.5/espadon/R/select_names.R | 46 espadon-1.11.5/espadon/R/set_ref_obj.R | 42 espadon-1.11.5/espadon/R/sp_similarity_from_bin.R | 75 espadon-1.11.5/espadon/R/sp_similarity_from_mesh.R | 74 espadon-1.11.5/espadon/R/struct_clustering.R | 107 espadon-1.11.5/espadon/R/struct_create.R | 106 espadon-1.11.5/espadon/R/struct_from_bin.R | 122 espadon-1.11.5/espadon/R/struct_from_mesh.R | 299 - espadon-1.11.5/espadon/R/struct_in_new_ref.R | 39 espadon-1.11.5/espadon/R/struct_merge.R | 100 espadon-1.11.5/espadon/R/struct_update_roiinfo.R | 11 espadon-1.11.5/espadon/R/study_deployment.R | 161 espadon-1.11.5/espadon/R/toy_dicom_raw.R | 8 espadon-1.11.5/espadon/R/toy_load_patient.R | 481 +- espadon-1.11.5/espadon/R/toy_rtdose.R | 240 - espadon-1.11.5/espadon/R/vector_product.R | 15 espadon-1.11.5/espadon/R/vol_abserror.R | 24 espadon-1.11.5/espadon/R/vol_border_tuning.R | 43 espadon-1.11.5/espadon/R/vol_copy.R | 25 espadon-1.11.5/espadon/R/vol_create.R | 76 espadon-1.11.5/espadon/R/vol_error.R | 24 espadon-1.11.5/espadon/R/vol_from_bin.R | 49 espadon-1.11.5/espadon/R/vol_gradient.R | 35 espadon-1.11.5/espadon/R/vol_in_new_ref.R | 44 espadon-1.11.5/espadon/R/vol_median.R | 29 espadon-1.11.5/espadon/R/vol_oversampling.R | 64 espadon-1.11.5/espadon/R/vol_regrid.R | 147 espadon-1.11.5/espadon/R/vol_repair.R | 85 espadon-1.11.5/espadon/R/vol_subsampling.R | 58 espadon-1.11.5/espadon/R/vol_sum.R | 44 espadon-1.11.5/espadon/R/xlsx_from_Rdcm.R | 92 espadon-1.11.5/espadon/R/xlsx_from_dcm.R | 61 espadon-1.11.5/espadon/build/partial.rdb |binary espadon-1.11.5/espadon/build/vignette.rds |binary espadon-1.11.5/espadon/inst/doc/espadon_overview.html | 32 espadon-1.11.5/espadon/man/Rdcm.inventory.Rd | 19 espadon-1.11.5/espadon/man/Rdcm.upgrade.Rd | 20 espadon-1.11.5/espadon/man/add.margin.Rd | 100 espadon-1.11.5/espadon/man/add.shape.Rd | 18 espadon-1.11.5/espadon/man/bin.clustering.Rd | 5 espadon-1.11.5/espadon/man/dicom.set.tag.value.Rd | 6 espadon-1.11.5/espadon/man/display.DVH.Rd | 2 espadon-1.11.5/espadon/man/display.dV_dx.Rd | 2 espadon-1.11.5/espadon/man/display.kplane.Rd | 2 espadon-1.11.5/espadon/man/espadon-package.Rd | 73 espadon-1.11.5/espadon/man/espadon.class.Rd | 2 espadon-1.11.5/espadon/man/export.Rd | 2 espadon-1.11.5/espadon/man/get.obj.connection.Rd | 6 espadon-1.11.5/espadon/man/get.plane.Rd | 36 espadon-1.11.5/espadon/man/get.rigid.M.Rd | 6 espadon-1.11.5/espadon/man/get.roi.connection.Rd | 8 espadon-1.11.5/espadon/man/get.value.from.ijk.Rd | 12 espadon-1.11.5/espadon/man/get.value.from.mesh.Rd | 22 espadon-1.11.5/espadon/man/get.value.from.xyz.Rd | 8 espadon-1.11.5/espadon/man/get.volume.from.bin.Rd | 22 espadon-1.11.5/espadon/man/get.volume.from.roi.Rd | 12 espadon-1.11.5/espadon/man/get.xyz.from.index.Rd | 8 espadon-1.11.5/espadon/man/grid.equal.Rd | 8 espadon-1.11.5/espadon/man/histo.2D.Rd | 24 espadon-1.11.5/espadon/man/histo.DVH.Rd | 16 espadon-1.11.5/espadon/man/histo.from.bin.Rd | 34 espadon-1.11.5/espadon/man/histo.from.roi.Rd | 14 espadon-1.11.5/espadon/man/histo.vol.Rd | 8 espadon-1.11.5/espadon/man/load.Rdcm.raw.data.Rd | 22 espadon-1.11.5/espadon/man/load.T.MAT.Rd | 18 espadon-1.11.5/espadon/man/load.obj.data.Rd | 16 espadon-1.11.5/espadon/man/load.obj.from.Rdcm.Rd | 22 espadon-1.11.5/espadon/man/load.obj.from.dicom.Rd | 18 espadon-1.11.5/espadon/man/load.patient.from.Rdcm.Rd | 20 espadon-1.11.5/espadon/man/load.patient.from.dicom.Rd | 24 espadon-1.11.5/espadon/man/mesh.from.bin.Rd | 10 espadon-1.11.5/espadon/man/mesh.in.new.ref.Rd | 12 espadon-1.11.5/espadon/man/mesh.repair.Rd | 14 espadon-1.11.5/espadon/man/mesh.spheric.proj.Rd | 26 espadon-1.11.5/espadon/man/nesting.bin.Rd | 16 espadon-1.11.5/espadon/man/nesting.cube.Rd | 14 espadon-1.11.5/espadon/man/nesting.roi.Rd | 30 espadon-1.11.5/espadon/man/obj.create.Rd | 8 espadon-1.11.5/espadon/man/orientation.create.Rd | 8 espadon-1.11.5/espadon/man/pal.RVV.Rd | 12 espadon-1.11.5/espadon/man/pal.rainbow.Rd | 12 espadon-1.11.5/espadon/man/plot.Rd | 48 espadon-1.11.5/espadon/man/ref.add.Rd | 8 espadon-1.11.5/espadon/man/ref.cutplane.add.Rd | 6 espadon-1.11.5/espadon/man/ref.remove.Rd | 10 espadon-1.11.5/espadon/man/ref.srctodest.add.Rd | 10 espadon-1.11.5/espadon/man/rt.chi.index.Rd | 36 espadon-1.11.5/espadon/man/rt.gamma.index.Rd | 28 espadon-1.11.5/espadon/man/rt.indices.from.bin.Rd | 26 espadon-1.11.5/espadon/man/rt.indices.from.roi.Rd | 249 - 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Title: Optimal Categorisation of Continuous Variables in Prediction
Models
Description: Allows the user to categorise a continuous predictor variable in a logistic or a Cox proportional hazards regression setting, by maximising the discriminative ability of the model. I Barrio, I Arostegui, MX Rodriguez-Alvarez, JM Quintana (2015) <doi:10.1177/0962280215601873>. I Barrio, MX Rodriguez-Alvarez, L Meira-Machado, C Esteban, I Arostegui (2017) <https://www.idescat.cat/sort/sort411/41.1.3.barrio-etal.pdf>.
Author: Irantzu Barrio [aut, cre],
Maria Xose Rodriguez-Alvarez [aut],
Inmaculada Arostegui [ctb],
Diana Marcela Perez [ctb]
Maintainer: Irantzu Barrio <irantzu.barrio@ehu.eus>
This is a re-admission after prior archival of version 1.4 dated 2025-10-30
Diff between CatPredi versions 1.4 dated 2025-10-30 and 2.0 dated 2026-05-08
CatPredi-1.4/CatPredi/man/CatPredi-package.Rd |only CatPredi-2.0/CatPredi/DESCRIPTION | 17 CatPredi-2.0/CatPredi/MD5 | 90 ++-- CatPredi-2.0/CatPredi/NAMESPACE | 42 +- CatPredi-2.0/CatPredi/R/auc.opt.corrected.R | 84 ++-- CatPredi-2.0/CatPredi/R/backaddfor.R | 20 - CatPredi-2.0/CatPredi/R/backaddfor.cind.R | 158 ++++---- CatPredi-2.0/CatPredi/R/calculate.AUC.R | 6 CatPredi-2.0/CatPredi/R/calculate.CPE.R | 52 +- CatPredi-2.0/CatPredi/R/calculate.cind.R | 6 CatPredi-2.0/CatPredi/R/catpredi.R | 164 +++++++- CatPredi-2.0/CatPredi/R/catpredi.survival.R | 153 ++++++-- CatPredi-2.0/CatPredi/R/cindex.categorization.R | 28 - CatPredi-2.0/CatPredi/R/cindex.opt.corrected.R | 16 CatPredi-2.0/CatPredi/R/comp.cutpoints.R | 90 ++++ CatPredi-2.0/CatPredi/R/comp.cutpoints.survival.R | 240 ++++++++---- CatPredi-2.0/CatPredi/R/compare.AUC.ht.R | 259 ++++++++------ CatPredi-2.0/CatPredi/R/controlcatpredi.R | 47 ++ CatPredi-2.0/CatPredi/R/controlcatpredi.survival.R | 46 ++ CatPredi-2.0/CatPredi/R/coxcpe.R | 4 CatPredi-2.0/CatPredi/R/cpe.opt.corrected.R | 78 ++-- CatPredi-2.0/CatPredi/R/globalVariables.R |only CatPredi-2.0/CatPredi/R/plot.catpredi.R | 92 +++- CatPredi-2.0/CatPredi/R/plot.catpredi.survival.R | 65 ++- CatPredi-2.0/CatPredi/R/print.catpredi.R | 109 ++--- CatPredi-2.0/CatPredi/R/print.catpredi.survival.R | 181 ++++----- CatPredi-2.0/CatPredi/R/print.comp.cutpoints.R | 3 CatPredi-2.0/CatPredi/R/print.comp.cutpoints.binary.R | 3 CatPredi-2.0/CatPredi/R/print.comp.cutpoints.survival.R | 5 CatPredi-2.0/CatPredi/R/print.summary.catpredi.R | 7 CatPredi-2.0/CatPredi/R/print.summary.catpredi.survival.R | 1 CatPredi-2.0/CatPredi/R/select.cutpoint.auc.R | 8 CatPredi-2.0/CatPredi/R/select.cutpoint.cind.R | 10 CatPredi-2.0/CatPredi/R/select.cutpoint.cpe.R | 58 +-- CatPredi-2.0/CatPredi/R/summary.catpredi.R | 61 +++ CatPredi-2.0/CatPredi/R/summary.catpredi.survival.R | 49 ++ CatPredi-2.0/CatPredi/man/catpredi.Rd | 257 +++++++------ CatPredi-2.0/CatPredi/man/catpredi.survival.Rd | 212 ++++++----- CatPredi-2.0/CatPredi/man/comp.cutpoints.Rd | 106 ++--- CatPredi-2.0/CatPredi/man/comp.cutpoints.survival.Rd | 153 ++++---- CatPredi-2.0/CatPredi/man/compare.AUC.ht.Rd | 161 ++++---- CatPredi-2.0/CatPredi/man/controlcatpredi.Rd | 65 ++- CatPredi-2.0/CatPredi/man/controlcatpredi.survival.Rd | 84 ++-- CatPredi-2.0/CatPredi/man/plot.catpredi.Rd | 120 +++--- CatPredi-2.0/CatPredi/man/plot.catpredi.survival.Rd | 78 ++-- CatPredi-2.0/CatPredi/man/summary.catpredi.Rd | 108 ++--- CatPredi-2.0/CatPredi/man/summary.catpredi.survival.Rd | 124 +++--- 47 files changed, 2267 insertions(+), 1453 deletions(-)
Title: Bayesian Prevalence-Incidence Mixture Model
Description: Models time-to-event data from interval-censored
screening studies. It accounts for latent prevalence at baseline and
incorporates misclassification due to imperfect test sensitivity. For usage
details, see the package vignette "BayesPIM_intro". Further details can be
found in Klausch, Lissenberg-Witte and Coupé (2026)
<doi:10.1002/sim.70433>.
Author: Thomas Klausch [aut, cre]
Maintainer: Thomas Klausch <t.klausch@amsterdamumc.nl>
This is a re-admission after prior archival of version 1.0.0 dated 2025-03-22
Diff between BayesPIM versions 1.0.0 dated 2025-03-22 and 1.0.1 dated 2026-05-08
DESCRIPTION | 19 MD5 | 43 - NAMESPACE | 1 R/BayesPIM_package.r | 25 R/RcppExports.R | 70 - R/bayes2S_v6.r | 1496 +++++++++++++++++++++------------------- R/bayes2S_v6_seq.r | 1355 +++++++++++++++++++----------------- R/datgen.r | 400 +++++----- R/search.prop.sd.r | 226 +++--- R/search.prop.sd_seq.r | 226 +++--- R/validate_bayes_2S_inputs.R |only build/partial.rdb |binary build/vignette.rds |binary inst/doc/BayesPIM_intro.R | 422 +++++------ inst/doc/BayesPIM_intro.Rmd | 629 ++++++++--------- inst/doc/BayesPIM_intro.html | 1590 +++++++++++++++++++++---------------------- man/BayesPIM-package.Rd | 7 man/bayes.2S.Rd | 10 man/bayes.2S_seq.Rd | 15 man/gen.dat.Rd | 4 man/search.prop.sd.Rd | 2 man/search.prop.sd_seq.Rd | 6 vignettes/BayesPIM_intro.Rmd | 629 ++++++++--------- 23 files changed, 3705 insertions(+), 3470 deletions(-)
Title: Record Linkage Based on an Entropy-Maximizing Classifier
Description: The goal of 'automatedRecLin' is to perform record linkage (also known as entity resolution) in unsupervised or supervised settings. It compares pairs of records from two datasets using selected comparison functions to estimate the probability or density ratio between matched and non-matched records. Based on these estimates, it predicts a set of matches that maximizes entropy. For details see: Lee et al. (2022) <https://www150.statcan.gc.ca/n1/pub/12-001-x/2022001/article/00007-eng.htm>, Vo et al. (2023) <https://ideas.repec.org/a/eee/csdana/v179y2023ics0167947322002365.html>, Sugiyama et al. (2008) <doi:10.1007/s10463-008-0197-x>.
Author: Adam Struzik [aut, cre] ,
Maciej Beresewicz [aut, ctb]
Maintainer: Adam Struzik <adastr5@st.amu.edu.pl>
Diff between automatedRecLin versions 1.0.1 dated 2025-12-13 and 1.1.0 dated 2026-05-08
DESCRIPTION | 21 MD5 | 61 - NAMESPACE | 4 NEWS.md | 24 R/bootstrap.R |only R/comparators.R | 10 R/comparison_vectors.R | 128 ++ R/controls.R | 8 R/data.R | 78 + R/internals.R | 1092 ++++++++++++++++++++++ R/methods.R | 69 + R/predict.R | 319 +----- R/supervised_learning.R | 261 ++--- R/unsupervised_learning.R | 1486 ++++++++++++++++++++++++------- README.md | 64 - build/partial.rdb |binary build/vignette.rds |only data/census.rda |only data/cis.rda |only inst/doc |only inst/tinytest/test_mec.R | 43 inst/tinytest/test_mec_blocking.R |only inst/tinytest/test_supervised_learning.R | 63 + man/census.Rd |only man/cis.Rd |only man/comparison_vectors.Rd | 14 man/control_kliep.Rd | 8 man/custom_rec_lin_model.Rd | 12 man/est_se_bootstrap.Rd |only man/jarowinkler_complement.Rd | 10 man/mec.Rd | 23 man/mec_blocking.Rd |only man/predict.rec_lin_model.Rd | 21 man/train_rec_lin.Rd | 23 tests/tinytest.R | 2 vignettes |only 36 files changed, 2950 insertions(+), 894 deletions(-)
More information about automatedRecLin at CRAN
Permanent link
Title: Stepwise Clustered Ensemble
Description: Implementation of Stepwise Clustered Ensemble (SCE) and Stepwise Cluster Analysis (SCA) for multivariate data analysis. The package provides comprehensive tools for feature selection, model training, prediction, and evaluation in hydrological and environmental modeling applications. Key functionalities include recursive feature elimination (RFE), Wilks feature importance analysis, model validation through out-of-bag (OOB) validation, and ensemble prediction capabilities. The package supports both single and multivariate response variables, making it suitable for complex environmental modeling scenarios. For more details see Li et al. (2021) <doi:10.5194/hess-25-4947-2021>.
Author: Kailong Li [aut, cre]
Maintainer: Kailong Li <lkl98509509@gmail.com>
Diff between SCE versions 1.1.2 dated 2025-10-04 and 1.1.3 dated 2026-05-08
SCE-1.1.2/SCE/data/Air_quality_testing.rda |only SCE-1.1.2/SCE/data/Air_quality_training.rda |only SCE-1.1.2/SCE/data/Streamflow_testing_10var.rda |only SCE-1.1.2/SCE/data/Streamflow_testing_22var.rda |only SCE-1.1.2/SCE/data/Streamflow_training_10var.rda |only SCE-1.1.2/SCE/data/Streamflow_training_22var.rda |only SCE-1.1.2/SCE/man/Air_quality.Rd |only SCE-1.1.2/SCE/man/Plot_RFE.Rd |only SCE-1.1.2/SCE/man/RFE_SCE.Rd |only SCE-1.1.2/SCE/man/SCA.Rd |only SCE-1.1.2/SCE/man/SCE.Rd |only SCE-1.1.2/SCE/man/Streamflow.Rd |only SCE-1.1.3/SCE/DESCRIPTION | 6 SCE-1.1.3/SCE/MD5 | 56 ++-- SCE-1.1.3/SCE/NAMESPACE | 28 +- SCE-1.1.3/SCE/NEWS.md | 14 + SCE-1.1.3/SCE/R/Model_evaluation.R | 34 +- SCE-1.1.3/SCE/R/Model_simulation.R | 24 - SCE-1.1.3/SCE/R/Prediction.R | 2 SCE-1.1.3/SCE/R/RFE_SCE.R | 14 - SCE-1.1.3/SCE/R/SCA.R | 42 +-- SCE-1.1.3/SCE/R/SCE.R | 321 +++++++++-------------- SCE-1.1.3/SCE/R/Wilks_importance.R | 8 SCE-1.1.3/SCE/README.md | 118 +++----- SCE-1.1.3/SCE/data/air_quality_testing.rda |only SCE-1.1.3/SCE/data/air_quality_training.rda |only SCE-1.1.3/SCE/data/streamflow_testing_10var.rda |only SCE-1.1.3/SCE/data/streamflow_testing_22var.rda |only SCE-1.1.3/SCE/data/streamflow_training_10var.rda |only SCE-1.1.3/SCE/data/streamflow_training_22var.rda |only SCE-1.1.3/SCE/man/air_quality.Rd |only SCE-1.1.3/SCE/man/evaluate.Rd | 10 SCE-1.1.3/SCE/man/importance.Rd | 10 SCE-1.1.3/SCE/man/plot_rfe.Rd |only SCE-1.1.3/SCE/man/predict.Rd | 10 SCE-1.1.3/SCE/man/print.Rd | 10 SCE-1.1.3/SCE/man/rfe_sce.Rd |only SCE-1.1.3/SCE/man/sca.Rd |only SCE-1.1.3/SCE/man/sce.Rd |only SCE-1.1.3/SCE/man/streamflow.Rd |only SCE-1.1.3/SCE/man/summary.Rd | 14 - 41 files changed, 335 insertions(+), 386 deletions(-)
Title: Modified Generalized Estimating Equations for Binary Outcome
Description: Analyze small-sample clustered or longitudinal data with binary
outcome using modified generalized estimating equations (GEE) with
bias-adjusted covariance estimator. The package provides any combination of
three GEE methods and 12 covariance estimators.
Author: Ryota Ishii [aut, cre],
Tomohiro Ohigashi [ctb],
Kazushi Maruo [ctb],
Masahiko Gosho [ctb]
Maintainer: Ryota Ishii <r.ishii0808@gmail.com>
Diff between geessbin versions 1.0.1 dated 2025-12-02 and 1.0.2 dated 2026-05-08
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 3 +++ R/sqrtmat.R | 3 ++- 4 files changed, 11 insertions(+), 7 deletions(-)
Title: Fitting Linear Models with Endogenous Regressors using Latent
Instrumental Variables
Description: Fits linear models with endogenous regressor using latent instrumental variable approaches.
The methods included in the package are Lewbel's (1997) <doi:10.2307/2171884> higher moments approach as well as
Lewbel's (2012) <doi:10.1080/07350015.2012.643126> heteroscedasticity approach, Park and Gupta's (2012) <doi:10.1287/mksc.1120.0718> joint estimation method
that uses Gaussian copula and Kim and Frees's (2007) <doi:10.1007/s11336-007-9008-1> multilevel generalized
method of moment approach that deals with endogeneity in a multilevel setting.
These are statistical techniques to address the endogeneity problem where no external instrumental variables are needed.
See the publication related to this package in the Journal of Statistical Software for more details: <doi:10.18637/jss.v107.i03>.
Note that with version 2.0.0 sweeping changes were introduced which greatly improve functionality and usability but break backwards compatibility.
Author: Raluca Gui [cre, aut],
Markus Meierer [aut],
Rene Algesheimer [aut],
Patrik Schilter [aut],
Kimberly-Anne Lew Chuk Wai [aut]
Maintainer: Raluca Gui <raluca.gui@gmail.com>
Diff between REndo versions 2.4.11 dated 2026-03-23 and 2.5.0 dated 2026-05-08
DESCRIPTION | 22 ++++--- MD5 | 42 ++++++++++---- NAMESPACE | 8 ++ NEWS.md | 12 +++- R/data.R | 79 ++++++++++++++++++++++++++++ R/f_checkinput_copulaIMA.R |only R/f_checkinput_copulacorrection.R | 10 --- R/f_checkinput_helperfunctions.R | 21 +++++++ R/f_checkinput_multilevel.R | 25 +++++--- R/f_copulaIMA_fit.R |only R/f_copulaIMA_helpers.R |only R/f_copulaIMA_interface.R |only R/f_copulacorrection_interface.R | 11 ++- R/f_new_rendobase.R | 15 +++++ R/f_new_rendoboots.R | 8 ++ R/f_new_rendobootsdegeneratesremoved.R |only R/f_new_rendocopulaima.R |only R/f_s3_rendobootsdegeneratesremoved.R |only R/f_s3_rendocopulaIMA.R |only data/dataCopIMABinExo.rda |only data/dataCopIMAContExo.rda |only data/dataCopIMAMultiEndo.rda |only man/REndo.Rd | 1 man/copulaCorrection.Rd | 15 +++-- man/copulaIMA.Rd |only man/dataCopIMABinExo.Rd |only man/dataCopIMAContExo.Rd |only man/dataCopIMAMultiEndo.Rd |only tests/testthat/test-correctness_copulaIMA.R |only tests/testthat/test-inputchecks_copulaIMA.R |only tests/testthat/test-runability_copulaIMA.R |only 31 files changed, 218 insertions(+), 51 deletions(-)
Title: Bayesian Regression with Functional Data
Description: Bayesian regression with functional data, including regression with scalar, survival, or functional outcomes. The package allows regression with scalar and functional predictors. Methods are described in Jiang et al. (2025)
"Tutorial on Bayesian Functional Regression Using Stan"
<doi:10.1002/sim.70265>.
Author: Ziren Jiang [aut, cre],
Erjia Cui [aut],
Ciprian Crainiceanu [ctb]
Maintainer: Ziren Jiang <jian0746@umn.edu>
Diff between refundBayes versions 0.5.1 dated 2026-04-07 and 0.6.0 dated 2026-05-08
DESCRIPTION | 10 MD5 | 73 ++- NAMESPACE | 5 NEWS.md |only R/fcox_bayes.R | 9 R/fofr_bayes.R |only R/fosr_bayes.R | 3 R/fpca_bayes.R |only R/refundBayes_plot.R | 257 ++++++++++++ R/refundBayesbasis.R | 69 +++ R/refundBayesdata.R | 235 ++++++++++- R/refundBayesformula.R | 14 R/refundBayesmodel.R | 45 +- R/refundBayesreconfuncoef.R | 8 R/sofr_bayes.R | 5 README.md | 278 ++++--------- build/vignette.rds |binary inst/CITATION |only inst/doc/fcox_bayes_vignette.Rmd | 26 - inst/doc/fcox_bayes_vignette.html | 176 ++++---- inst/doc/fofr_bayes_vignette.R |only inst/doc/fofr_bayes_vignette.Rmd |only inst/doc/fofr_bayes_vignette.html |only inst/doc/fosr_bayes_vignette.Rmd | 13 inst/doc/fosr_bayes_vignette.html | 126 +++--- inst/doc/fpca_bayes_vignette.R |only inst/doc/fpca_bayes_vignette.Rmd |only inst/doc/fpca_bayes_vignette.html |only inst/doc/joint_FPCA_vignette.R |only inst/doc/joint_FPCA_vignette.Rmd |only inst/doc/joint_FPCA_vignette.html |only inst/doc/sofr_bayes_vignette.Rmd | 23 - inst/doc/sofr_bayes_vignette.html | 780 ++++++++++++++++++++------------------ man/fcox_bayes.Rd | 8 man/fofr_bayes.Rd |only man/fosr_bayes.Rd | 2 man/fpca_bayes.Rd |only man/plot.refundBayes.Rd | 30 + man/sofr_bayes.Rd | 4 vignettes/fcox_bayes_vignette.Rmd | 26 - vignettes/figures |only vignettes/fofr_bayes_vignette.Rmd |only vignettes/fosr_bayes_vignette.Rmd | 13 vignettes/fpca_bayes_vignette.Rmd |only vignettes/joint_FPCA_vignette.Rmd |only vignettes/sofr_bayes_vignette.Rmd | 23 - 46 files changed, 1449 insertions(+), 812 deletions(-)
Title: Multiple Comparisons Using Normal Approximation
Description: Multiple contrast tests and simultaneous confidence
intervals based on normal approximation. With implementations for
binomial proportions in a 2xk setting (risk difference and odds ratio),
poly-3-adjusted tumour rates, biodiversity indices (multinomial data)
and expected values under lognormal assumption. Approximative power
calculation for multiple contrast tests of binomial and Gaussian data.
Author: Frank Schaarschmidt [aut, cre],
Daniel Gerhard [aut],
Martin Sill [aut]
Maintainer: Frank Schaarschmidt <schaarschmidt@biostat.uni-hannover.de>
Diff between MCPAN versions 1.1-21 dated 2018-03-22 and 1.1-22 dated 2026-05-08
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- man/PQln.Rd | 2 +- 3 files changed, 7 insertions(+), 7 deletions(-)
Title: Download Sea Ice Concentration Data from the NSIDC Climate Data
Record
Description: Programmatic access to NSIDC's sea ice concentration CDR <https://nsidc.org/data/g02202> via ERDAPP server and Sea Ice index <https://nsidc.org/data/g02135>. Supports caching results and optional fixes for some inconsistencies of the raw files.
Author: Elio Campitelli [cre, aut, cph]
Maintainer: Elio Campitelli <eliocampitelli@gmail.com>
Diff between icecdr versions 1.1.0 dated 2026-03-24 and 1.2.0 dated 2026-05-08
icecdr-1.1.0/icecdr/tests/testthat/_vcr/sea_ice_index.yml |only icecdr-1.2.0/icecdr/DESCRIPTION | 12 icecdr-1.2.0/icecdr/MD5 | 27 icecdr-1.2.0/icecdr/NEWS.md | 10 icecdr-1.2.0/icecdr/R/cdr-fix.R | 17 icecdr-1.2.0/icecdr/R/cdr.R | 33 icecdr-1.2.0/icecdr/R/sea_ice_index.R | 4 icecdr-1.2.0/icecdr/README.md | 9 icecdr-1.2.0/icecdr/man/cdr.Rd | 2 icecdr-1.2.0/icecdr/man/convenience.Rd | 8 icecdr-1.2.0/icecdr/man/figures/README-unnamed-chunk-3-1.png |binary icecdr-1.2.0/icecdr/man/icecdr-package.Rd | 7 icecdr-1.2.0/icecdr/tests/testthat/_vcr/bad-range.yml | 24 icecdr-1.2.0/icecdr/tests/testthat/_vcr/sea_index_daily.yml |14792 ---------- icecdr-1.2.0/icecdr/tests/testthat/_vcr/sea_index_monthly.yml | 165 15 files changed, 215 insertions(+), 14895 deletions(-)
Title: Nested Sequential Monte Carlo for the Bayesian Mallows Model
Description: Provides nested sequential Monte Carlo algorithms for performing
sequential inference in the Bayesian Mallows model, which is a widely used
probability model for rank and preference data. The package implements the
SMC2 (Sequential Monte Carlo Squared) algorithm for handling sequentially
arriving rankings and pairwise preferences, including support for complete
rankings, partial rankings, and pairwise comparisons. The methods are based
on Sorensen (2025) <doi:10.1214/25-BA1564>.
Author: Oystein Sorensen [aut, cre]
Maintainer: Oystein Sorensen <oystein.sorensen.1985@gmail.com>
Diff between BayesMallowsSMC2 versions 0.2.1 dated 2026-02-04 and 0.3.0 dated 2026-05-08
DESCRIPTION | 8 ++++---- MD5 | 27 ++++++++++++++------------- NEWS.md | 6 ++++++ R/set_smc_options.R | 5 ++++- README.md | 11 ++++++++++- build/partial.rdb |binary inst/CITATION |only inst/REFERENCES.bib | 2 ++ man/set_smc_options.Rd | 7 ++++++- src/options.cpp | 3 ++- src/options.h | 1 + src/particle.cpp | 23 +++++++++++++++++------ src/particle.h | 4 +++- src/rejuvenate.cpp | 37 +++++++++++++++++++++++++++++++++---- src/run_smc.cpp | 3 +-- 15 files changed, 103 insertions(+), 34 deletions(-)
More information about BayesMallowsSMC2 at CRAN
Permanent link
Title: Comprehensive Geospatiotemporal Analysis and Multimodal
Integration Toolkit
Description: A comprehensive toolkit for geospatiotemporal analysis
featuring 60+ vegetation indices, advanced raster visualization,
universal spatial mapping, water quality analysis, CDL crop analysis,
spatial interpolation, temporal analysis, and terrain analysis.
Designed for agricultural research, environmental monitoring, remote
sensing applications, and publication-quality mapping with support for
any geographic region and robust error handling. Methods include
vegetation indices calculations (Rouse et al. 1974), NDVI and enhanced
vegetation indices (Huete et al. 1997)
<doi:10.1016/S0034-4257(97)00104-1>, (Akanbi et al. 2024)
<doi:10.1007/s41651-023-00164-y>, spatial interpolation techniques
(Cressie 1993, ISBN:9780471002556), water quality indices (McFeeters
1996) <doi:10.1080/01431169608948714>, and crop data layer analysis
(USDA NASS 2024)
<https://www.nass.usda.gov/Research_and_Science/Cropland/>. Funding:
This material is based upon financial support by the Natio [...truncated...]
Author: Olatunde D. Akanbi [aut, cre, cph] ,
Vibha Mandayam [aut] ,
Yinghui Wu [aut] ,
Jeffrey Yarus [aut] ,
Erika I. Barcelos [aut, cph] ,
Roger H. French [aut, cph]
Maintainer: Olatunde D. Akanbi <olatunde.akanbi@case.edu>
Diff between geospatialsuite versions 0.1.1 dated 2025-11-05 and 0.2.0 dated 2026-05-08
DESCRIPTION | 11 MD5 | 140 - NAMESPACE | 4 NEWS.md | 131 + R/00-package-info.R | 7 R/02-vegetation-indices.R | 637 ++++-- R/04-crop-analysis.R | 2 R/05-mosaicing.R | 86 R/06-spatial-join.R | 18 R/12-workflows.R | 11 R/13-water-quality.R | 2 R/15-helpers.R | 191 + R/16-data-download.R |only R/16-geocoding-examples.R | 4 R/99-testing.R | 8 README.md |only build/vignette.rds |binary inst/CITATION | 23 inst/doc/agricultural-analysis.R | 13 inst/doc/agricultural-analysis.Rmd | 36 inst/doc/agricultural-analysis.html | 29 inst/doc/analyze-crop-vegetation.R | 17 inst/doc/analyze-crop-vegetation.Rmd | 154 + inst/doc/analyze-crop-vegetation.html | 418 +++ inst/doc/getting-started.R | 581 ++--- inst/doc/getting-started.Rmd | 686 ++---- inst/doc/getting-started.html | 1038 +++++---- inst/doc/performance_benchmark.R |only inst/doc/performance_benchmark.Rmd |only inst/doc/performance_benchmark.html |only inst/doc/spatial-analysis.R | 5 inst/doc/spatial-analysis.Rmd | 23 inst/doc/spatial-analysis.html | 21 inst/doc/spatial-integration.R | 19 inst/doc/spatial-integration.Rmd | 23 inst/doc/spatial-integration.html | 62 inst/doc/vegetation-indices.R | 1131 ++-------- inst/doc/vegetation-indices.Rmd | 1542 ++------------ inst/doc/vegetation-indices.html | 3052 ++++------------------------- inst/doc/water-quality.R | 177 - inst/doc/water-quality.Rmd | 21 inst/doc/water-quality.html | 125 + inst/doc/workflows-case-studies.R | 20 inst/doc/workflows-case-studies.Rmd | 22 inst/doc/workflows-case-studies.html | 1264 ++++++------ inst/extdata |only man/auto_geocode_data.Rd | 2 man/calculate_index_by_type.Rd | 1 man/calculate_vegetation_index.Rd | 22 man/detect_geographic_entities.Rd | 4 man/download_sample_data.Rd |only man/extract_aster_coordinates.Rd | 10 man/geocoding_examples.Rd | 4 man/geospatialsuite-package.Rd | 18 man/get_index_required_bands.Rd |only man/get_sample_data.Rd |only man/list_sample_datasets.Rd |only man/load_sample_data.Rd |only man/select_rasters_for_region.Rd | 19 man/test_geospatialsuite_package_simple.Rd | 2 man/universal_spatial_join.Rd | 18 man/validate_required_bands.Rd | 1 tests/testthat/test-integration.R | 5 tests/testthat/test-workflows.R | 5 vignettes/agricultural-analysis.Rmd | 36 vignettes/analyze-crop-vegetation.Rmd | 154 + vignettes/getting-started.Rmd | 686 ++---- vignettes/performance_benchmark.Rmd |only vignettes/spatial-analysis.Rmd | 23 vignettes/spatial-integration.Rmd | 23 vignettes/vegetation-indices.Rmd | 1542 ++------------ vignettes/water-quality.Rmd | 21 vignettes/workflows-case-studies.Rmd | 22 73 files changed, 5703 insertions(+), 8669 deletions(-)
More information about geospatialsuite at CRAN
Permanent link
Title: Matrices for Repeat-Sales Price Indexes
Description: Calculate the matrices in
Shiller (1991, <doi:10.1016/S1051-1377(05)80028-2>) that serve as the
foundation for many repeat-sales price indexes.
Author: Steve Martin [aut, cre, cph]
Maintainer: Steve Martin <marberts@protonmail.com>
Diff between rsmatrix versions 0.2.9 dated 2024-12-14 and 0.2.10 dated 2026-05-07
DESCRIPTION | 13 +-- MD5 | 34 ++++---- NEWS.md | 16 ++- R/rs_matrix.R | 27 +++--- R/rs_pairs.R | 14 +-- R/rs_var.R | 8 - README.md | 16 +++ build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 2 inst/doc/rsmatrix.R | 24 ++++- inst/doc/rsmatrix.Rmd | 24 ++++- inst/doc/rsmatrix.html | 126 ++++++++++++++++-------------- man/rs_pairs.Rd | 4 man/rsmatrix-package.Rd | 5 + tests/testthat/test-rs_matrix.R | 166 ++++++++++++++++++++++++++++++---------- tests/testthat/test-rs_pairs.R | 20 ++++ vignettes/rsmatrix.Rmd | 24 ++++- 18 files changed, 349 insertions(+), 174 deletions(-)
Title: Understanding Nonlinear Mixed Effects Modeling for Population
Pharmacokinetics
Description: This shows how NONMEM(R) software works. NONMEM's classical
estimation methods like 'First Order(FO) approximation', 'First Order
Conditional Estimation(FOCE)', and 'Laplacian approximation' are explained.
Additionally, provides functions for post-run processing of NONMEM output
files, generating comprehensive PDF diagnostic reports including objective
function value analysis, parameter estimates, prediction diagnostics,
residual diagnostics, empirical Bayes estimate (EBE) analysis, input data
summary, and individual pharmacokinetic parameter distributions.
Author: Kyun-Seop Bae [aut, cre]
Maintainer: Kyun-Seop Bae <k@acr.kr>
Diff between nmw versions 0.2.0 dated 2026-04-07 and 0.3.0 dated 2026-05-07
nmw-0.2.0/nmw/man/dot-ebe_correlation_tables.Rd |only nmw-0.2.0/nmw/man/dot-ebe_covariate_analysis.Rd |only nmw-0.2.0/nmw/man/dot-ebe_individual_ci.Rd |only nmw-0.2.0/nmw/man/dot-ebe_plot_distributions.Rd |only nmw-0.2.0/nmw/man/dot-ebe_regression_diagnostics.Rd |only nmw-0.3.0/nmw/DESCRIPTION | 6 +- nmw-0.3.0/nmw/MD5 | 48 +++++++++++--------- nmw-0.3.0/nmw/NAMESPACE | 16 ++++++ nmw-0.3.0/nmw/R/nm_helpers.R |only nmw-0.3.0/nmw/inst/NEWS.Rd | 11 ++++ nmw-0.3.0/nmw/man/CalcTaLDForReport.Rd | 18 +------ nmw-0.3.0/nmw/man/CountEXTParams.Rd | 19 +------ nmw-0.3.0/nmw/man/GetCountAllTheta.Rd | 2 nmw-0.3.0/nmw/man/GetCountEps.Rd | 2 nmw-0.3.0/nmw/man/GetCountEta.Rd | 2 nmw-0.3.0/nmw/man/GetCountOmega.Rd | 2 nmw-0.3.0/nmw/man/GetCountPara.Rd | 2 nmw-0.3.0/nmw/man/GetCountUnfixedEps.Rd | 2 nmw-0.3.0/nmw/man/MergeIDStatOFV.Rd | 15 +----- nmw-0.3.0/nmw/man/OFV_SCREEN_LAYOUT.Rd | 13 +---- nmw-0.3.0/nmw/man/PlotDistribution.Rd | 34 +++----------- nmw-0.3.0/nmw/man/ReadEXTFile.Rd | 9 --- nmw-0.3.0/nmw/man/add_crcl_cg.Rd |only nmw-0.3.0/nmw/man/build_dose_records.Rd |only nmw-0.3.0/nmw/man/build_nm_dataset.Rd |only nmw-0.3.0/nmw/man/build_obs_records.Rd |only nmw-0.3.0/nmw/man/code_race.Rd |only nmw-0.3.0/nmw/man/code_sex.Rd |only nmw-0.3.0/nmw/man/crcl_cg.Rd |only nmw-0.3.0/nmw/man/dat2_time_to_posix.Rd |only nmw-0.3.0/nmw/man/locf_value.Rd |only nmw-0.3.0/nmw/man/merge_cov_locf.Rd |only nmw-0.3.0/nmw/man/nm_to_molar.Rd |only nmw-0.3.0/nmw/man/parse_dtc.Rd |only 34 files changed, 88 insertions(+), 113 deletions(-)
Title: Tools for Managing Classes on GitHub
Description: Interface for the GitHub API that enables efficient
management of courses on GitHub. It has a functionality for
managing organizations, teams, repositories, and users on GitHub
and helps automate most of the tedious and repetitive tasks
around creating and distributing assignments.
Author: Colin Rundel [aut, cre],
Mine Cetinkaya-Rundel [aut],
Therese Anders [ctb]
Maintainer: Colin Rundel <rundel@gmail.com>
Diff between ghclass versions 0.3.1 dated 2025-05-06 and 0.4.0 dated 2026-05-07
ghclass-0.3.1/ghclass/R/util_peer.R |only ghclass-0.4.0/ghclass/DESCRIPTION | 8 ghclass-0.4.0/ghclass/MD5 | 125 ++++++++------- ghclass-0.4.0/ghclass/NAMESPACE | 30 +++ ghclass-0.4.0/ghclass/NEWS.md | 44 +++++ ghclass-0.4.0/ghclass/R/action.R | 12 + ghclass-0.4.0/ghclass/R/action_artifacts.R | 23 ++ ghclass-0.4.0/ghclass/R/action_artifacts_download.R | 165 ++++++++++++-------- ghclass-0.4.0/ghclass/R/action_run_logs.R |only ghclass-0.4.0/ghclass/R/action_runs.R | 2 ghclass-0.4.0/ghclass/R/ghclass-internal.R |only ghclass-0.4.0/ghclass/R/github_whoami.R | 4 ghclass-0.4.0/ghclass/R/issue_close.R | 54 +++++- ghclass-0.4.0/ghclass/R/org.R | 30 ++- ghclass-0.4.0/ghclass/R/org_allows_forking.R |only ghclass-0.4.0/ghclass/R/org_create_assignment.R | 34 +++- ghclass-0.4.0/ghclass/R/org_grade_assignment.R |only ghclass-0.4.0/ghclass/R/org_members.R | 2 ghclass-0.4.0/ghclass/R/org_remove.R | 2 ghclass-0.4.0/ghclass/R/org_repo_forking.R |only ghclass-0.4.0/ghclass/R/org_repo_stats.R | 9 - ghclass-0.4.0/ghclass/R/org_repos.R | 2 ghclass-0.4.0/ghclass/R/org_sitrep.R | 7 ghclass-0.4.0/ghclass/R/org_teams_v4.R | 12 - ghclass-0.4.0/ghclass/R/org_user_repos.R |only ghclass-0.4.0/ghclass/R/pages.R | 24 ++ ghclass-0.4.0/ghclass/R/pr.R | 2 ghclass-0.4.0/ghclass/R/repo.R | 27 ++- ghclass-0.4.0/ghclass/R/repo_add_file.R | 6 ghclass-0.4.0/ghclass/R/repo_allows_forking.R |only ghclass-0.4.0/ghclass/R/repo_commits.R | 24 +- ghclass-0.4.0/ghclass/R/repo_contributors.R | 41 ++++ ghclass-0.4.0/ghclass/R/repo_create.R | 4 ghclass-0.4.0/ghclass/R/repo_exists.R | 4 ghclass-0.4.0/ghclass/R/repo_get_file.R | 2 ghclass-0.4.0/ghclass/R/repo_ls.R | 2 ghclass-0.4.0/ghclass/R/repo_mirror.R | 6 ghclass-0.4.0/ghclass/R/repo_mirror_template.R | 2 ghclass-0.4.0/ghclass/R/repo_n_commits.R | 2 ghclass-0.4.0/ghclass/R/repo_put_file.R | 2 ghclass-0.4.0/ghclass/R/repo_set_forking.R |only ghclass-0.4.0/ghclass/R/repo_set_template.R | 2 ghclass-0.4.0/ghclass/R/repo_style.R | 8 ghclass-0.4.0/ghclass/R/user.R | 4 ghclass-0.4.0/ghclass/R/util_args.R | 14 + ghclass-0.4.0/ghclass/R/util_cli.R | 6 ghclass-0.4.0/ghclass/R/util_github.R | 6 ghclass-0.4.0/ghclass/R/util_repo.R | 8 ghclass-0.4.0/ghclass/R/util_safely.R | 10 + ghclass-0.4.0/ghclass/R/util_team.R | 2 ghclass-0.4.0/ghclass/README.md | 4 ghclass-0.4.0/ghclass/man/action.Rd | 66 ++++++-- ghclass-0.4.0/ghclass/man/ghclass-internal.Rd |only ghclass-0.4.0/ghclass/man/github_orgs.Rd | 2 ghclass-0.4.0/ghclass/man/github_whoami.Rd | 2 ghclass-0.4.0/ghclass/man/issue.Rd | 6 ghclass-0.4.0/ghclass/man/org_create_assignment.Rd | 11 - ghclass-0.4.0/ghclass/man/org_details.Rd | 45 ++++- ghclass-0.4.0/ghclass/man/org_grade_assignment.Rd |only ghclass-0.4.0/ghclass/man/org_members.Rd | 6 ghclass-0.4.0/ghclass/man/org_perm.Rd | 18 +- ghclass-0.4.0/ghclass/man/pages.Rd | 6 ghclass-0.4.0/ghclass/man/pr.Rd | 2 ghclass-0.4.0/ghclass/man/repo_core.Rd | 39 +++- ghclass-0.4.0/ghclass/man/repo_details.Rd | 14 + ghclass-0.4.0/ghclass/man/repo_file.Rd | 12 - ghclass-0.4.0/ghclass/man/repo_style.Rd | 8 ghclass-0.4.0/ghclass/man/repo_user.Rd | 4 ghclass-0.4.0/ghclass/man/user.Rd | 4 69 files changed, 734 insertions(+), 288 deletions(-)
Title: Classification with Parallel Factor Analysis
Description: Classification using Richard A. Harshman's Parallel Factor
Analysis-1 (Parafac) model or Parallel Factor Analysis-2 (Parafac2) model fit to
a three-way or four-way data array. See Harshman and Lundy (1994):
<doi:10.1016/0167-9473(94)90132-5>. Classification using principal component
analysis (PCA) fit to a two-way data matrix is also supported. Uses component
weights from one mode of a Parafac, Parafac2, or PCA model as features to tune
parameters for one or more classification methods via a k-fold cross-validation
procedure. Allows for constraints on different tensor modes. Allows for
inclusion of additional features alongside features generated by the component
model. Supports penalized logistic regression, support vector machine, random
forest, feed-forward neural network, regularized discriminant analysis, and
gradient boosting machine. Supports binary and multiclass classification.
Predicts class labels or class probabilities, and calculates multiple
classification performan [...truncated...]
Author: Matthew A. Asisgress [aut, cre]
Maintainer: Matthew A. Asisgress <mattgress@protonmail.ch>
Diff between cpfa versions 1.2-8 dated 2026-04-13 and 1.2-9 dated 2026-05-07
ChangeLog | 20 ++++++++++++++++++++ DESCRIPTION | 36 ++++++++++++++++++++++++++++-------- MD5 | 16 ++++++++-------- R/cpfa.R | 6 ++++-- R/cpm.all.R | 2 +- build/vignette.rds |binary inst/doc/cpfa.Rmd | 29 ++++++++++++++--------------- inst/doc/cpfa.pdf |binary vignettes/cpfa.Rmd | 29 ++++++++++++++--------------- 9 files changed, 89 insertions(+), 49 deletions(-)
Title: Group Lasso and Elastic Net Solver for Generalized Linear Models
Description: Extremely efficient procedures for fitting the entire group lasso and group elastic net regularization path for GLMs, multinomial, the Cox model and multi-task Gaussian models. Similar to the R package 'glmnet' in scope of models, and in computational speed. This package provides R bindings to the C++ code underlying the corresponding Python package 'adelie'. These bindings offer a general purpose group elastic net solver,
a wide range of matrix classes that can exploit special structure
to allow large-scale inputs, and an assortment of
generalized linear model classes for fitting various types of data.
The package is an implementation of Yang, J. and Hastie, T. (2024) <doi:10.48550/arXiv.2405.08631>.
Author: James Yang [aut, cph],
Trevor Hastie [aut, cph, cre],
Balasubramanian Narasimhan [aut]
Maintainer: Trevor Hastie <hastie@stanford.edu>
Diff between adelie versions 1.0.8 dated 2025-07-01 and 1.0.9 dated 2026-05-07
DESCRIPTION | 8 MD5 | 28 NEWS.md | 12 R/solver.R | 11 R/state.R | 2 R/utilities.R | 26 R/wrappers.R | 19 build/partial.rdb |binary build/vignette.rds |binary inst/adelie/adelie/__init__.py | 2 inst/adelie/adelie/src/include/adelie_core/matrix/matrix_naive_kronecker_eye.ipp | 42 inst/adelie/adelie/src/include/adelie_core/solver/solver_base.hpp | 6 inst/adelie/adelie/src/py_decl.hpp | 3 inst/doc/adelie.html | 2169 ++++------ man/predict.grpnet.Rd | 5 15 files changed, 998 insertions(+), 1335 deletions(-)
Title: Bounding Treatment Effects by Limited Information Pooling
Description: Estimation and inference methods for bounding average treatment effects (on the treated) that are valid under an unconfoundedness assumption.
The bounds are designed to be robust in challenging situations, for example, when the conditioning variables take on a large number of different values in the observed sample, or when the overlap condition is violated.
This robustness is achieved by only using limited "pooling" of information across observations.
For more details, see the paper by Lee and Weidner, "Bounding Treatment Effects by Pooling Limited Information across Observations," forthcoming at the Journal of Econometrics, <doi:10.48550/arXiv.2111.05243>.
Author: Sokbae Lee [aut, cre],
Martin Weidner [aut]
Maintainer: Sokbae Lee <sl3841@columbia.edu>
Diff between ATbounds versions 0.1.0 dated 2021-11-24 and 0.1.1 dated 2026-05-07
DESCRIPTION | 11 +- MD5 | 34 ++++---- NEWS.md | 9 ++ R/atebounds.R | 4 - R/attbounds.R | 5 - R/simulation_dgp.R | 12 +-- R/summary.ATbounds.R | 2 README.md | 65 +++++++++++++---- build/partial.rdb |binary build/vignette.rds |binary inst/doc/ATbounds_vignette.R | 152 +++++----------------------------------- inst/doc/ATbounds_vignette.Rmd | 74 ++++++++++--------- inst/doc/ATbounds_vignette.pdf |binary man/atebounds.Rd | 2 man/attbounds.Rd | 2 man/simulation_dgp.Rd | 12 +-- man/summary.ATbounds.Rd | 2 vignettes/ATbounds_vignette.Rmd | 74 ++++++++++--------- 18 files changed, 204 insertions(+), 256 deletions(-)
Title: Complete Stochastic Modelling Solution
Description: Makes univariate, multivariate, or random fields simulations precise and simple. Just select the desired time series or random fields’ properties and it will do the rest. CoSMoS is based on the framework described in Papalexiou (2018, <doi:10.1016/j.advwatres.2018.02.013>), extended for random fields in Papalexiou and Serinaldi (2020, <doi:10.1029/2019WR026331>), and further advanced in Papalexiou et al. (2021, <doi:10.1029/2020WR029466>) to allow fine-scale space-time simulation of storms (or even cyclone-mimicking fields).
Author: Simon Michael Papalexiou [aut],
Francesco Serinaldi [aut],
Filip Strnad [aut],
Yannis Markonis [aut],
Kevin Shook [ctb, cre]
Maintainer: Kevin Shook <kshook@kshook.ca>
Diff between CoSMoS versions 2.1.2 dated 2026-01-27 and 2.2.0 dated 2026-05-07
CoSMoS-2.1.2/CoSMoS/R/AR1.R |only CoSMoS-2.1.2/CoSMoS/R/ARp.R |only CoSMoS-2.1.2/CoSMoS/R/actfInv.r |only CoSMoS-2.1.2/CoSMoS/R/acti.R |only CoSMoS-2.1.2/CoSMoS/R/analyzeTS.R |only CoSMoS-2.1.2/CoSMoS/R/burrIII.R |only CoSMoS-2.1.2/CoSMoS/R/burrXII.R |only CoSMoS-2.1.2/CoSMoS/R/erfc.R |only CoSMoS-2.1.2/CoSMoS/R/errors.R |only CoSMoS-2.1.2/CoSMoS/R/fitACS.R |only CoSMoS-2.1.2/CoSMoS/R/fitDist.R |only CoSMoS-2.1.2/CoSMoS/R/generateMTS.r |only CoSMoS-2.1.2/CoSMoS/R/generateMTSFast.r |only CoSMoS-2.1.2/CoSMoS/R/generateRF.r |only CoSMoS-2.1.2/CoSMoS/R/generateRFFast.r |only CoSMoS-2.1.2/CoSMoS/R/generateTS.R |only CoSMoS-2.1.2/CoSMoS/R/gev.R |only CoSMoS-2.1.2/CoSMoS/R/ggamma.R |only CoSMoS-2.1.2/CoSMoS/R/lmom.R |only CoSMoS-2.1.2/CoSMoS/R/norm.R |only CoSMoS-2.1.2/CoSMoS/R/paretoII.R |only CoSMoS-2.1.2/CoSMoS/R/plotacti.R |only CoSMoS-2.1.2/CoSMoS/R/plotcosmosts.R |only CoSMoS-2.1.2/CoSMoS/R/quickTSPlot.R |only CoSMoS-2.1.2/CoSMoS/R/seasonalACF.R |only CoSMoS-2.1.2/CoSMoS/R/seasonalAR.R |only CoSMoS-2.1.2/CoSMoS/R/stratifyData.R |only CoSMoS-2.1.2/CoSMoS/man/actfdiscreteInv.Rd |only CoSMoS-2.1.2/CoSMoS/man/error.Rd |only CoSMoS-2.2.0/CoSMoS/DESCRIPTION | 21 CoSMoS-2.2.0/CoSMoS/MD5 | 236 - CoSMoS-2.2.0/CoSMoS/NAMESPACE | 36 CoSMoS-2.2.0/CoSMoS/NEWS.md | 65 CoSMoS-2.2.0/CoSMoS/R/CoSMoS.R | 60 CoSMoS-2.2.0/CoSMoS/R/RcppExports.R |only CoSMoS-2.2.0/CoSMoS/R/acs.R | 114 CoSMoS-2.2.0/CoSMoS/R/actf.R | 313 + CoSMoS-2.2.0/CoSMoS/R/advectionF.R | 30 CoSMoS-2.2.0/CoSMoS/R/anisotropyT.R | 18 CoSMoS-2.2.0/CoSMoS/R/ar-models.R |only CoSMoS-2.2.0/CoSMoS/R/checkRF.r | 106 CoSMoS-2.2.0/CoSMoS/R/checkTS.R | 167 CoSMoS-2.2.0/CoSMoS/R/disch.R | 2 CoSMoS-2.2.0/CoSMoS/R/distributions.R |only CoSMoS-2.2.0/CoSMoS/R/ecdf.R | 33 CoSMoS-2.2.0/CoSMoS/R/fitVAR.r | 43 CoSMoS-2.2.0/CoSMoS/R/fitting.R |only CoSMoS-2.2.0/CoSMoS/R/generate-fields.R |only CoSMoS-2.2.0/CoSMoS/R/generate-ts.R |only CoSMoS-2.2.0/CoSMoS/R/getArg.R | 88 CoSMoS-2.2.0/CoSMoS/R/moments.R | 329 - CoSMoS-2.2.0/CoSMoS/R/plot-methods.R |only CoSMoS-2.2.0/CoSMoS/R/population.R | 124 CoSMoS-2.2.0/CoSMoS/R/seasonal.R |only CoSMoS-2.2.0/CoSMoS/R/stcs.r | 8 CoSMoS-2.2.0/CoSMoS/R/utils-internal.R |only CoSMoS-2.2.0/CoSMoS/README.md | 1 CoSMoS-2.2.0/CoSMoS/inst/CITATION | 4 CoSMoS-2.2.0/CoSMoS/inst/doc/vignette.R | 352 + CoSMoS-2.2.0/CoSMoS/inst/doc/vignette.Rmd | 427 +- CoSMoS-2.2.0/CoSMoS/inst/doc/vignette.html | 2513 +++++++++---- CoSMoS-2.2.0/CoSMoS/man/ACSfunctions.Rd | 33 CoSMoS-2.2.0/CoSMoS/man/AR1.Rd | 45 CoSMoS-2.2.0/CoSMoS/man/ARp.Rd | 90 CoSMoS-2.2.0/CoSMoS/man/BurrIII.Rd | 43 CoSMoS-2.2.0/CoSMoS/man/BurrXII.Rd | 44 CoSMoS-2.2.0/CoSMoS/man/CoSMoS-package.Rd | 57 CoSMoS-2.2.0/CoSMoS/man/DHMgenSim.Rd |only CoSMoS-2.2.0/CoSMoS/man/DHMgenSj.Rd |only CoSMoS-2.2.0/CoSMoS/man/ECDF.Rd | 25 CoSMoS-2.2.0/CoSMoS/man/GEV.Rd | 39 CoSMoS-2.2.0/CoSMoS/man/GGamma.Rd | 45 CoSMoS-2.2.0/CoSMoS/man/MSE.Rd |only CoSMoS-2.2.0/CoSMoS/man/N.Rd | 28 CoSMoS-2.2.0/CoSMoS/man/ParetoII.Rd | 40 CoSMoS-2.2.0/CoSMoS/man/PopulationStat.Rd | 32 CoSMoS-2.2.0/CoSMoS/man/YW.Rd | 18 CoSMoS-2.2.0/CoSMoS/man/acs.Rd | 50 CoSMoS-2.2.0/CoSMoS/man/actf.Rd | 13 CoSMoS-2.2.0/CoSMoS/man/actfInv.Rd | 19 CoSMoS-2.2.0/CoSMoS/man/actfdiscrete.Rd | 13 CoSMoS-2.2.0/CoSMoS/man/acti.Rd | 23 CoSMoS-2.2.0/CoSMoS/man/actpnts.Rd | 60 CoSMoS-2.2.0/CoSMoS/man/actpntsB6.Rd |only CoSMoS-2.2.0/CoSMoS/man/actpnts_cpp.Rd |only CoSMoS-2.2.0/CoSMoS/man/advectionF.Rd | 2 CoSMoS-2.2.0/CoSMoS/man/advectionFhyperbolic.Rd | 1 CoSMoS-2.2.0/CoSMoS/man/advectionFradial.Rd | 1 CoSMoS-2.2.0/CoSMoS/man/advectionFrotation.Rd | 1 CoSMoS-2.2.0/CoSMoS/man/advectionFspiral.Rd | 1 CoSMoS-2.2.0/CoSMoS/man/advectionFspiralCE.Rd | 3 CoSMoS-2.2.0/CoSMoS/man/analyzeTS.Rd | 127 CoSMoS-2.2.0/CoSMoS/man/anisotropyT.Rd | 6 CoSMoS-2.2.0/CoSMoS/man/anisotropyTswirl.Rd | 1 CoSMoS-2.2.0/CoSMoS/man/checkRF.Rd | 10 CoSMoS-2.2.0/CoSMoS/man/checkTS.Rd | 27 CoSMoS-2.2.0/CoSMoS/man/disch.Rd | 2 CoSMoS-2.2.0/CoSMoS/man/erfc.Rd | 17 CoSMoS-2.2.0/CoSMoS/man/fitACS.Rd | 43 CoSMoS-2.2.0/CoSMoS/man/fitDist.Rd | 30 CoSMoS-2.2.0/CoSMoS/man/fitVAR.Rd | 23 CoSMoS-2.2.0/CoSMoS/man/fitactf.Rd | 32 CoSMoS-2.2.0/CoSMoS/man/generateMTS.Rd | 46 CoSMoS-2.2.0/CoSMoS/man/generateMTSFast.Rd | 76 CoSMoS-2.2.0/CoSMoS/man/generateRF.Rd | 55 CoSMoS-2.2.0/CoSMoS/man/generateRFFast.Rd | 71 CoSMoS-2.2.0/CoSMoS/man/generateTS.Rd | 138 CoSMoS-2.2.0/CoSMoS/man/getACSArg.Rd | 16 CoSMoS-2.2.0/CoSMoS/man/getDistArg.Rd | 17 CoSMoS-2.2.0/CoSMoS/man/lmom.Rd | 19 CoSMoS-2.2.0/CoSMoS/man/moments.Rd | 48 CoSMoS-2.2.0/CoSMoS/man/optimACS.Rd |only CoSMoS-2.2.0/CoSMoS/man/plot.acti.Rd | 32 CoSMoS-2.2.0/CoSMoS/man/plot.checkTS.Rd | 23 CoSMoS-2.2.0/CoSMoS/man/plot.cosmosts.Rd | 37 CoSMoS-2.2.0/CoSMoS/man/plot.fitACS.Rd | 24 CoSMoS-2.2.0/CoSMoS/man/plot.fitDist.Rd | 21 CoSMoS-2.2.0/CoSMoS/man/quickTSPlot.Rd | 22 CoSMoS-2.2.0/CoSMoS/man/rMSE.Rd |only CoSMoS-2.2.0/CoSMoS/man/regenerateTS.Rd | 34 CoSMoS-2.2.0/CoSMoS/man/sample.moments.Rd | 38 CoSMoS-2.2.0/CoSMoS/man/seasonalACF.Rd | 29 CoSMoS-2.2.0/CoSMoS/man/seasonalAR.Rd | 30 CoSMoS-2.2.0/CoSMoS/man/stcfclayton.Rd | 4 CoSMoS-2.2.0/CoSMoS/man/stcfgneiting14.Rd | 130 CoSMoS-2.2.0/CoSMoS/man/stcfgneiting16.Rd | 128 CoSMoS-2.2.0/CoSMoS/man/stcs.Rd | 4 CoSMoS-2.2.0/CoSMoS/man/stcs2.Rd | 60 CoSMoS-2.2.0/CoSMoS/man/stratifySeasonData.Rd | 24 CoSMoS-2.2.0/CoSMoS/src |only CoSMoS-2.2.0/CoSMoS/tests/testthat/test_acs.R | 19 CoSMoS-2.2.0/CoSMoS/tests/testthat/test_acti.R | 42 CoSMoS-2.2.0/CoSMoS/tests/testthat/test_distribution_fit.R | 28 CoSMoS-2.2.0/CoSMoS/tests/testthat/test_distributions.R | 108 CoSMoS-2.2.0/CoSMoS/tests/testthat/test_get_args.R | 15 CoSMoS-2.2.0/CoSMoS/tests/testthat/test_l_moments.R | 25 CoSMoS-2.2.0/CoSMoS/tests/testthat/test_moments.R | 66 CoSMoS-2.2.0/CoSMoS/tests/testthat/test_ts_gen.R | 7 CoSMoS-2.2.0/CoSMoS/vignettes/figures |only CoSMoS-2.2.0/CoSMoS/vignettes/vignette.Rmd | 427 +- 140 files changed, 5076 insertions(+), 2921 deletions(-)
Title: The Structural Similarity Index Measure for Maps
Description: Extends the classical SSIM method proposed by 'Wang', 'Bovik', 'Sheikh', and 'Simoncelli'(2004) <doi:10.1109/TIP.2003.819861>.
for irregular lattice-based maps and raster images.
The geographical SSIM method incorporates well-developed 'geographically weighted summary statistics'('Brunsdon', 'Fotheringham' and 'Charlton' 2002) <doi:10.1016/S0198-9715(01)00009-6>
with an adaptive bandwidth kernel function for irregular lattice-based maps.
Author: Hui Jeong Ha [aut, cre] ,
Jed Long [aut]
Maintainer: Hui Jeong (Hailyee) Ha <hha24@uwo.ca>
Diff between SSIMmap versions 0.1.1 dated 2023-09-26 and 0.4.0 dated 2026-05-07
SSIMmap-0.1.1/SSIMmap/R/Toronto.R |only SSIMmap-0.1.1/SSIMmap/R/global.R |only SSIMmap-0.1.1/SSIMmap/R/gw_dist.R |only SSIMmap-0.1.1/SSIMmap/R/gw_weight_ad.R |only SSIMmap-0.1.1/SSIMmap/R/gwss_new.R |only SSIMmap-0.1.1/SSIMmap/R/ssim_constant.R |only SSIMmap-0.1.1/SSIMmap/data/Toronto.rda |only SSIMmap-0.1.1/SSIMmap/inst/ex |only SSIMmap-0.1.1/SSIMmap/man/Toronto.Rd |only SSIMmap-0.1.1/SSIMmap/man/ssim_constant.Rd |only SSIMmap-0.4.0/SSIMmap/DESCRIPTION | 19 SSIMmap-0.4.0/SSIMmap/MD5 | 47 SSIMmap-0.4.0/SSIMmap/NAMESPACE | 19 SSIMmap-0.4.0/SSIMmap/NEWS.md |only SSIMmap-0.4.0/SSIMmap/R/data.R |only SSIMmap-0.4.0/SSIMmap/R/ssim_bandwidth.R | 390 +++--- SSIMmap-0.4.0/SSIMmap/R/ssim_polygon.R | 492 ++++--- SSIMmap-0.4.0/SSIMmap/R/ssim_raster.R | 542 +++++++- SSIMmap-0.4.0/SSIMmap/build/vignette.rds |binary SSIMmap-0.4.0/SSIMmap/data/Toronto_SSIM.rda |only SSIMmap-0.4.0/SSIMmap/data/fwi_0816_bc.rda |only SSIMmap-0.4.0/SSIMmap/data/fwi_0818_bc.rda |only SSIMmap-0.4.0/SSIMmap/data/fwi_1101_bc.rda |only SSIMmap-0.4.0/SSIMmap/inst/doc/Introduction_to_SSIMmap.R | 272 +++- SSIMmap-0.4.0/SSIMmap/inst/doc/Introduction_to_SSIMmap.Rmd | 401 +++++- SSIMmap-0.4.0/SSIMmap/inst/doc/Introduction_to_SSIMmap.html | 763 ++++++++---- SSIMmap-0.4.0/SSIMmap/man/Toronto_SSIM.Rd |only SSIMmap-0.4.0/SSIMmap/man/fwi_0816_bc.Rd |only SSIMmap-0.4.0/SSIMmap/man/fwi_0818_bc.Rd |only SSIMmap-0.4.0/SSIMmap/man/fwi_1101_bc.Rd |only SSIMmap-0.4.0/SSIMmap/man/ssim_bandwidth.Rd | 80 - SSIMmap-0.4.0/SSIMmap/man/ssim_polygon.Rd | 106 + SSIMmap-0.4.0/SSIMmap/man/ssim_raster.Rd | 130 +- SSIMmap-0.4.0/SSIMmap/vignettes/Introduction_to_SSIMmap.Rmd | 401 +++++- 34 files changed, 2692 insertions(+), 970 deletions(-)
Title: 'DuckDB' High Throughput Sequencing File Formats Reader
Extension
Description: Bundles the 'duckhts' 'DuckDB' extension for reading High Throughput
Sequencing file formats with 'DuckDB'. The 'DuckDB' C extension API
<https://duckdb.org/docs/stable/clients/c/api> and its 'htslib' dependency are
compiled from vendored sources during package installation. James K Bonfield and co-authors (2021) <doi:10.1093/gigascience/giab007>.
Author: Sounkou Mahamane Toure [aut, cre],
James K Bonfield, John Marshall,Petr Danecek ,Heng Li , Valeriu Ohan,
Andrew Whitwham,Thomas Keane , Robert M Davies [ctb] ,
Brent Pedersen [cph] ,
Giulio Genovese [cph] ,
DuckDB C Extension API Authors [ctb]
Maintainer: Sounkou Mahamane Toure <sounkoutoure@gmail.com>
Diff between Rduckhts versions 1.1.6-0.0.2 dated 2026-04-09 and 1.2.1-0.1.0 dated 2026-05-07
Rduckhts-1.1.6-0.0.2/Rduckhts/README.md |only Rduckhts-1.2.1-0.1.0/Rduckhts/DESCRIPTION | 10 Rduckhts-1.2.1-0.1.0/Rduckhts/MD5 | 196 +- Rduckhts-1.2.1-0.1.0/Rduckhts/NAMESPACE | 12 Rduckhts-1.2.1-0.1.0/Rduckhts/NEWS.md | 59 Rduckhts-1.2.1-0.1.0/Rduckhts/R/bootstrap.R | 29 Rduckhts-1.2.1-0.1.0/Rduckhts/R/duckhts.R | 792 ++++++++ Rduckhts-1.2.1-0.1.0/Rduckhts/configure | 172 + Rduckhts-1.2.1-0.1.0/Rduckhts/configure.win | 83 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/COPYRIGHT | 6 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/bam_bed_coverage.c |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/bam_bin_counts.c |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/bam_reader.c | 134 + Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/bcf_reader.c | 88 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/cgranges.c |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/cgranges_api.c |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/duckhts.c | 35 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/Makefile | 6 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/NEWS | 48 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/VERSION | 2 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/annot-tsv.1 | 2 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/bgzf.c | 15 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/bgzip.1 | 2 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/configure | 18 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/cram/cram_codecs.c | 101 - Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/cram/cram_decode.c | 141 + Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/cram/cram_encode.c | 32 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/cram/cram_io.c | 8 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/hfile_s3.c | 135 - Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/htscodecs/NEWS.md | 14 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/htscodecs/htscodecs/arith_dynamic.c | 1 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/htscodecs/htscodecs/htscodecs.h | 2 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/htscodecs/htscodecs/rANS_static32x16pr.c | 44 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/htscodecs/htscodecs/rANS_static32x16pr_avx2.c | 101 - Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/htscodecs/htscodecs/rANS_static32x16pr_avx512.c | 54 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/htscodecs/htscodecs/rANS_static32x16pr_neon.c | 90 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/htscodecs/htscodecs/rANS_static32x16pr_sse4.c | 83 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/htscodecs/htscodecs/rANS_static4x16pr.c | 21 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/htscodecs/htscodecs/rANS_word.h | 6 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/htscodecs/htscodecs/version.h | 2 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/htsfile.1 | 2 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/htslib-s3-plugin.7 | 2 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/htslib/hts.h | 2 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/htslib/kstring.h | 6 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/kstring.c | 137 + Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/ref_cache/ref-cache.1 | 2 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/sam.c | 7 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/tabix.1 | 2 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/htslib/version.sh | 2 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/include/cgranges.h |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/include/khash.h |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/include/wasm_http_hfile.h |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/include/wasm_socket_compat.h |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/interval_udf.c | 74 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/mosdepth_table.c |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/samtools_idxstats_table.c |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/score_udf.c | 934 +++++++--- Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/seq_reader.c | 333 +++ Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/tabix_reader.c | 802 ++++++++ Rduckhts-1.2.1-0.1.0/Rduckhts/inst/duckhts_extension/wasm_http_hfile.c |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/bad.bed |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/big.bam |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/big.bam.csi |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/empty-tids.bam |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/empty-tids.bam.bai |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/empty-tids.bed |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/fixture_mixed.bam |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/fixture_mixed.bam.bai |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/fixture_mixed.cram |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/fixture_mixed.cram.crai |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/fixture_mixed_min_depth_regions.bed |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/fixture_mixed_regions.bed |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/fixture_paired.bam |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/fixture_paired.bam.bai |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/fixture_ref.fa |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/fixture_ref.fa.fai |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/fixture_single.bam |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/fixture_single.bam.bai |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/fixture_unmapped.sam |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/full-fragment-pairs.bam |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/full-fragment-pairs.bam.bai |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/gff_attrs.gff3 |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/gff_strict_extra_field.gff3 |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/gff_strict_invalid.gff3 |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/gff_strict_invalid_attr.gff3 |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/gff_strict_invalid_end.gff3 |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/gff_strict_valid.gff3 |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/gtf_attrs.gtf |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/missing.bed |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/nanopore.bam |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/nanopore.bam.bai |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/nuc_with_n.bed |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/nuc_with_n.fa |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/overlapping-pairs.bam |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/overlapping-pairs.bam.bai |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/ovl.bam |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/ovl.bam.bai |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/score_summaries.list |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/score_summary_CNT.tsv |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/score_summary_dir |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/track.bed |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/extdata/unordered.bed |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/function_catalog/functions.md | 34 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/function_catalog/functions.tsv | 24 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/function_catalog/functions.yaml | 213 ++ Rduckhts-1.2.1-0.1.0/Rduckhts/inst/htslib_config.R.in |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/tinytest/test_bam_bed_coverage.R |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/tinytest/test_basic.R | 101 + Rduckhts-1.2.1-0.1.0/Rduckhts/inst/tinytest/test_bin_counts.R |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/tinytest/test_cgranges_api.R |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/tinytest/test_integration.R | 108 + Rduckhts-1.2.1-0.1.0/Rduckhts/inst/tinytest/test_intervals.R | 33 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/tinytest/test_mosdepth.R |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/tinytest/test_multi.R |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/tinytest/test_samtools_idxstats.R |only Rduckhts-1.2.1-0.1.0/Rduckhts/inst/tinytest/test_score.R | 53 Rduckhts-1.2.1-0.1.0/Rduckhts/inst/tinytest/test_seq_ops.R | 32 Rduckhts-1.2.1-0.1.0/Rduckhts/man/rduckhts_bam.Rd | 5 Rduckhts-1.2.1-0.1.0/Rduckhts/man/rduckhts_bam_bed_coverage.Rd |only Rduckhts-1.2.1-0.1.0/Rduckhts/man/rduckhts_bam_bin_counts.Rd |only Rduckhts-1.2.1-0.1.0/Rduckhts/man/rduckhts_bam_multi.Rd |only Rduckhts-1.2.1-0.1.0/Rduckhts/man/rduckhts_bcf_multi.Rd |only Rduckhts-1.2.1-0.1.0/Rduckhts/man/rduckhts_bed_multi.Rd |only Rduckhts-1.2.1-0.1.0/Rduckhts/man/rduckhts_fasta_multi.Rd |only Rduckhts-1.2.1-0.1.0/Rduckhts/man/rduckhts_fastq_multi.Rd |only Rduckhts-1.2.1-0.1.0/Rduckhts/man/rduckhts_gff.Rd | 11 Rduckhts-1.2.1-0.1.0/Rduckhts/man/rduckhts_gff_multi.Rd |only Rduckhts-1.2.1-0.1.0/Rduckhts/man/rduckhts_gtf.Rd | 8 Rduckhts-1.2.1-0.1.0/Rduckhts/man/rduckhts_gtf_multi.Rd |only Rduckhts-1.2.1-0.1.0/Rduckhts/man/rduckhts_mosdepth.Rd |only Rduckhts-1.2.1-0.1.0/Rduckhts/man/rduckhts_samtools_idxstats.Rd |only Rduckhts-1.2.1-0.1.0/Rduckhts/man/rduckhts_score.Rd | 16 Rduckhts-1.2.1-0.1.0/Rduckhts/man/rduckhts_tabix_multi.Rd |only 133 files changed, 4626 insertions(+), 861 deletions(-)
Title: Conjuntos de Datos para 'Graficas Versatiles con ggplot2'
Description: Una coleccion de conjuntos de datos para el libro
"Graficas versatiles con ggplot: Analisis visuales de datos",
por Raymond L. Tremblay y Julian Hernandez-Serrano. Incluye datos
de ecologia, salud publica, educacion, economia y biodiversidad
para la ensenanza de visualizacion de datos con 'ggplot2'.
Author: Raymond L. Tremblay [aut, cre] ,
Julian Hernandez-Serrano [aut]
Maintainer: Raymond L. Tremblay <raymondtremblay1@mac.com>
Diff between ggversa versions 0.0.1 dated 2017-08-05 and 0.1.1 dated 2026-05-07
DESCRIPTION | 36 +++++++--- MD5 | 105 ++++++++++++++++--------------- NAMESPACE | 2 NEWS.md |only R/ASBESTOS_QUEBEC.R | 38 +++++++---- R/Anolis.R | 83 ++++++++++++------------- R/Camas_Hospital.R | 38 +++++++---- R/Crecimiento_domestico_bruto.R | 52 ++++++++++----- R/CypripediumA.R | 56 ++++++++-------- R/Edu_Salud_Gastos_GDP.R | 38 +++++++---- R/Educacion_Ninas.R | 53 +++++++++------- R/ElphicBirdData.R | 122 +++++++++++++++++++++++++++++-------- R/Godwits.R | 78 +++++++++++------------ R/Internet2.R | 43 ++++++++----- R/LIKERT_DATA.R | 35 ++++++---- R/Lelto.R | 73 +++++++++++----------- R/Morelia_Mich_Tmin.R | 29 ++++---- R/PBI.R | 40 +++++++----- R/PIB_vs_Alfabetismo.R | 23 ++++-- R/PIBvsSalud.R | 28 ++++---- R/PartosInfantes.R | 30 ++++++--- R/Pop_PR.R | 25 ++++--- R/Razon_mortandad.R | 36 ++++++---- R/SparrowsElphick.R | 37 ++++++++++- R/VegSampleV1.R | 56 ++++++++++------ R/caladeniavalida.R | 89 ++++++++++++-------------- R/dipodium.R | 77 ++++++++++------------- R/ggversa-package.R |only R/tiroide.R | 35 +++++----- README.md |only build |only man/ASBESTOS_QUEBEC.Rd | 35 +++++++--- man/Anolis.Rd | 84 ++++++++++++------------- man/Camas_Hospital.Rd | 33 +++++++--- man/Crecimiento_domestico_bruto.Rd | 50 +++++++++++---- man/CypripediumA.Rd | 55 ++++++++-------- man/Edu_Salud_Gastos_GDP.Rd | 34 +++++++--- man/Educacion_Ninas.Rd | 49 +++++++++----- man/ElphickBirdData.Rd | 117 +++++++++++++++++++++++++++++------ man/Godwits.Rd | 73 +++++++++++----------- man/Internet2.Rd | 41 ++++++++---- man/LIKERT_DATA.Rd | 32 ++++++--- man/Lelto.Rd | 73 +++++++++++----------- man/MORELIA.MICH.Tmin.Rd | 31 +++++---- man/PBI.Rd | 43 ++++++++----- man/PIB_vs_Alfabetismo.Rd | 23 ++++-- man/PIB_vs_Salud.Rd | 30 +++++---- man/PartosInfantes.Rd | 30 ++++++--- man/Pop_PR.Rd | 23 ++++-- man/Razon_mortandad.Rd | 36 +++++++--- man/SparrowsElphick.Rd | 38 ++++++++++- man/Tiroide.Rd | 37 +++++------ man/VegSamplesV1.Rd | 57 +++++++++++------ man/caladeniavalida.Rd | 77 +++++++++++------------ man/dipodium.Rd | 74 ++++++++++------------ man/ggversa-package.Rd |only 56 files changed, 1556 insertions(+), 976 deletions(-)
Title: Variable Neighborhood Trust Region Search
Description: Implements the variable neighborhood trust region search (VNTRS)
algorithm for nonlinear global optimization, following Bierlaire et al.
(2009) "A Heuristic for Nonlinear Global Optimization"
<doi:10.1287/ijoc.1090.0343>. The method combines neighborhood
exploration with a trust-region framework to search the solution space
efficiently. It can terminate a local search early when the iterates
converge toward a previously visited local optimum or when further
improvement within the current region is unlikely. The algorithm can also
be used to identify multiple local optima.
Author: Lennart Oelschlaeger [aut, cre]
Maintainer: Lennart Oelschlaeger <oelschlaeger.lennart@gmail.com>
Diff between vntrs versions 0.2.0 dated 2025-10-25 and 0.2.1 dated 2026-05-07
DESCRIPTION | 27 - MD5 | 20 - NEWS.md | 11 R/vntrs-package.R | 1 R/vntrs.R | 474 ++++++++++++++++----------------- README.md | 34 +- build/partial.rdb |binary man/vntrs-package.Rd | 7 man/vntrs.Rd | 50 +-- src/vntrs.cpp | 10 tests/testthat/test-vntrs.R | 625 +++++++++++++++++++++++++++++--------------- 11 files changed, 729 insertions(+), 530 deletions(-)
Title: Markdown Parser Implemented using the 'MD4C' Library
Description: Provides an R wrapper for the 'MD4C' (Markdown for 'C')
library. Functions exist for parsing markdown ('CommonMark'
compliant) along with support for other common markdown extensions
(e.g. 'GitHub' flavored markdown, 'LaTeX' equation support, etc.). The
package also provides a number of higher level functions for exploring
and manipulating markdown abstract syntax trees as well as translating
and displaying the documents.
Author: Colin Rundel [aut, cre],
Martin Mitas [cph] ,
RStudio, PBC [cph] ,
John MacFarlane [cph]
Maintainer: Colin Rundel <rundel@gmail.com>
Diff between md4r versions 0.5.2.0 dated 2024-02-05 and 0.5.3.0 dated 2026-05-07
DESCRIPTION | 65 MD5 | 53 NAMESPACE | 39 NEWS.md | 30 R/create_block.R |only R/create_span.R |only R/create_text.R |only R/flags.R | 2 R/md_util.R | 2 R/modify_node.R |only R/parse_md.R | 17 R/to_html.R | 5 R/to_md.R | 142 README.md | 33 inst/specs/md4c/regressions.txt | 115 inst/specs/md4c/spec-permissive-autolinks.txt | 24 man/md_block.Rd |only man/md_node_modify.Rd |only man/md_span.Rd |only man/md_text.Rd |only src/markdownparser.cpp | 13 src/md4c.c | 376 tests/testthat/helper-tests.R |only tests/testthat/setup.R | 205 tests/testthat/test-ast-util.R |only tests/testthat/test-create-block.R |only tests/testthat/test-create-span.R |only tests/testthat/test-create-text.R |only tests/testthat/test-input-validation.R |only tests/testthat/test-md-util.R |only tests/testthat/test-modify-node.R |only tests/testthat/test-to_html-gfm.R |10337 +++++++++++++++++++++ tests/testthat/test-to_html-md4c.R |12508 +++++++++++++++++++++++++- tests/testthat/test-to_md-gfm.R | 7318 +++++++++++++++ tests/testthat/test-to_md-md4c.R | 8224 ++++++++++++++++- tests/testthat/test-to_md.R |only 36 files changed, 38721 insertions(+), 787 deletions(-)
Title: J&J Innovative Medicine SDTM Test Data
Description: A set of Study Data Tabulation Model (SDTM) datasets constructed by
modifying the 'pharmaversesdtm' package to meet J&J Innovative Medicine's
standard data structure for Clinical and Statistical Programming.
Author: David Munoz Tord [aut, cre],
Nicholas Masel [aut],
Joe Kovach [aut],
Renfei Mao [ctb],
J&J Innovative Medicine [cph, fnd]
Maintainer: David Munoz Tord <david.munoztord@mailbox.org>
Diff between pharmaversesdtmjnj versions 0.0.1 dated 2025-07-07 and 0.0.4 dated 2026-05-07
DESCRIPTION | 12 ++++++---- MD5 | 44 ++++++++++++++++++++++++++------------ NAMESPACE | 1 NEWS.md | 27 ++++++++++++++++++++--- R/ae.R |only R/ds.R | 5 ++-- R/dv.R |only R/ho.R |only R/ie.R |only R/mh.R | 9 +++++-- R/pharmaversesdtmjnj-package.R | 1 R/suppho.R |only R/ts.R |only README.md | 10 +++++--- data/ae.rda |only data/ds.rda |binary data/dv.rda |only data/ho.rda |only data/ie.rda |only data/mh.rda |binary data/suppho.rda |only data/ts.rda |only inst/WORDLIST | 27 ++++++++++++++++++----- man/ae.Rd |only man/ds.Rd | 4 +-- man/dv.Rd |only man/ho.Rd |only man/ie.Rd |only man/mh.Rd | 8 ++++-- man/pharmaversesdtmjnj-package.Rd | 1 man/suppho.Rd |only man/ts.Rd |only 32 files changed, 108 insertions(+), 41 deletions(-)
More information about pharmaversesdtmjnj at CRAN
Permanent link
Title: J&J Innovative Medicine ADaM Test Data
Description: A set of Analysis Data Model (ADaM) datasets constructed by
modifying the ADaM datasets in the 'pharmaverseadam' package to meet J&J Innovative Medicine's
standard data structure for Clinical and Statistical Programming.
Author: David Munoz Tord [aut, cre],
Nicholas Masel [aut],
Joe Kovach [aut],
Mahesh Divakaran [ctb],
J&J Innovative Medicine [cph, fnd]
Maintainer: David Munoz Tord <david.munoztord@mailbox.org>
Diff between pharmaverseadamjnj versions 0.0.2 dated 2025-12-10 and 0.0.4 dated 2026-05-07
DESCRIPTION | 9 +- MD5 | 81 ++++++++++++----------- NEWS.md | 76 ++++++++++++++++++--- R/adae.R | 74 ++++++++++----------- R/adaeocmq.R | 74 ++++++++++----------- R/adagocmq.R | 2 R/adcm.R | 48 ++++++------- R/addili.R |only R/adeg.R | 69 +++++++++---------- R/adex.R | 138 ++++++++++++++++++++------------------- R/adexsum.R | 2 R/adlb.R | 182 +++++++++++++++++++++++++--------------------------- R/adpc.R | 187 ++++++++++++++++++++++++++--------------------------- R/adsl.R | 70 +++++++++++--------- R/adttesaf.R | 2 R/advs.R | 74 ++++++++++++--------- data/adae.rda |binary data/adaeocmq.rda |binary data/adagocmq.rda |binary data/adcm.rda |binary data/addili.rda |only data/adeg.rda |binary data/adex.rda |binary data/adexsum.rda |binary data/adlb.rda |binary data/adpc.rda |binary data/adsl.rda |binary data/adttesaf.rda |binary data/advs.rda |binary inst/WORDLIST | 147 ++++++++++++++++++++++-------------------- man/adae.Rd | 76 +++++++++++---------- man/adaeocmq.Rd | 76 +++++++++++---------- man/adagocmq.Rd | 4 - man/adcm.Rd | 50 +++++++------- man/addili.Rd |only man/adeg.Rd | 71 ++++++++++---------- man/adex.Rd | 140 ++++++++++++++++++++-------------------- man/adexsum.Rd | 4 - man/adlb.Rd | 184 ++++++++++++++++++++++++++-------------------------- man/adpc.Rd | 189 +++++++++++++++++++++++++++--------------------------- man/adsl.Rd | 72 +++++++++++--------- man/adttesaf.Rd | 4 - man/advs.Rd | 76 ++++++++++++--------- 43 files changed, 1145 insertions(+), 1036 deletions(-)
More information about pharmaverseadamjnj at CRAN
Permanent link
Title: Interface for Masked Autoregressive Flows
Description: Interfaces the 'python' library 'zuko' implementing Masked Autoregressive Flows. See Rozet, Divo and Schnake (2023) <doi:10.5281/zenodo.7625672> and Papamakarios, Pavlakou and Murray (2017) <doi:10.48550/arXiv.1705.07057>.
Author: Jean-Michel Marin [aut, cph],
Francois Rousset [aut, cre, cph]
Maintainer: Francois Rousset <francois.rousset@umontpellier.fr>
Diff between mafR versions 1.1.6 dated 2024-09-26 and 1.1.14 dated 2026-05-07
mafR-1.1.14/mafR/DESCRIPTION | 19 ++++--- mafR-1.1.14/mafR/MD5 | 21 +++++--- mafR-1.1.14/mafR/R/init_py_env.R |only mafR-1.1.14/mafR/R/reticulate_install_1.40.0.R |only mafR-1.1.14/mafR/R/utilities.R | 20 +++++--- mafR-1.1.14/mafR/inst/NEWS.Rd | 7 ++ mafR-1.1.14/mafR/inst/python/GMM.py |only mafR-1.1.14/mafR/inst/python/MAF.py | 60 +++++++++++++++---------- mafR-1.1.14/mafR/man/control_py_env.Rd | 8 ++- mafR-1.1.14/mafR/man/init_py_env.Rd |only mafR-1.1.14/mafR/man/mafR.Rd | 4 - mafR-1.1.14/mafR/man/r_to_torch.Rd | 3 - mafR-1.1.14/mafR/man/utilities.Rd | 26 +++++++--- mafR-1.1.6/mafR/R/install_py_stuff.R |only 14 files changed, 107 insertions(+), 61 deletions(-)
Title: Causal Effect Random Forest of Interaction Trees
Description: Fits a Causal Effect Random Forest of Interaction Trees (CERFIT) which is a modification of the Random Forest algorithm where each split is chosen to maximize subgroup treatment heterogeneity. Doing this allows it to estimate the individualized treatment effect for each observation in either randomized controlled trial (RCT) or observational data. For more information see L. Li, R. A. Levine, and J. Fan (2022) <doi:10.1002/sta4.457>.
Author: Justin Thorp [aut, cre],
Joshua Moffat [aut],
Luo Li [aut],
Juanjuan Fan [aut]
Maintainer: Justin Thorp <jjtthorp@gmail.com>
Diff between CERFIT versions 0.1.1 dated 2025-09-26 and 0.2.0 dated 2026-05-07
DESCRIPTION | 15 +- MD5 | 24 ++-- R/CERFIT.R | 287 +++++++++++++++++++++++++++++++++++++------------- R/data.R | 6 - R/minDepth.R | 6 - R/partition.R | 160 +++++++++++++++++++-------- R/predict.R | 72 +++++++++--- R/predictTree.R | 62 ++++++++++ man/CERFIT.Rd | 103 ++++++++++------- man/MinDepth.Rd | 6 - man/educational.Rd | 2 man/predict.CERFIT.Rd | 20 +-- man/warts.Rd | 4 13 files changed, 542 insertions(+), 225 deletions(-)
Title: Miscellaneous Functions from M. Kohl
Description: Contains several functions for statistical data analysis; e.g. for sample size and power calculations, computation of confidence intervals and tests, and generation of similarity matrices.
Author: Matthias Kohl [aut, cre]
Maintainer: Matthias Kohl <Matthias.Kohl@stamats.de>
Diff between MKmisc versions 1.9 dated 2022-11-19 and 2.0 dated 2026-05-07
DESCRIPTION | 13 MD5 | 16 NAMESPACE | 2 NEWS | 7 R/mod.oneway.test.R | 39 - build/vignette.rds |binary inst/doc/MKmisc.R | 14 inst/doc/MKmisc.html | 1775 ++++++++++++++++++++++++++----------------------- man/mod.oneway.test.Rd | 19 9 files changed, 1039 insertions(+), 846 deletions(-)
Title: Automated Multicollinearity Management
Description: Provides a comprehensive and automated workflow for managing multicollinearity in data frames with numeric and/or categorical variables. The package integrates five robust methods into a single function: (1) target encoding of categorical variables based on response values (Micci-Barreca, 2001 (Micci-Barreca, D. 2001 <doi:10.1145/507533.507538>); (2) automated feature prioritization to preserve key predictors during filtering; (3 and 4) pairwise correlation and VIF filtering across all variable types (numeric–numeric, numeric–categorical, and categorical–categorical); (5) adaptive correlation and VIF thresholds. Together, these methods enable a reliable multicollinearity management in most use cases while maintaining model integrity. The package also supports parallel processing and progress tracking via the packages 'future' and 'progressr', and provides seamless integration with the 'tidymodels' ecosystem through a dedicated recipe step.
Author: Blas M. Benito [aut, cre, cph]
Maintainer: Blas M. Benito <blasbenito@gmail.com>
Diff between collinear versions 3.0.0 dated 2025-12-08 and 3.0.1 dated 2026-05-07
collinear-3.0.0/collinear/data/vi.rda |only collinear-3.0.0/collinear/data/vi_predictors.rda |only collinear-3.0.0/collinear/data/vi_predictors_categorical.rda |only collinear-3.0.0/collinear/data/vi_predictors_numeric.rda |only collinear-3.0.0/collinear/data/vi_responses.rda |only collinear-3.0.0/collinear/data/vi_smol.rda |only collinear-3.0.0/collinear/man/figures |only collinear-3.0.0/collinear/man/vi.Rd |only collinear-3.0.0/collinear/man/vi_predictors.Rd |only collinear-3.0.0/collinear/man/vi_predictors_categorical.Rd |only collinear-3.0.0/collinear/man/vi_predictors_numeric.Rd |only collinear-3.0.0/collinear/man/vi_responses.Rd |only collinear-3.0.0/collinear/man/vi_smol.Rd |only collinear-3.0.1/collinear/DESCRIPTION | 11 collinear-3.0.1/collinear/MD5 | 345 ++++------ collinear-3.0.1/collinear/NEWS.md | 20 collinear-3.0.1/collinear/R/collinear.R | 7 collinear-3.0.1/collinear/R/collinear_select.R | 2 collinear-3.0.1/collinear/R/collinear_stats.R | 10 collinear-3.0.1/collinear/R/cor_clusters.R | 2 collinear-3.0.1/collinear/R/cor_df.R | 4 collinear-3.0.1/collinear/R/cor_matrix.R | 4 collinear-3.0.1/collinear/R/cor_select.R | 2 collinear-3.0.1/collinear/R/cor_stats.R | 10 collinear-3.0.1/collinear/R/data.R | 72 -- collinear-3.0.1/collinear/R/drop_geometry_column.R | 2 collinear-3.0.1/collinear/R/f_auto.R | 15 collinear-3.0.1/collinear/R/f_binomial_gam.R | 12 collinear-3.0.1/collinear/R/f_binomial_glm.R | 12 collinear-3.0.1/collinear/R/f_binomial_rf.R | 12 collinear-3.0.1/collinear/R/f_categorical_rf.R | 6 collinear-3.0.1/collinear/R/f_count_gam.R | 6 collinear-3.0.1/collinear/R/f_count_glm.R | 6 collinear-3.0.1/collinear/R/f_count_rf.R | 6 collinear-3.0.1/collinear/R/f_numeric_gam.R | 6 collinear-3.0.1/collinear/R/f_numeric_glm.R | 6 collinear-3.0.1/collinear/R/f_numeric_rf.R | 6 collinear-3.0.1/collinear/R/identify_categorical_variables.R | 2 collinear-3.0.1/collinear/R/identify_logical_variables.R | 2 collinear-3.0.1/collinear/R/identify_numeric_variables.R | 2 collinear-3.0.1/collinear/R/identify_response_type.R | 2 collinear-3.0.1/collinear/R/identify_valid_variables.R | 2 collinear-3.0.1/collinear/R/identify_zero_variance_variables.R | 2 collinear-3.0.1/collinear/R/model_formula.R | 16 collinear-3.0.1/collinear/R/preference_order.R | 16 collinear-3.0.1/collinear/R/score_auc.R | 5 collinear-3.0.1/collinear/R/step_collinear.R | 10 collinear-3.0.1/collinear/R/target_encoding_lab.R | 2 collinear-3.0.1/collinear/R/target_encoding_mean.R | 2 collinear-3.0.1/collinear/R/validate_arg_df.R | 6 collinear-3.0.1/collinear/R/validate_arg_df_not_null.R | 2 collinear-3.0.1/collinear/R/validate_arg_predictors.R | 2 collinear-3.0.1/collinear/R/validate_arg_preference_order.R | 10 collinear-3.0.1/collinear/R/validate_arg_responses.R | 2 collinear-3.0.1/collinear/R/vif.R | 7 collinear-3.0.1/collinear/R/vif_df.R | 2 collinear-3.0.1/collinear/R/vif_select.R | 2 collinear-3.0.1/collinear/R/vif_stats.R | 10 collinear-3.0.1/collinear/R/zzz.R |only collinear-3.0.1/collinear/README.md | 6 collinear-3.0.1/collinear/data/experiment_adaptive_thresholds.rda |binary collinear-3.0.1/collinear/data/experiment_cor_vs_vif.rda |binary collinear-3.0.1/collinear/data/gam_cor_to_vif.rda |binary collinear-3.0.1/collinear/data/prediction_cor_to_vif.rda |binary collinear-3.0.1/collinear/data/toy.rda |binary collinear-3.0.1/collinear/inst/CITATION | 6 collinear-3.0.1/collinear/inst/WORDLIST | 13 collinear-3.0.1/collinear/man/case_weights.Rd | 10 collinear-3.0.1/collinear/man/collinear.Rd | 17 collinear-3.0.1/collinear/man/collinear_select.Rd | 12 collinear-3.0.1/collinear/man/collinear_stats.Rd | 28 collinear-3.0.1/collinear/man/cor_clusters.Rd | 20 collinear-3.0.1/collinear/man/cor_cramer.Rd | 18 collinear-3.0.1/collinear/man/cor_df.Rd | 22 collinear-3.0.1/collinear/man/cor_matrix.Rd | 22 collinear-3.0.1/collinear/man/cor_select.Rd | 12 collinear-3.0.1/collinear/man/cor_stats.Rd | 28 collinear-3.0.1/collinear/man/declare_spatialData.Rd |only collinear-3.0.1/collinear/man/drop_geometry_column.Rd | 26 collinear-3.0.1/collinear/man/experiment_adaptive_thresholds.Rd | 2 collinear-3.0.1/collinear/man/experiment_cor_vs_vif.Rd | 2 collinear-3.0.1/collinear/man/f_auto.Rd | 21 collinear-3.0.1/collinear/man/f_auto_rules.Rd | 6 collinear-3.0.1/collinear/man/f_binomial_gam.Rd | 24 collinear-3.0.1/collinear/man/f_binomial_glm.Rd | 24 collinear-3.0.1/collinear/man/f_binomial_rf.Rd | 24 collinear-3.0.1/collinear/man/f_categorical_rf.Rd | 24 collinear-3.0.1/collinear/man/f_count_gam.Rd | 24 collinear-3.0.1/collinear/man/f_count_glm.Rd | 24 collinear-3.0.1/collinear/man/f_count_rf.Rd | 24 collinear-3.0.1/collinear/man/f_functions.Rd | 6 collinear-3.0.1/collinear/man/f_numeric_gam.Rd | 24 collinear-3.0.1/collinear/man/f_numeric_glm.Rd | 24 collinear-3.0.1/collinear/man/f_numeric_rf.Rd | 24 collinear-3.0.1/collinear/man/gam_cor_to_vif.Rd | 2 collinear-3.0.1/collinear/man/identify_categorical_variables.Rd | 14 collinear-3.0.1/collinear/man/identify_logical_variables.Rd | 14 collinear-3.0.1/collinear/man/identify_numeric_variables.Rd | 14 collinear-3.0.1/collinear/man/identify_response_type.Rd | 14 collinear-3.0.1/collinear/man/identify_valid_variables.Rd | 14 collinear-3.0.1/collinear/man/identify_zero_variance_variables.Rd | 14 collinear-3.0.1/collinear/man/model_formula.Rd | 20 collinear-3.0.1/collinear/man/prediction_cor_to_vif.Rd | 2 collinear-3.0.1/collinear/man/preference_order.Rd | 32 collinear-3.0.1/collinear/man/print.collinear_output.Rd | 8 collinear-3.0.1/collinear/man/print.collinear_selection.Rd | 8 collinear-3.0.1/collinear/man/score_auc.Rd | 10 collinear-3.0.1/collinear/man/score_cramer.Rd | 10 collinear-3.0.1/collinear/man/score_r2.Rd | 10 collinear-3.0.1/collinear/man/step_collinear.Rd | 20 collinear-3.0.1/collinear/man/summary.collinear_output.Rd | 8 collinear-3.0.1/collinear/man/summary.collinear_selection.Rd | 8 collinear-3.0.1/collinear/man/target_encoding_lab.Rd | 6 collinear-3.0.1/collinear/man/target_encoding_methods.Rd | 9 collinear-3.0.1/collinear/man/toy.Rd | 9 collinear-3.0.1/collinear/man/validate_arg_df.Rd | 30 collinear-3.0.1/collinear/man/validate_arg_df_not_null.Rd | 26 collinear-3.0.1/collinear/man/validate_arg_encoding_method.Rd | 24 collinear-3.0.1/collinear/man/validate_arg_f.Rd | 24 collinear-3.0.1/collinear/man/validate_arg_function_name.Rd | 24 collinear-3.0.1/collinear/man/validate_arg_max_cor.Rd | 24 collinear-3.0.1/collinear/man/validate_arg_max_vif.Rd | 24 collinear-3.0.1/collinear/man/validate_arg_predictors.Rd | 26 collinear-3.0.1/collinear/man/validate_arg_preference_order.Rd | 34 collinear-3.0.1/collinear/man/validate_arg_quiet.Rd | 24 collinear-3.0.1/collinear/man/validate_arg_responses.Rd | 26 collinear-3.0.1/collinear/man/vif.Rd | 25 collinear-3.0.1/collinear/man/vif_df.Rd | 20 collinear-3.0.1/collinear/man/vif_select.Rd | 12 collinear-3.0.1/collinear/man/vif_stats.Rd | 28 collinear-3.0.1/collinear/tests/testthat/test-case_weights.R | 2 collinear-3.0.1/collinear/tests/testthat/test-collinear.R | 15 collinear-3.0.1/collinear/tests/testthat/test-collinear_select.R | 10 collinear-3.0.1/collinear/tests/testthat/test-collinear_stats.R | 10 collinear-3.0.1/collinear/tests/testthat/test-cor_clusters.R | 6 collinear-3.0.1/collinear/tests/testthat/test-cor_cramer.R | 2 collinear-3.0.1/collinear/tests/testthat/test-cor_df.R | 8 collinear-3.0.1/collinear/tests/testthat/test-cor_matrix.R | 6 collinear-3.0.1/collinear/tests/testthat/test-cor_select.R | 10 collinear-3.0.1/collinear/tests/testthat/test-cor_stats.R | 10 collinear-3.0.1/collinear/tests/testthat/test-drop_geometry_column.R | 2 collinear-3.0.1/collinear/tests/testthat/test-f_auto.R | 15 collinear-3.0.1/collinear/tests/testthat/test-f_binomial_gam.R | 40 + collinear-3.0.1/collinear/tests/testthat/test-f_binomial_glm.R | 40 + collinear-3.0.1/collinear/tests/testthat/test-f_binomial_rf.R | 40 + collinear-3.0.1/collinear/tests/testthat/test-f_categorical_rf.R | 29 collinear-3.0.1/collinear/tests/testthat/test-f_count_gam.R | 33 collinear-3.0.1/collinear/tests/testthat/test-f_count_glm.R | 29 collinear-3.0.1/collinear/tests/testthat/test-f_count_rf.R | 29 collinear-3.0.1/collinear/tests/testthat/test-f_numeric_gam.R | 33 collinear-3.0.1/collinear/tests/testthat/test-f_numeric_glm.R | 29 collinear-3.0.1/collinear/tests/testthat/test-f_numeric_rf.R | 29 collinear-3.0.1/collinear/tests/testthat/test-identify_categorical_variables.R | 10 collinear-3.0.1/collinear/tests/testthat/test-identify_logical_variables.R | 6 collinear-3.0.1/collinear/tests/testthat/test-identify_numeric_variables.R | 10 collinear-3.0.1/collinear/tests/testthat/test-identify_response_type.R | 2 collinear-3.0.1/collinear/tests/testthat/test-identify_valid_variables.R | 10 collinear-3.0.1/collinear/tests/testthat/test-identify_zero_variance_variables.R | 12 collinear-3.0.1/collinear/tests/testthat/test-model_formula.R | 22 collinear-3.0.1/collinear/tests/testthat/test-preference_order.R | 45 + collinear-3.0.1/collinear/tests/testthat/test-print.collinear_output.R | 9 collinear-3.0.1/collinear/tests/testthat/test-print.collinear_selection.R | 9 collinear-3.0.1/collinear/tests/testthat/test-score_auc.R | 41 + collinear-3.0.1/collinear/tests/testthat/test-score_cramer.R | 2 collinear-3.0.1/collinear/tests/testthat/test-score_r2.R | 2 collinear-3.0.1/collinear/tests/testthat/test-step_collinear.R | 6 collinear-3.0.1/collinear/tests/testthat/test-summary.collinear_output.R | 9 collinear-3.0.1/collinear/tests/testthat/test-summary.collinear_selection.R | 9 collinear-3.0.1/collinear/tests/testthat/test-target_encoding_lab.R | 10 collinear-3.0.1/collinear/tests/testthat/test-target_encoding_loo.R | 2 collinear-3.0.1/collinear/tests/testthat/test-target_encoding_mean.R | 2 collinear-3.0.1/collinear/tests/testthat/test-target_encoding_rank.R | 2 collinear-3.0.1/collinear/tests/testthat/test-validate_arg_df.R | 10 collinear-3.0.1/collinear/tests/testthat/test-validate_arg_df_not_null.R | 2 collinear-3.0.1/collinear/tests/testthat/test-validate_arg_predictors.R | 15 collinear-3.0.1/collinear/tests/testthat/test-validate_arg_preference_order.R | 9 collinear-3.0.1/collinear/tests/testthat/test-validate_arg_responses.R | 2 collinear-3.0.1/collinear/tests/testthat/test-vif.R | 6 collinear-3.0.1/collinear/tests/testthat/test-vif_df.R | 2 collinear-3.0.1/collinear/tests/testthat/test-vif_select.R | 6 collinear-3.0.1/collinear/tests/testthat/test-vif_stats.R | 9 181 files changed, 1518 insertions(+), 1014 deletions(-)
Title: Bayes Factor Design for Two-Arm Binomial Trials
Description: Design and analysis of one- and two-stage two-arm binomial
clinical phase II trials using Bayes factors. Implements Bayes factors
for point-null and directional hypotheses, predictive densities under
different hypotheses, and power and sample size calibration.
Author: Riko Kelter [aut, cre]
Maintainer: Riko Kelter <rkelter@uni-koeln.de>
Diff between bfbin2arm versions 0.1.0 dated 2026-02-24 and 0.1.2 dated 2026-05-07
DESCRIPTION | 24 +- MD5 | 62 +++-- NAMESPACE | 18 + R/bayes_factors.R | 97 +++++--- R/bfbin2arm-package.R | 27 +- R/freq_oc_twoarm_fixed.R |only R/freq_oc_twoarm_helpers.R |only R/globals.R |only R/imports.R |only R/optimal_twostage_2arm.R |only R/plot.R |only R/power_calibration.R | 418 ++++++++++++++++++++++------------- R/predictive_densities.R | 4 build/vignette.rds |binary inst/doc/bfbin2arm-intro.R | 28 +- inst/doc/bfbin2arm-intro.Rmd | 30 +- inst/doc/bfbin2arm-intro.html | 96 +------- inst/doc/bfbin2arm-twostage.R |only inst/doc/bfbin2arm-twostage.Rmd |only inst/doc/bfbin2arm-twostage.html |only man/BFminus1.Rd | 8 man/BFplus1.Rd | 8 man/bfbin2arm.Rd |only man/compute_freq_twostage_oc_2arm.Rd |only man/freq_oc_twostage_twoarm_fixed.Rd |only man/freq_t1e_sup_fixed.Rd |only man/freq_t1e_twostage_twoarm_sup.Rd |only man/optimal_twostage_2arm_bf.Rd |only man/plot_twostage_2arm_bf.Rd |only man/postProbHminus.Rd | 8 man/postProbHplus.Rd | 11 man/powertwoarmbinbf01.Rd | 11 man/priorProbHminus.Rd | 6 man/priorProbHplus.Rd | 6 man/twoarmbinbf01.Rd | 6 man/twoarmbinbf_plus0_direct.Rd |only tests |only vignettes/bfbin2arm-intro.Rmd | 30 +- vignettes/bfbin2arm-twostage.Rmd |only vignettes/figures |only vignettes/references.bib |only 41 files changed, 531 insertions(+), 367 deletions(-)
Title: A Modular Platform for Reproducible Modeling of Species Niches
and Distributions
Description: The 'shiny' application Wallace is a modular platform for
reproducible modeling of species niches and distributions. Wallace
guides users through a complete analysis, from the acquisition of species
occurrence and environmental data to visualizing model predictions on an
interactive map, thus bundling complex workflows into a single,
streamlined interface. An extensive vignette, which guides users through
most package functionality can be found on the package's GitHub Pages
website: <https://wallaceecomod.github.io/wallace/articles/tutorial-v2.html>.
Author: Daniel F. Lopez-Lozano [aut],
Bethany A. Johnson [aut],
Jamie M. Kass [aut],
Gonzalo E. Pinilla-Buitrago [aut],
Andrea Paz [aut],
Valentina Grisales-Betancur [aut],
Dean Attali [aut],
Matthew E. Aiello-Lammens [aut],
Cory Merow [aut],
Mary E. Blair [ [...truncated...]
Maintainer: Mary E. Blair <mblair1@amnh.org>
This is a re-admission after prior archival of version 2.2.0 dated 2025-03-06
Diff between wallace versions 2.2.0 dated 2025-03-06 and 2.2.1 dated 2026-05-07
DESCRIPTION | 30 MD5 | 561 ++-- NAMESPACE | 113 NEWS.md | 457 ++- R/custom_modules.R | 218 - R/envs_ecoClimate.R | 832 +++---- R/envs_userEnvs.R | 176 - R/envs_worldclim.R | 236 +- R/espace_nicheOv.R | 240 +- R/espace_occDens.R | 298 +- R/espace_pca.R | 232 - R/helper_functions.R | 993 ++++---- R/model_bioclim.R | 184 - R/model_maxent.R | 481 ++-- R/occs_paleoDb.R | 294 +- R/occs_queryDb.R | 752 +++--- R/occs_userOccs.R | 360 +-- R/part_partitionOccs.R | 372 +-- R/penvs_bgExtent.R | 252 +- R/penvs_bgMask.R | 204 - R/penvs_bgSample.R | 198 - R/penvs_drawBgExtent.R | 206 - R/penvs_userBgExtent.R | 282 +- R/poccs_removeByID.R | 180 - R/poccs_selectOccs.R | 238 +- R/poccs_thinOccs.R | 210 - R/run_wallace.R | 98 R/utils_leaflet_draw.R |only R/vis_bioclimPlot.R | 218 - R/wallace-package.R | 92 R/xfer_area.R | 292 +- R/xfer_draw.R | 156 - R/xfer_mess.R | 204 - R/xfer_time.R | 298 +- R/xfer_userEnvs.R | 278 +- R/xfer_userExtent.R | 234 +- README.md | 108 inst/CITATION | 64 inst/extdata/Bassaricyon_alleni.csv | 72 inst/extdata/Bassaricyon_alleni_bgPoints.csv | 2002 ++++++++--------- inst/extdata/Bassaricyon_neblina.csv | 38 inst/extdata/Bassaricyon_neblina_bgPoints.csv | 2002 ++++++++--------- inst/extdata/Marmosops_sp.csv | 44 inst/htmlwidgets |only inst/module_skeleton/skeleton.R | 114 inst/module_skeleton/skeleton.Rmd | 18 inst/module_skeleton/skeleton.md | 26 inst/module_skeleton/skeleton.yml | 10 inst/shiny/Rmd/gtext_envs.Rmd | 56 inst/shiny/Rmd/gtext_espace.Rmd | 54 inst/shiny/Rmd/gtext_model.Rmd | 142 - inst/shiny/Rmd/gtext_occs.Rmd | 44 inst/shiny/Rmd/gtext_part.Rmd | 36 inst/shiny/Rmd/gtext_penvs.Rmd | 92 inst/shiny/Rmd/gtext_poccs.Rmd | 28 inst/shiny/Rmd/gtext_rep.Rmd | 58 inst/shiny/Rmd/gtext_vis.Rmd | 34 inst/shiny/Rmd/gtext_xfer.Rmd | 36 inst/shiny/Rmd/references.Rmd | 28 inst/shiny/Rmd/text_about.Rmd | 232 - inst/shiny/Rmd/text_how_to_use.Rmd | 112 inst/shiny/Rmd/text_intro_tab.Rmd | 120 - inst/shiny/Rmd/text_loadsesh.Rmd | 18 inst/shiny/Rmd/text_team.Rmd | 218 - inst/shiny/Rmd/userReport_intro.Rmd | 86 inst/shiny/Rmd/userReport_multSpecies.Rmd | 56 inst/shiny/Rmd/userReport_species.Rmd | 54 inst/shiny/global.R | 352 +-- inst/shiny/helpers.R | 292 +- inst/shiny/modules/envs_ecoclimate.R | 408 +-- inst/shiny/modules/envs_ecoclimate.Rmd | 48 inst/shiny/modules/envs_ecoclimate.md | 38 inst/shiny/modules/envs_ecoclimate.yml | 10 inst/shiny/modules/envs_userEnvs.R | 370 +-- inst/shiny/modules/envs_userEnvs.Rmd | 52 inst/shiny/modules/envs_userEnvs.md | 62 inst/shiny/modules/envs_userEnvs.yml | 10 inst/shiny/modules/envs_worldclim.R | 456 +-- inst/shiny/modules/envs_worldclim.Rmd | 48 inst/shiny/modules/envs_worldclim.md | 84 inst/shiny/modules/envs_worldclim.yml | 10 inst/shiny/modules/espace_nicheOv.R | 302 +- inst/shiny/modules/espace_nicheOv.Rmd | 62 inst/shiny/modules/espace_nicheOv.md | 62 inst/shiny/modules/espace_nicheOv.yml | 10 inst/shiny/modules/espace_occDens.R | 218 - inst/shiny/modules/espace_occDens.Rmd | 36 inst/shiny/modules/espace_occDens.md | 46 inst/shiny/modules/espace_occDens.yml | 10 inst/shiny/modules/espace_pca.R | 528 ++-- inst/shiny/modules/espace_pca.Rmd | 78 inst/shiny/modules/espace_pca.md | 66 inst/shiny/modules/espace_pca.yml | 10 inst/shiny/modules/model_bioclim.R | 240 +- inst/shiny/modules/model_bioclim.Rmd | 26 inst/shiny/modules/model_bioclim.md | 38 inst/shiny/modules/model_bioclim.yml | 10 inst/shiny/modules/model_maxent.R | 590 ++--- inst/shiny/modules/model_maxent.Rmd | 90 inst/shiny/modules/model_maxent.md | 138 - inst/shiny/modules/model_maxent.yml | 10 inst/shiny/modules/occs_paleoDb.R | 282 +- inst/shiny/modules/occs_paleoDb.Rmd | 26 inst/shiny/modules/occs_paleoDb.md | 34 inst/shiny/modules/occs_paleoDb.yml | 10 inst/shiny/modules/occs_queryDb.R | 396 +-- inst/shiny/modules/occs_queryDb.Rmd | 70 inst/shiny/modules/occs_queryDb.md | 60 inst/shiny/modules/occs_queryDb.yml | 10 inst/shiny/modules/occs_userOccs.R | 240 +- inst/shiny/modules/occs_userOccs.Rmd | 32 inst/shiny/modules/occs_userOccs.md | 20 inst/shiny/modules/occs_userOccs.yml | 10 inst/shiny/modules/part_nonSpat.R | 302 +- inst/shiny/modules/part_nonSpat.Rmd | 26 inst/shiny/modules/part_nonSpat.md | 38 inst/shiny/modules/part_nonSpat.yml | 10 inst/shiny/modules/part_spat.R | 322 +- inst/shiny/modules/part_spat.Rmd | 54 inst/shiny/modules/part_spat.md | 30 inst/shiny/modules/part_spat.yml | 10 inst/shiny/modules/penvs_bgExtent.R | 505 ++-- inst/shiny/modules/penvs_bgExtent.Rmd | 58 inst/shiny/modules/penvs_bgExtent.md | 70 inst/shiny/modules/penvs_bgExtent.yml | 10 inst/shiny/modules/penvs_drawBgExtent.R | 509 ++-- inst/shiny/modules/penvs_drawBgExtent.Rmd | 60 inst/shiny/modules/penvs_drawBgExtent.md | 44 inst/shiny/modules/penvs_drawBgExtent.yml | 10 inst/shiny/modules/penvs_userBgExtent.R | 533 ++-- inst/shiny/modules/penvs_userBgExtent.Rmd | 66 inst/shiny/modules/penvs_userBgExtent.md | 18 inst/shiny/modules/penvs_userBgExtent.yml | 10 inst/shiny/modules/poccs_removeByID.R | 223 - 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inst/shiny/modules/vis_bioclimPlot.Rmd | 30 inst/shiny/modules/vis_bioclimPlot.md | 34 inst/shiny/modules/vis_bioclimPlot.yml | 10 inst/shiny/modules/vis_mapPreds.R | 630 ++--- inst/shiny/modules/vis_mapPreds.Rmd | 520 ++-- inst/shiny/modules/vis_mapPreds.md | 54 inst/shiny/modules/vis_mapPreds.yml | 10 inst/shiny/modules/vis_maxentEvalPlot.R | 212 - inst/shiny/modules/vis_maxentEvalPlot.Rmd | 30 inst/shiny/modules/vis_maxentEvalPlot.md | 40 inst/shiny/modules/vis_maxentEvalPlot.yml | 10 inst/shiny/modules/vis_responsePlot.R | 212 - inst/shiny/modules/vis_responsePlot.Rmd | 68 inst/shiny/modules/vis_responsePlot.md | 36 inst/shiny/modules/vis_responsePlot.yml | 10 inst/shiny/modules/xfer_area.R | 893 +++---- inst/shiny/modules/xfer_area.Rmd | 468 ++-- inst/shiny/modules/xfer_area.md | 60 inst/shiny/modules/xfer_area.yml | 10 inst/shiny/modules/xfer_mess.R | 306 +- inst/shiny/modules/xfer_mess.Rmd | 96 inst/shiny/modules/xfer_mess.md | 54 inst/shiny/modules/xfer_mess.yml | 10 inst/shiny/modules/xfer_time.R | 1441 ++++++------ inst/shiny/modules/xfer_time.Rmd | 1606 +++++++------ inst/shiny/modules/xfer_time.md | 68 inst/shiny/modules/xfer_time.yml | 10 inst/shiny/modules/xfer_user.R | 952 ++++---- inst/shiny/modules/xfer_user.Rmd | 752 +++--- inst/shiny/modules/xfer_user.md | 48 inst/shiny/modules/xfer_user.yml | 10 inst/shiny/server.R | 3022 +++++++++++++------------- inst/shiny/ui.R | 1056 ++++----- inst/shiny/www/css/styles.css | 242 +- inst/shiny/www/js/shinyjs-funcs.js | 80 man/addDrawToolbar.Rd |only man/clearAll.Rd | 30 man/create_module.Rd | 60 man/ecoClimate_getdata.Rd | 74 man/ecoClimate_select.Rd | 58 man/ecospat.plot.nicheDEV.Rd | 58 man/editToolbarOptions.Rd |only man/envs_ecoClimate.Rd | 106 man/envs_userEnvs.Rd | 98 man/envs_worldclim.Rd | 112 man/espace_nicheOv.Rd | 188 - man/espace_occDens.Rd | 156 - man/espace_pca.Rd | 184 - man/fmtSpN.Rd | 30 man/getRasterVals.Rd | 34 man/hlSpp.Rd | 30 man/model_bioclim.Rd | 130 - man/model_maxent.Rd | 220 - man/mxNonzeroCoefs.Rd | 36 man/occs_queryDb.Rd | 150 - man/occs_userOccs.Rd | 98 man/part_partitionOccs.Rd | 180 - man/penvs_bgExtent.Rd | 114 man/penvs_bgMask.Rd | 134 - man/penvs_bgSample.Rd | 140 - man/penvs_drawBgExtent.Rd | 152 - man/penvs_userBgExtent.Rd | 152 - man/poccs_removeByID.Rd | 94 man/poccs_selectOccs.Rd | 118 - man/poccs_thinOccs.Rd | 104 man/polyZoom.Rd | 46 man/popUpContent.Rd | 30 man/predictMaxnet.Rd | 42 man/printVecAsis.Rd | 34 man/register_module.Rd | 38 man/remEnvsValsNA.Rd | 42 man/removeDrawToolbar.Rd |only man/reverseLabel.Rd | 34 man/run_wallace.Rd | 68 man/smartProgress.Rd | 44 man/spName.Rd | 32 man/spurious.Rd | 30 man/vis_bioclimPlot.Rd | 138 - man/wallace-package.Rd | 88 man/writeLog.Rd | 38 man/write_csv_robust.Rd | 34 man/xfer_area.Rd | 230 - man/xfer_draw.Rd | 118 - man/xfer_mess.Rd | 142 - man/xfer_time.Rd | 234 +- man/xfer_userEnvs.Rd | 212 - man/xfer_userExtent.Rd | 124 - man/zoom2Occs.Rd | 34 tests/README.txt | 2 tests/testthat.R | 10 tests/testthat/extdata/Marmosops_NA.csv | 44 tests/testthat/extdata/Marmosops_sp.csv | 44 tests/testthat/extdata/Marmosops_wrong.csv | 44 tests/testthat/extdata/Marmosops_wrongSP.csv | 42 tests/testthat/extdata/cerdocyon-thous-2.csv | 82 tests/testthat/test_envs_ecoClimate.R | 124 - tests/testthat/test_envs_userEnvs.R | 102 tests/testthat/test_envs_worldclim.R | 78 tests/testthat/test_espace_nicheOv.R | 126 - tests/testthat/test_espace_occDens.R | 140 - tests/testthat/test_espace_pca.R | 96 tests/testthat/test_model_bioclim.R | 164 - tests/testthat/test_model_maxent.R | 274 +- tests/testthat/test_occs_paleoDb.R | 208 - tests/testthat/test_occs_queryDb.R | 608 ++--- tests/testthat/test_occs_userOccs.R | 186 - tests/testthat/test_part_partitionOccs.R | 286 +- tests/testthat/test_penvs_bgExtent.R | 190 - tests/testthat/test_penvs_bgMask.R | 92 tests/testthat/test_penvs_bgSample.R | 113 tests/testthat/test_penvs_drawBgExtent.R | 136 - tests/testthat/test_penvs_userBgExtent.R | 140 - tests/testthat/test_poccs_removeByID.R | 84 tests/testthat/test_poccs_selectOccs.R | 132 - tests/testthat/test_poccs_thinOccs.R | 82 tests/testthat/test_vis_bioclimPlot.R | 90 tests/testthat/test_xfer_area.R | 106 tests/testthat/test_xfer_draw.R | 70 tests/testthat/test_xfer_mess.R | 64 tests/testthat/test_xfer_time.R | 110 tests/testthat/test_xfer_userEnvs.R | 106 tests/testthat/test_xfer_userExtent.R | 62 280 files changed, 24559 insertions(+), 24424 deletions(-)
Title: Load Configuration Values
Description: A simple approach to configuring R projects with different
parameter values. Configurations are specified using a reduced subset of base
R and parsed accordingly.
Author: Tim Taylor [aut, cre, cph]
Maintainer: Tim Taylor <tim.taylor@hiddenelephants.co.uk>
Diff between ronfig versions 0.0.9 dated 2026-03-16 and 0.0.10 dated 2026-05-07
DESCRIPTION | 8 ++--- MD5 | 10 +++---- NEWS.md | 7 +++++ R/load_config.R | 74 ++++++++++++++++++++++++++++------------------------- build/vignette.rds |binary man/load_config.Rd | 8 ++++- 6 files changed, 62 insertions(+), 45 deletions(-)
Title: Analise multivariada (brazilian portuguese)
Description: Analise multivariada, tendo funcoes que executam analise de correspondencia simples (CA) e multipla (MCA), analise de componentes principais (PCA), analise de correlacao canonica (CCA), analise fatorial (FA), escalonamento multidimensional (MDS), analise discriminante linear (LDA) e quadratica (QDA), analise de cluster hierarquico e nao hierarquico, regressao linear simples e multipla, analise de multiplos fatores (MFA) para dados quantitativos, qualitativos, de frequencia (MFACT) e dados mistos, biplot, scatter plot, projection pursuit (PP), grant tour e outras funcoes uteis para a analise multivariada.
Author: Paulo Cesar Ossani [aut, cre] ,
Marcelo Angelo Cirillo [aut]
Maintainer: Paulo Cesar Ossani <ossanipc@hotmail.com>
Diff between MVar.pt versions 2.2.8 dated 2026-04-13 and 2.2.9 dated 2026-05-07
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/PCA.R | 19 +++++++++++++------ man/MVar.pt-package.Rd | 4 ++-- man/PCA.Rd | 17 ++++++++++------- 5 files changed, 33 insertions(+), 23 deletions(-)
Title: Simplified Legend and Guide Alignment for 'ggplot2'
Description: Provides one-liner functions for common legend and guide operations
in 'ggplot2'. Simplifies legend positioning, styling, wrapping, and
collection across multi-panel plots created with 'patchwork' or 'cowplot'.
Author: Gilles Colling [aut, cre]
Maintainer: Gilles Colling <gilles.colling051@gmail.com>
Diff between ggguides versions 1.1.6 dated 2026-04-23 and 1.1.10 dated 2026-05-07
DESCRIPTION | 6 MD5 | 56 +- NAMESPACE | 3 NEWS.md | 40 + R/collect_axes.R | 158 +++---- R/legend_position.R | 119 +++-- R/legend_style.R | 421 +++++++++++++++++- README.md | 28 + build/vignette.rds |binary inst/doc/getting-started.html | 4 inst/doc/multiple-legends.R | 70 ++- inst/doc/multiple-legends.Rmd | 99 +++- inst/doc/multiple-legends.html | 199 +++++++- inst/doc/patchwork.html | 4 inst/doc/positioning.html | 4 inst/doc/styling.html | 4 inst/examples/generate_examples.R | 758 ++++++++++++++++++---------------- man/figures/six_legends.svg |only man/ggplotGrob.gg_per_legend_just.Rd |only man/legend_bottom.Rd | 20 man/legend_left.Rd | 43 + man/legend_right.Rd | 30 - man/legend_style.Rd | 9 man/legend_top.Rd | 18 man/print.gg_autofit_legend.Rd | 4 tests/testthat/Rplots.pdf |binary tests/testthat/test-legend_multi.R | 135 ++++++ tests/testthat/test-legend_order.R | 17 tests/testthat/test-legend_position.R | 54 ++ vignettes/multiple-legends.Rmd | 99 +++- 30 files changed, 1750 insertions(+), 652 deletions(-)
Title: Generic Implementation of a PK/PD Model
Description: A generic, easy-to-use and expandable implementation of a
pharmacokinetic (PK) / pharmacodynamic (PD) model based on the S4
class system. This package allows the user to read and write
pharmacometric models from and to files, including a JSON-based
interface to import Campsis models defined using a formal JSON schema
distributed with the package. Models can be adapted further on the fly
in the R environment using an intuitive API to add, modify or delete
equations, ordinary differential equations (ODEs), model parameters or
compartment properties (such as infusion duration or rate,
bioavailability and initial values). The package also provides export
facilities for use with the simulation packages 'rxode2' and
'mrgsolve'. The package itself is licensed under the GPL (>= 3); the
JSON schema file shipped in inst/extdata is licensed separately under
the Creative Commons Attribution 4.0 International (CC BY 4.0). This
package is designed and intended to be used with the package
'campsi [...truncated...]
Author: Nicolas Luyckx [aut, cre]
Maintainer: Nicolas Luyckx <nicolas.luyckx@calvagone.com>
Diff between campsismod versions 1.3.1 dated 2026-03-17 and 1.3.2 dated 2026-05-07
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 3 +++ data/model_suite.rda |binary 4 files changed, 9 insertions(+), 6 deletions(-)
Title: Quantitative Chronology in Archaeology
Description: Simple radiocarbon calibration and chronological analysis.
This package allows the calibration of radiocarbon ages and modern
carbon fraction values using multiple calibration curves. It allows
the calculation of highest density region intervals and credible
intervals. The package also provides tools for visualising results and
estimating statistical summaries.
Author: Nicolas Frerebeau [aut, cre] ,
Universite Bordeaux Montaigne [fnd] ,
CNRS [fnd]
Maintainer: Nicolas Frerebeau <nicolas.frerebeau@u-bordeaux-montaigne.fr>
Diff between ananke versions 0.1.0 dated 2025-04-18 and 0.2.0 dated 2026-05-07
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Title: Robust Bayesian Meta-Analyses
Description: A framework for Bayesian meta-analysis, including model estimation,
prior specification, model comparison, prediction, summaries, visualizations,
and diagnostics. The package fits single and model-averaged meta-analytic,
meta-regression, multilevel, publication bias adjusted, and generalized linear
mixed models The model-averaged meta-analytic models combine competing models
based on their predictive performance, weight inference by posterior model probabilities,
and test model components using Bayes factors (e.g., effect vs. no effect;
Bartoš et al., 2022, <doi:10.1002/jrsm.1594>; Maier, Bartoš & Wagenmakers, 2022,
<doi:10.1037/met0000405>; Bartoš et al., 2025, <doi:10.1037/met0000737>).
Users can specify flexible prior distributions for effect sizes, heterogeneity,
publication bias (including selection models and PET-PEESE), and moderators.
Author: Frantisek Bartos [aut, cre] ,
Maximilian Maier [aut] ,
Eric-Jan Wagenmakers [ths] ,
Joris Goosen [ctb],
Matthew Denwood [cph] ,
Martyn Plummer [cph]
Maintainer: Frantisek Bartos <f.bartos96@gmail.com>
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RoBMA-4.0.0/RoBMA/tests/testthat/test-02-vif.R |only RoBMA-4.0.0/RoBMA/tests/testthat/test-03-bridgesampling.R |only RoBMA-4.0.0/RoBMA/tests/testthat/test-03-loo.R |only RoBMA-4.0.0/RoBMA/tests/testthat/test-03-zplot.R |only RoBMA-4.0.0/RoBMA/tests/testthat/test-cran-smoke.R |only RoBMA-4.0.0/RoBMA/vignettes/_v00-introduction-body.md |only RoBMA-4.0.0/RoBMA/vignettes/_vignette-nowrap.md |only RoBMA-4.0.0/RoBMA/vignettes/v00-introduction.Rmd |only RoBMA-4.0.0/RoBMA/vignettes/v01-prior-distributions.Rmd |only RoBMA-4.0.0/RoBMA/vignettes/v02-bayesian-meta-analysis.Rmd |only RoBMA-4.0.0/RoBMA/vignettes/v03-feature-coverage.Rmd |only RoBMA-4.0.0/RoBMA/vignettes/v10-metafor-parity-multilevel.Rmd |only RoBMA-4.0.0/RoBMA/vignettes/v11-metafor-parity-publication-bias.Rmd |only RoBMA-4.0.0/RoBMA/vignettes/v12-metafor-parity-location-scale.Rmd |only RoBMA-4.0.0/RoBMA/vignettes/v13-metafor-parity-glmm.Rmd |only RoBMA-4.0.0/RoBMA/vignettes/v20-bayesian-model-averaging.Rmd |only RoBMA-4.0.0/RoBMA/vignettes/v21-robust-bayesian-meta-analysis.Rmd |only RoBMA-4.0.0/RoBMA/vignettes/v30-tutorial.Rmd |only RoBMA-4.0.0/RoBMA/vignettes/v31-robma-metaregression.Rmd |only RoBMA-4.0.0/RoBMA/vignettes/v32-robma-multilevel.Rmd |only RoBMA-4.0.0/RoBMA/vignettes/v33-robma-multilevel-metaregression.Rmd |only RoBMA-4.0.0/RoBMA/vignettes/v34-bma-norm-medicine.Rmd |only RoBMA-4.0.0/RoBMA/vignettes/v35-bma-glmm-medicine.Rmd |only RoBMA-4.0.0/RoBMA/vignettes/v36-zplot.Rmd |only RoBMA-4.0.0/RoBMA/vignettes/vignette-cache.R |only 481 files changed, 6145 insertions(+), 6241 deletions(-)
Title: Create Validation Tests for Automated Content Analysis
Description: Intended to create standard human-in-the-loop validity tests for typical automated content analysis such as topic modeling and dictionary-based methods. This package offers a standard workflow with functions to prepare, administer and evaluate a human-in-the-loop validity test. This package provides functions for validating topic models using word intrusion, topic intrusion (Chang et al. 2009, <https://papers.nips.cc/paper/3700-reading-tea-leaves-how-humans-interpret-topic-models>) and word set intrusion (Ying et al. 2021) <doi:10.1017/pan.2021.33> tests. This package also provides functions for generating gold-standard data which are useful for validating dictionary-based methods. The default settings of all generated tests match those suggested in Chang et al. (2009) and Song et al. (2020) <doi:10.1080/10584609.2020.1723752>.
Author: Chung-hong Chan [aut, cre] ,
Marius Saeltzer [aut]
Maintainer: Chung-hong Chan <chainsawtiney@gmail.com>
Diff between oolong versions 0.6.1 dated 2024-04-15 and 0.7.0 dated 2026-05-07
DESCRIPTION | 17 ++++++++------- MD5 | 36 ++++++++++++++++---------------- NEWS.md | 9 ++++++++ R/oolong_data_misc.R | 4 +++ R/oolong_summary.R | 16 +++++++------- R/oolong_summary_gs.R | 4 +-- R/oolong_summary_tm.R | 10 ++++----- R/oolong_tm.R | 6 ++--- R/oolong_topicmodels.R | 2 - build/vignette.rds |binary inst/doc/btm.R | 4 +++ inst/doc/btm.html | 2 - inst/doc/deploy.R | 4 +-- inst/doc/deploy.Rmd | 4 +-- inst/doc/deploy.html | 4 +-- inst/doc/overview.R | 42 +++++++++++++++++++------------------- inst/doc/overview.html | 33 +++++++++++++---------------- tests/testthat/_snaps/printing.md | 2 - vignettes/deploy.Rmd | 4 +-- 19 files changed, 109 insertions(+), 94 deletions(-)
Title: Multivariate Analysis
Description: Multivariate analysis, having functions that perform simple correspondence analysis (CA) and multiple correspondence analysis (MCA), principal components analysis (PCA), canonical correlation analysis (CCA), factorial analysis (FA), multidimensional scaling (MDS), linear (LDA) and quadratic discriminant analysis (QDA), hierarchical and non-hierarchical cluster analysis, simple and multiple linear regression, multiple factor analysis (MFA) for quantitative, qualitative, frequency (MFACT) and mixed data, biplot, scatter plot, projection pursuit (PP), grant tour method and other useful functions for the multivariate analysis.
Author: Paulo Cesar Ossani [aut, cre] ,
Marcelo Angelo Cirillo [aut]
Maintainer: Paulo Cesar Ossani <ossanipc@hotmail.com>
Diff between MVar versions 2.2.8 dated 2026-04-13 and 2.2.9 dated 2026-05-07
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/PCA_English.R | 15 +++++++++++---- man/MVar-package.Rd | 4 ++-- man/PCA_English.Rd | 5 ++++- 5 files changed, 25 insertions(+), 15 deletions(-)
Title: Omics Data Analysis
Description: Similarity plots based on correlation and median absolute deviation (MAD); adjusting colors for heatmaps; aggregate technical replicates; calculate pairwise fold-changes and log fold-changes; compute one- and two-way ANOVA; simplified interface to package 'limma' (Ritchie et al. (2015), <doi:10.1093/nar/gkv007> ) for moderated t-test and one-way ANOVA; Hamming and Levenshtein (edit) distance of strings as well as optimal alignment scores for global (Needleman-Wunsch) and local (Smith-Waterman) alignments with constant gap penalties (Merkl and Waack (2009), ISBN:978-3-527-32594-8).
Author: Matthias Kohl [aut, cre]
Maintainer: Matthias Kohl <Matthias.Kohl@stamats.de>
Diff between MKomics versions 0.7 dated 2021-08-08 and 0.8 dated 2026-05-07
DESCRIPTION | 13 MD5 | 22 - NAMESPACE | 2 NEWS | 15 R/corPlot2.R | 6 R/mod.oneway.test.R | 4 R/mod.t.test.R | 13 build/vignette.rds |binary inst/doc/MKomics.R | 18 - inst/doc/MKomics.html | 768 ++++++++++++++++++++++++++++-------------------- man/0MKomics-package.Rd | 6 man/corPlot.Rd | 8 12 files changed, 519 insertions(+), 356 deletions(-)
Title: Generation and Analysis of 3-Level and 5-Level Factorial Block
Designs
Description: Provides tools to generate and analyze 3-level and 5-level
linear factorial block designs, including complete factorial layouts,
fractional factorial layouts, confounded factorial layouts, and
design-characteristic summaries. The package includes utilities for
recursive construction, defining-contrast identification, alias and
confounding summaries, incidence matrix construction, and selected
design-characteristic diagnostics. The methodological framework follows
foundational work on factorial block designs, including Gupta (1983)
<doi:10.1111/j.2517-6161.1983.tb01253.x>.
Author: Vankudoth Kumar [aut],
Sukanta Dash [aut, cre],
Med Ram Verma [aut]
Maintainer: Sukanta Dash <sukanta.iasri@gmail.com>
Diff between lfebd3 versions 0.1.0 dated 2026-04-24 and 0.2.0 dated 2026-05-07
lfebd3-0.1.0/lfebd3/R/lfebd3.R |only lfebd3-0.1.0/lfebd3/man/lfbd.Rd |only lfebd3-0.1.0/lfebd3/man/lfbd.cf.Rd |only lfebd3-0.1.0/lfebd3/man/lfbd.cf.full.Rd |only lfebd3-0.1.0/lfebd3/man/lfbd.fr.Rd |only lfebd3-0.1.0/lfebd3/man/lfbd_analyze.Rd |only lfebd3-0.1.0/lfebd3/tests |only lfebd3-0.2.0/lfebd3/DESCRIPTION | 37 +-- lfebd3-0.2.0/lfebd3/MD5 | 103 ++++++---- lfebd3-0.2.0/lfebd3/NAMESPACE | 22 +- lfebd3-0.2.0/lfebd3/NEWS.md |only lfebd3-0.2.0/lfebd3/R/lfebd.R |only lfebd3-0.2.0/lfebd3/man/FactChar.Rd | 17 + lfebd3-0.2.0/lfebd3/man/FactChar_fast.Rd |only lfebd3-0.2.0/lfebd3/man/as_blocks_from_cf_full.Rd | 4 lfebd3-0.2.0/lfebd3/man/as_blocks_from_runs.Rd | 2 lfebd3-0.2.0/lfebd3/man/build_block_matrix.Rd | 8 lfebd3-0.2.0/lfebd3/man/build_effect_matrix.Rd | 8 lfebd3-0.2.0/lfebd3/man/build_triplet.Rd | 12 - lfebd3-0.2.0/lfebd3/man/canonical_effect.Rd | 6 lfebd3-0.2.0/lfebd3/man/convert_to_blocks.Rd | 10 lfebd3-0.2.0/lfebd3/man/defining_subgroup.Rd | 4 lfebd3-0.2.0/lfebd3/man/direct_aliases_from_dc.Rd | 6 lfebd3-0.2.0/lfebd3/man/effect_aliases_low_order.Rd | 4 lfebd3-0.2.0/lfebd3/man/effect_label.Rd | 6 lfebd3-0.2.0/lfebd3/man/effect_order.Rd | 4 lfebd3-0.2.0/lfebd3/man/find_defining_contrasts.Rd | 10 lfebd3-0.2.0/lfebd3/man/fractional_confounding_summary.Rd | 6 lfebd3-0.2.0/lfebd3/man/fractional_factorial_5n.Rd |only lfebd3-0.2.0/lfebd3/man/full_factorial_5n.Rd |only lfebd3-0.2.0/lfebd3/man/generate_Tn_full.Rd | 33 +-- lfebd3-0.2.0/lfebd3/man/generate_effect_catalog.Rd | 6 lfebd3-0.2.0/lfebd3/man/get_Tn_square.Rd | 12 - lfebd3-0.2.0/lfebd3/man/is_independent_mod3.Rd | 8 lfebd3-0.2.0/lfebd3/man/lfebd3-package.Rd | 9 lfebd3-0.2.0/lfebd3/man/lfebd3.Rd |only lfebd3-0.2.0/lfebd3/man/lfebd3.cf.Rd |only lfebd3-0.2.0/lfebd3/man/lfebd3.cf.full.Rd |only lfebd3-0.2.0/lfebd3/man/lfebd3.fr.Rd |only lfebd3-0.2.0/lfebd3/man/lfebd3_analyze.Rd |only lfebd3-0.2.0/lfebd3/man/lfebd5.Rd |only lfebd3-0.2.0/lfebd3/man/lfebd5.cf.Rd |only lfebd3-0.2.0/lfebd3/man/lfebd5.cf_independent_confounding.Rd |only lfebd3-0.2.0/lfebd3/man/lfebd5.fr.Rd |only lfebd3-0.2.0/lfebd3/man/lfebd5_all_confounded_effects_from_design.Rd |only lfebd3-0.2.0/lfebd3/man/lfebd5_all_defining_factors_from_design.Rd |only lfebd3-0.2.0/lfebd3/man/lfebd5_analyze.Rd |only lfebd3-0.2.0/lfebd3/man/lfebd5_defining_factors_from_design.Rd |only lfebd3-0.2.0/lfebd3/man/lfebd5_effect_order.Rd |only lfebd3-0.2.0/lfebd3/man/lfebd5_effect_word.Rd |only lfebd3-0.2.0/lfebd3/man/lfebd5_generate_Tn.Rd |only lfebd3-0.2.0/lfebd3/man/lfebd5_independent_effects_from_design.Rd |only lfebd3-0.2.0/lfebd3/man/lfebd5_main_effect_aliases_from_design.Rd |only lfebd3-0.2.0/lfebd3/man/lfebd5_make_selection_matrix.Rd |only lfebd3-0.2.0/lfebd3/man/lfebd5_make_selection_matrix_cf_stage.Rd |only lfebd3-0.2.0/lfebd3/man/lfebd5_make_selection_matrix_fr_stage_general.Rd |only lfebd3-0.2.0/lfebd3/man/lfebd5_make_selection_matrix_stage.Rd |only lfebd3-0.2.0/lfebd3/man/lfebd5_mod_inv.Rd |only lfebd3-0.2.0/lfebd3/man/lfebd5_modp.Rd |only lfebd3-0.2.0/lfebd3/man/lfebd5_normalize_effect.Rd |only lfebd3-0.2.0/lfebd3/man/lfebd5_nullspace_modp.Rd |only lfebd3-0.2.0/lfebd3/man/lfebd5_rref_modp.Rd |only lfebd3-0.2.0/lfebd3/man/lfebd5_to_run_table.Rd |only lfebd3-0.2.0/lfebd3/man/lfebd_print_limited.Rd |only lfebd3-0.2.0/lfebd3/man/low_order_aliases_from_subgroup.Rd | 6 lfebd3-0.2.0/lfebd3/man/print.lfebd3_analysis.Rd | 18 + lfebd3-0.2.0/lfebd3/man/print.lfebd3_analyze_result.Rd |only lfebd3-0.2.0/lfebd3/man/print.lfebd3_fr.Rd |only lfebd3-0.2.0/lfebd3/man/print.lfebd5_analyze_result.Rd |only lfebd3-0.2.0/lfebd3/man/print.lfebd5_cf_design.Rd |only lfebd3-0.2.0/lfebd3/man/print.lfebd5_fr_design.Rd |only lfebd3-0.2.0/lfebd3/man/print_generated_design.Rd | 4 lfebd3-0.2.0/lfebd3/man/rank_mod3.Rd | 6 lfebd3-0.2.0/lfebd3/man/reduce_once.Rd | 12 - lfebd3-0.2.0/lfebd3/man/reduce_repeated.Rd | 10 75 files changed, 232 insertions(+), 161 deletions(-)
Title: Models for Correlation Matrices Based on Graphs
Description: Implement some models for
correlation/covariance matrices including two approaches
to model correlation matrices from a graphical structure.
One use latent parent variables as proposed in
Sterrantino et. al. (2024) <doi:10.1007/s10260-025-00788-y>.
The other uses a graph to specify conditional
relations between the variables.
The graphical structure makes correlation matrices
interpretable and avoids the quadratic increase of
parameters as a function of the dimension.
In the first approach a natural sequence of simpler
models along with a complexity penalization is used.
The second penalizes deviations from a base model.
These can be used as prior for model parameters,
considering C code through the 'cgeneric' interface
for the 'INLA' package (<https://www.r-inla.org>).
This allows one to use these models as building
blocks combined and to other latent Gaussian models
in order to build complex data models.
Author: Elias Teixeira Krainski [cre, aut, cph] ,
Denis Rustand [aut, cph] ,
Anna Freni-Sterrantino [aut, cph] ,
Janet van Niekerk [aut, cph] ,
Haavard Rue’ [aut]
Maintainer: Elias Teixeira Krainski <elias.krainski@kaust.edu.sa>
This is a re-admission after prior archival of version 0.1.24 dated 2026-03-23
Diff between graphpcor versions 0.1.24 dated 2026-03-23 and 0.1.25 dated 2026-05-07
DESCRIPTION | 19 ++++++------ MD5 | 71 +++++++++++++++++++++++----------------------- NAMESPACE | 11 ++++--- R/Laplacian.R | 1 R/aaa.R | 13 +++++--- R/basecor.R | 9 ----- R/basecor_utils.R | 24 ++++++++++++++- R/cgeneric_LKJ.R | 33 +++++++++++++-------- R/cgeneric_Wishart.R | 12 +++---- R/cgeneric_graphpcor.R | 65 ++++++++++++++++++++++-------------------- R/cgeneric_pc_correl.R | 49 +++++++++++++++++-------------- R/cgeneric_treepcor.R | 10 +++--- R/edges.R | 3 - R/graphpcor.R | 22 +++++--------- R/numeric_utils.R | 4 -- R/param_utils.R | 2 - R/stan.R | 1 R/treepcor.R | 23 ++++++++------ R/zzz.R |only build/partial.rdb |binary build/vignette.rds |binary demo/LKJ.R | 8 ++--- demo/graphpcor.R | 2 - demo/minimal.R | 17 +++++------ demo/treepcor.R | 20 ++++++------ inst/doc/treepcor.R | 19 +++++------- inst/doc/treepcor.Rmd | 20 +++++------- inst/doc/treepcor.html | 44 ++++++++++++++++++---------- man/basecor-utils.Rd | 11 +++++++ man/cgeneric_LKJ.Rd | 4 +- man/cgeneric_Wishart.Rd | 4 +- man/cgeneric_graphpcor.Rd | 4 +- man/cgeneric_pc_correl.Rd | 4 +- man/cgeneric_treepcor.Rd | 6 +-- man/graphpcor.Rd | 8 ++--- man/treepcor.Rd | 36 ++++++++++++----------- vignettes/treepcor.Rmd | 20 +++++------- 37 files changed, 328 insertions(+), 271 deletions(-)
Title: Robust Bayesian Survival Analysis
Description: A framework for estimating ensembles of parametric survival models
with different parametric families. The RoBSA framework uses Bayesian
model-averaging to combine the competing parametric survival models into
a model ensemble, weights the posterior parameter distributions based on
posterior model probabilities and uses Bayes factors to test for the
presence or absence of the individual predictors or preference for a
parametric family (Bartoš, Aust & Haaf, 2022, <doi:10.1186/s12874-022-01676-9>).
The user can define a wide range of informative priors for all parameters
of interest. The package provides convenient functions for summary, visualizations,
fit diagnostics, and prior distribution calibration.
Author: Frantisek Bartos [aut, cre] ,
Julia M. Haaf [ths] ,
Matthew Denwood [cph] ,
Martyn Plummer [cph]
Maintainer: Frantisek Bartos <f.bartos96@gmail.com>
Diff between RoBSA versions 1.0.3 dated 2025-03-24 and 1.0.4 dated 2026-05-07
RoBSA-1.0.3/RoBSA/man/contr.meandif.Rd |only RoBSA-1.0.3/RoBSA/man/contr.orthonormal.Rd |only RoBSA-1.0.4/RoBSA/DESCRIPTION | 15 +- RoBSA-1.0.4/RoBSA/MD5 | 25 +-- RoBSA-1.0.4/RoBSA/NAMESPACE | 1 RoBSA-1.0.4/RoBSA/NEWS.md | 16 +- RoBSA-1.0.4/RoBSA/R/check-input-and-settings.R | 160 ++++++++++++++++--------- RoBSA-1.0.4/RoBSA/R/fit-and-marglik.R | 11 - RoBSA-1.0.4/RoBSA/R/plot.R | 68 +++++++--- RoBSA-1.0.4/RoBSA/R/priors.R | 75 ++++++----- RoBSA-1.0.4/RoBSA/R/utilities.R | 5 RoBSA-1.0.4/RoBSA/build/partial.rdb |binary RoBSA-1.0.4/RoBSA/man/RoBSA_control.Rd | 15 ++ RoBSA-1.0.4/RoBSA/man/contr.BayesTools.Rd |only RoBSA-1.0.4/RoBSA/tests/testthat/test-0-CRAN.R | 26 ++-- 15 files changed, 265 insertions(+), 152 deletions(-)
Title: Access and Search MedRxiv and BioRxiv Preprint Data
Description: An increasingly important source of health-related bibliographic
content are preprints - preliminary versions of research articles that have
yet to undergo peer review. The two preprint repositories most relevant to
health-related sciences are medRxiv <https://www.medrxiv.org/> and
bioRxiv, both of which are operated by the Cold
Spring Harbor Laboratory. 'medrxivr' provides programmatic access to the
'Cold Spring Harbour Laboratory (CSHL)' API <https://api.biorxiv.org/>,
allowing users to easily download medRxiv and bioRxiv preprint metadata
(e.g. title, abstract, publication date, author list, etc) into R.
'medrxivr' also provides functions to search the downloaded preprint records
using regular expressions and Boolean logic, as well as helper functions
that allow users to export their search results to a .BIB file for easy
import to a reference manager and to download the full-text PDFs of
preprints matching their search criteria.
Author: Yaoxiang Li [aut, cre] ,
Luke McGuinness [aut],
Lena Schmidt [aut],
Tuija Sonkkila [rev],
Najko Jahn [rev]
Maintainer: Yaoxiang Li <liyaoxiang@outlook.com>
This is a re-admission after prior archival of version 0.1.1 dated 2024-10-04
Diff between medrxivr versions 0.1.1 dated 2024-10-04 and 0.1.3 dated 2026-05-07
DESCRIPTION | 11 + MD5 | 77 ++++++------- NAMESPACE | 1 NEWS.md | 30 +++-- R/helpers.R | 112 +++++++++++++------ R/mx_api.R | 76 +++++++----- R/mx_crosscheck.R | 57 ++++----- R/mx_download.R | 14 +- R/mx_export.R | 6 - R/mx_info.R | 45 ++++--- R/mx_search.R | 173 +++++++++++++++-------------- R/mx_snapshot.R | 223 ++++++++++++++++++++++++++++++++------ R/mx_syntax.R | 9 - README.md | 78 ++++++------- build/vignette.rds |binary inst/WORDLIST | 2 inst/doc/medrxivr.R | 60 +++++----- inst/doc/medrxivr.Rmd | 24 ++-- inst/doc/medrxivr.html | 39 +++--- man/api_page_size.Rd |only man/api_record_count.Rd |only man/figures/hex-medrxivr-wide.png |binary man/figures/logo.png |binary man/inform_snapshot_date.Rd |only man/mx_api_content.Rd | 5 man/mx_api_doi.Rd | 5 man/mx_caps.Rd | 9 - man/mx_crosscheck.Rd | 4 man/mx_download.Rd | 6 - man/mx_export.Rd | 6 - man/mx_info.Rd | 11 + man/mx_search.Rd | 6 - man/mx_snapshot.Rd | 45 ++++--- tests/testthat/helper-fixtures.R |only tests/testthat/test-api.R | 208 ++++++++++++++++++++++++++--------- tests/testthat/test-crosscheck.R | 31 ++++- tests/testthat/test-download.R | 80 +++++-------- tests/testthat/test-export.R | 37 ++---- tests/testthat/test-info.R | 40 ++++++ tests/testthat/test-search.R | 205 +++++++++++++--------------------- tests/testthat/test-snapshot.R |only vignettes/medrxivr.Rmd | 24 ++-- 42 files changed, 1049 insertions(+), 710 deletions(-)
Title: Iota Inter Coder Reliability for Content Analysis
Description: Routines and tools for assessing the quality of content
analysis on the basis of the Iota Reliability Concept. The concept is
inspired by item response theory and can be applied to any kind of
content analysis which uses a standardized coding scheme and discrete
categories. It is also applicable for content analysis conducted by
artificial intelligence. The package provides reliability measures
for a complete scale as well as for every single category. Analysis of
subgroup-invariance and error corrections are implemented. This
information can support the development process of a coding scheme and
allows a detailed inspection of the quality of the generated data.
Equations and formulas working in this package are part of Berding et
al. (2022)<doi:10.3389/feduc.2022.818365> and Berding and Pargmann
(2022) <doi:10.30819/5581>.
Author: Berding Florian [aut, cre] ,
Pargmann Julia [ctb]
Maintainer: Berding Florian <florian.berding@uni-hamburg.de>
Diff between iotarelr versions 0.1.8 dated 2026-04-21 and 0.1.9 dated 2026-05-07
DESCRIPTION | 6 - MD5 | 20 ++-- NEWS.md | 4 R/additional_functions.R | 2 README.md | 2 inst/doc/Old_01_How_to_use_Iota1.html | 4 inst/doc/V_02_Estimating_Consequences_for_Subsequent_Analyses.html | 4 inst/doc/V_03_Different_Guidance_Functioning.html | 42 +++++----- inst/doc/V_04_Error_Correction.html | 16 +-- inst/doc/V_05_Test_New_Raters.html | 4 inst/doc/iotarelr.html | 20 ++-- 11 files changed, 64 insertions(+), 60 deletions(-)
Title: Isolate-Detect Method for Multiple Change-Point Detection
Description: The IDetect provides efficient implementation of the ID methodology
for the consistent estimation of the number and location of multiple
change-points in one-dimensional data sequences from the `deterministic
+ noise' model. Currently implemented scenarios are: piecewise-constant signal,
piecewise-constant signal with a heavy-tailed noise, continuous piecewise-linear
signal, continuous piecewise-linear signal with a heavy-tailed noise.
Author: Andreas Anastasiou [aut, cre],
Piotr Fryzlewicz [aut]
Maintainer: Andreas Anastasiou <anastasiou.andreas@ucy.ac.cy>
Diff between IDetect versions 0.1.0 dated 2018-03-09 and 0.1.1 dated 2026-05-07
IDetect-0.1.0/IDetect/man/ID_cplm.Rd |only IDetect-0.1.0/IDetect/man/IDetect.Rd |only IDetect-0.1.0/IDetect/man/cplm_ic.Rd |only IDetect-0.1.0/IDetect/man/cplm_th.Rd |only IDetect-0.1.0/IDetect/man/ht_ID_cplm.Rd |only IDetect-0.1.0/IDetect/man/pcm_ic.Rd |only IDetect-0.1.0/IDetect/man/resid_ID.Rd |only IDetect-0.1.0/IDetect/man/sol_path_cplm.Rd |only IDetect-0.1.0/IDetect/man/win_cplm_th.Rd |only IDetect-0.1.0/IDetect/man/win_pcm_th.Rd |only IDetect-0.1.0/IDetect/tests/testthat/test-ID_cplm.R |only IDetect-0.1.0/IDetect/tests/testthat/test-cplm_ic.R |only IDetect-0.1.0/IDetect/tests/testthat/test-cplm_th.R |only IDetect-0.1.0/IDetect/tests/testthat/test-ht_ID_cplm.R |only IDetect-0.1.0/IDetect/tests/testthat/test-pcm_ic.R |only IDetect-0.1.0/IDetect/tests/testthat/test-resid_ID.R |only IDetect-0.1.0/IDetect/tests/testthat/test-sol_path_cplm.R |only IDetect-0.1.0/IDetect/tests/testthat/test-win_cplm_th.R |only IDetect-0.1.0/IDetect/tests/testthat/test-win_pcm_th.R |only IDetect-0.1.1/IDetect/DESCRIPTION | 34 IDetect-0.1.1/IDetect/MD5 | 80 - IDetect-0.1.1/IDetect/NAMESPACE | 18 IDetect-0.1.1/IDetect/NEWS.md |only IDetect-0.1.1/IDetect/R/Finalised_coding.R | 1079 +++++++------- IDetect-0.1.1/IDetect/R/package-IDetect.R | 19 IDetect-0.1.1/IDetect/inst/CITATION | 11 IDetect-0.1.1/IDetect/man/ID.Rd | 123 - IDetect-0.1.1/IDetect/man/ID_pcm.Rd | 58 IDetect-0.1.1/IDetect/man/ID_plm.Rd |only IDetect-0.1.1/IDetect/man/IDetect-package.Rd |only IDetect-0.1.1/IDetect/man/cpt_ic_pcm.Rd |only IDetect-0.1.1/IDetect/man/cpt_ic_plm.Rd |only IDetect-0.1.1/IDetect/man/cumsum_lin.Rd |only IDetect-0.1.1/IDetect/man/cusum_function.Rd |only IDetect-0.1.1/IDetect/man/cusum_one.Rd |only IDetect-0.1.1/IDetect/man/est_signal.Rd | 29 IDetect-0.1.1/IDetect/man/ht_ID_pcm.Rd | 75 IDetect-0.1.1/IDetect/man/ht_ID_plm.Rd |only IDetect-0.1.1/IDetect/man/linear_contr_one.Rd |only IDetect-0.1.1/IDetect/man/log_lik_slope.Rd |only IDetect-0.1.1/IDetect/man/normalise.Rd | 10 IDetect-0.1.1/IDetect/man/pcm_th.Rd | 58 IDetect-0.1.1/IDetect/man/plm_th.Rd |only IDetect-0.1.1/IDetect/man/resid.Rd |only IDetect-0.1.1/IDetect/man/s_e_points.Rd | 13 IDetect-0.1.1/IDetect/man/sic_pen.Rd |only IDetect-0.1.1/IDetect/man/sol_path_pcm.Rd | 27 IDetect-0.1.1/IDetect/man/sol_path_plm.Rd |only IDetect-0.1.1/IDetect/man/ssic_pen.Rd |only IDetect-0.1.1/IDetect/man/wind_pcm_th.Rd |only IDetect-0.1.1/IDetect/man/wind_plm_th.Rd |only IDetect-0.1.1/IDetect/tests/testthat/test-ID.R | 10 IDetect-0.1.1/IDetect/tests/testthat/test-ID_plm.R |only IDetect-0.1.1/IDetect/tests/testthat/test-cpt_ic_pcm.R |only IDetect-0.1.1/IDetect/tests/testthat/test-cpt_ic_plm.R |only IDetect-0.1.1/IDetect/tests/testthat/test-cusum_one.R | 2 IDetect-0.1.1/IDetect/tests/testthat/test-ht_ID_plm.R |only IDetect-0.1.1/IDetect/tests/testthat/test-plm_th.R |only IDetect-0.1.1/IDetect/tests/testthat/test-resid.R |only IDetect-0.1.1/IDetect/tests/testthat/test-s_e_points.R | 8 IDetect-0.1.1/IDetect/tests/testthat/test-sol_path_pcm.R | 20 IDetect-0.1.1/IDetect/tests/testthat/test-sol_path_plm.R |only IDetect-0.1.1/IDetect/tests/testthat/test-wind_pcm_th.R |only IDetect-0.1.1/IDetect/tests/testthat/test-wind_plm_th.R |only 64 files changed, 901 insertions(+), 773 deletions(-)
Title: Sensitivities of Prices of Financial Options and Implied
Volatilities
Description: Methods to calculate sensitivities of financial option prices for
European, geometric and arithmetic Asian, and American options, with various
payoff functions in the Black Scholes model, and in more general jump diffusion
models. A shiny app to interactively plot the results is included. Furthermore,
methods to compute implied volatilities are provided for a wide range of option
types and custom payoff functions. Classical formulas are implemented for
European options in the Black Scholes Model, as is presented in Hull, J. C.
(2017), Options, Futures, and Other Derivatives.
In the case of Asian options, Malliavin Monte Carlo Greeks are implemented, see
Hudde, A. & Rüschendorf, L. (2023). European and Asian Greeks for exponential
Lévy processes. <doi:10.1007/s11009-023-10014-5>. For American
options, the Binomial Tree Method is implemented, as is presented in Hull,
J. C. (2017).
Author: Anselm Hudde [aut, cre]
Maintainer: Anselm Hudde <anselmhudde@gmx.de>
Diff between greeks versions 1.5.1 dated 2025-11-17 and 1.5.3 dated 2026-05-07
DESCRIPTION | 6 MD5 | 22 - R/BS_European_Greeks.R | 492 ++++--------------------- R/BS_Geometric_Asian_Greeks.R | 240 ------------ R/Binomial_American_Greeks.R | 14 R/RcppExports.R | 8 src/BS_European_Greeks.cpp |only src/BS_Geometric_Asian_Greeks.cpp |only src/Binomial_American_Greeks.cpp | 4 src/RcppExports.cpp | 38 + tests/testthat/test-BS_European_Greeks.R | 60 +++ tests/testthat/test-Binomial_American_Greeks.R | 12 tests/testthat/test-Implied_Volatility.R | 2 13 files changed, 249 insertions(+), 649 deletions(-)
Title: A Blazing Fast Implementation of Random Forest
Description: Yet another implementation of the Random Forest method by Breiman (2001) <doi:10.1023/A:1010933404324>, written in Rust and tailored towards stability, correctness, efficiency and scalability on modern multi-core machines.
Handles both classification and regression, as well as provides permutation feature importance via a novel, highly optimised algorithm.
Author: Miron Bartosz Kursa [aut, cre] ,
Krzysztof Piotr Piwonski [aut]
Maintainer: Miron Bartosz Kursa <m@mbq.me>
Diff between fru versions 0.0.6 dated 2026-04-24 and 0.0.7 dated 2026-05-07
fru-0.0.6/fru/src/fru/vendor.tar.xz |only fru-0.0.7/fru/DESCRIPTION | 7 +++---- fru-0.0.7/fru/MD5 | 11 +++++------ fru-0.0.7/fru/inst/NEWS | 3 +++ fru-0.0.7/fru/src/xrf/Cargo.lock | 2 +- fru-0.0.7/fru/src/xrf/Cargo.toml | 2 +- fru-0.0.7/fru/src/xrf/src/rng.rs | 8 +++++--- 7 files changed, 18 insertions(+), 15 deletions(-)
Title: Data Processing for Aquatic Ecology
Description: Facilitate the analysis of data related to aquatic ecology, specifically the establishment of carbon budget.
Currently, the package allows the below analysis.
(i) the calculation of greenhouse gas flux based on data obtained from trace gas analyzer using the method described in Lin et al. (2024).
(ii) the calculation of Dissolved Oxygen (DO) metabolism based on data obtained from dissolved oxygen data logger using the method described in Staehr et al. (2010).
Yong et al. (2024) <doi:10.5194/bg-21-5247-2024>.
Staehr et al. (2010) <doi:10.4319/lom.2010.8.0628>.
Author: Zhao-Jun Yong [cre, aut]
Maintainer: Zhao-Jun Yong <nuannuan0425@gmail.com>
Diff between aelab versions 1.1.1 dated 2026-02-26 and 1.1.3 dated 2026-05-07
DESCRIPTION | 6 - MD5 | 26 +++---- NAMESPACE | 3 NEWS.md | 16 ++++ R/ghg_flux.R | 49 +++++++++---- R/statistics.R | 75 +++++++++++++++++++- inst/doc/aelab.R | 40 ++++++++++ inst/doc/aelab.Rmd | 57 ++++++++++++++- inst/doc/aelab.html | 142 ++++++++++++++++++++++++++------------- inst/extdata/reference.xlsx |binary man/calculate_regression.Rd | 29 ++++++- man/sig_labels.Rd |only tests/testthat/test-ghg_flux.R | 13 +++ tests/testthat/test-statistics.R |only vignettes/aelab.Rmd | 57 ++++++++++++++- 15 files changed, 415 insertions(+), 98 deletions(-)
Title: Who are You? Bayesian Prediction of Racial Category Using
Surname, First Name, Middle Name, and Geolocation
Description: Predicts individual race/ethnicity using surname, first name,
middle name, geolocation, and other attributes, such as gender and
age. The method utilizes Bayes' Rule (with optional measurement error
correction) to compute the posterior probability of each racial
category for any given individual. The package implements methods
described in Imai and Khanna (2016) "Improving Ecological Inference by
Predicting Individual Ethnicity from Voter Registration Records"
Political Analysis <DOI:10.1093/pan/mpw001> and Imai, Olivella, and
Rosenman (2022) "Addressing census data problems in race imputation
via fully Bayesian Improved Surname Geocoding and name supplements"
<DOI:10.1126/sciadv.adc9824>. The package also incorporates the data
described in Rosenman, Olivella, and Imai (2023) "Race and ethnicity
data for first, middle, and surnames"
<DOI:10.1038/s41597-023-02202-2>.
Author: Kabir Khanna [aut],
Brandon Bertelsen [aut, cre],
Santiago Olivella [aut],
Evan Rosenman [aut],
Alexander Rossell Hayes [aut],
Kosuke Imai [aut],
Noah Dasanaike [aut]
Maintainer: Brandon Bertelsen <brandon@bertelsen.ca>
Diff between wru versions 3.0.3 dated 2024-05-24 and 3.1.0 dated 2026-05-07
DESCRIPTION | 21 +- MD5 | 29 ++- NAMESPACE | 1 R/census_helper_v2.R | 2 R/ebisg_utils.R |only R/predict_race.R | 48 ++++- R/race_prediction_funs.R | 289 ++++++++++++++++++++++++++++++++++ README.md | 87 ++++++++++ man/ebisg.Rd |only man/ebisg_data_preflight.Rd |only man/ebisg_embed_names.Rd |only man/ebisg_model_registry.Rd |only man/ebisg_predict_mlp.Rd |only man/ensure_ebisg_python.Rd |only man/get_ebisg_module.Rd |only man/map_6class_to_5class.Rd |only man/modfuns.Rd | 36 ++++ man/predict_race.Rd | 19 +- man/resolve_ebisg_model.Rd |only man/setup_ebisg.Rd |only tests/testthat/test-ebisg-bug-repro.R |only tests/testthat/test-ebisg.R |only 22 files changed, 504 insertions(+), 28 deletions(-)
Title: Publication-Ready Summary Tables and Forest Plots
Description: A comprehensive framework for descriptive statistics and regression
analysis that produces publication-ready tables and forest plots. Provides a
unified interface from descriptive statistics through multivariable modeling,
with support for linear models, generalized linear models, Cox proportional
hazards, and mixed-effects models. Also includes univariable screening,
multivariate regression, model comparison, and export to multiple formats
including PDF, DOCX, PPTX, 'LaTeX', HTML, and RTF. Built on 'data.table'
for computational efficiency.
Author: Paul Hsin-ti McClelland [aut, cre, cph]
Maintainer: Paul Hsin-ti McClelland <PaulHMcClelland@protonmail.com>
Diff between summata versions 0.11.4 dated 2026-03-20 and 0.11.5 dated 2026-05-07
DESCRIPTION | 10 ++++---- MD5 | 18 +++++++------- NAMESPACE | 1 NEWS.md | 6 ++++ R/imports.R | 5 +++- README.md | 20 ++++++++-------- inst/CITATION | 2 - inst/doc/advanced_workflows.html | 22 ++++++++--------- inst/doc/forest_plots.html | 42 +++++++++++++++++----------------- inst/doc/multivariate_regression.html | 10 ++++---- 10 files changed, 73 insertions(+), 63 deletions(-)
Title: Elastic Functional Data Analysis
Description: Performs alignment, PCA, and modeling of multidimensional and
unidimensional functions using the square-root velocity framework
(Srivastava et al., 2011 <doi:10.48550/arXiv.1103.3817> and Tucker et al., 2014
<DOI:10.1016/j.csda.2012.12.001>). This framework allows for elastic
analysis of functional data through phase and amplitude separation.
Author: J. Derek Tucker [aut, cre] ,
Aymeric Stamm [ctb]
Maintainer: J. Derek Tucker <jdtuck@sandia.gov>
Diff between fdasrvf versions 2.4.3 dated 2026-02-20 and 2.4.4 dated 2026-05-07
DESCRIPTION | 10 ++--- MD5 | 53 ++++++++++++++++--------------- NAMESPACE | 3 + NEWS.md | 3 + R/jointfPCA.R | 4 +- R/pns.R | 25 ++++++++++++++ README.md | 2 - man/beta.Rd | 2 - man/curve2srvf.Rd | 2 - man/discrete2curve.Rd | 2 - man/fastPNSe2s.Rd |only man/fastPNSs2e.Rd |only man/fastpns.Rd |only man/fdasrvf.Rd | 5 ++ man/figures/README-1d_aligned_plot-1.png |binary man/figures/README-1d_aligned_plot-2.png |binary man/figures/README-1d_aligned_plot-3.png |binary man/figures/README-1d_aligned_plot-4.png |binary man/figures/README-1d_aligned_plot-5.png |binary man/figures/README-1d_aligned_plot-6.png |binary man/figures/README-1d_curve_plot-1.png |binary man/growth_vel.Rd | 2 - man/im.Rd | 2 - man/jointFPCAh.Rd | 5 +- man/simu_data.Rd | 2 - man/simu_warp.Rd | 2 - man/simu_warp_median.Rd | 2 - man/toy_data.Rd | 2 - man/toy_warp.Rd | 2 - 29 files changed, 84 insertions(+), 46 deletions(-)
Title: Muscle Near-Infrared Spectroscopy Processing and Analysis
Description: Read, process, and analyse data from muscle near-infrared
spectroscopy (mNIRS) devices. Import raw data from .csv or .xls(x)
files and return time-series data and metadata. Includes standardised
methods for cleaning, filtering, and pre-processing mNIRS data for
subsequent analysis. Also includes a custom plot theme and colour
palette. Intended for mNIRS researchers and practitioners in exercise
physiology, sports science, and clinical rehabilitation with minimal
coding experience required.
Author: Jem Arnold [aut, cre, cph]
Maintainer: Jem Arnold <jem.arnold@gmail.com>
Diff between mnirs versions 0.6.2 dated 2026-04-18 and 0.6.3 dated 2026-05-07
mnirs-0.6.2/mnirs/man/localise_POSIXct.Rd |only mnirs-0.6.2/mnirs/vignettes/_extensions |only mnirs-0.6.3/mnirs/DESCRIPTION | 10 mnirs-0.6.3/mnirs/MD5 | 176 +++---- mnirs-0.6.3/mnirs/NAMESPACE | 1 mnirs-0.6.3/mnirs/NEWS.md | 62 ++ mnirs-0.6.3/mnirs/R/data.R | 10 mnirs-0.6.3/mnirs/R/extract_interval_helpers.R | 54 -- mnirs-0.6.3/mnirs/R/extract_intervals.R | 72 +-- mnirs-0.6.3/mnirs/R/filter_mnirs.R | 18 mnirs-0.6.3/mnirs/R/mnirs_methods.R |only mnirs-0.6.3/mnirs/R/plot.mnirs.R | 163 ++++++- mnirs-0.6.3/mnirs/R/read_mnirs.R | 26 - mnirs-0.6.3/mnirs/R/read_mnirs_helpers.R | 39 + mnirs-0.6.3/mnirs/R/replace_helpers.R | 4 mnirs-0.6.3/mnirs/R/replace_mnirs.R | 28 - mnirs-0.6.3/mnirs/R/resample_mnirs.R | 21 mnirs-0.6.3/mnirs/R/shift_mnirs.R | 6 mnirs-0.6.3/mnirs/R/validate_mnirs.R | 42 + mnirs-0.6.3/mnirs/README.md | 41 - mnirs-0.6.3/mnirs/inst/doc/reading-mnirs-data.R | 5 mnirs-0.6.3/mnirs/inst/doc/reading-mnirs-data.html | 57 +- mnirs-0.6.3/mnirs/inst/doc/reading-mnirs-data.qmd | 7 mnirs-0.6.3/mnirs/inst/extdata/moxy_ramp.xlsx |binary mnirs-0.6.3/mnirs/inst/extdata/portamon-oxcap.xlsx |binary mnirs-0.6.3/mnirs/man/apply_span.Rd | 24 - mnirs-0.6.3/mnirs/man/artinis_intervals.xlsx.Rd | 2 mnirs-0.6.3/mnirs/man/as_plot_data.Rd |only mnirs-0.6.3/mnirs/man/breaks_timespan.Rd | 4 mnirs-0.6.3/mnirs/man/by_time.Rd | 12 mnirs-0.6.3/mnirs/man/compute_helpers.Rd | 10 mnirs-0.6.3/mnirs/man/detect_device_channels.Rd | 2 mnirs-0.6.3/mnirs/man/detect_irregular_samples.Rd | 24 - mnirs-0.6.3/mnirs/man/detect_time_channel.Rd | 34 - mnirs-0.6.3/mnirs/man/device_patterns.Rd | 2 mnirs-0.6.3/mnirs/man/example_mnirs.Rd | 58 +- mnirs-0.6.3/mnirs/man/extract_intervals.Rd | 65 +- mnirs-0.6.3/mnirs/man/extract_start_timestamp.Rd | 24 - mnirs-0.6.3/mnirs/man/figures/README-extract_intervals_distinct-1.png |binary mnirs-0.6.3/mnirs/man/figures/README-extract_intervals_ensemble-1.png |binary mnirs-0.6.3/mnirs/man/figures/README-filter_mnirs-1.png |binary mnirs-0.6.3/mnirs/man/figures/README-pipeline-1.png |binary mnirs-0.6.3/mnirs/man/figures/README-read_mnirs-1.png |binary mnirs-0.6.3/mnirs/man/figures/README-replace_mnirs-1.png |binary mnirs-0.6.3/mnirs/man/figures/README-rescale_mnirs-1.png |binary mnirs-0.6.3/mnirs/man/figures/README-shift_mnirs-1.png |binary mnirs-0.6.3/mnirs/man/figures/lifecycle-deprecated.svg | 42 - mnirs-0.6.3/mnirs/man/figures/lifecycle-experimental.svg | 42 - mnirs-0.6.3/mnirs/man/figures/lifecycle-stable.svg | 58 +- mnirs-0.6.3/mnirs/man/figures/lifecycle-superseded.svg | 42 - mnirs-0.6.3/mnirs/man/filter_ma.Rd | 6 mnirs-0.6.3/mnirs/man/filter_mnirs.Rd | 29 - mnirs-0.6.3/mnirs/man/format_hmmss.Rd | 4 mnirs-0.6.3/mnirs/man/is_empty.Rd | 24 - mnirs-0.6.3/mnirs/man/make_list.Rd | 24 - mnirs-0.6.3/mnirs/man/mnirs_metadata.Rd | 33 - mnirs-0.6.3/mnirs/man/name_channels.Rd | 24 - mnirs-0.6.3/mnirs/man/parse_sample_rate.Rd | 38 - mnirs-0.6.3/mnirs/man/plot.mnirs.Rd | 39 + mnirs-0.6.3/mnirs/man/portamon-oxcap.xlsx.Rd | 8 mnirs-0.6.3/mnirs/man/print.mnirs.Rd |only mnirs-0.6.3/mnirs/man/read_data_table.Rd | 2 mnirs-0.6.3/mnirs/man/read_file.Rd | 24 - mnirs-0.6.3/mnirs/man/read_mnirs.Rd | 4 mnirs-0.6.3/mnirs/man/recycle_span.Rd | 4 mnirs-0.6.3/mnirs/man/rename_duplicates.Rd | 24 - mnirs-0.6.3/mnirs/man/replace_mnirs.Rd | 36 - mnirs-0.6.3/mnirs/man/resample_mnirs.Rd | 8 mnirs-0.6.3/mnirs/man/rescale_mnirs.Rd | 4 mnirs-0.6.3/mnirs/man/shift_mnirs.Rd | 16 mnirs-0.6.3/mnirs/man/validate_mnirs.Rd | 12 mnirs-0.6.3/mnirs/tests/testthat.R | 24 - mnirs-0.6.3/mnirs/tests/testthat/test-extract_intervals.R | 109 +++- mnirs-0.6.3/mnirs/tests/testthat/test-filter_mnirs.R | 4 mnirs-0.6.3/mnirs/tests/testthat/test-plot.mnirs.R | 142 ++++++ mnirs-0.6.3/mnirs/tests/testthat/test-read_mnirs.R | 222 +++++++++- mnirs-0.6.3/mnirs/tests/testthat/test-replace_mnirs.R | 2 mnirs-0.6.3/mnirs/tests/testthat/test-resample_mnirs.R | 36 + mnirs-0.6.3/mnirs/tests/testthat/test-shift_mnirs.R | 2 mnirs-0.6.3/mnirs/tests/testthat/test-validate_mnirs.R | 10 mnirs-0.6.3/mnirs/vignettes/reading-mnirs-data.qmd | 7 81 files changed, 1392 insertions(+), 816 deletions(-)
Title: Kim Filter
Description: 'Rcpp' implementation of the multivariate Kim filter, which combines the Kalman and Hamilton filters for state probability inference.
The filter is designed for state space models and can handle missing values and exogenous data in the observation and state equations.
Kim, Chang-Jin and Charles R. Nelson (1999) "State-Space Models with Regime Switching: Classical and Gibbs-Sampling Approaches with Applications" <doi:10.7551/mitpress/6444.001.0001><http://econ.korea.ac.kr/~cjkim/>.
Author: Alex Hubbard [aut, cre]
Maintainer: Alex Hubbard <hubbard.alex@gmail.com>
Diff between kimfilter versions 1.1.0 dated 2025-10-17 and 2.0.0 dated 2026-05-07
kimfilter-1.1.0/kimfilter/man/Rginv.Rd |only kimfilter-1.1.0/kimfilter/man/contains.Rd |only kimfilter-1.1.0/kimfilter/man/gen_inv.Rd |only kimfilter-1.1.0/kimfilter/man/kim_filter_cpp.Rd |only kimfilter-1.1.0/kimfilter/man/self_rbind.Rd |only kimfilter-2.0.0/kimfilter/DESCRIPTION | 10 kimfilter-2.0.0/kimfilter/MD5 | 29 kimfilter-2.0.0/kimfilter/NEWS.md | 6 kimfilter-2.0.0/kimfilter/R/RcppExports.R | 75 kimfilter-2.0.0/kimfilter/R/kim_filter.R | 32 kimfilter-2.0.0/kimfilter/inst/doc/kimfilter_vignette.R | 5 kimfilter-2.0.0/kimfilter/inst/doc/kimfilter_vignette.Rmd | 35 kimfilter-2.0.0/kimfilter/inst/doc/kimfilter_vignette.html | 610 ++--- kimfilter-2.0.0/kimfilter/man/kimfilter-package.Rd | 5 kimfilter-2.0.0/kimfilter/man/ss_prob.Rd | 61 kimfilter-2.0.0/kimfilter/src/RcppExports.cpp | 38 kimfilter-2.0.0/kimfilter/src/kimfilter.cpp | 1549 ++++++++----- kimfilter-2.0.0/kimfilter/vignettes/kimfilter_vignette.Rmd | 35 18 files changed, 1477 insertions(+), 1013 deletions(-)
Title: Chat with Large Language Models
Description: Chat with large language models from a range of providers
including 'Claude' <https://claude.ai>, 'OpenAI'
<https://chatgpt.com>, and more. Supports streaming, asynchronous
calls, tool calling, and structured data extraction.
Author: Hadley Wickham [aut, cre] ,
Joe Cheng [aut],
Aaron Jacobs [aut],
Garrick Aden-Buie [aut] ,
Barret Schloerke [aut] ,
Posit Software, PBC [cph, fnd]
Maintainer: Hadley Wickham <hadley@posit.co>
Diff between ellmer versions 0.4.0 dated 2025-11-15 and 0.4.1 dated 2026-05-07
DESCRIPTION | 39 MD5 | 202 ++-- NAMESPACE | 4 NEWS.md | 26 R/chat-tools.R | 20 R/chat.R | 357 +++++-- R/content.R | 7 R/httr2.R | 44 R/import-standalone-defer.R |only R/otel.R |only R/provider-aws.R | 175 +++ R/provider-claude-tools.R | 22 R/provider-claude.R | 59 - R/provider-databricks.R | 2 R/provider-github.R | 10 R/provider-google-tools.R | 22 R/provider-google.R | 53 - R/provider-groq.R | 43 R/provider-lmstudio.R |only R/provider-ollama.R | 1 R/provider-openai-compatible.R | 91 +- R/provider-openai-tools.R | 11 R/provider-openai.R | 34 R/provider-openrouter.R | 3 R/provider-snowflake.R | 208 ++-- R/provider.R | 21 R/stream-controller.R |only R/sysdata.rda |binary R/tokens.R | 7 R/tools-built-in.R | 7 R/turns.R | 17 R/types.R | 2 R/utils.R | 9 R/zzz.R | 1 build/vignette.rds |binary inst/_vcr/tool.yml | 62 - inst/doc/ellmer.Rmd | 2 inst/doc/ellmer.html | 2 inst/doc/programming.html | 182 ++-- inst/doc/structured-data.Rmd | 2 inst/doc/structured-data.html | 10 inst/doc/tool-calling.html | 46 - man/Chat.Rd | 727 ++++++++-------- man/Content.Rd | 7 man/Turn.Rd | 15 man/chat_anthropic.Rd | 41 man/chat_aws_bedrock.Rd | 82 + man/chat_azure_openai.Rd | 35 man/chat_cloudflare.Rd | 35 man/chat_databricks.Rd | 35 man/chat_deepseek.Rd | 35 man/chat_github.Rd | 42 man/chat_google_gemini.Rd | 38 man/chat_groq.Rd | 42 man/chat_huggingface.Rd | 35 man/chat_lmstudio.Rd |only man/chat_mistral.Rd | 35 man/chat_ollama.Rd | 38 man/chat_openai.Rd | 38 man/chat_openai_compatible.Rd | 42 man/chat_openrouter.Rd | 35 man/chat_perplexity.Rd | 38 man/chat_portkey.Rd | 38 man/chat_vllm.Rd | 3 man/claude_tool_web_fetch.Rd | 10 man/claude_tool_web_search.Rd | 10 man/contents_text.Rd | 2 man/ellmer-package.Rd | 1 man/google_tool_web_fetch.Rd | 10 man/google_tool_web_search.Rd | 10 man/google_upload.Rd | 3 man/openai_tool_web_search.Rd | 10 man/stream_controller.Rd |only man/tool.Rd | 6 man/tool_annotations.Rd | 6 man/tool_reject.Rd | 6 man/type_boolean.Rd | 2 tests/testthat/_snaps/chat.md | 42 tests/testthat/_snaps/provider-aws.md | 2 tests/testthat/_snaps/provider-lmstudio.md |only tests/testthat/_snaps/provider-openrouter.md | 4 tests/testthat/_snaps/tokens.md | 10 tests/testthat/_vcr/aws-bedrock-thinking.yml |only tests/testthat/_vcr/chat-tools-callbacks.yml | 66 - tests/testthat/_vcr/chat-tools-failure.yml | 80 - tests/testthat/_vcr/chat-tools-reject-callback.yml | 70 - tests/testthat/_vcr/chat-tools-reject-tool-function.yml | 68 - tests/testthat/_vcr/chat-tools-sequential.yml | 94 +- tests/testthat/_vcr/openai-v2-web-search.yml | 185 ++-- tests/testthat/helper-provider-aws.R |only tests/testthat/test-chat.R | 205 ++++ tests/testthat/test-otel.R |only tests/testthat/test-provider-aws.R | 171 +++ tests/testthat/test-provider-claude.R | 194 ++++ tests/testthat/test-provider-databricks.R | 14 tests/testthat/test-provider-google.R | 2 tests/testthat/test-provider-groq.R | 8 tests/testthat/test-provider-lmstudio.R |only tests/testthat/test-provider-openai-compatible.R | 137 +++ tests/testthat/test-provider-openai.R | 80 + tests/testthat/test-provider-snowflake.R | 219 ++++ tests/testthat/test-tokens.R | 9 tests/testthat/test-tools-built-in.R |only vignettes/_vcr/tool-calling-inputs-outputs.yml | 68 - vignettes/_vcr/tool-calling-no-tool.yml | 32 vignettes/_vcr/tool-calling-with-tool.yml | 72 - vignettes/ellmer.Rmd | 2 vignettes/structured-data.Rmd | 2 108 files changed, 3436 insertions(+), 1715 deletions(-)
Title: Calculate Metrics for Trauma System Performance
Description: Hospitals, hospital systems, and even trauma systems that
provide care to injured patients may not be aware of robust metrics
that can help gauge the efficacy of their programs in saving the lives
of injured patients. 'traumar' provides robust functions driven by
the academic literature to automate the calculation of relevant
metrics to individuals desiring to measure the performance of their
trauma center or even a trauma system. 'traumar' also provides some
helper functions for the data analysis journey. Users can refer to the
following publications for descriptions of the methods used in
'traumar'. TRISS methodology, including probability of survival, and
the W, M, and Z Scores - Flora (1978)
<doi:10.1097/00005373-197810000-00003>, Boyd et al. (1987,
PMID:3106646), Llullaku et al. (2009) <doi:10.1186/1749-7922-4-2>,
Singh et al. (2011) <doi:10.4103/0974-2700.86626>, Baker et al. (1974,
PMID:4814394), and Champion et al. (1989)
<doi:10.1097/00005373-198905000- [...truncated...]
Author: Nicolas Foss [aut, cre],
Iowa Department of Health and Human Services [cph]
Maintainer: Nicolas Foss <nicolas.foss@hhs.iowa.gov>
Diff between traumar versions 1.2.5 dated 2026-04-16 and 1.2.6 dated 2026-05-07
traumar-1.2.5/traumar/man/validate_character_factor.Rd |only traumar-1.2.5/traumar/man/validate_choice.Rd |only traumar-1.2.5/traumar/man/validate_class.Rd |only traumar-1.2.5/traumar/man/validate_complete.Rd |only traumar-1.2.5/traumar/man/validate_data_pull.Rd |only traumar-1.2.5/traumar/man/validate_data_structure.Rd |only traumar-1.2.5/traumar/man/validate_error_type.Rd |only traumar-1.2.5/traumar/man/validate_length.Rd |only traumar-1.2.5/traumar/man/validate_names.Rd |only traumar-1.2.5/traumar/man/validate_numeric.Rd |only traumar-1.2.5/traumar/man/validate_set.Rd |only traumar-1.2.6/traumar/DESCRIPTION | 16 +-- traumar-1.2.6/traumar/MD5 | 48 ++++------ traumar-1.2.6/traumar/NEWS.md | 16 +++ traumar-1.2.6/traumar/R/pretty_number.r | 8 - traumar-1.2.6/traumar/R/pretty_percent.r | 2 traumar-1.2.6/traumar/R/validate_character_factor.R | 3 traumar-1.2.6/traumar/R/validate_choice.R | 3 traumar-1.2.6/traumar/R/validate_class.R | 3 traumar-1.2.6/traumar/R/validate_complete.R | 3 traumar-1.2.6/traumar/R/validate_data_pull.R | 3 traumar-1.2.6/traumar/R/validate_data_structure.R | 3 traumar-1.2.6/traumar/R/validate_error_type.R | 6 + traumar-1.2.6/traumar/R/validate_length.R | 3 traumar-1.2.6/traumar/R/validate_names.R | 3 traumar-1.2.6/traumar/R/validate_numeric.R | 4 traumar-1.2.6/traumar/R/validate_set.R | 3 traumar-1.2.6/traumar/tests/testthat/test-pretty_number.R | 9 - traumar-1.2.6/traumar/tests/testthat/test-validate_error_type.R |only traumar-1.2.6/traumar/tests/testthat/test-validate_length.R |only traumar-1.2.6/traumar/tests/testthat/test-validate_names.R |only traumar-1.2.6/traumar/tests/testthat/test-validate_numeric.R |only traumar-1.2.6/traumar/tests/testthat/test-validate_set.R |only 33 files changed, 88 insertions(+), 48 deletions(-)
Title: Access to the 'RESOURCECODE' Hindcast Database
Description: Utility functions to download data from the 'RESOURCECODE'
hindcast database of sea-states, time series of sea-state parameters
and time series of 1D and 2D wave spectra. See
<https://resourcecode.ifremer.fr> for more details about the available
data. Also provides facilities to plot and analyse downloaded data,
such as computing the sea-state parameters from both the 1D and 2D
surface elevation variance spectral density.
Author: Nicolas Raillard [aut, cre]
Maintainer: Nicolas Raillard <nicolas.raillard@ifremer.fr>
Diff between resourcecode versions 0.5.3 dated 2026-02-06 and 0.5.4 dated 2026-05-07
resourcecode-0.5.3/resourcecode/data/rscd_dir.rda |only resourcecode-0.5.3/resourcecode/data/rscd_freq.rda |only resourcecode-0.5.3/resourcecode/man/rscd_dir.Rd |only resourcecode-0.5.3/resourcecode/man/rscd_freq.Rd |only resourcecode-0.5.4/resourcecode/DESCRIPTION | 9 -- resourcecode-0.5.4/resourcecode/MD5 | 44 ++++------ resourcecode-0.5.4/resourcecode/NEWS.md | 5 + resourcecode-0.5.4/resourcecode/R/data.R | 24 ----- resourcecode-0.5.4/resourcecode/R/download_data.R | 7 + resourcecode-0.5.4/resourcecode/R/orbital_speed.R | 17 ++- resourcecode-0.5.4/resourcecode/R/plots.R | 13 +- resourcecode-0.5.4/resourcecode/R/resourcecode-package.R | 2 resourcecode-0.5.4/resourcecode/R/specta_data_ploting.R | 11 +- resourcecode-0.5.4/resourcecode/R/sysdata.rda |binary resourcecode-0.5.4/resourcecode/R/utils.R | 8 + resourcecode-0.5.4/resourcecode/R/weather_windows.R | 7 + resourcecode-0.5.4/resourcecode/build/vignette.rds |binary resourcecode-0.5.4/resourcecode/data/rscd_data_example.rda |binary resourcecode-0.5.4/resourcecode/man/compute_orbital_speeds.Rd | 2 resourcecode-0.5.4/resourcecode/man/figures/README-data_fetcher-1.png |binary resourcecode-0.5.4/resourcecode/man/jonswap.Rd | 8 + resourcecode-0.5.4/resourcecode/man/resourcecode-package.Rd | 5 + resourcecode-0.5.4/resourcecode/tests/testthat/test-test_closest_point.R | 21 +++- resourcecode-0.5.4/resourcecode/tests/testthat/test_ww_calc.R | 30 +++++- resourcecode-0.5.4/resourcecode/tests/testthat/tests_download_parameters.R | 13 ++ 25 files changed, 135 insertions(+), 91 deletions(-)
Title: Analyze Multiple Exposure Realizations in Association Studies
Description: Analyze association studies with multiple realizations of a noisy or uncertain exposure. These can be obtained from e.g. a two-dimensional Monte Carlo dosimetry system (Simon et al 2015 <doi:10.1667/RR13729.1>) to characterize exposure uncertainty.
The implemented methods are regression calibration (Carroll et al. 2006 <doi:10.1201/9781420010138>), extended
regression calibration (Little et al. 2023 <doi:10.1038/s41598-023-42283-y>), Monte Carlo maximum
likelihood (Stayner et al. 2007 <doi:10.1667/RR0677.1>), frequentist model averaging (Kwon et al. 2023 <doi:10.1371/journal.pone.0290498>),
and Bayesian model averaging (Kwon et al. 2016 <doi:10.1002/sim.6635>). Supported model families are
Gaussian, binomial, multinomial, Poisson, proportional hazards, and conditional logistic.
Author: Sander Roberti [aut, cre] ,
William Wheeler [aut],
Deukwoo Kwon [aut] ,
Ruth Pfeiffer [ctb] ,
NCI [cph, fnd]
Maintainer: Sander Roberti <sander.roberti@nih.gov>
Diff between ameras versions 0.2.0 dated 2026-04-26 and 0.3.0 dated 2026-05-07
DESCRIPTION | 6 MD5 | 85 +++--- NAMESPACE | 48 +++ NEWS.md | 19 + R/RcppExports.R | 12 R/ameras.R | 29 +- R/amerasfit-class.R | 12 R/check.R | 2 R/likelihoods.R | 54 ++-- R/methods-fma-bma.R | 58 ++-- R/methods-rc-mcml.R | 8 R/plots.R | 32 ++ R/source.R | 54 ---- README.md | 51 ++- inst/doc/confidenceintervals.html | 63 ++-- inst/doc/modelfitting.Rmd | 2 inst/doc/modelfitting.html | 153 +++++------ inst/doc/relativeriskmodels.html | 4 inst/doc/transformations.html | 8 man/ameras-package.Rd | 2 man/ameras.Rd | 18 - man/data.Rd | 2 man/ecdfplot.Rd | 13 - man/figures/README-unnamed-chunk-2-1.png |binary man/print.Rd | 2 src/RcppExports.cpp | 53 ++-- src/ameras.cpp | 403 ++++++++++++++----------------- src/ameras_init.c | 34 ++ tests/testthat.R |only tests/testthat/_snaps/CI.md | 319 +++++++++++++----------- tests/testthat/_snaps/binomial.md | 295 ++++++++++++---------- tests/testthat/_snaps/clogit.md | 142 +++++----- tests/testthat/_snaps/gaussian.md | 173 +++++++------ tests/testthat/_snaps/multinomial.md | 241 ++++++++++-------- tests/testthat/_snaps/poisson.md | 160 ++++++------ tests/testthat/_snaps/prophaz.md | 181 +++++++------ tests/testthat/test-CI.R | 77 ++++- tests/testthat/test-binomial.R | 22 + tests/testthat/test-clogit.R | 11 tests/testthat/test-gaussian.R | 11 tests/testthat/test-multinomial.R | 11 tests/testthat/test-poisson.R | 11 tests/testthat/test-prophaz.R | 13 - vignettes/modelfitting.Rmd | 2 44 files changed, 1561 insertions(+), 1335 deletions(-)
Title: Detect Text Reuse and Document Similarity
Description: Tools for measuring similarity among documents and detecting
passages which have been reused. Implements shingled n-gram, skip n-gram,
and other tokenizers; similarity/dissimilarity functions; pairwise
comparisons; minhash and locality sensitive hashing algorithms; and a
version of the Smith-Waterman local alignment algorithm suitable for
natural language.
Author: Lincoln Mullen [aut] ,
Yaoxiang Li [aut, cre]
Maintainer: Yaoxiang Li <liyaoxiang@outlook.com>
Diff between textreuse versions 0.1.5 dated 2020-05-15 and 1.0.1 dated 2026-05-07
DESCRIPTION | 31 LICENSE | 4 MD5 | 203 NAMESPACE | 210 NEWS.md | 107 R/RcppExports.R | 52 R/TextReuseCorpus.R | 517 R/TextReuseTextDocument.R | 771 R/align_local.R | 499 R/conversion-functions.R | 97 R/filenames.R | 46 R/lsh.R | 333 R/lsh_candidates.R | 78 R/lsh_compare.R | 122 R/lsh_probability.R | 111 R/lsh_query.R | 81 R/lsh_subset.R | 42 R/minhash.R | 128 R/pairwise_candidates.R | 70 R/pairwise_compare.R | 150 R/parallel.R | 28 R/rehash.R | 118 R/similarity.R | 313 R/textreuse-package.r | 102 R/token_index.R |only R/tokenize.R | 164 R/tokenizers.R | 122 R/utils.R | 192 R/wordcount.R | 50 README.md | 493 build/vignette.rds |binary inst/doc/textreuse-alignment.R | 40 inst/doc/textreuse-alignment.Rmd | 84 inst/doc/textreuse-alignment.html | 777 inst/doc/textreuse-introduction.R | 146 inst/doc/textreuse-introduction.Rmd | 322 inst/doc/textreuse-introduction.html | 1188 inst/doc/textreuse-minhash.R | 78 inst/doc/textreuse-minhash.Rmd | 180 inst/doc/textreuse-minhash.html | 920 inst/doc/textreuse-pairwise.R | 50 inst/doc/textreuse-pairwise.Rmd | 108 inst/doc/textreuse-pairwise.html | 785 inst/extdata/ats/calltounconv00baxt.txt |34366 +++++++++++------------ inst/extdata/ats/gospeltruth00whit.txt | 6668 ++-- inst/extdata/ats/lifeofrevrichard00baxt.txt |13362 ++++----- inst/extdata/ats/memoirjamesbrai00ricegoog.txt |36962 ++++++++++++------------- inst/extdata/ats/practicalthought00nev.txt |33602 +++++++++++----------- inst/extdata/ats/remember00palm.txt | 6070 ++-- inst/extdata/ats/remembermeorholy00palm.txt | 6228 ++-- inst/extdata/ats/thoughtsonpopery00nevi.txt |17132 +++++------ inst/extdata/legal/ca1851-match.txt | 160 inst/extdata/legal/ca1851-nomatch.txt | 48 inst/extdata/legal/ny1850-match.txt | 222 man/TextReuseCorpus.Rd | 207 man/TextReuseTextDocument-accessors.Rd | 74 man/TextReuseTextDocument.Rd | 225 man/align_local.Rd | 189 man/as.matrix.textreuse_candidates.Rd | 42 man/filenames.Rd | 54 man/hash_string.Rd | 42 man/lsh.Rd | 151 man/lsh_add.Rd |only man/lsh_candidates.Rd | 56 man/lsh_compare.Rd | 83 man/lsh_probability.Rd | 113 man/lsh_query.Rd | 64 man/lsh_subset.Rd | 60 man/minhash_generator.Rd | 108 man/pairwise_candidates.Rd | 68 man/pairwise_compare.Rd | 110 man/reexports.Rd | 38 man/rehash.Rd | 74 man/similarity-functions.Rd | 208 man/textreuse-package.Rd | 138 man/token_index.Rd |only man/token_index_candidates.Rd |only man/tokenize.Rd | 104 man/tokenizers.Rd | 92 man/wordcount.Rd | 40 src/RcppExports.cpp | 5 src/hash_string.cpp | 1 src/shingle_ngrams.cpp | 1 src/skip_ngrams.cpp | 1 tests/testthat.R | 8 tests/testthat/newman.txt | 56 tests/testthat/test-TextReuseCorpus.R | 246 tests/testthat/test-TextReuseTextDocument.R | 206 tests/testthat/test-alignment.R | 67 tests/testthat/test-candidate_pairs.R | 53 tests/testthat/test-filenames.R | 16 tests/testthat/test-hashing.R | 40 tests/testthat/test-jaccard.R | 62 tests/testthat/test-lsh.R | 136 tests/testthat/test-minhash.R | 62 tests/testthat/test-pairwise_cf.R | 40 tests/testthat/test-ratio_of_matches.R | 62 tests/testthat/test-token_index.R |only tests/testthat/test-tokenizers.R | 146 tests/testthat/test-utils.R | 56 tests/testthat/test-wordcount.R | 36 vignettes/textreuse-alignment.Rmd | 84 vignettes/textreuse-introduction.Rmd | 322 vignettes/textreuse-minhash.Rmd | 180 vignettes/textreuse-pairwise.Rmd | 108 105 files changed, 84880 insertions(+), 84186 deletions(-)
Title: Proteomics Data Analysis and Modeling Tools
Description: A comprehensive, user-friendly package for label-free proteomics data analysis and machine learning-based modeling. Data generated from 'MaxQuant' can be easily used to conduct differential expression analysis, build predictive models with top protein candidates, and assess model performance. promor includes a suite of tools for quality control, visualization, missing data imputation (Lazar et. al. (2016) <doi:10.1021/acs.jproteome.5b00981>), differential expression analysis (Ritchie et. al. (2015) <doi:10.1093/nar/gkv007>), and machine learning-based modeling (Kuhn (2008) <doi:10.18637/jss.v028.i05>).
Author: Chathurani Ranathunge [aut, cre, cph]
Maintainer: Chathurani Ranathunge <caranathunge86@gmail.com>
This is a re-admission after prior archival of version 0.2.2 dated 2025-11-11
Diff between promor versions 0.2.2 dated 2025-11-11 and 0.2.3 dated 2026-05-07
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 6 ++++++ tests/testthat/test-protein_analysis.R | 30 +----------------------------- 4 files changed, 13 insertions(+), 35 deletions(-)
Title: Penalized Synthetic Control Estimation
Description: Estimate penalized synthetic control models
and perform hold-out validation to determine their
penalty parameter. This method is based on the work by
Abadie & L'Hour (2021) <doi:10.1080/01621459.2021.1971535>.
Penalized synthetic controls smoothly interpolate between
one-to-one matching and the synthetic control method.
Author: Erik-Jan van Kesteren [cre, aut] ,
Isaac Slaughter [ctb]
Maintainer: Erik-Jan van Kesteren <erikjanvankesteren@pm.me>
Diff between pensynth versions 0.8.1 dated 2025-10-13 and 0.8.2 dated 2026-05-07
DESCRIPTION | 10 MD5 | 68 +- NAMESPACE | 60 +- R/convex_hull.R | 206 ++++---- R/cv_pensynth.R | 804 +++++++++++++++++------------------ R/examples/example_convex_hull.R | 22 R/examples/example_cv_pensynth.R | 8 R/examples/example_pensynth.R | 50 +- R/examples/example_placebo_test.R | 36 - R/examples/example_showcase.R | 88 +-- R/examples/example_simulate.R | 56 +- R/examples/example_simulate_factor.R | 62 +- R/pensynth.R | 352 +++++++-------- R/placebo_test.R | 348 +++++++-------- R/simulate_data.R | 600 +++++++++++++------------- R/standardization.R | 48 +- man/cv_pensynth.Rd | 140 +++--- man/in_convex_hull.Rd | 110 ++-- man/lambda_sequence.Rd | 72 +-- man/mvrarnorm.Rd | 60 +- man/pensynth.Rd | 176 +++---- man/placebo_test.Rd | 158 +++--- man/plot.cvpensynth.Rd | 50 +- man/plot.pensynthtest.Rd | 52 +- man/predict.cvpensynth.Rd | 62 +- man/predict.pensynth.Rd | 48 +- man/print.cvpensynth.Rd | 38 - man/print.pensynth.Rd | 38 - man/rarnorm.Rd | 56 +- man/simulate_data_factor.Rd | 238 +++++----- tests/testthat/test-convexhull.R | 32 - tests/testthat/test-cvpensynth.R | 62 +- tests/testthat/test-pensynth.R | 54 +- tests/testthat/test-placebo_test.R | 84 +-- tests/testthat/test-simulate_data.R | 98 ++-- 35 files changed, 2223 insertions(+), 2223 deletions(-)
Title: R Client for the Interactive Brokers Client Portal API
Description: Provides a lightweight R interface to the Interactive Brokers (IBKR)
Client Portal REST API. Functions cover session management, account and portfolio
queries, market data retrieval, and order placement and cancellation. Requires a
locally running IBKR Client Portal Gateway.
Author: Nagappan Karuppiah [aut, cre]
Maintainer: Nagappan Karuppiah <sactyr@gmail.com>
Diff between ibkrcp versions 0.1.0 dated 2026-05-06 and 0.1.1 dated 2026-05-07
ibkrcp-0.1.0/ibkrcp/R/account.r |only ibkrcp-0.1.0/ibkrcp/R/market_data.r |only ibkrcp-0.1.0/ibkrcp/R/orders.r |only ibkrcp-0.1.0/ibkrcp/R/session.r |only ibkrcp-0.1.0/ibkrcp/R/utils.r |only ibkrcp-0.1.0/ibkrcp/man/ibkr_get_accounts.Rd |only ibkrcp-0.1.0/ibkrcp/man/ibkr_get_orders.Rd |only ibkrcp-0.1.0/ibkrcp/man/ibkr_get_positions.Rd |only ibkrcp-0.1.0/ibkrcp/man/ibkr_get_summary.Rd |only ibkrcp-0.1.0/ibkrcp/man/ibkr_reauthenticate.Rd |only ibkrcp-0.1.0/ibkrcp/man/ibkr_tickle.Rd |only ibkrcp-0.1.0/ibkrcp/tests/testthat/localhost-5000/v1/api/iserver/orders.json |only ibkrcp-0.1.0/ibkrcp/tests/testthat/localhost-5000/v1/api/iserver/reauthenticate.json |only ibkrcp-0.1.0/ibkrcp/tests/testthat/localhost-5000/v1/api/iserver/secdef/search-5b4185.json |only ibkrcp-0.1.0/ibkrcp/tests/testthat/localhost-5000/v1/api/portfolio/U1234567/positions |only ibkrcp-0.1.0/ibkrcp/tests/testthat/no_orders/localhost-5000/v1/api/iserver/orders.json |only ibkrcp-0.1.0/ibkrcp/tests/testthat/no_positions/localhost-5000/v1/api/portfolio |only ibkrcp-0.1.0/ibkrcp/tests/testthat/test_account.r |only ibkrcp-0.1.0/ibkrcp/tests/testthat/test_session.r |only ibkrcp-0.1.0/ibkrcp/tests/testthat/unauthenticated |only ibkrcp-0.1.1/ibkrcp/DESCRIPTION | 13 ibkrcp-0.1.1/ibkrcp/LICENSE | 4 ibkrcp-0.1.1/ibkrcp/MD5 | 89 +- ibkrcp-0.1.1/ibkrcp/NAMESPACE | 11 ibkrcp-0.1.1/ibkrcp/NEWS.md |only ibkrcp-0.1.1/ibkrcp/R/contracts.R |only ibkrcp-0.1.1/ibkrcp/R/market_data.R |only ibkrcp-0.1.1/ibkrcp/R/orders.R |only ibkrcp-0.1.1/ibkrcp/R/portfolio.R |only ibkrcp-0.1.1/ibkrcp/R/session.R |only ibkrcp-0.1.1/ibkrcp/R/utils.R |only ibkrcp-0.1.1/ibkrcp/build/vignette.rds |binary ibkrcp-0.1.1/ibkrcp/inst/WORDLIST | 3 ibkrcp-0.1.1/ibkrcp/inst/doc/ibkrcp.Rmd | 382 +++++----- ibkrcp-0.1.1/ibkrcp/man/ibkr_auth_status.Rd | 30 ibkrcp-0.1.1/ibkrcp/man/ibkr_cancel_order.Rd | 38 ibkrcp-0.1.1/ibkrcp/man/ibkr_get_price_history.Rd | 48 - ibkrcp-0.1.1/ibkrcp/man/ibkr_get_trading_schedule.Rd | 52 - ibkrcp-0.1.1/ibkrcp/man/ibkr_live_orders.Rd |only ibkrcp-0.1.1/ibkrcp/man/ibkr_ping.Rd |only ibkrcp-0.1.1/ibkrcp/man/ibkr_place_order.Rd | 50 - ibkrcp-0.1.1/ibkrcp/man/ibkr_portfolio_accounts.Rd |only ibkrcp-0.1.1/ibkrcp/man/ibkr_portfolio_positions.Rd |only ibkrcp-0.1.1/ibkrcp/man/ibkr_portfolio_summary.Rd |only ibkrcp-0.1.1/ibkrcp/man/ibkr_search_contracts.Rd | 46 - ibkrcp-0.1.1/ibkrcp/tests/testthat.R | 24 ibkrcp-0.1.1/ibkrcp/tests/testthat/localhost-5000/v1/api/iserver/account/U1234567/order/1001.json | 8 ibkrcp-0.1.1/ibkrcp/tests/testthat/localhost-5000/v1/api/iserver/account/U1234567/orders-50e22c-POST.json | 12 ibkrcp-0.1.1/ibkrcp/tests/testthat/localhost-5000/v1/api/iserver/account/orders-b2e57e.json |only ibkrcp-0.1.1/ibkrcp/tests/testthat/localhost-5000/v1/api/iserver/auth/status.json | 14 ibkrcp-0.1.1/ibkrcp/tests/testthat/localhost-5000/v1/api/iserver/marketdata/history-45530b.json | 12 ibkrcp-0.1.1/ibkrcp/tests/testthat/localhost-5000/v1/api/iserver/secdef/search-82afae-POST.json |only ibkrcp-0.1.1/ibkrcp/tests/testthat/localhost-5000/v1/api/portfolio/U1234567/summary.json | 34 ibkrcp-0.1.1/ibkrcp/tests/testthat/localhost-5000/v1/api/portfolio/accounts.json | 16 ibkrcp-0.1.1/ibkrcp/tests/testthat/localhost-5000/v1/api/portfolio2 |only ibkrcp-0.1.1/ibkrcp/tests/testthat/localhost-5000/v1/api/tickle.json | 20 ibkrcp-0.1.1/ibkrcp/tests/testthat/localhost-5000/v1/api/trsrv/secdef/schedule-c1b48e.json | 34 ibkrcp-0.1.1/ibkrcp/tests/testthat/no_history/localhost-5000/v1/api/iserver/marketdata/history-45530b.json | 6 ibkrcp-0.1.1/ibkrcp/tests/testthat/no_orders/localhost-5000/v1/api/iserver/account |only ibkrcp-0.1.1/ibkrcp/tests/testthat/no_positions/localhost-5000/v1/api/portfolio2 |only ibkrcp-0.1.1/ibkrcp/tests/testthat/test_market_data.R | 140 +-- ibkrcp-0.1.1/ibkrcp/tests/testthat/test_orders.R | 130 +-- ibkrcp-0.1.1/ibkrcp/tests/testthat/test_portfolio.R |only ibkrcp-0.1.1/ibkrcp/tests/testthat/test_session.R |only ibkrcp-0.1.1/ibkrcp/vignettes/ibkrcp.Rmd | 382 +++++----- 65 files changed, 787 insertions(+), 811 deletions(-)
Title: Functional Guilds, Invasion Status, Endemism, and Rarity of Ants
Description: Provides functions for the analysis of ant communities, aiming to
standardize workflows in myrmecology. The package automates the assignment
of species to functional guilds based on trophic strategies, feeding
habits, and foraging behavior, using established classification frameworks
(Silva et al., 2015 <doi:10.7476/9788574554419>; Silvestre et al., 2003
<isbn:9588151236>; Delabie et al., 2000
<https://www.researchgate.net/publication/44961742_Sampling_Ground-Dwelling_Ants_Case_Studies_from_the_World%27s_Rain_Forests>),
and also includes a novel classification system implemented within the
package, developed from ant species occurring in urban environments.
It also includes routines to flag exotic species of Brazil (Vieira, 2025,
unpublished master's thesis), identify endemic species (Silva et al., 2025
<doi:10.37885/250920259>), and classify species rarity and rarity forms
of the Atlantic Forest (Silva et al., 2024 <doi:10.1016/j.biocon.2024.110640>).
The [...truncated...]
Author: Debora C. O. Goncalves [aut, cre],
Nathalia S. Silva [aut],
Rony P. S. Almeida [aut],
Livia P. Prado [aut],
Maria S. C. Morini [aut]
Maintainer: Debora C. O. Goncalves <debora_cog@outlook.com>
Diff between AntClassify versions 0.1.0 dated 2026-04-09 and 0.2.1 dated 2026-05-07
DESCRIPTION | 43 MD5 | 47 NAMESPACE | 9 R/antclassify.R | 104 + R/antclassify_community.R |only R/assign_guild_ants.R | 71 - R/check_endemic_atlantic_ants.R | 123 +- R/check_exotic_ants.R | 118 +- R/check_rarity_atlantic_ants.R | 120 +- R/globals.R |only R/sysdata.rda |binary R/validate_species_names.R |only build/vignette.rds |binary data/ant_community.rda |only data/data.R | 2 inst/WORDLIST | 1 inst/doc/antclassify_workflow.R | 30 inst/doc/antclassify_workflow.Rmd | 66 - inst/doc/antclassify_workflow.html | 1988 ++++++++++++++++++++----------------- man/ant_community.Rd |only man/antclassify.Rd | 30 man/antclassify_community.Rd |only man/assign_guild_ants.Rd | 34 man/check_endemic_atlantic_ants.Rd | 37 man/check_exotic_ants.Rd | 37 man/check_rarity_atlantic_ants.Rd | 37 man/validate_species_names.Rd |only vignettes/antclassify_workflow.Rmd | 66 - 28 files changed, 1707 insertions(+), 1256 deletions(-)
Title: Genetic Relatedness Between Polyclonal Infections
Description: An implementation of Dcifer (Distance for complex infections: fast estimation of relatedness), an identity by descent (IBD) based method to calculate genetic relatedness between polyclonal infections from biallelic and multiallelic data. The package includes functions that format and preprocess the data, implement the method, and visualize the results.
Gerlovina et al. (2022) <doi:10.1093/genetics/iyac126>.
Author: Inna Gerlovina [aut, cre]
Maintainer: Inna Gerlovina <innager@berkeley.edu>
Diff between dcifer versions 1.5.0 dated 2025-11-11 and 1.5.2 dated 2026-05-07
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/ibd.R | 8 ++++++++ R/prep.R | 2 +- build/vignette.rds |binary inst/doc/vignetteDcifer.pdf |binary 6 files changed, 18 insertions(+), 10 deletions(-)
Title: Multi-Way Component Analysis
Description: For single tensor data, any matrix factorization method can be specified the matricised tensor in each dimension by Multi-way Component Analysis (MWCA). An originally extended MWCA is also implemented to specify and decompose multiple matrices and tensors simultaneously (CoupledMWCA). See the reference section of GitHub README.md <https://github.com/rikenbit/mwTensor>, for details of the methods.
Author: Koki Tsuyuzaki [aut, cre]
Maintainer: Koki Tsuyuzaki <k.t.the-answer@hotmail.co.jp>
Diff between mwTensor versions 1.1.0 dated 2023-07-06 and 1.2.2 dated 2026-05-07
mwTensor-1.1.0/mwTensor/R/CoupledMWCA_Check.R |only mwTensor-1.2.2/mwTensor/DESCRIPTION | 9 mwTensor-1.2.2/mwTensor/MD5 | 51 +++-- mwTensor-1.2.2/mwTensor/NAMESPACE | 14 + mwTensor-1.2.2/mwTensor/R/AllClasses.R | 28 ++ mwTensor-1.2.2/mwTensor/R/AllGenerics.R | 14 + mwTensor-1.2.2/mwTensor/R/CoupledMWCA_Check_common.R | 79 +------ mwTensor-1.2.2/mwTensor/R/CoupledMWCA_Check_specific.R | 99 ++-------- mwTensor-1.2.2/mwTensor/R/MWCAProgram.R |only mwTensor-1.2.2/mwTensor/R/checkCoupledMWCA.R |only mwTensor-1.2.2/mwTensor/R/compileMWCAProgram.R |only mwTensor-1.2.2/mwTensor/R/executeMWCAProgram.R |only mwTensor-1.2.2/mwTensor/R/initCoupledMWCA.R |only mwTensor-1.2.2/mwTensor/R/mwTensor-internal.R | 76 +++++++ mwTensor-1.2.2/mwTensor/R/refineFactor.R |only mwTensor-1.2.2/mwTensor/build/partial.rdb |binary mwTensor-1.2.2/mwTensor/build/vignette.rds |only mwTensor-1.2.2/mwTensor/inst/NEWS | 55 +++++ mwTensor-1.2.2/mwTensor/inst/doc |only mwTensor-1.2.2/mwTensor/man/CoupledMWCA.Rd | 8 mwTensor-1.2.2/mwTensor/man/CoupledMWCAInit-class.Rd |only mwTensor-1.2.2/mwTensor/man/MWCAProgram.Rd |only mwTensor-1.2.2/mwTensor/man/RefinedFactor-class.Rd |only mwTensor-1.2.2/mwTensor/man/checkCoupledMWCA.Rd |only mwTensor-1.2.2/mwTensor/man/compileMWCAProgram.Rd |only mwTensor-1.2.2/mwTensor/man/defaultCoupledMWCAParams.Rd | 2 mwTensor-1.2.2/mwTensor/man/executeMWCAProgram.Rd |only mwTensor-1.2.2/mwTensor/man/initCoupledMWCA.Rd |only mwTensor-1.2.2/mwTensor/man/mwTensor-package.Rd | 2 mwTensor-1.2.2/mwTensor/man/refineFactor.Rd |only mwTensor-1.2.2/mwTensor/man/validateMWCAProgram.Rd |only mwTensor-1.2.2/mwTensor/tests/testthat.R | 4 mwTensor-1.2.2/mwTensor/tests/testthat/test_MWCAProgram.R |only mwTensor-1.2.2/mwTensor/tests/testthat/test_checkCoupledMWCA.R |only mwTensor-1.2.2/mwTensor/tests/testthat/test_initCoupledMWCA.R |only mwTensor-1.2.2/mwTensor/tests/testthat/test_refineFactor.R |only mwTensor-1.2.2/mwTensor/vignettes |only 37 files changed, 281 insertions(+), 160 deletions(-)
Title: Publication-Quality 'ggplot2' Visualisation
Description: Wrapper 'ggplot2' functions for publication-quality visualisation.
Aligned with 'ggplot2' and 'tidyverse'. Covers much of what 'ggplot2' does.
Author: David Hodge [aut, cre, cph]
Maintainer: David Hodge <davidhodge931@gmail.com>
Diff between ggblanket versions 12.4.0 dated 2025-06-03 and 20.0.0 dated 2026-05-07
ggblanket-12.4.0/ggblanket/R/aes.R |only ggblanket-12.4.0/ggblanket/R/annotate_axis_line.R |only ggblanket-12.4.0/ggblanket/R/bind_each_all.R |only ggblanket-12.4.0/ggblanket/R/colour.R |only ggblanket-12.4.0/ggblanket/R/dark_mode.R |only ggblanket-12.4.0/ggblanket/R/flex_mode.R |only ggblanket-12.4.0/ggblanket/R/get_base.R |only ggblanket-12.4.0/ggblanket/R/gg_area.R |only ggblanket-12.4.0/ggblanket/R/gg_bar.R |only ggblanket-12.4.0/ggblanket/R/gg_bin_2d.R |only ggblanket-12.4.0/ggblanket/R/gg_blanket.R |only ggblanket-12.4.0/ggblanket/R/gg_boxplot.R |only ggblanket-12.4.0/ggblanket/R/gg_col.R |only ggblanket-12.4.0/ggblanket/R/gg_contour.R |only ggblanket-12.4.0/ggblanket/R/gg_contour_filled.R |only ggblanket-12.4.0/ggblanket/R/gg_crossbar.R |only ggblanket-12.4.0/ggblanket/R/gg_density.R |only ggblanket-12.4.0/ggblanket/R/gg_density_2d.R |only ggblanket-12.4.0/ggblanket/R/gg_density_2d_filled.R |only ggblanket-12.4.0/ggblanket/R/gg_errorbar.R |only 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ggblanket-20.0.0/ggblanket/R/gg-histogram.R |only ggblanket-20.0.0/ggblanket/R/gg-jitter.R |only ggblanket-20.0.0/ggblanket/R/gg-line.R |only ggblanket-20.0.0/ggblanket/R/gg-linerange.R |only ggblanket-20.0.0/ggblanket/R/gg-path.R |only ggblanket-20.0.0/ggblanket/R/gg-point.R |only ggblanket-20.0.0/ggblanket/R/gg-polygon.R |only ggblanket-20.0.0/ggblanket/R/gg-qq.R |only ggblanket-20.0.0/ggblanket/R/gg-quantile.R |only ggblanket-20.0.0/ggblanket/R/gg-raster.R |only ggblanket-20.0.0/ggblanket/R/gg-rect.R |only ggblanket-20.0.0/ggblanket/R/gg-ribbon.R |only ggblanket-20.0.0/ggblanket/R/gg-segment.R |only ggblanket-20.0.0/ggblanket/R/gg-sf.R |only ggblanket-20.0.0/ggblanket/R/gg-smooth.R |only ggblanket-20.0.0/ggblanket/R/gg-spoke.R |only ggblanket-20.0.0/ggblanket/R/gg-step.R |only ggblanket-20.0.0/ggblanket/R/gg-tile.R |only ggblanket-20.0.0/ggblanket/R/gg-violin.R |only ggblanket-20.0.0/ggblanket/R/ggblanket-package.R | 20 ggblanket-20.0.0/ggblanket/R/set-blanket.R |only 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ggblanket-20.0.0/ggblanket/man/gg_density2d_filled.Rd |only ggblanket-20.0.0/ggblanket/man/gg_errorbar.Rd | 561 +++++++-- ggblanket-20.0.0/ggblanket/man/gg_freqpoly.Rd | 522 +++++++- ggblanket-20.0.0/ggblanket/man/gg_hex.Rd | 518 +++++++- ggblanket-20.0.0/ggblanket/man/gg_histogram.Rd | 523 +++++++- ggblanket-20.0.0/ggblanket/man/gg_jitter.Rd | 531 +++++++-- ggblanket-20.0.0/ggblanket/man/gg_line.Rd | 537 +++++++-- ggblanket-20.0.0/ggblanket/man/gg_linerange.Rd | 588 ++++++++-- ggblanket-20.0.0/ggblanket/man/gg_path.Rd | 541 +++++++-- ggblanket-20.0.0/ggblanket/man/gg_point.Rd | 558 +++++++-- ggblanket-20.0.0/ggblanket/man/gg_polygon.Rd | 556 +++++++-- ggblanket-20.0.0/ggblanket/man/gg_qq.Rd | 531 +++++++-- ggblanket-20.0.0/ggblanket/man/gg_quantile.Rd | 524 +++++++- ggblanket-20.0.0/ggblanket/man/gg_raster.Rd | 527 +++++++- ggblanket-20.0.0/ggblanket/man/gg_rect.Rd | 551 +++++++-- ggblanket-20.0.0/ggblanket/man/gg_ribbon.Rd | 534 +++++++-- ggblanket-20.0.0/ggblanket/man/gg_segment.Rd | 570 ++++++++- ggblanket-20.0.0/ggblanket/man/gg_sf.Rd | 519 +++++++- ggblanket-20.0.0/ggblanket/man/gg_smooth.Rd | 537 +++++++-- ggblanket-20.0.0/ggblanket/man/gg_spoke.Rd |only ggblanket-20.0.0/ggblanket/man/gg_step.Rd | 538 +++++++-- ggblanket-20.0.0/ggblanket/man/gg_tile.Rd | 535 +++++++-- ggblanket-20.0.0/ggblanket/man/gg_violin.Rd | 531 +++++++-- ggblanket-20.0.0/ggblanket/man/ggblanket-package.Rd | 4 ggblanket-20.0.0/ggblanket/man/set_blanket.Rd | 135 +- 163 files changed, 13491 insertions(+), 3691 deletions(-)
Title: Advanced Continuous Glucose Monitoring Analysis with
High-Performance C++ Backend
Description: Tools for advanced analysis of continuous glucose monitoring (CGM)
time-series, implementing GRID (Glucose Rate Increase Detector) and GRID-based
algorithms for postprandial peak detection, and detection of hypoglycemic and
hyperglycemic episodes (Levels 1/2/Extended) aligned with international consensus
CGM metrics. Core algorithms are implemented in optimized C++ using 'Rcpp' to
provide accurate and fast analysis on large datasets.
Author: Sang Ho Park [aut, cre],
Rosa Oh [aut, ctb],
Sang-Man Jin [aut, ctb]
Maintainer: Sang Ho Park <shstat1729@gmail.com>
Diff between cgmguru versions 0.1.0 dated 2025-11-05 and 0.2.0 dated 2026-05-07
DESCRIPTION | 6 MD5 | 161 +++--- NEWS.md | 18 R/cgmguru-functions-docs.R | 635 ++++++++++++++----------- R/cgmguru-package.R | 32 - R/function_overrides.R | 155 ++++++ inst/doc/detect_all_events.R | 4 inst/doc/detect_all_events.Rmd | 5 inst/doc/detect_all_events.html | 25 inst/doc/detect_between_maxima.html | 9 inst/doc/detect_hyperglycemic_events.html | 345 ++++++------- inst/doc/detect_hypoglycemic_events.html | 279 +++++----- inst/doc/examples.R | 2 inst/doc/examples.Rmd | 2 inst/doc/examples.html | 197 +++---- inst/doc/excursion.Rmd | 2 inst/doc/excursion.html | 3 inst/doc/find_local_maxima.html | 1 inst/doc/find_max_after_hours.html | 15 inst/doc/find_max_before_hours.html | 15 inst/doc/find_min_after_hours.html | 15 inst/doc/find_min_before_hours.html | 15 inst/doc/find_new_maxima.html | 5 inst/doc/grid.html | 23 inst/doc/intro.R | 32 - inst/doc/intro.Rmd | 36 - inst/doc/intro.html | 253 ++++----- inst/doc/maxima_grid.html | 1 inst/doc/mod_grid.html | 1 inst/doc/orderfast.html | 1 inst/doc/start_finder.Rmd | 2 inst/doc/start_finder.html | 15 inst/doc/transform_df.html | 29 - inst/examples/detect_hyperglycemic_events.R | 18 inst/examples/detect_hypoglycemic_events.R | 15 inst/examples/find_max_after_hours.R | 14 inst/examples/find_max_before_hours.R | 14 inst/examples/find_min_after_hours.R | 14 inst/examples/find_min_before_hours.R | 14 inst/examples/start_finder.R | 8 inst/examples/transform_df.R | 4 man/cgmguru-package.Rd | 32 - man/detect_all_events.Rd | 2 man/detect_between_maxima.Rd | 10 man/detect_hyperglycemic_events.Rd | 139 +++-- man/detect_hypoglycemic_events.Rd | 127 +++-- man/excursion.Rd | 6 man/find_max_after_hours.Rd | 28 - man/find_max_before_hours.Rd | 26 - man/find_min_after_hours.Rd | 24 man/find_min_before_hours.Rd | 24 man/find_new_maxima.Rd | 12 man/grid.Rd | 2 man/maxima_grid.Rd | 9 man/mod_grid.Rd | 13 man/start_finder.Rd | 16 man/transform_df.Rd | 30 - src/detect_all_events.cpp | 27 - src/detect_hyperglycemic_events.cpp | 147 +++-- src/detect_hypoglycemic_events.cpp | 14 src/excursion.cpp | 2 src/find_max_after_hours.cpp | 6 src/find_max_before_hours.cpp | 6 src/find_min_after_hours.cpp | 6 src/find_min_before_hours.cpp | 6 src/find_new_maxima.cpp | 6 src/grid.cpp | 2 src/mod_grid.cpp | 2 src/start_finder.cpp | 2 tests/testthat/test-events.R | 31 + tests/testthat/test-find_local_maxima.R | 4 tests/testthat/test-find_new_maxima-branches.R | 4 tests/testthat/test-function_overrides.R | 4 tests/testthat/test-pre-recovery-events.R |only tests/testthat/test-start_finder.R | 4 tests/testthat/test-transform-between.R | 2 tests/testthat/test-windowing.R | 24 vignettes/detect_all_events.Rmd | 5 vignettes/examples.Rmd | 2 vignettes/excursion.Rmd | 2 vignettes/intro.Rmd | 36 - vignettes/start_finder.Rmd | 2 82 files changed, 1853 insertions(+), 1433 deletions(-)
Title: Non-Parametric Causal Effects of Feasible Interventions Based on
Modified Treatment Policies
Description: Non-parametric estimators for casual effects based on longitudinal modified treatment
policies as described in Diaz, Williams, Hoffman, and Schenck <doi:10.1080/01621459.2021.1955691>, traditional point treatment,
and traditional longitudinal effects. Continuous, binary, categorical treatments, and multivariate treatments are allowed as well are
censored outcomes. The treatment mechanism is estimated via a density ratio classification procedure
irrespective of treatment variable type. For both continuous and binary outcomes, additive treatment effects
can be calculated and relative risks and odds ratios may be calculated for binary outcomes.
Supports survival outcomes with competing risks (Diaz, Hoffman, and Hejazi; <doi:10.1007/s10985-023-09606-7>).
Author: Nicholas Williams [aut, cre, cph] ,
Ivan Diaz [aut, cph] ,
Beaudan Campbell-Brown [ctb]
Maintainer: Nicholas Williams <ntwilliams.personal@gmail.com>
Diff between lmtp versions 1.5.3 dated 2025-07-24 and 1.5.4 dated 2026-05-07
DESCRIPTION | 14 +++++++------- MD5 | 20 +++++++++++--------- NAMESPACE | 1 - NEWS.md | 13 +++++++++++++ R/contrasts.R | 10 ++++++++-- R/lmtp-package.R | 1 - R/make_folds.R |only R/sl.R | 6 ++++++ build/partial.rdb |binary man/lmtp-package.Rd | 2 +- tests/testthat/test-checks.R | 13 +++++++++++++ tests/testthat/test-make_folds.R |only 12 files changed, 59 insertions(+), 21 deletions(-)
Title: A Data Analysis GUI for R
Description: An intuitive, cross-platform graphical data analysis system. It uses menus and dialogs to guide the user efficiently through the data manipulation and analysis process, and has an excel like spreadsheet for easy data frame visualization and editing. Deducer works best when used with the Java based R GUI JGR, but the dialogs can be called from the command line. Dialogs have also been integrated into the Windows Rgui.
Author: Ian Fellows [aut, cre]
Maintainer: Ian Fellows <ian@fellstat.com>
Diff between Deducer versions 0.9-1 dated 2025-10-02 and 0.9-2 dated 2026-05-06
DESCRIPTION | 10 ++-- MD5 | 14 +++--- NEWS | 9 +++ R/zzz.R | 113 ++++++++++++++++++++++++++++++++++++++----------- inst/java/deducer.jar |binary java/org/deducer.jar |binary man/Helpers.Rd | 3 + man/deducer.addmenu.Rd | 6 +- 8 files changed, 116 insertions(+), 39 deletions(-)
Title: Mediterranean Landscape Simulation
Description: Simulate forest hydrology, forest function and dynamics over landscapes [De Caceres et al. (2015) <doi:10.1016/j.agrformet.2015.06.012>]. Parallelization is allowed in several simulation functions and simulations may be conducted including spatial processes such as lateral water transfer and seed dispersal.
Author: Miquel De Caceres [aut, cre],
Aitor Ameztegui [aut] ,
Maria Gonzalez [aut] ,
Nuria Aquilue [aut],
Daniel Caviedes-Voullieme [aut],
Mario Morales-Hernandez [aut],
Mario Beltran [ctb],
Rodrigo Balaguer-Romano [ctb] ,
Roberto Molowny-Horas [ctb]
Maintainer: Miquel De Caceres <miquelcaceres@gmail.com>
Diff between medfateland versions 2.8.1 dated 2025-10-22 and 3.0.0 dated 2026-05-06
DESCRIPTION | 16 MD5 | 72 +- NAMESPACE | 3 R/RcppExports.R | 20 R/add_soilgrids.R | 176 ++--- R/initialize_landscape.R | 34 R/medfateland-package.R | 1 R/model_land.R | 186 +++-- R/model_land_utils.R | 22 R/model_spatial_day.R | 58 + R/plot_summary.R | 45 + R/simulation_summary.R | 4 R/sysdata.rda |binary man/plot_summary.Rd | 10 man/simulation_summary.Rd | 4 man/soil_parametrization.Rd | 21 man/spwb_land.Rd | 2 man/spwb_land_day.Rd | 12 man/unnest_summary.Rd |only src/RcppExports.cpp | 98 -- src/fireutils.cpp | 2 src/fireutils.h | 2 src/serghei.cpp | 2 src/serghei.h | 2 src/spwbland.cpp | 196 ++--- src/spwbland.h | 2 src/tetis.cpp | 833 +++++++++++------------- src/tetis_channel.cpp | 2 src/tetis_channel.h | 2 tests/testthat/initialized_objects |only tests/testthat/test_land.R | 9 tests/testthat/test_old_version_input_objects.R |only tests/testthat/test_spatial.R | 1 tests/testthat/test_spatial_day.R | 25 34 files changed, 932 insertions(+), 930 deletions(-)
Title: Online Changepoint Detection in Univariate and Multivariate Data
Streams
Description: Provides high-performance online changepoint detection in univariate and multivariate data
streams. Implements efficient 'C++' backends for the 'focus', 'md-focus' and 'np-focus'
algorithms, with an 'R' interface for real-time monitoring and offline analysis.
The package bundles code from 'Qhull' <http://www.qhull.org/>, by C. B. Barber and
The Geometry Center. See 'inst/COPYRIGHTS' for details.
Author: Gaetano Romano [aut, cre, trl],
Kes Ward [aut],
Yuntang Fan [aut],
Guillem Rigaill [aut],
Vincent Runge [aut],
Paul Fearnhead [aut],
Idris A. Eckley [aut],
C. B. Barber [ctb, cph] ,
The Geometry Center [cph]
Maintainer: Gaetano Romano <g.romano@lancaster.ac.uk>
Diff between focus versions 0.1.3 dated 2026-03-31 and 0.1.5 dated 2026-05-06
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- src/ARpInfo.h | 42 ++++++++++++++++++++++++++---------------- src/focus_rcpp_module.cpp | 20 ++++++++++++++++---- 4 files changed, 49 insertions(+), 27 deletions(-)
Title: Explore 'Wikidata' Through Tidy Data Frames
Description: Query 'Wikidata' API <https://www.wikidata.org/wiki/Wikidata:Main_Page> with ease, get tidy data frames in response, and cache data in a local database.
Author: Giorgio Comai [aut, cre, cph] ,
EDJNet [fnd]
Maintainer: Giorgio Comai <giorgio.comai@cci.tn.it>
Diff between tidywikidatar versions 0.6.1 dated 2026-02-09 and 0.6.2 dated 2026-05-06
DESCRIPTION | 8 - MD5 | 122 +++++++++++------------ NEWS.md | 5 R/tw_check.R | 6 - R/tw_extract.R | 22 ++-- R/tw_filter.R | 19 ++- R/tw_get.R | 47 ++++++-- R/tw_get_cached_search.R | 4 R/tw_get_field.R | 7 + R/tw_get_image.R | 48 ++++++--- R/tw_get_item.R | 12 +- R/tw_get_others.R | 39 +++++-- R/tw_get_property.R | 36 ++++-- R/tw_get_property_description.R | 6 - R/tw_get_property_label.R | 4 R/tw_get_property_with_details.R | 41 +++++-- R/tw_get_qualifiers.R | 37 +++++- R/tw_get_wikipedia_page_section_links.R | 6 - R/tw_search.R | 50 ++++++++- R/tw_write_search_to_cache.R | 3 build/vignette.rds |binary man/tw_check_search.Rd | 6 - man/tw_create_cache_folder.Rd | 4 man/tw_extract_qualifier.Rd | 28 ++++- man/tw_filter.Rd | 2 man/tw_filter_first.Rd | 2 man/tw_filter_people.Rd | 8 - man/tw_get.Rd | 8 + man/tw_get_cached_search.Rd | 4 man/tw_get_description.Rd | 20 +++ man/tw_get_field.Rd | 7 + man/tw_get_image.Rd | 18 ++- man/tw_get_image_metadata.Rd | 20 +++ man/tw_get_image_metadata_single.Rd | 14 ++ man/tw_get_image_same_length.Rd | 24 +++- man/tw_get_item.Rd | 9 + man/tw_get_label.Rd | 19 ++- man/tw_get_p1.Rd | 18 +++ man/tw_get_property.Rd | 16 ++- man/tw_get_property_description.Rd | 4 man/tw_get_property_description_single.Rd | 2 man/tw_get_property_label_single.Rd | 4 man/tw_get_property_same_length.Rd | 20 +++ man/tw_get_property_with_details.Rd | 18 +++ man/tw_get_property_with_details_single.Rd | 21 +++ man/tw_get_qualifiers.Rd | 12 ++ man/tw_get_qualifiers_single.Rd | 12 ++ man/tw_get_single.Rd | 8 + man/tw_get_wikipedia.Rd | 20 +++ man/tw_get_wikipedia_section_links_api_url.Rd | 6 - man/tw_reset_item_cache.Rd | 8 - man/tw_reset_qualifiers_cache.Rd | 4 man/tw_reset_wikipedia_category_members_cache.Rd | 4 man/tw_reset_wikipedia_page_cache.Rd | 4 man/tw_reset_wikipedia_page_links_cache.Rd | 4 man/tw_reset_wikipedia_page_sections_cache.Rd | 4 man/tw_search.Rd | 8 + man/tw_search_item.Rd | 4 man/tw_search_single.Rd | 14 ++ man/tw_write_qualifiers_to_cache.Rd | 3 man/tw_write_search_to_cache.Rd | 3 tests/testthat/test-get_image.R | 15 ++ 62 files changed, 713 insertions(+), 238 deletions(-)
Title: Access the Open Experience Sampling Method Database
Description: Provides programmatic access to the Open Experience Sampling Method ('openESM') database (<https://openesmdata.org>),
a collection of harmonized experience sampling datasets. The package enables researchers to discover, download,
and work with the datasets while ensuring proper citation and license compliance.
Author: Bjoern S. Siepe [aut, cre, cph] ,
Matthias Kloft [aut]
Maintainer: Bjoern S. Siepe <bjoernsiepe@gmail.com>
Diff between openesm versions 0.1.2 dated 2025-12-03 and 0.2.0 dated 2026-05-06
DESCRIPTION | 6 +- MD5 | 14 +++--- NAMESPACE | 2 NEWS.md | 63 +++++++++++++++++------------ R/get_dataset.R | 81 ++++++++++++++++++++++++++++---------- R/zenodo.R | 66 ++++++------------------------ tests/testthat/test-get_dataset.R | 16 ++++++- tests/testthat/test-zenodo.R | 37 ++++++++++------- 8 files changed, 159 insertions(+), 126 deletions(-)
Title: Simulate Discrete Character Data along Phylogenetic Trees
Description: Tools to simulate morphological traits along phylogenetic trees
with branch lengths representing evolutionary distance or time.
Includes functions for visualizing evolutionary processes along trees
and within morphological character matrices.
Author: Laura Mulvey [aut, cre, cph],
Tim Brandler [aut, cph],
Alessio Capobianco [aut, cph],
Rachel Warnock [aut, cph],
Joelle Barido-Sottani [aut, cph]
Maintainer: Laura Mulvey <lauramulvey479@gmail.com>
Diff between MorphSim versions 0.1.0 dated 2026-01-12 and 1.2.0 dated 2026-05-06
DESCRIPTION | 10 +- MD5 | 49 ++++++++----- NAMESPACE | 14 +++ R/morpho.R | 5 + R/plot.morpho.R | 62 ++++++++++++++-- R/plotMorphoGrid.R | 2 R/reconstruct.tree.R | 2 R/sim.missing.data.R | 127 ++++++++++++++------------------- R/sim.morpho.R | 157 +++++++++++++++++++++++++++++++++-------- R/summary.r | 176 +++++++++++++++++++++++++++++++++++++++++++++-- R/write.r | 57 +++++++++++++++ README.md | 52 +++++++++++-- build |only inst/doc |only man/convergent_evol.Rd | 9 ++ man/find_path_to_tip.Rd | 4 - man/get.convergent.Rd |only man/get.matrix.Rd |only man/get.reconstructed.Rd | 7 + man/get.transitions.Rd |only man/morpho.Rd | 6 + man/plot.morpho.Rd | 16 ++-- man/sim.missing.data.Rd | 37 ++++++--- man/sim.morpho.Rd | 112 ++++++++++++++++++++++------- man/stats.morpho.Rd | 5 + man/write.morpho.Rd |only tests |only vignettes |only 28 files changed, 703 insertions(+), 206 deletions(-)
Title: Entropy Partitioning to Measure Diversity
Description: Measurement and partitioning of diversity, based on Tsallis entropy, following Marcon and Herault (2015) <doi:10.18637/jss.v067.i08>.
'divent' provides functions to estimate alpha, beta and gamma diversity of communities, including phylogenetic and functional diversity.
Author: Eric Marcon [aut, cre] ,
Florence Puech [aut]
Maintainer: Eric Marcon <eric.marcon@agroparistech.fr>
Diff between divent versions 0.5-3 dated 2025-08-27 and 0.5-4 dated 2026-05-06
DESCRIPTION | 14 - MD5 | 82 +++---- NEWS.md | 26 +- R/accum_sp_hill.R | 3 R/coverage.R | 39 ++- R/div_gen_simpson.R | 1 R/div_hill.R | 2 R/div_hurlbert.R | 1 R/div_richness.R | 28 +- R/ent_phylo.R | 2 R/ent_similarity.R | 2 R/ent_tsallis.R | 2 R/metacommunity.R | 2 R/package.R | 5 build/partial.rdb |binary build/vignette.rds |binary inst/REFERENCES.bib | 414 +++++++++++++++++++++++++++++++++------ inst/doc/divent.R | 6 inst/doc/divent.Rmd | 39 +-- inst/doc/divent.html | 38 +-- man/accum_div_phylo.Rd | 2 man/alphahull.Rd | 86 ++++---- man/autoplot.wmppp.Rd | 4 man/check_divent_args.Rd | 2 man/coverage.Rd | 1 man/div_gen_simpson.Rd | 142 ++++++------- man/div_pd.Rd | 2 man/div_phylo.Rd | 2 man/divent-package.Rd | 1 man/ent_allen.Rd | 2 man/ent_gen_simpson.Rd | 168 +++++++-------- man/ent_phylo.Rd | 2 man/ent_rao.Rd | 2 man/mock_3sp.Rd | 2 man/non_species_columns.Rd | 5 man/paracou_6_taxo.Rd | 2 man/phylo_divent.Rd | 4 man/plot.phylo_divent.Rd | 2 man/plot.species_distribution.Rd | 2 man/profile_phylo.Rd | 2 man/reexports.Rd | 2 vignettes/divent.Rmd | 39 +-- 42 files changed, 746 insertions(+), 436 deletions(-)
Title: A C++11 Interface for R's C Interface
Description: Provides a header only, C++11 interface to R's C
interface. Compared to other approaches 'cpp11' strives to be safe
against long jumps from the C API as well as C++ exceptions, conform
to normal R function semantics and supports interaction with 'ALTREP'
vectors.
Author: Davis Vaughan [aut, cre] ,
Jim Hester [aut] ,
Romain Francois [aut] ,
Benjamin Kietzman [ctb],
Posit Software, PBC [cph, fnd]
Maintainer: Davis Vaughan <davis@posit.co>
Diff between cpp11 versions 0.5.4 dated 2026-04-04 and 0.5.5 dated 2026-05-06
DESCRIPTION | 6 - MD5 | 42 ++++++------- NEWS.md | 6 + R/source.R | 65 +++++++++++++++----- README.md | 2 inst/doc/FAQ.Rmd | 2 inst/doc/FAQ.html | 10 +-- inst/doc/cpp11.R | 32 ++++++---- inst/doc/cpp11.Rmd | 44 ++++++++----- inst/doc/cpp11.html | 130 ++++++++++++++++++++++------------------- inst/doc/internals.Rmd | 2 inst/doc/internals.html | 2 inst/doc/motivations.Rmd | 14 ++-- inst/doc/motivations.html | 16 ++--- inst/include/cpp11/protect.hpp | 74 ++++++++++++++++++----- man/cpp_source.Rd | 4 - tests/testthat/fixtures |only tests/testthat/test-source.R | 14 ++++ vignettes/FAQ.Rmd | 2 vignettes/cpp11.Rmd | 44 ++++++++----- vignettes/internals.Rmd | 2 vignettes/motivations.Rmd | 14 ++-- 22 files changed, 333 insertions(+), 194 deletions(-)
Title: Blinded Sample Size Recalculation
Description: Computation of key characteristics and plots for blinded sample size recalculation.
Continuous as well as binary endpoints are supported in superiority and non-inferiority trials.
See Baumann, Pilz, Kieser (2022) <doi:10.32614/RJ-2022-001> for a detailed description.
The implemented methods include the approaches by
Lu, K. (2016) <doi:10.1002/pst.1737>,
Kieser, M. and Friede, T. (2000) <doi:10.1002/(SICI)1097-0258(20000415)19:7%3C901::AID-SIM405%3E3.0.CO;2-L>,
Friede, T. and Kieser, M. (2004) <doi:10.1002/pst.140>,
Friede, T., Mitchell, C., Mueller-Veltern, G. (2007) <doi:10.1002/bimj.200610373>, and
Friede, T. and Kieser, M. (2011) <doi:10.3414/ME09-01-0063>.
Author: Lukas Baumann [aut, cre] ,
Maximilian Pilz [aut] ,
Institute of Medical Biometry - University of Heidelberg [cph]
Maintainer: Lukas Baumann <baumann@imbi.uni-heidelberg.de>
Diff between blindrecalc versions 1.1.0 dated 2025-06-17 and 1.1.1 dated 2026-05-06
DESCRIPTION | 11 ++++++----- MD5 | 18 +++++++++--------- NEWS.md | 4 ++++ R/Student.R | 23 ++++++++++++++++++----- R/test_statistics.R | 6 +++--- README.md | 19 ++++++++++--------- build/vignette.rds |binary man/Student.Rd | 6 +++--- man/simulation.Rd | 8 ++++---- tests/testthat/test_t_test.R | 12 +++++++++++- 10 files changed, 68 insertions(+), 39 deletions(-)