Title: Create 'shiny' Applications for Cox Proportional Hazards Models
Description: Takes one or more fitted Cox proportional hazards models and writes
a 'shiny' application to a directory specified by the user. The 'shiny'
application displays predicted survival curves based on user input, and
contains none of the original data used to create the Cox model or models.
The goal is towards visualization and presentation of predicted survival
curves.
Author: Harrison Clement [aut, cre],
Subodh Selukar [aut],
Stanley Pounds [aut],
St Jude Children's Research Hospital [fnd]
Maintainer: Harrison Clement <harrisonclement16@gmail.com>
Diff between shinyCox versions 1.1.2 dated 2024-12-08 and 1.1.3 dated 2025-01-31
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 4 ++++ R/cox_predictions.R | 2 +- R/misc_functions.R | 2 +- R/shinybuilder.R | 2 +- 6 files changed, 15 insertions(+), 11 deletions(-)
Title: Compute and Plot Zonohedra from Vector Generators
Description: Computes a zonohedron from real vector generators. The package also computes zonogons (2D zonotopes) and zonosegs (1D zonotopes). An elementary S3 class for matroids is included, which supports matroids with rank 3, 2, and 1. Optimization methods are taken from Heckbert (1985) <https://www.cs.cmu.edu/~ph/zono.ps.gz>.
Author: Glenn Davis [aut, cre]
Maintainer: Glenn Davis <gdavis@gluonics.com>
Diff between zonohedra versions 0.3-0 dated 2024-07-09 and 0.4-0 dated 2025-01-31
DESCRIPTION | 8 MD5 | 48 - NEWS.md | 9 R/matroid.R | 58 + R/nearequal.R | 18 R/trans2.R | 34 - R/utils.R | 27 R/zonohedron.R | 178 ++++- R/zonoseg.R | 5 R/zonotope.R | 44 + build/vignette.rds |binary inst/doc/matroids.html | 360 ++++++++--- inst/doc/raytrace.R | 12 inst/doc/raytrace.Rmd | 12 inst/doc/raytrace.html | 300 +++++---- inst/doc/transitions.R | 4 inst/doc/transitions.Rmd | 24 inst/doc/transitions.html | 1285 +++++++++++++++++++++++++++++++----------- inst/doc/zonohedra-guide.html | 521 ++++++++++------- inst/doc/zonotopes.html | 686 +++++++++++++++------- man/boundarypgramdata.Rd | 63 +- man/inside.Rd | 13 src/matroid.c | 17 vignettes/raytrace.Rmd | 12 vignettes/transitions.Rmd | 24 25 files changed, 2643 insertions(+), 1119 deletions(-)
Title: Linear Model Evaluation with Randomized Residuals in a
Permutation Procedure
Description: Linear model calculations are made for many random versions of data.
Using residual randomization in a permutation procedure, sums of squares are
calculated over many permutations to generate empirical probability distributions
for evaluating model effects. This packaged is described by
Collyer & Adams (2018). Additionally, coefficients, statistics, fitted values, and residuals generated over many
permutations can be used for various procedures including pairwise tests, prediction, classification, and
model comparison. This package should provide most tools one could need for the analysis of
high-dimensional data, especially in ecology and evolutionary biology, but certainly other fields, as well.
Author: Michael Collyer [aut, cre] ,
Dean Adams [aut]
Maintainer: Michael Collyer <mlcollyer@gmail.com>
Diff between RRPP versions 2.0.4 dated 2024-11-13 and 2.1.0 dated 2025-01-31
DESCRIPTION | 6 MD5 | 53 ++++--- NAMESPACE | 19 ++ NEWS.md | 7 R/RRPP.support.code.r | 9 + R/RRPP.utils.r | 287 ++++++++++++++++++++++++++++++++++++++-- R/add.tree.r | 4 R/betaTest.r |only R/coef.lm.rrpp.r | 75 +++++++--- R/kcomp.r |only R/logLik.lm.rrpp.r | 7 R/model.comparison.r | 35 +++- R/pairwise.model.Z.r |only R/pairwise.r | 14 + build/vignette.rds |binary inst/doc/ANOVA.vs.MANOVA.html | 4 inst/doc/Using.RRPP.R | 2 inst/doc/Using.RRPP.html | 52 ++++--- man/betaTest.Rd |only man/coef.lm.rrpp.Rd | 29 +++- man/kcomp.Rd |only man/logLik.lm.rrpp.Rd | 13 + man/model.comparison.Rd | 13 + man/pairwise.Rd | 14 + man/pairwise.model.Z.Rd |only man/plot.kcomp.Rd |only man/print.betaTest.Rd |only man/print.kcomp.Rd |only man/print.pairwise.model.Z.Rd |only man/summary.betaTest.Rd |only man/summary.kcomp.Rd |only man/summary.pairwise.Rd | 16 +- man/summary.pairwise.model.Z.Rd |only tests/testthat/test-RRPP.R | 165 ++++++++++++++++++++++ 34 files changed, 717 insertions(+), 107 deletions(-)
Title: Tools for Assessing Clustering
Description: A set of tools for evaluating clustering robustness using
proportion of ambiguously clustered pairs (Senbabaoglu et al. (2014)
<doi:10.1038/srep06207>), as well as similarity across methods
and method stability using element-centric clustering comparison (Gates et
al. (2019) <doi:10.1038/s41598-019-44892-y>). Additionally, this package
enables stability-based parameter assessment for graph-based clustering
pipelines typical in single-cell data analysis.
Author: Andi Munteanu [aut, cre],
Arash Shahsavari [aut],
Rafael Kollyfas [ctb],
Miguel Larraz Lopez de Novales [aut],
Liviu Ciortuz [ctb],
Irina Mohorianu [aut]
Maintainer: Andi Munteanu <am3019@cam.ac.uk>
Diff between ClustAssess versions 0.3.0 dated 2022-01-26 and 1.0.0 dated 2025-01-31
ClustAssess-0.3.0/ClustAssess/R/utils-pipe.R |only ClustAssess-0.3.0/ClustAssess/build |only ClustAssess-0.3.0/ClustAssess/inst/doc |only ClustAssess-0.3.0/ClustAssess/man/figures |only ClustAssess-0.3.0/ClustAssess/man/get_clustering_difference.Rd |only ClustAssess-0.3.0/ClustAssess/man/get_feature_stability.Rd |only ClustAssess-0.3.0/ClustAssess/man/get_nn_importance.Rd |only ClustAssess-0.3.0/ClustAssess/man/get_resolution_importance.Rd |only ClustAssess-0.3.0/ClustAssess/man/pipe.Rd |only ClustAssess-0.3.0/ClustAssess/man/plot_clustering_difference_boxplot.Rd |only ClustAssess-0.3.0/ClustAssess/man/plot_feature_stability_boxplot.Rd |only ClustAssess-0.3.0/ClustAssess/man/plot_feature_stability_ecs_incremental.Rd |only ClustAssess-0.3.0/ClustAssess/vignettes |only ClustAssess-1.0.0/ClustAssess/DESCRIPTION | 54 ClustAssess-1.0.0/ClustAssess/MD5 | 138 ClustAssess-1.0.0/ClustAssess/NAMESPACE | 53 ClustAssess-1.0.0/ClustAssess/R/ECS.R | 2883 +++++---- ClustAssess-1.0.0/ClustAssess/R/PAC.R | 244 ClustAssess-1.0.0/ClustAssess/R/RcppExports.R | 38 ClustAssess-1.0.0/ClustAssess/R/convert.R |only ClustAssess-1.0.0/ClustAssess/R/generics.R |only ClustAssess-1.0.0/ClustAssess/R/marker-overlap.R | 192 ClustAssess-1.0.0/ClustAssess/R/shiny-app.R |only ClustAssess-1.0.0/ClustAssess/R/shiny-comparisons.R |only ClustAssess-1.0.0/ClustAssess/R/shiny-feature-stability.R |only ClustAssess-1.0.0/ClustAssess/R/shiny-graph-clustering.R |only ClustAssess-1.0.0/ClustAssess/R/shiny-graph-construction.R |only ClustAssess-1.0.0/ClustAssess/R/shiny-info.R |only ClustAssess-1.0.0/ClustAssess/R/shiny-landing-page.R |only ClustAssess-1.0.0/ClustAssess/R/shiny-sandbox.R |only ClustAssess-1.0.0/ClustAssess/R/shiny-utils.R |only ClustAssess-1.0.0/ClustAssess/R/stability-1-dim-reduction.R |only ClustAssess-1.0.0/ClustAssess/R/stability-2-graph-construction.R |only ClustAssess-1.0.0/ClustAssess/R/stability-3-graph-clustering.R |only ClustAssess-1.0.0/ClustAssess/R/stability-based-parameter-assessment.R | 3052 ++-------- ClustAssess-1.0.0/ClustAssess/R/utils.R |only ClustAssess-1.0.0/ClustAssess/README.md | 163 ClustAssess-1.0.0/ClustAssess/inst/CITATION |only ClustAssess-1.0.0/ClustAssess/man/add_metadata.Rd |only ClustAssess-1.0.0/ClustAssess/man/assess_clustering_stability.Rd |only ClustAssess-1.0.0/ClustAssess/man/assess_feature_stability.Rd |only ClustAssess-1.0.0/ClustAssess/man/assess_nn_stability.Rd |only ClustAssess-1.0.0/ClustAssess/man/automatic_stability_assessment.Rd |only ClustAssess-1.0.0/ClustAssess/man/calculate_markers.Rd |only ClustAssess-1.0.0/ClustAssess/man/calculate_markers_shiny.Rd |only ClustAssess-1.0.0/ClustAssess/man/choose_stable_clusters.Rd |only ClustAssess-1.0.0/ClustAssess/man/consensus_cluster.Rd | 4 ClustAssess-1.0.0/ClustAssess/man/create_clustering.Rd | 18 ClustAssess-1.0.0/ClustAssess/man/create_monocle_default.Rd |only ClustAssess-1.0.0/ClustAssess/man/create_monocle_from_clustassess.Rd |only ClustAssess-1.0.0/ClustAssess/man/create_monocle_from_clustassess_app.Rd |only ClustAssess-1.0.0/ClustAssess/man/create_seurat_object_default.Rd |only ClustAssess-1.0.0/ClustAssess/man/create_seurat_object_from_clustassess_app.Rd |only ClustAssess-1.0.0/ClustAssess/man/element_agreement.Rd | 14 ClustAssess-1.0.0/ClustAssess/man/element_consistency.Rd | 16 ClustAssess-1.0.0/ClustAssess/man/element_sim.Rd | 4 ClustAssess-1.0.0/ClustAssess/man/element_sim_elscore.Rd | 4 ClustAssess-1.0.0/ClustAssess/man/element_sim_matrix.Rd | 14 ClustAssess-1.0.0/ClustAssess/man/getNNmatrix.Rd |only ClustAssess-1.0.0/ClustAssess/man/get_clusters_from_clustassess_object.Rd |only ClustAssess-1.0.0/ClustAssess/man/get_highest_prune_param.Rd |only ClustAssess-1.0.0/ClustAssess/man/get_highest_prune_param_embedding.Rd |only ClustAssess-1.0.0/ClustAssess/man/get_nn_conn_comps.Rd | 76 ClustAssess-1.0.0/ClustAssess/man/marker_overlap.Rd | 62 ClustAssess-1.0.0/ClustAssess/man/merge_partitions.Rd | 38 ClustAssess-1.0.0/ClustAssess/man/merge_resolutions.Rd | 18 ClustAssess-1.0.0/ClustAssess/man/pac_convergence.Rd | 4 ClustAssess-1.0.0/ClustAssess/man/pac_landscape.Rd | 2 ClustAssess-1.0.0/ClustAssess/man/plot_clustering_difference_facet.Rd | 56 ClustAssess-1.0.0/ClustAssess/man/plot_clustering_overall_stability.Rd |only ClustAssess-1.0.0/ClustAssess/man/plot_clustering_per_value_stability.Rd |only ClustAssess-1.0.0/ClustAssess/man/plot_connected_comps_evolution.Rd | 38 ClustAssess-1.0.0/ClustAssess/man/plot_feature_overall_stability_boxplot.Rd |only ClustAssess-1.0.0/ClustAssess/man/plot_feature_overall_stability_incremental.Rd |only ClustAssess-1.0.0/ClustAssess/man/plot_feature_per_resolution_stability_boxplot.Rd |only ClustAssess-1.0.0/ClustAssess/man/plot_feature_per_resolution_stability_incremental.Rd |only ClustAssess-1.0.0/ClustAssess/man/plot_feature_stability_ecs_facet.Rd | 52 ClustAssess-1.0.0/ClustAssess/man/plot_feature_stability_mb_facet.Rd | 48 ClustAssess-1.0.0/ClustAssess/man/plot_k_n_partitions.Rd | 84 ClustAssess-1.0.0/ClustAssess/man/plot_k_resolution_corresp.Rd | 92 ClustAssess-1.0.0/ClustAssess/man/plot_n_neigh_ecs.Rd | 33 ClustAssess-1.0.0/ClustAssess/man/plot_n_neigh_k_correspondence.Rd | 32 ClustAssess-1.0.0/ClustAssess/man/server_comparisons.Rd |only ClustAssess-1.0.0/ClustAssess/man/server_dimensionality_reduction.Rd |only ClustAssess-1.0.0/ClustAssess/man/server_graph_clustering.Rd |only ClustAssess-1.0.0/ClustAssess/man/server_graph_construction.Rd |only ClustAssess-1.0.0/ClustAssess/man/server_landing_page.Rd |only ClustAssess-1.0.0/ClustAssess/man/server_sandbox.Rd |only ClustAssess-1.0.0/ClustAssess/man/ui_comparisons.Rd |only ClustAssess-1.0.0/ClustAssess/man/ui_dimensionality_reduction.Rd |only ClustAssess-1.0.0/ClustAssess/man/ui_graph_clustering.Rd |only ClustAssess-1.0.0/ClustAssess/man/ui_graph_construction.Rd |only ClustAssess-1.0.0/ClustAssess/man/ui_landing_page.Rd |only ClustAssess-1.0.0/ClustAssess/man/ui_sandbox.Rd |only ClustAssess-1.0.0/ClustAssess/man/weighted_element_consistency.Rd |only ClustAssess-1.0.0/ClustAssess/man/write_objects.Rd |only ClustAssess-1.0.0/ClustAssess/man/write_shiny_app.Rd |only ClustAssess-1.0.0/ClustAssess/src/RcppExports.cpp | 95 ClustAssess-1.0.0/ClustAssess/src/calculate_ecs.cpp |only ClustAssess-1.0.0/ClustAssess/src/optimise_snn.cpp |only ClustAssess-1.0.0/ClustAssess/src/wilcox.cpp |only ClustAssess-1.0.0/ClustAssess/tests |only 102 files changed, 3317 insertions(+), 4304 deletions(-)
Title: Tools for Accessing the Botanical Information and Ecology
Network Database
Description: Provides Tools for Accessing the Botanical Information and Ecology Network Database. The BIEN database contains cleaned and standardized botanical data including occurrence, trait, plot and taxonomic data (See <https://bien.nceas.ucsb.edu/bien/> for more Information). This package provides functions that query the BIEN database by constructing and executing optimized SQL queries.
Author: Brian Maitner [aut, cre]
Maintainer: Brian Maitner <bmaitner@gmail.com>
Diff between BIEN versions 1.2.6 dated 2023-01-06 and 1.2.7 dated 2025-01-31
DESCRIPTION | 14 MD5 | 87 - NAMESPACE | 4 NEWS | 20 R/BIEN.R | 249 ++- R/BIEN_info.R | 3 R/BIEN_sql.R | 117 + README.md | 4 build/vignette.rds |binary inst/doc/BIEN.Rmd | 37 inst/doc/BIEN.html | 252 ++- inst/doc/BIEN_tutorial.R | 256 +-- inst/doc/BIEN_tutorial.Rmd | 20 inst/doc/BIEN_tutorial.html | 1376 ++++++++++++-------- man/BIEN.Rd | 4 man/BIEN_metadata_citation.Rd | 1 man/BIEN_metadata_data_dictionaries.Rd |only man/BIEN_metadata_database_version.Rd | 1 man/BIEN_metadata_list_political_names.Rd | 1 man/BIEN_metadata_match_data.Rd | 1 man/BIEN_occurrence_country.Rd | 3 man/BIEN_occurrence_family.Rd | 3 man/BIEN_plot_metadata.Rd | 1 man/BIEN_ranges_box.Rd | 4 man/BIEN_ranges_genus.Rd | 4 man/BIEN_ranges_intersect_species.Rd | 4 man/BIEN_ranges_list.Rd | 5 man/BIEN_ranges_load_species.Rd | 4 man/BIEN_ranges_sf.Rd | 4 man/BIEN_ranges_shapefile_to_skinny.Rd | 4 man/BIEN_ranges_skinny_ranges_to_richness_raster.Rd | 4 man/BIEN_trait_country.Rd | 4 man/BIEN_trait_family.Rd | 4 man/BIEN_trait_genus.Rd | 4 man/BIEN_trait_list.Rd | 4 man/BIEN_trait_mean.Rd | 4 man/BIEN_trait_species.Rd | 4 man/BIEN_trait_traitbyfamily.Rd | 4 man/BIEN_trait_traitbygenus.Rd | 4 man/BIEN_trait_traitbyspecies.Rd | 4 man/BIEN_trait_traits_per_species.Rd | 4 man/dot-BIEN_sql.Rd | 5 tests/testthat/test-BIEN.r | 6 vignettes/BIEN.Rmd | 37 vignettes/BIEN_tutorial.Rmd | 20 45 files changed, 1605 insertions(+), 990 deletions(-)
Title: A Tidy Framework for Changepoint Detection Analysis
Description: Changepoint detection algorithms for R are widespread but have
different interfaces and reporting conventions.
This makes the comparative analysis of results difficult.
We solve this problem by providing a tidy, unified interface for several
different changepoint detection algorithms.
We also provide consistent numerical and graphical reporting leveraging
the 'broom' and 'ggplot2' packages.
Author: Benjamin S. Baumer [aut, cre, cph]
,
Biviana Marcela Suarez Sierra [aut]
,
Arrigo Coen [aut] ,
Carlos A. Taimal [aut] ,
Xueheng Shi [ctb]
Maintainer: Benjamin S. Baumer <ben.baumer@gmail.com>
Diff between tidychangepoint versions 0.0.1 dated 2024-08-19 and 1.0.0 dated 2025-01-31
tidychangepoint-0.0.1/tidychangepoint/data/mlb_hrs.rda |only tidychangepoint-0.0.1/tidychangepoint/man/cut_inclusive.Rd |only tidychangepoint-0.0.1/tidychangepoint/man/mlb_hrs.Rd |only tidychangepoint-1.0.0/tidychangepoint/DESCRIPTION | 19 - tidychangepoint-1.0.0/tidychangepoint/MD5 | 68 +++--- tidychangepoint-1.0.0/tidychangepoint/NAMESPACE | 16 + tidychangepoint-1.0.0/tidychangepoint/NEWS.md | 12 + tidychangepoint-1.0.0/tidychangepoint/R/aaa_generics.R | 38 +++ tidychangepoint-1.0.0/tidychangepoint/R/class-fun_cpt.R | 15 + tidychangepoint-1.0.0/tidychangepoint/R/class-mod_cpt.R | 18 + tidychangepoint-1.0.0/tidychangepoint/R/class-tidycpt.R | 6 tidychangepoint-1.0.0/tidychangepoint/R/data.R | 24 +- tidychangepoint-1.0.0/tidychangepoint/R/mod_nhpp.R | 4 tidychangepoint-1.0.0/tidychangepoint/R/pkg-stats.R | 19 + tidychangepoint-1.0.0/tidychangepoint/R/segment.R | 4 tidychangepoint-1.0.0/tidychangepoint/R/tidychangepoint-package.R | 107 ++++++++++ tidychangepoint-1.0.0/tidychangepoint/R/utils.R | 30 ++ tidychangepoint-1.0.0/tidychangepoint/README.md | 99 ++++++++- tidychangepoint-1.0.0/tidychangepoint/build/partial.rdb |binary tidychangepoint-1.0.0/tidychangepoint/build/vignette.rds |binary tidychangepoint-1.0.0/tidychangepoint/data/CET.rda |binary tidychangepoint-1.0.0/tidychangepoint/data/italy_grads.rda |only tidychangepoint-1.0.0/tidychangepoint/data/mlb_diffs.rda |only tidychangepoint-1.0.0/tidychangepoint/inst/doc/tidychangepoint.html | 38 +-- tidychangepoint-1.0.0/tidychangepoint/man/BMDL.Rd | 4 tidychangepoint-1.0.0/tidychangepoint/man/CET.Rd | 5 tidychangepoint-1.0.0/tidychangepoint/man/HQC.Rd |only tidychangepoint-1.0.0/tidychangepoint/man/MBIC.Rd | 4 tidychangepoint-1.0.0/tidychangepoint/man/MDL.Rd | 6 tidychangepoint-1.0.0/tidychangepoint/man/SIC.Rd |only tidychangepoint-1.0.0/tidychangepoint/man/cut_by_tau.Rd |only tidychangepoint-1.0.0/tidychangepoint/man/italy_grads.Rd |only tidychangepoint-1.0.0/tidychangepoint/man/ls_pkgs.Rd |only tidychangepoint-1.0.0/tidychangepoint/man/mlb_diffs.Rd |only tidychangepoint-1.0.0/tidychangepoint/man/pad_tau.Rd | 9 tidychangepoint-1.0.0/tidychangepoint/man/reexports.Rd | 2 tidychangepoint-1.0.0/tidychangepoint/man/regions.Rd |only tidychangepoint-1.0.0/tidychangepoint/man/segment.Rd | 4 tidychangepoint-1.0.0/tidychangepoint/man/tidychangepoint-package.Rd | 2 tidychangepoint-1.0.0/tidychangepoint/tests/testthat/test-stats.R | 24 +- tidychangepoint-1.0.0/tidychangepoint/tests/testthat/test-tidycpt.R | 16 + 41 files changed, 475 insertions(+), 118 deletions(-)
More information about tidychangepoint at CRAN
Permanent link
Title: Prediction Intervals for Synthetic Control Methods with Multiple
Treated Units and Staggered Adoption
Description: Implementation of prediction and inference procedures for Synthetic Control methods using least square, lasso, ridge, or simplex-type constraints. Uncertainty is quantified with prediction intervals as developed in Cattaneo, Feng, and Titiunik (2021) <https://nppackages.github.io/references/Cattaneo-Feng-Titiunik_2021_JASA.pdf> for a single treated unit and in Cattaneo, Feng, Palomba, and Titiunik (2023) <doi:10.48550/arXiv.2210.05026> for multiple treated units and staggered adoption. More details about the software implementation can be found in Cattaneo, Feng, Palomba, and Titiunik (2024) <doi:10.48550/arXiv.2202.05984>.
Author: Matias Cattaneo [aut],
Yingjie Feng [aut],
Filippo Palomba [aut, cre],
Rocio Titiunik [aut]
Maintainer: Filippo Palomba <fpalomba@princeton.edu>
Diff between scpi versions 2.2.6 dated 2024-11-11 and 3.0.0 dated 2025-01-31
DESCRIPTION | 6 - MD5 | 8 - R/scpi.R | 176 +++++++++++++++++-------------------- R/supporting_functions.R | 218 +++++++++++++++-------------------------------- man/scpi.Rd | 24 +---- 5 files changed, 167 insertions(+), 265 deletions(-)
Title: Generate Samples with a Variety of Probability Distributions
Description: Simplifies the process of generating samples from a variety of probability distributions, allowing users to quickly create data frames for demonstrations, troubleshooting, or teaching purposes. Data is available in multiple sizes—small, medium, and large. For more information, refer to the package documentation.
Author: Nicholas Vietto [aut, cre, cph]
Maintainer: Nicholas Vietto <nicholasvietto@gmail.com>
Diff between samplezoo versions 1.1.1 dated 2024-12-02 and 1.2.0 dated 2025-01-31
DESCRIPTION | 6 - MD5 | 15 ++-- NEWS.md | 12 +++ R/distributions.R | 35 +++++---- R/samplezoo.R | 9 +- README.md | 54 ++++++-------- inst/doc/Example.html | 140 +++++++++++++++++++------------------- man/figures/README-pressure-1.png |only man/samplezoo.Rd | 9 +- 9 files changed, 145 insertions(+), 135 deletions(-)
Title: Deal with Dependencies
Description: Manage dependencies during package development. This can
retrieve all dependencies that are used in ".R" files in the "R/"
directory, in ".Rmd" files in "vignettes/" directory and in 'roxygen2'
documentation of functions. There is a function to update the
"DESCRIPTION" file of your package with 'CRAN' packages or any other
remote package. All functions to retrieve dependencies of ".R"
scripts and ".Rmd" or ".qmd" files can be used independently of a
package development.
Author: Vincent Guyader [cre, aut] ,
Sebastien Rochette [aut] ,
Murielle Delmotte [aut] ,
Swann Floc'hlay [aut] ,
ThinkR [cph, fnd]
Maintainer: Vincent Guyader <vincent@thinkr.fr>
Diff between attachment versions 0.4.2 dated 2024-07-01 and 0.4.3 dated 2025-01-31
attachment-0.4.2/attachment/tests/testdown |only attachment-0.4.3/attachment/DESCRIPTION | 24 attachment-0.4.3/attachment/MD5 | 136 - attachment-0.4.3/attachment/NAMESPACE | 5 attachment-0.4.3/attachment/NEWS.md | 20 attachment-0.4.3/attachment/R/add_from_examples.R |only attachment-0.4.3/attachment/R/att_from_data.R |only attachment-0.4.3/attachment/R/att_from_rmds.R | 14 attachment-0.4.3/attachment/R/att_from_rscripts.R | 14 attachment-0.4.3/attachment/R/att_to_description.R | 12 attachment-0.4.3/attachment/R/create_dependencies_file.R | 6 attachment-0.4.3/attachment/R/create_renv.R | 13 attachment-0.4.3/attachment/R/set_remotes.R | 62 attachment-0.4.3/attachment/README.md | 512 ++-- attachment-0.4.3/attachment/build/vignette.rds |binary attachment-0.4.3/attachment/inst/doc/a-fill-pkg-description.R | 191 - attachment-0.4.3/attachment/inst/doc/a-fill-pkg-description.Rmd | 3 attachment-0.4.3/attachment/inst/doc/a-fill-pkg-description.html | 1172 ++++------ attachment-0.4.3/attachment/inst/doc/b-bookdown-and-scripts.R | 99 attachment-0.4.3/attachment/inst/doc/b-bookdown-and-scripts.Rmd | 6 attachment-0.4.3/attachment/inst/doc/b-bookdown-and-scripts.html | 952 ++++---- attachment-0.4.3/attachment/inst/doc/create-dependencies-file.R | 68 attachment-0.4.3/attachment/inst/doc/create-dependencies-file.Rmd | 13 attachment-0.4.3/attachment/inst/doc/create-dependencies-file.html | 826 +++---- attachment-0.4.3/attachment/inst/doc/use_renv.R | 40 attachment-0.4.3/attachment/inst/doc/use_renv.html | 784 +++--- attachment-0.4.3/attachment/inst/dummypackage/DESCRIPTION | 18 attachment-0.4.3/attachment/inst/dummypackage/R/my_mean.R | 4 attachment-0.4.3/attachment/inst/dummypackage/man/my_mean.Rd | 5 attachment-0.4.3/attachment/man/att_amend_desc.Rd | 2 attachment-0.4.3/attachment/man/att_from_data.Rd |only attachment-0.4.3/attachment/man/att_from_examples.Rd |only attachment-0.4.3/attachment/man/att_from_rmds.Rd | 8 attachment-0.4.3/attachment/man/att_from_rscripts.Rd | 9 attachment-0.4.3/attachment/man/attachment-package.Rd | 4 attachment-0.4.3/attachment/man/complete_remote_branch.Rd |only attachment-0.4.3/attachment/man/create_renv_for_dev.Rd | 5 attachment-0.4.3/attachment/man/find_remotes.Rd | 4 attachment-0.4.3/attachment/man/set_remotes_to_desc.Rd | 4 attachment-0.4.3/attachment/tests/testthat/blank.lock |only attachment-0.4.3/attachment/tests/testthat/f1Rmd | 174 - attachment-0.4.3/attachment/tests/testthat/f2R | 96 attachment-0.4.3/attachment/tests/testthat/f3.R |only attachment-0.4.3/attachment/tests/testthat/f4.R |only attachment-0.4.3/attachment/tests/testthat/f5.R |only attachment-0.4.3/attachment/tests/testthat/fake_namespace | 12 attachment-0.4.3/attachment/tests/testthat/for_golem.lock |only attachment-0.4.3/attachment/tests/testthat/test-amend-description.R | 110 attachment-0.4.3/attachment/tests/testthat/test-att_from_data.R |only attachment-0.4.3/attachment/tests/testthat/test-att_from_examples.R |only attachment-0.4.3/attachment/tests/testthat/test-create_dependencies_file.R | 6 attachment-0.4.3/attachment/tests/testthat/test-rmd.R | 46 attachment-0.4.3/attachment/tests/testthat/test-rscript.R | 27 attachment-0.4.3/attachment/tests/testthat/test-set-remotes.R | 40 attachment-0.4.3/attachment/vignettes/a-fill-pkg-description.Rmd | 3 attachment-0.4.3/attachment/vignettes/b-bookdown-and-scripts.Rmd | 6 attachment-0.4.3/attachment/vignettes/create-dependencies-file.Rmd | 13 57 files changed, 2948 insertions(+), 2620 deletions(-)
Title: 'IUCN' Red List Client
Description: 'IUCN' Red List (<https://api.iucnredlist.org/>) client.
The 'IUCN' Red List is a global list of threatened and endangered species.
Functions cover all of the Red List 'API' routes. An 'API' key is required.
Author: William Gearty [aut, cre],
Scott Chamberlain [aut],
rOpenSci [fnd] ,
Maelle Salmon [ctb],
Kevin Cazelles [rev] ,
Stephanie Hazlitt [rev]
Maintainer: William Gearty <willgearty@gmail.com>
Diff between rredlist versions 0.7.1 dated 2022-11-11 and 1.0.0 dated 2025-01-31
rredlist-0.7.1/rredlist/R/rl_common_names.R |only rredlist-0.7.1/rredlist/R/rl_history.R |only rredlist-0.7.1/rredlist/R/rl_measures.R |only rredlist-0.7.1/rredlist/R/rl_narrative.R |only rredlist-0.7.1/rredlist/R/rl_occ_country.R |only rredlist-0.7.1/rredlist/R/rl_regions.R |only rredlist-0.7.1/rredlist/R/rl_search.R |only rredlist-0.7.1/rredlist/R/rl_sp.R |only rredlist-0.7.1/rredlist/R/rl_sp_category.R |only rredlist-0.7.1/rredlist/R/rl_sp_citation.R |only rredlist-0.7.1/rredlist/R/rl_sp_country.R |only rredlist-0.7.1/rredlist/R/rl_synonyms.R |only rredlist-0.7.1/rredlist/tests/fixtures/rl_common_names-badkey.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_common_names-no-results.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_common_names-not-parsing.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_common_names.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_common_names_-badkey.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_common_names_.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_growth_forms-no-results.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_habitats-not-found.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_habitats_-region-not-found.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_history-by-id.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_history-not-parsing.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_history-region-together.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_history.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_history_.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_measures-no-results.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_measures-not-parsing.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_measures.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_measures_-region-not-found.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_measures_.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_narrative-no-results.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_narrative-not-parsing.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_narrative.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_narrative_.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_search-no-results.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_search-not-parsing.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_search.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_search_-region-not-found.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_search_.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_sp_category-no-results.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_sp_category-not-parsing.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_sp_category.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_sp_category_.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_synonyms-no-results.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_synonyms-not-parsing.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_synonyms.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_synonyms_.yml |only rredlist-0.7.1/rredlist/tests/fixtures/rl_threats-no-results.yml |only rredlist-0.7.1/rredlist/tests/testthat/test-rl_common_names.R |only rredlist-0.7.1/rredlist/tests/testthat/test-rl_habitat.R |only rredlist-0.7.1/rredlist/tests/testthat/test-rl_history.R |only rredlist-0.7.1/rredlist/tests/testthat/test-rl_measures.R |only rredlist-0.7.1/rredlist/tests/testthat/test-rl_narrative.R |only rredlist-0.7.1/rredlist/tests/testthat/test-rl_search.R |only rredlist-0.7.1/rredlist/tests/testthat/test-rl_sp_category.R |only rredlist-0.7.1/rredlist/tests/testthat/test-rl_synonyms.R |only rredlist-1.0.0/rredlist/DESCRIPTION | 36 rredlist-1.0.0/rredlist/LICENSE | 4 rredlist-1.0.0/rredlist/MD5 | 402 +++++++--- rredlist-1.0.0/rredlist/NAMESPACE | 63 + rredlist-1.0.0/rredlist/NEWS.md | 51 - rredlist-1.0.0/rredlist/R/defunct.R |only rredlist-1.0.0/rredlist/R/release.R |only rredlist-1.0.0/rredlist/R/rl_assessment.R |only rredlist-1.0.0/rredlist/R/rl_categories.R |only rredlist-1.0.0/rredlist/R/rl_citation.R | 33 rredlist-1.0.0/rredlist/R/rl_comp_groups.R | 56 - rredlist-1.0.0/rredlist/R/rl_conservation.R |only rredlist-1.0.0/rredlist/R/rl_countries.R | 47 - rredlist-1.0.0/rredlist/R/rl_growth_forms.R | 63 - rredlist-1.0.0/rredlist/R/rl_habitats.R | 113 ++ rredlist-1.0.0/rredlist/R/rl_key.R | 36 rredlist-1.0.0/rredlist/R/rl_realms.R |only rredlist-1.0.0/rredlist/R/rl_sp_count.R | 23 rredlist-1.0.0/rredlist/R/rl_taxa.R |only rredlist-1.0.0/rredlist/R/rl_threats.R | 169 +++- rredlist-1.0.0/rredlist/R/rl_trends.R |only rredlist-1.0.0/rredlist/R/rl_version.R | 32 rredlist-1.0.0/rredlist/R/rredlist-package.R | 43 - rredlist-1.0.0/rredlist/R/zzz.R | 240 ++++- rredlist-1.0.0/rredlist/README.md | 99 ++ rredlist-1.0.0/rredlist/build |only rredlist-1.0.0/rredlist/inst |only rredlist-1.0.0/rredlist/man/figures |only rredlist-1.0.0/rredlist/man/rl_actions.Rd |only rredlist-1.0.0/rredlist/man/rl_api_version.Rd |only rredlist-1.0.0/rredlist/man/rl_assessment.Rd |only rredlist-1.0.0/rredlist/man/rl_categories.Rd |only rredlist-1.0.0/rredlist/man/rl_citation.Rd | 21 rredlist-1.0.0/rredlist/man/rl_class.Rd |only rredlist-1.0.0/rredlist/man/rl_common_names.Rd | 52 - rredlist-1.0.0/rredlist/man/rl_comp_groups.Rd | 94 +- rredlist-1.0.0/rredlist/man/rl_countries.Rd | 87 +- rredlist-1.0.0/rredlist/man/rl_extinct.Rd |only rredlist-1.0.0/rredlist/man/rl_extinct_wild.Rd |only rredlist-1.0.0/rredlist/man/rl_family.Rd |only rredlist-1.0.0/rredlist/man/rl_faos.Rd |only rredlist-1.0.0/rredlist/man/rl_green.Rd |only rredlist-1.0.0/rredlist/man/rl_growth_forms.Rd | 103 +- rredlist-1.0.0/rredlist/man/rl_habitats.Rd | 95 +- rredlist-1.0.0/rredlist/man/rl_history.Rd | 66 - rredlist-1.0.0/rredlist/man/rl_kingdom.Rd |only rredlist-1.0.0/rredlist/man/rl_measures.Rd | 70 - rredlist-1.0.0/rredlist/man/rl_narrative.Rd | 69 - rredlist-1.0.0/rredlist/man/rl_occ_country.Rd | 67 - rredlist-1.0.0/rredlist/man/rl_order.Rd |only rredlist-1.0.0/rredlist/man/rl_phylum.Rd |only rredlist-1.0.0/rredlist/man/rl_pop_trends.Rd |only rredlist-1.0.0/rredlist/man/rl_realms.Rd |only rredlist-1.0.0/rredlist/man/rl_regions.Rd | 50 - rredlist-1.0.0/rredlist/man/rl_research.Rd |only rredlist-1.0.0/rredlist/man/rl_scopes.Rd |only rredlist-1.0.0/rredlist/man/rl_search.Rd | 66 - rredlist-1.0.0/rredlist/man/rl_sis.Rd |only rredlist-1.0.0/rredlist/man/rl_sis_latest.Rd |only rredlist-1.0.0/rredlist/man/rl_sp.Rd | 63 - rredlist-1.0.0/rredlist/man/rl_sp_category.Rd | 48 - rredlist-1.0.0/rredlist/man/rl_sp_citation.Rd | 69 - rredlist-1.0.0/rredlist/man/rl_sp_count.Rd | 29 rredlist-1.0.0/rredlist/man/rl_sp_country.Rd | 60 - rredlist-1.0.0/rredlist/man/rl_species.Rd |only rredlist-1.0.0/rredlist/man/rl_species_latest.Rd |only rredlist-1.0.0/rredlist/man/rl_stresses.Rd |only rredlist-1.0.0/rredlist/man/rl_synonyms.Rd | 52 - rredlist-1.0.0/rredlist/man/rl_systems.Rd |only rredlist-1.0.0/rredlist/man/rl_threats.Rd | 96 +- rredlist-1.0.0/rredlist/man/rl_use_and_trade.Rd |only rredlist-1.0.0/rredlist/man/rl_use_iucn.Rd | 20 rredlist-1.0.0/rredlist/man/rl_version.Rd | 19 rredlist-1.0.0/rredlist/man/roxygen |only rredlist-1.0.0/rredlist/man/rredlist-package.Rd | 64 - rredlist-1.0.0/rredlist/man/scale_iucn.Rd |only rredlist-1.0.0/rredlist/tests/fixtures/Rheidae_metadata.yml |only rredlist-1.0.0/rredlist/tests/fixtures/Sturnidae_metadata.yml |only rredlist-1.0.0/rredlist/tests/fixtures/page_assessments_multipage.yml |only rredlist-1.0.0/rredlist/tests/fixtures/page_assessments_singlepage.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_actions-def-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_actions-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_actions-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_actions.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_actions_-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_actions_.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_api_version.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_assessment-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_assessment.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_assessment_.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_categories-def-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_categories-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_categories-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_categories.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_categories_-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_categories_.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_citation.yml | 30 rredlist-1.0.0/rredlist/tests/fixtures/rl_class-def-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_class-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_class-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_class.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_class_-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_class_.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_comp_groups-def-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_comp_groups-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_comp_groups-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_comp_groups.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_comp_groups_-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_comp_groups_.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_countries-def-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_countries-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_countries-not-parsing.yml | 216 +++-- rredlist-1.0.0/rredlist/tests/fixtures/rl_countries.yml | 216 +++-- rredlist-1.0.0/rredlist/tests/fixtures/rl_countries_-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_countries_.yml | 98 -- rredlist-1.0.0/rredlist/tests/fixtures/rl_extinct-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_extinct.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_extinct_.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_extinct_wild-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_extinct_wild.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_extinct_wild_.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_family-def-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_family-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_family-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_family.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_family_-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_family_.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_faos-def-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_faos-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_faos-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_faos.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_faos_-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_faos_.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_green-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_green.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_green_.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_growth_forms-def-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_growth_forms-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_growth_forms-not-parsing.yml | 113 ++ rredlist-1.0.0/rredlist/tests/fixtures/rl_growth_forms.yml | 113 ++ rredlist-1.0.0/rredlist/tests/fixtures/rl_growth_forms_-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_growth_forms_.yml | 36 rredlist-1.0.0/rredlist/tests/fixtures/rl_habitats-def-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_habitats-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_habitats-not-parsing.yml | 87 +- rredlist-1.0.0/rredlist/tests/fixtures/rl_habitats.yml | 87 +- rredlist-1.0.0/rredlist/tests/fixtures/rl_habitats_-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_habitats_.yml | 49 - rredlist-1.0.0/rredlist/tests/fixtures/rl_kingdom-def-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_kingdom-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_kingdom-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_kingdom.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_kingdom_-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_kingdom_.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_order-def-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_order-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_order-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_order.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_order_-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_order_.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_phylum-def-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_phylum-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_phylum-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_phylum.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_phylum_-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_phylum_.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_pop_trends-def-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_pop_trends-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_pop_trends-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_pop_trends.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_pop_trends_-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_pop_trends_.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_realms-def-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_realms-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_realms-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_realms.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_realms_-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_realms_.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_research-def-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_research-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_research-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_research.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_research_-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_research_.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_scopes-def-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_scopes-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_scopes-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_scopes.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_scopes_-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_scopes_.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_sis-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_sis.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_sis_.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_sis_latest.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_sp_count.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_sp_count_.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_species-badkey.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_species-badquery.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_species-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_species.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_species_-badkey.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_species_-badquery.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_species_.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_species_latest.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_stresses-def-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_stresses-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_stresses-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_stresses.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_stresses_-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_stresses_.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_systems-def-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_systems-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_systems-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_systems.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_systems_-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_systems_.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_threats-def-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_threats-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_threats-not-parsing.yml | 187 +++- rredlist-1.0.0/rredlist/tests/fixtures/rl_threats.yml | 187 +++- rredlist-1.0.0/rredlist/tests/fixtures/rl_threats_-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_threats_.yml | 69 - rredlist-1.0.0/rredlist/tests/fixtures/rl_threats_no_args.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_threats_with_args.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_use_and_trade-def-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_use_and_trade-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_use_and_trade-not-parsing.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_use_and_trade.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_use_and_trade_-def.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_use_and_trade_.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rl_version.yml | 27 rredlist-1.0.0/rredlist/tests/fixtures/rr_GET.yml |only rredlist-1.0.0/rredlist/tests/fixtures/rr_GET_raw.yml |only rredlist-1.0.0/rredlist/tests/spelling.R |only rredlist-1.0.0/rredlist/tests/testthat/_snaps |only rredlist-1.0.0/rredlist/tests/testthat/helper-rredlist.R | 12 rredlist-1.0.0/rredlist/tests/testthat/helper-vdiffr.R |only rredlist-1.0.0/rredlist/tests/testthat/test-defunct.R |only rredlist-1.0.0/rredlist/tests/testthat/test-fail-well.R | 73 + rredlist-1.0.0/rredlist/tests/testthat/test-rl_actions.R |only rredlist-1.0.0/rredlist/tests/testthat/test-rl_assessment.R |only rredlist-1.0.0/rredlist/tests/testthat/test-rl_categories.R |only rredlist-1.0.0/rredlist/tests/testthat/test-rl_citation.R | 7 rredlist-1.0.0/rredlist/tests/testthat/test-rl_comp_groups.R |only rredlist-1.0.0/rredlist/tests/testthat/test-rl_countries.R | 70 + rredlist-1.0.0/rredlist/tests/testthat/test-rl_extinct.R |only rredlist-1.0.0/rredlist/tests/testthat/test-rl_extinct_wild.R |only rredlist-1.0.0/rredlist/tests/testthat/test-rl_faos.R |only rredlist-1.0.0/rredlist/tests/testthat/test-rl_green.R |only rredlist-1.0.0/rredlist/tests/testthat/test-rl_growth_forms.R | 99 +- rredlist-1.0.0/rredlist/tests/testthat/test-rl_habitats.R |only rredlist-1.0.0/rredlist/tests/testthat/test-rl_key.R | 7 rredlist-1.0.0/rredlist/tests/testthat/test-rl_latest.R |only rredlist-1.0.0/rredlist/tests/testthat/test-rl_realms.R |only rredlist-1.0.0/rredlist/tests/testthat/test-rl_research.R |only rredlist-1.0.0/rredlist/tests/testthat/test-rl_scopes.R |only rredlist-1.0.0/rredlist/tests/testthat/test-rl_sis.R |only rredlist-1.0.0/rredlist/tests/testthat/test-rl_sp_count.R |only rredlist-1.0.0/rredlist/tests/testthat/test-rl_species.R |only rredlist-1.0.0/rredlist/tests/testthat/test-rl_stresses.R |only rredlist-1.0.0/rredlist/tests/testthat/test-rl_systems.R |only rredlist-1.0.0/rredlist/tests/testthat/test-rl_taxa.R |only rredlist-1.0.0/rredlist/tests/testthat/test-rl_threats.R | 105 +- rredlist-1.0.0/rredlist/tests/testthat/test-rl_trends.R |only rredlist-1.0.0/rredlist/tests/testthat/test-rl_use_and_trade.R |only rredlist-1.0.0/rredlist/tests/testthat/test-rl_version.R | 13 rredlist-1.0.0/rredlist/tests/testthat/test-zzz.R |only rredlist-1.0.0/rredlist/vignettes |only 325 files changed, 3024 insertions(+), 1747 deletions(-)
Title: 'shiny' Widgets for 'teal' Applications
Description: Collection of 'shiny' widgets to support 'teal' applications.
Enables the manipulation of application layout and plot or table
settings.
Author: Dawid Kaledkowski [aut, cre],
Pawel Rucki [aut],
Mahmoud Hallal [aut],
Nikolas Burkoff [aut],
Maciej Nasinski [aut],
Konrad Pagacz [aut],
Junlue Zhao [aut],
F. Hoffmann-La Roche AG [cph, fnd]
Maintainer: Dawid Kaledkowski <dawid.kaledkowski@roche.com>
Diff between teal.widgets versions 0.4.2 dated 2023-12-14 and 0.4.3 dated 2025-01-31
teal.widgets-0.4.2/teal.widgets/R/include_css_js.R |only teal.widgets-0.4.2/teal.widgets/inst/css |only teal.widgets-0.4.2/teal.widgets/inst/js |only teal.widgets-0.4.2/teal.widgets/inst/widgets |only teal.widgets-0.4.2/teal.widgets/man/include_css_files.Rd |only teal.widgets-0.4.2/teal.widgets/tests/testthat/Rplots.pdf |only teal.widgets-0.4.2/teal.widgets/tests/testthat/_snaps |only teal.widgets-0.4.2/teal.widgets/tests/testthat/helpers-with-settings.R |only teal.widgets-0.4.2/teal.widgets/tests/testthat/setup-skip_if_too_deep.R |only teal.widgets-0.4.3/teal.widgets/DESCRIPTION | 22 teal.widgets-0.4.3/teal.widgets/MD5 | 137 +- teal.widgets-0.4.3/teal.widgets/NEWS.md | 7 teal.widgets-0.4.3/teal.widgets/R/draggable_buckets.R | 55 - teal.widgets-0.4.3/teal.widgets/R/get_dt_rows.R | 17 teal.widgets-0.4.3/teal.widgets/R/ggplot2_args.R | 10 teal.widgets-0.4.3/teal.widgets/R/nested_closeable_modal.R | 36 teal.widgets-0.4.3/teal.widgets/R/optionalInput.R | 200 +-- teal.widgets-0.4.3/teal.widgets/R/panel_group.R | 86 + teal.widgets-0.4.3/teal.widgets/R/plot_with_settings.R | 365 +++---- teal.widgets-0.4.3/teal.widgets/R/standard_layout.R | 59 - teal.widgets-0.4.3/teal.widgets/R/table_with_settings.R | 72 - teal.widgets-0.4.3/teal.widgets/R/utils.R | 2 teal.widgets-0.4.3/teal.widgets/R/verbatim_popup.R | 28 teal.widgets-0.4.3/teal.widgets/R/white_small_well.R | 9 teal.widgets-0.4.3/teal.widgets/README.md | 9 teal.widgets-0.4.3/teal.widgets/build/vignette.rds |binary teal.widgets-0.4.3/teal.widgets/inst/doc/custom-basic-table-arguments.R | 72 - teal.widgets-0.4.3/teal.widgets/inst/doc/custom-basic-table-arguments.Rmd | 85 - teal.widgets-0.4.3/teal.widgets/inst/doc/custom-basic-table-arguments.html | 117 +- teal.widgets-0.4.3/teal.widgets/inst/doc/custom-ggplot2-arguments.R | 68 - teal.widgets-0.4.3/teal.widgets/inst/doc/custom-ggplot2-arguments.Rmd | 93 - teal.widgets-0.4.3/teal.widgets/inst/doc/custom-ggplot2-arguments.html | 117 +- teal.widgets-0.4.3/teal.widgets/inst/draggable-buckets |only teal.widgets-0.4.3/teal.widgets/inst/optional-select-input |only teal.widgets-0.4.3/teal.widgets/inst/panel-item |only teal.widgets-0.4.3/teal.widgets/inst/plot-with-settings |only teal.widgets-0.4.3/teal.widgets/inst/table-with-settings |only teal.widgets-0.4.3/teal.widgets/inst/verbatim-popup |only teal.widgets-0.4.3/teal.widgets/man/clean_brushedPoints.Rd | 34 teal.widgets-0.4.3/teal.widgets/man/draggable_buckets.Rd | 27 teal.widgets-0.4.3/teal.widgets/man/extract_choices_labels.Rd | 2 teal.widgets-0.4.3/teal.widgets/man/get_dt_rows.Rd | 13 teal.widgets-0.4.3/teal.widgets/man/ggplot2_args.Rd | 2 teal.widgets-0.4.3/teal.widgets/man/nested_closeable_modal.Rd | 34 teal.widgets-0.4.3/teal.widgets/man/optionalSelectInput.Rd | 174 +-- teal.widgets-0.4.3/teal.widgets/man/optionalSliderInput.Rd | 6 teal.widgets-0.4.3/teal.widgets/man/optionalSliderInputValMinMax.Rd | 4 teal.widgets-0.4.3/teal.widgets/man/panel_group.Rd | 41 teal.widgets-0.4.3/teal.widgets/man/panel_item.Rd | 30 teal.widgets-0.4.3/teal.widgets/man/parse_ggplot2_args.Rd | 4 teal.widgets-0.4.3/teal.widgets/man/plot_suppress.Rd | 4 teal.widgets-0.4.3/teal.widgets/man/plot_with_settings.Rd | 251 ++-- teal.widgets-0.4.3/teal.widgets/man/resolve_ggplot2_args.Rd | 4 teal.widgets-0.4.3/teal.widgets/man/standard_layout.Rd | 38 teal.widgets-0.4.3/teal.widgets/man/table_with_settings.Rd | 46 teal.widgets-0.4.3/teal.widgets/man/verbatim_popup.Rd | 6 teal.widgets-0.4.3/teal.widgets/man/white_small_well.Rd | 5 teal.widgets-0.4.3/teal.widgets/tests/testthat/helpers-testing-depth.R |only teal.widgets-0.4.3/teal.widgets/tests/testthat/helpers-utils.R |only teal.widgets-0.4.3/teal.widgets/tests/testthat/setup-options.R |only teal.widgets-0.4.3/teal.widgets/tests/testthat/test-ggplot2_args.R | 23 teal.widgets-0.4.3/teal.widgets/tests/testthat/test-optionalInput.R | 10 teal.widgets-0.4.3/teal.widgets/tests/testthat/test-plot_with_settings.R | 41 teal.widgets-0.4.3/teal.widgets/tests/testthat/test-plot_with_settings_ui.R | 514 +++++++++- teal.widgets-0.4.3/teal.widgets/tests/testthat/test-standard_layout.R | 2 teal.widgets-0.4.3/teal.widgets/tests/testthat/test-table_args.R | 4 teal.widgets-0.4.3/teal.widgets/tests/testthat/test-table_with_settings.R | 25 teal.widgets-0.4.3/teal.widgets/tests/testthat/test-table_with_settings_ui.R | 394 +++++++ teal.widgets-0.4.3/teal.widgets/tests/testthat/test-utils.R | 16 teal.widgets-0.4.3/teal.widgets/tests/testthat/test-verbatim_popup_ui.R |only teal.widgets-0.4.3/teal.widgets/vignettes/custom-basic-table-arguments.Rmd | 85 - teal.widgets-0.4.3/teal.widgets/vignettes/custom-ggplot2-arguments.Rmd | 93 - 72 files changed, 2358 insertions(+), 1240 deletions(-)
Title: Robustness Checks for Omitted Variable Bias
Description: Robustness checks for omitted variable bias. The package includes robustness checks proposed by Oster (2019). The 'robomit' package computes i) the bias-adjusted treatment correlation or effect and ii) the degree of selection on unobservables relative to observables (with respect to the treatment variable) that would be necessary to eliminate the result based on the framework by Oster (2019). The code is based on the 'psacalc' command in 'Stata'. Additionally, 'robomit' offers a set of sensitivity analysis and visualization functions. See Oster, E. 2019. <doi:10.1080/07350015.2016.1227711>. Additionally, see Diegert, P., Masten, M. A., & Poirier, A. (2022) for a recent discussion of the topic: <doi:10.48550/arXiv.2206.02303>.
Author: Sergei Schaub [aut, cre] ,
ETH Zurich [cph]
Maintainer: Sergei Schaub <sergei.schaub@agroscope.admin.ch>
Diff between robomit versions 1.0.6 dated 2021-06-22 and 1.0.7 dated 2025-01-31
DESCRIPTION | 16 MD5 | 28 R/robomit_functions.R | 3220 +++++++++++++++++++++++------------------------- man/o_beta.Rd | 6 man/o_beta_boot.Rd | 4 man/o_beta_boot_inf.Rd | 4 man/o_beta_boot_viz.Rd | 4 man/o_beta_rsq.Rd | 4 man/o_beta_rsq_viz.Rd | 4 man/o_delta.Rd | 6 man/o_delta_boot.Rd | 4 man/o_delta_boot_inf.Rd | 4 man/o_delta_boot_viz.Rd | 4 man/o_delta_rsq.Rd | 4 man/o_delta_rsq_viz.Rd | 4 15 files changed, 1618 insertions(+), 1698 deletions(-)
Title: Generalized Dissimilarity Modeling
Description: A toolkit with functions to fit, plot, summarize, and apply Generalized Dissimilarity Models. Mokany K, Ware C, Woolley SNC, Ferrier S, Fitzpatrick MC (2022) <doi:10.1111/geb.13459> Ferrier S, Manion G, Elith J, Richardson K (2007) <doi:10.1111/j.1472-4642.2007.00341.x>.
Author: Matt Fitzpatrick [aut, cre] ,
Karel Mokany [aut] ,
Glenn Manion [aut],
Diego Nieto-Lugilde [aut] ,
Simon Ferrier [aut] ,
Roozbeh Valavi [ctb],
Matthew Lisk [ctb],
Chris Ware [ctb],
Skip Woolley [ctb],
Tom Harwood [ctb]
Maintainer: Matt Fitzpatrick <mfitzpatrick@umces.edu>
Diff between gdm versions 1.6.0-5 dated 2025-01-10 and 1.6.0-6 dated 2025-01-31
DESCRIPTION | 8 +++---- MD5 | 6 ++--- NEWS.md | 3 ++ inst/tinytest/test_gdm.R | 48 +++++++++++++++++++++++------------------------ 4 files changed, 34 insertions(+), 31 deletions(-)
Title: Dynamic Function-Oriented 'Make'-Like Declarative Pipelines
Description: Pipeline tools coordinate the pieces of computationally
demanding analysis projects.
The 'targets' package is a 'Make'-like pipeline tool for statistics and
data science in R. The package skips costly runtime for tasks
that are already up to date,
orchestrates the necessary computation with implicit parallel computing,
and abstracts files as R objects. If all the current output matches
the current upstream code and data, then the whole pipeline is up
to date, and the results are more trustworthy than otherwise.
The methodology in this package
borrows from GNU 'Make' (2015, ISBN:978-9881443519)
and 'drake' (2018, <doi:10.21105/joss.00550>).
Author: William Michael Landau [aut, cre]
,
Matthew T. Warkentin [ctb],
Mark Edmondson [ctb] ,
Samantha Oliver [rev] ,
Tristan Mahr [rev] ,
Eli Lilly and Company [cph, fnd]
Maintainer: William Michael Landau <will.landau.oss@gmail.com>
Diff between targets versions 1.10.0 dated 2025-01-13 and 1.10.1 dated 2025-01-31
DESCRIPTION | 6 ++-- MD5 | 48 +++++++++++++++++--------------- NEWS.md | 6 ++++ R/class_active.R | 50 +++++++++++++++++----------------- R/class_aws.R | 3 ++ R/class_crew.R | 16 ++++++++-- R/class_database.R | 13 ++++---- R/class_gcp.R | 3 ++ R/class_graph.R | 13 +++++--- R/class_meta.R | 15 +++++----- R/class_outdated.R | 2 - R/class_progress.R | 3 +- R/class_reporter.R | 6 +++- R/class_sequential.R | 6 ++-- R/class_summary.R | 3 ++ R/class_timestamp.R | 10 ++++++ R/class_verbose.R | 9 ++++++ R/tar_crew.R | 9 +++--- R/utils_cli.R | 13 ++++++++ man/tar_crew.Rd | 9 +++--- tests/interactive/test-crew_retries.R |only tests/testthat/test-class_reporter.R |only tests/testthat/test-class_summary.R | 12 ++++++++ tests/testthat/test-class_timestamp.R | 13 ++++++++ tests/testthat/test-class_verbose.R | 13 ++++++++ tests/testthat/test-utils_cli.R | 11 +++++++ 26 files changed, 208 insertions(+), 84 deletions(-)
Title: Archetypes for Targets
Description: Function-oriented Make-like declarative pipelines for
Statistics and data science are supported in the 'targets' R package.
As an extension to 'targets', the 'tarchetypes' package provides
convenient user-side functions to make 'targets' easier to use.
By establishing reusable archetypes for common kinds of
targets and pipelines, these functions help express complicated
reproducible pipelines concisely and compactly.
The methods in this package were influenced by the 'targets' R package.
by Will Landau (2018) <doi:10.21105/joss.00550>.
Author: William Michael Landau [aut, cre]
,
Rudolf Siegel [ctb] ,
Samantha Oliver [rev] ,
Tristan Mahr [rev] ,
Eli Lilly and Company [cph, fnd]
Maintainer: William Michael Landau <will.landau.oss@gmail.com>
Diff between tarchetypes versions 0.11.0 dated 2024-11-15 and 0.12.0 dated 2025-01-31
DESCRIPTION | 6 - MD5 | 97 ++++++++++++++++--------------- NAMESPACE | 1 NEWS.md | 9 ++ R/class_step.R |only R/tar_combine.R | 8 +- R/tar_files.R | 25 +++++-- R/tar_map2_raw.R | 6 + R/tar_map_rep.R | 10 ++- R/tar_map_rep_raw.R | 69 ++++++++++++++++++---- R/tar_quarto.R | 4 - R/tar_quarto_files.R | 32 ++++++---- R/tar_quarto_raw.R | 13 +--- R/tar_rep2_raw.R | 6 + R/tar_rep_index.R |only R/tar_rep_raw.R | 6 + man/tar_age.Rd | 2 man/tar_change.Rd | 12 +++ man/tar_combine.Rd | 10 +-- man/tar_download.Rd | 12 +++ man/tar_file_read.Rd | 12 +++ man/tar_files.Rd | 27 ++++++-- man/tar_files_input.Rd | 2 man/tar_force.Rd | 12 +++ man/tar_formats.Rd | 12 +++ man/tar_formats_superseded.Rd | 12 +++ man/tar_group_by.Rd | 12 +++ man/tar_group_count.Rd | 12 +++ man/tar_group_select.Rd | 12 +++ man/tar_group_size.Rd | 12 +++ man/tar_knit.Rd | 2 man/tar_map2.Rd | 12 ++- man/tar_map2_count.Rd | 12 ++- man/tar_map2_size.Rd | 12 ++- man/tar_map_rep.Rd | 12 ++- man/tar_quarto.Rd | 6 + man/tar_quarto_files_get_source_files.Rd | 1 man/tar_quarto_rep.Rd | 6 + man/tar_quarto_run.Rd | 4 - man/tar_render.Rd | 2 man/tar_render_rep.Rd | 2 man/tar_rep.Rd | 2 man/tar_rep2.Rd | 2 man/tar_rep_index.Rd |only man/tar_rep_map.Rd | 12 +++ man/tar_rep_map_raw.Rd | 12 +++ man/tar_skip.Rd | 12 +++ tests/testthat/helper-utils.R | 1 tests/testthat/test-class_step.R |only tests/testthat/test-tar_map_rep.R | 55 +++++++++++++---- tests/testthat/test-tar_quarto_files.R | 4 - tests/testthat/test-tar_rep_index.R |only 52 files changed, 452 insertions(+), 172 deletions(-)
More information about StratifiedSampling at CRAN
Permanent link
Title: Analysing Accelerometer Data Using Hidden Markov Models
Description: Analysing time-series accelerometer data to quantify length and
intensity of physical activity using hidden Markov models.
It also contains the traditional cut-off point method.
Witowski V, Foraita R, Pitsiladis Y, Pigeot I, Wirsik N (2014).
<doi:10.1371/journal.pone.0114089>.
Author: Vitali Witowski [aut],
Foraita Ronja [cre, aut]
Maintainer: Foraita Ronja <foraita@leibniz-bips.de>
Diff between HMMpa versions 1.0.1 dated 2018-11-15 and 1.0.2 dated 2025-01-31
DESCRIPTION | 33 ++ MD5 | 71 +++--- NAMESPACE | 34 ++- NEWS.md |only R/AIC_HMM.R | 68 +++++- R/BIC_HMM.R | 67 +++++ R/Baum_Welch_algorithm.R | 172 +++++++++++++-- R/HMM_based_method.R | 346 +++++++++++++++++++++++------- R/HMM_decoding.R | 204 ++++++++++++++++-- R/HMM_simulation.R | 226 ++++++++++++++++--- R/HMM_training.R | 197 +++++++++++++++-- R/HMMpa-package.R |only R/Viterbi_algorithm.R | 283 +++++++++++++++---------- R/cut_off_point_method.R | 386 +++++++++++++++++++++++++++------- R/dgenpois.R | 44 +++ R/direct_numerical_maximization.R | 124 +++++++++- R/forward_backward_algorithm.R | 396 ++++++++++++++++++++--------------- R/initial_parameter_training.R | 168 +++++++++++--- R/local_decoding_algorithm.R | 127 +++++++++-- R/pgenpois.R | 56 ++++ R/rgenpois.R | 49 +++- README.md |only build |only man/AIC_HMM.Rd | 96 +++----- man/BIC_HMM.Rd |only man/Baum_Welch_algorithm.Rd | 282 ++++++++++++++---------- man/HMM_based_method.Rd | 386 ++++++++++++++++++---------------- man/HMM_decoding.Rd | 302 +++++++++++++------------- man/HMM_simulation.Rd | 291 +++++++++++++------------ man/HMM_training.Rd | 305 +++++++++++++++----------- man/HMMpa-package.Rd | 393 +++++++++++++--------------------- man/Viterbi_algorithm.Rd | 161 ++++++++------ man/cut_off_point_method.Rd | 295 +++++++++++++------------- man/dgenpois.Rd | 75 +++--- man/direct_numerical_maximization.Rd | 198 +++++++++-------- man/forward_backward_algorithm.Rd | 174 +++++++-------- man/initial_parameter_training.Rd | 152 +++++++------ man/local_decoding_algorithm.Rd | 158 ++++++++----- man/pgenpois.Rd |only man/rgenpois.Rd |only 40 files changed, 4078 insertions(+), 2241 deletions(-)
Title: Distance Metrics for High-Dimensional Clustering
Description: We provide three distance metrics for measuring the separation between two clusters in high-dimensional spaces. The first metric is the centroid distance, which calculates the Euclidean distance between the centers of the two groups. The second is a ridge Mahalanobis distance, which incorporates a ridge correction constant, alpha, to ensure that the covariance matrix is invertible. The third metric is the maximal data piling distance, which computes the orthogonal distance between the affine spaces spanned by each class. These three distances are asymptotically interconnected and are applicable in tasks such as discrimination, clustering, and outlier detection in high-dimensional settings.
Author: Jung Ae Lee [aut, cre],
Jeongyoun Ahn [aut]
Maintainer: Jung Ae Lee <jungaeleeb@gmail.com>
Diff between distanceHD versions 1.0 dated 2025-01-30 and 1.2 dated 2025-01-31
DESCRIPTION | 35 ++++++++++++++++------------------- MD5 | 4 ++-- man/dist_mdp.Rd | 2 +- 3 files changed, 19 insertions(+), 22 deletions(-)
Title: Comparison of Bioregionalisation Methods
Description: The main purpose of this package is to propose a transparent methodological framework to compare bioregionalisation methods based on hierarchical and non-hierarchical clustering algorithms (Kreft & Jetz (2010) <doi:10.1111/j.1365-2699.2010.02375.x>) and network algorithms (Lenormand et al. (2019) <doi:10.1002/ece3.4718> and Leroy et al. (2019) <doi:10.1111/jbi.13674>).
Author: Maxime Lenormand [aut, cre] ,
Boris Leroy [aut] ,
Pierre Denelle [aut]
Maintainer: Maxime Lenormand <maxime.lenormand@inrae.fr>
Diff between bioregion versions 1.1.1-1 dated 2024-11-11 and 1.2.0 dated 2025-01-31
bioregion-1.1.1-1/bioregion/R/compare_partitions.R |only bioregion-1.1.1-1/bioregion/R/map_clusters.R |only bioregion-1.1.1-1/bioregion/R/partition_metrics.R |only bioregion-1.1.1-1/bioregion/R/subset_node.R |only bioregion-1.1.1-1/bioregion/build/stage23.rdb |only bioregion-1.1.1-1/bioregion/man/compare_partitions.Rd |only bioregion-1.1.1-1/bioregion/man/figures/install_binaries_1.png |only bioregion-1.1.1-1/bioregion/man/figures/install_binaries_2.png |only bioregion-1.1.1-1/bioregion/man/figures/install_binaries_3.png |only bioregion-1.1.1-1/bioregion/man/figures/install_binaries_4.png |only bioregion-1.1.1-1/bioregion/man/map_clusters.Rd |only bioregion-1.1.1-1/bioregion/man/partition_metrics.Rd |only bioregion-1.1.1-1/bioregion/man/subset_node.Rd |only bioregion-1.2.0/bioregion/DESCRIPTION | 16 bioregion-1.2.0/bioregion/MD5 | 169 - bioregion-1.2.0/bioregion/NAMESPACE | 16 bioregion-1.2.0/bioregion/NEWS.md | 107 - bioregion-1.2.0/bioregion/R/betapart_to_bioregion.R |only bioregion-1.2.0/bioregion/R/bioregion_metrics.R |only bioregion-1.2.0/bioregion/R/bioregionalization_metrics.R |only bioregion-1.2.0/bioregion/R/clustermetrics.R |only bioregion-1.2.0/bioregion/R/compare_bioregionalizations.R |only bioregion-1.2.0/bioregion/R/cut_tree.R | 246 +- bioregion-1.2.0/bioregion/R/data.R | 16 bioregion-1.2.0/bioregion/R/dissimilarity.R | 110 - bioregion-1.2.0/bioregion/R/exportGDF.R |only bioregion-1.2.0/bioregion/R/find_optimal_n.R | 509 ++-- bioregion-1.2.0/bioregion/R/generic_functions.R | 116 + bioregion-1.2.0/bioregion/R/hclu_diana.R | 141 - bioregion-1.2.0/bioregion/R/hclu_hierarclust.R | 539 +++-- bioregion-1.2.0/bioregion/R/hclu_optics.R | 96 bioregion-1.2.0/bioregion/R/install_binaries.R | 1041 +++++----- bioregion-1.2.0/bioregion/R/iterative_hierarchical_consensus_tree.R |only bioregion-1.2.0/bioregion/R/map_bioregions.R |only bioregion-1.2.0/bioregion/R/mat_to_net.R | 63 bioregion-1.2.0/bioregion/R/net_to_mat.R | 70 bioregion-1.2.0/bioregion/R/netclu_beckett.R | 148 - bioregion-1.2.0/bioregion/R/netclu_greedy.R | 87 bioregion-1.2.0/bioregion/R/netclu_infomap.R | 218 +- bioregion-1.2.0/bioregion/R/netclu_labelprop.R | 103 bioregion-1.2.0/bioregion/R/netclu_leadingeigen.R | 108 - bioregion-1.2.0/bioregion/R/netclu_leiden.R | 131 - bioregion-1.2.0/bioregion/R/netclu_louvain.R | 221 +- bioregion-1.2.0/bioregion/R/netclu_oslom.R | 204 + bioregion-1.2.0/bioregion/R/netclu_walktrap.R | 96 bioregion-1.2.0/bioregion/R/nhclu_affprop.R |only bioregion-1.2.0/bioregion/R/nhclu_clara.R | 141 - bioregion-1.2.0/bioregion/R/nhclu_clarans.R | 113 - bioregion-1.2.0/bioregion/R/nhclu_dbscan.R | 164 - bioregion-1.2.0/bioregion/R/nhclu_kmeans.R | 148 - bioregion-1.2.0/bioregion/R/nhclu_pam.R | 135 - bioregion-1.2.0/bioregion/R/package.R | 6 bioregion-1.2.0/bioregion/R/similarity.R | 126 - bioregion-1.2.0/bioregion/R/similarity_dissimilarity_conversion.R | 75 bioregion-1.2.0/bioregion/R/site_species_metrics.R |only bioregion-1.2.0/bioregion/R/site_species_subset.R |only bioregion-1.2.0/bioregion/R/utils.R | 284 +- bioregion-1.2.0/bioregion/README.md | 20 bioregion-1.2.0/bioregion/build/partial.rdb |binary bioregion-1.2.0/bioregion/inst/REFERENCES.bib | 530 ++--- bioregion-1.2.0/bioregion/inst/doc/bioregion.Rmd | 31 bioregion-1.2.0/bioregion/inst/doc/bioregion.html | 32 bioregion-1.2.0/bioregion/man/betapart_to_bioregion.Rd |only bioregion-1.2.0/bioregion/man/bioregion_metrics.Rd |only bioregion-1.2.0/bioregion/man/bioregionalization_metrics.Rd |only bioregion-1.2.0/bioregion/man/compare_bioregionalizations.Rd |only bioregion-1.2.0/bioregion/man/cut_tree.Rd | 117 - bioregion-1.2.0/bioregion/man/dissimilarity.Rd | 96 bioregion-1.2.0/bioregion/man/dissimilarity_to_similarity.Rd | 31 bioregion-1.2.0/bioregion/man/figures/zscore_scheme.svg |only bioregion-1.2.0/bioregion/man/find_optimal_n.Rd | 263 -- bioregion-1.2.0/bioregion/man/fishdf.Rd | 4 bioregion-1.2.0/bioregion/man/fishsf.Rd | 4 bioregion-1.2.0/bioregion/man/hclu_diana.Rd | 69 bioregion-1.2.0/bioregion/man/hclu_hierarclust.Rd | 238 +- bioregion-1.2.0/bioregion/man/hclu_optics.Rd | 76 bioregion-1.2.0/bioregion/man/install_binaries.Rd | 51 bioregion-1.2.0/bioregion/man/map_bioregions.Rd |only bioregion-1.2.0/bioregion/man/mat_to_net.Rd | 43 bioregion-1.2.0/bioregion/man/net_to_mat.Rd | 60 bioregion-1.2.0/bioregion/man/netclu_beckett.Rd | 108 - bioregion-1.2.0/bioregion/man/netclu_greedy.Rd | 37 bioregion-1.2.0/bioregion/man/netclu_infomap.Rd | 113 - bioregion-1.2.0/bioregion/man/netclu_labelprop.Rd | 66 bioregion-1.2.0/bioregion/man/netclu_leadingeigen.Rd | 71 bioregion-1.2.0/bioregion/man/netclu_leiden.Rd | 92 bioregion-1.2.0/bioregion/man/netclu_louvain.Rd | 150 - bioregion-1.2.0/bioregion/man/netclu_oslom.Rd | 111 - bioregion-1.2.0/bioregion/man/netclu_walktrap.Rd | 59 bioregion-1.2.0/bioregion/man/nhclu_affprop.Rd |only bioregion-1.2.0/bioregion/man/nhclu_clara.Rd | 89 bioregion-1.2.0/bioregion/man/nhclu_clarans.Rd | 73 bioregion-1.2.0/bioregion/man/nhclu_dbscan.Rd | 147 - bioregion-1.2.0/bioregion/man/nhclu_kmeans.Rd | 102 bioregion-1.2.0/bioregion/man/nhclu_pam.Rd | 99 bioregion-1.2.0/bioregion/man/similarity.Rd | 98 bioregion-1.2.0/bioregion/man/similarity_to_dissimilarity.Rd | 27 bioregion-1.2.0/bioregion/man/site_species_metrics.Rd |only bioregion-1.2.0/bioregion/man/site_species_subset.Rd |only bioregion-1.2.0/bioregion/man/vegedf.Rd | 4 bioregion-1.2.0/bioregion/man/vegesf.Rd | 4 bioregion-1.2.0/bioregion/vignettes/bioregion.Rmd | 31 102 files changed, 4969 insertions(+), 3940 deletions(-)
Title: Load US Census Boundary and Attribute Data as 'tidyverse' and
'sf'-Ready Data Frames
Description: An integrated R interface to several United States Census Bureau
APIs (<https://www.census.gov/data/developers/data-sets.html>) and the US Census Bureau's
geographic boundary files. Allows R users to return Census and ACS data as
tidyverse-ready data frames, and optionally returns a list-column with feature geometry for mapping
and spatial analysis.
Author: Kyle Walker [aut, cre],
Matt Herman [aut],
Kris Eberwein [ctb]
Maintainer: Kyle Walker <kyle@walker-data.com>
Diff between tidycensus versions 1.7.0 dated 2025-01-23 and 1.7.1 dated 2025-01-31
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/pums.R | 15 +++++++++++---- data/pums_variables.rda |binary man/pums_variables.Rd | 2 +- 5 files changed, 20 insertions(+), 13 deletions(-)
Title: Statistical Functions for the
Maxwell-Boltzmann-Bose-Einstein-Fermi-Dirac (MBBEFD) Family of
Distributions
Description: Provides probability mass, distribution, quantile, random variate
generation, and method-of-moments parameter fitting for the MBBEFD family of
distributions used in insurance modeling as described in Bernegger (1997)
<doi:10.2143/AST.27.1.563208> without any external dependencies.
Author: Avraham Adler [aut, cre, cph]
Maintainer: Avraham Adler <Avraham.Adler@gmail.com>
Diff between MBBEFDLite versions 0.0.4 dated 2024-07-24 and 0.0.5 dated 2025-01-31
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ R/mom.R | 8 +++++--- build/partial.rdb |binary inst/CITATION | 2 +- inst/NEWS.Rd | 15 +++++++++++++++ inst/tinytest/test_package_metadata.R | 4 ++-- 7 files changed, 32 insertions(+), 15 deletions(-)
Title: Construct Modeling Packages
Description: Building modeling packages is hard. A large amount of effort
generally goes into providing an implementation for a new method that
is efficient, fast, and correct, but often less emphasis is put on the
user interface. A good interface requires specialized knowledge about
S3 methods and formulas, which the average package developer might not
have. The goal of 'hardhat' is to reduce the burden around building
new modeling packages by providing functionality for preprocessing,
predicting, and validating input.
Author: Hannah Frick [aut, cre] ,
Davis Vaughan [aut],
Max Kuhn [aut],
Posit Software, PBC [cph, fnd]
Maintainer: Hannah Frick <hannah@posit.co>
Diff between hardhat versions 1.4.0 dated 2024-06-02 and 1.4.1 dated 2025-01-31
DESCRIPTION | 12 MD5 | 218 +++--- NAMESPACE | 14 NEWS.md | 8 R/blueprint-formula-default.R | 137 ++- R/blueprint-recipe-default.R | 107 +- R/blueprint-xy-default.R | 78 +- R/blueprint.R | 7 R/case-weights.R | 10 R/classes.R | 9 R/constructor.R | 19 R/encoding.R | 4 R/extract.R | 4 R/forge.R | 7 R/hardhat-package.R | 2 R/import-standalone-obj-type.R | 29 R/import-standalone-types-check.R | 20 R/intercept.R | 28 R/model-frame.R | 9 R/model-matrix.R | 38 - R/model-offset.R | 19 R/mold.R | 10 R/print.R | 29 R/ptype.R | 8 R/quantile-pred.R |only R/recompose.R | 24 R/scream.R | 23 R/shrink.R | 10 R/sparsevctrs.R |only R/spruce.R | 6 R/standardize.R | 20 R/table.R | 10 R/tune.R | 9 R/use.R | 12 R/util.R | 45 - R/validation.R | 182 ++--- README.md | 2 build/vignette.rds |binary inst/doc/forge.R | 15 inst/doc/forge.Rmd | 9 inst/doc/forge.html | 348 ++++----- inst/doc/mold.R | 11 inst/doc/mold.Rmd | 9 inst/doc/mold.html | 470 ++++++------- inst/doc/package.R | 15 inst/doc/package.Rmd | 9 inst/doc/package.html | 756 ++++++++++----------- man/add_intercept_column.Rd | 6 man/check_quantile_levels.Rd |only man/contr_one_hot.Rd | 71 + man/default_recipe_blueprint.Rd | 4 man/extract_ptype.Rd | 6 man/get_data_classes.Rd | 6 man/model_frame.Rd | 6 man/model_matrix.Rd | 6 man/model_offset.Rd | 6 man/mold.Rd | 4 man/quantile_pred.Rd |only man/recompose.Rd | 4 man/rmd |only man/run-forge.Rd | 8 man/run-mold.Rd | 8 man/scream.Rd | 6 man/shrink.Rd | 6 man/tune.Rd | 2 man/validate_column_names.Rd | 6 man/validate_outcomes_are_binary.Rd | 6 man/validate_outcomes_are_factors.Rd | 6 man/validate_outcomes_are_numeric.Rd | 6 man/validate_prediction_size.Rd | 6 man/validate_predictors_are_numeric.Rd | 6 tests/testthat/_snaps/blueprint-formula-default.md |only tests/testthat/_snaps/blueprint.md |only tests/testthat/_snaps/constructor.md | 30 tests/testthat/_snaps/encoding.md | 2 tests/testthat/_snaps/forge-formula.md | 116 ++- tests/testthat/_snaps/forge-recipe.md | 63 + tests/testthat/_snaps/forge-xy.md | 85 ++ tests/testthat/_snaps/forge.md | 2 tests/testthat/_snaps/intercept.md | 11 tests/testthat/_snaps/levels.md |only tests/testthat/_snaps/model-matrix.md |only tests/testthat/_snaps/model-offset.md |only tests/testthat/_snaps/mold-formula.md | 155 +++- tests/testthat/_snaps/mold-recipe.md |only tests/testthat/_snaps/mold.md | 2 tests/testthat/_snaps/print.md | 68 - tests/testthat/_snaps/quantile-pred.md |only tests/testthat/_snaps/recompose.md | 10 tests/testthat/_snaps/spruce.md | 72 ++ tests/testthat/_snaps/standardize.md | 34 tests/testthat/_snaps/table.md | 4 tests/testthat/_snaps/tune.md |only tests/testthat/_snaps/use.md | 4 tests/testthat/_snaps/validation.md |only tests/testthat/helper-sparsevctrs.R |only tests/testthat/test-blueprint-formula-default.R |only tests/testthat/test-blueprint.R |only tests/testthat/test-constructor.R | 11 tests/testthat/test-forge-formula.R | 118 +-- tests/testthat/test-forge-recipe.R | 133 ++- tests/testthat/test-forge-xy.R | 110 +-- tests/testthat/test-intercept.R | 6 tests/testthat/test-levels.R | 6 tests/testthat/test-model-matrix.R | 35 tests/testthat/test-model-offset.R | 12 tests/testthat/test-mold-formula.R | 108 +-- tests/testthat/test-mold-recipe.R | 52 + tests/testthat/test-print.R | 2 tests/testthat/test-quantile-pred.R |only tests/testthat/test-recompose.R | 65 + tests/testthat/test-spruce.R | 37 - tests/testthat/test-standardize.R | 10 tests/testthat/test-tune.R | 6 tests/testthat/test-use.R | 6 tests/testthat/test-validation.R | 78 +- vignettes/forge.Rmd | 9 vignettes/mold.Rmd | 9 vignettes/package.Rmd | 9 119 files changed, 2756 insertions(+), 1720 deletions(-)
More information about ggsurveillance at CRAN
Permanent link
Title: Plotting Expected Goals (xG) Stats with 'Understat' Data
Description: Scrapes shots data from 'Understat' <https://understat.com/> and visualizes it using interactive plots:
- A detailed shot map displaying the location, type, and xG value of shots taken by both teams.
- An xG timeline chart showing the cumulative xG for each team over time, annotated with the details of scored goals.
Author: Aymen Nasri [aut, cre, cph]
Maintainer: Aymen Nasri <aymennasrii@proton.me>
Diff between ggfootball versions 0.1.0 dated 2025-01-30 and 0.2.0 dated 2025-01-31
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NEWS.md | 19 ++++++++++++++----- R/xg_chart.R | 13 +++++++------ R/xg_map.R | 4 ++-- README.md | 10 ++++++---- man/xg_chart.Rd | 17 ++++++++++------- man/xg_map.Rd | 6 +++--- 8 files changed, 53 insertions(+), 38 deletions(-)
Title: Generator of Main Scientific References
Description: Generates a list, with a size defined by the user, containing the main scientific references and the frequency distribution of authors and journals in the list obtained.
The database is a dataframe with academic production metadata made available by bibliographic collections such as Scopus, Web of Science, etc.
The temporal evolution of scientific production on a given topic is presented and ordered lists of articles are constructed by number of citations and of authors and journals by level of productivity.
Massimo Aria, Corrado Cuccurullo. (2017) <doi:10.1016/j.joi.2017.08.007>.
Caibo Zhou, Wenyan Song. (2021) <doi:10.1016/j.jclepro.2021.126943>.
Author: Marcio Eustaquio [aut, cre]
Maintainer: Marcio Eustaquio <marcioeustaquio@id.uff.br>
Diff between bibliorefer versions 0.1.0 dated 2024-03-08 and 0.1.1 dated 2025-01-31
DESCRIPTION | 6 +++--- MD5 | 12 +++++++----- NAMESPACE | 1 + R/ajust_pagin.R |only R/crit_quant.R | 2 +- R/principal_lister.R | 30 ++++++++++++++++++++++-------- man/ajust_pagin.Rd |only man/crit_quant.Rd | 2 +- 8 files changed, 35 insertions(+), 18 deletions(-)
Title: Tests of Independence Between Innovations of Generalized Error
Models
Description: Computation of test statistics of independence between (continuous) innovations of time series. They can be used with stochastic volatility models and Hidden Markov Models (HMM). This improves the results in Duchesne, Ghoudi & Remillard (2012) <doi:10.1002/cjs.11141>.
Author: Kilani Ghoudi [aut, ctb, cph],
Bouchra R. Nasri [aut, ctb, cph],
Bruno N Remillard [aut, cre, cph],
Pierre Duchesne [aut, ctb, cph]
Maintainer: Bruno N Remillard <bruno.remillard@hec.ca>
Diff between IndGenErrors versions 0.1.4 dated 2023-06-30 and 0.1.6 dated 2025-01-31
IndGenErrors-0.1.4/IndGenErrors/R/Dependogram.R |only IndGenErrors-0.1.4/IndGenErrors/man/Dependogram.Rd |only IndGenErrors-0.1.6/IndGenErrors/DESCRIPTION | 16 +++--- IndGenErrors-0.1.6/IndGenErrors/MD5 | 26 ++++++----- IndGenErrors-0.1.6/IndGenErrors/NAMESPACE | 8 ++- IndGenErrors-0.1.6/IndGenErrors/R/CrossCorrelogram.R | 2 IndGenErrors-0.1.6/IndGenErrors/R/crosscor_3series.R | 16 ++---- IndGenErrors-0.1.6/IndGenErrors/R/crossdep_2series.R |only IndGenErrors-0.1.6/IndGenErrors/R/crossdep_3series.R |only IndGenErrors-0.1.6/IndGenErrors/R/cvm_2series.R | 2 IndGenErrors-0.1.6/IndGenErrors/R/cvm_3series.R | 9 --- IndGenErrors-0.1.6/IndGenErrors/R/dependogram.R |only IndGenErrors-0.1.6/IndGenErrors/man/CrossCorrelogram.Rd | 7 ++ IndGenErrors-0.1.6/IndGenErrors/man/crosscor_3series.Rd | 6 +- IndGenErrors-0.1.6/IndGenErrors/man/crossdep_2series.Rd |only IndGenErrors-0.1.6/IndGenErrors/man/crossdep_3series.Rd |only IndGenErrors-0.1.6/IndGenErrors/man/dependogram.Rd |only IndGenErrors-0.1.6/IndGenErrors/src/calcul_cvm_crosscor_3d.c | 3 - 18 files changed, 49 insertions(+), 46 deletions(-)
Title: Analysis of Intra Annual Density Fluctuations
Description: Calculate false ring proportions from data frames of intra annual
density fluctuations.
Author: Konrad Mayer [aut, cre],
Filipe Campelo [aut]
Maintainer: Konrad Mayer <konrad.mayer@gmail.com>
Diff between iadf versions 0.1.2 dated 2021-05-24 and 0.1.3 dated 2025-01-31
DESCRIPTION | 8 - MD5 | 18 +- NAMESPACE | 1 NEWS.md | 4 R/false_ring_proportion.R | 231 ++++++++++--------------------------- R/tidy.R | 9 - README.md | 28 ++-- build/vignette.rds |binary inst/doc/falsering-proportion.R | 24 +-- inst/doc/falsering-proportion.html | 98 +++++++++------ 10 files changed, 178 insertions(+), 243 deletions(-)
Title: Optimal Subset Selection for Transformation Models
Description: Greedy optimal subset selection for transformation models
(Hothorn et al., 2018, <doi:10.1111/sjos.12291> ) based on the abess
algorithm (Zhu et al., 2020, <doi:10.1073/pnas.2014241117> ). Applicable to
models from packages 'tram' and 'cotram'. Application to shift-scale
transformation models are described in Siegfried et al. (2024,
<doi:10.1080/00031305.2023.2203177>).
Author: Lucas Kook [aut, cre] ,
Sandra Siegfried [ctb],
Torsten Hothorn [ctb]
Maintainer: Lucas Kook <lucasheinrich.kook@gmail.com>
Diff between tramvs versions 0.0-6 dated 2024-09-04 and 0.0-7 dated 2025-01-31
DESCRIPTION | 17 ++++--- MD5 | 8 +-- R/tramvs.R | 115 +++++++++++++++++++++++++++++++++------------------- build/vignette.rds |binary inst/doc/tramvs.pdf |binary 5 files changed, 87 insertions(+), 53 deletions(-)
Title: Functions for Epidemiological Analysis using Population Data
Description: Enables computation of epidemiological statistics, including
those where counts or mortality rates of the reference population are
used. Currently supported: excess hazard models (Dickman, Sloggett,
Hills, and Hakulinen (2012) <doi:10.1002/sim.1597>), rates, mean
survival times, relative/net survival (in particular the Ederer II
(Ederer and Heise (1959)) and Pohar Perme (Pohar Perme, Stare, and
Esteve (2012) <doi:10.1111/j.1541-0420.2011.01640.x>) estimators), and
standardized incidence and mortality ratios, all of which can be
easily adjusted for by covariates such as age. Fast splitting and
aggregation of 'Lexis' objects (from package 'Epi') and other
computations achieved using 'data.table'.
Author: Joonas Miettinen [cre, aut] ,
Matti Rantanen [aut],
Karri Seppa [ctb]
Maintainer: Joonas Miettinen <joonas.miettinen@cancer.fi>
Diff between popEpi versions 0.4.12 dated 2024-05-10 and 0.4.13 dated 2025-01-31
DESCRIPTION | 11 LICENSE | 2 MD5 | 240 ++-- NEWS.md | 5 R/S3_definitions.R | 802 +++++++-------- R/Surv.R | 18 R/aggregating.R | 440 ++++---- R/data_document.R | 66 - R/direct_adjusting.R | 180 +-- R/evaluation.R | 4 R/flexyargs.R | 182 +-- R/fractional_years.R | 112 +- R/incidence_rates.R | 186 +-- R/incidence_rates_utils.R | 70 - R/lexpand.R | 766 +++++++------- R/long_df_and_array.R | 86 - R/ltable.R | 220 ++-- R/mean_survival.R | 458 ++++---- R/popEpi-package.R | 24 R/pophaz.R | 58 - R/prevalence.R | 86 - R/relative_poisson.R | 398 +++---- R/relative_poisson_net_survival.R | 84 - R/sir.R | 874 ++++++++--------- R/sir_utils.R | 68 - R/splitLexisDT.R | 197 +-- R/splitMulti.R | 226 ++-- R/splitting_utility_functions.R | 704 ++++++------- R/startup_message.R | 6 R/survival_aggregated.R | 574 +++++------ R/survival_lexis.R | 324 +++--- R/survival_utility_functions.R | 278 ++--- R/utility_functions.R | 619 +++++------- R/weighted_table.R | 336 +++--- README.md | 42 build/partial.rdb |binary build/vignette.rds |binary inst/doc/sir.html | 4 inst/doc/survtab_examples.html | 4 man/ICSS.Rd | 8 man/Lexis_fpa.Rd | 40 man/Surv.Rd | 2 man/adjust.Rd | 2 man/aggre.Rd | 77 - man/all_names_present.Rd | 8 man/array_df_ratetable_utils.Rd | 144 +- man/as.Date.yrs.Rd | 8 man/as.aggre.Rd | 12 man/cast_simple.Rd | 16 man/cut_bound.Rd | 2 man/direct_standardization.Rd | 30 man/fac2num.Rd | 6 man/flexible_argument.Rd | 24 man/get.yrs.Rd | 43 man/is.Date.Rd | 9 man/is_leap_year.Rd | 4 man/lexpand.Rd | 182 +-- man/lines.sirspline.Rd | 6 man/lines.survmean.Rd | 8 man/lines.survtab.Rd | 12 man/ltable.Rd | 90 - man/meanpop_fi.Rd | 14 man/na2zero.Rd | 6 man/plot.rate.Rd | 8 man/plot.sir.Rd | 26 man/plot.sirspline.Rd | 6 man/plot.survmean.Rd | 8 man/plot.survtab.Rd | 14 man/popEpi-package.Rd | 8 man/pophaz.Rd | 16 man/popmort.Rd | 20 man/prepExpo.Rd | 34 man/print.aggre.Rd | 8 man/print.rate.Rd | 4 man/print.survtab.Rd | 8 man/rate.Rd | 30 man/rate_ratio.Rd | 16 man/relpois.Rd | 29 man/relpois_ag.Rd | 22 man/robust_values.Rd | 2 man/rpcurve.Rd | 16 man/setaggre.Rd | 16 man/setclass.Rd | 4 man/setcolsnull.Rd | 6 man/sibr.Rd | 12 man/sir.Rd | 94 - man/sir_exp.Rd | 26 man/sir_ratio.Rd | 16 man/sire.Rd | 12 man/sirspline.Rd | 43 man/splitLexisDT.Rd | 29 man/splitMulti.Rd | 76 - man/stdpop101.Rd | 4 man/stdpop18.Rd | 10 man/summary.aggre.Rd | 4 man/summary.survtab.Rd | 20 man/survmean.Rd | 44 man/survtab.Rd | 167 +-- man/survtab_ag.Rd | 199 +-- man/try2int.Rd | 4 tests/testthat/test_Surv.R | 4 tests/testthat/test_aggre.R | 110 +- tests/testthat/test_epi.R | 10 tests/testthat/test_expo.R | 38 tests/testthat/test_lexpand.R | 218 ++-- tests/testthat/test_prevtab.R | 16 tests/testthat/test_rate.R | 112 +- tests/testthat/test_relpois_mean_curve.R | 24 tests/testthat/test_sir.R | 232 ++-- tests/testthat/test_splitLexisDT.R | 70 - tests/testthat/test_splitMulti.R | 82 - tests/testthat/test_splitting_attributes.R | 36 tests/testthat/test_splitting_breaks.R | 36 tests/testthat/test_splitting_randomly_on_fixed_data.R | 16 tests/testthat/test_survmean.R | 174 +-- tests/testthat/test_survtab_adjusted.R | 60 - tests/testthat/test_survtab_bad_surv_ints.R | 34 tests/testthat/test_survtab_relative.R | 97 - tests/testthat/test_survtab_usage.R | 256 ++-- tests/testthat/test_utils.R | 282 ++--- tests/testthat/test_weighter.R | 90 - 121 files changed, 6271 insertions(+), 6294 deletions(-)
Title: Test Theory Analysis and Biclustering
Description: Implements comprehensive test data engineering methods as described in
Shojima (2022, ISBN:978-9811699856). Provides statistical techniques for
engineering and processing test data: Classical Test Theory (CTT) with
reliability coefficients for continuous ability assessment; Item Response
Theory (IRT) including Rasch, 2PL, and 3PL models with item/test information
functions; Latent Class Analysis (LCA) for nominal clustering; Latent Rank
Analysis (LRA) for ordinal clustering with automatic determination of cluster
numbers; Biclustering methods including infinite relational models for
simultaneous clustering of examinees and items without predefined cluster
numbers; and Bayesian Network Models (BNM) for visualizing inter-item
dependencies. Features local dependence analysis through LRA and biclustering,
parameter estimation, dimensionality assessment, and network structure
visualization for educational, psychological, and social science research.
Author: Koji Kosugi [aut, cre]
Maintainer: Koji Kosugi <kosugitti@gmail.com>
Diff between exametrika versions 1.1.0 dated 2024-11-22 and 1.2.0 dated 2025-01-31
exametrika-1.1.0/exametrika/R/BinaryFunctionFactory.R |only exametrika-1.1.0/exametrika/R/Ch00dataFormat.R |only exametrika-1.1.0/exametrika/R/Ch02TestItemAnalysis.R |only exametrika-1.1.0/exametrika/R/Ch03CTT.R |only exametrika-1.1.0/exametrika/R/Ch04AbilityEstimation.R |only exametrika-1.1.0/exametrika/R/Ch04IRTbaseFunctions.R |only exametrika-1.1.0/exametrika/R/Ch04ParameterEstimation.R |only exametrika-1.1.0/exametrika/R/Ch07InfiniteRelationalModel.R |only exametrika-1.1.0/exametrika/R/EMclus.R |only exametrika-1.1.0/exametrika/R/IRPindex.R |only exametrika-1.1.0/exametrika/R/ModelFitModule.R |only exametrika-1.1.0/exametrika/R/ch05LCA.R |only exametrika-1.1.0/exametrika/R/ch06LRA.R |only exametrika-1.1.0/exametrika/R/ch07Biclustering.R |only exametrika-1.1.0/exametrika/R/ch08BNM.R |only exametrika-1.1.0/exametrika/R/ch08BNM_GA.R |only exametrika-1.1.0/exametrika/R/ch08GA_utils.R |only exametrika-1.1.0/exametrika/R/ch09LDLRA.R |only exametrika-1.1.0/exametrika/R/ch09LDLRA_GA.R |only exametrika-1.1.0/exametrika/R/ch10LDB.R |only exametrika-1.1.0/exametrika/R/ch11BINET.R |only exametrika-1.1.0/exametrika/R/dataset_explain.R |only exametrika-1.1.0/exametrika/R/exametrikaPlot.R |only exametrika-1.1.0/exametrika/R/exametrikaPrint.R |only exametrika-1.1.0/exametrika/R/progressbar.R |only exametrika-1.1.0/exametrika/man/createBinaryFunction.Rd |only exametrika-1.1.0/exametrika/man/dataFormat.long.Rd |only exametrika-1.2.0/exametrika/DESCRIPTION | 9 exametrika-1.2.0/exametrika/MD5 | 223 +++++----- exametrika-1.2.0/exametrika/NAMESPACE | 47 ++ exametrika-1.2.0/exametrika/NEWS.md | 46 +- exametrika-1.2.0/exametrika/R/00_EMclus.R |only exametrika-1.2.0/exametrika/R/00_IRPindex.R |only exametrika-1.2.0/exametrika/R/00_ModelFitModule.R |only exametrika-1.2.0/exametrika/R/00_QitemFunctions.R |only exametrika-1.2.0/exametrika/R/00_dataset_explain.R |only exametrika-1.2.0/exametrika/R/00_exametrikaPlot.R |only exametrika-1.2.0/exametrika/R/00_exametrikaPrint.R |only exametrika-1.2.0/exametrika/R/00_typeErrorMessage.R |only exametrika-1.2.0/exametrika/R/01_dataFormat.R |only exametrika-1.2.0/exametrika/R/02B_TestStatistics.R |only exametrika-1.2.0/exametrika/R/02C_ItemStatistics.R |only exametrika-1.2.0/exametrika/R/02D_StudentAnalysis.R |only exametrika-1.2.0/exametrika/R/02_TestItemFunctions.R |only exametrika-1.2.0/exametrika/R/03_CTT.R |only exametrika-1.2.0/exametrika/R/04A_IRTbaseFunctions.R |only exametrika-1.2.0/exametrika/R/04B_AbilityEstimation.R |only exametrika-1.2.0/exametrika/R/04C_ParameterEstimation.R |only exametrika-1.2.0/exametrika/R/05_LCA.R |only exametrika-1.2.0/exametrika/R/06_LRA.R |only exametrika-1.2.0/exametrika/R/07B_InfiniteRelationalModel.R |only exametrika-1.2.0/exametrika/R/07_Biclustering.R |only exametrika-1.2.0/exametrika/R/08A_BNM.R |only exametrika-1.2.0/exametrika/R/08B_GA_utils.R |only exametrika-1.2.0/exametrika/R/08C_BNM_GA.R |only exametrika-1.2.0/exametrika/R/09B_LDLRA_GA.R |only exametrika-1.2.0/exametrika/R/09_LDLRA.R |only exametrika-1.2.0/exametrika/R/10_LDB.R |only exametrika-1.2.0/exametrika/R/11_BINET.R |only exametrika-1.2.0/exametrika/README.md | 8 exametrika-1.2.0/exametrika/data/J12S5000.rda |binary exametrika-1.2.0/exametrika/data/J15S3810.rda |only exametrika-1.2.0/exametrika/data/J15S500.rda |binary exametrika-1.2.0/exametrika/data/J20S400.rda |binary exametrika-1.2.0/exametrika/data/J35S5000.rda |only exametrika-1.2.0/exametrika/data/J35S515.rda |binary exametrika-1.2.0/exametrika/data/J5S10.rda |binary exametrika-1.2.0/exametrika/man/AlphaCoefficient.Rd | 10 exametrika-1.2.0/exametrika/man/AlphaIfDel.Rd | 2 exametrika-1.2.0/exametrika/man/BINET.Rd | 2 exametrika-1.2.0/exametrika/man/BNM.Rd | 2 exametrika-1.2.0/exametrika/man/Biclustering.Rd | 2 exametrika-1.2.0/exametrika/man/Biserial_Correlation.Rd | 2 exametrika-1.2.0/exametrika/man/BitRespPtn.Rd | 2 exametrika-1.2.0/exametrika/man/CCRR.Rd | 7 exametrika-1.2.0/exametrika/man/CTT.Rd | 12 exametrika-1.2.0/exametrika/man/Dimensionality.Rd | 12 exametrika-1.2.0/exametrika/man/FieldAnalysis.Rd | 12 exametrika-1.2.0/exametrika/man/IIF2PLM.Rd | 2 exametrika-1.2.0/exametrika/man/IIF3PLM.Rd | 2 exametrika-1.2.0/exametrika/man/IRM.Rd | 2 exametrika-1.2.0/exametrika/man/IRT.Rd | 2 exametrika-1.2.0/exametrika/man/ITBiserial.Rd | 11 exametrika-1.2.0/exametrika/man/InterItemAnalysis.Rd | 7 exametrika-1.2.0/exametrika/man/ItemEntropy.Rd | 8 exametrika-1.2.0/exametrika/man/ItemFit.Rd | 2 exametrika-1.2.0/exametrika/man/ItemInformationFunc.Rd | 2 exametrika-1.2.0/exametrika/man/ItemLift.Rd | 7 exametrika-1.2.0/exametrika/man/ItemOdds.Rd | 7 exametrika-1.2.0/exametrika/man/ItemReport.Rd |only exametrika-1.2.0/exametrika/man/ItemStatistics.Rd | 2 exametrika-1.2.0/exametrika/man/ItemThreshold.Rd | 7 exametrika-1.2.0/exametrika/man/ItemTotalCorr.Rd | 7 exametrika-1.2.0/exametrika/man/J12S5000.Rd | 8 exametrika-1.2.0/exametrika/man/J15S3810.Rd |only exametrika-1.2.0/exametrika/man/J15S500.Rd | 8 exametrika-1.2.0/exametrika/man/J20S400.Rd | 8 exametrika-1.2.0/exametrika/man/J35S5000.Rd |only exametrika-1.2.0/exametrika/man/J35S515.Rd | 8 exametrika-1.2.0/exametrika/man/J5S10.Rd | 8 exametrika-1.2.0/exametrika/man/JCRR.Rd | 7 exametrika-1.2.0/exametrika/man/JointSampleSize.Rd | 7 exametrika-1.2.0/exametrika/man/LCA.Rd | 2 exametrika-1.2.0/exametrika/man/LDB.Rd | 2 exametrika-1.2.0/exametrika/man/LDLRA.Rd | 2 exametrika-1.2.0/exametrika/man/LD_param_est.Rd | 2 exametrika-1.2.0/exametrika/man/LRA.Rd | 2 exametrika-1.2.0/exametrika/man/LogisticModel.Rd | 2 exametrika-1.2.0/exametrika/man/MutualInformation.Rd | 7 exametrika-1.2.0/exametrika/man/OmegaCoefficient.Rd | 10 exametrika-1.2.0/exametrika/man/PSD_item_params.Rd | 2 exametrika-1.2.0/exametrika/man/PhiCoefficient.Rd | 7 exametrika-1.2.0/exametrika/man/RaschModel.Rd | 2 exametrika-1.2.0/exametrika/man/ScoreReport.Rd |only exametrika-1.2.0/exametrika/man/StrLearningGA_BNM.Rd | 2 exametrika-1.2.0/exametrika/man/StrLearningPBIL_BNM.Rd | 2 exametrika-1.2.0/exametrika/man/StrLearningPBIL_LDLRA.Rd | 2 exametrika-1.2.0/exametrika/man/StudentAnalysis.Rd | 2 exametrika-1.2.0/exametrika/man/TestFit.Rd | 2 exametrika-1.2.0/exametrika/man/TestFitSaturated.Rd | 2 exametrika-1.2.0/exametrika/man/TestInformationFunc.Rd | 2 exametrika-1.2.0/exametrika/man/TestStatistics.Rd | 37 + exametrika-1.2.0/exametrika/man/TetrachoricCorrelationMatrix.Rd | 7 exametrika-1.2.0/exametrika/man/ThreePLM.Rd | 2 exametrika-1.2.0/exametrika/man/TwoPLM.Rd | 2 exametrika-1.2.0/exametrika/man/asymprior.Rd | 2 exametrika-1.2.0/exametrika/man/calcFitIndices.Rd | 2 exametrika-1.2.0/exametrika/man/crr.Rd | 7 exametrika-1.2.0/exametrika/man/dataFormat.Rd | 44 + exametrika-1.2.0/exametrika/man/figures |only exametrika-1.2.0/exametrika/man/generate_category_labels.Rd |only exametrika-1.2.0/exametrika/man/longdataFormat.Rd |only exametrika-1.2.0/exametrika/man/maxParents_penalty.Rd | 2 exametrika-1.2.0/exametrika/man/nrs.Rd | 7 exametrika-1.2.0/exametrika/man/objective_function_IRT.Rd | 2 exametrika-1.2.0/exametrika/man/passage.Rd | 7 exametrika-1.2.0/exametrika/man/percentile.Rd | 7 exametrika-1.2.0/exametrika/man/plot.exametrika.Rd | 2 exametrika-1.2.0/exametrika/man/print.exametrika.Rd | 20 exametrika-1.2.0/exametrika/man/response_type_error.Rd |only exametrika-1.2.0/exametrika/man/slopeprior.Rd | 2 exametrika-1.2.0/exametrika/man/softmax.Rd | 2 exametrika-1.2.0/exametrika/man/sscore.Rd | 7 exametrika-1.2.0/exametrika/man/stanine.Rd | 7 exametrika-1.2.0/exametrika/man/tetrachoric.Rd | 2 145 files changed, 398 insertions(+), 346 deletions(-)
Title: 'DT' Extension for CRUD (Create, Read, Update, Delete)
Applications in 'shiny'
Description: The core of this package is a function eDT() which enhances DT::datatable() such that it can be used to interactively modify data in 'shiny'. By the use of generic 'dplyr' methods it supports many types of data storage, with relational databases ('dbplyr') being the main use case.
Author: Jasper Schelfhout [aut, cre],
Maxim Nazarov [rev],
Daan Seynaeve [rev],
Lennart Tuijnder [rev]
Maintainer: Jasper Schelfhout <jasper.schelfhout@openanalytics.eu>
Diff between editbl versions 1.0.5 dated 2024-05-21 and 1.1.0 dated 2025-01-31
editbl-1.0.5/editbl/man/createButtonsHTML.Rd |only editbl-1.1.0/editbl/DESCRIPTION | 12 editbl-1.1.0/editbl/MD5 | 49 editbl-1.1.0/editbl/NAMESPACE | 4 editbl-1.1.0/editbl/R/eDT.R | 553 +++++++--- editbl-1.1.0/editbl/R/utils.R | 20 editbl-1.1.0/editbl/README.md | 64 - editbl-1.1.0/editbl/build/vignette.rds |binary editbl-1.1.0/editbl/inst/NEWS | 4 editbl-1.1.0/editbl/inst/doc/howto_relational_db.html | 6 editbl-1.1.0/editbl/inst/doc/howto_relational_db_dm.html | 6 editbl-1.1.0/editbl/inst/doc/howto_row_level_access.R |only editbl-1.1.0/editbl/inst/doc/howto_row_level_access.html |only editbl-1.1.0/editbl/inst/doc/howto_row_level_access.rmd |only editbl-1.1.0/editbl/inst/doc/howto_switch_from_DT.html | 4 editbl-1.1.0/editbl/man/addButtons.Rd | 27 editbl-1.1.0/editbl/man/canXXXRowTemplate.Rd |only editbl-1.1.0/editbl/man/createButtons.Rd | 32 editbl-1.1.0/editbl/man/createDeleteButtonHTML.Rd |only editbl-1.1.0/editbl/man/createDeleteButtonHTML_shiny.Rd |only editbl-1.1.0/editbl/man/createEditButtonHTML.Rd |only editbl-1.1.0/editbl/man/createEditButtonHTML_shiny.Rd |only editbl-1.1.0/editbl/man/eDT.Rd | 38 editbl-1.1.0/editbl/man/eDTOutput.Rd | 3 editbl-1.1.0/editbl/man/evalCanDeleteRow.Rd |only editbl-1.1.0/editbl/man/evalCanEditRow.Rd |only editbl-1.1.0/editbl/man/initData.Rd | 16 editbl-1.1.0/editbl/man/overwriteDefaults.Rd |only editbl-1.1.0/editbl/tests/testthat/test-eDT.R | 41 editbl-1.1.0/editbl/tests/testthat/test-utils.R | 7 editbl-1.1.0/editbl/vignettes/howto_row_level_access.rmd |only editbl-1.1.0/editbl/vignettes/screenshots/howto_row_level_access_1.png |only editbl-1.1.0/editbl/vignettes/screenshots/howto_row_level_access_2.png |only 33 files changed, 669 insertions(+), 217 deletions(-)
Title: Spatial Ecology Miscellaneous Methods
Description: Collection of R functions and data sets for the support of spatial ecology analyses with a focus on pre, core and post modelling analyses of species distribution, niche quantification and community assembly. Written by current and former members and collaborators of the ecospat group of Antoine Guisan, Department of Ecology and Evolution (DEE) and Institute of Earth Surface Dynamics (IDYST), University of Lausanne, Switzerland. Read Di Cola et al. (2016) <doi:10.1111/ecog.02671> for details.
Author: Olivier Broennimann [cre, aut, ctb],
Valeria Di Cola [aut, ctb],
Blaise Petitpierre [ctb],
Frank Breiner [ctb],
Daniel Scherrer [ctb],
Manuela D`Amen [ctb],
Christophe Randin [ctb],
Robin Engler [ctb],
Wim Hordijk [ctb],
Heidi Mod [ctb],
Julien Potti [...truncated...]
Maintainer: Olivier Broennimann <olivier.broennimann@unil.ch>
Diff between ecospat versions 4.1.1 dated 2024-07-04 and 4.1.2 dated 2025-01-31
DESCRIPTION | 19 +++++++++---------- MD5 | 8 ++++---- NEWS | 7 +++++++ R/ecospat.CCV.R | 2 +- inst/doc/vignette_ecospat_package.pdf |binary 5 files changed, 21 insertions(+), 15 deletions(-)
Title: Covariance Measure Tests for Conditional Independence
Description: Covariance measure tests for conditional independence testing
against conditional covariance and nonlinear conditional mean alternatives.
The package implements versions of the generalised covariance measure test
(Shah and Peters, 2020, <doi:10.1214/19-aos1857>) and projected covariance
measure test (Lundborg et al., 2023, <doi:10.1214/24-AOS2447>). The
tram-GCM test, for censored responses, is implemented including the Cox
model and survival forests (Kook et al., 2024,
<doi:10.1080/01621459.2024.2395588>). Application examples to variable
significance testing and modality selection can be found in Kook and
Lundborg (2024, <doi:10.1093/bib/bbae475>).
Author: Lucas Kook [aut, cre] ,
Anton Rask Lundborg [ctb]
Maintainer: Lucas Kook <lucasheinrich.kook@gmail.com>
Diff between comets versions 0.1-0 dated 2024-12-06 and 0.1-1 dated 2025-01-31
DESCRIPTION | 29 +++++++----- MD5 | 16 +++--- NAMESPACE | 2 R/gcm.R | 69 +++++++++++++++++----------- R/regressions.R | 127 ++++++++++++++++++++++++++++++++++++++++++++++++++--- R/wgcm.R | 18 ++++--- man/gcm.Rd | 6 ++ man/regressions.Rd | 66 +++++++++++++++++++++++++-- man/wgcm.Rd | 11 ++++ 9 files changed, 277 insertions(+), 67 deletions(-)
Title: Model-Based Causal Feature Selection for General Response Types
Description: Extends invariant causal prediction (Peters et al., 2016,
<doi:10.1111/rssb.12167>) to generalized linear and transformation models
(Hothorn et al., 2018, <doi:10.1111/sjos.12291>).
The methodology is described in Kook et al. (2023,
<doi:10.1080/01621459.2024.2395588>).
Author: Lucas Kook [aut, cre] ,
Sorawit Saengkyongam [ctb],
Anton Rask Lundborg [ctb],
Torsten Hothorn [ctb],
Jonas Peters [ctb]
Maintainer: Lucas Kook <lucasheinrich.kook@gmail.com>
Diff between tramicp versions 0.0-2 dated 2024-03-14 and 0.1-0 dated 2025-01-31
DESCRIPTION | 12 +++--- MD5 | 8 ++-- R/tests.R | 4 +- R/tramicp.R | 102 +++++++++++++++++++++++++++++++----------------------- build/partial.rdb |binary 5 files changed, 73 insertions(+), 53 deletions(-)
Title: Accesses Weather Data from the Iowa Environment Mesonet
Description: Allows to get weather data from Automated Surface Observing
System (ASOS) stations (airports) in the whole world thanks to the
Iowa Environment Mesonet website.
Author: Maelle Salmon [aut, cre] ,
Brooke Anderson [rev] ,
CHAI Project [fnd] ,
rOpenSci [fnd] ,
Daryl Herzmann [ctb],
Jonathan Elchison [aut]
Maintainer: Maelle Salmon <maelle.salmon@yahoo.se>
Diff between riem versions 0.3.2 dated 2024-07-26 and 1.0.0 dated 2025-01-31
riem-0.3.2/riem/tests/fixtures |only riem-0.3.2/riem/tests/testthat/fixtures/measures/mesonet.agron.iastate.edu |only riem-0.3.2/riem/tests/testthat/fixtures/warnings/mesonet.agron.iastate.edu |only riem-1.0.0/riem/DESCRIPTION | 15 riem-1.0.0/riem/MD5 | 37 riem-1.0.0/riem/NEWS.md | 10 riem-1.0.0/riem/R/measures.R | 91 riem-1.0.0/riem/man/riem_measures.Rd | 33 riem-1.0.0/riem/tests/testthat/_snaps/measures.md | 50 riem-1.0.0/riem/tests/testthat/fixtures/measures-all-reports |only riem-1.0.0/riem/tests/testthat/fixtures/measures-hfmetar |only riem-1.0.0/riem/tests/testthat/fixtures/measures-hfmetar-routine |only riem-1.0.0/riem/tests/testthat/fixtures/measures-hfmetar-specials |only riem-1.0.0/riem/tests/testthat/fixtures/measures-multiple-data |only riem-1.0.0/riem/tests/testthat/fixtures/measures-routine |only riem-1.0.0/riem/tests/testthat/fixtures/measures-specials |only riem-1.0.0/riem/tests/testthat/fixtures/measures/api |only riem-1.0.0/riem/tests/testthat/fixtures/measures2 |only riem-1.0.0/riem/tests/testthat/fixtures/networks/mesonet.agron.iastate.edu/api/1/networks.json.json | 1440 +++++----- riem-1.0.0/riem/tests/testthat/fixtures/stations/mesonet.agron.iastate.edu/api/1/network/IN__ASOS.json.json | 516 ++- riem-1.0.0/riem/tests/testthat/fixtures/stations/mesonet.agron.iastate.edu/api/1/networks.json.json | 1440 +++++----- riem-1.0.0/riem/tests/testthat/fixtures/warnings/api |only riem-1.0.0/riem/tests/testthat/helper-riem.R | 3 riem-1.0.0/riem/tests/testthat/test-measures.R | 309 +- 24 files changed, 2287 insertions(+), 1657 deletions(-)
Title: Fast Symbolic Multivariate Polynomials
Description: Fast manipulation of symbolic multivariate polynomials
using the 'Map' class of the Standard Template Library. The package
uses print and coercion methods from the 'mpoly' package but
offers speed improvements. It is comparable in speed to the 'spray'
package for sparse arrays, but retains the symbolic benefits of
'mpoly'. To cite the package in publications, use Hankin 2022
<doi:10.48550/ARXIV.2210.15991>. Uses 'disordR' discipline.
Author: Robin K. S. Hankin [aut, cre]
Maintainer: Robin K. S. Hankin <hankin.robin@gmail.com>
Diff between mvp versions 1.0-14 dated 2023-03-19 and 1.0-18 dated 2025-01-31
mvp-1.0-14/mvp/inst/doc/mvp.pdf |only mvp-1.0-14/mvp/man/lose.Rd |only mvp-1.0-14/mvp/vignettes/poly.bib |only mvp-1.0-18/mvp/DESCRIPTION | 22 +++-- mvp-1.0-18/mvp/MD5 | 64 +++++++++-------- mvp-1.0-18/mvp/NAMESPACE | 6 - mvp-1.0-18/mvp/NEWS.md |only mvp-1.0-18/mvp/R/skimpy.R | 99 ++++++++++++++++++-------- mvp-1.0-18/mvp/R/skimpy_ops.R | 10 ++ mvp-1.0-18/mvp/README.md | 2 mvp-1.0-18/mvp/build/partial.rdb |binary mvp-1.0-18/mvp/build/vignette.rds |binary mvp-1.0-18/mvp/data |only mvp-1.0-18/mvp/inst/doc/mvp.R | 70 ++++++++++-------- mvp-1.0-18/mvp/inst/doc/mvp.Rmd | 116 +++++++++++++++---------------- mvp-1.0-18/mvp/inst/doc/mvp.html |only mvp-1.0-18/mvp/inst/mvp_stickermaker.R |only mvp-1.0-18/mvp/inst/symb.Rmd |only mvp-1.0-18/mvp/man/Ops.mvp.Rd | 10 ++ mvp-1.0-18/mvp/man/all.equal.Rd |only mvp-1.0-18/mvp/man/allvars.Rd | 5 + mvp-1.0-18/mvp/man/as.function.Rd | 2 mvp-1.0-18/mvp/man/coeffs.Rd | 11 ++ mvp-1.0-18/mvp/man/deriv.Rd | 31 +++++--- mvp-1.0-18/mvp/man/drop.Rd |only mvp-1.0-18/mvp/man/horner.Rd | 2 mvp-1.0-18/mvp/man/letters.Rd |only mvp-1.0-18/mvp/man/mvp.Rd | 11 ++ mvp-1.0-18/mvp/man/ooom.Rd | 2 mvp-1.0-18/mvp/man/rmvp.Rd | 22 ++++- mvp-1.0-18/mvp/man/series.Rd | 14 +-- mvp-1.0-18/mvp/man/subs.Rd | 14 +-- mvp-1.0-18/mvp/man/summary.Rd | 2 mvp-1.0-18/mvp/src/skimpy.cpp | 28 +++---- mvp-1.0-18/mvp/tests/testthat/test_aaa.R | 6 + mvp-1.0-18/mvp/tests/testthat/test_aac.R | 2 mvp-1.0-18/mvp/tests/testthat/test_aag.R | 26 ++++-- mvp-1.0-18/mvp/vignettes/mvp.Rmd | 116 +++++++++++++++---------------- mvp-1.0-18/mvp/vignettes/mvp.bib |only 39 files changed, 407 insertions(+), 286 deletions(-)
Title: 'GeoNetwork' API R Interface
Description: Provides an R interface to the 'GeoNetwork' API (<https://geonetwork-opensource.org/#api>) allowing to upload and publish metadata in a 'GeoNetwork' web-application and expose it to OGC CSW.
Author: Emmanuel Blondel [aut, cre]
Maintainer: Emmanuel Blondel <emmanuel.blondel1@gmail.com>
Diff between geonapi versions 0.7-2 dated 2024-03-21 and 0.8 dated 2025-01-31
DESCRIPTION | 12 +++--- MD5 | 47 ++++++++++++------------- NEWS.md | 12 ++++-- R/GNAbstractManager.R | 4 +- R/GNLegacyAPIManager.R | 26 +++++++++----- R/GNManager.R | 4 +- R/GNOpenAPIManager.R | 30 ++++++++++------ R/GNPriv.R | 8 ++-- R/GNPrivConfiguration.R | 6 +-- R/GNRESTRequest.R | 4 +- R/GNUtils.R | 4 +- R/GNVersion.R | 4 +- R/geonapi.R | 3 - README.md | 6 +-- man/GNAbstractManager.Rd | 4 +- man/GNLegacyAPIManager.Rd | 14 +++---- man/GNManager.Rd | 4 +- man/GNOpenAPIManager.Rd | 22 +++++------ man/GNPriv.Rd |only man/GNPrivConfiguration.Rd | 74 ++-------------------------------------- man/GNRESTRequest.Rd | 4 +- man/GNUtils.Rd | 4 +- man/GNVersion.Rd | 4 +- man/geonapi.Rd | 9 ++++ tests/testthat/test_GNManager.R | 2 - 25 files changed, 138 insertions(+), 173 deletions(-)
Title: Vaccine Extension Package for ADaM in 'R' Asset Library
Description: Programming vaccine specific Clinical Data Interchange
Standards Consortium (CDISC) compliant Analysis Data Model (ADaM)
datasets in 'R'. Flat model is followed as per
Center for Biologics Evaluation and Research (CBER) guidelines for
creating vaccine specific domains. ADaM datasets are a mandatory part
of any New Drug or Biologics License Application submitted to the
United States Food and Drug Administration (FDA). Analysis derivations
are implemented in accordance with the "Analysis Data Model
Implementation Guide" (CDISC Analysis Data Model Team (2021),
<https://www.cdisc.org/standards/foundational/adam/adamig-v1-3-release-package>).
The package is an extension package of the 'admiral' package.
Author: Sukalpo Saha [aut, cre],
Arjun Rubalingam [aut],
Ben Straub [aut],
Vikram S [aut],
Dhivya Kanagaraj [aut],
Federico Baratin [aut],
Yamini Purna Bollu [aut],
Ilse Augustyns [aut],
Kalyani Bodicherla [aut],
Hilde Delanghe [aut],
Lee Armishaw [aut],
Nee [...truncated...]
Maintainer: Sukalpo Saha <sukalpo.saha@pfizer.com>
Diff between admiralvaccine versions 0.3.0 dated 2024-08-29 and 0.4.0 dated 2025-01-31
DESCRIPTION | 9 MD5 | 142 NAMESPACE | 352 - NEWS.md | 148 R/admiralvaccine.R | 70 R/data.R | 78 R/derive_diam_to_sev_records.R | 404 +- R/derive_fever_records.R | 266 - R/derive_var_aval_adis.R | 240 - R/derive_vars_crit.R | 307 - R/derive_vars_event_flag.R | 342 - R/derive_vars_max_flag.R | 328 - R/derive_vars_merged_vaccine.R | 234 - R/derive_vars_params.R | 276 - R/derive_vars_vaxdt.R | 242 - R/global.R | 228 - R/post_process_reacto.R | 104 README.md | 220 - build/vignette.rds |binary inst/WORDLIST | 152 inst/doc/adce.R | 344 - inst/doc/adce.Rmd | 498 +- inst/doc/adce.html | 2810 +++++++------- inst/doc/adface.R | 708 +-- inst/doc/adface.Rmd | 1172 ++--- inst/doc/adface.html | 4542 +++++++++++------------ inst/doc/adis.R | 876 ++-- inst/doc/adis.Rmd | 1232 +++--- inst/doc/adis.html | 4271 ++++++++++----------- inst/doc/admiralvaccine.R | 78 inst/doc/admiralvaccine.Rmd | 204 - inst/doc/admiralvaccine.html | 836 ++-- inst/doc/adsl.R | 290 - inst/doc/adsl.Rmd | 602 +-- inst/doc/adsl.html | 1586 ++++---- inst/templates/ad_adce.R | 326 - inst/templates/ad_adface.R | 582 +- inst/templates/ad_adis.R | 742 +-- inst/templates/ad_adsl.R | 358 - man/admiralvaccine-package.Rd | 124 man/admiralvaccine_adce.Rd | 52 man/admiralvaccine_adface.Rd | 52 man/admiralvaccine_adis.Rd | 52 man/admiralvaccine_adsl.Rd | 52 man/derive_diam_to_sev_records.Rd | 296 - man/derive_fever_records.Rd | 158 man/derive_var_aval_adis.Rd | 204 - man/derive_vars_crit.Rd | 214 - man/derive_vars_event_flag.Rd | 234 - man/derive_vars_max_flag.Rd | 170 man/derive_vars_merged_vaccine.Rd | 182 man/derive_vars_params.Rd | 198 - man/derive_vars_vaxdt.Rd | 168 man/max_flag.Rd | 104 man/post_process_reacto.Rd | 104 man/roxygen/meta.R | 28 tests/testthat.R | 8 tests/testthat/test-derive_diam_to_sev_records.R | 784 +-- tests/testthat/test-derive_fever_records.R | 174 tests/testthat/test-derive_var_aval_adis.R | 756 +-- tests/testthat/test-derive_vars_crit.R | 441 +- tests/testthat/test-derive_vars_event_flag.R | 452 +- tests/testthat/test-derive_vars_max_flag.R | 326 - tests/testthat/test-derive_vars_merged_vaccine.R | 198 - tests/testthat/test-derive_vars_params.R | 406 +- tests/testthat/test-derive_vars_vaxdt.R | 224 - tests/testthat/test-post_process_reacto.R | 96 vignettes/adce.Rmd | 498 +- vignettes/adface.Rmd | 1172 ++--- vignettes/adis.Rmd | 1232 +++--- vignettes/admiralvaccine.Rmd | 204 - vignettes/adsl.Rmd | 602 +-- 72 files changed, 18109 insertions(+), 18055 deletions(-)
More information about admiralvaccine at CRAN
Permanent link
Title: Create Overlapping Stacked Plots
Description: Easily create overlapping grammar of graphics plots for scientific data visualization.
This style of plotting is particularly common in climatology and oceanography research communities.
Author: Sebastian Kopf [aut, cre, cph]
,
Tristan Caro [aut] ,
Jamie McFarlin [aut] ,
Jon Raberg [aut]
Maintainer: Sebastian Kopf <sebastian.kopf@colorado.edu>
Diff between ggstackplot versions 0.4 dated 2025-01-14 and 0.4.1 dated 2025-01-31
ggstackplot-0.4.1/ggstackplot/DESCRIPTION | 13 ggstackplot-0.4.1/ggstackplot/MD5 | 42 +-- ggstackplot-0.4.1/ggstackplot/NEWS.md | 8 ggstackplot-0.4.1/ggstackplot/R/ggstackplot.R | 33 +- ggstackplot-0.4.1/ggstackplot/R/helpers.R | 22 + ggstackplot-0.4.1/ggstackplot/README.md | 137 ++++++++-- ggstackplot-0.4.1/ggstackplot/build/vignette.rds |binary ggstackplot-0.4.1/ggstackplot/inst/doc/ggstackplot.R |only ggstackplot-0.4.1/ggstackplot/inst/doc/ggstackplot.Rmd |only ggstackplot-0.4.1/ggstackplot/inst/doc/ggstackplot.html |only ggstackplot-0.4.1/ggstackplot/man/figures/README-geodata-horizontal-1.png |only ggstackplot-0.4.1/ggstackplot/man/figures/README-geodata-horizontal-2-1.png |only ggstackplot-0.4.1/ggstackplot/man/ggstackplot-package.Rd | 11 ggstackplot-0.4.1/ggstackplot/man/ggstackplot.Rd | 9 ggstackplot-0.4.1/ggstackplot/tests/testthat/Rplots.pdf |only ggstackplot-0.4.1/ggstackplot/tests/testthat/_snaps/ggstackplot/horizontally-stacked-plot.svg | 64 ++-- ggstackplot-0.4.1/ggstackplot/tests/testthat/_snaps/ggstackplot/hstack-w-axis-defs-and-labs-in-template.svg | 44 +-- ggstackplot-0.4.1/ggstackplot/tests/testthat/_snaps/ggstackplot/hstack-w-axis-defs-in-template.svg | 44 +-- ggstackplot-0.4.1/ggstackplot/tests/testthat/_snaps/ggstackplot/vstack-w-axis-defs-in-template.svg | 54 +-- ggstackplot-0.4.1/ggstackplot/tests/testthat/test-ggstackplot.R | 2 ggstackplot-0.4.1/ggstackplot/vignettes/ggstackplot.Rmd |only ggstackplot-0.4/ggstackplot/inst/doc/features.R |only ggstackplot-0.4/ggstackplot/inst/doc/features.Rmd |only ggstackplot-0.4/ggstackplot/inst/doc/features.html |only ggstackplot-0.4/ggstackplot/man/figures/README-example-1.png |only ggstackplot-0.4/ggstackplot/man/figures/README-example2-1.png |only ggstackplot-0.4/ggstackplot/vignettes/features.Rmd |only ggstackplot-0.4/ggstackplot/vignettes/unused |only 28 files changed, 300 insertions(+), 183 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-12-16 0.0.9
Title: Analysis of Bivariate Survival Data Based on Copulas
Description: Simulating bivariate survival data from copula models.
Estimation of the association parameter in copula models.
Two different ways to estimate the association parameter in copula models are implemented.
A goodness-of-fit test for a given copula model is implemented.
See Emura, Lin and Wang (2010) <doi:10.1016/j.csda.2010.03.013> for details.
Author: Takeshi Emura [aut, cre]
Maintainer: Takeshi Emura <takeshiemura@gmail.com>
Diff between Copula.surv versions 1.7 dated 2024-10-26 and 1.8 dated 2025-01-31
DESCRIPTION | 8 ++++---- MD5 | 4 +++- R/Weib.reg.Frank.R |only man/Weib.reg.Frank.Rd |only 4 files changed, 7 insertions(+), 5 deletions(-)
Title: Tail Classifier
Description: The function TailClassifier() suggests one of the following types of tail for your discrete data: 1) Power decaying tail; 2) Sub-exponential decaying tail; and 3) Near-exponential decaying tail. The function also provides an estimate of the parameter for the classified-distribution as a reference.
Author: Jialin Zhang [aut, cph, cre]
Maintainer: Jialin Zhang (JZ) <jzhang@math.msstate.edu>
Diff between TailClassifier versions 0.1.1 dated 2023-10-30 and 0.1.2 dated 2025-01-31
DESCRIPTION | 13 +++++++----- MD5 | 6 ++--- R/TailClassifier.r | 52 ++++++++++++++++++++++++++++++++++++++------------ man/TailClassifier.Rd | 13 ++++++++++-- 4 files changed, 62 insertions(+), 22 deletions(-)
More information about TailClassifier at CRAN
Permanent link
Title: Estimated Marginal Means, aka Least-Squares Means
Description: Obtain estimated marginal means (EMMs) for many linear, generalized
linear, and mixed models. Compute contrasts or linear functions of EMMs,
trends, and comparisons of slopes. Plots and other displays.
Least-squares means are discussed, and the term "estimated marginal means"
is suggested, in Searle, Speed, and Milliken (1980) Population marginal means
in the linear model: An alternative to least squares means, The American
Statistician 34(4), 216-221 <doi:10.1080/00031305.1980.10483031>.
Author: Russell V. Lenth [aut, cre, cph],
Balazs Banfai [ctb],
Ben Bolker [ctb],
Paul Buerkner [ctb],
Iago Gine-Vazquez [ctb],
Maxime Herve [ctb],
Maarten Jung [ctb],
Jonathon Love [ctb],
Fernando Miguez [ctb],
Julia Piaskowski [ctb],
Hannes Riebl [ctb],
Hen [...truncated...]
Maintainer: Russell V. Lenth <russell-lenth@uiowa.edu>
Diff between emmeans versions 1.10.6 dated 2024-12-12 and 1.10.7 dated 2025-01-31
DESCRIPTION | 8 - MD5 | 112 +++++++++--------- NAMESPACE | 1 NEWS.md | 20 +++ R/emmGrid-methods.R | 150 ++++++++++-------------- R/emmeans-package.R | 4 R/emmeans.R | 48 +++++++ R/rbind.R | 4 R/ref-grid.R | 225 +++++++++++++++++++++++++++---------- inst/doc/AQuickStart.Rmd | 6 inst/doc/AQuickStart.html | 14 +- inst/doc/FAQs.Rmd | 15 ++ inst/doc/FAQs.html | 23 +++ inst/doc/basics.R | 24 +-- inst/doc/basics.Rmd | 2 inst/doc/basics.html | 26 ++-- inst/doc/comparisons.R | 2 inst/doc/comparisons.Rmd | 4 inst/doc/comparisons.html | 22 +-- inst/doc/confidence-intervals.R | 4 inst/doc/confidence-intervals.Rmd | 6 inst/doc/confidence-intervals.html | 16 +- inst/doc/interactions.html | 26 ++-- inst/doc/messy-data.R | 10 - inst/doc/messy-data.Rmd | 2 inst/doc/messy-data.html | 18 +- inst/doc/models.Rmd | 2 inst/doc/models.html | 6 inst/doc/predictions.R | 4 inst/doc/predictions.html | 6 inst/doc/re-engineering-clds.html | 4 inst/doc/sophisticated.R | 28 ++-- inst/doc/sophisticated.html | 12 - inst/doc/transformations.R | 34 ++--- inst/doc/transformations.Rmd | 4 inst/doc/transformations.html | 22 ++- inst/doc/utilities.R | 8 - inst/doc/utilities.html | 4 inst/doc/vignette-topics.Rmd | 8 - inst/doc/vignette-topics.html | 12 - inst/doc/xplanations.R | 2 inst/doc/xplanations.html | 14 +- inst/doc/xtending.R | 2 inst/doc/xtending.Rmd | 2 inst/doc/xtending.html | 10 - man/emmeans.Rd | 16 ++ man/ref_grid.Rd | 48 ++++--- vignettes/AQuickStart.Rmd | 6 vignettes/FAQs.Rmd | 15 ++ vignettes/basics.Rmd | 2 vignettes/comparisons.Rmd | 4 vignettes/confidence-intervals.Rmd | 6 vignettes/messy-data.Rmd | 2 vignettes/models.Rmd | 2 vignettes/transformations.Rmd | 4 vignettes/vignette-topics.Rmd | 8 - vignettes/xtending.Rmd | 2 57 files changed, 659 insertions(+), 432 deletions(-)