Title: Life and Fertility Tables Specially for Insects
Description: Life and Fertility Tables are appropriate to study the dynamics of
arthropods populations. This package provides utilities for constructing
Life Tables and Fertility Tables, related demographic parameters, and some
simple graphs of interest. It also offers functions to transform the
obtained data into a known format for better manipulation. In addition,
two methods for obtaining the confidence interval are included.
Author: Carlos Abimael Sarmiento Sanchez [aut, cre],
Lauro Soto Rojas [ctb],
Alejandro Corona Ambriz [ctb],
Gabriel Arcangel Rodriguez Yam [ctb],
Yolanda Franco Islas [ctb],
Noe Ramirez Negrete [ctb],
Adriana Acevedo Alcala [ctb],
Esteban Rodriguez Leyva [ct [...truncated...]
Maintainer: Carlos Abimael Sarmiento Sanchez <cass9918@hotmail.com>
Diff between Lifertable versions 0.1.0 dated 2025-02-05 and 1.0.1 dated 2025-11-05
Lifertable-0.1.0/Lifertable/R/as.data.frame.lifertableCI.R |only Lifertable-0.1.0/Lifertable/R/intconf.R |only Lifertable-0.1.0/Lifertable/R/print.lifertableCI.R |only Lifertable-0.1.0/Lifertable/man/as.data.frame.lifertableCI.Rd |only Lifertable-1.0.1/Lifertable/DESCRIPTION | 25 Lifertable-1.0.1/Lifertable/MD5 | 59 +- Lifertable-1.0.1/Lifertable/NAMESPACE | 6 Lifertable-1.0.1/Lifertable/NEWS.md | 38 - Lifertable-1.0.1/Lifertable/R/PlotPseudoVals.R | 145 ++-- Lifertable-1.0.1/Lifertable/R/as.data.frame.lifertableCIBootstrap.R |only Lifertable-1.0.1/Lifertable/R/as.data.frame.lifertableCIJackknife.R |only Lifertable-1.0.1/Lifertable/R/as.data.frame.lifertableLFT.R | 9 Lifertable-1.0.1/Lifertable/R/as.data.frame.lifertableParmEst.R | 80 +- Lifertable-1.0.1/Lifertable/R/as.data.frame.lifertableTotEggs.R | 78 +- Lifertable-1.0.1/Lifertable/R/intconfBS.R |only Lifertable-1.0.1/Lifertable/R/intconfJK.R |only Lifertable-1.0.1/Lifertable/R/lifertable.R | 78 +- Lifertable-1.0.1/Lifertable/R/lifertable.bootstrap.R |only Lifertable-1.0.1/Lifertable/R/lifertable.groups.R | 294 +++++----- Lifertable-1.0.1/Lifertable/R/lifertable.individual.R | 4 Lifertable-1.0.1/Lifertable/R/lifertable.jackknife.R | 24 Lifertable-1.0.1/Lifertable/R/plotDistrOvipos.R | 202 +++--- Lifertable-1.0.1/Lifertable/R/plotEggs.R | 10 Lifertable-1.0.1/Lifertable/R/plotSurvivalCurve.R | 159 ++--- Lifertable-1.0.1/Lifertable/R/print.lifertable.R | 10 Lifertable-1.0.1/Lifertable/R/print.lifertableCIBootstrap.R |only Lifertable-1.0.1/Lifertable/R/print.lifertableCIJackknife.R |only Lifertable-1.0.1/Lifertable/R/print.lifertableLFT.R | 4 Lifertable-1.0.1/Lifertable/R/print.lifertableParmEst.R | 4 Lifertable-1.0.1/Lifertable/R/print.lifertableTest.R | 32 - Lifertable-1.0.1/Lifertable/R/print.lifertableTotEggs.R | 15 Lifertable-1.0.1/Lifertable/build/partial.rdb |binary Lifertable-1.0.1/Lifertable/man/as.data.frame.lifertableCIBootstrap.Rd |only Lifertable-1.0.1/Lifertable/man/as.data.frame.lifertableCIJackknife.Rd |only Lifertable-1.0.1/Lifertable/man/lifertable.Rd | 53 + Lifertable-1.0.1/Lifertable/man/plotDistrOvipos.Rd | 8 Lifertable-1.0.1/Lifertable/man/plotSurvivalCurve.Rd | 5 37 files changed, 742 insertions(+), 600 deletions(-)
Title: Draw Network with Data
Description: Extends the 'ggplot2' plotting system to support network visualization. Inspired by the 'Method 1' in 'ggtree' (G Yu (2018) <doi:10.1093/molbev/msy194>), 'ggtangle' is designed to work with network associated data.
Author: Guangchuang Yu [aut, cre]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between ggtangle versions 0.0.7 dated 2025-06-30 and 0.0.8 dated 2025-11-05
DESCRIPTION | 8 +-- MD5 | 12 ++-- NEWS.md | 5 + R/cnet.r | 130 ++++++++++++++++++++++++++++++++----------------- build/partial.rdb |binary build/vignette.rds |binary inst/doc/ggtangle.html | 24 ++++----- 7 files changed, 113 insertions(+), 66 deletions(-)
Title: Bayes Factor Functions
Description: Bayes factors represent the ratio of probabilities assigned to data by competing scientific hypotheses. However, one drawback of Bayes factors is their dependence on prior specifications that define null and alternative hypotheses. Additionally, there are challenges in their computation. To address these issues, we define Bayes factor functions (BFFs) directly from common test statistics. BFFs express Bayes factors as a function of the prior densities used to define the alternative hypotheses. These prior densities are centered on standardized effects, which serve as indices for the BFF. Therefore, BFFs offer a summary of evidence in favor of alternative hypotheses that correspond to a range of scientifically interesting effect sizes. Such summaries remove the need for arbitrary thresholds to determine "statistical significance." BFFs are available in closed form and can be easily computed from z, t, chi-squared, and F statistics. They depend on hyperparameters "r" and "tau^2", which d [...truncated...]
Author: Rachael Shudde [aut, cre],
Frantisek Bartos [aut],
Saptati Datta [aut],
Riana Guha [aut],
Sandy Pramanik [aut],
Valen Johnson [aut]
Maintainer: Rachael Shudde <rachael.shudde@gmail.com>
Diff between BFF versions 4.4.2 dated 2025-05-20 and 4.5.0 dated 2025-11-05
DESCRIPTION | 6 +++--- MD5 | 10 ++++++---- NAMESPACE | 1 + R/FINAL_FUNCTIONS_t_test_invm.R |only R/FINAL_FUNCTIONS_tau2.R | 12 ++++++++++++ inst/doc/BFF_vignette.pdf |binary man/t_test_BFF_invm.Rd |only 7 files changed, 22 insertions(+), 7 deletions(-)
Title: Generate Summary Tables for Categorical, Ordinal, and Continuous
Data
Description: Provides functions for tabulating and summarizing
categorical, multiple response, ordinal, and continuous
variables in R data frames. Makes it easy to create clear,
structured summary tables, so you spend less time wrangling
data and more time interpreting it.
Author: Ama Nyame-Mensah [aut, cre]
Maintainer: Ama Nyame-Mensah <ama@anyamemensah.com>
Diff between summarytabl versions 0.1.0 dated 2025-10-06 and 0.2.0 dated 2025-11-05
summarytabl-0.1.0/summarytabl/R/depressive_data.R |only summarytabl-0.1.0/summarytabl/R/nlsy_data.R |only summarytabl-0.1.0/summarytabl/R/social_psy_data.R |only summarytabl-0.1.0/summarytabl/R/stem_social_psych.R |only summarytabl-0.1.0/summarytabl/R/tas_data.R |only summarytabl-0.1.0/summarytabl/R/utils.R |only summarytabl-0.1.0/summarytabl/tests/testthat/test-utils.R |only summarytabl-0.2.0/summarytabl/DESCRIPTION | 35 summarytabl-0.2.0/summarytabl/MD5 | 113 summarytabl-0.2.0/summarytabl/NAMESPACE | 9 summarytabl-0.2.0/summarytabl/NEWS.md |only summarytabl-0.2.0/summarytabl/R/aaa.R |only summarytabl-0.2.0/summarytabl/R/cat_group_tbl.R | 295 - summarytabl-0.2.0/summarytabl/R/cat_tbl.R | 142 summarytabl-0.2.0/summarytabl/R/check_named_vctr.R | 79 summarytabl-0.2.0/summarytabl/R/data_depressive.R |only summarytabl-0.2.0/summarytabl/R/data_nlsy.R |only summarytabl-0.2.0/summarytabl/R/data_sdoh.R |only summarytabl-0.2.0/summarytabl/R/data_social_psy.R |only summarytabl-0.2.0/summarytabl/R/data_stem_social_psych.R |only summarytabl-0.2.0/summarytabl/R/data_tas.R |only summarytabl-0.2.0/summarytabl/R/helpers.R |only summarytabl-0.2.0/summarytabl/R/mean_group_tbl.R | 502 +-- summarytabl-0.2.0/summarytabl/R/mean_tbl.R | 268 - summarytabl-0.2.0/summarytabl/R/select_group_tbl.R | 580 +-- summarytabl-0.2.0/summarytabl/R/select_tbl.R | 299 - summarytabl-0.2.0/summarytabl/R/summarytabl-package.R | 9 summarytabl-0.2.0/summarytabl/R/utils_input.R |only summarytabl-0.2.0/summarytabl/R/utils_output.R |only summarytabl-0.2.0/summarytabl/R/zzz.R | 6 summarytabl-0.2.0/summarytabl/README.md | 44 summarytabl-0.2.0/summarytabl/data/depressive.rda |binary summarytabl-0.2.0/summarytabl/data/nlsy.rda |binary summarytabl-0.2.0/summarytabl/data/sdoh.rda |only summarytabl-0.2.0/summarytabl/data/social_psy_data.rda |binary summarytabl-0.2.0/summarytabl/data/stem_social_psych.rda |binary summarytabl-0.2.0/summarytabl/data/tas.rda |binary summarytabl-0.2.0/summarytabl/inst/doc/summarytabl-intro.R | 351 -- summarytabl-0.2.0/summarytabl/inst/doc/summarytabl-intro.Rmd | 516 +-- summarytabl-0.2.0/summarytabl/inst/doc/summarytabl-intro.html | 1570 +++++----- summarytabl-0.2.0/summarytabl/man/cat_group_tbl.Rd | 78 summarytabl-0.2.0/summarytabl/man/cat_tbl.Rd | 24 summarytabl-0.2.0/summarytabl/man/check_named_vctr.Rd | 22 summarytabl-0.2.0/summarytabl/man/depressive.Rd | 18 summarytabl-0.2.0/summarytabl/man/figures |only summarytabl-0.2.0/summarytabl/man/mean_group_tbl.Rd | 163 - summarytabl-0.2.0/summarytabl/man/mean_tbl.Rd | 95 summarytabl-0.2.0/summarytabl/man/nlsy.Rd | 4 summarytabl-0.2.0/summarytabl/man/sdoh.Rd |only summarytabl-0.2.0/summarytabl/man/select_group_tbl.Rd | 171 - summarytabl-0.2.0/summarytabl/man/select_tbl.Rd | 104 summarytabl-0.2.0/summarytabl/man/social_psy_data.Rd | 12 summarytabl-0.2.0/summarytabl/man/stem_social_psych.Rd | 12 summarytabl-0.2.0/summarytabl/man/summarytabl-package.Rd | 6 summarytabl-0.2.0/summarytabl/man/tas.Rd | 15 summarytabl-0.2.0/summarytabl/tests/testthat/_snaps |only summarytabl-0.2.0/summarytabl/tests/testthat/test-cat_group_tbl.R | 229 - summarytabl-0.2.0/summarytabl/tests/testthat/test-cat_tbl.R | 131 summarytabl-0.2.0/summarytabl/tests/testthat/test-check_named_vctr.R | 204 + summarytabl-0.2.0/summarytabl/tests/testthat/test-mean_group_tbl.R | 332 +- summarytabl-0.2.0/summarytabl/tests/testthat/test-mean_tbl.R | 223 + summarytabl-0.2.0/summarytabl/tests/testthat/test-select_group_tbl.R | 535 ++- summarytabl-0.2.0/summarytabl/tests/testthat/test-select_tbl.R | 263 + summarytabl-0.2.0/summarytabl/tests/testthat/test-utils_input.R |only summarytabl-0.2.0/summarytabl/tests/testthat/test-utils_output.R |only summarytabl-0.2.0/summarytabl/vignettes/summarytabl-intro.Rmd | 516 +-- 66 files changed, 4319 insertions(+), 3656 deletions(-)
Title: Access Control Module for 'shiny' Applications
Description: Provides a flexible framework for implementing hierarchical access
control in 'shiny' applications. Features include user permission management
through a two-tier system of access panels and units, pluggable 'shiny'
module for administrative interfaces, and support for multiple storage
backends (local, 'AWS S3', 'Posit Connect'). The system enables fine-grained
control over application features, with built-in audit trails and user
management capabilities. Integrates seamlessly with 'Posit Connect's
authentication system.
Author: Peyman Eshghi [aut, cre] ,
Nandu Krishnan [aut],
Nadia Abraham [aut],
Harika Adapala [ctb],
Johnson & Johnson Innovative Medicine [cph, fnd]
Maintainer: Peyman Eshghi <peymaan.es@gmail.com>
Diff between rAccess versions 0.1.1.2 dated 2025-11-03 and 0.1.1.3 dated 2025-11-05
DESCRIPTION | 6 - MD5 | 10 +- NEWS.md |only R/functions.R | 1 R/module_sub_iam.R | 30 +++---- README.md | 156 ++++++++++++++++++++++++++--------------- man/figures/readme_rAccess.gif |only 7 files changed, 122 insertions(+), 81 deletions(-)
Title: Parametric Iterative Conditional Expectation G-Formula
Description: Implements iterative conditional expectation (ICE) estimators of the plug-in g-formula (Wen, Young, Robins, and Hernán (2020) <doi:10.1111/biom.13321>).
Both singly robust and doubly robust ICE estimators based on parametric models are available.
The package can be used to estimate survival curves under sustained treatment strategies (interventions) using longitudinal data with time-varying treatments, time-varying confounders, censoring, and competing events.
The interventions can be static or dynamic, and deterministic or stochastic (including threshold interventions). Both prespecified and user-defined interventions are available.
Author: Zhaoxi Cheng [aut],
Jing Li [aut, cre],
Sophia Rein [aut],
Ryan O'Dea [aut],
Sean McGrath [aut],
Lan Wen [aut],
Miguel A. Hernan [aut],
2024 The President and Fellows of Harvard College [cph]
Maintainer: Jing Li <jing_li@hsph.harvard.edu>
This is a re-admission after prior archival of version 0.1.0 dated 2024-12-02
Diff between gfoRmulaICE versions 0.1.0 dated 2024-12-02 and 0.1.1 dated 2025-11-05
DESCRIPTION | 20 ++++++++++---------- MD5 | 6 +++--- NEWS.md | 5 +++-- tests/testthat/test_plot.R | 30 +++++++++++++++--------------- 4 files changed, 31 insertions(+), 30 deletions(-)
Title: Comprehensive Geospatiotemporal Analysis and Multimodal
Integration Toolkit
Description: A comprehensive toolkit for geospatiotemporal analysis
featuring 60+ vegetation indices, advanced raster visualization,
universal spatial mapping, water quality analysis, CDL crop analysis,
spatial interpolation, temporal analysis, and terrain analysis.
Designed for agricultural research, environmental monitoring, remote
sensing applications, and publication-quality mapping with support for
any geographic region and robust error handling. Methods include
vegetation indices calculations (Rouse et al. 1974), NDVI and enhanced
vegetation indices (Huete et al. 1997)
<doi:10.1016/S0034-4257(97)00104-1>, (Akanbi et al. 2024)
<doi:10.1007/s41651-023-00164-y>, spatial interpolation techniques
(Cressie 1993, ISBN:9780471002556), water quality indices (McFeeters
1996) <doi:10.1080/01431169608948714>, and crop data layer analysis
(USDA NASS 2024)
<https://www.nass.usda.gov/Research_and_Science/Cropland/>. Funding:
This material is based upon financial support by the Natio [...truncated...]
Author: Olatunde D. Akanbi [aut, cre, cph] ,
Vibha Mandayam [aut] ,
Yinghui Wu [aut] ,
Jeffrey Yarus [aut] ,
Erika I. Barcelos [aut, cph] ,
Roger H. French [aut, cph]
Maintainer: Olatunde D. Akanbi <olatunde.akanbi@case.edu>
Diff between geospatialsuite versions 0.1.0 dated 2025-09-16 and 0.1.1 dated 2025-11-05
DESCRIPTION | 15 MD5 | 76 NAMESPACE | 2 NEWS.md |only R/00-package-info.R | 22 R/02-vegetation-indices.R | 335 ++- R/15-helpers.R | 924 ++++++++ R/16-geocoding-examples.R |only build/vignette.rds |binary inst/CITATION |only inst/doc/agricultural-analysis.R | 28 inst/doc/agricultural-analysis.Rmd | 86 inst/doc/agricultural-analysis.html | 118 + inst/doc/analyze-crop-vegetation.R |only inst/doc/analyze-crop-vegetation.Rmd |only inst/doc/analyze-crop-vegetation.html |only inst/doc/getting-started.R | 32 inst/doc/getting-started.Rmd | 64 inst/doc/getting-started.html | 525 ++-- inst/doc/vegetation-indices.R | 178 + inst/doc/vegetation-indices.Rmd | 428 +++ inst/doc/vegetation-indices.html | 2803 ++++++++++++++++++++------ man/analyze_crop_vegetation.Rd | 93 man/auto_geocode_data.Rd |only man/calculate_vegetation_index.Rd | 49 man/classify_data_input.Rd |only man/detect_geographic_entities.Rd |only man/detect_huc_level.Rd |only man/detect_state_column.Rd |only man/geocode_cities.Rd |only man/geocode_counties.Rd |only man/geocode_entities.Rd |only man/geocode_fips.Rd |only man/geocode_hucs.Rd |only man/geocode_states.Rd |only man/geocode_zipcodes.Rd |only man/geocoding_examples.Rd |only man/geospatialsuite-package.Rd | 16 man/load_vector_data_safe.Rd | 6 man/normalize_column_name.Rd |only man/preview_geocoding.Rd |only man/process_vector_data.Rd | 20 man/run_enhanced_mosaic_workflow.Rd | 2 man/run_enhanced_temporal_workflow.Rd | 2 man/run_enhanced_terrain_analysis_workflow.Rd | 2 man/run_multi_dataset_workflow.Rd | 4 vignettes/agricultural-analysis.Rmd | 86 vignettes/analyze-crop-vegetation.Rmd |only vignettes/getting-started.Rmd | 64 vignettes/vegetation-indices.Rmd | 428 +++ 50 files changed, 5472 insertions(+), 936 deletions(-)
More information about geospatialsuite at CRAN
Permanent link
Title: Miscellaneous Helper Tools for Epidemiologists
Description: Contains tools for formatting inline code, renaming redundant
columns, aggregating age categories, adding survey weights, finding the earliest
date of an event, plotting z-curves, generating population counts and
formatting proportions with confidence intervals. This is part of the
'R4Epis' project <https://r4epi.github.io/sitrep/>.
Author: Alexander Spina [aut, cre] ,
Zhian N. Kamvar [aut] ,
Dirk Schumacher [aut],
Kate Doyle [ctb],
Applied Epi Incorporated [cph],
Medecins Sans Frontieres Operational Centre Amsterdam [fnd]
Maintainer: Alexander Spina <aspina@appliedepi.org>
Diff between epikit versions 0.1.6 dated 2024-01-23 and 0.2.0 dated 2025-11-05
epikit-0.1.6/epikit/R/cfr.R |only epikit-0.1.6/epikit/man/attack_rate.Rd |only epikit-0.1.6/epikit/tests/testthat/test-proportion.R |only epikit-0.2.0/epikit/DESCRIPTION | 47 epikit-0.2.0/epikit/MD5 | 102 epikit-0.2.0/epikit/NAMESPACE | 98 epikit-0.2.0/epikit/NEWS.md | 89 epikit-0.2.0/epikit/R/add_weights_cluster.R | 526 epikit-0.2.0/epikit/R/add_weights_strata.R | 192 epikit-0.2.0/epikit/R/age-categories.R | 451 epikit-0.2.0/epikit/R/epikit-package.R | 38 epikit-0.2.0/epikit/R/find_breaks.R | 68 epikit-0.2.0/epikit/R/find_date_cause.R | 565 epikit-0.2.0/epikit/R/gen_polygon.R | 102 epikit-0.2.0/epikit/R/gen_population.R | 294 epikit-0.2.0/epikit/R/helpers.R | 64 epikit-0.2.0/epikit/R/inline_fun.R | 155 epikit-0.2.0/epikit/R/relabel_proportions.R | 172 epikit-0.2.0/epikit/R/unite_ci.R | 160 epikit-0.2.0/epikit/R/zcurve.R | 118 epikit-0.2.0/epikit/README.md | 669 epikit-0.2.0/epikit/build/vignette.rds |binary epikit-0.2.0/epikit/inst/doc/intro.R | 186 epikit-0.2.0/epikit/inst/doc/intro.Rmd | 38 epikit-0.2.0/epikit/inst/doc/intro.html | 1506 - epikit-0.2.0/epikit/inst/extdata/coords.csv |11378 +++++----- epikit-0.2.0/epikit/man/add_weights_cluster.Rd | 276 epikit-0.2.0/epikit/man/add_weights_strata.Rd | 144 epikit-0.2.0/epikit/man/age_categories.Rd | 208 epikit-0.2.0/epikit/man/dots_to_charlist.Rd | 54 epikit-0.2.0/epikit/man/epikit-package.Rd | 73 epikit-0.2.0/epikit/man/fac_from_num.Rd | 46 epikit-0.2.0/epikit/man/find_breaks.Rd | 74 epikit-0.2.0/epikit/man/find_date_cause.Rd | 198 epikit-0.2.0/epikit/man/fmt_ci.Rd | 167 epikit-0.2.0/epikit/man/fmt_count.Rd | 48 epikit-0.2.0/epikit/man/gen_polygon.Rd | 44 epikit-0.2.0/epikit/man/gen_population.Rd | 150 epikit-0.2.0/epikit/man/rename_redundant.Rd | 100 epikit-0.2.0/epikit/man/rmdhunks/introduction.Rmd | 416 epikit-0.2.0/epikit/man/unite_ci.Rd | 138 epikit-0.2.0/epikit/man/zcurve.Rd | 88 epikit-0.2.0/epikit/tests/testthat.R | 8 epikit-0.2.0/epikit/tests/testthat/test-add_weights_cluster.R | 280 epikit-0.2.0/epikit/tests/testthat/test-age-categories.R | 438 epikit-0.2.0/epikit/tests/testthat/test-find_breaks.R | 50 epikit-0.2.0/epikit/tests/testthat/test-find_dates.R |only epikit-0.2.0/epikit/tests/testthat/test-gen_polygon.R | 14 epikit-0.2.0/epikit/tests/testthat/test-helpers.R | 42 epikit-0.2.0/epikit/tests/testthat/test-inline_fun.R | 163 epikit-0.2.0/epikit/tests/testthat/test-relabel_proportions.R | 52 epikit-0.2.0/epikit/tests/testthat/test-unite_ci.R | 62 epikit-0.2.0/epikit/tests/testthat/test-zcurve.R | 34 epikit-0.2.0/epikit/vignettes/intro.Rmd | 38 54 files changed, 10332 insertions(+), 10091 deletions(-)
Title: Data Science for Psychologists
Description: All datasets and functions required for the examples and exercises of the book "Data Science for Psychologists" (by Hansjoerg Neth, Konstanz University, 2025, <doi:10.5281/zenodo.7229812>), freely available at <https://bookdown.org/hneth/ds4psy/>. The book and corresponding courses introduce principles and methods of data science to students of psychology and other biological or social sciences. The 'ds4psy' package primarily provides datasets, but also functions for data generation and manipulation (e.g., of text and time data) and graphics that are used in the book and its exercises. All functions included in 'ds4psy' are designed to be explicit and instructive, rather than efficient or elegant.
Author: Hansjoerg Neth [aut, cre]
Maintainer: Hansjoerg Neth <h.neth@uni.kn>
Diff between ds4psy versions 1.1.0 dated 2025-09-12 and 1.2.0 dated 2025-11-05
DESCRIPTION | 10 - MD5 | 40 ++--- NEWS.md | 85 +++++++++-- R/data.R | 376 +++++++++++++++++++++++++++------------------------ R/plot_fun.R | 12 - R/start.R | 12 + R/theme_fun.R | 40 ++--- R/time_fun.R | 4 R/time_util_fun.R | 10 + README.md | 71 ++++----- build/partial.rdb |binary build/vignette.rds |binary data/i2ds_survey.rda |binary inst/CITATION | 6 inst/WORDLIST | 2 inst/doc/ds4psy.R | 2 inst/doc/ds4psy.Rmd | 12 - inst/doc/ds4psy.html | 27 +-- man/ds4psy.guide.Rd | 5 man/i2ds_survey.Rd | 362 ++++++++++++++++++++++++++----------------------- vignettes/ds4psy.Rmd | 12 - 21 files changed, 605 insertions(+), 483 deletions(-)
Title: Access and Analyse Data from the 'CVD Prevent' API
Description: Provides an R interface to the 'CVD Prevent' application
programming interface (API), allowing users to retrieve and analyse
cardiovascular disease prevention data from primary care records
across England. The Cardiovascular Disease Prevention Audit
(CVDPREVENT) automatically extracts routinely held GP health data to
support national reporting and improvement initiatives. See the API
documentation for details:
<https://bmchealthdocs.atlassian.net/wiki/spaces/CP/pages/317882369/CVDPREVENT+API+Documentation>.
Author: Craig Parylo [aut, cre, cph] ,
Cardiovascular Disease Prevention Audit [ant]
Maintainer: Craig Parylo <craig.parylo2@nhs.net>
This is a re-admission after prior archival of version 0.2.2 dated 2025-05-25
Diff between cvdprevent versions 0.2.2 dated 2025-05-25 and 0.2.3 dated 2025-11-05
DESCRIPTION | 39 LICENSE | 4 MD5 | 101 NAMESPACE | 68 NEWS.md | 29 R/cvd_api_functions.R | 6536 ++- R/cvd_api_helpers.R |only R/cvd_memoise.R |only R/cvd_validate_arguments.R |only R/scratchpad.R |only R/utils.R |only README.md | 239 build/vignette.rds |binary inst/doc/using_cvdprevent.R | 738 inst/doc/using_cvdprevent.Rmd | 1450 inst/doc/using_cvdprevent.html |34652 ++++++++--------- man/cvd_area_details.Rd | 109 man/cvd_area_flat_subsystems.Rd | 96 man/cvd_area_list.Rd | 113 man/cvd_area_nested_subsystems.Rd | 103 man/cvd_area_search.Rd | 100 man/cvd_area_system_level.Rd | 87 man/cvd_area_system_level_time_periods.Rd | 85 man/cvd_area_unassigned.Rd | 96 man/cvd_data_availability.Rd | 90 man/cvd_external_resource.Rd | 90 man/cvd_indicator.Rd | 223 man/cvd_indicator_child_data.Rd | 133 man/cvd_indicator_data.Rd | 161 man/cvd_indicator_details.Rd | 94 man/cvd_indicator_group.Rd | 121 man/cvd_indicator_list.Rd | 103 man/cvd_indicator_metric_area_breakdown.Rd | 131 man/cvd_indicator_metric_data.Rd | 163 man/cvd_indicator_metric_list.Rd | 107 man/cvd_indicator_metric_systemlevel_comparison.Rd | 131 man/cvd_indicator_metric_timeseries.Rd | 128 man/cvd_indicator_nationalarea_metric_data.Rd | 158 man/cvd_indicator_pathway_group.Rd | 105 man/cvd_indicator_person_timeseries.Rd | 136 man/cvd_indicator_priority_groups.Rd | 98 man/cvd_indicator_raw_data.Rd | 122 man/cvd_indicator_sibling.Rd | 132 man/cvd_indicator_tags.Rd | 82 man/cvd_indicator_types.Rd | 58 man/cvd_time_period_list.Rd | 88 man/cvd_time_period_system_levels.Rd | 86 tests/testthat.R | 24 tests/testthat/helper-config.R |only tests/testthat/helper-mocks.R |only tests/testthat/helper-skip.R |only tests/testthat/test-api_helpers.R |only tests/testthat/test-cvd_api_functions.R | 693 tests/testthat/test-cvd_time_period_list-integration.R |only tests/testthat/test-cvd_time_period_list.R |only tests/testthat/test-utils.R |only tests/testthat/test-validate_arguments.R |only vignettes/using_cvdprevent.Rmd | 1450 58 files changed, 26869 insertions(+), 22683 deletions(-)
Title: Access, Retrieve, and Work with Canadian Census Data and
Geography
Description: Integrated, convenient, and uniform access to Canadian
Census data and geography retrieved using the 'CensusMapper' API. This package produces analysis-ready
tidy data frames and spatial data in multiple formats, as well as convenience functions
for working with Census variables, variable hierarchies, and region selection. API
keys are freely available with free registration at <https://censusmapper.ca/api>.
Census data and boundary geometries are reproduced and distributed on an "as
is" basis with the permission of Statistics Canada (Statistics Canada 1996; 2001; 2006;
2011; 2016; 2021).
Author: Jens von Bergmann [aut] ,
Dmitry Shkolnik [aut, cre] ,
Aaron Jacobs [aut]
Maintainer: Dmitry Shkolnik <shkolnikd@gmail.com>
This is a re-admission after prior archival of version 0.5.7 dated 2024-02-09
Diff between cancensus versions 0.5.7 dated 2024-02-09 and 0.5.10 dated 2025-11-05
DESCRIPTION | 20 - LICENSE | 2 MD5 | 90 ++--- NEWS.md | 12 R/cancensus.R | 4 R/geo_suite.R | 4 R/geographies.R | 11 R/vector_discovery.R | 5 R/wds.R | 22 - README.md | 14 build/vignette.rds |binary inst/doc/Dwellings_by_document_type_cross_tabulation.R | 4 inst/doc/Dwellings_by_document_type_cross_tabulation.Rmd | 4 inst/doc/Dwellings_by_document_type_cross_tabulation.html | 5 inst/doc/Making_maps_with_cancensus.R | 8 inst/doc/Making_maps_with_cancensus.Rmd | 8 inst/doc/Making_maps_with_cancensus.html | 45 +- inst/doc/Taxfiler_Data.R | 4 inst/doc/Taxfiler_Data.Rmd | 4 inst/doc/Taxfiler_Data.html | 5 inst/doc/cancensus.R | 23 - inst/doc/cancensus.Rmd | 5 inst/doc/cancensus.html | 13 inst/doc/data_discovery.R | 10 inst/doc/data_discovery.Rmd | 10 inst/doc/data_discovery.html | 251 +++++++------- inst/doc/intersecting_geometries.R | 6 inst/doc/intersecting_geometries.Rmd | 6 inst/doc/intersecting_geometries.html | 7 inst/doc/statcan_attribute_files.html | 1 inst/doc/statcan_wds.R | 6 inst/doc/statcan_wds.Rmd | 6 inst/doc/statcan_wds.html | 7 man/dataset_attribution.Rd | 2 man/find_census_vectors.Rd | 2 man/get_statcan_geographies.Rd | 2 man/get_statcan_wds_metadata.Rd | 2 man/list_census_datasets.Rd | 2 man/search_census_vectors.Rd | 3 vignettes/Dwellings_by_document_type_cross_tabulation.Rmd | 4 vignettes/Making_maps_with_cancensus.Rmd | 8 vignettes/Taxfiler_Data.Rmd | 4 vignettes/cancensus.Rmd | 5 vignettes/data_discovery.Rmd | 10 vignettes/intersecting_geometries.Rmd | 6 vignettes/statcan_wds.Rmd | 6 46 files changed, 377 insertions(+), 301 deletions(-)
Title: Computing Graph Structures on WikiPathways
Description: Converts pathways from 'WikiPathways' GPML format or
'KEGG' KGML format into 'igraph' objects. Includes tools to find all
cycles in the resulting graphs and determine which ones involve
negative feedback (inhibition).
Author: Kevin R. Coombes [aut, cre],
Polina Bombina [aut]
Maintainer: Kevin R. Coombes <krc@silicovore.com>
Diff between WayFindR versions 0.4.1 dated 2025-09-20 and 0.5.0 dated 2025-11-05
DESCRIPTION | 12 - MD5 | 24 +- NAMESPACE | 9 R/06-cycles.R | 74 ------ R/10-keggUtil.R | 14 - inst/doc/WayFindR_getStarted.R | 2 inst/doc/WayFindR_getStarted.Rmd | 2 inst/doc/WayFindR_getStarted.html | 445 +++++++++++++++++++++++--------------- inst/doc/WayFindR_metrics.html | 360 +++++++++++++++++------------- inst/doc/WayFindR_plots.html | 290 +++++++++++++----------- man/04-cycles.Rd | 17 - tests/06-testCycle.R | 2 vignettes/WayFindR_getStarted.Rmd | 2 13 files changed, 664 insertions(+), 589 deletions(-)
Title: Scientific Analysis of Trial Errors (SATE)
Description: Bundles functions used to analyze the harmfulness of trial errors in criminal trials.
Functions in the Scientific Analysis of Trial Errors ('sate') package help users estimate the
probability that a jury will find a defendant guilty given jurors' preferences for a guilty
verdict and the uncertainty of that estimate. Users can also compare actual and hypothetical
trial conditions to conduct harmful error analysis. The conceptual framework is discussed
by Barry Edwards, A Scientific Framework for Analyzing the Harmfulness of Trial Errors,
UCLA Criminal Justice Law Review (2024) <doi:10.5070/CJ88164341> and Barry Edwards,
If The Jury Only Knew: The Effect Of Omitted Mitigation Evidence On The Probability Of A Death Sentence,
Virginia Journal of Social Policy & the Law (2025)
<https://vasocialpolicy.org/wp-content/uploads/2025/05/Edwards-If-The-Jury-Only-Knew.pdf>.
The relationship between individual jurors'
verdict preferences and the probability that a jury returns a guil [...truncated...]
Author: Barry Edwards [aut, cre]
Maintainer: Barry Edwards <bce@uga.edu>
Diff between sate versions 2.4.0 dated 2025-03-04 and 3.1.0 dated 2025-11-05
DESCRIPTION | 16 +++++-- MD5 | 28 ++++++++----- NAMESPACE | 5 ++ NEWS.md | 33 +++++++++++++++ R/as.jury.point.r | 2 R/basic.plot.grid.R | 2 R/get_pG_by_k.r | 55 ++++++++------------------ R/graph.effect.defendant.r | 4 - R/helper.functions.r | 81 ++++++++++++++++++++++----------------- R/prob.ordered.verdicts.R |only R/prob_ord_from_pool.R |only R/transition.matrix.R |only R/transition.matrix.ordered.R |only R/weights_for_population.R | 21 ++++++---- man/get_pG_by_k.Rd | 14 +++--- man/prob.ordered.verdicts.Rd |only man/prob_ord_from_pool.Rd |only man/transition.matrix.Rd |only man/transition.matrix.ordered.Rd |only 19 files changed, 154 insertions(+), 107 deletions(-)
More information about odbc.resourcer at CRAN
Permanent link
Title: Integrating Morphological Modeling and Machine Learning for
Decision Support
Description: Integrating morphological modeling with machine learning to support
structured decision-making (e.g., in management and consulting). The package
enumerates a morphospace of feasible configurations and uses random forests
to estimate class probabilities over that space, bridging deductive model
exploration with empirical validation. It includes utilities for factorizing
inputs, model training, morphospace construction, and an interactive 'shiny'
app for scenario exploration.
Author: Oskar Kosch [aut, cre, cph]
Maintainer: Oskar Kosch <contact@oskarkosch.com>
Diff between MLmorph versions 0.1.0 dated 2025-09-02 and 0.1.1 dated 2025-11-05
DESCRIPTION | 15 ++++---- MD5 | 13 +++--- NAMESPACE | 1 NEWS.md | 4 +- R/MLmorph.R | 82 ++++++++++++++++++++++++++++++++++++++++++++ inst/MLmorph/server.R | 1 inst/MLmorph/ui.R | 1 man/MLmorph_dependencies.Rd |only 8 files changed, 101 insertions(+), 16 deletions(-)
More information about insulin.secretion at CRAN
Permanent link
Title: 'shiny' App to Discover Cocktails
Description: A 'shiny' app to discover cocktails. The
app allows one to search for cocktails by ingredient,
filter on rating, and number of ingredients. The
package also contains data with the ingredients of
nearly 26 thousand cocktails scraped from the web.
Author: Steven E. Pav [aut, cre]
Maintainer: Steven E. Pav <shabbychef@gmail.com>
Diff between cocktailApp versions 0.2.3 dated 2023-07-19 and 0.2.4 dated 2025-11-05
ChangeLog | 4 + DESCRIPTION | 17 ++++---- MD5 | 18 ++++---- NAMESPACE | 5 -- R/cocktailApp.r | 90 ++++++-------------------------------------- man/NEWS.Rd | 8 +++ man/cocktailApp-package.Rd | 11 +++++ man/cocktailApp.Rd | 22 +--------- man/cocktails.Rd | 2 tests/testthat/test-basic.r | 7 ++- 10 files changed, 66 insertions(+), 118 deletions(-)
More information about PublicationBiasBenchmark at CRAN
Permanent link
Title: Assessing Proximal, Distal, and Mediated Causal Excursion
Effects for Micro-Randomized Trials
Description: Provides methods to analyze micro-randomized trials (MRTs) with binary treatment options. Supports three types of analyses: (1) proximal causal excursion effects, including weighted and centered least squares (WCLS) for continuous proximal outcomes by Boruvka et al. (2018) <doi:10.1080/01621459.2017.1305274> and the estimator for marginal excursion effect (EMEE) for binary proximal outcomes by Qian et al. (2021) <doi:10.1093/biomet/asaa070>; (2) distal causal excursion effects (DCEE) for continuous distal outcomes using a two-stage estimator by Qian (2025) <doi:10.48550/arXiv.2502.13500>; and (3) mediated causal excursion effects (MCEE) for continuous distal outcomes, estimating natural direct and indirect excursion effects in the presence of time-varying mediators by Qian (2025) <doi:10.48550/arXiv.2506.20027>.
Author: Tianchen Qian [aut, cre] ,
Shaolin Xiang [aut],
Zhaoxi Cheng [aut],
Audrey Boruvka [ctb]
Maintainer: Tianchen Qian <t.qian@uci.edu>
Diff between MRTAnalysis versions 0.3.0 dated 2025-09-09 and 0.3.1 dated 2025-11-05
DESCRIPTION | 9 - MD5 | 20 +-- NEWS.md | 4 R/dcee.R | 24 ++- R/wcls.R | 83 +++++++++---- build/vignette.rds |binary inst/doc/mrt-distal-causal-effect.html | 8 - inst/doc/mrt-mediated-causal-effect-on-distal-outcome.html | 4 inst/doc/mrt-proximal-causal-effect.html | 4 man/dcee.Rd | 24 ++- tests/testthat/test-dcee-numeric-golden-other-learners.R | 42 +++--- 11 files changed, 135 insertions(+), 87 deletions(-)
Title: 'DataSHIELD' Implementation for 'Opal'
Description: 'DataSHIELD' is an infrastructure and series of R packages that
enables the remote and 'non-disclosive' analysis of sensitive research data.
This package is the 'DataSHIELD' interface implementation for 'Opal', which is
the data integration application for biobanks by 'OBiBa'. Participant data, once
collected from any data source, must be integrated and stored in a central
data repository under a uniform model. 'Opal' is such a central repository.
It can import, process, validate, query, analyze, report, and export data.
'Opal' is the reference implementation of the 'DataSHIELD' infrastructure.
Author: Yannick Marcon [aut, cre] ,
Becca Wilson [ctb] ,
OBiBa group [cph]
Maintainer: Yannick Marcon <yannick.marcon@obiba.org>
Diff between DSOpal versions 1.4.1 dated 2025-07-25 and 1.5.0 dated 2025-11-05
DESCRIPTION | 18 +- MD5 | 68 +++++----- NAMESPACE | 6 R/OpalConnection.R | 153 +++++++++++++++++------- R/OpalResult.R | 6 R/OpalSession.R |only README.md | 2 inst/examples/datashield-api.R | 39 +++--- inst/examples/datashield.R | 74 ++++++----- man/OpalSession-class.Rd |only man/dsAggregate-OpalConnection-method.Rd | 8 - man/dsAssignExpr-OpalConnection-method.Rd | 7 - man/dsAssignResource-OpalConnection-method.Rd | 7 - man/dsAssignTable-OpalConnection-method.Rd | 30 ++-- man/dsConnect-OpalDriver-method.Rd | 12 + man/dsDisconnect-OpalConnection-method.Rd | 6 man/dsFetch-OpalResult-method.Rd | 2 man/dsGetInfo-OpalResult-method.Rd | 2 man/dsHasResource-OpalConnection-method.Rd | 2 man/dsHasSession-OpalConnection-method.Rd |only man/dsHasTable-OpalConnection-method.Rd | 2 man/dsIsAsync-OpalConnection-method.Rd | 2 man/dsIsCompleted-OpalResult-method.Rd | 2 man/dsIsReady-OpalSession-method.Rd |only man/dsKeepAlive-OpalConnection-method.Rd | 3 man/dsListMethods-OpalConnection-method.Rd | 5 man/dsListPackages-OpalConnection-method.Rd | 2 man/dsListProfiles-OpalConnection-method.Rd | 5 man/dsListResources-OpalConnection-method.Rd | 2 man/dsListSymbols-OpalConnection-method.Rd | 2 man/dsListTables-OpalConnection-method.Rd | 2 man/dsListWorkspaces-OpalConnection-method.Rd | 2 man/dsRestoreWorkspace-OpalConnection-method.Rd | 2 man/dsRmSymbol-OpalConnection-method.Rd | 2 man/dsRmWorkspace-OpalConnection-method.Rd | 2 man/dsSaveWorkspace-OpalConnection-method.Rd | 2 man/dsSession-OpalConnection-method.Rd |only man/dsStateMessage-OpalSession-method.Rd |only 38 files changed, 299 insertions(+), 180 deletions(-)
Title: Extract from the Scottish Health and Social Care Open Data
Platform
Description: Extract and interact with data from the Scottish Health and
Social Care Open Data platform <https://www.opendata.nhs.scot>.
Author: Public Health Scotland [cph],
Csilla Scharle [aut, cre],
James Hayes [aut] ,
David Aikman [aut],
Ross Hull [aut]
Maintainer: Csilla Scharle <csilla.scharle2@phs.scot>
Diff between phsopendata versions 1.0.0 dated 2025-09-01 and 1.0.1 dated 2025-11-05
DESCRIPTION | 15 +-- MD5 | 44 +++++------ NEWS.md | 8 +- R/get_dataset.R | 13 +-- R/get_dataset_additional_info.R | 17 +++- R/get_latest_resource.R | 13 +-- R/get_latest_resource_id.R | 10 +- R/get_resource.R | 28 ++++--- R/get_resource_sql.R | 1 R/list_datasets.R | 1 R/list_resources.R | 11 ++ R/phs_GET.R | 7 + README.md | 85 ++++++++++++---------- tests/testthat/test-add_context.R | 28 +------ tests/testthat/test-get_dataset.R | 22 +++-- tests/testthat/test-get_dataset_additional_info.R | 4 - tests/testthat/test-get_dataset_context.R | 26 +++++- tests/testthat/test-get_latest_resource.R | 36 +-------- tests/testthat/test-get_resource.R | 67 +++++++++++------ tests/testthat/test-get_resource_context.R | 36 +++++---- tests/testthat/test-get_resource_sql.R | 5 + tests/testthat/test-list_resources.R | 10 ++ tests/testthat/test-parse_col_select.R | 5 + 23 files changed, 279 insertions(+), 213 deletions(-)
Title: Fast Unified Random Forests for Survival, Regression, and
Classification (RF-SRC)
Description: Fast OpenMP parallel computing of Breiman's random forests for univariate, multivariate, unsupervised, survival, competing risks, class imbalanced classification and quantile regression. New Mahalanobis splitting for correlated outcomes. Extreme random forests and randomized splitting. Suite of imputation methods for missing data. Fast random forests using subsampling. Confidence regions and standard errors for variable importance. New improved holdout importance. Case-specific importance. Minimal depth variable importance. Visualize trees on your Safari or Google Chrome browser. Anonymous random forests for data privacy.
Author: Hemant Ishwaran [aut],
Udaya B. Kogalur [aut, cre]
Maintainer: Udaya B. Kogalur <ubk@kogalur.com>
Diff between randomForestSRC versions 3.4.3 dated 2025-10-10 and 3.4.4 dated 2025-11-05
DESCRIPTION | 8 +- MD5 | 46 +++++------ R/generic.predict.rfsrc.R | 2 R/impute.rfsrc.R | 179 +++++++++++++++++++++------------------------- R/print.rfsrc.R | 64 ++++++++++++++-- R/rfsrc.R | 4 - R/rfsrc.cart.R | 4 - configure | 18 ++-- configure.ac | 2 data/breast.rda |binary data/follic.rda |binary data/hd.rda |binary data/housing.rda |binary data/nutrigenomic.rda |binary data/pbc.rda |binary data/peakVO2.rda |binary data/vdv.rda |binary data/veteran.rda |binary data/wihs.rda |binary data/wine.rda |binary inst/NEWS | 10 ++ man/impute.rfsrc.Rd | 172 +++++++++++++++++++------------------------- man/quantreg.rfsrc.Rd | 116 ++++++++++++++++++++++------- man/rfsrc.Rd | 3 24 files changed, 352 insertions(+), 276 deletions(-)
More information about randomForestSRC at CRAN
Permanent link
Title: Interface to the 'PubChem' Database for Chemical Data Retrieval
Description: Provides an interface to the 'PubChem' database via the PUG REST <https://pubchem.ncbi.nlm.nih.gov/docs/pug-rest> and
PUG View <https://pubchem.ncbi.nlm.nih.gov/docs/pug-view> services. This package allows users to automatically
access chemical and biological data from 'PubChem', including compounds, substances, assays, and various other data types.
Functions are available to retrieve data in different formats, perform searches, and access detailed annotations.
Author: Selcuk Korkmaz [aut, cre] ,
Bilge Eren Yamasan [aut] ,
Dincer Goksuluk [aut]
Maintainer: Selcuk Korkmaz <selcukorkmaz@gmail.com>
Diff between PubChemR versions 2.1.6 dated 2025-10-30 and 2.1.7 dated 2025-11-05
DESCRIPTION | 6 +- MD5 | 68 +++++++++++------------ R/00_globals.R | 3 - R/download.R | 2 R/get_aids.R | 3 - R/get_all_sources.R | 2 R/get_assays.R | 3 - R/get_cids.R | 2 R/get_compounds.R | 3 - R/get_pubchem.R | 2 R/get_pug_rest.R | 10 ++- R/get_sdf.R | 2 R/get_sids.R | 2 R/get_synonyms.R | 3 - R/getter_functions.R | 29 ++++++++- man/AIDs-SIDs-CIDs.Rd | 6 ++ man/download.Rd | 2 man/get_aids.Rd | 3 - man/get_all_sources.Rd | 2 man/get_assays.Rd | 3 - man/get_cids.Rd | 2 man/get_compounds.Rd | 3 - man/get_properties.Rd | 3 - man/get_pug_rest.Rd | 10 ++- man/get_sdf.Rd | 2 man/get_sids.Rd | 2 man/get_synonyms.Rd | 3 - man/instance.Rd | 3 - man/pubChemData.Rd | 2 man/request_args.Rd | 2 man/retrieve.Rd | 8 ++ man/section.Rd | 3 - man/sectionList.Rd | 3 - man/synonyms.Rd | 2 tests/testthat/test-get_sdf.R | 124 +++++++++++++++++++++--------------------- 35 files changed, 205 insertions(+), 123 deletions(-)
Title: 'Opal' Data Repository Client and 'DataSHIELD' Utils
Description: Data integration Web application for biobanks by 'OBiBa'. 'Opal' is
the core database application for biobanks. Participant data, once
collected from any data source, must be integrated and stored in a central
data repository under a uniform model. 'Opal' is such a central repository.
It can import, process, validate, query, analyze, report, and export data.
'Opal' is typically used in a research center to analyze the data acquired at
assessment centres. Its ultimate purpose is to achieve seamless
data-sharing among biobanks. This 'Opal' client allows to interact with 'Opal'
web services and to perform operations on the R server side. 'DataSHIELD'
administration tools are also provided.
Author: Yannick Marcon [aut, cre] ,
Amadou Gaye [ctb] ,
OBiBa group [cph]
Maintainer: Yannick Marcon <yannick.marcon@obiba.org>
Diff between opalr versions 3.4.2 dated 2024-09-18 and 3.5.0 dated 2025-11-05
opalr-3.4.2/opalr/build/partial.rdb |only opalr-3.4.2/opalr/man/dot-getRSessionId.Rd |only opalr-3.5.0/opalr/DESCRIPTION | 15 - opalr-3.5.0/opalr/MD5 | 63 +++---- opalr-3.5.0/opalr/NAMESPACE | 6 opalr-3.5.0/opalr/R/opal.R | 51 ++--- opalr-3.5.0/opalr/R/opal.assign.R | 26 +- opalr-3.5.0/opalr/R/opal.command.R | 10 - opalr-3.5.0/opalr/R/opal.execute.R | 6 opalr-3.5.0/opalr/R/opal.file.R | 8 opalr-3.5.0/opalr/R/opal.resource.R | 4 opalr-3.5.0/opalr/R/opal.session.R |only opalr-3.5.0/opalr/R/opal.symbol.R | 13 - opalr-3.5.0/opalr/R/opal.table.R | 15 + opalr-3.5.0/opalr/R/opal.token.R | 42 +++- opalr-3.5.0/opalr/R/opal.workspace.R | 5 opalr-3.5.0/opalr/README.md | 2 opalr-3.5.0/opalr/build/vignette.rds |binary opalr-3.5.0/opalr/inst/doc/datashield-admin.R | 112 ++++++------ opalr-3.5.0/opalr/inst/doc/datashield-admin.html | 5 opalr-3.5.0/opalr/inst/doc/opal-files.R | 52 ++--- opalr-3.5.0/opalr/inst/doc/opal-files.html | 5 opalr-3.5.0/opalr/inst/doc/opal-projects.R | 162 +++++++++--------- opalr-3.5.0/opalr/inst/doc/opal-projects.html | 5 opalr-3.5.0/opalr/inst/doc/opal-rsession.R | 44 ++-- opalr-3.5.0/opalr/inst/doc/opal-rsession.html | 5 opalr-3.5.0/opalr/man/dot-newSession.Rd | 2 opalr-3.5.0/opalr/man/dot-opal.login.Rd | 3 opalr-3.5.0/opalr/man/opal.login.Rd | 7 opalr-3.5.0/opalr/man/opal.session.Rd |only opalr-3.5.0/opalr/man/opal.session_delete.Rd |only opalr-3.5.0/opalr/man/opal.session_events.Rd |only opalr-3.5.0/opalr/man/opal.session_exists.Rd |only opalr-3.5.0/opalr/man/opal.session_get.Rd |only opalr-3.5.0/opalr/man/opal.session_running.Rd |only opalr-3.5.0/opalr/man/opal.table_dictionary_update.Rd | 6 opalr-3.5.0/opalr/man/opalr-package.Rd | 2 37 files changed, 364 insertions(+), 312 deletions(-)
Title: Minimalist Async Evaluation Framework for R
Description: Designed for simplicity, a 'mirai' evaluates an R expression
asynchronously, locally or distributed over the network. Built on
'nanonext' and 'NNG' for modern networking and concurrency, scales
efficiently to millions of tasks over thousands of persistent parallel
processes. Provides optimal scheduling over fast 'IPC', TCP, and TLS
connections, integrating with SSH or cluster managers. Implements
event-driven promises for reactive programming, and supports custom
serialization for cross-language data types.
Author: Charlie Gao [aut, cre] ,
Joe Cheng [ctb],
Posit Software, PBC [cph, fnd] ,
Hibiki AI Limited [cph]
Maintainer: Charlie Gao <charlie.gao@posit.co>
Diff between mirai versions 2.5.1 dated 2025-10-06 and 2.5.2 dated 2025-11-05
DESCRIPTION | 27 ++--- MD5 | 79 ++++++++-------- NEWS.md | 13 ++ R/daemon.R | 77 +++++++--------- R/daemons.R | 149 ++++++++++++------------------- R/dispatcher.R | 16 --- R/launchers.R | 6 - R/map.R | 152 ++++++++++---------------------- R/mirai-package.R | 36 +++---- R/mirai.R | 40 +++----- R/next.R | 4 R/otel.R |only R/promises.R | 8 - README.md | 58 ++++++------ inst/doc/mirai.html | 4 inst/doc/v01-map.html | 4 inst/doc/v02-promises.html | 4 inst/doc/v03-serialization.html | 4 inst/doc/v04-parallel.html | 4 inst/doc/v05-opentelemetry.Rmd | 109 +++++++++++++---------- inst/doc/v05-opentelemetry.html | 112 +++++++++++++---------- inst/doc/v06-packages.Rmd | 13 ++ inst/doc/v06-packages.html | 23 ++++ inst/doc/v07-questions.Rmd | 36 +++++++ inst/doc/v07-questions.html | 30 +++++- man/as.promise.mirai.Rd | 2 man/as.promise.mirai_map.Rd | 2 man/daemon.Rd | 21 ++-- man/daemons_set.Rd | 5 - man/dot-flat.Rd | 6 - man/everywhere.Rd | 7 - man/info.Rd | 5 - man/mirai-package.Rd | 17 +-- man/mirai_map.Rd | 8 - man/nextstream.Rd | 5 - man/require_daemons.Rd | 22 +--- man/ssh_config.Rd | 3 tests/tests.R | 188 +++++++++++++++++++++------------------- vignettes/v05-opentelemetry.Rmd | 109 +++++++++++++---------- vignettes/v06-packages.Rmd | 13 ++ vignettes/v07-questions.Rmd | 36 +++++++ 41 files changed, 767 insertions(+), 690 deletions(-)
Title: Client for Dataverse 4+ Repositories
Description: Provides access to Dataverse APIs <https://dataverse.org/> (versions 4-5),
enabling data search, retrieval, and deposit. For Dataverse versions <= 3.0,
use the archived 'dvn' package <https://cran.r-project.org/package=dvn>.
Author: Shiro Kuriwaki [aut, cre] ,
Will Beasley [aut] ,
Thomas J. Leeper [aut] ,
Philip Durbin [aut] ,
Sebastian Karcher [aut] ,
Jan Kanis [ctb],
Edward Jee [ctb],
Johannes Gruber [ctb] ,
Martin Morgan [ctb] ,
Konrad Oberwimmer [ctb]
Maintainer: Shiro Kuriwaki <shirokuriwaki@gmail.com>
Diff between dataverse versions 0.3.15 dated 2025-05-20 and 0.3.16 dated 2025-11-05
DESCRIPTION | 15 ++++++++++----- MD5 | 18 +++++++++--------- NEWS.md | 6 +++++- R/utils.R | 2 +- build/vignette.rds |binary inst/doc/A-introduction.html | 4 ++-- inst/doc/B-search.html | 4 ++-- inst/doc/C-download.html | 4 ++-- tests/testthat/tests-dataset_metadata.R | 3 ++- tests/testthat/tests-get_dataset.R | 4 ++-- 10 files changed, 35 insertions(+), 25 deletions(-)
Title: Visualizing Generalized Canonical Discriminant and Canonical
Correlation Analysis
Description: Functions for computing and visualizing
generalized canonical discriminant analyses and canonical correlation analysis
for a multivariate linear model.
Traditional canonical discriminant analysis is restricted to a one-way 'MANOVA'
design and is equivalent to canonical correlation analysis between a set of quantitative
response variables and a set of dummy variables coded from the factor variable.
The 'candisc' package generalizes this to higher-way 'MANOVA' designs
for all factors in a multivariate linear model,
computing canonical scores and vectors for each term. The graphic functions provide low-rank (1D, 2D, 3D)
visualizations of terms in an 'mlm' via the 'plot.candisc' and 'heplot.candisc' methods. Related plots are
now provided for canonical correlation analysis when all predictors are quantitative. Methods for
linear discriminant analysis are now included.
Author: Michael Friendly [aut, cre] ,
John Fox [aut]
Maintainer: Michael Friendly <friendly@yorku.ca>
Diff between candisc versions 0.9.0 dated 2024-05-06 and 1.0.0 dated 2025-11-05
DESCRIPTION | 24 +-- MD5 | 99 ++++++++------- NAMESPACE | 17 ++ NEWS.md | 28 ++++ R/Wilks.cancor.R | 12 - R/can_lm.R | 14 +- R/cancor.R | 129 +++++++++---------- R/candisc-package.R | 303 +++------------------------------------------- R/candisc.R | 130 ++++++++++--------- R/candiscList.R | 37 ++--- R/cor_lda.R |only R/data.R |only R/heplot.cancor.R | 56 ++++---- R/heplot.candisc.R | 82 ++++++------ R/plot.cancor.R | 36 +++-- R/plot.candisc.R | 20 ++- R/plot_discrim.R |only R/predict_discrim.R |only R/redundancy.R | 18 +- R/reflect.R |only R/varOrder.R | 28 ++-- R/vecscale.R | 26 ++- R/vectors.R | 41 +++--- build/partial.rdb |binary build/vignette.rds |binary data/PsyAcad.RData |only data/cereal.RData |only data/cereal.rda |only inst/WORDLIST | 6 inst/doc/diabetes.R | 39 +++-- inst/doc/diabetes.Rmd | 46 ++++-- inst/doc/diabetes.html | 72 ++++++---- man/Grass.Rd | 12 - man/HSB.Rd | 30 ++-- man/PsyAcad.Rd |only man/Wilks.Rd | 4 man/Wine.Rd | 26 +-- man/Wolves.Rd | 25 +-- man/can_lm.Rd | 8 - man/cancor.Rd | 119 ++++++++---------- man/candisc-package.Rd | 33 ++--- man/candisc.Rd | 55 ++++---- man/candiscList.Rd | 7 - man/cereal.Rd |only man/cor_lda.Rd |only man/figures |only man/heplot.cancor.Rd | 27 +--- man/heplot.candisc.Rd | 10 + man/heplot.candiscList.Rd | 6 man/plot.cancor.Rd | 16 +- man/plot_discrim.Rd |only man/predict_discrim.Rd |only man/redundancy.Rd | 24 +-- man/reflect.Rd |only man/varOrder.Rd | 29 ++-- man/vecscale.Rd | 20 +-- man/vectors.Rd | 29 ++-- vignettes/diabetes.Rmd | 46 ++++-- 58 files changed, 857 insertions(+), 932 deletions(-)
Title: Exploratory Analysis of Temporal and Spatio-Temporal Health Data
Description: A collection of commonly used visualizations of temporal and
spatio-temporal health data including case counts, incidence rates, and
covariates. The available plot types include time series, heatmaps,
seasonality plots, maps and more. The package supports standard data
transformations such as temporal and spatial aggregations, while
offering extensive customization options for the resulting figures.
Author: Carles Mila [aut, cre] ,
Giovenale Moirano [aut] ,
Anna B. Kawiecki [aut] ,
Rachel Lowe [aut, cph]
Maintainer: Carles Mila <carles.milagarcia@bsc.es>
Diff between GHRexplore versions 0.2.0 dated 2025-09-05 and 0.2.1 dated 2025-11-05
DESCRIPTION | 13 ++++++----- MD5 | 29 +++++++++++++------------ NEWS.md | 21 +++++++++++++----- R/plot_bivariate.R | 14 +++++++----- R/plot_correlation.R | 6 +++-- R/plot_map.R | 2 - README.md | 5 ++-- build/vignette.rds |binary inst/doc/GHRexplore.R | 40 +++++++++++++++++------------------ inst/doc/GHRexplore.Rmd | 40 +++++++++++++++++------------------ inst/doc/GHRexplore.html | 42 ++++++++++++++++++------------------- man/GHRexplore-package.Rd | 5 ++-- man/plot_bivariate.Rd | 6 ++++- man/plot_map.Rd | 2 - vignettes/GHRexplore-vignette.html |only vignettes/GHRexplore.Rmd | 40 +++++++++++++++++------------------ 16 files changed, 144 insertions(+), 121 deletions(-)
Title: Bayesian Whole-Genome Regression
Description: Whole-genome regression methods on Bayesian framework fitted via EM
or Gibbs sampling, single step (<doi:10.1534/g3.119.400728>),
univariate and multivariate (<doi:10.1186/s12711-022-00730-w>, <doi:10.1093/genetics/iyae179>),
with optional kernel term and sampling techniques (<doi:10.1186/s12859-017-1582-3>).
Author: Alencar Xavier [aut, cre] ,
William Muir [aut],
David Habier [aut],
Kyle Kocak [aut],
Shizhong Xu [aut],
Katy Rainey [aut]
Maintainer: Alencar Xavier <alenxav@gmail.com>
Diff between bWGR versions 2.2.14 dated 2025-10-29 and 2.2.15 dated 2025-11-05
DESCRIPTION | 8 ++++---- MD5 | 13 +++++++------ R/RcppExports.R | 4 ++++ man/bWGR.Rd | 4 ++-- man/mix.Rd | 2 +- man/mvr.Rd | 7 +++++-- src/RcppEigenX20251103.cpp |only src/RcppExports.cpp | 24 ++++++++++++++++++++++++ 8 files changed, 47 insertions(+), 15 deletions(-)
Title: Spatial Data Analysis
Description: Methods for spatial data analysis with vector (points, lines, polygons) and raster (grid) data. Methods for vector data include geometric operations such as intersect and buffer. Raster methods include local, focal, global, zonal and geometric operations. The predict and interpolate methods facilitate the use of regression type (interpolation, machine learning) models for spatial prediction, including with satellite remote sensing data. Processing of very large files is supported. See the manual and tutorials on <https://rspatial.org/> to get started. 'terra' replaces the 'raster' package ('terra' can do more, and it is faster and easier to use).
Author: Robert J. Hijmans [cre, aut] ,
Marcia Barbosa [ctb] ,
Roger Bivand [ctb] ,
Andrew Brown [ctb] ,
Michael Chirico [ctb] ,
Emanuele Cordano [ctb] ,
Krzysztof Dyba [ctb] ,
Edzer Pebesma [ctb] ,
Barry Rowlingson [ctb] ,
Michael D. Sumner [ctb]
Maintainer: Robert J. Hijmans <r.hijmans@gmail.com>
Diff between terra versions 1.8-70 dated 2025-09-26 and 1.8-80 dated 2025-11-05
DESCRIPTION | 12 +-- MD5 | 139 +++++++++++++++++++-------------------- NAMESPACE | 2 NEWS.md | 37 ++++++++++ R/animate.R | 13 +-- R/colors.R | 2 R/distance.R | 25 +++++-- R/extent.R | 9 ++ R/generics.R | 26 ++++++- R/graticule.R | 62 +++++++++++++---- R/lines.R | 8 +- R/plot.R | 10 ++ R/plot_2rasters.R | 8 +- R/plot_add.R | 38 ++++++---- R/plot_axes.R | 102 +++++++++++++++++++++++------ R/plot_cartogram.R | 30 ++++++-- R/plot_helper.R | 1 R/plot_let.R | 127 +++++++++++++++++++++++++++--------- R/plot_raster.R | 46 +++++++++++-- R/plot_scale.R | 108 +++++++++++++++++++----------- R/plot_vector.R | 33 +++++++-- R/rast.R | 2 R/relate.R | 17 ++++ R/replace_layer.R | 2 R/subset.R | 14 +++ R/tempfiles.R | 1 R/time.R | 21 +++-- build/partial.rdb |binary man/add_abline.Rd |only man/aggregate.Rd | 3 man/animate.Rd | 4 - man/ar_info.Rd | 2 man/arith-generic.Rd | 2 man/buffer.Rd | 9 +- man/cartogram.Rd | 11 +-- man/convhull.Rd | 17 +++- man/densify.Rd | 1 man/distance.Rd | 26 ++++--- man/ext.Rd | 2 man/extend.Rd | 2 man/fill.Rd | 2 man/grid.Rd | 6 + man/lines.Rd | 3 man/mappal.Rd | 2 man/minmax.Rd | 1 man/north.Rd | 9 +- man/plet.Rd | 17 ++++ man/plot.Rd | 11 +-- man/plot_graticule.Rd | 3 man/project.Rd | 2 man/sample.Rd | 4 - man/sbar.Rd | 20 +++-- man/segregate.Rd | 2 man/shade.Rd | 3 man/simplify.Rd | 2 man/split.Rd | 1 man/subset.Rd | 8 +- man/terra-package.Rd | 1 man/text.Rd | 9 +- man/topology.Rd | 2 man/trim.Rd | 3 man/unique.Rd | 6 + man/vect.Rd | 2 man/viewshed.Rd | 2 src/distRaster.cpp | 34 +++++++-- src/distVector.cpp | 172 +++++++++++++++++++++++++++++-------------------- src/geos_methods.cpp | 3 src/raster_methods.cpp | 3 src/read_gdal.cpp | 8 +- src/spatRaster.h | 2 src/spatTime.cpp | 20 ++++- 71 files changed, 930 insertions(+), 407 deletions(-)
Title: Solve ODE for GUTS-RED-SD and GUTS-RED-IT Using Compiled Code
Description: Allows performing forwards prediction for the General Unified
Threshold model of Survival using compiled ode code. This package
was created to avoid dependency with the 'morse' package that requires
the installation of 'JAGS'. This package is based on functions from
the 'morse' package v3.3.1: Virgile Baudrot, Sandrine Charles,
Marie Laure Delignette-Muller, Wandrille Duchemin, Benoit Goussen,
Nils Kehrein, Guillaume Kon-Kam-King, Christelle Lopes, Philippe Ruiz,
Alexander Singer and Philippe Veber (2021) <https://CRAN.R-project.org/package=morse>.
Author: Benoit Goussen [aut] ,
Carlo Romoli [cre]
Maintainer: Carlo Romoli <carlo.romoli@ibacon.com>
Diff between odeGUTS versions 1.0.3 dated 2024-10-04 and 1.1.0 dated 2025-11-05
DESCRIPTION | 21 ++++++++++++++------- MD5 | 4 ++-- NEWS.md | 39 +++++++++++++++++++++------------------ 3 files changed, 37 insertions(+), 27 deletions(-)
Title: Solvers for Maximum Weight Connected Subgraph Problem and Its
Variants
Description: Algorithms for solving various Maximum
Weight Connected Subgraph Problems, including variants with
budget constraints, cardinality constraints, weighted edges and signals.
The package represents an R interface to high-efficient solvers based on
relax-and-cut approach (Álvarez-Miranda E., Sinnl M. (2017) <doi:10.1016/j.cor.2017.05.015>)
mixed-integer programming (Loboda A., Artyomov M., and Sergushichev A. (2016) <doi:10.1007/978-3-319-43681-4_17>)
and simulated annealing.
Author: Alexander Loboda [aut, cre],
Nikolay Poperechnyi [aut],
Eduardo Alvarez-Miranda [aut],
Markus Sinnl [aut],
Alexey Sergushichev [aut],
Paul Hosler Jr. [cph] ,
www.hamcrest.org [cph] ,
Barak Naveh and Contributors [cph] ,
The Apache Software Foundation [...truncated...]
Maintainer: Alexander Loboda <aleks.loboda@gmail.com>
Diff between mwcsr versions 0.1.9 dated 2024-09-09 and 0.1.10 dated 2025-11-05
DESCRIPTION | 6 +-- MD5 | 20 +++++----- R/annealing.R | 2 - R/rnc_sgmwcs.R | 2 - R/solvers.R | 20 +++++----- R/virgo.R | 8 ++-- build/partial.rdb |binary build/vignette.rds |binary inst/doc/tutorial.R | 8 ++-- inst/doc/tutorial.html | 88 ++++++++++++++++++++++---------------------- tests/testthat/test_rmwcs.R | 10 ++--- 11 files changed, 83 insertions(+), 81 deletions(-)
Title: Multicountry Term Structure of Interest Rates Models
Description: Package for estimating, analyzing, and forecasting multi-country macro-finance affine term structure models (ATSMs). All setups build on the single-country unspanned macroeconomic risk framework from Joslin, Priebsch, and Singleton (2014, JF) <doi:10.1111/jofi.12131>. Multicountry extensions by Jotikasthira, Le, and Lundblad (2015, JFE) <doi:10.1016/j.jfineco.2014.09.004>, Candelon and Moura (2023, EM) <doi:10.1016/j.econmod.2023.106453>, and Candelon and Moura (2024, JFEC) <doi:10.1093/jjfinec/nbae008> are also available. The package also provides tools for bias correction as in Bauer Rudebusch and Wu (2012, JBES) <doi:10.1080/07350015.2012.693855>, bootstrap analysis, and several graphical/numerical outputs.
Author: Rubens Moura [aut, cre]
Maintainer: Rubens Moura <rubens.gtmoura@gmail.com>
Diff between MultiATSM versions 1.5.0 dated 2025-10-23 and 1.5.1 dated 2025-11-05
DESCRIPTION | 8 +++--- MD5 | 19 +++++++------- NAMESPACE | 3 +- R/Classes_Methods_All.R | 1 R/ConfidenceBoundsBootstrap.R | 18 ++++++------- R/GraphicalOutputs.R | 42 +++++++++++++++++++++++++++----- inst/doc/MultiATSM.html | 8 +++--- inst/doc/Paper-Replications.html | 4 +-- man/clean_labels.Rd |only tests/testthat/Rplots.pdf |binary tests/testthat/test_DataForEstimation.R | 2 - 11 files changed, 68 insertions(+), 37 deletions(-)
Title: Multi-Population Association Studies
Description: Mixed model-based genome-wide association analysis that accommodate population membership information, variance adjustment, and correlated responses.
Author: Alencar Xavier [aut, cre] ,
Shizhong Xu [aut, ctb]
Maintainer: Alencar Xavier <alenxav@gmail.com>
Diff between mas versions 0.3 dated 2024-04-08 and 0.4 dated 2025-11-05
DESCRIPTION | 19 ++--- MD5 | 17 ++-- R/RcppExports.R | 6 - README.md | 7 +- build/partial.rdb |binary man/gwas.Rd | 7 -- man/mas.Rd | 8 +- src/GWAS.cpp | 179 ++++------------------------------------------------ src/MLM.cpp |only src/RcppExports.cpp | 17 +++- 10 files changed, 65 insertions(+), 195 deletions(-)
Title: Extensible Framework for Data Pattern Exploration
Description: A framework for systematic exploration of
association rules (Agrawal et al., 1994, <https://www.vldb.org/conf/1994/P487.PDF>),
contrast patterns (Chen, 2022, <doi:10.48550/arXiv.2209.13556>),
emerging patterns (Dong et al., 1999, <doi:10.1145/312129.312191>),
subgroup discovery (Atzmueller, 2015, <doi:10.1002/widm.1144>),
and conditional correlations (Hájek, 1978, <doi:10.1007/978-3-642-66943-9>).
User-defined functions may also be supplied to guide custom pattern searches.
Supports both crisp (Boolean) and fuzzy data. Generates candidate conditions
expressed as elementary conjunctions, evaluates them on a dataset, and
inspects the induced sub-data for statistical, logical, or structural
properties such as associations, correlations, or contrasts. Includes methods
for visualization of logical structures and supports interactive exploration
through integrated Shiny applications.
Author: Michal Burda [aut, cre]
Maintainer: Michal Burda <michal.burda@osu.cz>
Diff between nuggets versions 2.0.2 dated 2025-10-30 and 2.1.0 dated 2025-11-05
nuggets-2.0.2/nuggets/R/ui-mainApp.R |only nuggets-2.0.2/nuggets/man/explore.associations.Rd |only nuggets-2.1.0/nuggets/DESCRIPTION | 19 nuggets-2.1.0/nuggets/MD5 | 294 +- nuggets-2.1.0/nuggets/NAMESPACE | 29 nuggets-2.1.0/nuggets/NEWS.md | 14 nuggets-2.1.0/nuggets/R/RcppExports.R | 4 nuggets-2.1.0/nuggets/R/add_interest-associations.R |only nuggets-2.1.0/nuggets/R/add_interest.R |only nuggets-2.1.0/nuggets/R/algebra.R | 22 nuggets-2.1.0/nuggets/R/arules_association_measures.R |only nuggets-2.1.0/nuggets/R/association_matrix.R | 20 nuggets-2.1.0/nuggets/R/bound_range.R | 19 nuggets-2.1.0/nuggets/R/catch-routine-registration.R | 19 nuggets-2.1.0/nuggets/R/cluster_associations.R |only nuggets-2.1.0/nuggets/R/convert_data_to_list.R | 19 nuggets-2.1.0/nuggets/R/dig.R | 25 nuggets-2.1.0/nuggets/R/dig_associations.R | 53 nuggets-2.1.0/nuggets/R/dig_baseline_contrasts.R | 19 nuggets-2.1.0/nuggets/R/dig_complement_contrasts.R | 19 nuggets-2.1.0/nuggets/R/dig_correlations.R | 19 nuggets-2.1.0/nuggets/R/dig_grid.R | 19 nuggets-2.1.0/nuggets/R/dig_paired_baseline_contrasts.R | 19 nuggets-2.1.0/nuggets/R/dig_tautologies.R | 35 nuggets-2.1.0/nuggets/R/explore-associations.R | 140 + nuggets-2.1.0/nuggets/R/extract_cols.R | 19 nuggets-2.1.0/nuggets/R/fire.R | 19 nuggets-2.1.0/nuggets/R/format_condition.R | 19 nuggets-2.1.0/nuggets/R/geom_diamond.R | 19 nuggets-2.1.0/nuggets/R/guha_association_measures.R |only nuggets-2.1.0/nuggets/R/is_almost_constant.R | 19 nuggets-2.1.0/nuggets/R/is_condition.R | 19 nuggets-2.1.0/nuggets/R/is_degree.R | 19 nuggets-2.1.0/nuggets/R/is_nugget.R | 19 nuggets-2.1.0/nuggets/R/is_subset.R | 19 nuggets-2.1.0/nuggets/R/msg.R | 19 nuggets-2.1.0/nuggets/R/nugget.R | 19 nuggets-2.1.0/nuggets/R/nuggets-package.R | 45 nuggets-2.1.0/nuggets/R/parse_condition.R | 28 nuggets-2.1.0/nuggets/R/partition.R | 22 nuggets-2.1.0/nuggets/R/quietly.R | 19 nuggets-2.1.0/nuggets/R/remove_almost_constant.R | 19 nuggets-2.1.0/nuggets/R/remove_ill_conditions.R | 19 nuggets-2.1.0/nuggets/R/shorten_condition.R | 25 nuggets-2.1.0/nuggets/R/t_test.R | 19 nuggets-2.1.0/nuggets/R/testers.R | 43 nuggets-2.1.0/nuggets/R/ui-aboutTable.R | 19 nuggets-2.1.0/nuggets/R/ui-associationsClusterModule.R |only nuggets-2.1.0/nuggets/R/ui-associationsDetailModule.R | 78 nuggets-2.1.0/nuggets/R/ui-callDataTable.R | 19 nuggets-2.1.0/nuggets/R/ui-callExtension.R |only nuggets-2.1.0/nuggets/R/ui-columnProjectionModule.R |only nuggets-2.1.0/nuggets/R/ui-conditionFilterModule.R | 41 nuggets-2.1.0/nuggets/R/ui-creationParamsTable.R | 19 nuggets-2.1.0/nuggets/R/ui-datatable2.R |only nuggets-2.1.0/nuggets/R/ui-exploreApp.R |only nuggets-2.1.0/nuggets/R/ui-formatRulesForTable.R | 41 nuggets-2.1.0/nuggets/R/ui-highlightCondition.R | 19 nuggets-2.1.0/nuggets/R/ui-infoBox.R | 19 nuggets-2.1.0/nuggets/R/ui-infoTable.R | 29 nuggets-2.1.0/nuggets/R/ui-numericFilterModule.R | 37 nuggets-2.1.0/nuggets/R/ui-rulebaseTable.R | 19 nuggets-2.1.0/nuggets/R/ui-rulesTableModule.R | 35 nuggets-2.1.0/nuggets/R/ui-scatterFilterModule.R | 29 nuggets-2.1.0/nuggets/R/values.R | 19 nuggets-2.1.0/nuggets/R/var_grid.R | 19 nuggets-2.1.0/nuggets/R/var_names.R | 19 nuggets-2.1.0/nuggets/R/var_test.R | 19 nuggets-2.1.0/nuggets/R/which_antichain.R | 19 nuggets-2.1.0/nuggets/R/wilcox_test.R | 19 nuggets-2.1.0/nuggets/README.md | 19 nuggets-2.1.0/nuggets/inst/doc/data-preparation.html | 33 nuggets-2.1.0/nuggets/inst/doc/nuggets.R | 204 + nuggets-2.1.0/nuggets/inst/doc/nuggets.Rmd | 530 ++++- nuggets-2.1.0/nuggets/inst/doc/nuggets.html | 1028 +++++++--- nuggets-2.1.0/nuggets/man/add_interest.Rd |only nuggets-2.1.0/nuggets/man/cluster_associations.Rd |only nuggets-2.1.0/nuggets/man/dig_associations.Rd | 14 nuggets-2.1.0/nuggets/man/dig_tautologies.Rd | 15 nuggets-2.1.0/nuggets/man/explore.Rd |only nuggets-2.1.0/nuggets/man/shorten_condition.Rd | 6 nuggets-2.1.0/nuggets/src/AlignedVector.h | 19 nuggets-2.1.0/nuggets/src/Makevars | 1 nuggets-2.1.0/nuggets/src/RcppExports.cpp | 12 nuggets-2.1.0/nuggets/src/algebra.cpp | 37 nuggets-2.1.0/nuggets/src/antichain/AntichainData.h | 19 nuggets-2.1.0/nuggets/src/antichain/Condition.h | 19 nuggets-2.1.0/nuggets/src/antichain/Node.h | 19 nuggets-2.1.0/nuggets/src/antichain/Tree.h | 19 nuggets-2.1.0/nuggets/src/common.h | 23 nuggets-2.1.0/nuggets/src/dig.cpp | 19 nuggets-2.1.0/nuggets/src/dig/BaseChain.h | 19 nuggets-2.1.0/nuggets/src/dig/BinomialCoefficients.h | 19 nuggets-2.1.0/nuggets/src/dig/BitChain.h | 19 nuggets-2.1.0/nuggets/src/dig/CallbackCaller.h | 19 nuggets-2.1.0/nuggets/src/dig/ChainCollection.h | 19 nuggets-2.1.0/nuggets/src/dig/Clause.h | 19 nuggets-2.1.0/nuggets/src/dig/CombinatorialProgress.h | 36 nuggets-2.1.0/nuggets/src/dig/Config.h | 23 nuggets-2.1.0/nuggets/src/dig/Digger.h | 27 nuggets-2.1.0/nuggets/src/dig/FloatChain.h | 19 nuggets-2.1.0/nuggets/src/dig/FubitChain.h | 19 nuggets-2.1.0/nuggets/src/dig/Selector.h | 19 nuggets-2.1.0/nuggets/src/dig/SimdChain.h | 19 nuggets-2.1.0/nuggets/src/dig/TautologyTree.h | 19 nuggets-2.1.0/nuggets/src/parse_condition.cpp |only nuggets-2.1.0/nuggets/src/raisedcos.cpp | 23 nuggets-2.1.0/nuggets/src/triangle.cpp | 23 nuggets-2.1.0/nuggets/src/which_antichain.cpp | 23 nuggets-2.1.0/nuggets/tests/testthat.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-add_interest-associations.R |only nuggets-2.1.0/nuggets/tests/testthat/test-algebra.R | 43 nuggets-2.1.0/nuggets/tests/testthat/test-bound_range.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-cluster_associations.R |only nuggets-2.1.0/nuggets/tests/testthat/test-convert_data_to_list.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-cpp.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-dig.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-dig_associations.R | 110 - nuggets-2.1.0/nuggets/tests/testthat/test-dig_baseline_contrasts.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-dig_complement_contrasts.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-dig_correlations.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-dig_grid.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-dig_paired_baseline_contrasts.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-dig_tautologies.R | 51 nuggets-2.1.0/nuggets/tests/testthat/test-extract_cols.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-fire.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-format_condition.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-geom_diamond.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-is_almost_constant.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-is_condition.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-is_degree.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-is_subset.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-parse_condition.R | 25 nuggets-2.1.0/nuggets/tests/testthat/test-partition.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-quietly.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-remove_almost_constant.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-remove_ill_conditions.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-shorten_condition.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-t_test.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-testers.R | 784 +++++++ nuggets-2.1.0/nuggets/tests/testthat/test-ui-aboutTable.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-ui-callDataTable.R |only nuggets-2.1.0/nuggets/tests/testthat/test-ui-callExtension.R |only nuggets-2.1.0/nuggets/tests/testthat/test-ui-conditionFilterModule.R | 64 nuggets-2.1.0/nuggets/tests/testthat/test-ui-creationParamsTable.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-ui-formatRulesForTable.R | 47 nuggets-2.1.0/nuggets/tests/testthat/test-ui-highlightCondition.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-ui-infoBox.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-ui-infoTable.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-ui-numericFilterModule.R | 34 nuggets-2.1.0/nuggets/tests/testthat/test-ui-rulebaseTable.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-values.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-var_grid.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-var_names.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-var_test.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-which_antichain.R | 19 nuggets-2.1.0/nuggets/tests/testthat/test-wilcox_test.R | 19 nuggets-2.1.0/nuggets/vignettes/nuggets.Rmd | 530 ++++- 158 files changed, 5599 insertions(+), 946 deletions(-)
Title: Fit Hidden Markov Models using Template Model Builder
Description: Fitting hidden Markov models using automatic differentiation
and Laplace approximation, allowing for fast inference and flexible covariate
effects (including random effects and smoothing splines) on model parameters.
The package is described by Michelot (2025) <doi:10.18637/jss.v114.i05>.
Author: Theo Michelot [aut, cre],
Richard Glennie [aut, ctb]
Maintainer: Theo Michelot <theo.michelot@dal.ca>
Diff between hmmTMB versions 1.1.1 dated 2025-09-11 and 1.1.2 dated 2025-11-05
DESCRIPTION | 6 +- MD5 | 27 +++++----- NEWS.md | 8 ++- R/dist_def.R | 65 ++++++++++++++++++++++++++ R/hmm.R | 3 - R/observation.R | 2 R/utility.R | 8 +-- README.md | 6 +- inst/doc/hmmTMB_list_of_online_resources.Rmd | 2 inst/doc/hmmTMB_list_of_online_resources.pdf |binary inst/examples/factor_smooth_interaction |only src/dist.hpp | 40 ++++++++-------- src/dist_def.hpp | 60 ++++++++++++++++++++++++ vignettes/hmmTMB_list_of_online_resources.Rmd | 2 vignettes/refs.bib | 17 +++++- 15 files changed, 196 insertions(+), 50 deletions(-)
Title: Income Polarization Index
Description: The DER (or PaF) income polarization index as proposed by Duclos J. Y., Esteban, J. and Ray D. (2004). "Polarization: concepts, measurement, estimation". Econometrica, 72(6): 1737--1772. <doi:10.1111/j.1468-0262.2004.00552.x>. The index may be computed for a single or for a range of values of the alpha-parameter. Bootstrapping is also available.
Author: Michail Tsagris [aut, cre],
Christos Adam [aut]
Maintainer: Michail Tsagris <mtsagris@uoc.gr>
Diff between DER versions 1.1 dated 2025-05-28 and 1.2 dated 2025-11-05
DER-1.1/DER/R/paf.R |only DER-1.2/DER/DESCRIPTION | 23 +++++++++++++++-------- DER-1.2/DER/MD5 | 20 ++++++++++++-------- DER-1.2/DER/NAMESPACE | 10 +++++----- DER-1.2/DER/R/RcppExports.R |only DER-1.2/DER/R/paf2.R | 4 ++-- DER-1.2/DER/R/paf2.boot.R | 2 +- DER-1.2/DER/R/pafF.R | 4 ++-- DER-1.2/DER/man/DER-package.Rd | 4 ++-- DER-1.2/DER/man/paf.Rd | 14 ++++++++++---- DER-1.2/DER/src |only 11 files changed, 49 insertions(+), 32 deletions(-)
Title: Machine Learning Modelling for Everyone
Description: A minimal library specifically designed to make the estimation of
Machine Learning (ML) techniques as easy and accessible as possible,
particularly within the framework of the Knowledge Discovery in
Databases (KDD) process in data mining. The package provides
essential tools to structure and execute each stage of a predictive
or classification modeling workflow, aligning closely with the
fundamental steps of the KDD methodology, from data selection and
preparation, through model building and tuning, to the
interpretation and evaluation of results using Sensitivity Analysis.
The 'MLwrap' workflow is organized into four core steps;
preprocessing(), build_model(), fine_tuning(), and
sensitivity_analysis(). These steps correspond, respectively, to
data preparation and transformation, model construction,
hyperparameter optimization, and sensitivity analysis. The user can
access comprehensive model evaluation results including fit
assessment metrics, plots, predictions, and performance diagn [...truncated...]
Author: Javier Martinez Garcia [aut] ,
Juan Jose Montano Moreno [ctb] ,
Albert Sese [cre, ctb]
Maintainer: Albert Sese <albert.sese@uib.es>
Diff between MLwrap versions 0.2.1 dated 2025-10-21 and 0.2.2 dated 2025-11-05
DESCRIPTION | 6 MD5 | 95 +++---- NAMESPACE | 1 R/Bayesian_Optimization.R | 80 ++---- R/GridSearchCV.R | 2 R/Integrated_Gradients.R | 120 +++++---- R/InterpretableML.R | 81 +++--- R/SOBOL.R | 4 R/create_svm.R | 52 +++ R/fine_tuning.R | 71 ++--- R/model_creation.R | 26 + R/plotting_utils.R | 392 ++++++++++++------------------ R/preprocessing.R | 62 ++-- R/sim_data.R | 133 +++++++--- R/table_utils.R | 140 ++++------ R/tutorial.R |only README.md | 31 +- build |only man/build_model.Rd | 8 man/fine_tuning.Rd | 60 ++-- man/plot_calibration_curve.Rd | 16 - man/plot_confusion_matrix.Rd | 14 - man/plot_distribution_by_class.Rd | 13 man/plot_gain_curve.Rd | 18 - man/plot_graph_nn.Rd | 21 - man/plot_integrated_gradients.Rd | 22 - man/plot_lift_curve.Rd | 12 man/plot_loss_curve.Rd | 18 - man/plot_olden.Rd | 15 - man/plot_pfi.Rd | 19 - man/plot_pr_curve.Rd | 11 man/plot_residuals_distribution.Rd | 13 man/plot_roc_curve.Rd | 13 man/plot_scatter_predictions.Rd | 18 - man/plot_scatter_residuals.Rd | 15 - man/plot_shap.Rd | 20 - man/plot_sobol_jansen.Rd | 16 - man/plot_tuning_results.Rd | 21 - man/preprocessing.Rd | 62 ++-- man/sensitivity_analysis.Rd | 78 ++--- man/sim_data.Rd | 136 +++++++--- man/table_best_hyperparameters.Rd | 17 - man/table_evaluation_results.Rd | 15 - man/table_integrated_gradients_results.Rd | 19 - man/table_olden_results.Rd | 18 - man/table_pfi_results.Rd | 8 man/table_shap_results.Rd | 20 - man/table_sobol_jansen_results.Rd | 8 man/tutorial.Rd |only tests/testthat/test-build_model.R | 3 50 files changed, 1093 insertions(+), 950 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 0.2-1 dated 2025-09-10 and 0.2-2 dated 2025-11-05
DESCRIPTION | 6 ++--- MD5 | 16 +++++++-------- R/comet.R | 20 ++++++++++++++----- R/gcm.R | 56 ++++++++++++++++++++++++++++++------------------------ R/pcm.R | 5 ++-- build/partial.rdb |binary man/comet.Rd | 20 ++++++++++++++----- man/gcm.Rd | 10 ++++++++- man/pcm.Rd | 5 ++-- 9 files changed, 88 insertions(+), 50 deletions(-)
Title: Bimodal GEV Distribution with Location Parameter
Description: Density, distribution function, quantile function random generation and estimation of bimodal GEV distribution given in Otiniano et al. (2023) <doi:10.1007/s10651-023-00566-7>. This new generalization of the well-known GEV (Generalized Extreme Value) distribution is useful for modeling heterogeneous bimodal data from different areas.
Author: Cira Otiniano Author [aut],
Yasmin Lirio Author [aut],
Thiago Sousa Developer [cre]
Maintainer: Thiago Sousa Developer <thiagoestatistico@gmail.com>
Diff between bgev versions 0.1 dated 2024-03-14 and 0.2 dated 2025-11-05
DESCRIPTION | 10 ++--- MD5 | 12 +++--- NAMESPACE | 5 -- R/bgev_functions.R | 95 ++++++++++++++++++++++++++++++++++++++++++++++------- R/dist_check.R | 12 +++--- build/partial.rdb |binary man/bgev.mle.Rd | 27 +++++++++++++-- 7 files changed, 127 insertions(+), 34 deletions(-)
Title: Methods for Temporal Disaggregation and Interpolation of Time
Series
Description: Temporal disaggregation methods are used to disaggregate and
interpolate a low frequency time series to a higher frequency series, where
either the sum, the mean, the first or the last value of the resulting
high frequency series is consistent with the low frequency series. Temporal
disaggregation can be performed with or without one or more high frequency
indicator series. Contains the methods of Chow-Lin, Santos-Silva-Cardoso,
Fernandez, Litterman, Denton and Denton-Cholette, summarized in Sax and
Steiner (2013) <doi:10.32614/RJ-2013-028>. Supports most R time series
classes.
Author: Christoph Sax [aut, cre] ,
Peter Steiner [aut],
Tommaso Di Fonzo [ctb],
Nelson Stevens [ctb],
Tobias Schieferdecker [ctb]
Maintainer: Christoph Sax <christoph.sax@gmail.com>
Diff between tempdisagg versions 1.1.1 dated 2023-08-08 and 1.2.0 dated 2025-11-05
tempdisagg-1.1.1/tempdisagg/tests/test-all.R |only tempdisagg-1.1.1/tempdisagg/tests/testthat/test_misc.R |only tempdisagg-1.1.1/tempdisagg/tests/testthat/test_numeric.R |only tempdisagg-1.1.1/tempdisagg/tests/testthat/test_output.R |only tempdisagg-1.1.1/tempdisagg/tests/testthat/test_td.R |only tempdisagg-1.2.0/tempdisagg/DESCRIPTION | 27 ++++-- tempdisagg-1.2.0/tempdisagg/MD5 | 40 ++++++---- tempdisagg-1.2.0/tempdisagg/NEWS.md | 11 ++ tempdisagg-1.2.0/tempdisagg/R/ta.R | 2 tempdisagg-1.2.0/tempdisagg/R/td.calc.R | 2 tempdisagg-1.2.0/tempdisagg/README.md | 23 ++--- tempdisagg-1.2.0/tempdisagg/build/partial.rdb |binary tempdisagg-1.2.0/tempdisagg/build/vignette.rds |binary tempdisagg-1.2.0/tempdisagg/inst/doc/hf-disagg.R | 2 tempdisagg-1.2.0/tempdisagg/inst/doc/hf-disagg.html | 12 +-- tempdisagg-1.2.0/tempdisagg/inst/doc/intro.R | 2 tempdisagg-1.2.0/tempdisagg/inst/doc/intro.html | 16 ++-- tempdisagg-1.2.0/tempdisagg/tests/testthat.R |only tempdisagg-1.2.0/tempdisagg/tests/testthat/helper-fixtures.R |only tempdisagg-1.2.0/tempdisagg/tests/testthat/test-aggregation.R |only tempdisagg-1.2.0/tempdisagg/tests/testthat/test-conversion-types.R |only tempdisagg-1.2.0/tempdisagg/tests/testthat/test-error-handling.R |only tempdisagg-1.2.0/tempdisagg/tests/testthat/test-methods-chow-lin.R |only tempdisagg-1.2.0/tempdisagg/tests/testthat/test-methods-denton.R |only tempdisagg-1.2.0/tempdisagg/tests/testthat/test-methods-other.R |only tempdisagg-1.2.0/tempdisagg/tests/testthat/test-numeric-mode.R |only tempdisagg-1.2.0/tempdisagg/tests/testthat/test-numerical-regression.R |only tempdisagg-1.2.0/tempdisagg/tests/testthat/test-td-basic.R |only tempdisagg-1.2.0/tempdisagg/tests/testthat/test-tsbox.R |only tempdisagg-1.2.0/tempdisagg/tests/testthat/test-utils.R |only 30 files changed, 79 insertions(+), 58 deletions(-)
Title: Factor-Augmented Regression Scenarios
Description: Provides a comprehensive framework in R for modeling and forecasting economic scenarios based on multi-level dynamic factor model. The package enables users to: (i) extract global and group-specific factors using a flexible multi-level factor structure; (ii) compute asymptotically valid confidence regions for the estimated factors, accounting for uncertainty in the factor loadings; (iii) obtain estimates of the parameters of the factor-augmented quantile regressions together with their standard deviations; (iv) recover full predictive conditional densities from estimated quantiles; (v) obtain risk measures based on extreme quantiles of the conditional densities; (vi) estimate the conditional density and the corresponding extreme quantiles when the factors are stressed.
Author: Gian Pietro Bellocca [aut, cre],
Ignacio Garron [aut],
Vladimir Rodriguez-Caballero [aut],
Esther Ruiz [aut]
Maintainer: Gian Pietro Bellocca <gbellocc@est-econ.uc3m.es>
Diff between FARS versions 0.7.0 dated 2025-10-26 and 0.7.1 dated 2025-11-05
DESCRIPTION | 6 +-- MD5 | 17 +++++----- NAMESPACE | 1 R/create_scenario.R | 6 ++- R/fars_methods.R | 27 ++++++++++++++++ R/get_distribution.R | 4 -- R/multiple_blocks.R | 3 - R/plot.R | 4 +- inst/doc/Factor_Augmented_Regression_Scenarios_in_R.pdf |binary man/logLik.fars.Rd |only 10 files changed, 47 insertions(+), 21 deletions(-)
Title: Bayesian Methods for Change Points Analysis
Description: Perform change points detection on univariate and multivariate time series according to the methods presented by Asael Fabian Martínez and Ramsés H. Mena (2014) <doi:10.1214/14-BA878> and Corradin, Danese and Ongaro (2022) <doi:10.1016/j.ijar.2021.12.019>. It also clusters different types of time dependent data with common change points, see "Model-based clustering of time-dependent observations with common structural changes" (Corradin,Danese,KhudaBukhsh and Ongaro, 2024) <doi:10.48550/arXiv.2410.09552> for details.
Author: Luca Danese [aut, cre, cph] ,
Riccardo Corradin [aut],
Andrea Ongaro [aut]
Maintainer: Luca Danese <l.danese1@campus.unimib.it>
Diff between BayesChange versions 2.1.1 dated 2025-10-17 and 2.1.2 dated 2025-11-05
DESCRIPTION | 6 - MD5 | 14 +-- NEWS.md | 26 ----- R/DetectCpObj.R | 12 +- R/clust_cp.R | 2 inst/doc/tutorial.html | 211 ++++++++++++++++++++++------------------------- man/clust_cp.Rd | 2 vignettes/references.bib | 104 +++++++++++------------ 8 files changed, 176 insertions(+), 201 deletions(-)