Title: Dataset of the 'Contoso' Company
Description: A collection of synthetic datasets simulating sales transactions from a fictional company. The dataset includes various related tables that contain essential business and operational data, useful for analyzing sales performance and other business insights. Key tables included in the package are:
- "sales": Contains data on individual sales transactions, including order details, pricing, quantities, and customer information.
- "customer": Stores customer-specific details such as demographics, geographic location, occupation, and birthday.
- "store": Provides information about stores, including location, size, status, and operational dates.
- "orders": Contains details about customer orders, including order and delivery dates, store, and customer data.
- "product": Contains data on products, including attributes such as product name, category, price, cost, and weight.
- "calendar": A time-based table that includes date-related attributes like year, month, quarter, day, and working day in [...truncated...]
Author: Alejandro Hagan [aut, cre]
Maintainer: Alejandro Hagan <alejandro.hagan@outlook.com>
Diff between contoso versions 1.2.2 dated 2025-12-19 and 2.0.0 dated 2026-02-03
DESCRIPTION | 12 +- MD5 | 12 +- NEWS.md | 11 + R/database.R | 160 +++++++++++---------------- README.md | 41 +++--- man/create_contoso_duckdb.Rd | 43 +++---- tests/testthat/test-create_duckdb_database.R | 10 - 7 files changed, 143 insertions(+), 146 deletions(-)
Title: Parsing Glycan Structure Text Representations
Description: Provides functions to parse glycan structure text representations
into 'glyrepr' glycan structures. Currently, it supports StrucGP-style,
pGlyco-style, IUPAC-condensed, IUPAC-extended, IUPAC-short, WURCS,
Linear Code, and GlycoCT format. It also provides an automatic parser
to detect the format and parse the structure string.
Author: Bin Fu [aut, cre, cph]
Maintainer: Bin Fu <23110220018@m.fudan.edu.cn>
Diff between glyparse versions 0.5.4 dated 2026-01-27 and 0.5.5 dated 2026-02-03
DESCRIPTION | 6 +-- MD5 | 46 ++++++++++++----------- NEWS.md | 7 +++ R/auto-parse.R | 2 - R/parse-glycoct.R | 2 - R/parse-iupac-condensed.R | 2 - R/parse-iupac-extended.R | 2 - R/parse-iupac-short.R | 2 - R/parse-linear-code.R | 2 - R/parse-pglyco.R | 2 - R/parse-strucgp.R | 2 - R/parse-wurcs.R | 2 - R/struc-parser-wrapper.R | 64 +++++++++++++++++++++++++++----- inst/doc/glyparse.html | 9 ++-- man/auto_parse.Rd | 2 - man/parse_glycoct.Rd | 2 - man/parse_iupac_condensed.Rd | 2 - man/parse_iupac_extended.Rd | 2 - man/parse_iupac_short.Rd | 2 - man/parse_linear_code.Rd | 2 - man/parse_pglyco_struc.Rd | 2 - man/parse_strucgp_struc.Rd | 2 - man/parse_wurcs.Rd | 2 - tests/testthat/test-na-support.R |only tests/testthat/test-name-preservation.R |only 25 files changed, 111 insertions(+), 57 deletions(-)
Title: A Collection of ML Tools for Conservation Research
Description: Functions required to classify subjects within camera trap field data. The package can handle both images and videos. The authors recommend a two-step approach using Microsoft's 'MegaDector' model and then a second model trained on the classes of interest.
Author: Kyra Swanson [aut, cre] ,
Mathias Tobler [aut]
Maintainer: Kyra Swanson <tswanson@sdzwa.org>
Diff between animl versions 2.0.0 dated 2025-02-11 and 3.2.0 dated 2026-02-03
animl-2.0.0/animl/R/data_management.R |only animl-2.0.0/animl/R/detect.R |only animl-2.0.0/animl/R/link.R |only animl-2.0.0/animl/R/plot_boxes.R |only animl-2.0.0/animl/inst |only animl-2.0.0/animl/man/crop_images.Rd |only animl-2.0.0/animl/man/detect_MD_batch.Rd |only animl-2.0.0/animl/man/extract_frame_single.Rd |only animl-2.0.0/animl/man/extract_frames_old.Rd |only animl-2.0.0/animl/man/load_model.Rd |only animl-2.0.0/animl/man/megadetector.Rd |only animl-2.0.0/animl/man/parse_MD.Rd |only animl-2.0.0/animl/man/plot_boxes.Rd |only animl-2.0.0/animl/man/predict_species.Rd |only animl-2.0.0/animl/man/sort_MD.Rd |only animl-2.0.0/animl/man/sort_species.Rd |only animl-2.0.0/animl/man/update_labels.Rd |only animl-3.2.0/animl/DESCRIPTION | 14 animl-3.2.0/animl/MD5 | 98 ++++-- animl-3.2.0/animl/NAMESPACE | 54 ++- animl-3.2.0/animl/R/classification.R | 131 ++++++-- animl-3.2.0/animl/R/detection.R |only animl-3.2.0/animl/R/export.R |only animl-3.2.0/animl/R/file_management.R | 221 ++++++++++----- animl-3.2.0/animl/R/install.R |only animl-3.2.0/animl/R/reid.R |only animl-3.2.0/animl/R/sequence_classification.R | 211 ++++++++------ animl-3.2.0/animl/R/split.R | 46 ++- animl-3.2.0/animl/R/train.R |only animl-3.2.0/animl/R/video_processing.R | 175 +---------- animl-3.2.0/animl/R/visualization.R |only animl-3.2.0/animl/R/zzz.R |only animl-3.2.0/animl/README.md | 124 +++++--- animl-3.2.0/animl/man/WorkingDirectory.Rd | 2 animl-3.2.0/animl/man/animl_install.Rd |only animl-3.2.0/animl/man/animl_install_instructions.Rd |only animl-3.2.0/animl/man/build_file_manifest.Rd | 2 animl-3.2.0/animl/man/check_file.Rd | 8 animl-3.2.0/animl/man/check_python.Rd |only animl-3.2.0/animl/man/classify.Rd |only animl-3.2.0/animl/man/compute_batched_distance_matrix.Rd |only animl-3.2.0/animl/man/compute_distance_matrix.Rd |only animl-3.2.0/animl/man/cosine_distance.Rd |only animl-3.2.0/animl/man/create_pyenv.Rd |only animl-3.2.0/animl/man/delete_pyenv.Rd |only animl-3.2.0/animl/man/detect.Rd |only animl-3.2.0/animl/man/download_model.Rd |only animl-3.2.0/animl/man/euclidean_squared_distance.Rd |only animl-3.2.0/animl/man/export_camtrapR.Rd |only animl-3.2.0/animl/man/export_coco.Rd |only animl-3.2.0/animl/man/export_folders.Rd |only animl-3.2.0/animl/man/export_megadetector.Rd |only animl-3.2.0/animl/man/export_timelapse.Rd |only animl-3.2.0/animl/man/extract_frames.Rd | 29 - animl-3.2.0/animl/man/extract_miew_embeddings.Rd |only animl-3.2.0/animl/man/get_animals.Rd | 2 animl-3.2.0/animl/man/get_empty.Rd | 2 animl-3.2.0/animl/man/get_frame_as_image.Rd |only animl-3.2.0/animl/man/list_models.Rd |only animl-3.2.0/animl/man/load_animl.Rd |only animl-3.2.0/animl/man/load_class_list.Rd |only animl-3.2.0/animl/man/load_classifier.Rd |only animl-3.2.0/animl/man/load_data.Rd | 2 animl-3.2.0/animl/man/load_detector.Rd |only animl-3.2.0/animl/man/load_json.Rd |only animl-3.2.0/animl/man/load_miew.Rd |only animl-3.2.0/animl/man/parse_detections.Rd |only animl-3.2.0/animl/man/plot_all_bounding_boxes.Rd |only animl-3.2.0/animl/man/plot_box.Rd |only animl-3.2.0/animl/man/remove_diagonal.Rd |only animl-3.2.0/animl/man/remove_link.Rd | 4 animl-3.2.0/animl/man/save_classifier.Rd |only animl-3.2.0/animl/man/save_data.Rd | 2 animl-3.2.0/animl/man/save_json.Rd |only animl-3.2.0/animl/man/sequence_classification.Rd | 44 +- animl-3.2.0/animl/man/single_classification.Rd |only animl-3.2.0/animl/man/test_main.Rd |only animl-3.2.0/animl/man/train_main.Rd |only animl-3.2.0/animl/man/train_val_test.Rd |only animl-3.2.0/animl/man/update_animl_py.Rd |only animl-3.2.0/animl/man/update_labels_from_folders.Rd |only 81 files changed, 677 insertions(+), 494 deletions(-)
Title: A Magical Framework for Collaborative & Reproducible Data
Analysis
Description: A comprehensive data analysis framework for NIH-funded research that streamlines workflows for both data cleaning and preparing NIH Data Archive ('NDA') submission templates. Provides unified access to multiple data sources ('REDCap', 'MongoDB', 'Qualtrics') through interfaces to their APIs, with specialized functions for data cleaning, filtering, merging, and parsing. Features automatic validation, field harmonization, and memory-aware processing to enhance reproducibility in multi-site collaborative research as described in Mittal et al. (2021) <doi:10.20900/jpbs.20210011>.
Author: Joshua G. Kenney [aut, cre],
Trevor F. Williams [aut],
Minerva K. Pappu [aut],
Michael J. Spilka [aut],
Danielle N. Pratt [ctb],
Victor J. Pokorny [ctb],
Santiago Castiello de Obeso [ctb],
Praveen Suthaharan [ctb],
Christian R. Horgan [ctb]
Maintainer: Joshua G. Kenney <joshua.kenney@yale.edu>
Diff between wizaRdry versions 0.5.0 dated 2025-11-07 and 0.6.4 dated 2026-02-03
DESCRIPTION | 8 MD5 | 78 NEWS.md | 29 R/CategoricalVariables.R |only R/ConfigEnv.R | 14 R/DataEnvironment.R |only R/NdaClasses.R |only R/NdaDataStructure.R |only R/SecretsEnv.R | 37 R/StandardOutput.R |only R/ValidationState.R |only R/checkColumnPrefix.R | 50 R/checkInterviewAge.R | 55 R/checkQualtricsDuplicates.R | 40 R/cleanDataFrameExists.R | 13 R/createNda.R | 4 R/createNdaDataDefinition.R | 1824 ++++++++++++----- R/createNdaSubmissionTemplate.R | 199 + R/dataParse.R | 127 - R/getOracle.R | 554 ++++- R/getQualtrics.R | 15 R/getRedcap.R | 36 R/globals.R | 10 R/ndaFieldMapping.R |only R/ndaFieldRenaming.R |only R/ndaFieldSelection.R |only R/ndaFileCreation.R |only R/ndaRequest.R | 1005 ++++++--- R/ndaRequiredVariablesExist.R | 11 R/ndaTransformations.R |only R/ndaValidationHelpers.R |only R/ndaValidator.R | 4170 ++++------------------------------------ R/secrets.R | 13 R/testSuite.R | 2 R/zzz.R | 66 man/DataEnvironment.Rd |only man/NdaClasses.Rd |only man/NdaDataStructure.Rd |only man/ValidationState.Rd |only man/mongo.rune.Rd | 14 man/nda.Rd | 23 man/qualtrics.Rd | 5 man/qualtrics.rune.Rd | 11 man/redcap.Rd | 3 man/redcap.rune.Rd | 23 man/rune.Rd | 10 man/to.nda.Rd | 32 man/wizaRdry-package.Rd | 2 48 files changed, 3586 insertions(+), 4897 deletions(-)
Title: Analyze Data from the Truth Commission in Colombia
Description: Facilitates use and analysis of data about the armed conflict
in Colombia resulting from the joint project between La Jurisdicción
Especial para la Paz (JEP), La Comisión para el Esclarecimiento de la
Verdad, la Convivencia y la No repetición (CEV), and the Human Rights Data
Analysis Group (HRDAG). The data are 100 replicates from a multiple
imputation through chained equations as described in Van Buuren and
Groothuis-Oudshoorn (2011) <doi:10.18637/jss.v045.i03>. With the replicates
the user can examine four human rights violations that occurred in the
Colombian conflict accounting for the impact of missing fields and fully
missing observations.
Author: Maria Gargiulo [aut, cre],
Maria Juliana Duran [aut],
Paula Andrea Amado [aut],
Patrick Ball [rev]
Maintainer: Maria Gargiulo <mariag@hrdag.org>
Diff between verdata versions 1.0.1 dated 2025-11-07 and 1.0.2 dated 2026-02-03
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- NEWS.md | 8 ++++++++ README.md | 16 ++++++++-------- build/partial.rdb |binary inst/docs/README-en.md | 16 ++++++++-------- tests/testthat/test-estimate_mse.R | 13 ++++++++++--- tests/testthat/test-lookup_estimates.R | 4 ++++ 8 files changed, 48 insertions(+), 29 deletions(-)
Title: Optimally Refine Strata
Description: Splits initial strata into refined strata that optimize covariate balance. For more information, please see Brumberg, Small, and Rosenbaum (2024) <doi:10.1093/biomtc/ujae061>. To solve the linear program, the 'Gurobi' commercial optimization software is recommended, but not required. The 'gurobi' R package can be installed following the instructions at <https://docs.gurobi.com/projects/optimizer/en/current/reference/r/setup.html> after claiming your free academic license at <https://www.gurobi.com/academia/academic-program-and-licenses/>.
Author: Katherine Brumberg [aut, cre]
Maintainer: Katherine Brumberg <kbrum@umich.edu>
Diff between optrefine versions 1.1.0 dated 2023-04-18 and 1.1.1 dated 2026-02-03
DESCRIPTION | 21 +++++++++++---------- MD5 | 32 +++++++++++++++++--------------- NEWS.md | 6 +++++- R/best_split.R | 2 -- R/calc_smds.R | 4 ++-- R/rand_pvals.R | 12 +++++------- R/refine.R | 10 ++++++---- R/split_stratum.R | 12 +++++++++--- README.md | 1 - inst |only man/best_split.Rd | 2 -- man/calc_smds.Rd | 4 ++-- man/rand_pvals.Rd | 8 +++----- man/refine.Rd | 6 ++---- man/split_stratum.Rd | 2 -- man/table_rand_pvals.Rd | 4 ++-- tests/testthat/test-refine.R | 2 +- 17 files changed, 65 insertions(+), 63 deletions(-)
Title: Obtain Unweighted Natural Strata that Balance Many Covariates
Description: Natural strata can be used in observational studies to balance
the distributions of many covariates across any number of treatment
groups and any number of comparisons. These strata have proportional
amounts of units within each stratum across the treatments, allowing
for simple interpretation and aggregation across strata. Within each
stratum, the units are chosen using randomized rounding of a linear
program that balances many covariates. For more details, see Brumberg et al. (2022) <doi:10.1111/rssa.12848> and Brumberg et al.(2023) <doi:10.1093/jrsssc/qlad010>.
To solve the linear program, the 'Gurobi' commercial optimization software
is recommended, but not required. The 'gurobi' R package can be installed by following the instructions at <https://docs.gurobi.com/projects/optimizer/en/current/reference/r/setup.html> after claiming your free academic license at <https://www.gurobi.com/academia/academic-program-and-licenses/>.
Author: Katherine Brumberg [aut, cre]
Maintainer: Katherine Brumberg <kbrum@umich.edu>
This is a re-admission after prior archival of version 2.0.0 dated 2021-10-15
Diff between natstrat versions 2.0.0 dated 2021-10-15 and 2.0.1 dated 2026-02-03
.aspell |only DESCRIPTION | 19 MD5 | 57 NEWS.md | 66 R/balance_LP.R | 3 R/create_balance_matrices.R | 128 - R/natstrat-package.R | 44 R/randomized_rounding_expectation.R | 86 R/verify_optimize_controls_inputs.R | 374 +-- README.md | 86 build/vignette.rds |binary inst/CITATION |only inst/doc/natstrat.R | 330 +- inst/doc/natstrat.html | 4006 +++++++++++++++++++++++++++++++----- man/balance_LP.Rd | 158 - man/check_balance.Rd | 208 - man/create_dist_matrix.Rd | 84 man/generate_constraints.Rd | 294 +- man/generate_qs.Rd | 120 - man/get_stand_diffs.Rd | 106 man/natstrat-package.Rd | 84 man/nh0506.Rd | 104 man/optimize_controls.Rd | 476 ++-- man/parse_formula.Rd | 60 man/plot_stand_diffs.Rd | 66 man/presolve_EMD.Rd | 58 man/randomized_rounding.Rd | 80 man/stand.Rd | 98 man/verify_inputs.Rd | 118 - man/verify_inputs_EMD.Rd | 68 man/verify_multi_comp_inputs.Rd | 122 - 31 files changed, 5236 insertions(+), 2267 deletions(-)
Title: Two Dimensional High Throughput 'GoMiner'
Description: The Gene Ontology (GO) Consortium <https://geneontology.org/> organizes genes
into hierarchical categories based on biological process (BP), molecular function (MF) and
cellular component (CC, i.e., subcellular localization). Tools such as 'GoMiner' (see Zeeberg, B.R.,
Feng, W., Wang, G. et al. (2003) <doi:10.1186/gb-2003-4-4-r28>) can leverage GO to perform
ontological analysis of microarray and proteomics studies, typically generating a list of
significant functional categories. Microarray studies are usually analyzed with BP, whereas
proteomics researchers often prefer CC. To capture the benefit of both of those ontologies,
I developed a two-dimensional version of 'High-Throughput GoMiner' ('HTGM2D'). I generate a
2D heat map whose axes are any two of BP, MF, or CC, and the value within
a picture element of the heat map reflects the Jaccard metric p-value for the number of genes
in common for the corresponding pair.
Author: Barry Zeeberg [aut, cre]
Maintainer: Barry Zeeberg <barryz2013@gmail.com>
This is a re-admission after prior archival of version 1.1 dated 2025-05-18
Diff between HTGM2D versions 1.1 dated 2025-05-18 and 1.1.1 dated 2026-02-03
DESCRIPTION | 10 +++++----- MD5 | 22 +++++++++++----------- build/vignette.rds |binary data/GOGOA3small.RData |binary data/Housekeeping_Genes.RData |binary data/cluster52.RData |binary data/x_jmat.RData |binary data/x_l.RData |binary data/x_m1.RData |binary data/x_m2.RData |binary data/x_mat.RData |binary inst/doc/HTGM2D.html | 4 ++-- 12 files changed, 18 insertions(+), 18 deletions(-)
Title: Mediation Analysis with Missing Data and Non-Normal Data
Description: Methods for mediation analysis with missing data and non-normal data are implemented. For missing data, four methods are available: Listwise deletion, Pairwise deletion, Multiple imputation, and Two Stage Maximum Likelihood algorithm. For MI and TS-ML, auxiliary variables can be included to handle missing data. For handling non-normal data, bootstrap and two-stage robust methods can be used. Technical details of the methods can be found in Zhang and Wang (2013, <doi:10.1007/s11336-012-9301-5>), Zhang (2014, <doi:10.3758/s13428-013-0424-0>), and Yuan and Zhang (2012, <doi:10.1007/s11336-012-9282-4>).
Author: Shuigen Ming [aut],
Hong Zhang [aut],
Zhiyong Zhang [aut, cre],
Lijuan Wang [aut]
Maintainer: Zhiyong Zhang <johnnyzhz@gmail.com>
This is a re-admission after prior archival of version 0.6 dated 2025-09-03
Diff between bmemLavaan versions 0.6 dated 2025-09-03 and 0.7 dated 2026-02-03
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/power.R | 2 +- build/partial.rdb |binary build/vignette.rds |binary inst/doc/R_package-bmemLavaan_vignette.pdf |binary 6 files changed, 10 insertions(+), 10 deletions(-)
Title: Tilt your Maps and Turn Them into 'ggplot' Plots
Description: Simplifies the whole process of creating stacked tilted maps,
that are often used in scientific publications to show different
environmental layers for a geographical region. Tilting maps and
layering them allows to easily draw visual correlations between these
environmental layers.
Author: Marco Sciaini [aut, cph],
Cedric Scherer [aut],
Josh Erickson [ctb],
Egor Kotov [ctb, cre]
Maintainer: Egor Kotov <kotov.egor@gmail.com>
Diff between layer versions 0.0.3 dated 2025-01-29 and 0.0.4 dated 2026-02-03
DESCRIPTION | 14 ++++++------ MD5 | 13 ++++++----- NAMESPACE | 1 NEWS.md | 4 +++ R/plot_tiltmaps.R | 61 ++++++++++++++++++++++++++++++++---------------------- README.md | 22 +++++++++++++++---- build/partial.rdb |binary inst |only 8 files changed, 73 insertions(+), 42 deletions(-)
Title: Functions to Handle and Preprocess Infrared Spectra
Description: Functions to import and handle infrared spectra (import from '.csv' and
Thermo Galactic's '.spc', baseline correction, binning, clipping,
interpolating, smoothing, averaging, adding, subtracting, dividing,
multiplying, atmospheric correction, 'tidyverse' methods, plotting).
Author: Henning Teickner [aut, cre, cph]
Maintainer: Henning Teickner <henning.teickner@uni-muenster.de>
Diff between ir versions 0.4.1 dated 2025-04-06 and 0.4.2 dated 2026-02-03
DESCRIPTION | 14 - MD5 | 22 +-- NEWS.md | 124 +++++++++-------- R/tidyverse.R | 2 build/partial.rdb |binary build/vignette.rds |binary inst/doc/ir-class.R | 2 inst/doc/ir-class.html | 138 +++++++++---------- inst/doc/ir-introduction.html | 296 ++++++++++++++++-------------------------- man/nest.Rd | 8 - man/pivot_longer.ir.Rd | 2 man/summarize.Rd | 2 12 files changed, 275 insertions(+), 335 deletions(-)
Title: Bounded Time Series Regression
Description: Simulate, estimate and forecast a wide range of regression
based dynamic models for bounded time series, covering the most
commonly applied models in the literature. The main calculations are
done in FORTRAN, which translates into very fast algorithms.
Author: Taiane Schaedler Prass [aut, cre, com] ,
Guilherme Pumi [ctb, aut] ,
Fabio Mariano Bayer [ctb] ,
Jack Joseph Dongarra [ctb] ),
Cleve Moler [ctb] ),
Gilbert Wright Stewart [ctb] ),
Ciyou Zhu [ctb] ,
Richard H. Byrd [ctb] ,
Jorge Nocedal [ctb] ,
Jose L [...truncated...]
Maintainer: Taiane Schaedler Prass <taianeprass@gmail.com>
Diff between BTSR versions 1.0.1 dated 2026-01-22 and 1.0.2 dated 2026-02-03
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- build/partial.rdb |binary inst/NEWS.md | 8 ++++---- src/01_distrib.f90 | 5 ++++- 5 files changed, 16 insertions(+), 13 deletions(-)
Title: 'shiny' Application for Adverse Event Analysis of 'OnCore' Data
Description: An application for analysis of Adverse Events, as described in Chen, et al., (2023) <doi:10.3390/cancers15092521>.
The required data for the application includes demographics, follow up, adverse event, drug administration and optional tumor measurement data.
The app can produce swimmers plots of adverse events, Kaplan-Meier plots and Cox Proportional Hazards model results
for the association of adverse event biomarkers and overall survival and progression free survival.
The adverse event biomarkers include occurrence of grade 3, low grade (1-2), and treatment related adverse events.
Plots and tables of results are downloadable.
Author: Z Thompson [aut, cre],
A Obermayer [aut],
DT Chen [aut]
Maintainer: Z Thompson <zachary.thompson@moffitt.org>
Diff between AdverseEvents versions 0.0.4 dated 2024-11-20 and 0.0.5 dated 2026-02-03
DESCRIPTION | 6 MD5 | 37 inst/app/R/global.R | 3 inst/app/server.R | 2549 +++++++++++++++++++++++++------- inst/app/summaryreport.Rmd | 77 inst/app/template.Rmd | 2 inst/app/template_AEREplots.Rmd | 2 inst/app/template_AEplots.Rmd | 2 inst/app/template_REplots.Rmd | 2 inst/app/template_forestplots.Rmd | 2 inst/app/template_responseplots.Rmd | 2 inst/app/templateduration.Rmd | 2 inst/app/ui.R | 355 ++-- inst/app/www/AEDataScreenShot.PNG |only inst/app/www/DADataScreenShot.PNG |only inst/app/www/DemographicsScreenShot.PNG |only inst/app/www/FollowUpDataScreenShot.PNG |only inst/app/www/RECISTdataScreenShot.PNG |only inst/app/www/Thumbs.db |binary inst/app/www/demo_ae_data.csv | 1088 ++++++------- inst/app/www/demo_da_data.csv | 906 +++++------ inst/doc/AdverseEvents.html | 26 22 files changed, 3350 insertions(+), 1711 deletions(-)
Title: Automatic Univariate Time Series Modelling of many Kinds
Description: Comprehensive analysis and forecasting
of univariate time series using automatic
time series models of many kinds.
Harvey AC (1989) <doi:10.1017/CBO9781107049994>.
Pedregal DJ and Young PC (2002) <doi:10.1002/9780470996430>.
Durbin J and Koopman SJ (2012) <doi:10.1093/acprof:oso/9780199641178.001.0001>.
Hyndman RJ, Koehler AB, Ord JK, and Snyder RD (2008) <doi:10.1007/978-3-540-71918-2>.
Gómez V, Maravall A (2000) <doi:10.1002/9781118032978>.
Pedregal DJ, Trapero JR and Holgado E (2024) <doi:10.1016/j.ijforecast.2023.09.004>.
Author: Diego J. Pedregal [aut, cre]
Maintainer: Diego J. Pedregal <diego.pedregal@uclm.es>
Diff between UComp versions 5.1.5 dated 2025-11-18 and 5.1.7 dated 2026-02-03
ChangeLog | 2 DESCRIPTION | 8 - MD5 | 20 ++-- src/ARIMASSmodel.h | 12 +- src/ARIMAmodel.h | 264 ++++++++++++++++++++++++++--------------------------- src/ARMAmodel.h | 20 ++-- src/BSMmodel.h | 52 +++++----- src/DJPTtools.h | 2 src/ETSmodel.h | 2 src/SSpace.h | 30 +++--- src/stats.h | 65 +++++++------ 11 files changed, 245 insertions(+), 232 deletions(-)
Title: Interface to 'MLflow'
Description: R interface to 'MLflow', open source platform for
the complete machine learning life cycle, see <https://mlflow.org/>.
This package supports installing 'MLflow', tracking experiments,
creating and running projects, and saving and serving models.
Author: Ben Wilson [aut, cre],
Matei Zaharia [aut],
Javier Luraschi [aut],
Kevin Kuo [aut] ,
RStudio [cph]
Maintainer: Ben Wilson <benjamin.wilson@databricks.com>
Diff between mlflow versions 3.6.0 dated 2025-11-14 and 3.9.0 dated 2026-02-03
DESCRIPTION | 6 ++--- MD5 | 26 ++++++++++++------------- NAMESPACE | 6 ----- R/databricks-utils.R | 10 +++++++-- R/tracking-rest.R | 16 ++++++--------- tests/testthat/test-client.R | 18 ++++++++--------- tests/testthat/test-databricks-utils.R | 15 +++++++------- tests/testthat/test-model-h2o.R | 6 ++--- tests/testthat/test-model-registry.R | 34 ++++++++++++++++----------------- tests/testthat/test-model-xgboost.R | 24 ++++++++++++----------- tests/testthat/test-model.R | 10 ++++----- tests/testthat/test-params.R | 2 + tests/testthat/test-rest.R | 2 - tests/testthat/test-run.R | 10 ++++----- 14 files changed, 94 insertions(+), 91 deletions(-)
Title: Interface to Download Meteorological (and Hydrological) Datasets
Description: Automatize downloading of meteorological and hydrological data from publicly available repositories:
OGIMET (<http://ogimet.com/index.phtml.en>),
University of Wyoming - atmospheric vertical profiling data (<http://weather.uwyo.edu/upperair/>),
Polish Institute of Meteorology and Water Management - National Research Institute (<https://danepubliczne.imgw.pl>),
and National Oceanic & Atmospheric Administration (NOAA).
This package also allows for searching geographical coordinates for each observation and calculate distances to the nearest stations.
Author: Bartosz Czernecki [aut, cre] ,
Arkadiusz Glogowski [aut] ,
Jakub Nowosad [aut] ,
IMGW-PIB [ctb]
Maintainer: Bartosz Czernecki <nwp@amu.edu.pl>
Diff between climate versions 1.2.7 dated 2026-01-23 and 1.2.9 dated 2026-02-03
DESCRIPTION | 6 - MD5 | 25 ++++--- NEWS.md | 7 +- R/clean_metadata_meteo.R | 34 +--------- R/meteo_imgw_daily.R | 128 ++++++++++++++++++++------------------- R/meteo_imgw_hourly.R | 63 ++++++++++--------- R/meteo_imgw_monthly.R | 149 +++++++++++++++++++++++++++------------------- R/meteo_metadata_imgw.R | 1 R/nearest_stations_imgw.R | 13 ++-- R/utils.R | 31 +++++++++ R/zzz.R | 5 + inst/doc/getstarted.html | 4 - inst/parser.R |only man/meteo_imgw_monthly.Rd | 2 14 files changed, 264 insertions(+), 204 deletions(-)
Title: Species Distribution Models as a Function of Biotic, Abiotic and
Movement Factors (BAM)
Description: Species Distribution Modeling (SDM) is a practical
methodology that aims to estimate the area of distribution of a
species. However, most of the work has focused on estimating static
expressions of the correlation between environmental variables. The
outputs of correlative species distribution models can be interpreted
as maps of the suitable environment for a species but not generally as
maps of its actual distribution. Soberón and Peterson (2005)
<doi:10.17161/bi.v2i0.4> presented the BAM scheme, a heuristic
framework that states that the occupied area of a species occurs on
sites that have been accessible through dispersal (M) and have both
favorable biotic (B) and abiotic conditions (A). The 'bamm' package
implements classes and functions to operate on each element of the BAM
and by using a cellular automata model where the occupied area of a
species at time t is estimated by the multiplication of three binary
matrices: one matrix represents movements (M), another abiotic - [...truncated...]
Author: Luis Osorio-Olvera [aut, cre] ,
Jorge Soberon [aut] ,
Rusby G. Contreras-Diaz [ctb]
Maintainer: Luis Osorio-Olvera <luismurao@gmail.com>
Diff between bamm versions 0.5.0 dated 2024-07-06 and 0.6.0 dated 2026-02-03
DESCRIPTION | 23 +-- MD5 | 87 ++++++------ NAMESPACE | 6 NEWS.md | 9 + R/RcppExports.R | 4 R/adj_mat.R | 26 +++ R/bam_classes.R | 64 +++++---- R/bam_clusters.R | 21 +- R/bam_methods.R | 36 ++--- R/bam_sim.R | 5 R/community_sim.R | 8 - R/csd_estimate.R | 12 - R/csim2pam.R | 14 + R/diversity_range_analysis.R | 15 +- R/model2sparse.R | 2 R/models2pam.R | 86 ++++-------- R/null_dispersion_field_distribution.R | 8 - R/pam2richness.R | 2 R/permute_pam.R | 2 R/pol2pam.R |only R/sdm_sim.R | 211 +++++++++++++++++++----------- R/sim2Animation.R | 207 +++++++++++++---------------- R/sim2Raster.R | 17 +- README.md | 2 build/partial.rdb |binary inst/WORDLIST |only inst/doc/bam.html | 26 ++- inst/extdata/suam.rds |only inst/extdata/uicn.rds |only man/adj_mat.Rd | 27 +++ man/bam_clusters.Rd | 5 man/community_sim.Rd | 9 - man/csim2pam.Rd | 4 man/diversity_range_analysis.Rd | 4 man/g_area-class.Rd | 26 ++- man/models2pam.Rd | 2 man/null_dispersion_field_distribution.Rd | 2 man/permute_pam.Rd | 2 man/pol2pam.Rd |only man/sdm_sim.Rd | 19 ++ man/setA.Rd | 29 ++-- man/sim2Animation.Rd | 2 man/sim2Raster.Rd | 4 src/RcppExports.cpp | 21 ++ src/sdm_sim.cpp |only tests/spelling.R |only tests/testthat/Rplots.pdf |binary tests/testthat/test-bam.R | 58 ++++++-- 48 files changed, 670 insertions(+), 437 deletions(-)
Title: Fast Agent-Based Epi Models
Description: A flexible framework for Agent-Based Models (ABM), the 'epiworldR' package provides methods for prototyping disease outbreaks and transmission models using a 'C++' backend, making it very fast. It supports multiple epidemiological models, including the Susceptible-Infected-Susceptible (SIS), Susceptible-Infected-Removed (SIR), Susceptible-Exposed-Infected-Removed (SEIR), and others, involving arbitrary mitigation policies and multiple-disease models. Users can specify infectiousness/susceptibility rates as a function of agents' features, providing great complexity for the model dynamics. Furthermore, 'epiworldR' is ideal for simulation studies featuring large populations.
Author: George Vega Yon [aut, cre] ,
Derek Meyer [aut] ,
Andrew Pulsipher [aut] ,
Susan Holmes [rev] ,
Abinash Satapathy [rev] ,
Carinogurjao [rev],
Centers for Disease Control and Prevention [fnd]
Maintainer: George Vega Yon <g.vegayon@gmail.com>
Diff between epiworldR versions 0.11.0.1 dated 2026-01-14 and 0.11.2.0 dated 2026-02-03
DESCRIPTION | 6 MD5 | 34 ++--- NEWS.md | 13 ++ inst/doc/advanced-modeling.html | 12 - inst/doc/getting-started.html | 8 - inst/doc/likelihood-free-mcmc.html | 10 - inst/doc/mixing.html | 8 - inst/doc/run-multiple.html | 4 inst/include/epiworld/epiworld.hpp | 2 inst/include/epiworld/models/measlesmixing.hpp | 67 ++++++----- inst/include/epiworld/models/measlesmixingriskquarantine.hpp | 55 +++++---- inst/include/epiworld/models/measlesschool.hpp | 27 +++- inst/include/epiworld/models/seirmixing.hpp | 19 +-- inst/include/epiworld/models/seirmixingquarantine.hpp | 19 +-- inst/include/epiworld/models/sirmixing.hpp | 13 +- inst/include/epiworld/models/surveillance.hpp | 4 inst/include/epiworld/tool-meat.hpp | 6 inst/include/epiworld/virus-meat.hpp | 3 18 files changed, 187 insertions(+), 123 deletions(-)
Title: Acute Lymphoblastic Leukemia Maintenance Therapy Analysis
Description: Evaluates acute lymphoblastic leukemia maintenance therapy practice at patient and cohort level.
Author: Tushar Mungle [aut, cre] ,
Ananya Mahadevan [aut] ,
Shekhar Krishnan [aut]
Maintainer: Tushar Mungle <tushar.mungle@gmail.com>
Diff between allMT versions 0.1.0 dated 2023-04-20 and 0.1.1 dated 2026-02-03
DESCRIPTION | 15 - MD5 | 32 +-- R/compare_cohorts.R | 25 +- README.md | 290 ++++++++++++++++---------------- build/vignette.rds |binary inst/doc/allMT.R | 4 inst/doc/allMT.html | 72 +++---- inst/extdata/external_data/UPN_1.csv | 96 +++++----- inst/extdata/external_data/UPN_2.csv | 96 +++++----- inst/extdata/processed_data/UPN_1.csv | 96 +++++----- inst/extdata/processed_data/UPN_2.csv | 96 +++++----- inst/extdata/processed_data/UPN_914.csv | 58 +++--- inst/extdata/processed_data/UPN_915.csv | 78 ++++---- inst/extdata/processed_data/UPN_916.csv | 76 ++++---- inst/extdata/processed_data/UPN_917.csv | 96 +++++----- inst/extdata/processed_data/UPN_918.csv | 96 +++++----- man/compare_cohorts.Rd | 21 +- 17 files changed, 621 insertions(+), 626 deletions(-)
Title: Parallel Processing Options for Package 'dataRetrieval'
Description: Provides methods for retrieving United States Geological Survey (USGS) water data using sequential and parallel processing (Bengtsson, 2022 <doi:10.32614/RJ-2021-048>). In addition to parallel methods, data wrangling and additional statistical attributes are provided.
Author: Josh Erickson [aut, cre, cph]
Maintainer: Josh Erickson <joshualerickson@gmail.com>
Diff between whitewater versions 0.1.3 dated 2023-04-01 and 0.1.4 dated 2026-02-03
DESCRIPTION | 10 MD5 | 20 NEWS.md | 4 R/download_USGS.R | 2206 +++++++++++++++---------------- R/utils.R | 520 +++---- README.md | 430 +++--- man/figures/README-unnamed-chunk-2-1.png |binary man/ww_dvUSGS.Rd | 2 man/ww_floorIVUSGS.Rd | 2 man/ww_instantaneousUSGS.Rd | 2 man/ww_wyUSGS.Rd | 2 11 files changed, 1612 insertions(+), 1586 deletions(-)
Title: Multivariate Normal Probabilities using Vecchia Approximation
Description: Under a different representation of the multivariate normal (MVN) probability, we can use the Vecchia approximation to sample the integrand at a linear complexity with respect to n. Additionally, both the SOV algorithm from Genz (92) and the exponential-tilting method from Botev (2017) can be adapted to linear complexity. The reference for the method implemented in this package is Jian Cao and Matthias Katzfuss (2024) "Linear-Cost Vecchia Approximation of Multivariate Normal Probabilities" <doi:10.48550/arXiv.2311.09426>. Two major references for the development of our method are Alan Genz (1992) "Numerical Computation of Multivariate Normal Probabilities" <doi:10.1080/10618600.1992.10477010> and Z. I. Botev (2017) "The Normal Law Under Linear Restrictions: Simulation and Estimation via Minimax Tilting" <doi:10.48550/arXiv.1603.04166>.
Author: Jian Cao [aut, cre],
Matthias Katzfuss [aut]
Maintainer: Jian Cao <jcao2416@gmail.com>
Diff between VeccTMVN versions 1.3.1 dated 2025-08-19 and 1.3.2 dated 2026-02-03
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- NEWS.md | 8 ++------ R/loglk_censor_MVN.R | 4 ++++ R/pmvn.R | 4 ++++ R/pmvn_MLMC.R | 4 ++++ R/pmvt.R | 4 ++++ R/pmvt_MLMC.R | 4 ++++ R/rnd_TMVN.R | 4 ++++ R/rnd_TMVT.R | 4 ++++ R/rnd_part_TMVN.R | 4 ++++ 11 files changed, 48 insertions(+), 20 deletions(-)
Title: Exponential-Family Models for Signed Networks
Description: Extends the 'ergm.multi' packages from the Statnet suite to fit (temporal) exponential-family random graph models for signed networks. The framework models positive and negative ties as interdependent, which allows estimation and testing of structural balance theory. The package also includes options for descriptive summaries, visualization, and simulation of signed networks. See Krivitsky, Koehly, and Marcum (2020) <doi:10.1007/s11336-020-09720-7> and Fritz, C., Mehrl, M., Thurner, P. W., & Kauermann, G. (2025) <doi:10.1017/pan.2024.21>.
Author: Marc Schalberger [cre],
Cornelius Fritz [aut],
Pavel Krivitsky [ctb]
Maintainer: Marc Schalberger <m.schalberger@fu-berlin.de>
Diff between ergm.sign versions 0.1.1 dated 2025-12-11 and 0.1.2 dated 2026-02-03
DESCRIPTION | 6 +-- MD5 | 14 ++++----- R/mple_sign.R | 77 +++++++++++++++++++++++++++++++++++---------------- R/networks.sign.R | 28 ++++++++++-------- R/path_sampler.R | 12 +++++-- build/partial.rdb |binary build/stage23.rdb |binary inst/doc/tribes.html | 46 +++++++++++++++--------------- 8 files changed, 110 insertions(+), 73 deletions(-)
Title: Optimal Designs for Nonlinear Models via ICA
Description: Finds optimal designs for nonlinear models using a metaheuristic algorithm called Imperialist Competitive Algorithm (ICA). See, for details, Masoudi et al. (2022) <doi:10.32614/RJ-2022-043>, Masoudi et al. (2017) <doi:10.1016/j.csda.2016.06.014> and Masoudi et al. (2019) <doi:10.1080/10618600.2019.1601097>.
Author: Ehsan Masoudi [aut, cre],
Heinz Holling [aut],
Weng Kee Wong [aut],
Seongho Kim [ctb]
Maintainer: Ehsan Masoudi <esn_mud@yahoo.com>
This is a re-admission after prior archival of version 1.0.1 dated 2020-10-11
Diff between ICAOD versions 1.0.1 dated 2020-10-11 and 1.0.2 dated 2026-02-03
DESCRIPTION | 18 MD5 | 103 NEWS.md |only R/1-UserCommonFunctions.R | 13 R/10-UserEfficiency.R | 812 +++--- R/2-InternalCommonFunctions.R | 2 R/3-UserMinimaxFunctions.R | 37 R/4-InternalMinimaxFunctions.R | 3744 +++++++++++++++---------------- R/6-UserBayesFunctions.R | 2642 ++++++++++----------- R/8-UserPriors.R | 260 +- R/ICABOD_help_page.R | 72 R/RcppExports.R | 454 +-- inst/examples/bayes_examples.R | 648 ++--- inst/examples/bayescomp_examples.R | 130 - inst/examples/locally_examples.R | 346 +- inst/examples/locallycomp_examples.R | 198 - inst/examples/minimax_examples.R | 620 ++--- inst/examples/multiple_examples.R | 122 - inst/examples/robust_examples.R | 212 - inst/examples/sensbayes_examples.R | 198 - inst/examples/sensbayescomp_examples.R | 72 inst/examples/senslocally_examples.R | 124 - inst/examples/senslocallycomp_examples.R | 88 inst/examples/sensminimax_examples.R | 354 +- man/ICA.control.Rd | 2 man/ICAOD.Rd | 68 man/bayes.Rd | 57 man/bayes.update.Rd | 3 man/bayescomp.Rd | 38 man/beff.Rd | 3 man/crt.bayes.control.Rd | 3 man/crt.minimax.control.Rd | 4 man/locally.Rd | 16 man/locallycomp.Rd | 2 man/minimax.Rd | 40 man/multiple.Rd | 6 man/normal.Rd | 16 man/plot.minimax.Rd | 3 man/print.minimax.Rd | 3 man/print.sensminimax.Rd | 3 man/robust.Rd | 8 man/sens.control.Rd | 6 man/sens.minimax.control.Rd | 8 man/sensbayes.Rd | 13 man/sensbayescomp.Rd | 5 man/senslocally.Rd | 2 man/senslocallycomp.Rd | 2 man/sensminimax.Rd | 6 man/skewnormal.Rd | 16 man/student.Rd | 16 man/uniform.Rd | 16 man/update.minimax.Rd | 3 src/RcppExports.cpp | 5 53 files changed, 5841 insertions(+), 5801 deletions(-)
More information about BayesMallowsSMC2 at CRAN
Permanent link
Title: Create Ternary and Holdridge Plots
Description: Plots ternary diagrams (simplex plots / Gibbs triangles) and
Holdridge life zone plots <doi:10.1126/science.105.2727.367> using the
standard graphics functions.
Allows custom annotation, interpolating, contouring and scaling of plotting
region.
Includes a 'Shiny' user interface for point-and-click ternary plotting.
An alternative to 'ggtern', which uses the 'ggplot2' family of plotting
functions.
Author: Martin R. Smith [aut, cre, cph] ,
Lilian Sanselme [ctb]
Maintainer: Martin R. Smith <martin.smith@durham.ac.uk>
Diff between Ternary versions 2.3.5 dated 2025-09-03 and 2.3.6 dated 2026-02-03
DESCRIPTION | 12 MD5 | 38 +- NAMESPACE | 2 NEWS.md | 293 ++++++++++----------- R/Annotate.R | 278 ++++++++++---------- R/data.R | 3 README.md | 127 +++++---- build/partial.rdb |binary build/vignette.rds |binary inst/TernaryApp/app.R | 9 inst/WORDLIST | 97 +++---- inst/doc/Holdridge.html | 4 inst/doc/Ternary.html | 6 inst/doc/annotation.html | 4 inst/doc/interpolation.html | 4 inst/doc/new-users.html | 4 man/Annotate.Rd | 2 man/cbPalettes.Rd | 3 tests/testthat/Rplots.pdf |binary tests/testthat/test-Contours.R | 552 ++++++++++++++++++++--------------------- 20 files changed, 726 insertions(+), 712 deletions(-)
Title: An Analyzer of International Large Scale Assessments in
Education
Description: An easy way to analyze international large-scale assessments and surveys in education or any other dataset that includes replicated weights (Balanced Repeated Replication (BRR) weights, Jackknife replicate weights,...) while also allowing for analysis with multiply imputed variables (plausible values). It supports the estimation of univariate statistics (e.g. mean, variance, standard deviation, quantiles), frequencies, correlation, linear regression and any other model already implemented in R that takes a data frame and weights as parameters. It also includes options to prepare the results for publication, following the table formatting standards of the Organization for Economic Cooperation and Development (OECD).
Author: Rodolfo Ilizaliturri [aut, cre],
Francesco Avvisati [aut],
Francois Keslair [aut]
Maintainer: Rodolfo Ilizaliturri <rodolfo.ilizaliturri@oecd.org>
Diff between Rrepest versions 1.6.9 dated 2026-01-07 and 1.6.11 dated 2026-02-03
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- R/flags.R | 4 ++-- R/pv_rrepest_statistics.R | 13 +++++++++---- R/rrepest.R | 2 +- 5 files changed, 19 insertions(+), 14 deletions(-)
Title: Harmonised Index of Consumer Prices
Description: The Harmonised Index of Consumer Prices (HICP) is the key economic figure to measure inflation in the euro area.
The methodology underlying the HICP is documented in the HICP Methodological Manual (<https://ec.europa.eu/eurostat/web/products-manuals-and-guidelines/w/ks-gq-24-003>).
Based on the manual, this package provides functions to access and work with HICP data from Eurostat's public database (<https://ec.europa.eu/eurostat/data/database>).
Author: Sebastian Weinand [aut, cre]
Maintainer: Sebastian Weinand <sebastian.weinand@ec.europa.eu>
Diff between hicp versions 1.0.2 dated 2026-01-19 and 1.1.0 dated 2026-02-03
hicp-1.0.2/hicp/R/tree.r |only hicp-1.0.2/hicp/data |only hicp-1.0.2/hicp/man/spec.aggs.Rd |only hicp-1.0.2/hicp/man/tree.Rd |only hicp-1.0.2/hicp/tests/testthat/test_tree.r |only hicp-1.0.2/hicp/tests/testthat/testdata/dta.RData |only hicp-1.0.2/hicp/tests/testthat/testdata/dtm.RData |only hicp-1.0.2/hicp/tests/testthat/testdata/dtw.RData |only hicp-1.1.0/hicp/DESCRIPTION | 7 hicp-1.1.0/hicp/MD5 | 85 - hicp-1.1.0/hicp/NAMESPACE | 8 hicp-1.1.0/hicp/NEWS.md | 35 hicp-1.1.0/hicp/R/coicop.r | 374 +----- hicp-1.1.0/hicp/R/coicop.relatives.r |only hicp-1.1.0/hicp/R/coicop.tree.r |only hicp-1.1.0/hicp/R/countries.r |only hicp-1.1.0/hicp/R/helper.r | 220 +++- hicp-1.1.0/hicp/R/index.aggregation.r | 11 hicp-1.1.0/hicp/R/rates.r | 8 hicp-1.1.0/hicp/R/sysdata.rda |binary hicp-1.1.0/hicp/R/zzz.r | 14 hicp-1.1.0/hicp/inst/doc/hicp_intro.R | 206 +-- hicp-1.1.0/hicp/inst/doc/hicp_intro.Rmd | 264 ++-- hicp-1.1.0/hicp/inst/doc/hicp_intro.html | 875 +++++++--------- hicp-1.1.0/hicp/man/chaining.Rd | 54 hicp-1.1.0/hicp/man/coicop.Rd | 147 +- hicp-1.1.0/hicp/man/coicop.relatives.Rd |only hicp-1.1.0/hicp/man/coicop.tree.Rd |only hicp-1.1.0/hicp/man/countries.Rd | 59 - hicp-1.1.0/hicp/man/hicp.data.Rd | 20 hicp-1.1.0/hicp/man/index.aggregation.Rd | 124 +- hicp-1.1.0/hicp/man/linking.Rd | 11 hicp-1.1.0/hicp/man/rates.Rd | 47 hicp-1.1.0/hicp/tests/testthat/test_chaining.R | 68 - hicp-1.1.0/hicp/tests/testthat/test_coicop.r | 368 +----- hicp-1.1.0/hicp/tests/testthat/test_coicop.relatives.r |only hicp-1.1.0/hicp/tests/testthat/test_coicop.tree.r |only hicp-1.1.0/hicp/tests/testthat/test_countries.r |only hicp-1.1.0/hicp/tests/testthat/test_helper.r | 134 +- hicp-1.1.0/hicp/tests/testthat/test_hicp.data.r | 36 hicp-1.1.0/hicp/tests/testthat/test_index.aggregation.r | 274 ++--- hicp-1.1.0/hicp/tests/testthat/test_linking.r | 3 hicp-1.1.0/hicp/tests/testthat/test_rates.r | 111 +- hicp-1.1.0/hicp/tests/testthat/testdata/dthicp1a.RData |only hicp-1.1.0/hicp/tests/testthat/testdata/dthicp1m.RData |only hicp-1.1.0/hicp/tests/testthat/testdata/dthicp2a.RData |only hicp-1.1.0/hicp/tests/testthat/testdata/dthicp2m.RData |only hicp-1.1.0/hicp/tests/testthat/testdata/dtooh.RData |binary hicp-1.1.0/hicp/vignettes/data/hicp_datafilters.RData |binary hicp-1.1.0/hicp/vignettes/data/hicp_datasets.RData |binary hicp-1.1.0/hicp/vignettes/data/hicp_itemweights.RData |binary hicp-1.1.0/hicp/vignettes/data/hicp_prices.RData |binary hicp-1.1.0/hicp/vignettes/hicp_intro.Rmd | 264 ++-- 53 files changed, 1798 insertions(+), 2029 deletions(-)
Title: Conventional and Fuzzy Data Envelopment Analysis
Description: Set of functions for Data Envelopment Analysis, including classical, fuzzy, cross-efficiency, bootstrapping, and Malmquist models. See: Banker, R.; Charnes, A.; Cooper, W.W. (1984). <doi:10.1287/mnsc.30.9.1078>, Charnes, A.; Cooper, W.W.; Rhodes, E. (1978). <doi:10.1016/0377-2217(78)90138-8> and Charnes, A.; Cooper, W.W.; Rhodes, E. (1981). <doi:10.1287/mnsc.27.6.668>.
Author: Vicente Bolos [aut, cre],
Vicente Coll-Serrano [aut],
Rafael Benitez Suarez [aut]
Maintainer: Vicente Bolos <vicente.bolos@uv.es>
Diff between deaR versions 1.5.2 dated 2025-10-14 and 1.5.3 dated 2026-02-03
DESCRIPTION | 8 ++--- MD5 | 59 +++++++++++++++++++++---------------------- R/data_sets.R | 2 - R/make_deadata_fuzzy.R | 2 - R/malmquist_index.R | 2 - R/maximal_friends.R | 2 - R/model_additive.R | 2 - R/model_addmin.R | 2 - R/model_addsupereff.R | 2 - R/model_basic.R | 4 +- R/model_deaps.R | 2 - R/model_dir.R | 2 - R/model_fdh.R | 2 - R/model_lgo.R | 2 - R/model_multiplier.R | 2 - R/model_nonradial.R | 2 - R/model_profit.R | 2 - R/model_qgo.R | 38 ++++++++++++++++++++------- R/model_rdm.R | 2 - R/model_sbmeff.R | 2 - R/model_sbmsupereff.R | 2 - R/model_supereff.R | 2 - R/modelfuzzy_guotanaka.R | 2 - R/modelfuzzy_kaoliu.R | 2 - R/modelfuzzy_possibilistic.R | 2 - R/zzz.R |only inst/CITATION | 4 +- man/Golany_Roll_1989.Rd | 2 - man/make_deadata_fuzzy.Rd | 2 - man/model_basic.Rd | 2 - man/model_qgo.Rd | 4 ++ 31 files changed, 94 insertions(+), 71 deletions(-)
Title: Bayesian Profile Regression using Generalised Linear Mixed
Models
Description: Implements a Bayesian profile regression using a generalized linear mixed model as output model. The package allows for binary (probit mixed model) and continuous (linear mixed model) outcomes and both continuous and categorical clustering variables. The package utilizes 'RcppArmadillo' and 'RcppDist' for high-performance statistical computing in C++. For more details see Amestoy & al. (2025) <doi:10.48550/arXiv.2510.08304>.
Author: Matteo Amestoy [aut, cre, cph],
Mark van de Wiel [ths],
Wessel van Wieringen [ths]
Maintainer: Matteo Amestoy <m.amestoy@amsterdamumc.nl>
Diff between ProfileGLMM versions 1.0.2 dated 2025-12-18 and 1.1.0 dated 2026-02-03
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Title: Nonnegative Matrix Factorization
Description: Nonnegative matrix factorization (NMF) is a technique to factorize a matrix with nonnegative values into the product of two matrices. Covariates are also allowed. Parallel computing is an option to enhance the speed and high-dimensional and large scale (and/or sparse) data are allowed. Relevant papers include: Wang Y. X. and Zhang Y. J. (2012). Nonnegative matrix factorization: A comprehensive review. IEEE Transactions on Knowledge and Data Engineering, 25(6), 1336-1353 <doi:10.1109/TKDE.2012.51> and Kim H. and Park H. (2008). Nonnegative matrix factorization based on alternating nonnegativity constrained least squares and active set method. SIAM Journal on Matrix Analysis and Applications, 30(2), 713-730 <doi:10.1137/07069239X>.
Author: Michail Tsagris [aut, cre]
Maintainer: Michail Tsagris <mtsagris@uoc.gr>
Diff between nnmf versions 1.0 dated 2026-01-09 and 1.1 dated 2026-02-03
DESCRIPTION | 10 +++++----- MD5 | 12 +++++++----- NAMESPACE | 1 + R/nmf.manh.R | 2 +- R/nmfqp.reg.R |only man/nmf.sqp.Rd | 2 +- man/nmfqp.reg.Rd |only man/nnmf-package.Rd | 4 ++-- 8 files changed, 17 insertions(+), 14 deletions(-)
Title: NeuroAnatomy Toolbox ('nat') Extension for Assessing Neuron
Similarity and Clustering
Description: Extends package 'nat' (NeuroAnatomy Toolbox) by providing a
collection of NBLAST-related functions for neuronal morphology comparison (Costa et al. (2016) <doi: 10.1016/j.neuron.2016.06.012>).
Author: Gregory Jefferis [aut, cre] ,
James Manton [aut]
Maintainer: Gregory Jefferis <jefferis@gmail.com>
Diff between nat.nblast versions 1.6.8 dated 2025-08-18 and 1.6.9 dated 2026-02-03
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NEWS.md | 4 ++++ build/partial.rdb |binary build/vignette.rds |binary inst/doc/NBLAST-Clustering.R | 2 +- inst/doc/NBLAST-Clustering.html | 11 ++++++----- tests/testthat/test-clustering.r | 2 +- 8 files changed, 23 insertions(+), 18 deletions(-)
Title: Statistical Methods for the Analysis of Excess Lifetimes
Description: A collection of parametric and nonparametric methods for the analysis of survival data. Parametric families implemented include Gompertz-Makeham, exponential and generalized Pareto models and extended models. The package includes an implementation of the nonparametric maximum likelihood estimator for arbitrary truncation and censoring pattern based on Turnbull (1976) <doi:10.1111/j.2517-6161.1976.tb01597.x>, along with graphical goodness-of-fit diagnostics. Parametric models for positive random variables and peaks over threshold models based on extreme value theory are described in Rootzén and Zholud (2017) <doi:10.1007/s10687-017-0305-5>; Belzile et al. (2021) <doi:10.1098/rsos.202097> and Belzile et al. (2022) <doi:10.1146/annurev-statistics-040120-025426>.
Author: Leo Belzile [aut, cre] ,
Mitchell O'Hara-Wild [ctb]
Maintainer: Leo Belzile <belzilel@gmail.com>
Diff between longevity versions 1.2.2 dated 2025-08-22 and 1.3 dated 2026-02-03
DESCRIPTION | 14 ++++++++------ MD5 | 34 +++++++++++++++++----------------- NEWS.md | 7 ++++++- R/doubletruncation.R | 9 ++++++--- R/endpoint.R | 6 ++++-- R/hazard.R | 3 ++- R/misc.R | 12 +++++------- R/nonparametric.R | 6 ++++-- R/northrop.R | 3 ++- R/parametric.R | 6 ++++-- R/posterior.R | 3 ++- R/tests.R | 6 ++++-- R/threshstab.R | 13 +++++++++---- build/partial.rdb |binary build/vignette.rds |binary inst/doc/introduction.html | 9 +++++---- inst/doc/nonparametric.html | 9 +++++---- man/plot.elife_tstab.Rd | 3 +++ 18 files changed, 86 insertions(+), 57 deletions(-)
Title: Functions to Assist Design and Analysis of Agronomic Experiments
Description: Provides functions to aid in the design and analysis of
agronomic and agricultural experiments through easy access to
documentation and helper functions, especially for users who are
learning these concepts. While not required for most functionality,
this package enhances the `asreml` package which provides a
computationally efficient algorithm for fitting mixed models
using Residual Maximum Likelihood. It is a commercial package
that can be purchased as 'asreml-R' from 'VSNi'
<https://vsni.co.uk/>, who will supply a zip file for local
installation/updating (see <https://asreml.kb.vsni.co.uk/>).
Author: Sharon Nielsen [aut],
Sam Rogers [aut, cre],
Annie Conway [aut],
University of Adelaide [cph, fnd] ,
Grains Research and Development Corporation [cph, fnd]
Maintainer: Sam Rogers <biometrytraining@adelaide.edu.au>
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Title: Utilities from and Interface to the 'Bioinfo-C' ('BIOS') Library
Description: Provides interface to the 'Bioinfo-C' (internal name: 'BIOS') library and utilities. 'ribiosUtils' is a Swiss-knife for computational biology in drug discovery, providing functions and utilities with minimal external dependency and maximal efficiency.
Author: Jitao David Zhang [aut, cre, ctb] ,
Clemens Broger [aut, ctb],
F.Hoffmann-La Roche AG [cph],
Junio C Hamano [cph],
Jean Thierry-Mieg [cph],
Konrad Rudolph [cph],
Richard Durbin [cph]
Maintainer: Jitao David Zhang <jitao_david.zhang@roche.com>
This is a re-admission after prior archival of version 1.5-6 dated 2020-03-06
Diff between ribiosUtils versions 1.5-6 dated 2020-03-06 and 1.7.7 dated 2026-02-03
ribiosUtils-1.5-6/ribiosUtils/R/openFileDevice.R |only ribiosUtils-1.5-6/ribiosUtils/man/getDefaultFontFamily.Rd |only ribiosUtils-1.5-6/ribiosUtils/man/openFileDevice.Rd |only ribiosUtils-1.5-6/ribiosUtils/tests/test_extname.R |only ribiosUtils-1.5-6/ribiosUtils/tests/test_matchColumn.R |only ribiosUtils-1.5-6/ribiosUtils/tests/test_matrix2longdf.R |only ribiosUtils-1.5-6/ribiosUtils/tests/test_mmatch.R |only ribiosUtils-1.5-6/ribiosUtils/tests/test_openFileDevice.R |only ribiosUtils-1.5-6/ribiosUtils/tests/test_pwdecode.R |only ribiosUtils-1.5-6/ribiosUtils/tests/test_summarizeRows.R |only ribiosUtils-1.7.7/ribiosUtils/DESCRIPTION | 29 - ribiosUtils-1.7.7/ribiosUtils/MD5 | 173 +++++--- ribiosUtils-1.7.7/ribiosUtils/NAMESPACE | 45 +- ribiosUtils-1.7.7/ribiosUtils/NEWS | 9 ribiosUtils-1.7.7/ribiosUtils/R/bedaInfo.R | 8 ribiosUtils-1.7.7/ribiosUtils/R/bound.R |only ribiosUtils-1.7.7/ribiosUtils/R/corByRownames.R |only ribiosUtils-1.7.7/ribiosUtils/R/cuttreeIntoOrderedGroups.R |only ribiosUtils-1.7.7/ribiosUtils/R/dfmat.R | 204 +++++++++- ribiosUtils-1.7.7/ribiosUtils/R/factor.R | 16 ribiosUtils-1.7.7/ribiosUtils/R/file_dir.R | 116 +++++ ribiosUtils-1.7.7/ribiosUtils/R/invertList.R |only ribiosUtils-1.7.7/ribiosUtils/R/isOdd.R |only ribiosUtils-1.7.7/ribiosUtils/R/libordie.R | 13 ribiosUtils-1.7.7/ribiosUtils/R/matchColumn.R | 2 ribiosUtils-1.7.7/ribiosUtils/R/microwellPlates.R |only ribiosUtils-1.7.7/ribiosUtils/R/midentical.R | 18 ribiosUtils-1.7.7/ribiosUtils/R/mmatch.R | 3 ribiosUtils-1.7.7/ribiosUtils/R/pScore.R | 62 ++- ribiosUtils-1.7.7/ribiosUtils/R/removeRowsWithAnyNA.R |only ribiosUtils-1.7.7/ribiosUtils/R/ribiosUtils.R | 8 ribiosUtils-1.7.7/ribiosUtils/R/rocheCompound.R | 21 - ribiosUtils-1.7.7/ribiosUtils/R/rowscale.R | 34 + ribiosUtils-1.7.7/ribiosUtils/R/rrank.R |only ribiosUtils-1.7.7/ribiosUtils/R/scripting.R | 6 ribiosUtils-1.7.7/ribiosUtils/R/string.R | 21 + ribiosUtils-1.7.7/ribiosUtils/R/writeLog.R | 125 +++--- ribiosUtils-1.7.7/ribiosUtils/README.md | 20 ribiosUtils-1.7.7/ribiosUtils/inst/include/avlTree.h | 7 ribiosUtils-1.7.7/ribiosUtils/inst/include/hash.h | 3 ribiosUtils-1.7.7/ribiosUtils/inst/include/hlrmisc.h | 6 ribiosUtils-1.7.7/ribiosUtils/inst/include/ribios_utils.h | 12 ribiosUtils-1.7.7/ribiosUtils/inst/rmarkdown/templates/ribios-rmarkdown-template/skeleton/skeleton.Rmd | 6 ribiosUtils-1.7.7/ribiosUtils/man/applyTopOrIncAndNotExclFilter.Rd |only ribiosUtils-1.7.7/ribiosUtils/man/bedaInfo.Rd | 2 ribiosUtils-1.7.7/ribiosUtils/man/bound.Rd |only ribiosUtils-1.7.7/ribiosUtils/man/cbindByRownames.Rd |only ribiosUtils-1.7.7/ribiosUtils/man/corByRownames.Rd |only ribiosUtils-1.7.7/ribiosUtils/man/createDir.Rd | 2 ribiosUtils-1.7.7/ribiosUtils/man/cutreeIntoOrderedGroups.Rd |only ribiosUtils-1.7.7/ribiosUtils/man/equateWellLabelWidth.Rd |only ribiosUtils-1.7.7/ribiosUtils/man/firstUp.Rd |only ribiosUtils-1.7.7/ribiosUtils/man/invertList.Rd |only ribiosUtils-1.7.7/ribiosUtils/man/isOdd.Rd |only ribiosUtils-1.7.7/ribiosUtils/man/isRocheCompoundID.Rd | 5 ribiosUtils-1.7.7/ribiosUtils/man/isTopOrIncAndNotExcl.Rd |only ribiosUtils-1.7.7/ribiosUtils/man/lastChar.Rd |only ribiosUtils-1.7.7/ribiosUtils/man/libordie.Rd | 9 ribiosUtils-1.7.7/ribiosUtils/man/matchColumn.Rd | 4 ribiosUtils-1.7.7/ribiosUtils/man/midentical.Rd | 5 ribiosUtils-1.7.7/ribiosUtils/man/mmatch.Rd | 3 ribiosUtils-1.7.7/ribiosUtils/man/orderCutgroup.Rd |only ribiosUtils-1.7.7/ribiosUtils/man/overwriteDir.Rd |only ribiosUtils-1.7.7/ribiosUtils/man/pAbsLog10Score.Rd | 11 ribiosUtils-1.7.7/ribiosUtils/man/pQnormScore.Rd | 11 ribiosUtils-1.7.7/ribiosUtils/man/pScore.Rd | 9 ribiosUtils-1.7.7/ribiosUtils/man/print.BEDAinfo.Rd | 2 ribiosUtils-1.7.7/ribiosUtils/man/registerLog.Rd | 65 +-- ribiosUtils-1.7.7/ribiosUtils/man/relevels.Rd | 2 ribiosUtils-1.7.7/ribiosUtils/man/removeColumnsByFunc.Rd |only ribiosUtils-1.7.7/ribiosUtils/man/removeColumnsWithNA.Rd |only ribiosUtils-1.7.7/ribiosUtils/man/removeRowsWithNA.Rd |only ribiosUtils-1.7.7/ribiosUtils/man/replaceZeroPvalue.Rd |only ribiosUtils-1.7.7/ribiosUtils/man/ribiosUtils-package.Rd |only ribiosUtils-1.7.7/ribiosUtils/man/ribiosUtils.Rd | 1 ribiosUtils-1.7.7/ribiosUtils/man/rowscale.table.Rd |only ribiosUtils-1.7.7/ribiosUtils/man/rrank.Rd |only ribiosUtils-1.7.7/ribiosUtils/man/rrank.matrix.Rd |only ribiosUtils-1.7.7/ribiosUtils/man/rrankInd.Rd |only ribiosUtils-1.7.7/ribiosUtils/man/scriptInit.Rd | 2 ribiosUtils-1.7.7/ribiosUtils/man/shortenRocheCompoundID.Rd |only ribiosUtils-1.7.7/ribiosUtils/man/wellIndex2position.Rd |only ribiosUtils-1.7.7/ribiosUtils/man/writeLog.Rd | 32 - ribiosUtils-1.7.7/ribiosUtils/src/Makevars | 11 ribiosUtils-1.7.7/ribiosUtils/src/avlTree.c | 58 +- ribiosUtils-1.7.7/ribiosUtils/src/binalgparser.c | 4 ribiosUtils-1.7.7/ribiosUtils/src/blastdb.c | 5 ribiosUtils-1.7.7/ribiosUtils/src/chemutil.c | 4 ribiosUtils-1.7.7/ribiosUtils/src/forest.c | 4 ribiosUtils-1.7.7/ribiosUtils/src/format.c | 6 ribiosUtils-1.7.7/ribiosUtils/src/hash.c | 5 ribiosUtils-1.7.7/ribiosUtils/src/html.c | 8 ribiosUtils-1.7.7/ribiosUtils/src/init.c | 14 ribiosUtils-1.7.7/ribiosUtils/src/linestream.c | 2 ribiosUtils-1.7.7/ribiosUtils/src/log.c | 12 ribiosUtils-1.7.7/ribiosUtils/src/properties.c | 1 ribiosUtils-1.7.7/ribiosUtils/src/r_mmatch.c | 7 ribiosUtils-1.7.7/ribiosUtils/src/sequenceAlignment.c | 4 ribiosUtils-1.7.7/ribiosUtils/src/statistics.c | 2 ribiosUtils-1.7.7/ribiosUtils/tests/testthat/test_cbindByRownames.R |only ribiosUtils-1.7.7/ribiosUtils/tests/testthat/test_corByRownames.R |only ribiosUtils-1.7.7/ribiosUtils/tests/testthat/test_equalWidthWellLabels.R |only ribiosUtils-1.7.7/ribiosUtils/tests/testthat/test_extname.R |only ribiosUtils-1.7.7/ribiosUtils/tests/testthat/test_file_dir.R |only ribiosUtils-1.7.7/ribiosUtils/tests/testthat/test_matchColumn.R |only ribiosUtils-1.7.7/ribiosUtils/tests/testthat/test_matrix2longdf.R |only ribiosUtils-1.7.7/ribiosUtils/tests/testthat/test_mmatch.R |only ribiosUtils-1.7.7/ribiosUtils/tests/testthat/test_pScore.R | 18 ribiosUtils-1.7.7/ribiosUtils/tests/testthat/test_pwdecode.R |only ribiosUtils-1.7.7/ribiosUtils/tests/testthat/test_relevels.R |only ribiosUtils-1.7.7/ribiosUtils/tests/testthat/test_removeRowsWithNA.R |only ribiosUtils-1.7.7/ribiosUtils/tests/testthat/test_rocheCompound.R | 12 ribiosUtils-1.7.7/ribiosUtils/tests/testthat/test_str.R | 19 ribiosUtils-1.7.7/ribiosUtils/tests/testthat/test_summarizeRows.R |only ribiosUtils-1.7.7/ribiosUtils/tests/testthat/test_wellIndex2position.R |only 115 files changed, 971 insertions(+), 357 deletions(-)
Title: Text Analysis with Emphasis on POS Tagging, Readability, and
Lexical Diversity
Description: A set of tools to analyze texts. Includes, amongst others, functions for automatic language detection, hyphenation, several indices of lexical diversity (e.g., type token ratio, HD-D/vocd-D, MTLD) and readability (e.g., Flesch, SMOG, LIX, Dale-Chall). Basic import functions for language corpora are also provided, to enable frequency analyses
(supports Celex and Leipzig Corpora Collection file formats) and measures like tf-idf. Note: For full functionality a local installation of TreeTagger is recommended. It is also recommended to not load this package directly, but by loading one of the available language support packages from the 'l10n' repository
<https://undocumeantit.github.io/repos/l10n/>. 'koRpus' also includes a plugin for the R GUI and IDE RKWard, providing graphical dialogs for its basic features. The respective R package 'rkward' cannot be installed directly from a repository, as it is a part of RKWard. To make full use of this feature, please install
RKWard from <h [...truncated...]
Author: Meik Michalke [aut, cre],
Earl Brown [ctb],
Alberto Mirisola [ctb],
Alexandre Brulet [ctb],
Laura Hauser [ctb]
Maintainer: Meik Michalke <meik.michalke@hhu.de>
Diff between koRpus versions 0.13-8 dated 2021-05-17 and 0.13-9 dated 2026-02-03
ChangeLog | 1222 ++++++++++++++++++----------------- DESCRIPTION | 55 - MD5 | 110 +-- R/01_class_01_kRp.text.R | 11 R/01_class_02_kRp.TTR.R | 217 +++--- R/01_class_03_kRp.corp.freq.R | 2 R/01_class_90_deprecated_classes.R | 4 R/02_method_docTermMatrix.R | 4 R/02_method_get_set_kRp.text.R | 8 R/02_method_hyphen.R | 6 R/02_method_lex.div.R | 4 R/02_method_query.R | 9 R/02_method_readTagged.R | 17 R/02_method_readability.R | 39 - R/02_method_show.kRp.lang.R | 25 R/02_method_textTransform.R | 56 - R/02_method_tokenize.R | 20 R/02_method_treetag.R | 32 R/guess.lang.R | 6 R/koRpus-internal.R | 17 R/koRpus-internal.freq.analysis.R | 18 R/koRpus-internal.lexdiv.formulae.R | 23 R/koRpus-internal.rdb.formulae.R | 35 - R/koRpus-package.R | 14 R/lex.div.num.R | 18 R/read.BAWL.R | 4 R/readability.num.R | 6 R/wrapper_functions_readability.R | 8 build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 8 inst/NEWS.Rd | 1234 +++++++++++++++++++----------------- inst/doc/koRpus_vignette.R | 163 ++-- inst/doc/koRpus_vignette.Rmd | 78 ++ inst/doc/koRpus_vignette.html | 981 ++++++++++++++++++++-------- man/ARI.Rd | 2 man/ELF.Rd | 2 man/FOG.Rd | 2 man/docTermMatrix.Rd | 2 man/guess.lang.Rd | 4 man/hyphen-methods.Rd | 4 man/kRp.text-class.Rd | 4 man/kRp.text_get-methods.Rd | 6 man/koRpus-deprecated.Rd | 2 man/koRpus-package.Rd | 6 man/lex.div-methods.Rd | 6 man/lex.div.num.Rd | 16 man/query-methods.Rd | 6 man/read.BAWL.Rd | 2 man/readTagged-methods.Rd | 8 man/readability-methods.Rd | 59 + man/readability.num.Rd | 9 man/textTransform-methods.Rd | 38 - man/tokenize-methods.Rd | 8 man/treetag-methods.Rd | 30 vignettes/koRpus_vignette.Rmd | 78 ++ 56 files changed, 2806 insertions(+), 1942 deletions(-)
More information about CGMissingDataR at CRAN
Permanent link
Title: Companion to Applied Regression
Description: Functions to Accompany J. Fox and S. Weisberg,
An R Companion to Applied Regression, Third Edition, Sage, 2019.
Author: John Fox [aut],
Sanford Weisberg [aut],
Brad Price [aut, cre],
Daniel Adler [ctb],
Douglas Bates [ctb],
Gabriel Baud-Bovy [ctb],
Ben Bolker [ctb],
Steve Ellison [ctb],
David Firth [ctb],
Michael Friendly [ctb],
Gregor Gorjanc [ctb],
Spencer Graves [c [...truncated...]
Maintainer: Brad Price <brad.price@mail.wvu.edu>
Diff between car versions 3.1-3 dated 2024-09-27 and 3.1-5 dated 2026-02-03
car-3.1-3/car/vignettes/plainnat.bst |only car-3.1-5/car/DESCRIPTION | 24 +++++++++++++----------- car-3.1-5/car/MD5 | 23 +++++++++++------------ car-3.1-5/car/NEWS | 15 +++++++++++++++ car-3.1-5/car/R/bcnPower.R | 22 +++++++++++++++------- car-3.1-5/car/R/carWeb.R | 8 ++++---- car-3.1-5/car/R/deltaMethod.R | 9 +++++---- car-3.1-5/car/R/logit.R | 16 ++++++++++------ car-3.1-5/car/build/vignette.rds |binary car-3.1-5/car/inst/doc/embedding.pdf |binary car-3.1-5/car/man/deltaMethod.Rd | 14 ++++++++++++++ car-3.1-5/car/man/influence-mixed-models.Rd | 5 +++++ car-3.1-5/car/man/logit.Rd | 3 ++- 13 files changed, 94 insertions(+), 45 deletions(-)
Title: Edit an 'Antares' Simulation
Description: Edit an 'Antares' simulation before running it : create new areas, links, thermal
clusters or binding constraints or edit existing ones. Update 'Antares' general & optimization settings.
'Antares' is an open source power system generator, more information available here : <https://antares-simulator.org/>.
Author: Tatiana Vargas [aut, cre],
Frederic Breant [ctb],
Victor Perrier [ctb],
Baptiste Seguinot [ctb],
Benoit Thieurmel [ctb],
Titouan Robert [ctb],
Jalal-Edine Zawam [ctb],
Etienne Sanchez [ctb],
Janus De Bondt [ctb],
Assil Mansouri [ctb],
Abdallah Mahoud [...truncated...]
Maintainer: Tatiana Vargas <tatiana.vargas@rte-france.com>
Diff between antaresEditObject versions 0.9.3 dated 2025-11-17 and 1.0.0 dated 2026-02-03
DESCRIPTION | 6 MD5 | 41 +-- NAMESPACE | 2 NEWS.md | 22 + R/createBindingConstraint.R | 48 +++ R/createStudy.R | 3 R/district.R | 329 +++++++++++++++++++++----- R/editBindingConstraint.R | 4 R/runSimulation.R | 6 R/runTsGenerator.R | 6 R/utils.R | 11 inst/doc/Antares_new_features_v920.html | 4 inst/doc/api-variant-management.html | 2 inst/template-antares/antares-study-v700.zip |binary inst/template-antares/antares-study-v710.zip |binary inst/template-antares/antares-study-v720.zip |binary inst/template-antares/antares-study-v800.zip |binary man/createDistrict.Rd | 5 man/editDistrict.Rd |only man/removeDistrict.Rd | 2 tests/testthat/test-createBindingConstraint.R | 11 tests/testthat/test-district.R | 146 +++++++++++ 22 files changed, 541 insertions(+), 107 deletions(-)
More information about antaresEditObject at CRAN
Permanent link
Title: ADaM in R Asset Library
Description: A toolbox for programming Clinical Data Interchange Standards
Consortium (CDISC) compliant Analysis Data Model (ADaM) datasets in R.
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>).
Author: Ben Straub [aut, cre],
Stefan Bundfuss [aut] ,
Matt Bearham [aut],
Arianna Cascone [aut] ,
Kristin Dahnert [aut],
Jeffrey Dickinson [aut],
Ross Farrugia [aut],
Fanny Gautier [aut],
Edoardo Mancini [aut] ,
Gordon Miller [aut],
Lina Patil [aut],
Jim Ro [...truncated...]
Maintainer: Ben Straub <ben.x.straub@gsk.com>
Diff between admiral versions 1.4.0 dated 2026-01-15 and 1.4.1 dated 2026-02-03
DESCRIPTION | 14 +- MD5 | 76 +++++++------- NEWS.md | 20 +++ R/data.R | 4 R/derive_var_atoxgr.R | 11 ++ README.md | 2 build/vignette.rds |binary data/atoxgr_criteria_ctcv4.rda |binary data/atoxgr_criteria_ctcv4_uscv.rda |binary data/atoxgr_criteria_ctcv5.rda |binary data/atoxgr_criteria_ctcv5_uscv.rda |binary data/atoxgr_criteria_ctcv6.rda |binary data/atoxgr_criteria_ctcv6_uscv.rda |binary data/atoxgr_criteria_daids.rda |binary data/atoxgr_criteria_daids_uscv.rda |binary inst/doc/adab.html | 5 inst/doc/adsl.html | 5 inst/doc/bds_exposure.html | 5 inst/doc/bds_finding.html | 5 inst/doc/bds_tte.html | 5 inst/doc/concepts_conventions.html | 5 inst/doc/generic.html | 9 - inst/doc/higher_order.html | 5 inst/doc/hys_law.html | 5 inst/doc/imputation.html | 5 inst/doc/lab_grading.Rmd | 3 inst/doc/lab_grading.html | 70 +++++++------ inst/doc/occds.html | 5 inst/doc/pk_adnca.R | 6 - inst/doc/pk_adnca.Rmd | 6 - inst/doc/pk_adnca.html | 11 +- inst/doc/questionnaires.html | 5 inst/doc/visits_periods.html | 5 inst/templates/ad_adppk.R | 2 man/atoxgr_criteria_daids.Rd | 4 man/derive_var_joined_exist_flag.Rd | 3 tests/testthat/test-derive_var_atoxgr.R | 172 ++++++++++++++++++-------------- vignettes/lab_grading.Rmd | 3 vignettes/pk_adnca.Rmd | 6 - 39 files changed, 288 insertions(+), 194 deletions(-)
Title: Spatial Empirical Dynamic Modeling
Description: Inferring causation from spatial cross-sectional data through empirical dynamic modeling (EDM), with methodological extensions including geographical convergent cross mapping from Gao et al. (2023) <doi:10.1038/s41467-023-41619-6>, as well as the spatial causality test following the approach of Herrera et al. (2016) <doi:10.1111/pirs.12144>, together with geographical pattern causality proposed in Zhang et al. (2025) <doi:10.1080/13658816.2025.2581207>.
Author: Wenbo Lv [aut, cre, cph]
Maintainer: Wenbo Lv <lyu.geosocial@gmail.com>
Diff between spEDM versions 1.10 dated 2026-02-01 and 1.11 dated 2026-02-03
DESCRIPTION | 6 MD5 | 74 +++++----- NEWS.md | 8 + inst/CITATION | 2 inst/doc/main1_pkgintro.Rmd | 2 inst/doc/main1_pkgintro.html | 2 inst/doc/main2_ssr.Rmd | 2 inst/doc/main2_ssr.html | 2 inst/doc/main3_gccm.Rmd | 6 inst/doc/main3_gccm.html | 10 - inst/doc/main4_gpc.Rmd | 2 inst/doc/main4_gpc.html | 6 inst/doc/main5_gcmc.Rmd | 2 inst/doc/main5_gcmc.html | 6 inst/doc/main6_scpcm.Rmd | 3 inst/doc/main6_scpcm.html | 47 +++--- inst/doc/si1_slm.Rmd | 2 inst/doc/si1_slm.html | 2 inst/doc/si2_sct.Rmd | 318 +++++++++++++++++++++---------------------- inst/doc/si2_sct.html | 26 +-- man/figures/gccm/fig1-1.png |binary man/figures/gccm/fig2-1.png |binary man/figures/gcmc/fig1-1.png |binary man/figures/gcmc/fig2-1.png |binary man/figures/gpc/fig1-1.png |binary man/figures/gpc/fig2-1.png |binary src/GridExp.cpp | 123 ++++++++++------ src/LatticeExp.cpp | 32 ++++ src/SymbolicDynamics.cpp | 2 src/SymbolicDynamics.h | 2 vignettes/main1_pkgintro.Rmd | 2 vignettes/main2_ssr.Rmd | 2 vignettes/main3_gccm.Rmd | 6 vignettes/main4_gpc.Rmd | 2 vignettes/main5_gcmc.Rmd | 2 vignettes/main6_scpcm.Rmd | 3 vignettes/si1_slm.Rmd | 2 vignettes/si2_sct.Rmd | 318 +++++++++++++++++++++---------------------- 38 files changed, 549 insertions(+), 475 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 2.1.0 dated 2025-11-05 and 2.1.1 dated 2026-02-03
nuggets-2.1.0/nuggets/src/xsimd/arch/generic |only nuggets-2.1.0/nuggets/src/xsimd/arch/xsimd_generic.hpp |only nuggets-2.1.0/nuggets/src/xsimd/arch/xsimd_generic_fwd.hpp |only nuggets-2.1.0/nuggets/src/xsimd/types/xsimd_generic_arch.hpp |only nuggets-2.1.1/nuggets/DESCRIPTION | 21 nuggets-2.1.1/nuggets/MD5 | 424 +- nuggets-2.1.1/nuggets/NAMESPACE | 67 nuggets-2.1.1/nuggets/NEWS.md | 12 nuggets-2.1.1/nuggets/R/RcppExports.R | 4 nuggets-2.1.1/nuggets/R/add_interest-associations.R | 11 nuggets-2.1.1/nuggets/R/association_matrix.R | 10 nuggets-2.1.1/nuggets/R/bound_range.R | 3 nuggets-2.1.1/nuggets/R/cluster_associations.R | 37 nuggets-2.1.1/nuggets/R/dig.R | 108 nuggets-2.1.1/nuggets/R/dig_associations.R | 201 - nuggets-2.1.1/nuggets/R/dig_baseline_contrasts.R | 10 nuggets-2.1.1/nuggets/R/dig_complement_contrasts.R | 10 nuggets-2.1.1/nuggets/R/dig_correlations.R | 2 nuggets-2.1.1/nuggets/R/dig_grid.R | 2 nuggets-2.1.1/nuggets/R/dig_paired_baseline_contrasts.R | 3 nuggets-2.1.1/nuggets/R/dig_tautologies.R | 26 nuggets-2.1.1/nuggets/R/explore-associations.R | 23 nuggets-2.1.1/nuggets/R/fire.R | 3 nuggets-2.1.1/nuggets/R/format_condition.R | 3 nuggets-2.1.1/nuggets/R/geom_diamond.R | 3 nuggets-2.1.1/nuggets/R/is_almost_constant.R | 3 nuggets-2.1.1/nuggets/R/is_condition.R | 3 nuggets-2.1.1/nuggets/R/is_degree.R | 3 nuggets-2.1.1/nuggets/R/is_nugget.R | 9 nuggets-2.1.1/nuggets/R/is_subset.R | 3 nuggets-2.1.1/nuggets/R/nugget.R | 3 nuggets-2.1.1/nuggets/R/nuggets-package.R | 67 nuggets-2.1.1/nuggets/R/parse_condition.R | 3 nuggets-2.1.1/nuggets/R/partition.R | 13 nuggets-2.1.1/nuggets/R/remove_almost_constant.R | 3 nuggets-2.1.1/nuggets/R/remove_ill_conditions.R | 3 nuggets-2.1.1/nuggets/R/require_shiny.R |only nuggets-2.1.1/nuggets/R/shorten_condition.R | 3 nuggets-2.1.1/nuggets/R/ui-aboutTable.R | 28 nuggets-2.1.1/nuggets/R/ui-associationsClusterModule.R | 104 nuggets-2.1.1/nuggets/R/ui-associationsDetailModule.R | 54 nuggets-2.1.1/nuggets/R/ui-callDataTable.R | 2 nuggets-2.1.1/nuggets/R/ui-columnProjectionModule.R | 24 nuggets-2.1.1/nuggets/R/ui-conditionFilterModule.R | 46 nuggets-2.1.1/nuggets/R/ui-creationParamsTable.R | 16 nuggets-2.1.1/nuggets/R/ui-datatable2.R | 8 nuggets-2.1.1/nuggets/R/ui-exploreApp.R | 136 nuggets-2.1.1/nuggets/R/ui-filterTabPanel.R |only nuggets-2.1.1/nuggets/R/ui-highlightCondition.R | 2 nuggets-2.1.1/nuggets/R/ui-infoBox.R | 4 nuggets-2.1.1/nuggets/R/ui-infoTable.R | 10 nuggets-2.1.1/nuggets/R/ui-numericFilterModule.R | 46 nuggets-2.1.1/nuggets/R/ui-rulesTableModule.R | 8 nuggets-2.1.1/nuggets/R/ui-scatterFilterModule.R | 37 nuggets-2.1.1/nuggets/R/values.R | 3 nuggets-2.1.1/nuggets/R/var_grid.R | 2 nuggets-2.1.1/nuggets/R/var_names.R | 3 nuggets-2.1.1/nuggets/R/which_antichain.R | 10 nuggets-2.1.1/nuggets/README.md | 7 nuggets-2.1.1/nuggets/build/partial.rdb |binary nuggets-2.1.1/nuggets/build/vignette.rds |binary nuggets-2.1.1/nuggets/inst/COPYRIGHTS |only 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nuggets-2.1.1/nuggets/src/test-dig-FubitChain.cpp | 6 nuggets-2.1.1/nuggets/src/test-dig-Selector.cpp | 6 nuggets-2.1.1/nuggets/src/timer.h |only nuggets-2.1.1/nuggets/src/triangle.cpp | 2 nuggets-2.1.1/nuggets/src/which_antichain.cpp | 2 nuggets-2.1.1/nuggets/src/xsimd/arch/common |only nuggets-2.1.1/nuggets/src/xsimd/arch/xsimd_avx.hpp | 1189 ++++--- nuggets-2.1.1/nuggets/src/xsimd/arch/xsimd_avx2.hpp | 851 ++++- nuggets-2.1.1/nuggets/src/xsimd/arch/xsimd_avx512bw.hpp | 417 +- nuggets-2.1.1/nuggets/src/xsimd/arch/xsimd_avx512dq.hpp | 104 nuggets-2.1.1/nuggets/src/xsimd/arch/xsimd_avx512er.hpp |only nuggets-2.1.1/nuggets/src/xsimd/arch/xsimd_avx512f.hpp | 1445 ++++++--- nuggets-2.1.1/nuggets/src/xsimd/arch/xsimd_avx512ifma.hpp |only nuggets-2.1.1/nuggets/src/xsimd/arch/xsimd_avx512pf.hpp |only nuggets-2.1.1/nuggets/src/xsimd/arch/xsimd_avx512vbmi.hpp |only nuggets-2.1.1/nuggets/src/xsimd/arch/xsimd_avx512vbmi2.hpp |only 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nuggets-2.1.1/nuggets/src/xsimd/arch/xsimd_scalar.hpp | 524 +-- nuggets-2.1.1/nuggets/src/xsimd/arch/xsimd_sse2.hpp | 1095 +++++-- nuggets-2.1.1/nuggets/src/xsimd/arch/xsimd_sse3.hpp | 20 nuggets-2.1.1/nuggets/src/xsimd/arch/xsimd_sse4_1.hpp | 178 - nuggets-2.1.1/nuggets/src/xsimd/arch/xsimd_sse4_2.hpp | 4 nuggets-2.1.1/nuggets/src/xsimd/arch/xsimd_ssse3.hpp | 63 nuggets-2.1.1/nuggets/src/xsimd/arch/xsimd_sve.hpp | 367 +- nuggets-2.1.1/nuggets/src/xsimd/arch/xsimd_vsx.hpp |only nuggets-2.1.1/nuggets/src/xsimd/arch/xsimd_wasm.hpp | 749 +++- nuggets-2.1.1/nuggets/src/xsimd/config/xsimd_arch.hpp | 72 nuggets-2.1.1/nuggets/src/xsimd/config/xsimd_config.hpp | 143 nuggets-2.1.1/nuggets/src/xsimd/config/xsimd_cpuid.hpp | 251 + nuggets-2.1.1/nuggets/src/xsimd/config/xsimd_inline.hpp |only nuggets-2.1.1/nuggets/src/xsimd/math/xsimd_rem_pio2.hpp | 16 nuggets-2.1.1/nuggets/src/xsimd/memory/xsimd_aligned_allocator.hpp | 88 nuggets-2.1.1/nuggets/src/xsimd/memory/xsimd_alignment.hpp | 2 nuggets-2.1.1/nuggets/src/xsimd/types/xsimd_all_registers.hpp | 21 nuggets-2.1.1/nuggets/src/xsimd/types/xsimd_api.hpp | 742 +++- nuggets-2.1.1/nuggets/src/xsimd/types/xsimd_avx2_register.hpp | 6 nuggets-2.1.1/nuggets/src/xsimd/types/xsimd_avx512bw_register.hpp | 5 nuggets-2.1.1/nuggets/src/xsimd/types/xsimd_avx512cd_register.hpp | 5 nuggets-2.1.1/nuggets/src/xsimd/types/xsimd_avx512dq_register.hpp | 5 nuggets-2.1.1/nuggets/src/xsimd/types/xsimd_avx512er_register.hpp |only nuggets-2.1.1/nuggets/src/xsimd/types/xsimd_avx512f_register.hpp | 16 nuggets-2.1.1/nuggets/src/xsimd/types/xsimd_avx512ifma_register.hpp |only nuggets-2.1.1/nuggets/src/xsimd/types/xsimd_avx512pf_register.hpp |only nuggets-2.1.1/nuggets/src/xsimd/types/xsimd_avx512vbmi2_register.hpp |only nuggets-2.1.1/nuggets/src/xsimd/types/xsimd_avx512vbmi_register.hpp |only nuggets-2.1.1/nuggets/src/xsimd/types/xsimd_avx512vnni_avx512bw_register.hpp |only 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nuggets-2.1.1/nuggets/src/xsimd/types/xsimd_register.hpp | 4 nuggets-2.1.1/nuggets/src/xsimd/types/xsimd_rvv_register.hpp |only nuggets-2.1.1/nuggets/src/xsimd/types/xsimd_sse2_register.hpp | 6 nuggets-2.1.1/nuggets/src/xsimd/types/xsimd_sse3_register.hpp | 6 nuggets-2.1.1/nuggets/src/xsimd/types/xsimd_sse4_1_register.hpp | 6 nuggets-2.1.1/nuggets/src/xsimd/types/xsimd_sse4_2_register.hpp | 6 nuggets-2.1.1/nuggets/src/xsimd/types/xsimd_ssse3_register.hpp | 6 nuggets-2.1.1/nuggets/src/xsimd/types/xsimd_sve_register.hpp | 19 nuggets-2.1.1/nuggets/src/xsimd/types/xsimd_traits.hpp | 166 - nuggets-2.1.1/nuggets/src/xsimd/types/xsimd_utils.hpp | 127 nuggets-2.1.1/nuggets/src/xsimd/types/xsimd_vsx_register.hpp |only nuggets-2.1.1/nuggets/src/xsimd/types/xsimd_wasm_register.hpp | 6 nuggets-2.1.1/nuggets/src/xsimd/xsimd.hpp | 18 nuggets-2.1.1/nuggets/tests/testthat/helper-shiny.R |only nuggets-2.1.1/nuggets/tests/testthat/test-add_interest-associations.R | 9 nuggets-2.1.1/nuggets/tests/testthat/test-cluster_associations.R | 34 nuggets-2.1.1/nuggets/tests/testthat/test-dig.R | 1 nuggets-2.1.1/nuggets/tests/testthat/test-dig_associations.R | 194 - nuggets-2.1.1/nuggets/tests/testthat/test-dig_tautologies.R | 4 nuggets-2.1.1/nuggets/tests/testthat/test-partition.R | 8 nuggets-2.1.1/nuggets/tests/testthat/test-ui-aboutTable.R | 2 nuggets-2.1.1/nuggets/tests/testthat/test-ui-callDataTable.R | 2 nuggets-2.1.1/nuggets/tests/testthat/test-ui-callExtension.R | 14 nuggets-2.1.1/nuggets/tests/testthat/test-ui-conditionFilterModule.R | 16 nuggets-2.1.1/nuggets/tests/testthat/test-ui-creationParamsTable.R | 2 nuggets-2.1.1/nuggets/tests/testthat/test-ui-formatRulesForTable.R | 12 nuggets-2.1.1/nuggets/tests/testthat/test-ui-highlightCondition.R | 10 nuggets-2.1.1/nuggets/tests/testthat/test-ui-infoBox.R | 2 nuggets-2.1.1/nuggets/tests/testthat/test-ui-infoTable.R | 6 nuggets-2.1.1/nuggets/tests/testthat/test-ui-numericFilterModule.R | 11 nuggets-2.1.1/nuggets/tests/testthat/test-ui-rulebaseTable.R | 2 228 files changed, 10569 insertions(+), 5503 deletions(-)
Title: Testing Similarity Between Binary Datasets using
Jaccard/Tanimoto Coefficients
Description: Calculate statistical significance of Jaccard/Tanimoto similarity
coefficients.
Author: Neo Christopher Chung [aut, cre],
Blażej Miasojedow [aut],
Michal Startek [aut],
Anna Gambin [aut]
Maintainer: Neo Christopher Chung <nchchung@gmail.com>
This is a re-admission after prior archival of version 0.1.0 dated 2018-06-14
Diff between jaccard versions 0.1.0 dated 2018-06-14 and 0.1.2 dated 2026-02-03
DESCRIPTION | 43 ++++++++++++++++++++++++++++-------------- MD5 | 36 +++++++++++++++++++++-------------- NAMESPACE | 4 +++ R/RcppExports.R | 4 +-- R/jaccard.R | 8 +++++-- R/jaccard.rahman.R | 16 ++++++--------- R/jaccard.test.R | 14 ++++++------- R/runJaccardApp.R |only inst |only man/jaccard.Rd | 2 - man/jaccard.ev.Rd | 2 - man/jaccard.rahman.Rd | 14 +++++-------- man/jaccard.test.Rd | 7 ++---- man/jaccard.test.bootstrap.Rd | 12 +++++++++-- man/jaccard.test.mca.Rd | 11 ++++++++-- man/jaccard.test.pairwise.Rd | 11 +++++++--- man/runJaccardApp.Rd |only src/RcppExports.cpp | 5 ++++ 18 files changed, 120 insertions(+), 69 deletions(-)
Title: Transport Modeling: Network Processing, Route Enumeration, and
Traffic Assignment
Description: High-performance tools for transport modeling - network processing, route
enumeration, and traffic assignment in R. The package implements the Path-Sized Logit
model for traffic assignment - Ben-Akiva and Bierlaire (1999) <doi:10.1007/978-1-4615-5203-1_2> -
an efficient route enumeration algorithm, and provides powerful utility functions for (multimodal)
network generation, consolidation/contraction, and/or simplification. The user is expected to provide
a transport network (either a graph or collection of linestrings) and an origin-destination (OD)
matrix of trade/traffic flows. Maintained by transport consultants at CPCS (cpcs.ca).
Author: Sebastian Krantz [aut, cre],
Kamol Roy [ctb]
Maintainer: Sebastian Krantz <sebastian.krantz@graduateinstitute.ch>
Diff between flownet versions 0.1.1 dated 2026-01-27 and 0.1.2 dated 2026-02-03
DESCRIPTION | 6 +-- MD5 | 24 ++++++------- NEWS.md | 8 +++- R/assignment.R | 26 +++++++------- R/utils.R | 55 ++++++++++++++++-------------- README.md | 17 ++++++--- inst/doc/introduction.Rmd | 2 - inst/doc/introduction.html | 80 +++++++++------------------------------------ man/consolidate_graph.Rd | 24 ++++++------- man/flownet-package.Rd | 18 +++++----- man/run_assignment.Rd | 26 +++++++------- man/simplify_network.Rd | 4 +- vignettes/introduction.Rmd | 2 - 13 files changed, 134 insertions(+), 158 deletions(-)
Title: Cross-Validation for Linear and Ridge Regression Models
Description: Implements cross-validation methods for linear and ridge regression models. The package provides grid-based selection of the ridge penalty parameter using Singular Value Decomposition (SVD) and supports K-fold cross-validation, Leave-One-Out Cross-Validation (LOOCV), and Generalized Cross-Validation (GCV). Computations are implemented in C++ via 'RcppArmadillo' with optional parallelization using 'RcppParallel'. The methods are suitable for high-dimensional settings where the number of predictors exceeds the number of observations.
Author: Philip Nye [aut, cre]
Maintainer: Philip Nye <phipnye@proton.me>
Diff between cvLM versions 1.0.4 dated 2024-08-01 and 2.0.0 dated 2026-02-03
cvLM-1.0.4/cvLM/src/FUNScvLM.cpp |only cvLM-1.0.4/cvLM/src/FUNScvLM.h |only cvLM-1.0.4/cvLM/src/Main.cpp |only cvLM-1.0.4/cvLM/src/cvLM.cpp |only cvLM-1.0.4/cvLM/src/cvLM.h |only cvLM-1.0.4/cvLM/src/cvLMWorker.cpp |only cvLM-1.0.4/cvLM/src/cvLMWorker.h |only cvLM-1.0.4/cvLM/src/cvRidge.cpp |only cvLM-1.0.4/cvLM/src/cvRidge.h |only cvLM-1.0.4/cvLM/src/cvRidgeWorker.cpp |only cvLM-1.0.4/cvLM/src/cvRidgeWorker.h |only cvLM-2.0.0/cvLM/DESCRIPTION | 19 cvLM-2.0.0/cvLM/LICENSE | 4 cvLM-2.0.0/cvLM/MD5 | 71 ++- cvLM-2.0.0/cvLM/NAMESPACE | 7 cvLM-2.0.0/cvLM/NEWS.md |only cvLM-2.0.0/cvLM/R/RcppExports.R | 8 cvLM-2.0.0/cvLM/R/checks.R |only cvLM-2.0.0/cvLM/R/cvLM.R | 266 ++++++++---- cvLM-2.0.0/cvLM/R/data-utils.R |only cvLM-2.0.0/cvLM/R/grid.search.R | 145 ++++-- cvLM-2.0.0/cvLM/R/model-stats.R |only cvLM-2.0.0/cvLM/R/reg.table.R | 392 ++++++++---------- cvLM-2.0.0/cvLM/R/string-format.R |only cvLM-2.0.0/cvLM/README.md | 51 +- cvLM-2.0.0/cvLM/build/partial.rdb |binary cvLM-2.0.0/cvLM/man/cvLM-package.Rd | 167 +++++-- cvLM-2.0.0/cvLM/man/grid.search.Rd | 101 ++-- cvLM-2.0.0/cvLM/man/reg.table.Rd | 4 cvLM-2.0.0/cvLM/src/CV-Stochastic-Worker.h |only cvLM-2.0.0/cvLM/src/CV.h |only cvLM-2.0.0/cvLM/src/ClosedForm.cpp |only cvLM-2.0.0/cvLM/src/ClosedForm.h |only cvLM-2.0.0/cvLM/src/CompleteOrthogonalDecomposition.h |only cvLM-2.0.0/cvLM/src/ConstexprOptional.h |only cvLM-2.0.0/cvLM/src/DataLoader.cpp |only cvLM-2.0.0/cvLM/src/DataLoader.h |only cvLM-2.0.0/cvLM/src/Enums.h |only cvLM-2.0.0/cvLM/src/Grid-Deterministic-Worker.h |only cvLM-2.0.0/cvLM/src/Grid-Generator.cpp |only cvLM-2.0.0/cvLM/src/Grid-Generator.h |only cvLM-2.0.0/cvLM/src/Grid-LambdaCV.h |only cvLM-2.0.0/cvLM/src/Grid-Stochastic-Worker.h |only cvLM-2.0.0/cvLM/src/Grid.h |only cvLM-2.0.0/cvLM/src/Makevars | 11 cvLM-2.0.0/cvLM/src/Makevars.win | 10 cvLM-2.0.0/cvLM/src/RcppExports.cpp | 49 +- cvLM-2.0.0/cvLM/src/SingularValueDecomposition.h |only cvLM-2.0.0/cvLM/src/Utils-Data.h |only cvLM-2.0.0/cvLM/src/Utils-Decompositions.h |only cvLM-2.0.0/cvLM/src/Utils-Folds.cpp |only cvLM-2.0.0/cvLM/src/Utils-Folds.h |only cvLM-2.0.0/cvLM/src/Utils-Parallel.h |only cvLM-2.0.0/cvLM/src/main.cpp |only cvLM-2.0.0/cvLM/tests |only 55 files changed, 781 insertions(+), 524 deletions(-)
Title: Convert Gene IDs Between Each Other and Fetch Annotations from
Biomart
Description: Gene Symbols or Ensembl Gene IDs are converted using the Bimap interface in 'AnnotationDbi' in convertId2() but
that function is only provided as fallback mechanism for the most common use cases in data analysis. The main function
in the package is convert.bm() which queries BioMart using the full capacity of the API provided through the
'biomaRt' package. Presets and defaults are provided for convenience but all "marts", "filters" and "attributes"
can be set by the user. Function convert.alias() converts Gene Symbols to Aliases and vice versa and function likely_symbol()
attempts to determine the most likely current Gene Symbol.
Author: Vidal Fey [aut, cre],
Henrik Edgren [aut]
Maintainer: Vidal Fey <vidal.fey@gmail.com>
Diff between convertid versions 0.1.12 dated 2026-01-09 and 0.2.0 dated 2026-02-03
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/convertId2.R | 24 +++++++++++++++++++++--- man/todisp2.Rd | 28 +++++++++++++++++++++++++++- 4 files changed, 55 insertions(+), 11 deletions(-)
Title: qPCR Data Analysis
Description: Tools for qPCR data analysis using Delta Ct and Delta Delta Ct methods, including t-test, wilcox.test, ANOVA models, and publication-ready visualizations. The package supports multiple target, and multiple reference genes, and uses a calculation framework adopted from Ganger et al. (2017) <doi:10.1186/s12859-017-1949-5> and Taylor et al. (2019) <doi:10.1016/j.tibtech.2018.12.002>, covering both the Livak and Pfaffl methods.
Author: Ghader Mirzaghaderi [aut, cre, cph]
Maintainer: Ghader Mirzaghaderi <mirzaghaderi@gmail.com>
Diff between rtpcr versions 2.1.2 dated 2026-01-23 and 2.1.3 dated 2026-02-03
rtpcr-2.1.2/rtpcr/R/ANCOVA_DDCt.R |only rtpcr-2.1.2/rtpcr/R/REPEATED_DDCt.R |only rtpcr-2.1.2/rtpcr/man/ANCOVA_DDCt.Rd |only rtpcr-2.1.2/rtpcr/man/REPEATED_DDCt.Rd |only rtpcr-2.1.3/rtpcr/DESCRIPTION | 15 rtpcr-2.1.3/rtpcr/MD5 | 52 - rtpcr-2.1.3/rtpcr/NAMESPACE | 2 rtpcr-2.1.3/rtpcr/NEWS.md | 20 rtpcr-2.1.3/rtpcr/R/ANOVA_DCt.R | 354 +++++++-- rtpcr-2.1.3/rtpcr/R/ANOVA_DDCt.R | 359 ++++++++-- rtpcr-2.1.3/rtpcr/R/TTEST_DDCt.R | 21 rtpcr-2.1.3/rtpcr/R/WILCOX_DDCt.R | 20 rtpcr-2.1.3/rtpcr/R/compute_wDCt.R | 64 + rtpcr-2.1.3/rtpcr/R/globalVariables.R | 2 rtpcr-2.1.3/rtpcr/R/meanTech.R | 11 rtpcr-2.1.3/rtpcr/R/plotFactor.R | 2 rtpcr-2.1.3/rtpcr/R/qpcrhlpr.R | 535 +-------------- rtpcr-2.1.3/rtpcr/inst/doc/Manual.R | 13 rtpcr-2.1.3/rtpcr/inst/doc/Manual.Rmd | 89 +- rtpcr-2.1.3/rtpcr/inst/doc/Manual.html | 183 +++-- rtpcr-2.1.3/rtpcr/inst/extdata/data_2factorBlock3ref.csv | 48 - rtpcr-2.1.3/rtpcr/man/ANOVA_DCt.Rd | 112 ++- rtpcr-2.1.3/rtpcr/man/ANOVA_DDCt.Rd | 54 + rtpcr-2.1.3/rtpcr/man/TTEST_DDCt.Rd | 5 rtpcr-2.1.3/rtpcr/man/WILCOX_DDCt.Rd | 5 rtpcr-2.1.3/rtpcr/man/compute_wDCt.Rd | 11 rtpcr-2.1.3/rtpcr/man/meanTech.Rd | 15 rtpcr-2.1.3/rtpcr/man/plotFactor.Rd | 2 rtpcr-2.1.3/rtpcr/vignettes/Manual.Rmd | 89 +- 29 files changed, 1150 insertions(+), 933 deletions(-)
Title: Creation of Mock Observational Medical Outcomes Partnership
Common Data Model
Description: Creates mock data for testing and package development for the
Observational Medical Outcomes Partnership common data model. The
package offers functions crafted with pipeline-friendly
implementation, enabling users to effortlessly include only the
necessary tables for their testing needs.
Author: Mike Du [aut, cre] ,
Marti Catala [aut] ,
Edward Burn [aut] ,
Nuria Mercade-Besora [aut] ,
Xihang Chen [aut]
Maintainer: Mike Du <mike.du@ndorms.ox.ac.uk>
Diff between omock versions 0.6.0 dated 2025-10-31 and 0.6.1 dated 2026-02-03
omock-0.6.0/omock/vignettes/a01_Creating_synthetic_clinical_tables.R |only omock-0.6.0/omock/vignettes/a01_Creating_synthetic_clinical_tables.html |only omock-0.6.0/omock/vignettes/a02_Creating_synthetic_cohorts.R |only omock-0.6.0/omock/vignettes/a02_Creating_synthetic_cohorts.html |only omock-0.6.0/omock/vignettes/a03_Creating_a_synthetic_vocabulary.R |only omock-0.6.0/omock/vignettes/a03_Creating_a_synthetic_vocabulary.html |only omock-0.6.0/omock/vignettes/a04_Building_a_bespoke_mock_cdm.R |only omock-0.6.0/omock/vignettes/a04_Building_a_bespoke_mock_cdm.html |only omock-0.6.1/omock/DESCRIPTION | 6 omock-0.6.1/omock/MD5 | 84 +--- omock-0.6.1/omock/NEWS.md | 102 ++--- omock-0.6.1/omock/R/changeCdmVersion.R | 2 omock-0.6.1/omock/R/checkInputs.R | 17 omock-0.6.1/omock/R/checks.R | 108 ----- omock-0.6.1/omock/R/mockCdmFromTables.R | 4 omock-0.6.1/omock/R/mockCdmReference.R | 2 omock-0.6.1/omock/R/mockCohort.R | 5 omock-0.6.1/omock/R/mockConditionOccurrence.R | 17 omock-0.6.1/omock/R/mockDatasets.R | 143 ++++++- omock-0.6.1/omock/R/mockDeath.R | 4 omock-0.6.1/omock/R/mockDrugExposure.R | 7 omock-0.6.1/omock/R/mockMeasurement.R | 29 + omock-0.6.1/omock/R/mockObservation.R | 8 omock-0.6.1/omock/R/mockObservationPeriod.R | 5 omock-0.6.1/omock/R/mockPerson.R | 25 + omock-0.6.1/omock/R/mockProcedureOccurrence.R | 8 omock-0.6.1/omock/R/mockVisitOccurrence.R | 3 omock-0.6.1/omock/R/sysdata.rda |binary omock-0.6.1/omock/README.md | 12 omock-0.6.1/omock/build/vignette.rds |binary omock-0.6.1/omock/data/mockDatasets.rda |binary omock-0.6.1/omock/inst/doc/mock_from_tables.html | 49 +- omock-0.6.1/omock/inst/doc/synthetic_clinical_tables.html | 19 omock-0.6.1/omock/inst/doc/synthetic_cohorts.html | 5 omock-0.6.1/omock/inst/doc/synthetic_datasets.html | 196 +++++----- omock-0.6.1/omock/inst/doc/synthetic_vocabulary.html | 5 omock-0.6.1/omock/man/mockCdmFromTables.Rd | 4 omock-0.6.1/omock/man/mockCdmReference.Rd | 2 omock-0.6.1/omock/man/mockConditionOccurrence.Rd | 5 omock-0.6.1/omock/man/mockDeath.Rd | 4 omock-0.6.1/omock/man/mockDrugExposure.Rd | 4 omock-0.6.1/omock/man/mockMeasurement.Rd | 5 omock-0.6.1/omock/man/mockObservation.Rd | 4 omock-0.6.1/omock/man/mockObservationPeriod.Rd | 5 omock-0.6.1/omock/man/mockPerson.Rd | 4 omock-0.6.1/omock/man/mockProcedureOccurrence.Rd | 5 omock-0.6.1/omock/tests/testthat/test-mockMeasurement.R | 13 47 files changed, 478 insertions(+), 442 deletions(-)
Title: 'HiGHS' Optimization Solver
Description: R interface to 'HiGHS', an optimization solver for solving mixed integer
optimization problems with quadratic or linear objective and linear constraints.
Author: Florian Schwendinger [aut, cre],
Dirk Schumacher [aut],
Julian Hall [cph],
Ivet Galabova [cph],
Leona Gottwald [cph],
Michael Feldmeier [cph]
Maintainer: Florian Schwendinger <FlorianSchwendinger@gmx.at>
Diff between highs versions 1.12.0-1 dated 2025-11-24 and 1.12.0-2 dated 2026-02-03
highs-1.12.0-1/highs/inst/HiGHS/extern/filereaderlp |only highs-1.12.0-1/highs/inst/HiGHS/extern/zstr/README |only highs-1.12.0-1/highs/inst/HiGHS/highs/highs_bindings.cpp |only highs-1.12.0-1/highs/inst/HiGHS/highs/interfaces |only highs-1.12.0-1/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/SymScaling.cpp |only highs-1.12.0-1/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/SymScaling.h |only highs-1.12.0-2/highs/DESCRIPTION | 6 highs-1.12.0-2/highs/MD5 | 346 +++-- highs-1.12.0-2/highs/inst/HiGHS/CMakeLists.txt | 139 +- highs-1.12.0-2/highs/inst/HiGHS/HiGHS.sln |only highs-1.12.0-2/highs/inst/HiGHS/MODULE.bazel | 24 highs-1.12.0-2/highs/inst/HiGHS/README.md | 38 highs-1.12.0-2/highs/inst/HiGHS/THIRD_PARTY_NOTICES.md |only highs-1.12.0-2/highs/inst/HiGHS/cmake/FindCUDAConf.cmake | 2 highs-1.12.0-2/highs/inst/HiGHS/cmake/FindHipoDeps.cmake | 300 ++-- highs-1.12.0-2/highs/inst/HiGHS/cmake/README.md | 34 highs-1.12.0-2/highs/inst/HiGHS/cmake/cpp-highs.cmake | 36 highs-1.12.0-2/highs/inst/HiGHS/cmake/set-version.cmake | 2 highs-1.12.0-2/highs/inst/HiGHS/cmake/sources-python.cmake | 16 highs-1.12.0-2/highs/inst/HiGHS/cmake/sources.cmake | 88 + highs-1.12.0-2/highs/inst/HiGHS/extern/CLI11.hpp |only highs-1.12.0-2/highs/inst/HiGHS/extern/amd |only highs-1.12.0-2/highs/inst/HiGHS/extern/metis |only highs-1.12.0-2/highs/inst/HiGHS/extern/rcm |only highs-1.12.0-2/highs/inst/HiGHS/extern/zstr/LICENSE |only highs-1.12.0-2/highs/inst/HiGHS/highs/CMakeLists.txt | 33 highs-1.12.0-2/highs/inst/HiGHS/highs/Highs.h | 30 highs-1.12.0-2/highs/inst/HiGHS/highs/HighsRun.md |only highs-1.12.0-2/highs/inst/HiGHS/highs/highspy/__init__.py | 1 highs-1.12.0-2/highs/inst/HiGHS/highs/highspy/highs.py | 9 highs-1.12.0-2/highs/inst/HiGHS/highs/io/FilereaderLp.cpp | 4 highs-1.12.0-2/highs/inst/HiGHS/highs/io/HighsIO.cpp | 8 highs-1.12.0-2/highs/inst/HiGHS/highs/io/filereaderlp |only highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/IpxWrapper.cpp | 99 - highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/IpxWrapper.h | 3 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/auxiliary/Auxiliary.cpp | 23 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/auxiliary/Auxiliary.h | 29 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/auxiliary/IntConfig.h | 18 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/auxiliary/mycblas.h | 66 - highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/Analyse.cpp | 438 +++--- highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/Analyse.h | 29 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/CallAndTimeBlas.cpp | 88 - highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/CallAndTimeBlas.h | 2 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/CliqueStack.cpp |only highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/CliqueStack.h |only highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/DataCollector.cpp | 172 +- highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/DataCollector.h | 4 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/DenseFactHybrid.cpp | 44 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/DenseFactKernel.cpp | 32 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/FactorHiGHS.cpp | 8 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/FactorHiGHS.h | 15 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/Factorise.cpp | 240 +-- highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/Factorise.h | 21 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/FormatHandler.cpp | 7 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/FormatHandler.h | 11 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/HybridHybridFormatHandler.cpp | 66 - highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/HybridHybridFormatHandler.h | 12 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/HybridSolveHandler.cpp | 155 -- highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/HybridSolveHandler.h | 5 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/Numeric.cpp | 46 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/Numeric.h | 3 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/ReturnValues.h | 2 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/SolveHandler.cpp | 7 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/SolveHandler.h | 7 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/Swaps.cpp | 1 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/Symbolic.cpp | 29 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/Symbolic.h | 36 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/factorhighs/Timing.h | 68 + highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/ipm/FactorHiGHSSolver.cpp | 602 +++++---- highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/ipm/FactorHiGHSSolver.h | 35 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/ipm/Iterate.cpp | 308 ++-- highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/ipm/Iterate.h | 2 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/ipm/Model.cpp | 83 - highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/ipm/Model.h | 27 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/ipm/Options.h | 4 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/ipm/Parameters.h | 9 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/ipm/Solver.cpp | 67 - highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/ipm/Solver.h | 15 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/hipo/ipm/Status.h | 4 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/ipx/lp_solver.cc | 47 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/ipx/lp_solver.h | 6 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/ipx/lu_update.h | 2 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/ipx/maxvolume.h | 2 highs-1.12.0-2/highs/inst/HiGHS/highs/ipm/ipx/model.h | 2 highs-1.12.0-2/highs/inst/HiGHS/highs/lp_data/HConst.h | 17 highs-1.12.0-2/highs/inst/HiGHS/highs/lp_data/HStruct.h | 17 highs-1.12.0-2/highs/inst/HiGHS/highs/lp_data/Highs.cpp | 328 +---- highs-1.12.0-2/highs/inst/HiGHS/highs/lp_data/HighsCallbackStruct.h | 4 highs-1.12.0-2/highs/inst/HiGHS/highs/lp_data/HighsDeprecated.cpp | 51 highs-1.12.0-2/highs/inst/HiGHS/highs/lp_data/HighsIis.cpp | 27 highs-1.12.0-2/highs/inst/HiGHS/highs/lp_data/HighsIis.h | 8 highs-1.12.0-2/highs/inst/HiGHS/highs/lp_data/HighsInterface.cpp | 160 +- highs-1.12.0-2/highs/inst/HiGHS/highs/lp_data/HighsLpUtils.cpp | 25 highs-1.12.0-2/highs/inst/HiGHS/highs/lp_data/HighsLpUtils.h | 4 highs-1.12.0-2/highs/inst/HiGHS/highs/lp_data/HighsModelUtils.cpp | 2 highs-1.12.0-2/highs/inst/HiGHS/highs/lp_data/HighsOptions.cpp | 10 highs-1.12.0-2/highs/inst/HiGHS/highs/lp_data/HighsOptions.h | 39 highs-1.12.0-2/highs/inst/HiGHS/highs/lp_data/HighsSolution.cpp | 48 highs-1.12.0-2/highs/inst/HiGHS/highs/lp_data/HighsSolution.h | 3 highs-1.12.0-2/highs/inst/HiGHS/highs/meson.build | 35 highs-1.12.0-2/highs/inst/HiGHS/highs/mip/HighsCliqueTable.cpp | 356 ++--- highs-1.12.0-2/highs/inst/HiGHS/highs/mip/HighsCliqueTable.h | 3 highs-1.12.0-2/highs/inst/HiGHS/highs/mip/HighsDebugSol.cpp | 3 highs-1.12.0-2/highs/inst/HiGHS/highs/mip/HighsDomain.cpp | 88 - 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highs-1.12.0-2/highs/inst/HiGHS/highs/simplex/HEkk.cpp | 60 highs-1.12.0-2/highs/inst/HiGHS/highs/simplex/HEkk.h | 5 highs-1.12.0-2/highs/inst/HiGHS/highs/simplex/HEkkDebug.cpp | 27 highs-1.12.0-2/highs/inst/HiGHS/highs/simplex/HEkkDual.cpp | 2 highs-1.12.0-2/highs/inst/HiGHS/highs/simplex/HEkkPrimal.cpp | 29 highs-1.12.0-2/highs/inst/HiGHS/highs/simplex/SimplexStruct.h | 4 highs-1.12.0-2/highs/inst/HiGHS/highs/util/HighsUtils.h | 54 highs-1.12.0-2/highs/inst/HiGHS/meson.build | 1 highs-1.12.0-2/highs/inst/HiGHS/nuget/README.md | 2 highs-1.12.0-2/highs/inst/HiGHS/nuget/arm-toolchain.cmake | 2 highs-1.12.0-2/highs/inst/HiGHS/pyproject.toml | 1 highs-1.12.0-2/highs/inst/HiGHS/tests/test_highspy.py | 56 143 files changed, 4105 insertions(+), 2962 deletions(-)
Title: Create Elegant Data Visualisations Using the Grammar of Graphics
Description: A system for 'declaratively' creating graphics, based on "The
Grammar of Graphics". You provide the data, tell 'ggplot2' how to map
variables to aesthetics, what graphical primitives to use, and it
takes care of the details.
Author: Hadley Wickham [aut] ,
Winston Chang [aut] ,
Lionel Henry [aut],
Thomas Lin Pedersen [aut, cre] ,
Kohske Takahashi [aut],
Claus Wilke [aut] ,
Kara Woo [aut] ,
Hiroaki Yutani [aut] ,
Dewey Dunnington [aut] ,
Teun van den Brand [aut] ,
Posit, PBC [cph, [...truncated...]
Maintainer: Thomas Lin Pedersen <thomas.pedersen@posit.co>
Diff between ggplot2 versions 4.0.1 dated 2025-11-14 and 4.0.2 dated 2026-02-03
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 9 +++++++++ R/make-constructor.R | 7 +++++-- inst/doc/extending-ggplot2.html | 4 ++-- inst/doc/profiling.html | 6 +++--- 6 files changed, 27 insertions(+), 15 deletions(-)
Title: Evaluating Heterogeneous Treatment Effects
Description: Provides various statistical methods for evaluating heterogeneous treatment effects (HTE) in randomized experiments. The package includes tools to estimate uniform confidence bands for estimation of the group average treatment effect sorted by generic machine learning algorithms (GATES). It also provides the tools to identify a subgroup of individuals who are likely to benefit from a treatment the most "exceptional responders" or those who are harmed by it. Detailed reference in Imai and Li (2023) <doi:10.48550/arXiv.2310.07973>.
Author: Michael Lingzhi Li [aut, cre],
Kosuke Imai [aut],
Jialu Li [ctb]
Maintainer: Michael Lingzhi Li <mili@hbs.edu>
Diff between evalHTE versions 0.1.0 dated 2026-01-28 and 0.1.1 dated 2026-02-03
DESCRIPTION | 6 LICENSE | 4 MD5 | 44 - NAMESPACE | 86 +- NEWS.md | 10 R/hte_helpers.R | 216 +++--- R/hte_qoi.R | 272 ++++---- R/main.r | 64 +- README.md | 4 build/vignette.rds |binary inst/doc/ACIC2016.R | 610 +++++++++---------- inst/doc/ACIC2016.html | 1344 +++++++++++++++++++++--------------------- man/URATE.Rd | 78 +- man/compute_qoi.Rd | 32 - man/compute_qoi_user.Rd | 48 - man/estimate_hte.Rd | 128 ++-- man/evaluate_hte.Rd | 38 - man/plot.hte.Rd | 38 - man/plot_CI.hte.Rd | 42 - man/print.summary.hte.Rd | 38 - man/print.summary.test_hte.Rd | 38 - man/summary.hte.Rd | 46 - man/test_itr.Rd | 42 - 23 files changed, 1629 insertions(+), 1599 deletions(-)
Title: Distributional Random Forests
Description: An implementation of distributional random forests as introduced in Cevid & Michel & Naf & Meinshausen & Buhlmann (2022) <doi:10.48550/arXiv.2005.14458>.
Author: Jeffrey Naf [cre],
Loris Michel [aut],
Domagoj Cevid [aut]
Maintainer: Jeffrey Naf <jeffrey.naf@unige.ch>
Diff between drf versions 1.3.0 dated 2026-01-21 and 1.3.1 dated 2026-02-03
DESCRIPTION | 9 ++++----- MD5 | 10 +++++----- R/drf.R | 6 +++--- R/predict.R | 22 ++++++++++++---------- man/drf.Rd | 6 +++--- man/predict.drf.Rd | 22 ++++++++++++---------- 6 files changed, 39 insertions(+), 36 deletions(-)
Title: A Grammar of Data Manipulation
Description: A fast, consistent tool for working with data frame like
objects, both in memory and out of memory.
Author: Hadley Wickham [aut, cre] ,
Romain Francois [aut] ,
Lionel Henry [aut],
Kirill Mueller [aut] ,
Davis Vaughan [aut] ,
Posit Software, PBC [cph, fnd]
Maintainer: Hadley Wickham <hadley@posit.co>
Diff between dplyr versions 1.1.4 dated 2023-11-17 and 1.2.0 dated 2026-02-03
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Title: Estimation in Difference-in-Difference Designs with Multiple
Groups and Periods
Description: Estimation of heterogeneity-robust difference-in-differences estimators, with a binary, discrete, or continuous treatment, in designs where past treatments may affect the current outcome.
Author: Anzony Quispe [aut, cre],
Diego Ciccia [aut],
Felix Knau [aut],
Melitine Malezieux [aut],
Doulo Sow [aut],
Clement de Chaisemartin [aut]
Maintainer: Anzony Quispe <anzony.quispe@gmail.com>
Diff between DIDmultiplegtDYN versions 2.2.0 dated 2025-12-03 and 2.3.0 dated 2026-02-03
DIDmultiplegtDYN-2.2.0/DIDmultiplegtDYN/NEWS.md |only DIDmultiplegtDYN-2.2.0/DIDmultiplegtDYN/README.md |only DIDmultiplegtDYN-2.3.0/DIDmultiplegtDYN/DESCRIPTION | 18 DIDmultiplegtDYN-2.3.0/DIDmultiplegtDYN/MD5 | 35 DIDmultiplegtDYN-2.3.0/DIDmultiplegtDYN/NAMESPACE | 8 DIDmultiplegtDYN-2.3.0/DIDmultiplegtDYN/R/RcppExports.R |only DIDmultiplegtDYN-2.3.0/DIDmultiplegtDYN/R/cpp_helpers.R |only DIDmultiplegtDYN-2.3.0/DIDmultiplegtDYN/R/did_multiplegt_bootstrap.R | 112 DIDmultiplegtDYN-2.3.0/DIDmultiplegtDYN/R/did_multiplegt_by_path.R | 16 DIDmultiplegtDYN-2.3.0/DIDmultiplegtDYN/R/did_multiplegt_dyn.R | 2 DIDmultiplegtDYN-2.3.0/DIDmultiplegtDYN/R/did_multiplegt_dyn_by_check.R | 8 DIDmultiplegtDYN-2.3.0/DIDmultiplegtDYN/R/did_multiplegt_dyn_core.R | 3178 +++++----- DIDmultiplegtDYN-2.3.0/DIDmultiplegtDYN/R/did_multiplegt_dyn_design.R | 59 DIDmultiplegtDYN-2.3.0/DIDmultiplegtDYN/R/did_multiplegt_dyn_dfs.R | 16 DIDmultiplegtDYN-2.3.0/DIDmultiplegtDYN/R/did_multiplegt_dyn_normweights.R | 8 DIDmultiplegtDYN-2.3.0/DIDmultiplegtDYN/R/did_multiplegt_main.R | 2510 ++++--- DIDmultiplegtDYN-2.3.0/DIDmultiplegtDYN/R/did_save_sample.R | 4 DIDmultiplegtDYN-2.3.0/DIDmultiplegtDYN/R/polars_helpers.R |only DIDmultiplegtDYN-2.3.0/DIDmultiplegtDYN/R/zzz.R |only DIDmultiplegtDYN-2.3.0/DIDmultiplegtDYN/inst |only DIDmultiplegtDYN-2.3.0/DIDmultiplegtDYN/man/did_multiplegt_dyn.Rd | 2 DIDmultiplegtDYN-2.3.0/DIDmultiplegtDYN/src |only 22 files changed, 3378 insertions(+), 2598 deletions(-)
More information about DIDmultiplegtDYN at CRAN
Permanent link
Title: Phase I/II CRM Based Drug Combination Design
Description: Implements the adaptive designs for integrated phase I/II trials of drug combinations via continual reassessment method (CRM) to evaluate toxicity and efficacy simultaneously for each enrolled patient cohort based on Bayesian inference. It supports patients assignment guidance in a single trial using current enrolled data, as well as conducting extensive simulation studies to evaluate operating characteristics before the trial starts. It includes various link functions such as empiric, one-parameter logistic, two-parameter logistic, and hyperbolic tangent, as well as considering multiple prior distributions of the parameters like normal distribution, gamma distribution and exponential distribution to accommodate diverse clinical scenarios. Method using Bayesian framework with empiric link function is described in: Wages and Conaway (2014) <doi:10.1002/sim.6097>.
Author: Junying Wang [cre, aut],
Song Wu [aut],
Jie Yang [aut]
Maintainer: Junying Wang <junying.wang.dl@gmail.com>
Diff between crm12Comb versions 0.1.11 dated 2025-03-30 and 0.1.12 dated 2026-02-03
DESCRIPTION | 10 +++++----- MD5 | 5 +++-- inst/CITATION |only inst/doc/crm12Comb.html | 4 ++-- 4 files changed, 10 insertions(+), 9 deletions(-)
Title: Fast and Versatile Argument Checks
Description: Tests and assertions to perform frequent argument checks. A
substantial part of the package was written in C to minimize any worries
about execution time overhead.
Author: Michel Lang [cre, aut] ,
Bernd Bischl [ctb],
Denes Toth [ctb]
Maintainer: Michel Lang <michellang@gmail.com>
Diff between checkmate versions 2.3.3 dated 2025-08-18 and 2.3.4 dated 2026-02-03
DESCRIPTION | 8 - MD5 | 18 +-- NEWS.md | 3 README.md | 3 build/vignette.rds |binary inst/doc/checkmate.html | 237 ++++++++++++++++++++++++------------------------ inst/doc/tinytest.html | 4 src/checks.c | 3 src/helper.c | 13 ++ src/helper.h | 1 10 files changed, 157 insertions(+), 133 deletions(-)
Title: Estimate Brain Networks and Connectivity with Population-Derived
Priors
Description: Implements Bayesian brain mapping with population-derived priors,
including the original model described in Mejia et al. (2020)
<doi:10.1080/01621459.2019.1679638>, the model with spatial priors described
in Mejia et al. (2022) <doi:10.1080/10618600.2022.2104289>, and the model
with population-derived priors on functional connectivity described in Mejia
et al. (2025) <doi:10.1093/biostatistics/kxaf022>. Population-derived priors
are based on templates representing established brain network maps, for
example derived from independent component analysis (ICA), parcellations,
or other methods. Model estimation is based on expectation-maximization or
variational Bayes algorithms. Includes direct support for 'CIFTI', 'GIFTI',
and 'NIFTI' neuroimaging file formats.
Author: Amanda Mejia [aut, cre],
Damon Pham [aut] ,
Nohelia Da Silva [ctb]
Maintainer: Amanda Mejia <mandy.mejia@gmail.com>
Diff between BayesBrainMap versions 0.1.3 dated 2025-07-04 and 0.2.0 dated 2026-02-03
BayesBrainMap-0.1.3/BayesBrainMap/R/BrainMap.R |only BayesBrainMap-0.1.3/BayesBrainMap/R/BrainMap.methods.R |only BayesBrainMap-0.1.3/BayesBrainMap/R/EM_BrainMap.R |only BayesBrainMap-0.1.3/BayesBrainMap/R/VB_FCBrainMap.R |only BayesBrainMap-0.1.3/BayesBrainMap/R/engagements.R |only BayesBrainMap-0.1.3/BayesBrainMap/R/engagements.methods.R |only BayesBrainMap-0.1.3/BayesBrainMap/R/engagements_utils.R |only BayesBrainMap-0.1.3/BayesBrainMap/R/orthonorm.R |only BayesBrainMap-0.1.3/BayesBrainMap/man/EM_BrainMap.Rd |only BayesBrainMap-0.1.3/BayesBrainMap/man/UpdateThetaSQUAREM_BrainMap.Rd |only BayesBrainMap-0.1.3/BayesBrainMap/man/UpdateTheta_BrainMap.Rd |only BayesBrainMap-0.1.3/BayesBrainMap/man/VB_FCBrainMap.Rd |only BayesBrainMap-0.1.3/BayesBrainMap/man/estimate_prior_FC.Rd |only BayesBrainMap-0.2.0/BayesBrainMap/DESCRIPTION | 49 - BayesBrainMap-0.2.0/BayesBrainMap/MD5 | 122 +- BayesBrainMap-0.2.0/BayesBrainMap/NAMESPACE | 2 BayesBrainMap-0.2.0/BayesBrainMap/NEWS.md | 112 -- BayesBrainMap-0.2.0/BayesBrainMap/R/EM_BBM.R |only BayesBrainMap-0.2.0/BayesBrainMap/R/VB_FC_BBM.R |only BayesBrainMap-0.2.0/BayesBrainMap/R/aliases.R |only BayesBrainMap-0.2.0/BayesBrainMap/R/dual_reg2.R | 31 BayesBrainMap-0.2.0/BayesBrainMap/R/estimate_prior.R | 428 +++++---- BayesBrainMap-0.2.0/BayesBrainMap/R/estimate_prior.methods.R | 468 ++++++---- BayesBrainMap-0.2.0/BayesBrainMap/R/fit_BBM.R |only BayesBrainMap-0.2.0/BayesBrainMap/R/fit_BBM.methods.R |only BayesBrainMap-0.2.0/BayesBrainMap/R/id_engagements.R |only BayesBrainMap-0.2.0/BayesBrainMap/R/id_engagements.methods.R |only BayesBrainMap-0.2.0/BayesBrainMap/R/id_engagements_utils.R |only BayesBrainMap-0.2.0/BayesBrainMap/R/make_mesh.R | 4 BayesBrainMap-0.2.0/BayesBrainMap/R/utils.R | 2 BayesBrainMap-0.2.0/BayesBrainMap/README.md | 14 BayesBrainMap-0.2.0/BayesBrainMap/man/BrainMap.Rd | 248 ----- BayesBrainMap-0.2.0/BayesBrainMap/man/EM_BBM.spatial.Rd |only BayesBrainMap-0.2.0/BayesBrainMap/man/LL2_kappa.Rd | 2 BayesBrainMap-0.2.0/BayesBrainMap/man/LL_SQUAREM.Rd | 2 BayesBrainMap-0.2.0/BayesBrainMap/man/UpdateThetaSQUAREM_BBM.Rd |only BayesBrainMap-0.2.0/BayesBrainMap/man/UpdateTheta_BBM.Rd |only BayesBrainMap-0.2.0/BayesBrainMap/man/VB_FC_BBM.Rd |only BayesBrainMap-0.2.0/BayesBrainMap/man/add_str.Rd | 2 BayesBrainMap-0.2.0/BayesBrainMap/man/bdiag_m.Rd | 2 BayesBrainMap-0.2.0/BayesBrainMap/man/bdiag_m2.Rd | 2 BayesBrainMap-0.2.0/BayesBrainMap/man/compute_LL_std.Rd | 2 BayesBrainMap-0.2.0/BayesBrainMap/man/compute_R_inv.Rd | 4 BayesBrainMap-0.2.0/BayesBrainMap/man/compute_mu_s.Rd | 2 BayesBrainMap-0.2.0/BayesBrainMap/man/dual_reg2.Rd | 3 BayesBrainMap-0.2.0/BayesBrainMap/man/engagements.Rd | 66 - BayesBrainMap-0.2.0/BayesBrainMap/man/estimate.ESS.Rd | 2 BayesBrainMap-0.2.0/BayesBrainMap/man/estimate_prior.Rd | 4 BayesBrainMap-0.2.0/BayesBrainMap/man/estimate_prior_FC_Chol.Rd |only BayesBrainMap-0.2.0/BayesBrainMap/man/estimate_prior_FC_IW.Rd |only BayesBrainMap-0.2.0/BayesBrainMap/man/estimate_prior_FC_empirical.Rd |only BayesBrainMap-0.2.0/BayesBrainMap/man/estimate_prior_from_DR.Rd | 2 BayesBrainMap-0.2.0/BayesBrainMap/man/fit_BBM.Rd |only BayesBrainMap-0.2.0/BayesBrainMap/man/format_engagement_name.Rd | 4 BayesBrainMap-0.2.0/BayesBrainMap/man/id_engagements.Rd |only BayesBrainMap-0.2.0/BayesBrainMap/man/lik.Rd | 2 BayesBrainMap-0.2.0/BayesBrainMap/man/loglik_kappa_est.Rd | 2 BayesBrainMap-0.2.0/BayesBrainMap/man/make_Pmat.Rd | 2 BayesBrainMap-0.2.0/BayesBrainMap/man/orthonorm.Rd | 2 BayesBrainMap-0.2.0/BayesBrainMap/man/plot.bMap.cifti.Rd | 26 BayesBrainMap-0.2.0/BayesBrainMap/man/plot.bMap.matrix.Rd | 4 BayesBrainMap-0.2.0/BayesBrainMap/man/plot.bMap.nifti.Rd | 4 BayesBrainMap-0.2.0/BayesBrainMap/man/plot.bMap_eng.cifti.Rd | 17 BayesBrainMap-0.2.0/BayesBrainMap/man/plot.prior.cifti.Rd | 24 BayesBrainMap-0.2.0/BayesBrainMap/man/plot.prior.gifti.Rd | 28 BayesBrainMap-0.2.0/BayesBrainMap/man/plot.prior.nifti.Rd | 30 BayesBrainMap-0.2.0/BayesBrainMap/man/sqrt_XtX.Rd | 2 BayesBrainMap-0.2.0/BayesBrainMap/man/summary.bMap.cifti.Rd | 4 BayesBrainMap-0.2.0/BayesBrainMap/man/summary.bMap.matrix.Rd | 2 BayesBrainMap-0.2.0/BayesBrainMap/man/summary.bMap.nifti.Rd | 2 BayesBrainMap-0.2.0/BayesBrainMap/man/summary.bMap_eng.cifti.Rd | 4 BayesBrainMap-0.2.0/BayesBrainMap/man/summary.bMap_eng.matrix.Rd | 4 BayesBrainMap-0.2.0/BayesBrainMap/man/summary.bMap_eng.nifti.Rd | 4 BayesBrainMap-0.2.0/BayesBrainMap/man/update_A.Rd | 2 BayesBrainMap-0.2.0/BayesBrainMap/man/update_A_Chol.Rd | 2 BayesBrainMap-0.2.0/BayesBrainMap/man/update_S.Rd | 2 BayesBrainMap-0.2.0/BayesBrainMap/man/update_tau2.Rd | 2 77 files changed, 851 insertions(+), 899 deletions(-)
Title: Linear Models for Sequence Count Data
Description: Provides scalable generalized linear and mixed effects models tailored for sequence count data analysis (e.g., analysis of 16S or RNA-seq data). Uses Dirichlet-multinomial sampling to quantify uncertainty in relative abundance or relative expression conditioned on observed count data.
Implements scale models as a generalization of normalizations which account for uncertainty in scale (e.g., total abundances) as described in Nixon et al. (2025) <doi:10.1186/s13059-025-03609-3> and McGovern et al. (2025) <doi:10.1101/2025.08.05.668734>.
Author: Justin Silverman [aut, cre],
Greg Gloor [aut],
Kyle McGovern [aut, ctb]
Maintainer: Justin Silverman <JustinSilverman@psu.edu>
Diff between ALDEx3 versions 1.0.0 dated 2026-01-31 and 1.0.1 dated 2026-02-03
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/dirichlet.R | 2 -- tests/testthat/test-aldex-mem.R | 2 ++ 4 files changed, 8 insertions(+), 8 deletions(-)
Title: Downloads and Organizes Financial Data from Yahoo Finance
Description: Facilitates download of financial data from Yahoo Finance <https://finance.yahoo.com/>,
a vast repository of stock price data across multiple financial exchanges. The package offers a local caching system
and support for parallel computation.
Author: Marcelo Perlin [aut, cre],
Nic Crane [rev] for rOpenSci, see
<https://github.com/ropensci/software-review/issues/523>),
Alexander Fischer [rev] for
rOpenSci, see
<https://github.com/ropensci/software-review/issues/523>)
Maintainer: Marcelo Perlin <marceloperlin@gmail.com>
Diff between yfR versions 1.1.2 dated 2025-05-19 and 1.1.3 dated 2026-02-03
DESCRIPTION | 11 +-- MD5 | 24 +++---- NEWS.md | 6 + R/yf_get.R | 9 +- R/yf_get_index_components.R | 35 ++++------ inst/doc/diff-batchgetsymbols.html | 4 - inst/doc/getting-started.html | 61 +++++++++--------- inst/doc/using-collections.html | 9 +- inst/extdata/fallback-indices/DOW.rds |binary inst/extdata/fallback-indices/FTSE.rds |binary inst/extdata/fallback-indices/IBOV.rds |binary inst/extdata/fallback-indices/SP500.rds |binary inst/extdata/fallback-indices/testthat-collection.rds |binary 13 files changed, 84 insertions(+), 75 deletions(-)
Title: Extract and Tidy Canadian 'Hydrometric' Data
Description: Provides functions to access historical and real-time national 'hydrometric'
data from Water Survey of Canada data sources and then applies tidy data principles.
Author: Sam Albers [aut, cre, cph] ,
Province of British Columbia [cph] ,
Tula Foundation [cph] ,
David Hutchinson [ctb],
Dewey Dunnington [ctb],
Ryan Whaley [ctb],
Government of Canada [dtc],
Luke Winslow [rev] ,
Laura DeCicco [rev]
Maintainer: Sam Albers <sam.albers@gmail.com>
Diff between tidyhydat versions 0.7.2 dated 2025-10-23 and 1.0.0 dated 2026-02-03
tidyhydat-0.7.2/tidyhydat/tests/testthat/_snaps |only tidyhydat-1.0.0/tidyhydat/DESCRIPTION | 56 ++ tidyhydat-1.0.0/tidyhydat/LICENSE | 4 tidyhydat-1.0.0/tidyhydat/MD5 | 193 +++++---- tidyhydat-1.0.0/tidyhydat/NAMESPACE | 6 tidyhydat-1.0.0/tidyhydat/NEWS.md | 8 tidyhydat-1.0.0/tidyhydat/R/available-classes.R |only tidyhydat-1.0.0/tidyhydat/R/available.R |only tidyhydat-1.0.0/tidyhydat/R/base_url.R |only tidyhydat-1.0.0/tidyhydat/R/data.R | 54 +- tidyhydat-1.0.0/tidyhydat/R/download.R | 2 tidyhydat-1.0.0/tidyhydat/R/historical-webservice.R |only tidyhydat-1.0.0/tidyhydat/R/hy.R | 86 +--- tidyhydat-1.0.0/tidyhydat/R/hy_annual_stats.R | 20 - tidyhydat-1.0.0/tidyhydat/R/hy_daily.R | 12 tidyhydat-1.0.0/tidyhydat/R/hy_daily_flows.R | 46 +- tidyhydat-1.0.0/tidyhydat/R/hy_daily_levels.R | 44 +- tidyhydat-1.0.0/tidyhydat/R/hy_db.R | 14 tidyhydat-1.0.0/tidyhydat/R/hy_monthly_flows.R | 20 - tidyhydat-1.0.0/tidyhydat/R/hy_monthly_levels.R | 20 - tidyhydat-1.0.0/tidyhydat/R/hy_plot.R | 6 tidyhydat-1.0.0/tidyhydat/R/hy_sed_daily_loads.R | 14 tidyhydat-1.0.0/tidyhydat/R/hy_sed_daily_suscon.R | 16 tidyhydat-1.0.0/tidyhydat/R/hy_sed_monthly_loads.R | 20 - tidyhydat-1.0.0/tidyhydat/R/hy_sed_monthly_suscon.R | 20 - tidyhydat-1.0.0/tidyhydat/R/hy_sed_samples.R | 36 - tidyhydat-1.0.0/tidyhydat/R/hy_sed_samples_psd.R | 12 tidyhydat-1.0.0/tidyhydat/R/hy_stations.R | 42 +- tidyhydat-1.0.0/tidyhydat/R/realtime-webservice.R | 134 +----- tidyhydat-1.0.0/tidyhydat/R/realtime.R | 43 -- tidyhydat-1.0.0/tidyhydat/R/realtime_plot.R | 6 tidyhydat-1.0.0/tidyhydat/R/utils.R | 80 +++- tidyhydat-1.0.0/tidyhydat/R/webservice-classes.R |only tidyhydat-1.0.0/tidyhydat/R/zzz.R | 2 tidyhydat-1.0.0/tidyhydat/README.md | 195 +++++++--- tidyhydat-1.0.0/tidyhydat/build/partial.rdb |binary tidyhydat-1.0.0/tidyhydat/build/vignette.rds |binary tidyhydat-1.0.0/tidyhydat/data/allstations.rda |binary tidyhydat-1.0.0/tidyhydat/data/hy_data_symbols.rda |binary tidyhydat-1.0.0/tidyhydat/data/hy_data_types.rda |binary tidyhydat-1.0.0/tidyhydat/inst/doc/tidyhydat_an_introduction.Rmd | 136 +++++- tidyhydat-1.0.0/tidyhydat/inst/doc/tidyhydat_an_introduction.html | 184 ++++++--- tidyhydat-1.0.0/tidyhydat/inst/doc/tidyhydat_example_analysis.Rmd | 12 tidyhydat-1.0.0/tidyhydat/inst/doc/tidyhydat_example_analysis.html | 36 + tidyhydat-1.0.0/tidyhydat/inst/doc/tidyhydat_hydat_db.Rmd | 16 tidyhydat-1.0.0/tidyhydat/inst/doc/tidyhydat_hydat_db.html | 18 tidyhydat-1.0.0/tidyhydat/man/allstations.Rd | 22 - 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Title: Procedures for Psychological, Psychometric, and Personality
Research
Description: A general purpose toolbox developed originally for personality, psychometric theory and experimental psychology. Functions are primarily for multivariate analysis and scale construction using factor analysis, principal component analysis, cluster analysis and reliability analysis, although others provide basic descriptive statistics. Item Response Theory is done using factor analysis of tetrachoric and polychoric correlations. Functions for analyzing data at multiple levels include within and between group statistics, including correlations and factor analysis. Validation and cross validation of scales developed using basic machine learning algorithms are provided, as are functions for simulating and testing particular item and test structures. Several functions serve as a useful front end for structural equation modeling. Graphical displays of path diagrams, including mediation models, factor analysis and structural equation models are created using basic graphics. Some of the fu [...truncated...]
Author: William Revelle [aut, cre]
Maintainer: William Revelle <revelle@northwestern.edu>
Diff between psych versions 2.5.6 dated 2025-06-23 and 2.6.1 dated 2026-02-03
psych-2.5.6/psych/man/guttman.Rd |only psych-2.6.1/psych/DESCRIPTION | 8 - psych-2.6.1/psych/MD5 | 129 +++++++++++++----------- psych-2.6.1/psych/NAMESPACE | 17 ++- psych-2.6.1/psych/R/ED.r |only psych-2.6.1/psych/R/anova.psych.R | 146 ++++++++++++++++++---------- psych-2.6.1/psych/R/cfa.r |only psych-2.6.1/psych/R/cta.15.R | 2 psych-2.6.1/psych/R/cta.R | 2 psych-2.6.1/psych/R/diagram.R | 8 - psych-2.6.1/psych/R/error.bars.R | 5 psych-2.6.1/psych/R/error.bars.by.R | 14 +- psych-2.6.1/psych/R/fa.R | 61 ++++++++++- psych-2.6.1/psych/R/fa.parallel.R | 3 psych-2.6.1/psych/R/fa.pooled.r | 6 - psych-2.6.1/psych/R/fa.sort.R | 3 psych-2.6.1/psych/R/factor.congruence.R | 26 +++- psych-2.6.1/psych/R/factor.scores.R | 15 ++ psych-2.6.1/psych/R/factor.stats.R | 50 ++++++--- psych-2.6.1/psych/R/factor2cluster.R | 4 psych-2.6.1/psych/R/fsi.R |only psych-2.6.1/psych/R/lmCor.R | 24 +++- psych-2.6.1/psych/R/misc.R | 3 psych-2.6.1/psych/R/omega.R | 4 psych-2.6.1/psych/R/omega.diagram.R | 20 +++ psych-2.6.1/psych/R/omega.stats.r |only psych-2.6.1/psych/R/parse.R | 82 +++++++++++++++ psych-2.6.1/psych/R/principal.R | 2 psych-2.6.1/psych/R/print.psych.R | 13 +- psych-2.6.1/psych/R/print_psych.cfa.r |only psych-2.6.1/psych/R/residuals.psych.R | 3 psych-2.6.1/psych/R/scatter.hist.R | 23 ++++ psych-2.6.1/psych/R/score.alpha.r | 1 psych-2.6.1/psych/R/score.irt.r | 3 psych-2.6.1/psych/R/score.items.R | 3 psych-2.6.1/psych/R/score.multiple.choice.R | 6 - psych-2.6.1/psych/R/scoreOverlap.r | 8 + psych-2.6.1/psych/R/sim.circ.R | 1 psych-2.6.1/psych/R/sim.structural.R | 32 ++++-- psych-2.6.1/psych/R/summary.psych.R | 68 ++++++++++++- psych-2.6.1/psych/build/partial.rdb |binary psych-2.6.1/psych/build/vignette.rds |binary psych-2.6.1/psych/data/Harman_5.rda |only psych-2.6.1/psych/inst/CITATION | 4 psych-2.6.1/psych/inst/NEWS.Rd | 46 ++++++++ psych-2.6.1/psych/inst/doc/scoring.Rnw | 4 psych-2.6.1/psych/inst/doc/scoring.pdf |binary psych-2.6.1/psych/man/Harman.Rd | 15 +- psych-2.6.1/psych/man/Schmid.Leiman.Rd | 17 +++ psych-2.6.1/psych/man/bigCor.Rd | 25 ++++ psych-2.6.1/psych/man/cfa.Rd |only psych-2.6.1/psych/man/cluster.cor.Rd | 2 psych-2.6.1/psych/man/cta.Rd | 12 ++ psych-2.6.1/psych/man/error.bars.Rd | 7 + psych-2.6.1/psych/man/fa.Rd | 47 ++++++--- psych-2.6.1/psych/man/factor.scores.Rd | 23 ++-- psych-2.6.1/psych/man/factor.stats.Rd | 9 + psych-2.6.1/psych/man/fparse.Rd | 44 +++++++- psych-2.6.1/psych/man/fsi.Rd |only psych-2.6.1/psych/man/irt.responses.Rd | 4 psych-2.6.1/psych/man/lmCor.Rd | 37 ++++--- psych-2.6.1/psych/man/omegaStats.Rd |only psych-2.6.1/psych/man/scatter.hist.Rd | 2 psych-2.6.1/psych/man/schmid.Rd | 3 psych-2.6.1/psych/man/score.alpha.Rd | 4 psych-2.6.1/psych/man/score.irt.Rd | 21 ++-- psych-2.6.1/psych/man/score.items.Rd | 13 +- psych-2.6.1/psych/man/sim.Rd | 3 psych-2.6.1/psych/man/sim.irt.Rd | 8 + psych-2.6.1/psych/man/splitHalf.Rd |only psych-2.6.1/psych/vignettes/scoring.Rnw | 4 71 files changed, 856 insertions(+), 293 deletions(-)
Title: Simulate Package Installation and Attach
Description: Simulates the process of installing a package and then
attaching it. This is a key part of the 'devtools' package as it
allows you to rapidly iterate while developing a package.
Author: Hadley Wickham [aut],
Winston Chang [aut],
Jim Hester [aut],
Lionel Henry [aut, cre],
Posit Software, PBC [cph, fnd],
R Core team [ctb]
Maintainer: Lionel Henry <lionel@posit.co>
Diff between pkgload versions 1.4.1 dated 2025-09-23 and 1.5.0 dated 2026-02-03
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 5 +++++ R/source.R | 27 +++++++++++++++++++++++++++ 4 files changed, 38 insertions(+), 6 deletions(-)
Title: Bibtex Parser
Description: Utility to parse a bibtex file.
Author: Romain Francois [aut, cph] ,
Diego Hernangomez [aut] ,
James Joseph Balamuta [ctb, cre, aut] ,
Scott Chamberlain [ctb] ,
Kurt Hornik [ctb] ,
Brian Ripley [ctb] ,
Michael Koohafkan [ctb],
Mathew W. McLean [ctb]
Maintainer: James Joseph Balamuta <balamut2@illinois.edu>
Diff between bibtex versions 0.5.1 dated 2023-01-26 and 0.5.2 dated 2026-02-03
bibtex-0.5.1/bibtex/inst/NEWS.Rd |only bibtex-0.5.2/bibtex/DESCRIPTION | 37 +++++++------- bibtex-0.5.2/bibtex/MD5 | 26 +++++---- bibtex-0.5.2/bibtex/NEWS.md | 33 ++++++++++++ bibtex-0.5.2/bibtex/R/bibtex.R | 2 bibtex-0.5.2/bibtex/R/utils.R | 2 bibtex-0.5.2/bibtex/README.md | 2 bibtex-0.5.2/bibtex/inst/bib/issue_trailing_space.bib |only bibtex-0.5.2/bibtex/tests/testthat/_snaps/devel |only bibtex-0.5.2/bibtex/tests/testthat/_snaps/examples.md | 4 - bibtex-0.5.2/bibtex/tests/testthat/_snaps/full_xampl.md | 15 +++-- bibtex-0.5.2/bibtex/tests/testthat/_snaps/preamble.md | 4 - bibtex-0.5.2/bibtex/tests/testthat/test-examples.R | 8 ++- bibtex-0.5.2/bibtex/tests/testthat/test-full_xampl.R | 4 + bibtex-0.5.2/bibtex/tests/testthat/test-previous-issues.R | 14 +++++ 15 files changed, 103 insertions(+), 48 deletions(-)