Sun, 07 Sep 2025

Package XDNUTS updated to version 1.6.3 with previous version 1.6.1 dated 2025-08-24

Title: Discontinuous Hamiltonian Monte Carlo with Varying Trajectory Length
Description: Hamiltonian Monte Carlo for both continuous and discontinuous posterior distributions with a customizable trajectory length termination criterion. See Nishimura et al. (2020) <doi:10.1093/biomet/asz083> for the original Discontinuous Hamiltonian Monte Carlo; Hoffman et al. (2014) <doi:10.48550/arXiv.1111.4246> and Betancourt (2016) <doi:10.48550/arXiv.1601.00225> for the definition of possible Hamiltonian Monte Carlo termination criteria.
Author: Paolo Manildo [aut, cre]
Maintainer: Paolo Manildo <paolo.manildo@phd.unipd.it>

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Package wnl updated to version 0.8.4 with previous version 0.8.3 dated 2025-03-22

Title: Minimization Tool for Pharmacokinetic-Pharmacodynamic Data Analysis
Description: This is a set of minimization tools (maximum likelihood estimation and least square fitting) to solve examples in the Johan Gabrielsson and Dan Weiner's book "Pharmacokinetic and Pharmacodynamic Data Analysis - Concepts and Applications" 5th ed. (ISBN:9198299107). Examples include linear and nonlinear compartmental model, turn-over model, single or multiple dosing bolus/infusion/oral models, allometry, toxicokinetics, reversible metabolism, in-vitro/in-vivo extrapolation, enterohepatic circulation, metabolite modeling, Emax model, inhibitory model, tolerance model, oscillating response model, enantiomer interaction model, effect compartment model, drug-drug interaction model, receptor occupancy model, and rebound phenomena model.
Author: Kyun-Seop Bae [aut, cre, cph]
Maintainer: Kyun-Seop Bae <k@acr.kr>

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Package rticulate updated to version 2.2.0 with previous version 2.0.1 dated 2025-02-20

Title: Articulatory Data Processing in R
Description: A tool for processing Articulate Assistant Advanced™ (AAA) ultrasound tongue imaging data and Carstens AG500/1 electro-magnetic articulographic data.
Author: Stefano Coretta [aut, cre]
Maintainer: Stefano Coretta <stefano.coretta@gmail.com>

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Package psdr updated to version 1.0.3 with previous version 1.0.1 dated 2021-06-04

Title: Use Time Series to Generate and Compare Power Spectral Density
Description: Functions that allow you to generate and compare power spectral density (PSD) plots given time series data. Fast Fourier Transform (FFT) is used to take a time series data, analyze the oscillations, and then output the frequencies of these oscillations in the time series in the form of a PSD plot.Thus given a time series, the dominant frequencies in the time series can be identified. Additional functions in this package allow the dominant frequencies of multiple groups of time series to be compared with each other. To see example usage with the main functions of this package, please visit this site: <https://yhhc2.github.io/psdr/articles/Introduction.html>. The mathematical operations used to generate the PSDs are described in these sites: <https://www.mathworks.com/help/matlab/ref/fft.html>. <https://www.mathworks.com/help/signal/ug/power-spectral-density-estimates-using-fft.html>.
Author: Yong-Han Hank Cheng [aut, cre]
Maintainer: Yong-Han Hank Cheng <yhhc@uw.edu>

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Package EZFragility updated to version 2.0.1 with previous version 1.0.3 dated 2025-04-10

Title: Compute Neural Fragility for Ictal iEEG Time Series
Description: Provides tools to compute the neural fragility matrix from intracranial electrocorticographic (iEEG) recordings, enabling the analysis of brain dynamics during seizures. The package implements the method described by Li et al. (2017) <doi:10.23919/ACC.2017.7963378> and includes functions for data preprocessing ('Epoch'), fragility computation ('calcAdjFrag'), and visualization.
Author: Jiefei Wang [aut, cre] , Patrick Karas [aut], Anne-Cecile Lesage [aut] , Ioannis Malagaris [aut] , Oliver Zhou [aut], Liliana Camarillo Rodriguez [aut] , Sean O'Leary [aut] , Yuanyi Zhang [aut]
Maintainer: Jiefei Wang <szwjf08@gmail.com>

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Package crosstable updated to version 0.8.2 with previous version 0.8.1 dated 2024-11-01

Title: Crosstables for Descriptive Analyses
Description: Create descriptive tables for continuous and categorical variables. Apply summary statistics and counting function, with or without a grouping variable, and create beautiful reports using 'rmarkdown' or 'officer'. You can also compute effect sizes and statistical tests if needed.
Author: Dan Chaltiel [aut, cre] , David Hajage [ccp]
Maintainer: Dan Chaltiel <dan.chaltiel@gmail.com>

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Package AuxSurvey updated to version 1.1 with previous version 1.0 dated 2024-12-20

Title: Survey Analysis with Auxiliary Discretized Variables
Description: Probability surveys often use auxiliary continuous data from administrative records, but the utility of this data is diminished when it is discretized for confidentiality. We provide a set of survey estimators to make full use of information from the discretized variables. See Williams, S.Z., Zou, J., Liu, Y., Si, Y., Galea, S. and Chen, Q. (2024), Improving Survey Inference Using Administrative Records Without Releasing Individual-Level Continuous Data. Statistics in Medicine, 43: 5803-5813. <doi:10.1002/sim.10270> for details.
Author: Jungang Zou [aut, cre], Yutao Liu [aut], Sharifa Williams [aut], Qixuan Chen [aut]
Maintainer: Jungang Zou <jungang.zou@gmail.com>

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Package vaccine updated to version 1.3.1 with previous version 1.3.0 dated 2025-01-07

Title: Statistical Tools for Immune Correlates Analysis of Vaccine Clinical Trial Data
Description: Various semiparametric and nonparametric statistical tools for immune correlates analysis of vaccine clinical trial data. This includes calculation of summary statistics and estimation of risk, vaccine efficacy, controlled effects (controlled risk and controlled vaccine efficacy), and mediation effects (natural direct effect, natural indirect effect, proportion mediated). See Gilbert P, Fong Y, Kenny A, and Carone, M (2022) <doi:10.1093/biostatistics/kxac024> and Fay MP and Follmann DA (2023) <doi:10.48550/arXiv.2208.06465>.
Author: Avi Kenny [aut, cre]
Maintainer: Avi Kenny <avi.kenny@gmail.com>

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Package TSCI updated to version 3.0.5 with previous version 3.0.4 dated 2023-10-09

Title: Tools for Causal Inference with Possibly Invalid Instrumental Variables
Description: Two stage curvature identification with machine learning for causal inference in settings when instrumental variable regression is not suitable because of potentially invalid instrumental variables. Based on Guo and Buehlmann (2022) "Two Stage Curvature Identification with Machine Learning: Causal Inference with Possibly Invalid Instrumental Variables" <doi:10.48550/arXiv.2203.12808>. The vignette is available in Carl, Emmenegger, Bühlmann and Guo (2025) "TSCI: Two Stage Curvature Identification for Causal Inference with Invalid Instruments in R" <doi:10.18637/jss.v114.i07>.
Author: David Carl [aut, cre] , Corinne Emmenegger [aut] , Wei Yuan [aut], Mengchu Zheng [aut], Zijian Guo [aut]
Maintainer: David Carl <david.carl@phd.unibocconi.it>

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Package QTLRel updated to version 1.15 with previous version 1.14 dated 2023-08-08

Title: Tools for Mapping of Quantitative Traits of Genetically Related Individuals and Calculating Identity Coefficients from Pedigrees
Description: This software provides tools for quantitative trait mapping in populations such as advanced intercross lines where relatedness among individuals should not be ignored. It can estimate background genetic variance components, impute missing genotypes, simulate genotypes, perform a genome scan for putative quantitative trait loci (QTL), and plot mapping results. It also has functions to calculate identity coefficients from pedigrees, especially suitable for pedigrees that consist of a large number of generations, or estimate identity coefficients from genotypic data in certain circumstances.
Author: Riyan Cheng [aut, cre]
Maintainer: Riyan Cheng <riyancheng@hotmail.com>

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Package NeuroDataSets updated to version 0.2.0 with previous version 0.1.0 dated 2025-05-27

Title: A Comprehensive Collection of Neuroscience and Brain-Related Datasets
Description: Offers a rich and diverse collection of datasets focused on the brain, nervous system, and related disorders. The package includes clinical, experimental, neuroimaging, behavioral, cognitive, and simulated data on conditions such as Parkinson's disease, Alzheimer's, epilepsy, schizophrenia, gliomas, and mental health. Datasets cover structural and functional brain data, neurotransmission, gene expression, cognitive performance, and treatment outcomes. Designed for researchers, neuroscientists, clinicians, psychologists, data scientists, and students, this package facilitates exploratory data analysis, statistical modeling, and hypothesis testing in neuroscience and neuroepidemiology.
Author: Renzo Caceres Rossi [aut, cre]
Maintainer: Renzo Caceres Rossi <arenzocaceresrossi@gmail.com>

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Package Nematode updated to version 0.2.1 with previous version 0.2.0 dated 2025-08-20

Title: Ecological Indices Calculator for Nematode Communities
Description: Provides a computational toolkit for analyzing nematode communities in ecological studies. Includes methods to quantify nematode-based ecological indicators such as metabolic footprints, energy flow metrics, and community structure. These tools support assessments of soil health, ecosystem functioning, and trophic interactions, standardizing the use of nematodes as bioindicators.
Author: Yuxuan He [aut, cre, cph] , Dong Wang [ths, cph]
Maintainer: Yuxuan He <heyuxuan@henu.edu.cn>

Diff between Nematode versions 0.2.0 dated 2025-08-20 and 0.2.1 dated 2025-09-07

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Package mpactr updated to version 0.3.0 with previous version 0.2.1 dated 2025-03-28

Title: Correction of Preprocessed MS Data
Description: An 'R' implementation of the 'python' program Metabolomics Peak Analysis Computational Tool ('MPACT') (Robert M. Samples, Sara P. Puckett, and Marcy J. Balunas (2023) <doi:10.1021/acs.analchem.2c04632>). Filters in the package serve to address common errors in tandem mass spectrometry preprocessing, including: (1) isotopic patterns that are incorrectly split during preprocessing, (2) features present in solvent blanks due to carryover between samples, (3) features whose abundance is greater than user-defined abundance threshold in a specific group of samples, for example media blanks, (4) ions that are inconsistent between technical replicates, and (5) in-source fragment ions created during ionization before fragmentation in the tandem mass spectrometry workflow.
Author: Allison Mason [aut] , Gregory Johnson [aut] , Patrick Schloss [aut, cre, cph]
Maintainer: Patrick Schloss <pschloss@umich.edu>

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Package midr readmission to version 0.5.2 with previous version 0.5.1 dated 2025-08-27

Title: Learning from Black-Box Models by Maximum Interpretation Decomposition
Description: The goal of 'midr' is to provide a model-agnostic method for interpreting and explaining black-box predictive models by creating a globally interpretable surrogate model. The package implements 'Maximum Interpretation Decomposition' (MID), a functional decomposition technique that finds an optimal additive approximation of the original model. This approximation is achieved by minimizing the squared error between the predictions of the black-box model and the surrogate model. The theoretical foundations of MID are described in Iwasawa & Matsumori (2025) [Forthcoming], and the package itself is detailed in Asashiba et al. (2025) <doi:10.48550/arXiv.2506.08338>.
Author: Ryoichi Asashiba [aut, cre], Hirokazu Iwasawa [aut], Reiji Kozuma [ctb]
Maintainer: Ryoichi Asashiba <ryoichi.asashiba@gmail.com>

This is a re-admission after prior archival of version 0.5.1 dated 2025-08-27

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Package liver updated to version 1.21 with previous version 1.20 dated 2025-08-21

Title: Foundations Toolkit and Datasets for Data Science
Description: Provides a collection of helper functions and illustrative datasets to support learning and teaching of data science with R. The package is designed as a companion to the book <https://book-data-science-r.netlify.app>, making key data science techniques accessible to individuals with minimal coding experience. Functions include tools for data partitioning, performance evaluation, and data transformations (e.g., z-score and min-max scaling). The included datasets are curated to highlight practical applications in data exploration, modeling, and multivariate analysis. An early inspiration for the package came from an ancient Persian idiom about "eating the liver," symbolizing deep and immersive engagement with knowledge.
Author: Reza Mohammadi [aut, cre] , Kevin Burke [aut]
Maintainer: Reza Mohammadi <a.mohammadi@uva.nl>

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Package HuraultMisc updated to version 1.2.1 with previous version 1.1.1 dated 2021-09-06

Title: Guillem Hurault Functions' Library
Description: Contains various functions for data analysis, notably helpers and diagnostics for Bayesian modelling using Stan.
Author: Guillem Hurault [aut, cre]
Maintainer: Guillem Hurault <ghurault.dev@outlook.com>

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Package GenHMM1d updated to version 0.2.6 with previous version 0.2.1 dated 2025-03-13

Title: Goodness-of-Fit for Zero-Inflated Univariate Hidden Markov Models
Description: Inference, goodness-of-fit tests, and predictions for continuous and discrete univariate Hidden Markov Models (HMM), including zero-inflated distributions. The goodness-of-fit test is based on a Cramer-von Mises statistic and uses parametric bootstrap to estimate the p-value. The description of the methodology is taken from Nasri et al (2020) <doi:10.1029/2019WR025122>.
Author: Bouchra R. Nasri [aut, cre, cph], Mamadou Yamar Thioub [aut, cph], Bruno N. Remillard [aut, cph]
Maintainer: Bouchra R. Nasri <bouchra.nasri@umontreal.ca>

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Package DigestiveDataSets updated to version 0.2.0 with previous version 0.1.0 dated 2025-06-03

Title: A Curated Collection of Digestive System and Gastrointestinal Disease Datasets
Description: Provides an extensive and curated collection of datasets related to the digestive system, stomach, intestines, liver, pancreas, and associated diseases. This package includes clinical trials, observational studies, experimental datasets, cohort data, and case series involving gastrointestinal disorders such as gastritis, ulcers, pancreatitis, liver cirrhosis, colon cancer, colorectal conditions, Helicobacter pylori infection, irritable bowel syndrome, intestinal infections, and post-surgical outcomes. The datasets support educational, clinical, and research applications in gastroenterology, public health, epidemiology, and biomedical sciences. Designed for researchers, clinicians, data scientists, students, and educators interested in digestive diseases, the package facilitates reproducible analysis, modeling, and hypothesis testing using real-world and historical data.
Author: Renzo Caceres Rossi [aut, cre]
Maintainer: Renzo Caceres Rossi <arenzocaceresrossi@gmail.com>

Diff between DigestiveDataSets versions 0.1.0 dated 2025-06-03 and 0.2.0 dated 2025-09-07

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Package CompositionalRF updated to version 1.4 with previous version 1.3 dated 2025-07-10

Title: Multivariate Random Forest with Compositional Responses
Description: Multivariate random forests with compositional responses and Euclidean predictors is performed. The compositional data are first transformed using the additive log-ratio transformation, or the alpha-transformation of Tsagris, Preston and Wood (2011), <doi:10.48550/arXiv.1106.1451>, and then the multivariate random forest of Rahman R., Otridge J. and Pal R. (2017), <doi:10.1093/bioinformatics/btw765>, is applied.
Author: Michail Tsagris [aut, cre], Christos Adam [aut]
Maintainer: Michail Tsagris <mtsagris@uoc.gr>

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Package cocoon updated to version 0.2.1 with previous version 0.2.0 dated 2025-01-29

Title: Extract, Format, and Print Statistical Output
Description: Provides functions that format statistical output in a way that can be inserted into R Markdown documents. This is analogous to the apa_print() functions in the 'papaja' package but prints Markdown or LaTeX syntax.
Author: Jeffrey R. Stevens [aut, cre, cph]
Maintainer: Jeffrey R. Stevens <jeffrey.r.stevens@protonmail.com>

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Package bidux updated to version 0.3.1 with previous version 0.3.0 dated 2025-08-29

Title: Behavioral Insight Design: A Toolkit for Integrating Behavioral Science in UI/UX Design
Description: Provides a framework and toolkit to guide 'shiny' developers in implementing the Behavioral Insight Design (BID) framework. The package offers functions for documenting each of the five stages (Notice, Interpret, Structure, Anticipate, and Validate), along with a comprehensive concept dictionary.
Author: Jeremy Winget [aut, cre]
Maintainer: Jeremy Winget <contact@jrwinget.com>

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Package alone updated to version 0.7 with previous version 0.6 dated 2025-06-12

Title: Datasets from the Survival TV Series Alone
Description: A collection of datasets on the Alone survival TV series in tidy format. Included in the package are 4 datasets detailing the survivors, their loadouts, episode details and season information.
Author: Daniel Oehm [aut, cre], Carly Levitz [ctb]
Maintainer: Daniel Oehm <danieloehm@gmail.com>

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Package vismeteor updated to version 2.0.0 with previous version 1.8.5 dated 2024-01-16

Title: Analysis of Visual Meteor Data
Description: Provides a suite of analytical functionalities to process and analyze visual meteor observations from the Visual Meteor Database of the International Meteor Organization <https://www.imo.net/>.
Author: Janko Richter [aut, cre]
Maintainer: Janko Richter <janko@richtej.de>

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Package rcprd updated to version 0.0.2 with previous version 0.0.1 dated 2024-11-13

Title: Extraction and Management of Clinical Practice Research Datalink Data
Description: Simplify the process of extracting and processing Clinical Practice Research Datalink (CPRD) data in order to build datasets ready for statistical analysis. This process is difficult in 'R', as the raw data is very large and cannot be read into the R workspace. 'rcprd' utilises 'RSQLite' to create 'SQLite' databases which are stored on the hard disk. These are then queried to extract the required information for a cohort of interest, and create datasets ready for statistical analysis. The processes follow closely that from the 'rEHR' package, see Springate et al., (2017) <doi:10.1371/journal.pone.0171784>.
Author: Alexander Pate [aut, cre, cph]
Maintainer: Alexander Pate <alexander.pate@manchester.ac.uk>

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Package overshiny updated to version 0.2.0 with previous version 0.1.1 dated 2025-08-28

Title: Interactive Overlays on 'shiny' Plots
Description: Provides rectangular elements that can be dragged and resized over plots in 'shiny' apps. This may be useful in applications where users need to mark regions on the plot for further input or processing.
Author: Nick Davies [aut, cre, cph]
Maintainer: Nick Davies <nicholas.davies@lshtm.ac.uk>

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Package multilevelTools updated to version 0.2.1 with previous version 0.2.0 dated 2025-04-13

Title: Multilevel and Mixed Effects Model Diagnostics and Effect Sizes
Description: Effect sizes, diagnostics and performance metrics for multilevel and mixed effects models. Includes marginal and conditional 'R2' estimates for linear mixed effects models based on Johnson (2014) <doi:10.1111/2041-210X.12225>.
Author: Joshua F. Wiley [aut, cre]
Maintainer: Joshua F. Wiley <jwiley.psych@gmail.com>

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Package midr (with last version 0.5.1) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2025-08-27 0.5.1
2025-06-23 0.5.0

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Package translate.logit updated to version 1.0.2 with previous version 1.0 dated 2023-02-23

Title: Translation of Logit Regression Coefficients into Percentages
Description: Translation of logit models coefficients into percentages, following Deauvieau (2010) <doi:10.1177/0759106309352586>.
Author: Nicolas Robette [aut, cre]
Maintainer: Nicolas Robette <nicolas.robette@uvsq.fr>

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Package seqhandbook updated to version 0.1.2 with previous version 0.1.1 dated 2023-04-02

Title: Miscellaneous Tools for Sequence Analysis
Description: It provides miscellaneous sequence analysis functions for describing episodes in individual sequences, measuring association between domains in multidimensional sequence analysis (see Piccarreta (2017) <doi:10.1177/0049124115591013>), heat maps of sequence data, Globally Interdependent Multidimensional Sequence Analysis (see Robette et al (2015) <doi:10.1177/0081175015570976>), smoothing sequences for index plots (see Piccarreta (2012) <doi:10.1177/0049124112452394>), coding sequences for Qualitative Harmonic Analysis (see Deville (1982)), measuring stress from multidimensional scaling factors (see Piccarreta and Lior (2010) <doi:10.1111/j.1467-985X.2009.00606.x>), symmetrical (or canonical) Partial Least Squares (see Bry (1996)).
Author: Nicolas Robette [aut, cre]
Maintainer: Nicolas Robette <nicolas.robette@uvsq.fr>

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Package PulmoDataSets updated to version 0.2.0 with previous version 0.1.0 dated 2025-06-03

Title: A Curated Collection of Pulmonary and Respiratory Disease Datasets
Description: Provides a comprehensive and curated collection of datasets related to the lungs, respiratory system, and associated diseases. This package includes epidemiological, clinical, experimental, and simulated datasets on conditions such as lung cancer, asthma, Chronic Obstructive Pulmonary Disease (COPD), tuberculosis, whooping cough, pneumonia, influenza, and other respiratory illnesses. It is designed to support data exploration, statistical modeling, teaching, and research in pulmonary medicine, public health, environmental epidemiology, and respiratory disease surveillance.
Author: Renzo Caceres Rossi [aut, cre]
Maintainer: Renzo Caceres Rossi <arenzocaceresrossi@gmail.com>

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Package pmxcode updated to version 0.3.1 with previous version 0.3.0 dated 2025-04-12

Title: Create Pharmacometric Models
Description: Provides a user interface to create or modify pharmacometric models for various modeling and simulation software platforms.
Author: Sebastien Bihorel [cre, aut]
Maintainer: Sebastien Bihorel <sb.pmlab@gmail.com>

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Package PAFit updated to version 1.2.11 with previous version 1.2.10 dated 2024-03-28

Title: Generative Mechanism Estimation in Temporal Complex Networks
Description: Statistical methods for estimating preferential attachment and node fitness generative mechanisms in temporal complex networks are provided. Thong Pham et al. (2015) <doi:10.1371/journal.pone.0137796>. Thong Pham et al. (2016) <doi:10.1038/srep32558>. Thong Pham et al. (2020) <doi:10.18637/jss.v092.i03>. Thong Pham et al. (2021) <doi:10.1093/comnet/cnab024>.
Author: Thong Pham [aut, cre], Paul Sheridan [aut], Hidetoshi Shimodaira [aut]
Maintainer: Thong Pham <thongphamthe@gmail.com>

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Package implicitMeasures (with last version 0.3.1) was removed from CRAN

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Sat, 06 Sep 2025

Package sidra updated to version 0.1.9 with previous version 0.1.7 dated 2025-08-27

Title: Acesso aos Dados do 'SIDRA' do IBGE
Description: Functions for accessing and manipulating data from Brazilian Institute of Geography and Statistics (IBGE)'s API 'SIDRA' (acronym for IBGE System of Automatic Retrieval) from the new endpoints at <https://servicodados.ibge.gov.br/api/docs/agregados?versao=3>. Ferramentas para acessar e manipular dados via API do Sistema IBGE De Recuperação Automática 'SIDRA' do Instituto Brasileiro de Geografia e Estatística (IBGE).
Author: Rodrigo Emmanuel Santana Borges [cre, aut, cph]
Maintainer: Rodrigo Emmanuel Santana Borges <rodrigo@borges.net.br>

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Package truncSP (with last version 1.2.2) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

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Package VCA updated to version 1.5.2 with previous version 1.5.1 dated 2024-03-07

Title: Variance Component Analysis
Description: ANOVA and REML estimation of linear mixed models is implemented, once following Searle et al. (1991, ANOVA for unbalanced data), once making use of the 'lme4' package. The primary objective of this package is to perform a variance component analysis (VCA) according to CLSI EP05-A3 guideline "Evaluation of Precision of Quantitative Measurement Procedures" (2014). There are plotting methods for visualization of an experimental design, plotting random effects and residuals. For ANOVA type estimation two methods for computing ANOVA mean squares are implemented (SWEEP and quadratic forms). The covariance matrix of variance components can be derived, which is used in estimating confidence intervals. Linear hypotheses of fixed effects and LS means can be computed. LS means can be computed at specific values of covariables and with custom weighting schemes for factor variables. See ?VCA for a more comprehensive description of the features.
Author: Andre Schuetzenmeister [aut, cre] , Florian Dufey [aut]
Maintainer: Andre Schuetzenmeister <andre.schuetzenmeister@roche.com>

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Package usethis updated to version 3.2.1 with previous version 3.2.0 dated 2025-08-27

Title: Automate Package and Project Setup
Description: Automate package and project setup tasks that are otherwise performed manually. This includes setting up unit testing, test coverage, continuous integration, Git, 'GitHub', licenses, 'Rcpp', 'RStudio' projects, and more.
Author: Hadley Wickham [aut] , Jennifer Bryan [aut, cre] , Malcolm Barrett [aut] , Andy Teucher [aut] , Posit Software, PBC [cph, fnd]
Maintainer: Jennifer Bryan <jenny@posit.co>

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Package trade updated to version 0.8.3 with previous version 0.8.1 dated 2022-08-24

Title: Tools for Trade Practitioners
Description: A collection of tools for trade practitioners, including the ability to calibrate different consumer demand systems and simulate the effects of tariffs and quotas under different competitive regimes. These tools are derived from Anderson et al. (2001) <doi:10.1016/S0047-2727(00)00085-2> and Froeb et al. (2003) <doi:10.1016/S0304-4076(02)00166-5>.
Author: Charles Taragin [aut, cre]
Maintainer: Charles Taragin <ctaragin+trader@gmail.com>

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Package TidyDensity updated to version 1.5.2 with previous version 1.5.1 dated 2025-07-23

Title: Functions for Tidy Analysis and Generation of Random Data
Description: To make it easy to generate random numbers based upon the underlying stats distribution functions. All data is returned in a tidy and structured format making working with the data simple and straight forward. Given that the data is returned in a tidy 'tibble' it lends itself to working with the rest of the 'tidyverse'.
Author: Steven Sanderson [aut, cre, cph]
Maintainer: Steven Sanderson <spsanderson@gmail.com>

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Package tfrmt updated to version 0.2.0 with previous version 0.1.3 dated 2024-10-15

Title: Applies Display Metadata to Analysis Results Datasets
Description: Creates a framework to store and apply display metadata to Analysis Results Datasets (ARDs). The use of 'tfrmt' allows users to define table format and styling without the data, and later apply the format to the data.
Author: Becca Krouse [aut, cre], Christina Fillmore [aut] , Ellis Hughes [aut] , Karima Ahmad [aut] , Shannon Haughton [aut], Dragoș Moldovan-Gruenfeld [aut], GlaxoSmithKline Research & Development Limited [cph, fnd], Atorus Research LLC [cph, fnd]
Maintainer: Becca Krouse <becca.z.krouse@gsk.com>

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Package spm updated to version 1.2.3 with previous version 1.2.2 dated 2022-05-06

Title: Spatial Predictive Modeling
Description: Introduction to some novel accurate hybrid methods of geostatistical and machine learning methods for spatial predictive modelling. It contains two commonly used geostatistical methods, two machine learning methods, four hybrid methods and two averaging methods. For each method, two functions are provided. One function is for assessing the predictive errors and accuracy of the method based on cross-validation. The other one is for generating spatial predictions using the method. For details please see: Li, J., Potter, A., Huang, Z., Daniell, J. J. and Heap, A. (2010) <https://ecat.ga.gov.au/geonetwork/srv/eng/catalog.search#/metadata/71407> Li, J., Heap, A. D., Potter, A., Huang, Z. and Daniell, J. (2011) <doi:10.1016/j.csr.2011.05.015> Li, J., Heap, A. D., Potter, A. and Daniell, J. (2011) <doi:10.1016/j.envsoft.2011.07.004> Li, J., Potter, A., Huang, Z. and Heap, A. (2012) <https://ecat.ga.gov.au/geonetwork/srv/eng/catalog.search#/metadata/74030>.
Author: Jin Li [aut, cre]
Maintainer: Jin Li <jinli68@gmail.com>

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Package spatialreg updated to version 1.4-2 with previous version 1.4-1 dated 2025-09-04

Title: Spatial Regression Analysis
Description: A collection of all the estimation functions for spatial cross-sectional models (on lattice/areal data using spatial weights matrices) contained up to now in 'spdep'. These model fitting functions include maximum likelihood methods for cross-sectional models proposed by 'Cliff' and 'Ord' (1973, ISBN:0850860369) and (1981, ISBN:0850860814), fitting methods initially described by 'Ord' (1975) <doi:10.1080/01621459.1975.10480272>. The models are further described by 'Anselin' (1988) <doi:10.1007/978-94-015-7799-1>. Spatial two stage least squares and spatial general method of moment models initially proposed by 'Kelejian' and 'Prucha' (1998) <doi:10.1023/A:1007707430416> and (1999) <doi:10.1111/1468-2354.00027> are provided. Impact methods and MCMC fitting methods proposed by 'LeSage' and 'Pace' (2009) <doi:10.1201/9781420064254> are implemented for the family of cross-sectional spatial regression models. Methods for fitting the log determinant term in maximu [...truncated...]
Author: Roger Bivand [cre, aut] , Gianfranco Piras [aut], Luc Anselin [ctb], Andrew Bernat [ctb], Eric Blankmeyer [ctb], Yongwan Chun [ctb], Virgilio Gomez-Rubio [ctb], Daniel Griffith [ctb], Martin Gubri [ctb], Rein Halbersma [ctb], James LeSage [ctb], Ange [...truncated...]
Maintainer: Roger Bivand <Roger.Bivand@nhh.no>

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Package rice updated to version 1.4.0 with previous version 1.3.0 dated 2025-07-24

Title: Radiocarbon Equations
Description: Provides functions for the calibration of radiocarbon dates, as well as options to calculate different radiocarbon timescales (C14 age, F14C, pMC, D14C) and estimating the effects of contamination or local reservoir offsets (Reimer and Reimer 2001 <doi:10.1017/S0033822200038339>). The methods follow long-established recommendations such as Stuiver and Polach (1977) <doi:10.1017/S0033822200003672> and Reimer et al. (2004) <doi:10.1017/S0033822200033154>. This package uses the calibration curves from the data package 'rintcal'.
Author: Maarten Blaauw [aut, cre]
Maintainer: Maarten Blaauw <maarten.blaauw@qub.ac.uk>

Diff between rice versions 1.3.0 dated 2025-07-24 and 1.4.0 dated 2025-09-06

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Package reclin2 updated to version 0.6.0 with previous version 0.5.0 dated 2024-02-09

Title: Record Linkage Toolkit
Description: Functions to assist in performing probabilistic record linkage and deduplication: generating pairs, comparing records, em-algorithm for estimating m- and u-probabilities (I. Fellegi & A. Sunter (1969) <doi:10.1080/01621459.1969.10501049>, T.N. Herzog, F.J. Scheuren, & W.E. Winkler (2007), "Data Quality and Record Linkage Techniques", ISBN:978-0-387-69502-0), forcing one-to-one matching. Can also be used for pre- and post-processing for machine learning methods for record linkage. Focus is on memory, CPU performance and flexibility.
Author: Jan van der Laan [aut, cre]
Maintainer: Jan van der Laan <r@eoos.dds.nl>

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Package pre updated to version 1.0.8 with previous version 1.0.7 dated 2024-01-12

Title: Prediction Rule Ensembles
Description: Derives prediction rule ensembles (PREs). Largely follows the procedure for deriving PREs as described in Friedman & Popescu (2008; <DOI:10.1214/07-AOAS148>), with adjustments and improvements described in Fokkema (2020; <DOI:10.18637/jss.v092.i12>) and Fokkema & Strobl (2020; <DOI:10.1037/met0000256>). The main function pre() derives prediction rule ensembles consisting of rules and/or linear terms for continuous, binary, count, multinomial, survival and multivariate continuous responses. Function gpe() derives generalized prediction ensembles, consisting of rules, hinge and linear functions of the predictor variables.
Author: Marjolein Fokkema [aut, cre], Benjamin Christoffersen [aut]
Maintainer: Marjolein Fokkema <m.fokkema@fsw.leidenuniv.nl>

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Package phylopath updated to version 1.3.1 with previous version 1.3.0 dated 2024-06-11

Title: Perform Phylogenetic Path Analysis
Description: A comprehensive and easy to use R implementation of confirmatory phylogenetic path analysis as described by Von Hardenberg and Gonzalez-Voyer (2012) <doi:10.1111/j.1558-5646.2012.01790.x>.
Author: Wouter van der Bijl [aut, cre]
Maintainer: Wouter van der Bijl <wouter@zoology.ubc.ca>

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Package pharmaverseadam updated to version 1.2.0 with previous version 1.1.0 dated 2024-10-25

Title: ADaM Test Data for the 'Pharmaverse' Family of Packages
Description: A set of Analysis Data Model (ADaM) datasets constructed using the Study Data Tabulation Model (SDTM) datasets contained in the 'pharmaversesdtm' package and the template scripts from the 'admiral' family of packages. ADaM dataset specifications are described in the CDISC ADaM implementation guide, accessible by creating a free account on <https://www.cdisc.org/>.
Author: Fanny Gautier [aut, cre] , Stefan Bundfuss [aut] , Edoardo Mancini [aut] , Lina Patil [aut], Vladyslav Shuliar [aut] , Cytel Inc. [cph, fnd], F. Hoffmann-La Roche AG [cph, fnd], GlaxoSmithKline LLC [cph, fnd]
Maintainer: Fanny Gautier <fanny.gautier@cytel.com>

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Package misty updated to version 0.7.5 with previous version 0.7.4 dated 2025-08-18

Title: Miscellaneous Functions 'T. Yanagida'
Description: Miscellaneous functions for (1) data handling (e.g., grand-mean and group-mean centering, coding variables and reverse coding items, scale and cluster scores, reading and writing Excel and SPSS files), (2) descriptive statistics (e.g., frequency table, cross tabulation, effect size measures), (3) missing data (e.g., descriptive statistics for missing data, missing data pattern, Little's test of Missing Completely at Random, and auxiliary variable analysis), (4) multilevel data (e.g., multilevel descriptive statistics, within-group and between-group correlation matrix, multilevel confirmatory factor analysis, level-specific fit indices, cross-level measurement equivalence evaluation, multilevel composite reliability, and multilevel R-squared measures), (5) item analysis (e.g., confirmatory factor analysis, coefficient alpha and omega, between-group and longitudinal measurement equivalence evaluation), (6) statistical analysis (e.g., bootstrap confidence intervals, collinearity and resid [...truncated...]
Author: Takuya Yanagida [aut, cre]
Maintainer: Takuya Yanagida <takuya.yanagida@univie.ac.at>

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Package mirt updated to version 1.45.1 with previous version 1.44.0 dated 2025-01-28

Title: Multidimensional Item Response Theory
Description: Analysis of discrete response data using unidimensional and multidimensional item analysis models under the Item Response Theory paradigm (Chalmers (2012) <doi:10.18637/jss.v048.i06>). Exploratory and confirmatory item factor analysis models are estimated with quadrature (EM) or stochastic (MHRM) methods. Confirmatory bi-factor and two-tier models are available for modeling item testlets using dimension reduction EM algorithms, while multiple group analyses and mixed effects designs are included for detecting differential item, bundle, and test functioning, and for modeling item and person covariates. Finally, latent class models such as the DINA, DINO, multidimensional latent class, mixture IRT models, and zero-inflated response models are supported, as well as a wide family of probabilistic unfolding models.
Author: Phil Chalmers [aut, cre] , Joshua Pritikin [ctb], Alexander Robitzsch [ctb], Mateusz Zoltak [ctb], KwonHyun Kim [ctb], Carl F. Falk [ctb], Adam Meade [ctb], Lennart Schneider [ctb], David King [ctb], Chen-Wei Liu [ctb], Ogreden Oguzhan [ctb]
Maintainer: Phil Chalmers <rphilip.chalmers@gmail.com>

Diff between mirt versions 1.44.0 dated 2025-01-28 and 1.45.1 dated 2025-09-06

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Package JWileymisc updated to version 1.4.4 with previous version 1.4.3 dated 2025-04-13

Title: Miscellaneous Utilities and Functions
Description: Miscellaneous tools and functions, including: generate descriptive statistics tables, format output, visualize relations among variables or check distributions, and generic functions for residual and model diagnostics.
Author: Joshua F. Wiley [aut, cre]
Maintainer: Joshua F. Wiley <jwiley.psych@gmail.com>

Diff between JWileymisc versions 1.4.3 dated 2025-04-13 and 1.4.4 dated 2025-09-06

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Package deepregression updated to version 2.3.2 with previous version 2.3.1 dated 2025-09-01

Title: Fitting Deep Distributional Regression
Description: Allows for the specification of semi-structured deep distributional regression models which are fitted in a neural network as proposed by Ruegamer et al. (2023) <doi:10.18637/jss.v105.i02>. Predictors can be modeled using structured (penalized) linear effects, structured non-linear effects or using an unstructured deep network model.
Author: David Ruegamer [aut, cre], Christopher Marquardt [ctb], Laetitia Frost [ctb], Florian Pfisterer [ctb], Philipp Baumann [ctb], Chris Kolb [ctb], Lucas Kook [ctb]
Maintainer: David Ruegamer <david.ruegamer@gmail.com>

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Fri, 05 Sep 2025

Package CardioDataSets updated to version 0.2.0 with previous version 0.1.0 dated 2025-05-13

Title: A Comprehensive Collection of Cardiovascular and Heart Disease Datasets
Description: Offers a diverse collection of datasets focused on cardiovascular and heart disease research, including heart failure, myocardial infarction, aortic dissection, transplant outcomes, cardiovascular risk factors, drug efficacy, and mortality trends. Designed for researchers, clinicians, epidemiologists, and data scientists, the package features clinical, epidemiological, and simulated datasets covering a wide range of conditions and treatments such as statins, anticoagulants, and beta blockers. It supports analyses related to disease progression, treatment effects, rehospitalization, and public health outcomes across various cardiovascular patient populations.
Author: Renzo Caceres Rossi [aut, cre]
Maintainer: Renzo Caceres Rossi <arenzocaceresrossi@gmail.com>

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Package NMsim updated to version 0.2.5 with previous version 0.2.4 dated 2025-07-15

Title: Seamless 'Nonmem' Simulation Platform
Description: A complete and seamless 'Nonmem' simulation interface within R. Turns 'Nonmem' control streams into simulation control streams, executes them with specified simulation input data and returns the results. The simulation is performed by 'Nonmem', eliminating manual work and risks of re-implementation of models in other tools.
Author: Philip Delff [aut, cre], Brian Reilly [ctb], Sanaya Shroff [ctb], Boris Grinshpun [ctb]
Maintainer: Philip Delff <philip@delff.dk>

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 NMsim-0.2.5/NMsim/NAMESPACE                                                                      |    1 
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 NMsim-0.2.5/NMsim/README.md                                                                      |   10 
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Package OEFPIL readmission to version 0.1.2 with previous version 0.1.1 dated 2021-11-04

Title: Optimal Estimation of Function Parameters by Iterated Linearization
Description: Package for estimating the parameters of a nonlinear function using iterated linearization via Taylor series. Method is based on Kubáček (2000) ISBN: 80-244-0093-6. The algorithm is a generalization of the procedure given in Köning, R., Wimmer, G. and Witkovský, V. (2014) <doi:10.1088/0957-0233/25/11/115001>.
Author: Stanislav Zamecnik [aut, cre], Vojtech Sindlar [aut] , Zdenka Gerslova [aut] , Gejza Wimmer [aut] , Technology Agency of the Czech Republic [fnd] , Masaryk University, a public university, ID: 00216224 [cph]
Maintainer: Stanislav Zamecnik <zamecnik@math.muni.cz>

This is a re-admission after prior archival of version 0.1.1 dated 2021-11-04

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Package gptzeror updated to version 0.0.2 with previous version 0.0.1 dated 2023-06-05

Title: Identify Text Written by Large Language Models using 'GPTZero'
Description: An R interface to the 'GPTZero' API (<https://gptzero.me/docs>). Allows users to classify text into human and computer written with probabilities. Formats the data into data frames where each sentence is an observation. Paragraph-level and document-level predictions are organized to align with the sentences.
Author: Christopher T. Kenny [aut, cre]
Maintainer: Christopher T. Kenny <ctkenny@proton.me>

Diff between gptzeror versions 0.0.1 dated 2023-06-05 and 0.0.2 dated 2025-09-05

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 gptzeror-0.0.2/gptzeror/DESCRIPTION                                                                       |   17 
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 gptzeror-0.0.2/gptzeror/NAMESPACE                                                                         |   18 
 gptzeror-0.0.2/gptzeror/NEWS.md                                                                           |    4 
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 gptzeror-0.0.2/gptzeror/inst/httptest2/redact.R                                                           |    8 
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 gptzeror-0.0.2/gptzeror/tests/testthat.R                                                                  |   24 
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Package ggPMX updated to version 1.3.2 with previous version 1.3.1 dated 2025-08-27

Title: 'ggplot2' Based Tool to Facilitate Diagnostic Plots for NLME Models
Description: At Novartis, we aimed at standardizing the set of diagnostic plots used for modeling activities in order to reduce the overall effort required for generating such plots. For this, we developed a guidance that proposes an adequate set of diagnostics and a toolbox, called 'ggPMX' to execute them. 'ggPMX' is a toolbox that can generate all diagnostic plots at a quality sufficient for publication and submissions using few lines of code. This package focuses on plots recommended by ISoP <doi:10.1002/psp4.12161>. While not required, you can get/install the 'R' 'lixoftConnectors' package in the 'Monolix' installation, as described at the following url <https://monolixsuite.slp-software.com/r-functions/2024R1/installation-and-initialization>. When 'lixoftConnectors' is available, 'R' can use 'Monolix' directly to create the required Chart Data instead of exporting it from the 'Monolix' gui.
Author: Amine Gassem [aut], Bruno Bieth [aut], Irina Baltcheva [aut], Thomas Dumortier [aut], Christian Bartels [aut], Souvik Bhattacharya [aut], Inga Ludwig [aut], Ines Paule [aut], Didier Renard [aut], Matthew Fidler [aut] , Seid Hamzic [aut], Benjamin Gui [...truncated...]
Maintainer: Aleksandr Pogodaev <alex.pogodaev@novartis.com>

Diff between ggPMX versions 1.3.1 dated 2025-08-27 and 1.3.2 dated 2025-09-05

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Package BrazilCrime updated to version 0.3.0 with previous version 0.2.1 dated 2024-09-14

Title: Accesses Brazilian Public Security Data from SINESP Since 2015
Description: Allows access to data from the Brazilian Public Security Information System (SINESP) by state and municipality. It should be emphasized that the package only extracts the data and facilitates its manipulation in R. Therefore, its sole purpose is to support empirical research. All data credits belong to SINESP, an integrated information platform developed and maintained by the National Secretariat of Public Security (SENASP) of the Ministry of Justice and Public Security. <https://www.gov.br/mj/pt-br/assuntos/sua-seguranca/seguranca-publica/sinesp-1>.
Author: Giovanni Vargette [aut, cre] , Igor Laltuf [aut] , Marcelo Justus [aut]
Maintainer: Giovanni Vargette <g216978@dac.unicamp.br>

Diff between BrazilCrime versions 0.2.1 dated 2024-09-14 and 0.3.0 dated 2025-09-05

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New package SLGP with initial version 1.0.0
Package: SLGP
Title: Spatial Logistic Gaussian Process for Field Density Estimation
Version: 1.0.0
Maintainer: Athenais Gautier <athenais.gautier@onera.fr>
Description: Provides tools for conditional and spatially dependent density estimation using Spatial Logistic Gaussian Processes (SLGPs). The approach represents probability densities through finite-rank Gaussian process priors transformed via a spatial logistic density transformation, enabling flexible non-parametric modeling of heterogeneous data. Functionality includes density prediction, quantile and moment estimation, sampling methods, and preprocessing routines for basis functions. Applications arise in spatial statistics, machine learning, and uncertainty quantification. The methodology builds on the framework of Leonard (1978) <doi:10.1111/j.2517-6161.1978.tb01655.x>, Lenk (1988) <doi:10.1080/01621459.1988.10478625>, Tokdar (2007) <doi:10.1198/106186007X210206>, Tokdar (2010) <doi:10.1214/10-BA605>, and is further aligned with recent developments in Bayesian non-parametric modelling: see Gautier (2023) <https://boristheses.unibe.ch/4377/>, and Gautier (2025) &l [...truncated...]
License: GPL (>= 3)
Encoding: UTF-8
Biarch: true
Depends: R (>= 3.5.0), stats
Imports: DiceDesign, methods, mvnfast, Rcpp (>= 0.12.0), RcppParallel (>= 5.0.1), rstan (>= 2.18.1), GoFKernel, rstantools
LinkingTo: BH (>= 1.66.0), Rcpp (>= 0.12.0), RcppEigen (>= 0.3.3.3.0), rstan (>= 2.18.1), StanHeaders (>= 2.21.0)
SystemRequirements: GNU make
Suggests: knitr, rmarkdown, tidyr, dplyr, ggplot2, ggpubr, viridis, MASS
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2025-09-01 13:38:28 UTC; agautier
Author: Athenais Gautier [aut, cre]
Repository: CRAN
Date/Publication: 2025-09-05 20:50:02 UTC

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New package OptOTrials with initial version 1.0.2
Package: OptOTrials
Title: Optimal Two-Stage Designs for Ordered Categorical Outcomes
Version: 1.0.2
Date: 2025-08-17
Description: Functions to design and simulate optimal two-stage randomized controlled trials (RCTs) with ordered categorical outcomes, supporting rank-based tests and group-sequential decision rules. Methods build on classical and modern rank tests and two-stage/Group-Sequential designs, e.g., Park (2025) <doi: 10.1371/journal.pone.0318211>. Please see the package reference manual and vignettes for details.
License: GPL-3
Encoding: UTF-8
Depends: R (>= 4.0)
Imports: stats
NeedsCompilation: no
Packaged: 2025-09-01 09:24:41 UTC; ypark56
Author: Yeonhee Park [aut, cre], Yudi Wang [aut], Zhanpeng Xu [aut]
Maintainer: Yeonhee Park <yeonheepark@skku.edu>
Repository: CRAN
Date/Publication: 2025-09-05 20:40:02 UTC

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Package marquee updated to version 1.2.0 with previous version 1.1.1 dated 2025-08-27

Title: Markdown Parser and Renderer for R Graphics
Description: Provides the mean to parse and render markdown text with grid along with facilities to define the styling of the text.
Author: Thomas Lin Pedersen [aut, cre] , Martin Mitas [aut] , Posit Software, PBC [cph, fnd]
Maintainer: Thomas Lin Pedersen <thomas.pedersen@posit.co>

Diff between marquee versions 1.1.1 dated 2025-08-27 and 1.2.0 dated 2025-09-05

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New package LLMTranslate with initial version 0.1.3
Package: LLMTranslate
Title: 'shiny' App for TRAPD/ISPOR Survey Translation with LLMs
Version: 0.1.3
Description: A 'shiny' application to automate forward and back survey translation with optional reconciliation using large language models (LLMs). It follows the TRAPD (Translation, Review, Adjudication, Pretesting, Documentation) framework and ISPOR (International Society for Pharmacoeconomics and Outcomes Research) recommendations. See Harkness et al. (2010) <doi:10.1002/9780470609927.ch7> and Wild et al. (2005) <doi:10.1111/j.1524-4733.2005.04054.x>.
License: MIT + file LICENSE
Encoding: UTF-8
Depends: R (>= 4.1)
Imports: shiny
Suggests: DT, readxl, writexl, openxlsx, httr2, jsonlite, glue, later, testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2025-09-01 17:28:43 UTC; A2310316
Author: Jonas R. Kunst [aut, cre]
Maintainer: Jonas R. Kunst <jonas.r.kunst@bi.no>
Repository: CRAN
Date/Publication: 2025-09-05 21:00:16 UTC

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Package evolqg updated to version 0.3-6 with previous version 0.3-4 dated 2023-12-05

Title: Evolutionary Quantitative Genetics
Description: Provides functions for covariance matrix comparisons, estimation of repeatabilities in measurements and matrices, and general evolutionary quantitative genetics tools. Melo D, Garcia G, Hubbe A, Assis A P, Marroig G. (2016) <doi:10.12688/f1000research.7082.3>.
Author: Diogo Melo [aut, cre] , Ana Paula Assis [aut], Edgar Zanella [ctb], Fabio Andrade Machado [aut] , Guilherme Garcia [aut], Alex Hubbe [rev] , Gabriel Marroig [ths]
Maintainer: Diogo Melo <diogro@gmail.com>

Diff between evolqg versions 0.3-4 dated 2023-12-05 and 0.3-6 dated 2025-09-05

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New package causalnet with initial version 0.1.0
Package: causalnet
Title: Directed Causal Network Enumeration and Simulation
Version: 0.1.0
Description: Enumerate orientation-consistent directed networks from an undirected or partially directed skeleton, detect feedback loops, summarize topology, and simulate node dynamics via stochastic differential equations.
License: GPL-3
URL: https://github.com/KyuriP/causalnet
BugReports: https://github.com/KyuriP/causalnet/issues
Encoding: UTF-8
VignetteBuilder: knitr
Imports: stats, ggplot2, tidyr, scales, cowplot
Suggests: testthat (>= 3.0.0), dplyr, knitr, rmarkdown
NeedsCompilation: no
Packaged: 2025-09-01 16:03:58 UTC; Kyuri1
Author: Kyuri Park [aut, cre]
Maintainer: Kyuri Park <kyurheep@gmail.com>
Repository: CRAN
Date/Publication: 2025-09-05 21:00:10 UTC

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Package Spower updated to version 0.4.0 with previous version 0.3.1 dated 2025-07-17

Title: Power Analyses using Monte Carlo Simulations
Description: Provides a general purpose simulation-based power analysis API for routine and customized simulation experimental designs. The package focuses exclusively on Monte Carlo simulation experiment variants of (expected) prospective power analyses, criterion analyses, compromise analyses, sensitivity analyses, and a priori/post-hoc analyses. The default simulation experiment functions defined within the package provide stochastic variants of the power analysis subroutines in G*Power 3.1 (Faul, Erdfelder, Buchner, and Lang, 2009) <doi:10.3758/brm.41.4.1149>, along with various other parametric and non-parametric power analysis applications (e.g., mediation analyses) and support for Bayesian power analysis by way of Bayes factors or posterior probability evaluations. Additional functions for building empirical power curves, reanalyzing simulation information, and for increasing the precision of the resulting power estimates are also included, each of which utilize similar API structures.
Author: Phil Chalmers [aut, cre]
Maintainer: Phil Chalmers <rphilip.chalmers@gmail.com>

Diff between Spower versions 0.3.1 dated 2025-07-17 and 0.4.0 dated 2025-09-05

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Package SensIAT updated to version 0.3.0 with previous version 0.2.0 dated 2025-08-18

Title: Sensitivity Analysis for Irregular Assessment Times
Description: Sensitivity analysis for trials with irregular and informative assessment times, based on a new influence function-based, augmented inverse intensity-weighted estimator.
Author: Andrew Redd [aut, cre] , Yujing Gao [aut], Shu Yang [aut], Bonnie Smith [aut], Ravi Varadhan [aut], Agatha Mallett [ctb, ctr], Daniel Scharfstein [pdr, aut] , University of Utah [cph]
Maintainer: Andrew Redd <andrew.redd@hsc.utah.edu>

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Package merTools updated to version 0.6.3 with previous version 0.6.2 dated 2024-02-08

Title: Tools for Analyzing Mixed Effect Regression Models
Description: Provides methods for extracting results from mixed-effect model objects fit with the 'lme4' package. Allows construction of prediction intervals efficiently from large scale linear and generalized linear mixed-effects models. This method draws from the simulation framework used in the Gelman and Hill (2007) textbook: Data Analysis Using Regression and Multilevel/Hierarchical Models.
Author: Jared E. Knowles [aut, cre], Carl Frederick [aut], Alex Whitworth [ctb]
Maintainer: Jared E. Knowles <jared@civilytics.com>

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Package greenfeedr updated to version 1.3.1 with previous version 1.3.0 dated 2025-08-18

Title: Process and Report 'GreenFeed' Data
Description: Provides tools for downloading, processing, and reporting daily and finalized 'GreenFeed' data.
Author: Guillermo Martinez-Boggio [cre, aut, cph] , Meredith Harrison [ctb], Patrick Lutz [ctb]
Maintainer: Guillermo Martinez-Boggio <gmartinezboggio@ucdavis.edu>

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Package fairmetrics updated to version 1.0.5 with previous version 1.0.4 dated 2025-07-22

Title: Fairness Evaluation Metrics with Confidence Intervals for Binary Protected Attributes
Description: A collection of functions for computing fairness metrics for machine learning and statistical models, including confidence intervals for each metric. The package supports the evaluation of group-level fairness criterion commonly used in fairness research, particularly in healthcare for binary protected attributes. It is based on the overview of fairness in machine learning written by Gao et al (2024) <doi:10.48550/arXiv.2406.09307>.
Author: Jianhui Gao [aut] , Benjamin Smith [aut, cre] , Benson Chou [aut] , Jessica Gronsbell [aut]
Maintainer: Benjamin Smith <benyamin.smith@mail.utoronto.ca>

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Package shinyscholar updated to version 0.4.3 with previous version 0.4.2 dated 2025-06-01

Title: A Template for Creating Reproducible 'shiny' Applications
Description: Create a skeleton 'shiny' application with create_template() that is reproducible, can be saved and meets academic standards for attribution. Forked from 'wallace'. Code is split into modules that are loaded and linked together automatically and each call one function. Guidance pages explain modules to users and flexible logging informs them of any errors. Options enable asynchronous operations, viewing of source code, interactive maps and data tables. Use to create complex analytical applications, following best practices in open science and software development. Includes functions for automating repetitive development tasks and an example application at run_shinyscholar() that requires install.packages("shinyscholar", dependencies = TRUE). A guide to developing applications can be found on the package website.
Author: Simon E. H. Smart [aut, cre, cph], Tim Lucas [aut] , Jamie M. Kass [ctb], Gonzalo E. Pinilla-Buitrago [ctb], Andrea Paz [ctb], Bethany A. Johnson [ctb], Valentina Grisales-Betancur [ctb], Dean Attali [ctb], Matthew E. Aiello-Lammens [ctb], Cory Merow [...truncated...]
Maintainer: Simon E. H. Smart <simon.smart@cantab.net>

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Package kinesis updated to version 0.3.0 with previous version 0.2.1 dated 2025-07-15

Title: 'shiny' Applications for the 'tesselle' Packages
Description: A collection of 'shiny' applications for the 'tesselle' packages <https://www.tesselle.org/>. This package provides applications for archaeological data analysis and visualization. These mainly, but not exclusively, include applications for chronological modelling (e.g. matrix seriation, aoristic analysis) and count data analysis (e.g. diversity measures, compositional data analysis).
Author: Nicolas Frerebeau [aut, cre] , Brice Lebrun [art] , Universite Bordeaux Montaigne [fnd] , CNRS [fnd]
Maintainer: Nicolas Frerebeau <nicolas.frerebeau@u-bordeaux-montaigne.fr>

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Package important updated to version 0.2.0 with previous version 0.0.1 dated 2025-08-20

Title: Supervised Feature Selection
Description: Interfaces for choosing important predictors in supervised regression, classification, and censored regression models. Permuted importance scores (Biecek and Burzykowski (2021) <doi:10.1201/9780429027192>) can be computed for 'tidymodels' model fits.
Author: Max Kuhn [aut, cre] , Posit Software, PBC [cph, fnd]
Maintainer: Max Kuhn <max@posit.co>

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Package CohortGenerator updated to version 0.12.1 with previous version 0.12.0 dated 2025-07-31

Title: Cohort Generation for the OMOP Common Data Model
Description: Generate cohorts and subsets using an Observational Medical Outcomes Partnership (OMOP) Common Data Model (CDM) Database. Cohorts are defined using 'CIRCE' (<https://github.com/ohdsi/circe-be>) or SQL compatible with 'SqlRender' (<https://github.com/OHDSI/SqlRender>).
Author: Anthony Sena [aut, cre], Jamie Gilbert [aut], Gowtham Rao [aut], Freddy Avila Cruz [aut], Martijn Schuemie [aut], Observational Health Data Science and Informatics [cph]
Maintainer: Anthony Sena <sena@ohdsi.org>

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Package admix updated to version 2.5.1 with previous version 2.4.3 dated 2025-08-21

Title: Package Admix for Admixture (aka Contamination) Models
Description: Implements techniques to estimate the unknown quantities related to two-component admixture models, where the two components can belong to any distribution (note that in the case of multinomial mixtures, the two components must belong to the same family). Estimation methods depend on the assumptions made on the unknown component density; see Bordes and Vandekerkhove (2010) <doi:10.3103/S1066530710010023>, Patra and Sen (2016) <doi:10.1111/rssb.12148>, and Milhaud, Pommeret, Salhi, Vandekerkhove (2024) <doi:10.3150/23-BEJ1593>. In practice, one can estimate both the mixture weight and the unknown component density in a wide variety of frameworks. On top of that, hypothesis tests can be performed in one and two-sample contexts to test the unknown component density (see Milhaud, Pommeret, Salhi and Vandekerkhove (2022) <doi:10.1016/j.jspi.2021.05.010>, and Milhaud, Pommeret, Salhi, Vandekerkhove (2024) <doi:10.3150/23-BEJ1593>). Finally, clustering of unknown [...truncated...]
Author: Xavier Milhaud [aut, cre], Pierre Vandekerkhove [ctb], Denys Pommeret [ctb], Yahia Salhi [ctb]
Maintainer: Xavier Milhaud <xavier.milhaud.research@gmail.com>

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Package vvcanvas updated to version 0.0.6 with previous version 0.0.5 dated 2025-03-31

Title: 'Canvas' LMS API Integration
Description: Allow R users to interact with the 'Canvas' Learning Management System (LMS) API (see <https://canvas.instructure.com/doc/api/all_resources.html> for details). It provides a set of functions to access and manipulate course data, assignments, grades, users, and other resources available through the 'Canvas' API.
Author: Tomer Iwan [aut, cre], Niels Smits [ctb] , VU Analytics [cph]
Maintainer: Tomer Iwan <t.iwan@vu.nl>

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Package tokenizers.bpe updated to version 0.1.4 with previous version 0.1.3 dated 2023-09-15

Title: Byte Pair Encoding Text Tokenization
Description: Unsupervised text tokenizer focused on computational efficiency. Wraps the 'YouTokenToMe' library <https://github.com/VKCOM/YouTokenToMe> which is an implementation of fast Byte Pair Encoding (BPE) <https://aclanthology.org/P16-1162/>.
Author: Jan Wijffels [aut, cre, cph] , BNOSAC [cph] , VK.com [cph], Gregory Popovitch [ctb, cph] , The Abseil Authors [ctb, cph] , Ivan Belonogov [ctb, cph] )
Maintainer: Jan Wijffels <jwijffels@bnosac.be>

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Package tidysdm updated to version 1.0.3 with previous version 1.0.2 dated 2025-08-22

Title: Species Distribution Models with Tidymodels
Description: Fit species distribution models (SDMs) using the 'tidymodels' framework, which provides a standardised interface to define models and process their outputs. 'tidysdm' expands 'tidymodels' by providing methods for spatial objects, models and metrics specific to SDMs, as well as a number of specialised functions to process occurrences for contemporary and palaeo datasets. The full functionalities of the package are described in Leonardi et al. (2023) <doi:10.1101/2023.07.24.550358>.
Author: Michela Leonardi [aut], Margherita Colucci [aut], Andrea Vittorio Pozzi [aut], Eleanor M.L. Scerri [aut], Ben Tupper [ctb], Andrea Manica [aut, cre]
Maintainer: Andrea Manica <am315@cam.ac.uk>

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Package SAMtool updated to version 1.8.2 with previous version 1.8.1 dated 2025-04-28

Title: Stock Assessment Methods Toolkit
Description: Simulation tools for closed-loop simulation are provided for the 'MSEtool' operating model to inform data-rich fisheries. 'SAMtool' provides a conditioning model, assessment models of varying complexity with standardized reporting, model-based management procedures, and diagnostic tools for evaluating assessments inside closed-loop simulation.
Author: Quang Huynh [aut, cre], Tom Carruthers [aut], Adrian Hordyk [aut]
Maintainer: Quang Huynh <quang@bluematterscience.com>

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Package GHRexplore updated to version 0.2.0 with previous version 0.1.1 dated 2025-07-10

Title: Exploratory Analysis of Temporal and Spatio-Temporal Health Data
Description: A collection of commonly used visualizations of temporal and spatio-temporal health data including case counts, incidence rates, and covariates. The available plot types include time series, heatmaps, seasonality plots, maps and more. The package supports standard data transformations such as temporal and spatial aggregations, while offering extensive customization options for the resulting figures.
Author: Carles Mila [aut, cre] , Giovenale Moirano [aut] , Anna B. Kawiecki [aut] , Rachel Lowe [aut, cph]
Maintainer: Carles Mila <carles.milagarcia@bsc.es>

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Package speakeasyR updated to version 0.1.7 with previous version 0.1.6 dated 2025-08-28

Title: Fast and Robust Multi-Scale Graph Clustering
Description: A graph community detection algorithm that aims to be performant on large graphs and robust, returning consistent results across runs. SpeakEasy 2 (SE2), the underlying algorithm, is described in Chris Gaiteri, David R. Connell & Faraz A. Sultan et al. (2023) <doi:10.1186/s13059-023-03062-0>. The core algorithm is written in 'C', providing speed and keeping the memory requirements low. This implementation can take advantage of multiple computing cores without increasing memory usage. SE2 can detect community structure across scales, making it a good choice for biological data, which often has hierarchical structure. Graphs can be passed to the algorithm as adjacency matrices using base 'R' matrices, the 'Matrix' library, 'igraph' graphs, or any data that can be coerced into a matrix.
Author: David Connell [aut, cre, cph] , Chris Gaiteri [cph] , Gabor Csardi [cph, ctb] , Tamas Nepusz [cph, ctb] , Szabolcs Horvat [cph, ctb] , Vincent Traag [cph, ctb] , Fabio Zanini [cph, ctb] , Daniel Noom [cph, ctb] , The igraph development team [cph] , F [...truncated...]
Maintainer: David Connell <david32@dcon.addy.io>

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Package rnndescent updated to version 0.1.8 with previous version 0.1.6 dated 2024-05-14

Title: Nearest Neighbor Descent Method for Approximate Nearest Neighbors
Description: The Nearest Neighbor Descent method for finding approximate nearest neighbors by Dong and co-workers (2010) <doi:10.1145/1963405.1963487>. Based on the 'Python' package 'PyNNDescent' <https://github.com/lmcinnes/pynndescent>.
Author: James Melville [aut, cre, cph], Vitalie Spinu [ctb], Ralf Stubner [ctb]
Maintainer: James Melville <jlmelville@gmail.com>

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Package qqplotr updated to version 0.0.7 with previous version 0.0.6 dated 2023-01-25

Title: Quantile-Quantile Plot Extensions for 'ggplot2'
Description: Extensions of 'ggplot2' Q-Q plot functionalities.
Author: Alexandre Almeida [aut], Adam Loy [aut, cre], Heike Hofmann [aut]
Maintainer: Adam Loy <loyad01@gmail.com>

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Package odbc updated to version 1.6.3 with previous version 1.6.2 dated 2025-08-28

Title: Connect to ODBC Compatible Databases (using the DBI Interface)
Description: A DBI-compatible interface to ODBC databases.
Author: Jim Hester [aut], Hadley Wickham [aut, cre], Oliver Gjoneski [aut], Simon Couch [aut], lexicalunit [cph] , Google Inc. [cph] , Posit Software, PBC [cph, fnd]
Maintainer: Hadley Wickham <hadley@posit.co>

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Package ndi updated to version 0.2.1 with previous version 0.1.5 dated 2024-01-23

Title: Neighborhood Deprivation Indices
Description: Computes various geospatial indices of socioeconomic deprivation and disparity in the United States. Some indices are considered "spatial" because they consider the values of neighboring (i.e., adjacent) census geographies in their computation, while other indices are "aspatial" because they only consider the value within each census geography. Two types of aspatial neighborhood deprivation indices (NDI) are available: including: (1) based on Messer et al. (2006) <doi:10.1007/s11524-006-9094-x> and (2) based on Andrews et al. (2020) <doi:10.1080/17445647.2020.1750066> and Slotman et al. (2022) <doi:10.1016/j.dib.2022.108002> who use variables chosen by Roux and Mair (2010) <doi:10.1111/j.1749-6632.2009.05333.x>. Both are a decomposition of multiple demographic characteristics from the U.S. Census Bureau American Community Survey 5-year estimates (ACS-5; 2006-2010 onward). Using data from the ACS-5 (2005-2009 onward), the package can also compute indices of racia [...truncated...]
Author: Ian D. Buller [aut, cre, cph] , NCI [cph, fnd]
Maintainer: Ian D. Buller <ian.buller@alumni.emory.edu>

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Package mvgam updated to version 1.1.593 with previous version 1.1.51 dated 2025-03-14

Title: Multivariate (Dynamic) Generalized Additive Models
Description: Fit Bayesian Dynamic Generalized Additive Models to multivariate observations. Users can build nonlinear State-Space models that can incorporate semiparametric effects in observation and process components, using a wide range of observation families. Estimation is performed using Markov Chain Monte Carlo with Hamiltonian Monte Carlo in the software 'Stan'. References: Clark & Wells (2023) <doi:10.1111/2041-210X.13974>.
Author: Nicholas J Clark [aut, cre] , KANK Karunarathna [ctb] , Sarah Heaps [ctb] , Scott Pease [ctb] , Matthijs Hollanders [ctb]
Maintainer: Nicholas J Clark <nicholas.j.clark1214@gmail.com>

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Package MKpower updated to version 1.1 with previous version 1.0 dated 2024-09-23

Title: Power Analysis and Sample Size Calculation
Description: Power analysis and sample size calculation for Welch and Hsu (Hedderich and Sachs (2018), ISBN:978-3-662-56657-2) t-tests including Monte-Carlo simulations of empirical power and type-I-error. Power and sample size calculation for Wilcoxon rank sum and signed rank tests via Monte-Carlo simulations. Power and sample size required for the evaluation of a diagnostic test(-system) (Flahault et al. (2005), <doi:10.1016/j.jclinepi.2004.12.009>; Dobbin and Simon (2007), <doi:10.1093/biostatistics/kxj036>) as well as for a single proportion (Fleiss et al. (2003), ISBN:978-0-471-52629-2; Piegorsch (2004), <doi:10.1016/j.csda.2003.10.002>; Thulin (2014), <doi:10.1214/14-ejs909>), comparing two negative binomial rates (Zhu and Lakkis (2014), <doi:10.1002/sim.5947>), ANCOVA (Shieh (2020), <doi:10.1007/s11336-019-09692-3>), reference ranges (Jennen-Steinmetz and Wellek (2005), <doi:10.1002/sim.2177>), multiple primary endpoints (Sozu et al. (2015), ISBN:978 [...truncated...]
Author: Matthias Kohl [aut, cre]
Maintainer: Matthias Kohl <Matthias.Kohl@stamats.de>

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Package metR updated to version 0.18.2 with previous version 0.18.1 dated 2025-05-13

Title: Tools for Easier Analysis of Meteorological Fields
Description: Many useful functions and extensions for dealing with meteorological data in the tidy data framework. Extends 'ggplot2' for better plotting of scalar and vector fields and provides commonly used analysis methods in the atmospheric sciences.
Author: Elio Campitelli [cre, aut]
Maintainer: Elio Campitelli <eliocampitelli@gmail.com>

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Package hibayes updated to version 3.1.0 with previous version 3.0.3 dated 2024-02-20

Title: Individual-Level, Summary-Level and Single-Step Bayesian Regression Model
Description: A user-friendly tool to fit Bayesian regression models. It can fit 3 types of Bayesian models using individual-level, summary-level, and individual plus pedigree-level (single-step) data for both Genomic prediction/selection (GS) and Genome-Wide Association Study (GWAS), it was designed to estimate joint effects and genetic parameters for a complex trait, including: (1) fixed effects and coefficients of covariates, (2) environmental random effects, and its corresponding variance, (3) genetic variance, (4) residual variance, (5) heritability, (6) genomic estimated breeding values (GEBV) for both genotyped and non-genotyped individuals, (7) SNP effect size, (8) phenotype/genetic variance explained (PVE) for single or multiple SNPs, (9) posterior probability of association of the genomic window (WPPA), (10) posterior inclusive probability (PIP). The functions are not limited, we will keep on going in enriching it with more features. References: Lilin Yin et al. (2025) <doi:10.18637/jss [...truncated...]
Author: Lilin Yin [aut, cre, cph] , Haohao Zhang [aut, cph] , Xiaolei Liu [aut, cph]
Maintainer: Lilin Yin <ylilin@163.com>

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Package ggscidca updated to version 0.2.5 with previous version 0.2.3 dated 2024-05-19

Title: Plotting Decision Curve Analysis with Coloured Bars
Description: Decision curve analysis is a method for evaluating and comparing prediction models that incorporates clinical consequences, requires only the data set on which the models are tested, and can be applied to models that have either continuous or dichotomous results. The 'ggscidca' package adds coloured bars of discriminant relevance to the traditional decision curve. Improved practicality and aesthetics. This method was described by Balachandran VP (2015) <doi:10.1016/S1470-2045(14)71116-7>.
Author: Qiang Liu [aut, cre]
Maintainer: Qiang Liu <dege857@163.com>

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Package extrasteps updated to version 0.3.0 with previous version 0.1.0 dated 2024-10-03

Title: More Miscellaneous Steps for the 'recipes' Package
Description: Contains additional miscellaneous steps for the 'recipes' package. These steps are useful, but doesn't have a good home in other 'recipes' packages or its extensions.
Author: Emil Hvitfeldt [aut, cre]
Maintainer: Emil Hvitfeldt <emilhhvitfeldt@gmail.com>

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Package bsts updated to version 0.9.11 with previous version 0.9.10 dated 2024-01-17

Title: Bayesian Structural Time Series
Description: Time series regression using dynamic linear models fit using MCMC. See Scott and Varian (2014) <DOI:10.1504/IJMMNO.2014.059942>, among many other sources.
Author: Steven L. Scott [aut, cre]
Maintainer: Steven L. Scott <steve.the.bayesian@gmail.com>

Diff between bsts versions 0.9.10 dated 2024-01-17 and 0.9.11 dated 2025-09-05

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Package beakr updated to version 0.4.4 with previous version 0.4.3 dated 2021-04-06

Title: A Minimalist Web Framework for R
Description: A minimalist web framework for developing application programming interfaces in R that provides a flexible framework for handling common HTTP-requests, errors, logging, and an ability to integrate any R code as server middle-ware.
Author: Hans Martin [aut], Jonathan Callahan [aut, cre]
Maintainer: Jonathan Callahan <jonathan.s.callahan@gmail.com>

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Package antitrust updated to version 0.99.29 with previous version 0.99.26 dated 2022-08-24

Title: Tools for Antitrust Practitioners
Description: A collection of tools for antitrust practitioners, including the ability to calibrate different consumer demand systems and simulate the effects of mergers under different competitive regimes.
Author: Charles Taragin [aut, cre], Michael Sandfort [aut], Shlok Goyal [ctb]
Maintainer: Charles Taragin <ctaragin+antitrustr@gmail.com>

Diff between antitrust versions 0.99.26 dated 2022-08-24 and 0.99.29 dated 2025-09-05

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Package RCreliability (with last version 0.1.0) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2021-12-10 0.1.0

Permanent link
Package rvif readmission to version 3.1 with previous version 3.0 dated 2025-07-29

Title: Collinearity Detection using Redefined Variance Inflation Factor and Graphical Methods
Description: The detection of troubling approximate collinearity in a multiple linear regression model is a classical problem in Econometrics. The objective of this package is to detect it using the variance inflation factor redefined and the scatterplot between the variance inflation factor and the coefficient of variation. For more details see Salmerón R., García C.B. and García J. (2018) <doi:10.1080/00949655.2018.1463376>, Salmerón, R., Rodríguez, A. and García C. (2020) <doi:10.1007/s00180-019-00922-x>, Salmerón, R., García, C.B, Rodríguez, A. and García, C. (2022) <doi:10.32614/RJ-2023-010>, Salmerón, R., García, C.B. and García, J. (2025) <doi:10.1007/s10614-024-10575-8> and Salmerón, R., García, C.B, García J. (2023, working paper) <doi:10.48550/arXiv.2005.02245>. You can also view the package vignette using 'browseVignettes("rvif")', the package website using 'browseURL(system.file("docs/index.html", package = "rvif"))' or version control on GitHub (<https: [...truncated...]
Author: R. Salmeron [aut, cre], C.B. Garcia [aut]
Maintainer: R. Salmeron <romansg@ugr.es>

This is a re-admission after prior archival of version 3.0 dated 2025-07-29

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Package patientProfilesVis updated to version 2.0.10 with previous version 2.0.9 dated 2024-06-18

Title: Visualization of Patient Profiles
Description: Creation of patient profile visualizations for exploration, diagnostic or monitoring purposes during a clinical trial. These static visualizations display a patient-specific overview of the evolution during the trial time frame of parameters of interest (as laboratory, ECG, vital signs), presence of adverse events, exposure to a treatment; associated with metadata patient information, as demography, concomitant medication. The visualizations can be tailored for specific domain(s) or endpoint(s) of interest. Visualizations are exported into patient profile report(s) or can be embedded in custom report(s).
Author: Laure Cougnaud [aut, cre], Margaux Faes [rev] , Open Analytics [cph]
Maintainer: Laure Cougnaud <laure.cougnaud@openanalytics.eu>

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Package MGDrivE readmission to version 1.6.2 with previous version 1.6.0 dated 2020-10-05

Title: Mosquito Gene Drive Explorer
Description: Provides a model designed to be a reliable testbed where various gene drive interventions for mosquito-borne diseases control. It is being developed to accommodate the use of various mosquito-specific gene drive systems within a population dynamics framework that allows migration of individuals between patches in landscape. Previous work developing the population dynamics can be found in Deredec et al. (2001) <doi:10.1073/pnas.1110717108> and Hancock & Godfray (2007) <doi:10.1186/1475-2875-6-98>, and extensions to accommodate CRISPR homing dynamics in Marshall et al. (2017) <doi:10.1038/s41598-017-02744-7>.
Author: Hector Manuel Sanchez Castellanos [aut, cre], Jared Bennett [aut], Sean Wu [aut], John M. Marshall [aut]
Maintainer: Hector Manuel Sanchez Castellanos <sanchez.hmsc@berkeley.edu>

This is a re-admission after prior archival of version 1.6.0 dated 2020-10-05

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Package eeptools updated to version 1.2.7 with previous version 1.2.5 dated 2023-06-01

Title: Convenience Functions for Education Data
Description: Collection of convenience functions to make working with administrative records easier and more consistent. Includes functions to clean strings, and identify cut points. Also includes three example data sets of administrative education records for learning how to process records with errors.
Author: Jason P. Becker [ctb], Jared E. Knowles [aut, cre]
Maintainer: Jared E. Knowles <jared@civilytics.com>

Diff between eeptools versions 1.2.5 dated 2023-06-01 and 1.2.7 dated 2025-09-05

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Package ebnm updated to version 1.1-38 with previous version 1.1-2 dated 2023-10-12

Title: Solve the Empirical Bayes Normal Means Problem
Description: Provides simple, fast, and stable functions to fit the normal means model using empirical Bayes. For available models and details, see function ebnm(). Our JSS article, Willwerscheid, Carbonetto, and Stephens (2025) <doi:10.18637/jss.v114.i03>, provides a detailed introduction to the package.
Author: Jason Willwerscheid [aut], Matthew Stephens [aut], Peter Carbonetto [aut, cre], Andrew Goldstein [ctb], Yusha Liu [ctb]
Maintainer: Peter Carbonetto <peter.carbonetto@gmail.com>

Diff between ebnm versions 1.1-2 dated 2023-10-12 and 1.1-38 dated 2025-09-05

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More information about ebnm at CRAN
Permanent link

Package RVenn (with last version 1.1.0) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2019-07-18 1.1.0
2019-05-08 1.0.0

Permanent link
New package minipdf with initial version 0.2.7
Package: minipdf
Title: PDF Document Creator
Version: 0.2.7
Maintainer: Mike Cheng <mikefc@coolbutuseless.com>
Description: PDF is a standard file format for laying out text and images in documents. At its core, these documents are sequences of objects defined in plain text. This package allows for the creation of PDF documents at a very low level without any library or graphics device dependencies.
License: MIT + file LICENSE
Encoding: UTF-8
URL: https://github.com/coolbutuseless/minipdf
Depends: R (>= 4.1.0)
Imports: glue
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-08-31 09:38:56 UTC; mike
Author: Mike Cheng [aut, cre, cph]
Repository: CRAN
Date/Publication: 2025-09-05 11:40:02 UTC

More information about minipdf at CRAN
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New package mini007 with initial version 0.1.0
Package: mini007
Title: Lightweight Framework for Orchestrating Multi-Agent Large Language Models
Version: 0.1.0
Description: Provides tools for creating agents with persistent state using R6 classes <https://cran.r-project.org/package=R6> and the 'ellmer' package <https://cran.r-project.org/package=ellmer>. Tracks prompts, messages, and agent metadata for reproducible, multi-turn large language model sessions.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: checkmate (>= 2.3.1), cli (>= 3.6.5), R6 (>= 2.6.1), uuid (>= 1.2.0)
Suggests: ellmer
NeedsCompilation: no
Packaged: 2025-08-31 11:16:43 UTC; mohamedelfodilihaddaden
Author: Mohamed El Fodil Ihaddaden [aut, cre]
Maintainer: Mohamed El Fodil Ihaddaden <ihaddaden.fodeil@gmail.com>
Repository: CRAN
Date/Publication: 2025-09-05 11:40:08 UTC

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New package econtools with initial version 0.1.0
Package: econtools
Title: Enrich and Analyze Sovereign-Level Economic Data
Version: 0.1.0
Description: Provides a consistent set of functions for enriching and analyzing sovereign-level economic data. Economists, data scientists, and financial professionals can use the package to add standardized identifiers, demographic and macroeconomic indicators, and derived metrics such as gross domestic product per capita or government expenditure shares.
License: MIT + file LICENSE
Encoding: UTF-8
Depends: R (>= 4.1)
Imports: cli, curl, dplyr (>= 1.0.0), rlang, wbwdi, econid, imfweo
Suggests: testthat (>= 3.0.0)
URL: https://github.com/tidy-intelligence/r-econtools, https://tidy-intelligence.github.io/r-econtools/
BugReports: https://github.com/tidy-intelligence/r-econtools/issues
NeedsCompilation: no
Packaged: 2025-08-31 14:39:11 UTC; krise
Author: Christoph Scheuch [aut, cre, cph]
Maintainer: Christoph Scheuch <christoph@tidy-intelligence.com>
Repository: CRAN
Date/Publication: 2025-09-05 11:40:13 UTC

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New package connector.databricks with initial version 0.1.0
Package: connector.databricks
Title: Expand 'connector' Package for 'Databricks' Tables and Volumes
Version: 0.1.0
Description: Expands the 'connector' <https://github.com/NovoNordisk-OpenSource/connector> package and provides a convenient interface for accessing and interacting with 'Databricks' <https://www.databricks.com> volumes and tables directly from R.
License: Apache License (>= 2)
URL: https://novonordisk-opensource.github.io/connector.databricks/, https://github.com/NovoNordisk-OpenSource/connector.databricks
BugReports: https://github.com/NovoNordisk-OpenSource/connector.databricks/issues
Imports: arrow, brickster (>= 0.2.7), checkmate, cli, connector (>= 1.0.0), DBI, dbplyr, dplyr, fs, hms, odbc (>= 1.4.0), purrr, R6 (>= 2.4.0), rlang, withr, zephyr
Suggests: glue, knitr, mockery (>= 0.4.4), rmarkdown, testthat (>= 3.2.3), tibble, whirl (>= 0.3.0)
VignetteBuilder: knitr
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2025-09-01 08:28:07 UTC; vlob
Author: Vladimir Obucina [aut, cre], Steffen Falgreen Larsen [aut], Aksel Thomsen [aut], Cervan Girard [aut], Oliver Lundsgaard [ctb], Skander Mulder [ctb], Novo Nordisk A/S [cph]
Maintainer: Vladimir Obucina <vlob@novonordisk.com>
Depends: R (>= 4.1.0)
Repository: CRAN
Date/Publication: 2025-09-05 12:00:02 UTC

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Package covid19br (with last version 1.0.0) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2025-08-18 1.0.0
2023-10-15 0.1.8
2023-09-05 0.1.7
2023-07-04 0.1.6
2023-05-08 0.1.5
2022-03-30 0.1.4
2021-10-24 0.1.3
2021-10-17 0.1.3
2021-10-08 0.1.2
2020-11-24 0.1.1
2020-09-29 0.1.0

Permanent link
Package zcurve updated to version 2.4.5 with previous version 2.4.4 dated 2025-08-20

Title: An Implementation of Z-Curves
Description: An implementation of z-curves - a method for estimating expected discovery and replicability rates on the bases of test-statistics of published studies. The package provides functions for fitting the density, EM, and censored EM version (Bartoš & Schimmack, 2022, <doi:10.15626/MP.2021.2720>; Schimmack & Bartoš, 2023, <doi: 10.1371/journal.pone.0290084>), as well as the original density z-curve (Brunner & Schimmack, 2020, <doi:10.15626/MP.2018.874>). Furthermore, the package provides summarizing and plotting functions for the fitted z-curve objects. See the aforementioned articles for more information about the z-curves, expected discovery and replicability rates, validation studies, and limitations.
Author: Frantisek Bartos [aut, cre], Ulrich Schimmack [aut]
Maintainer: Frantisek Bartos <f.bartos96@gmail.com>

Diff between zcurve versions 2.4.4 dated 2025-08-20 and 2.4.5 dated 2025-09-05

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Package tidymodels updated to version 1.4.0 with previous version 1.3.0 dated 2025-02-21

Title: Easily Install and Load the 'Tidymodels' Packages
Description: The tidy modeling "verse" is a collection of packages for modeling and statistical analysis that share the underlying design philosophy, grammar, and data structures of the tidyverse.
Author: Max Kuhn [aut, cre] , Hadley Wickham [aut], Posit Software, PBC [cph, fnd]
Maintainer: Max Kuhn <max@posit.co>

Diff between tidymodels versions 1.3.0 dated 2025-02-21 and 1.4.0 dated 2025-09-05

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Thu, 04 Sep 2025

Package swCRTdesign updated to version 4.1 with previous version 4.0 dated 2023-08-25

Title: Stepped Wedge Cluster Randomized Trial (SW CRT) Design
Description: A set of tools for examining the design and analysis aspects of stepped wedge cluster randomized trials (SW CRT) based on a repeated cross-sectional or cohort sampling scheme (Hussey MA and Hughes JP (2007) Contemporary Clinical Trials 28:182-191).
Author: Jim Hughes [aut, cre], Navneet R. Hakhu [aut], Emily Voldal [aut], Fan Xia [aut]
Maintainer: Jim Hughes <jphughes@uw.edu>

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Package gemR updated to version 1.2.2 with previous version 1.2.1 dated 2025-06-27

Title: General Effect Modelling
Description: Two-step modeling with separation of sources of variation through analysis of variance and subsequent multivariate modeling through a range of unsupervised and supervised statistical methods. Separation can focus on removal of interfering effects or isolation of effects of interest. EF Mosleth et al. (2021) <doi:10.1038/s41598-021-82388-w> and EF Mosleth et al. (2020) <doi:10.1016/B978-0-12-409547-2.14882-6>.
Author: Kristian Hovde Liland [aut, cre], Ellen Faergestad Mosleth [ctb]
Maintainer: Kristian Hovde Liland <kristian.liland@nmbu.no>

Diff between gemR versions 1.2.1 dated 2025-06-27 and 1.2.2 dated 2025-09-04

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Package acledR updated to version 1.0.0 with previous version 0.1.0 dated 2025-02-24

Title: Manipulate ACLED Data
Description: Tools working with data from ACLED (Armed Conflict Location and Event Data). Functions include simplified access to ACLED's API (<https://apidocs.acleddata.com/>), methods for keeping local versions of ACLED data up-to-date, and functions for common ACLED data transformations.
Author: Armed Conflict Location and Event Data ACLED [cph], Trey Billing [aut, cre], Lucas Fagliano [aut], Katayoun Kishi [ctb]
Maintainer: Trey Billing <t.billing@acleddata.com>

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Package wrappedtools updated to version 0.9.9 with previous version 0.9.8 dated 2025-07-10

Title: Useful Wrappers Around Commonly Used Functions
Description: The main functionalities of 'wrappedtools' are: adding backticks to variable names; rounding to desired precision with special case for p-values; selecting columns based on pattern and storing their position, name, and backticked name; computing and formatting of descriptive statistics (e.g. mean±SD), comparing groups and creating publication-ready tables with descriptive statistics and p-values; creating specialized plots for correlation matrices. Functions were mainly written for my own daily work or teaching, but may be of use to others as well.
Author: Andreas Busjahn [cre, aut] , Franziska Eidloth [aut], Bilal Asser [aut]
Maintainer: Andreas Busjahn <andreas@busjahn.net>

Diff between wrappedtools versions 0.9.8 dated 2025-07-10 and 0.9.9 dated 2025-09-04

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Package nettskjemar updated to version 1.0.3 with previous version 1.0.2 dated 2025-06-06

Title: Connect to the 'nettskjema.no' API of the University of Oslo
Description: Enables users to retrieve data, meta-data, and codebooks from <https://nettskjema.no/>. The data from the API is richer than from the online data portal. This package is not developed by the University of Oslo IT. Mowinckel (2021) <doi:10.5281/zenodo.4745481>.
Author: Athanasia Mo Mowinckel [aut, cre] , Trym Nohr Fjoertoft [ctb]
Maintainer: Athanasia Mo Mowinckel <a.m.mowinckel@psykologi.uio.no>

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Package simfinapi updated to version 1.0.1 with previous version 1.0.0 dated 2024-02-27

Title: Accessing 'SimFin' Data
Description: Through simfinapi, you can intuitively access the 'SimFin' Web-API (<https://www.simfin.com/>) to make 'SimFin' data easily available in R. To obtain an 'SimFin' API key (and thus to use this package), you need to register at <https://app.simfin.com/login>.
Author: Matthias Gomolka [aut, cre]
Maintainer: Matthias Gomolka <matthias.gomolka@posteo.de>

Diff between simfinapi versions 1.0.0 dated 2024-02-27 and 1.0.1 dated 2025-09-04

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Package Morpho updated to version 2.13 with previous version 2.12 dated 2023-12-06

Title: Calculations and Visualisations Related to Geometric Morphometrics
Description: A toolset for Geometric Morphometrics and mesh processing. This includes (among other stuff) mesh deformations based on reference points, permutation tests, detection of outliers, processing of sliding semi-landmarks and semi-automated surface landmark placement.
Author: Stefan Schlager [aut, cre, cph], Gregory Jefferis [ctb], Dryden Ian [cph]
Maintainer: Stefan Schlager <zarquon42@gmail.com>

Diff between Morpho versions 2.12 dated 2023-12-06 and 2.13 dated 2025-09-04

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Package grec updated to version 1.6.2 with previous version 1.6.1 dated 2025-01-23

Title: Gradient-Based Recognition of Spatial Patterns in Environmental Data
Description: Provides algorithms for detection of spatial patterns from oceanographic data using image processing methods based on Gradient Recognition.
Author: Wencheng Lau-Medrano [aut, cre]
Maintainer: Wencheng Lau-Medrano <luis.laum@gmail.com>

Diff between grec versions 1.6.1 dated 2025-01-23 and 1.6.2 dated 2025-09-04

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Package GLMcat updated to version 1.0.0 with previous version 0.2.7 dated 2024-09-20

Title: Generalized Linear Models for Categorical Responses
Description: In statistical modeling, there is a wide variety of regression models for categorical dependent variables (nominal or ordinal data); yet, there is no software embracing all these models together in a uniform and generalized format. Following the methodology proposed by Peyhardi, Trottier, and Guédon (2015) <doi:10.1093/biomet/asv042>, we introduce 'GLMcat', an R package to estimate generalized linear models implemented under the unified specification (r, F, Z). Where r represents the ratio of probabilities (reference, cumulative, adjacent, or sequential), F the cumulative cdf function for the linkage, and Z, the design matrix. The package accompanies the paper "GLMcat: An R Package for Generalized Linear Models for Categorical Responses" in the Journal of Statistical Software, Volume 114, Issue 9 (see <doi:10.18637/jss.v114.i09>).
Author: Lorena Leon [aut, cre], Jean Peyhardi [aut], Catherine Trottier [aut]
Maintainer: Lorena Leon <ylorenaleonv@gmail.com>

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Package finnts updated to version 0.6.0 with previous version 0.5.0 dated 2024-10-25

Title: Microsoft Finance Time Series Forecasting Framework
Description: Automated time series forecasting developed by Microsoft Finance. The Microsoft Finance Time Series Forecasting Framework, aka Finn, can be used to forecast any component of the income statement, balance sheet, or any other area of interest by finance. Any numerical quantity over time, Finn can be used to forecast it. While it can be applied outside of the finance domain, Finn was built to meet the needs of financial analysts to better forecast their businesses within a company, and has a lot of built in features that are specific to the needs of financial forecasters. Happy forecasting!
Author: Mike Tokic [aut, cre] , Aadharsh Kannan [aut]
Maintainer: Mike Tokic <mftokic@gmail.com>

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Package EMAS updated to version 0.2.3 with previous version 0.2.2 dated 2022-08-11

Title: Epigenome-Wide Mediation Analysis Study
Description: DNA methylation is essential for human, and environment can change the DNA methylation and affect body status. Epigenome-Wide Mediation Analysis Study (EMAS) can find potential mediator CpG sites between exposure (x) and outcome (y) in epigenome-wide. For more information on the methods we used, please see the following references: Tingley, D. (2014) <doi:10.18637/jss.v059.i05>, Turner, S. D. (2018) <doi:10.21105/joss.00731>, Rosseel, D. (2012) <doi:10.18637/jss.v048.i02>.
Author: Xiuquan Nie [aut, cph, cre], Mengyi Wang [ctb, rev]
Maintainer: Xiuquan Nie <niexiuquan1995@foxmail.com>

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Package E2E updated to version 0.1.0 with previous version 0.0.3 dated 2025-08-26

Title: Ensemble Learning Framework for Diagnostic and Prognostic Modeling
Description: Provides a framework to build and evaluate diagnosis or prognosis models using stacking, voting, and bagging ensemble techniques with various base learners. The package also includes tools for visualization and interpretation of models. The development version of the package is available on 'GitHub' at <https://github.com/xiaojie0519/E2E>. The methods are based on the foundational work of Breiman (1996) <doi:10.1007/BF00058655> on bagging and Wolpert (1992) <doi:10.1016/S0893-6080(05)80023-1> on stacking.
Author: Shanjie Luan [aut, cre]
Maintainer: Shanjie Luan <Luan20050519@163.com>

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Package udpipe updated to version 0.8.12 with previous version 0.8.11 dated 2023-01-06

Title: Tokenization, Parts of Speech Tagging, Lemmatization and Dependency Parsing with the 'UDPipe' 'NLP' Toolkit
Description: This natural language processing toolkit provides language-agnostic 'tokenization', 'parts of speech tagging', 'lemmatization' and 'dependency parsing' of raw text. Next to text parsing, the package also allows you to train annotation models based on data of 'treebanks' in 'CoNLL-U' format as provided at <https://universaldependencies.org/format.html>. The techniques are explained in detail in the paper: 'Tokenizing, POS Tagging, Lemmatizing and Parsing UD 2.0 with UDPipe', available at <doi:10.18653/v1/K17-3009>. The toolkit also contains functionalities for commonly used data manipulations on texts which are enriched with the output of the parser. Namely functionalities and algorithms for collocations, token co-occurrence, document term matrix handling, term frequency inverse document frequency calculations, information retrieval metrics (Okapi BM25), handling of multi-word expressions, keyword detection (Rapid Automatic Keyword Extraction, noun phrase extraction, syntact [...truncated...]
Author: Jan Wijffels [aut, cre, cph], BNOSAC [cph], Institute of Formal and Applied Linguistics, Faculty of Mathematics and Physics, Charles University in Prague, Czech Republic [cph], Milan Straka [ctb, cph], Jana Strakova [ctb, cph]
Maintainer: Jan Wijffels <jwijffels@bnosac.be>

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Package tabula updated to version 3.3.2 with previous version 3.3.1 dated 2025-05-15

Title: Analysis and Visualization of Archaeological Count Data
Description: An easy way to examine archaeological count data. This package provides several tests and measures of diversity: heterogeneity and evenness (Brillouin, Shannon, Simpson, etc.), richness and rarefaction (Chao1, Chao2, ACE, ICE, etc.), turnover and similarity (Brainerd-Robinson, etc.). It allows to easily visualize count data and statistical thresholds: rank vs abundance plots, heatmaps, Ford (1962) and Bertin (1977) diagrams, etc.
Author: Nicolas Frerebeau [aut, cre] , Matthew Peeples [ctb] , Ben Marwick [ctb] , Jean-Baptiste Fourvel [ctb] , Brice Lebrun [art] , Universite Bordeaux Montaigne [fnd] , CNRS [fnd]
Maintainer: Nicolas Frerebeau <nicolas.frerebeau@u-bordeaux-montaigne.fr>

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Package quarto updated to version 1.5.1 with previous version 1.5.0 dated 2025-07-28

Title: R Interface to 'Quarto' Markdown Publishing System
Description: Convert R Markdown documents and 'Jupyter' notebooks to a variety of output formats using 'Quarto'.
Author: JJ Allaire [aut] , Christophe Dervieux [cre, aut] , Posit Software, PBC [cph, fnd], Gordon Woodhull [ctb]
Maintainer: Christophe Dervieux <cderv@posit.co>

Diff between quarto versions 1.5.0 dated 2025-07-28 and 1.5.1 dated 2025-09-04

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Package KbMvtSkew updated to version 1.1.0 with previous version 1.0.2 dated 2020-03-23

Title: Khattree-Bahuguna's Univariate and Multivariate Skewness
Description: Computes Khattree-Bahuguna's univariate and multivariate skewness, principal-component-based Khattree-Bahuguna's multivariate skewness. It also provides several measures of univariate or multivariate skewnesses including, Pearson’s coefficient of skewness, Bowley’s univariate skewness and Mardia's multivariate skewness. See Khattree, R. and Bahuguna, M. (2019) <doi: 10.1007/s41060-018-0106-1>.
Author: Zhixin Lun [aut, cre] , Ravindra Khattree [aut]
Maintainer: Zhixin Lun <zhixin.lun@cuanschutz.edu>

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Package immundata updated to version 0.0.3 with previous version 0.0.1 dated 2025-04-08

Title: A Unified Data Layer for Large-Scale Single-Cell, Spatial and Bulk Immunomics
Description: Provides a unified data layer for single-cell, spatial and bulk T-cell and B-cell immune receptor repertoire data. Think AnnData or SeuratObject, but for AIRR data.
Author: Vadim I. Nazarov [aut, cre]
Maintainer: Vadim I. Nazarov <support@immunomind.com>

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Package CytoProfile updated to version 0.2.2 with previous version 0.2.1 dated 2025-05-19

Title: Cytokine Profiling Analysis Tool
Description: Provides comprehensive cytokine profiling analysis through quality control using biologically meaningful cutoffs on raw cytokine measurements and by testing for distributional symmetry to recommend appropriate transformations. Offers exploratory data analysis with summary statistics, enhanced boxplots, and barplots, along with univariate and multivariate analytical capabilities for in-depth cytokine profiling such as Principal Component Analysis based on Andrzej Maćkiewicz and Waldemar Ratajczak (1993) <doi:10.1016/0098-3004(93)90090-R>, Sparse Partial Least Squares Discriminant Analysis based on Lê Cao K-A, Boitard S, and Besse P (2011) <doi:10.1186/1471-2105-12-253>, Random Forest based on Breiman, L. (2001) <doi:10.1023/A:1010933404324>, and Extreme Gradient Boosting based on Tianqi Chen and Carlos Guestrin (2016) <doi:10.1145/2939672.2939785>.
Author: Shubh Saraswat [cre, aut, cph] , Xiaohua Douglas Zhang [aut]
Maintainer: Shubh Saraswat <shubh.saraswat00@gmail.com>

Diff between CytoProfile versions 0.2.1 dated 2025-05-19 and 0.2.2 dated 2025-09-04

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Package CondMVT updated to version 0.1.1 with previous version 0.1.0 dated 2022-06-28

Title: Conditional Multivariate t Distribution, Expectation Maximization Algorithm, and Its Stochastic Variants
Description: Computes conditional multivariate t probabilities, random deviates, and densities. It can also be used to create missing values at random in a dataset, resulting in a missing at random (MAR) mechanism. Inbuilt in the package are the Expectation-Maximization (EM), Monte Carlo EM, and Stochastic EM algorithms for imputation of missing values in datasets assuming the multivariate t distribution. See Kinyanjui, Tamba, Orawo, and Okenye (2020)<doi:10.3233/mas-200493>, and Kinyanjui, Tamba, and Okenye(2021)<http://www.ceser.in/ceserp/index.php/ijamas/article/view/6726/0> for more details.
Author: Paul Kinyanjui [aut, cre], Cox Tamba [aut], Justin Okenye [aut], Luke Orawo [ctb]
Maintainer: Paul Kinyanjui <kinyanjui.access@gmail.com>

Diff between CondMVT versions 0.1.0 dated 2022-06-28 and 0.1.1 dated 2025-09-04

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Package transDA updated to version 1.0.2 with previous version 1.0.1 dated 2025-06-09

Title: Transformation Discriminant Analysis
Description: Performs transformation discrimination analysis and non-transformation discrimination analysis. It also includes functions for Linear Discriminant Analysis, Quadratic Discriminant Analysis, and Mixture Discriminant Analysis. In the context of mixture discriminant analysis, it offers options for both common covariance matrix (common sigma) and individual covariance matrices (uncommon sigma) for the mixture components.
Author: Jing Li [aut, cre], Yana Melnykov [aut]
Maintainer: Jing Li <jli178@crimson.ua.edu>

Diff between transDA versions 1.0.1 dated 2025-06-09 and 1.0.2 dated 2025-09-04

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New package ricci with initial version 0.1.1
Package: ricci
Title: Ricci Calculus
Version: 0.1.1
Description: Provides a compact 'R' interface for performing tensor calculations. This is achieved by allowing (upper and lower) index labeling of arrays and making use of Ricci calculus conventions to implicitly trigger contractions and diagonal subsetting. Explicit tensor operations, such as addition, subtraction and multiplication of tensors via the standard operators, raising and lowering indices, taking symmetric or antisymmetric tensor parts, as well as the Kronecker product are available. Common tensors like the Kronecker delta, Levi Civita epsilon, certain metric tensors, the Christoffel symbols, the Riemann as well as Ricci tensors are provided. The covariant derivative of tensor fields with respect to any metric tensor can be evaluated. An effort was made to provide the user with useful error messages.
License: GPL (>= 3)
Encoding: UTF-8
Suggests: knitr, rmarkdown, Ryacas, testthat (>= 3.0.0), waldo
Imports: calculus, cli, rlang
Depends: R (>= 4.1.0)
URL: https://github.com/lschneiderbauer/ricci, https://lschneiderbauer.github.io/ricci/
BugReports: https://github.com/lschneiderbauer/ricci/issues
VignetteBuilder: knitr, rmarkdown
NeedsCompilation: no
Packaged: 2025-08-30 15:28:10 UTC; lukas
Author: Lukas Schneiderbauer [aut, cre, cph]
Maintainer: Lukas Schneiderbauer <lukas.schneiderbauer@gmail.com>
Repository: CRAN
Date/Publication: 2025-09-04 14:20:02 UTC

More information about ricci at CRAN
Permanent link

Package rgbif updated to version 3.8.3 with previous version 3.8.2 dated 2025-06-12

Title: Interface to the Global Biodiversity Information Facility API
Description: A programmatic interface to the Web Service methods provided by the Global Biodiversity Information Facility (GBIF; <https://www.gbif.org/developer/summary>). GBIF is a database of species occurrence records from sources all over the globe. rgbif includes functions for searching for taxonomic names, retrieving information on data providers, getting species occurrence records, getting counts of occurrence records, and using the GBIF tile map service to make rasters summarizing huge amounts of data.
Author: Scott Chamberlain [aut] , Damiano Oldoni [aut] , Vijay Barve [ctb] , Peter Desmet [ctb] , Laurens Geffert [ctb], Dan Mcglinn [ctb] , Karthik Ram [ctb] , rOpenSci [fnd] , John Waller [aut, cre]
Maintainer: John Waller <jwaller@gbif.org>

Diff between rgbif versions 3.8.2 dated 2025-06-12 and 3.8.3 dated 2025-09-04

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New package power4mome with initial version 0.1.0
Package: power4mome
Title: Power Analysis for Moderation and Mediation
Version: 0.1.0
Description: Power analysis and sample size determination for moderation, mediation, and moderated mediation in models fitted by structural equation modelling using the 'lavaan' package by Rosseel (2012) <doi:10.18637/jss.v048.i02> or by multiple regression. The package 'manymome' by Cheung and Cheung (2024) <doi:10.3758/s13428-023-02224-z> is used to specify the indirect paths or conditional indirect paths to be tested.
License: GPL (>= 3)
Encoding: UTF-8
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
Depends: R (>= 4.4.0)
URL: https://sfcheung.github.io/power4mome/
BugReports: https://github.com/sfcheung/power4mome/issues
Imports: lavaan, stats, manymome (>= 0.2.8), pbapply, parallel, pgnorm, lmhelprs (>= 0.4.2), psych, yaml, graphics, methods
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-08-31 07:40:34 UTC; shufa
Author: Shu Fai Cheung [aut, cre] , Sing-Hang Cheung [aut] , Wendie Yang [aut]
Maintainer: Shu Fai Cheung <shufai.cheung@gmail.com>
Repository: CRAN
Date/Publication: 2025-09-04 14:20:16 UTC

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Package mlflow updated to version 3.3.2 with previous version 3.2.0 dated 2025-08-21

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 3.2.0 dated 2025-08-21 and 3.3.2 dated 2025-09-04

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Package grateful updated to version 0.3.0 with previous version 0.2.12 dated 2025-04-30

Title: Facilitate Citation of R Packages
Description: Facilitates the citation of R packages used in analysis projects. Scans project for packages used, gets their citations, and produces a document with citations in the preferred bibliography format, ready to be pasted into reports or manuscripts. Alternatively, 'grateful' can be used directly within an 'R Markdown' or 'Quarto' document.
Author: Francisco Rodriguez-Sanchez [aut, cre, cph] , Connor P. Jackson [aut] , Shaurita D. Hutchins [ctb], James M. Clawson [ctb]
Maintainer: Francisco Rodriguez-Sanchez <f.rodriguez.sanc@gmail.com>

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New package ELIC with initial version 0.1.0
Package: ELIC
Title: LIC for Distributed Elliptical Model
Version: 0.1.0
Date: 2025-08-16
Description: This comprehensive toolkit for Distributed Elliptical model is designated as "ELIC" (The LIC for Distributed Elliptical Model Analysis) analysis. It is predicated on the assumption that the error term adheres to a Elliptical distribution. The philosophy of the package is described in Guo G. (2020) <doi:10.1080/02664763.2022.2053949>.
License: MIT + file LICENSE
Encoding: UTF-8
NeedsCompilation: no
Author: Guangbao Guo [aut, cre], Xiyu Zhao [aut]
Maintainer: Guangbao Guo <ggb11111111@163.com>
Repository: CRAN
Imports: distr, distrEllipse,MASS
Suggests: testthat (>= 3.0.0), sn
Depends: R (>= 4.4.0)
Packaged: 2025-08-27 01:37:26 UTC; 13269
Date/Publication: 2025-09-04 14:20:33 UTC

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Package boostmath updated to version 1.1.0 with previous version 1.0.2 dated 2025-07-31

Title: 'R' Bindings for the 'Boost' Math Functions
Description: 'R' bindings for the various functions and statistical distributions provided by the 'Boost' Math library <https://www.boost.org/doc/libs/latest/libs/math/doc/html/index.html>.
Author: Andrew R. Johnson [aut, cre]
Maintainer: Andrew R. Johnson <andrew.johnson@arjohnsonau.com>

Diff between boostmath versions 1.0.2 dated 2025-07-31 and 1.1.0 dated 2025-09-04

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New package booami with initial version 0.1.0
Package: booami
Language: en-US
Title: Component-Wise Gradient Boosting after Multiple Imputation
Version: 0.1.0
Description: Component-wise gradient boosting for analysis of multiply imputed datasets. Implements the algorithm Boosting after Multiple Imputation (MIBoost), which enforces uniform variable selection across imputations and provides utilities for pooling. Includes a cross-validation workflow that first splits the data into training and validation sets and then performs imputation on the training data, applying the learned imputation models to the validation data to avoid information leakage. Supports Gaussian and logistic loss. Methods relate to gradient boosting and multiple imputation as in Buehlmann and Hothorn (2007) <doi:10.1214/07-STS242>, Friedman (2001) <doi:10.1214/aos/1013203451>, and van Buuren (2018, ISBN:9781138588318) and Groothuis-Oudshoorn (2011) <doi:10.18637/jss.v045.i03>; see also Kuchen (2025) <doi:10.48550/arXiv.2507.21807>.
License: MIT + file LICENSE
URL: https://arxiv.org/abs/2507.21807, https://github.com/RobertKuchen/booami
BugReports: https://github.com/RobertKuchen/booami/issues
Encoding: UTF-8
Depends: R (>= 4.0)
Imports: MASS, stats, utils, withr
Suggests: mice, miceadds, Matrix, knitr, rmarkdown, testthat (>= 3.0.0), spelling
LazyData: true
NeedsCompilation: no
Packaged: 2025-08-30 10:27:36 UTC; rokuchen
Author: Robert Kuchen [aut, cre]
Maintainer: Robert Kuchen <rokuchen@uni-mainz.de>
Repository: CRAN
Date/Publication: 2025-09-04 14:10:06 UTC

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Package ib updated to version 0.2.1 with previous version 0.2.0 dated 2022-04-04

Title: Bias Correction via Iterative Bootstrap
Description: An implementation of the iterative bootstrap procedure of Kuk (1995) <doi:10.1111/j.2517-6161.1995.tb02035.x> to correct the estimation bias of a fitted model object. This procedure has better bias correction properties than the bootstrap bias correction technique.
Author: Samuel Orso [aut, cre], Stephane Guerrier [ctb], Yuming Zhang [ctb]
Maintainer: Samuel Orso <Samuel.Orso@unige.ch>

Diff between ib versions 0.2.0 dated 2022-04-04 and 0.2.1 dated 2025-09-04

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Package fresh updated to version 0.2.2 with previous version 0.2.1 dated 2024-06-26

Title: Create Custom 'Bootstrap' Themes to Use in 'Shiny'
Description: Customize 'Bootstrap' and 'Bootswatch' themes, like colors, fonts, grid layout, to use in 'Shiny' applications, 'rmarkdown' documents and 'flexdashboard'.
Author: Victor Perrier [aut, cre, cph], Fanny Meyer [aut], Thomas Park [ctb, cph] , Mark Otto [ctb] , Jacob Thornton [ctb] , Bootstrap contributors [ctb] , Twitter, Inc [cph] , onkbear [ctb, cph] , Colorlib [ctb, cph]
Maintainer: Victor Perrier <victor.perrier@dreamrs.fr>

Diff between fresh versions 0.2.1 dated 2024-06-26 and 0.2.2 dated 2025-09-04

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Package unhcrthemes updated to version 0.7.1 with previous version 0.7.0 dated 2025-06-27

Title: UNHCR 'ggplot2' Theme and Colour Palettes
Description: A 'ggplot2' theme and color palettes following the United Nations High Commissioner for Refugees (UNHCR) Data Visualization Guidelines recommendations.
Author: Cedric Vidonne [aut, cre], Ahmadou Dicko [aut], UNHCR [cph]
Maintainer: Cedric Vidonne <cedric@vidonne.me>

Diff between unhcrthemes versions 0.7.0 dated 2025-06-27 and 0.7.1 dated 2025-09-04

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Package lemon updated to version 0.5.2 with previous version 0.5.1 dated 2025-07-22

Title: Freshing Up your 'ggplot2' Plots
Description: Functions for working with legends and axis lines of 'ggplot2', facets that repeat axis lines on all panels, and some 'knitr' extensions.
Author: Stefan McKinnon Edwards [aut, ctb, cre] , Baptiste Auguie [ctb] , Shaun Jackman [ctb] , Hadley Wickham [ctb] , Winston Chang [ctb]
Maintainer: Stefan McKinnon Edwards <sme@iysik.com>

Diff between lemon versions 0.5.1 dated 2025-07-22 and 0.5.2 dated 2025-09-04

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Package brickster updated to version 0.2.9 with previous version 0.2.8.1 dated 2025-07-20

Title: R Toolkit for 'Databricks'
Description: Collection of utilities that improve using 'Databricks' from R. Primarily functions that wrap specific 'Databricks' APIs (<https://docs.databricks.com/api>), 'RStudio' connection pane support, quality of life functions to make 'Databricks' simpler to use.
Author: Zac Davies [aut, cre], Rafi Kurlansik [aut], Databricks [cph, fnd]
Maintainer: Zac Davies <zac@databricks.com>

Diff between brickster versions 0.2.8.1 dated 2025-07-20 and 0.2.9 dated 2025-09-04

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 brickster-0.2.9/brickster/DESCRIPTION                                                           |   11 
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 brickster-0.2.9/brickster/R/clusters.R                                                          |   16 
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Package wbids updated to version 1.1.0 with previous version 1.0.0 dated 2025-02-08

Title: Seamless Access to World Bank International Debt Statistics (IDS)
Description: Access and analyze the World Bank's International Debt Statistics (IDS) <https://www.worldbank.org/en/programs/debt-statistics/ids>. IDS provides creditor-debtor relationships between countries, regions, and institutions. 'wbids' enables users to download, process and work with IDS series across multiple geographies, counterparts, and time periods.
Author: Teal Emery [aut, cre], Teal Insights [cph], Christoph Scheuch [aut] , Christopher Smith [ctb]
Maintainer: Teal Emery <lte@tealinsights.com>

Diff between wbids versions 1.0.0 dated 2025-02-08 and 1.1.0 dated 2025-09-04

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Permanent link

Package visNetwork updated to version 2.1.4 with previous version 2.1.2 dated 2022-09-29

Title: Network Visualization using 'vis.js' Library
Description: Provides an R interface to the 'vis.js' JavaScript charting library. It allows an interactive visualization of networks.
Author: Almende B.V. and Contributors [aut, cph] , Benoit Thieurmel [aut, cre]
Maintainer: Benoit Thieurmel <bthieurmel@gmail.com>

Diff between visNetwork versions 2.1.2 dated 2022-09-29 and 2.1.4 dated 2025-09-04

 DESCRIPTION                              |    9 
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Package spatialreg updated to version 1.4-1 with previous version 1.3-6 dated 2024-12-02

Title: Spatial Regression Analysis
Description: A collection of all the estimation functions for spatial cross-sectional models (on lattice/areal data using spatial weights matrices) contained up to now in 'spdep'. These model fitting functions include maximum likelihood methods for cross-sectional models proposed by 'Cliff' and 'Ord' (1973, ISBN:0850860369) and (1981, ISBN:0850860814), fitting methods initially described by 'Ord' (1975) <doi:10.1080/01621459.1975.10480272>. The models are further described by 'Anselin' (1988) <doi:10.1007/978-94-015-7799-1>. Spatial two stage least squares and spatial general method of moment models initially proposed by 'Kelejian' and 'Prucha' (1998) <doi:10.1023/A:1007707430416> and (1999) <doi:10.1111/1468-2354.00027> are provided. Impact methods and MCMC fitting methods proposed by 'LeSage' and 'Pace' (2009) <doi:10.1201/9781420064254> are implemented for the family of cross-sectional spatial regression models. Methods for fitting the log determinant term in maximu [...truncated...]
Author: Roger Bivand [cre, aut] , Gianfranco Piras [aut], Luc Anselin [ctb], Andrew Bernat [ctb], Eric Blankmeyer [ctb], Yongwan Chun [ctb], Virgilio Gomez-Rubio [ctb], Daniel Griffith [ctb], Martin Gubri [ctb], Rein Halbersma [ctb], James LeSage [ctb], Ange [...truncated...]
Maintainer: Roger Bivand <Roger.Bivand@nhh.no>

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Package Ryacas0 updated to version 0.4.5 with previous version 0.4.4 dated 2023-01-12

Title: Legacy 'Ryacas' (Interface to 'Yacas' Computer Algebra System)
Description: A legacy version of 'Ryacas', an interface to the 'yacas' computer algebra system (<http://www.yacas.org/>).
Author: Mikkel Meyer Andersen [aut, cre, cph], Rob Goedman [aut, cph], Gabor Grothendieck [aut, cph], Soeren Hoejsgaard [aut, cph], Grzegorz Mazur [aut, cph], Ayal Pinkus [aut, cph], Nemanja Trifunovic [cph] )
Maintainer: Mikkel Meyer Andersen <mikl@math.aau.dk>

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Package robustbase updated to version 0.99-6 with previous version 0.99-4-1 dated 2024-09-27

Title: Basic Robust Statistics
Description: "Essential" Robust Statistics. Tools allowing to analyze data with robust methods. This includes regression methodology including model selections and multivariate statistics where we strive to cover the book "Robust Statistics, Theory and Methods" by 'Maronna, Martin and Yohai'; Wiley 2006.
Author: Martin Maechler [aut, cre] , Peter Rousseeuw [ctb] , Christophe Croux [ctb] , Valentin Todorov [aut] , Andreas Ruckstuhl [aut] , Matias Salibian-Barrera [aut] , Tobias Verbeke [ctb, fnd] , Manuel Koller [aut] , Eduardo L. T. Conceicao [aut] , Maria A [...truncated...]
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>

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Package periscope2 updated to version 0.3.0 with previous version 0.2.4 dated 2025-04-14

Title: Enterprise Streamlined 'shiny' Application Framework Using 'bs4Dash'
Description: A framework for building enterprise, scalable and UI-standardized 'shiny' applications. It brings enhanced features such as 'bootstrap' v4 <https://getbootstrap.com/docs/4.0/getting-started/introduction/>, additional and enhanced 'shiny' modules, customizable UI features, as well as an enhanced application file organization paradigm. This update allows developers to harness the ability to build powerful applications and enriches the 'shiny' developers' experience when building and maintaining applications.
Author: Mohammed Ali [aut, cre], Constance Brett [ctb], Aggregate Genius Inc [spn]
Maintainer: Mohammed Ali <mohammed@aggregate-genius.com>

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Package parcats updated to version 0.1.0 with previous version 0.0.5 dated 2023-12-10

Title: Interactive Parallel Categories Diagrams for 'easyalluvial'
Description: Complex graphical representations of data are best explored using interactive elements. 'parcats' adds interactive graphing capabilities to the 'easyalluvial' package. The 'plotly.js' parallel categories diagrams offer a good framework for creating interactive flow graphs that allow manual drag and drop sorting of dimensions and categories, highlighting single flows and displaying mouse over information. The 'plotly.js' dependency is quite heavy and therefore is outsourced into a separate package.
Author: Bjoern Koneswarakantha [aut, cre]
Maintainer: Bjoern Koneswarakantha <datistics@gmail.com>

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Package multid updated to version 1.0.1 with previous version 1.0.0 dated 2024-02-15

Title: Multivariate Difference Between Two Groups
Description: Estimation of multivariate differences between two groups (e.g., multivariate sex differences) with regularized regression methods and predictive approach. See Ilmarinen et al. (2023) <doi:10.1177/08902070221088155>. Deconstructing difference score correlations (e.g., gender-equality paradox), see Ilmarinen & Lönnqvist (2024) <doi:10.1037/pspp0000508>. Includes also tools that help in understanding difference score reliability, conditional intra-class correlations, tail-dependency, and heterogeneity of variance estimates. Package development was supported by the Academy of Finland research grant 338891.
Author: Ville-Juhani Ilmarinen [aut, cre]
Maintainer: Ville-Juhani Ilmarinen <vj.ilmarinen@gmail.com>

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Package modeltime.ensemble updated to version 1.1.0 with previous version 1.0.5 dated 2025-08-28

Title: Ensemble Algorithms for Time Series Forecasting with Modeltime
Description: A 'modeltime' extension that implements time series ensemble forecasting methods including model averaging, weighted averaging, and stacking. These techniques are popular methods to improve forecast accuracy and stability.
Author: Matt Dancho [aut, cre], Business Science [cph]
Maintainer: Matt Dancho <mdancho@business-science.io>

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Package mlr3measures updated to version 1.1.0 with previous version 1.0.0 dated 2024-09-11

Title: Performance Measures for 'mlr3'
Description: Implements multiple performance measures for supervised learning. Includes over 40 measures for regression and classification. Additionally, meta information about the performance measures can be queried, e.g. what the best and worst possible performances scores are.
Author: Michel Lang [aut] , Martin Binder [ctb], Marc Becker [cre, aut] , Lona Koers [aut]
Maintainer: Marc Becker <marcbecker@posteo.de>

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Package mirai updated to version 2.5.0 with previous version 2.4.1 dated 2025-07-15

Title: Minimalist Async Evaluation Framework for R
Description: Designed for simplicity, a 'mirai' evaluates an R expression asynchronously in a parallel process, locally or distributed over the network. Modern networking and concurrency, built on 'nanonext' and 'NNG', ensures reliable scheduling over fast inter-process communications or TCP/IP secured by TLS. Launch remote resources via SSH or cluster managers for distributed computing. Scales efficiently to millions of tasks over thousands of connections, requiring no storage on the file system due to its inherently queued architecture. Innovative features include event-driven promises, asynchronous parallel map, and seamless serialization of otherwise non-exportable reference objects.
Author: Charlie Gao [aut, cre] , Joe Cheng [ctb], Posit Software, PBC [cph, fnd] , Hibiki AI Limited [cph]
Maintainer: Charlie Gao <charlie.gao@posit.co>

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Package istacr updated to version 0.3.0 with previous version 0.2.2 dated 2022-12-20

Title: Obtaining Open Data from Instituto Canario De Estadistica (ISTAC) API
Description: You can access to open data published in Instituto Canario De Estadistica (ISTAC) APIs at <https://datos.canarias.es/api/estadisticas/>.
Author: Alberto Gonzalez [cph], Elisa Jorge [aut, cre]
Maintainer: Elisa Jorge <ejorgon@gobiernodecanarias.org>

Diff between istacr versions 0.2.2 dated 2022-12-20 and 0.3.0 dated 2025-09-04

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 R/indicators-indicators.R                                                             |  149 +--
 R/indicators-systems.R                                                                |  212 ++---
 R/services.R                                                                          |  361 ++++----
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Package intSDM readmission to version 2.1.2 with previous version 2.1.1 dated 2025-01-13

Title: Reproducible Integrated Species Distribution Models Across Norway using 'INLA'
Description: Integration of disparate datasets is needed in order to make efficient use of all available data and thereby address the issues currently threatening biodiversity. Data integration is a powerful modeling framework which allows us to combine these datasets together into a single model, yet retain the strengths of each individual dataset. We therefore introduce the package, 'intSDM': an R package designed to help ecologists develop a reproducible workflow of integrated species distribution models, using data both provided from the user as well as data obtained freely online. An introduction to data integration methods is discussed in Issac, Jarzyna, Keil, Dambly, Boersch-Supan, Browning, Freeman, Golding, Guillera-Arroita, Henrys, Jarvis, Lahoz-Monfort, Pagel, Pescott, Schmucki, Simmonds and O’Hara (2020) <doi:10.1016/j.tree.2019.08.006>.
Author: Philip Mostert [aut, cre], Angeline Bruls [aut], Ragnhild {Bjoerkas} [aut], Wouter Koch [aut], Ellen Martin [aut]
Maintainer: Philip Mostert <philip.s.mostert@ntnu.no>

This is a re-admission after prior archival of version 2.1.1 dated 2025-01-13

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Package gganimate updated to version 1.0.11 with previous version 1.0.10 dated 2025-06-21

Title: A Grammar of Animated Graphics
Description: The grammar of graphics as implemented in the 'ggplot2' package has been successful in providing a powerful API for creating static visualisation. In order to extend the API for animated graphics this package provides a completely new set of grammar, fully compatible with 'ggplot2' for specifying transitions and animations in a flexible and extensible way.
Author: Thomas Lin Pedersen [aut, cre] , David Robinson [aut], Posit, PBC [cph, fnd]
Maintainer: Thomas Lin Pedersen <thomasp85@gmail.com>

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Package UKB.COVID19 (with last version 0.1.6) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2024-08-17 0.1.6
2024-07-22 0.1.5
2024-01-24 0.1.4
2022-01-04 0.1.3
2021-12-19 0.1.2

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Package rredlist updated to version 1.1.1 with previous version 1.1.0 dated 2025-07-27

Title: 'IUCN' Red List Client
Description: 'IUCN' Red List (<https://api.iucnredlist.org/>) client. The 'IUCN' Red List is a global list of threatened and endangered species. Functions cover all of the Red List 'API' routes. An 'API' key is required.
Author: William Gearty [aut, cre] , Scott Chamberlain [aut] , rOpenSci [fnd] , Maelle Salmon [ctb] , Kevin Cazelles [rev] , Stephanie Hazlitt [rev]
Maintainer: William Gearty <willgearty@gmail.com>

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Package mockery updated to version 0.4.5 with previous version 0.4.4 dated 2023-09-26

Title: Mocking Library for R
Description: The two main functionalities of this package are creating mock objects (functions) and selectively intercepting calls to a given function that originate in some other function. It can be used with any testing framework available for R. Mock objects can be injected with either this package's own stub() function or a similar with_mocked_binding() facility present in the 'testthat' package.
Author: Noam Finkelstein [aut], Lukasz Bartnik [aut], Jim Hester [aut], Hadley Wickham [aut, cre]
Maintainer: Hadley Wickham <hadley@posit.co>

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Package leaflet updated to version 2.2.3 with previous version 2.2.2 dated 2024-03-26

Title: Create Interactive Web Maps with the JavaScript 'Leaflet' Library
Description: Create and customize interactive maps using the 'Leaflet' JavaScript library and the 'htmlwidgets' package. These maps can be used directly from the R console, from 'RStudio', in Shiny applications and R Markdown documents.
Author: Joe Cheng [aut], Barret Schloerke [aut] , Bhaskar Karambelkar [aut], Yihui Xie [aut], Garrick Aden-Buie [aut, cre] , Hadley Wickham [ctb], Kenton Russell [ctb], Kent Johnson [ctb], Vladimir Agafonkin [ctb, cph] , CloudMade [cph] , Leaflet contributor [...truncated...]
Maintainer: Garrick Aden-Buie <garrick@posit.co>

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Package gamlss.data updated to version 6.0-7 with previous version 6.0-6 dated 2024-03-14

Title: Data for Generalized Additive Models for Location Scale and Shape
Description: Data used as examples in the books on Generalized Additive Models for Location Scale and Shape: Stasinopoulos, Rigby, Heller, Voudouris, De Bastiani (2017). Flexible Regression and Smoothing: Using GAMLSS in R, <doi:10.1201/b21973>. Rigby, Stasinopoulos, Heller, De Bastiani (2019). Distributions for Modeling Location, Scale, and Shape Using GAMLSS in R, <doi:10.1201/9780429298547>. Stasinopoulos, Kneib, Klein, Mayr, Heller (2024). Generalized Additive Models for Location, Scale and Shape: A Distributional Regression Approach, with Applications, <doi:10.1017/9781009410076>.
Author: Mikis Stasinopoulos [aut, cre] , Robert Rigby [aut] , Fernanda De Bastiani [ctb]
Maintainer: Mikis Stasinopoulos <d.stasinopoulos@gre.ac.uk>

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Package Ecdat updated to version 0.4.7 with previous version 0.4-2 dated 2022-10-15

Title: Data Sets for Econometrics
Description: Data sets for econometrics, including political science.
Author: Yves Croissant [aut], Spencer Graves [aut, cre, ctb]
Maintainer: Spencer Graves <spencer.graves@effectivedefense.org>

Diff between Ecdat versions 0.4-2 dated 2022-10-15 and 0.4.7 dated 2025-09-04

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Package dials updated to version 1.4.2 with previous version 1.4.1 dated 2025-07-29

Title: Tools for Creating Tuning Parameter Values
Description: Many models contain tuning parameters (i.e. parameters that cannot be directly estimated from the data). These tools can be used to define objects for creating, simulating, or validating values for such parameters.
Author: Max Kuhn [aut], Hannah Frick [aut, cre], Posit Software, PBC [cph, fnd]
Maintainer: Hannah Frick <hannah@posit.co>

Diff between dials versions 1.4.1 dated 2025-07-29 and 1.4.2 dated 2025-09-04

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Package cppcontainers readmission to version 1.0.5 with previous version 1.0.4 dated 2025-01-15

Title: 'C++' Standard Template Library Containers
Description: Use 'C++' Standard Template Library containers interactively in R. Includes sets, unordered sets, multisets, unordered multisets, maps, unordered maps, multimaps, unordered multimaps, stacks, queues, priority queues, vectors, deques, forward lists, and lists.
Author: Christian Dueben [aut, cre]
Maintainer: Christian Dueben <cdueben.ml+cran@proton.me>

This is a re-admission after prior archival of version 1.0.4 dated 2025-01-15

Diff between cppcontainers versions 1.0.4 dated 2025-01-15 and 1.0.5 dated 2025-09-04

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Package synMicrodata updated to version 2.1.1 with previous version 2.1.0 dated 2024-11-21

Title: Synthetic Microdata Generator
Description: This tool fits a non-parametric Bayesian model called a "hierarchically coupled mixture model with local dependence (HCMM-LD)" to the original microdata in order to generate synthetic microdata for privacy protection. The non-parametric feature of the adopted model is useful for capturing the joint distribution of the original input data in a highly flexible manner, leading to the generation of synthetic data whose distributional features are similar to that of the input data. The package allows the original input data to have missing values and impute them with the posterior predictive distribution, so no missing values exist in the synthetic data output. The method builds on the work of Murray and Reiter (2016) <doi:10.1080/01621459.2016.1174132>.
Author: Juhee Lee [aut, cre], Hang J. Kim [aut], Young-Min Kim [aut], Jared Murray [aut]
Maintainer: Juhee Lee <ljh988488@gmail.com>

Diff between synMicrodata versions 2.1.0 dated 2024-11-21 and 2.1.1 dated 2025-09-04

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Package SNPfiltR readmission to version 1.0.7 with previous version 1.0.1 dated 2023-03-17

Title: Interactively Filter SNP Datasets
Description: Is designed to interactively and reproducibly visualize and filter SNP (single-nucleotide polymorphism) datasets. This R-based implementation of SNP and genotype filters facilitates an interactive and iterative SNP filtering pipeline, which can be documented reproducibly via 'rmarkdown'. 'SNPfiltR' contains functions for visualizing various quality and missing data metrics for a SNP dataset, and then filtering the dataset based on user specified cutoffs. All functions take 'vcfR' objects as input, which can easily be generated by reading standard vcf (variant call format) files into R using the R package 'vcfR' authored by Knaus and Grünwald (2017) <doi:10.1111/1755-0998.12549>. Each 'SNPfiltR' function can return a newly filtered 'vcfR' object, which can then be written to a local directory in standard vcf format using the 'vcfR' package, for downstream population genetic and phylogenetic analyses.
Author: Devon DeRaad [aut, cre]
Maintainer: Devon DeRaad <devonderaad@gmail.com>

This is a re-admission after prior archival of version 1.0.1 dated 2023-03-17

Diff between SNPfiltR versions 1.0.1 dated 2023-03-17 and 1.0.7 dated 2025-09-04

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Package ppmf updated to version 0.2.1 with previous version 0.1.3 dated 2021-12-15

Title: Read Census Privacy Protected Microdata Files
Description: Implements data processing described in <doi:10.1126/sciadv.abk3283> to align modern differentially private data with formatting of older US Census data releases. The primary goal is to read in Census Privacy Protected Microdata Files data in a reproducible way. This includes tools for aggregating to relevant levels of geography by creating geographic identifiers which match the US Census Bureau's numbering. Additionally, there are tools for grouping race numeric identifiers into categories, consistent with OMB (Office of Management and Budget) classifications. Functions exist for downloading and linking to existing sources of privacy protected microdata.
Author: Christopher T. Kenny [aut, cre]
Maintainer: Christopher T. Kenny <ctkenny@proton.me>

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Package planscorer updated to version 0.0.3 with previous version 0.0.2 dated 2024-09-24

Title: Score Redistricting Plans with 'PlanScore'
Description: Provides access to the 'PlanScore' Application Programming Interface (<https://github.com/PlanScore/PlanScore/blob/main/API.md>) for scoring redistricting plans. Allows for upload of plans from block assignment files and shape files. For shapes in memory, such as from 'sf' or 'redist', it processes them to save and upload. Includes tools for tidying responses and saving output from the website.
Author: Christopher T. Kenny [aut, trl, cre] , Michal Migurski [aut] , Cory McCartan [art]
Maintainer: Christopher T. Kenny <ctkenny@proton.me>

Diff between planscorer versions 0.0.2 dated 2024-09-24 and 0.0.3 dated 2025-09-04

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Package patterncausality updated to version 0.2.2 with previous version 0.2.1 dated 2025-02-15

Title: Pattern Causality Algorithm
Description: A comprehensive package for detecting and analyzing causal relationships in complex systems using pattern-based approaches. Key features include state space reconstruction, pattern identification, and causality strength evaluation.
Author: Stavros Stavroglou [aut, cre] , Athanasios Pantelous [aut] , Hui Wang [aut]
Maintainer: Stavros Stavroglou <stavros.k.stavroglou@gmail.com>

Diff between patterncausality versions 0.2.1 dated 2025-02-15 and 0.2.2 dated 2025-09-04

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Package opengraph updated to version 0.0.3 with previous version 0.0.2 dated 2024-12-10

Title: Process Metadata from the 'Open Graph Protocol'
Description: Social media sites often embed cards when links are shared, based on metadata in the 'Open Graph Protocol' (<https://ogp.me/>). This supports extracting that metadata from a website. It further allows for the creation of tags to add to a website to support the 'Open Graph Protocol' and provides a list of the standard tags and their required properties.
Author: Christopher T. Kenny [aut, cre]
Maintainer: Christopher T. Kenny <ctkenny@proton.me>

Diff between opengraph versions 0.0.2 dated 2024-12-10 and 0.0.3 dated 2025-09-04

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Package OmicFlow updated to version 1.3.1 with previous version 1.3.0 dated 2025-09-01

Title: Fast and Efficient (Automated) Analysis of Sparse Omics Data
Description: A generalised data structure for fast and efficient loading and data munching of sparse omics data. The 'OmicFlow' requires an up-front validated metadata template from the user, which serves as a guide to connect all the pieces together by aligning them into a single object that is defined as an 'omics' class. Once this unified structure is established, users can perform manual subsetting, visualisation, and statistical analysis, or leverage the automated 'autoFlow' method to generate a comprehensive report.
Author: Alem Gusinac [aut, cre] , Thomas Ederveen [aut] , Annemarie Boleij [aut, fnd]
Maintainer: Alem Gusinac <alem.gusinac@gmail.com>

Diff between OmicFlow versions 1.3.0 dated 2025-09-01 and 1.3.1 dated 2025-09-04

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Package mdendro updated to version 2.2.3 with previous version 2.2.2 dated 2025-08-20

Title: Extended Agglomerative Hierarchical Clustering
Description: A comprehensive collection of linkage methods for agglomerative hierarchical clustering on a matrix of proximity data (distances or similarities), returning a multifurcated dendrogram or multidendrogram. Multidendrograms can group more than two clusters when ties in proximity data occur, and therefore they do not depend on the order of the input data. Descriptive measures to analyze the resulting dendrogram are additionally provided. <doi:10.18637/jss.v114.i02>.
Author: Alberto Fernandez [aut, cre] , Sergio Gomez [aut]
Maintainer: Alberto Fernandez <alberto.fernandez@urv.cat>

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Package lfstat updated to version 0.9.13 with previous version 0.9.12 dated 2022-11-08

Title: Calculation of Low Flow Statistics for Daily Stream Flow Data
Description: The "Manual on Low-flow Estimation and Prediction" (Gustard & Demuth (2009, ISBN:978-92-63-11029-9)), published by the World Meteorological Organisation, gives a comprehensive summary on how to analyse stream flow data focusing on low-flows. This packages provides functions to compute the described statistics and produces plots similar to the ones in the manual.
Author: Tobias Gauster [ctb, cre], Gregor Laaha [aut] , Daniel Koffler [aut]
Maintainer: Tobias Gauster <t.gauster@gmail.com>

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Package fireexposuR (with last version 1.1.0) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2025-05-27 1.1.0

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Package mlr3batchmark updated to version 0.2.2 with previous version 0.2.1 dated 2025-05-26

Title: Batch Experiments for 'mlr3'
Description: Extends the 'mlr3' package with a connector to the package 'batchtools'. This allows to run large-scale benchmark experiments on scheduled high-performance computing clusters.
Author: Marc Becker [cre, aut] , Michel Lang [aut] , Toby Hocking [ctb]
Maintainer: Marc Becker <marcbecker@posteo.de>

Diff between mlr3batchmark versions 0.2.1 dated 2025-05-26 and 0.2.2 dated 2025-09-04

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Package classifly (with last version 0.4.1) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2022-05-20 0.4.1
2014-04-23 0.4
2011-01-29 0.3
2007-03-14 0.2.3

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Package kinship2 updated to version 1.9.6.2 with previous version 1.9.6.1 dated 2024-03-24

Title: Pedigree Functions
Description: Routines to handle family data with a pedigree object. The initial purpose was to create correlation structures that describe family relationships such as kinship and identity-by-descent, which can be used to model family data in mixed effects models, such as in the coxme function. Also includes a tool for pedigree drawing which is focused on producing compact layouts without intervention. Recent additions include utilities to trim the pedigree object with various criteria, and kinship for the X chromosome.
Author: Jason Sinnwell [aut, cre], Terry Therneau [aut], Daniel Schaid [ctb], Elizabeth Atkinson [ctb], Carly Mester [ctb]
Maintainer: Jason Sinnwell <sinnwell.jason@mayo.edu>

Diff between kinship2 versions 1.9.6.1 dated 2024-03-24 and 1.9.6.2 dated 2025-09-04

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Package InterpolateR updated to version 1.4-3 with previous version 1.3-4 dated 2025-05-02

Title: A Comprehensive Toolkit for Fast and Efficient Spatial Interpolation
Description: Spatial interpolation toolkit designed for environmental and geospatial applications. It includes a range of methods, from traditional techniques to advanced machine learning approaches, ensuring accurate and efficient estimation of values in unobserved locations.
Author: Jonnathan Landi [aut, cre, cph] , Marco Mogro [aut]
Maintainer: Jonnathan Landi <jonnathan.landi@outlook.com>

Diff between InterpolateR versions 1.3-4 dated 2025-05-02 and 1.4-3 dated 2025-09-04

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Package BoomSpikeSlab updated to version 1.2.7 with previous version 1.2.6 dated 2023-12-16

Title: MCMC for Spike and Slab Regression
Description: Spike and slab regression with a variety of residual error distributions corresponding to Gaussian, Student T, probit, logit, SVM, and a few others. Spike and slab regression is Bayesian regression with prior distributions containing a point mass at zero. The posterior updates the amount of mass on this point, leading to a posterior distribution that is actually sparse, in the sense that if you sample from it many coefficients are actually zeros. Sampling from this posterior distribution is an elegant way to handle Bayesian variable selection and model averaging. See <DOI:10.1504/IJMMNO.2014.059942> for an explanation of the Gaussian case.
Author: Steven L. Scott [aut, cre]
Maintainer: Steven L. Scott <steve.the.bayesian@gmail.com>

Diff between BoomSpikeSlab versions 1.2.6 dated 2023-12-16 and 1.2.7 dated 2025-09-04

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Wed, 03 Sep 2025

Package googlesheets4 updated to version 1.1.2 with previous version 1.1.1 dated 2023-06-10

Title: Access Google Sheets using the Sheets API V4
Description: Interact with Google Sheets through the Sheets API v4 <https://developers.google.com/sheets/api>. "API" is an acronym for "application programming interface"; the Sheets API allows users to interact with Google Sheets programmatically, instead of via a web browser. The "v4" refers to the fact that the Sheets API is currently at version 4. This package can read and write both the metadata and the cell data in a Sheet.
Author: Jennifer Bryan [cre, aut] , Posit Software, PBC [cph, fnd]
Maintainer: Jennifer Bryan <jenny@posit.co>

Diff between googlesheets4 versions 1.1.1 dated 2023-06-10 and 1.1.2 dated 2025-09-03

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Package misclassGLM updated to version 0.3.6 with previous version 0.3.5 dated 2023-11-19

Title: Computation of Generalized Linear Models with Misclassified Covariates Using Side Information
Description: Estimates models that extend the standard GLM to take misclassification into account. The models require side information from a secondary data set on the misclassification process, i.e. some sort of misclassification probabilities conditional on some common covariates. A detailed description of the algorithm can be found in Dlugosz, Mammen and Wilke (2015) <https://ftp.zew.de/pub/zew-docs/dp/dp15043.pdf>.
Author: Stephan Dlugosz [aut, cre]
Maintainer: Stephan Dlugosz <stephan.dlugosz@googlemail.com>

Diff between misclassGLM versions 0.3.5 dated 2023-11-19 and 0.3.6 dated 2025-09-03

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Package bigrquery updated to version 1.6.0 with previous version 1.5.1 dated 2024-03-14

Title: An Interface to Google's 'BigQuery' 'API'
Description: Easily talk to Google's 'BigQuery' database from R.
Author: Hadley Wickham [aut, cre] , Jennifer Bryan [aut] , Posit Software, PBC [cph, fnd]
Maintainer: Hadley Wickham <hadley@posit.co>

Diff between bigrquery versions 1.5.1 dated 2024-03-14 and 1.6.0 dated 2025-09-03

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Package stm updated to version 1.3.8 with previous version 1.3.7 dated 2023-12-01

Title: Estimation of the Structural Topic Model
Description: The Structural Topic Model (STM) allows researchers to estimate topic models with document-level covariates. The package also includes tools for model selection, visualization, and estimation of topic-covariate regressions. Methods developed in Roberts et. al. (2014) <doi:10.1111/ajps.12103> and Roberts et. al. (2016) <doi:10.1080/01621459.2016.1141684>. Vignette is Roberts et. al. (2019) <doi:10.18637/jss.v091.i02>.
Author: Margaret Roberts [aut], Brandon Stewart [aut, cre], Dustin Tingley [aut], Kenneth Benoit [ctb]
Maintainer: Brandon Stewart <bms4@princeton.edu>

Diff between stm versions 1.3.7 dated 2023-12-01 and 1.3.8 dated 2025-09-03

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More information about stm at CRAN
Permanent link

New package spell.replacer with initial version 1.0.1
Package: spell.replacer
Title: Probabilistic Spelling Correction in a Character Vector
Version: 1.0.1
Description: Automatically replaces "misspelled" words in a character vector based on their string distance from a list of words sorted by their frequency in a corpus. The default word list provided in the package comes from the Corpus of Contemporary American English. Uses the Jaro-Winkler distance metric for string similarity as implemented in van der Loo (2014) <doi:10.32614/RJ-2014-011>. The word frequency data is derived from Davies (2008-) "The Corpus of Contemporary American English (COCA)" <https://www.english-corpora.org/coca/>.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Depends: R (>= 2.10)
Imports: hunspell, stringr, stringdist, textclean
Suggests: rmarkdown, knitr, testthat (>= 3.0.0)
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-08-29 19:11:59 UTC; runner
Author: David Brown [aut, cre]
Maintainer: David Brown <dwb2@andrew.cmu.edu>
Repository: CRAN
Date/Publication: 2025-09-03 21:10:02 UTC

More information about spell.replacer at CRAN
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Package roxygen2 updated to version 7.3.3 with previous version 7.3.2 dated 2024-06-28

Title: In-Line Documentation for R
Description: Generate your Rd documentation, 'NAMESPACE' file, and collation field using specially formatted comments. Writing documentation in-line with code makes it easier to keep your documentation up-to-date as your requirements change. 'roxygen2' is inspired by the 'Doxygen' system for C++.
Author: Hadley Wickham [aut, cre, cph] , Peter Danenberg [aut, cph], Gabor Csardi [aut], Manuel Eugster [aut, cph], Posit Software, PBC [cph, fnd]
Maintainer: Hadley Wickham <hadley@posit.co>

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Package ricu updated to version 0.6.3 with previous version 0.5.6 dated 2023-09-04

Title: Intensive Care Unit Data with R
Description: Focused on (but not exclusive to) data sets hosted on PhysioNet (<https://physionet.org>), 'ricu' provides utilities for download, setup and access of intensive care unit (ICU) data sets. In addition to functions for running arbitrary queries against available data sets, a system for defining clinical concepts and encoding their representations in tabular ICU data is presented.
Author: Nicolas Bennett [aut, cre], Drago Plecko [aut], Ida-Fong Ukor [aut]
Maintainer: Nicolas Bennett <r@nbenn.ch>

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Package prt updated to version 0.2.1 with previous version 0.2.0 dated 2023-04-09

Title: Tabular Data Backed by Partitioned 'fst' Files
Description: Intended for larger-than-memory tabular data, 'prt' objects provide an interface to read row and/or column subsets into memory as data.table objects. Data queries, constructed as 'R' expressions, are evaluated using the non-standard evaluation framework provided by 'rlang' and file-backing is powered by the fast and efficient 'fst' package.
Author: Nicolas Bennett [aut, cre], Drago Plecko [ctb]
Maintainer: Nicolas Bennett <r@nbenn.ch>

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Package pnd updated to version 0.1.1 with previous version 0.1.0 dated 2025-05-20

Title: Parallel Numerical Derivatives, Gradients, Jacobians, and Hessians of Arbitrary Accuracy Order
Description: Numerical derivatives through finite-difference approximations can be calculated using the 'pnd' package with parallel capabilities and optimal step-size selection to improve accuracy. These functions facilitate efficient computation of derivatives, gradients, Jacobians, and Hessians, allowing for more evaluations to reduce the mathematical and machine errors. Designed for compatibility with the 'numDeriv' package, which has not received updates in several years, it introduces advanced features such as computing derivatives of arbitrary order, improving the accuracy of Hessian approximations by avoiding repeated differencing, and parallelising slow functions on Windows, Mac, and Linux.
Author: Andrei Victorovitch Kostyrka [aut, cre]
Maintainer: Andrei Victorovitch Kostyrka <andrei.kostyrka@gmail.com>

Diff between pnd versions 0.1.0 dated 2025-05-20 and 0.1.1 dated 2025-09-03

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New package MultivariateTrendAnalysis with initial version 0.1.3
Package: MultivariateTrendAnalysis
Title: Univariate and Multivariate Trend Testing
Version: 0.1.3
Description: With foundations on the work by Goutali and Chebana (2024) <doi:10.1016/j.envsoft.2024.106090>, this package contains various univariate and multivariate trend tests. The main functions regard the Multivariate Dependence Trend and Multivariate Overall Trend tests as proposed by Goutali and Chebana (2024), as well as a plotting function that proves useful as a summary and complement of the tests. Although many packages and methods carry univariate tests, the Mann-Kendall and Spearman's rho test implementations are included in the package with an adapted version to hydrological formulation (e.g. as in Rao and Hamed 1998 <doi:10.1016/S0022-1694(97)00125-X> or Chebana 2022 <doi:10.1016/C2021-0-01317-1>). For better understanding of the example use of the functions, three datasets are included. These are synthetic data and shouldn't be used beyond that purpose.
License: GPL (>= 3)
Depends: R (>= 4.0.0)
Imports: copula, resample, VGAM, zoo
Encoding: UTF-8
Suggests: spelling
Language: en-US
NeedsCompilation: no
Packaged: 2025-08-29 19:02:22 UTC; gabrielreynoso
Author: Dorsaf Goutali [aut, cre], Fateh Chebana [aut]
Maintainer: Dorsaf Goutali <dorsaf.goutali@inrs.ca>
Repository: CRAN
Date/Publication: 2025-09-03 21:10:13 UTC

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New package multiModTest with initial version 1.0
Package: multiModTest
Title: Information Assessment for Individual Modalities in Multimodal Regression Models
Version: 1.0
Description: Provides methods for quantifying the information gain contributed by individual modalities in multimodal regression models. Information gain is measured using Expected Relative Entropy (ERE) or pseudo-R² metrics, with corresponding p-values and confidence intervals. Currently supports linear and logistic regression models with plans for extension to additional Generalized Linear Models and Cox proportional hazard model.
License: GPL-3
Encoding: UTF-8
Imports: tidyverse, MASS, SIS, glmnet, ncvreg, MBESS, survival, dplyr
Depends: R (>= 3.6.0)
NeedsCompilation: no
Packaged: 2025-08-29 20:33:59 UTC; 10518
Author: Wanting Jin [aut, cre], Quefeng Li [aut]
Maintainer: Wanting Jin <jinwanting5@gmail.com>
LazyData: true
Repository: CRAN
Date/Publication: 2025-09-03 21:30:02 UTC

More information about multiModTest at CRAN
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Package inTextSummaryTable updated to version 3.3.4 with previous version 3.3.3 dated 2024-06-12

Title: Creation of in-Text Summary Table
Description: Creation of tables of summary statistics or counts for clinical data (for 'TLFs'). These tables can be exported as in-text table (with the 'flextable' package) for a Clinical Study Report (Word format) or a 'topline' presentation (PowerPoint format), or as interactive table (with the 'DT' package) to an html document for clinical data review.
Author: Laure Cougnaud [aut, cre], Michela Pasetto [aut], Margaux Faes [rev] , Open Analytics [cph]
Maintainer: Laure Cougnaud <laure.cougnaud@openanalytics.eu>

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New package Epoch with initial version 1.0.3
Package: Epoch
Title: IEEG (Intracranial Electroencephalography) Epoch Data Tools
Version: 1.0.3
Description: Provides tools for working with iEEG matrix data, including downloading curated iEEG data from OSF (The Open Science Framework <https://osf.io/>) (EpochDownloader()), making new objects (Epoch()), processing (crop() and resample()), and visualizing the data (plot()).
License: GPL (>= 3)
Encoding: UTF-8
Biarch: true
Depends: R (>= 4.1)
Imports: ggplot2, methods, ramify, TableContainer, glue, osfr, jsonlite, rlang, ggtext, gsignal
SystemRequirements: GNU make
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-08-29 20:55:01 UTC; jiewang
Author: Jiefei Wang [aut, cre]
Maintainer: Jiefei Wang <szwjf08@gmail.com>
Repository: CRAN
Date/Publication: 2025-09-03 21:30:07 UTC

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Package ellmer updated to version 0.3.2 with previous version 0.3.1 dated 2025-08-24

Title: Chat with Large Language Models
Description: Chat with large language models from a range of providers including 'Claude' <https://claude.ai>, 'OpenAI' <https://chatgpt.com>, and more. Supports streaming, asynchronous calls, tool calling, and structured data extraction.
Author: Hadley Wickham [aut, cre] , Joe Cheng [aut], Aaron Jacobs [aut], Garrick Aden-Buie [aut] , Barret Schloerke [aut] , Posit Software, PBC [cph, fnd]
Maintainer: Hadley Wickham <hadley@posit.co>

Diff between ellmer versions 0.3.1 dated 2025-08-24 and 0.3.2 dated 2025-09-03

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New package einops with initial version 0.2.1
Package: einops
Title: Flexible, Powerful, and Readable Tensor Operations
Version: 0.2.1
Maintainer: Qile Yang <qile.yang@berkeley.edu>
Description: Perform tensor operations using a concise yet expressive syntax inspired by the Python library of the same name. Reshape, rearrange, and combine multidimensional arrays for scientific computing, machine learning, and data analysis. Einops simplifies complex manipulations, making code more maintainable and intuitive. The original implementation is demonstrated in Rogozhnikov (2022) <https://openreview.net/forum?id=oapKSVM2bcj>.
License: MIT + file LICENSE
Encoding: UTF-8
URL: https://github.com/Qile0317/einops, https://qile0317.github.io/einops/
BugReports: https://github.com/Qile0317/einops/issues
Imports: assertthat, FastUtils, glue, magrittr, r2r, R6, roperators
Suggests: abind, grid, imager, knitr, lifecycle, lintr, lobstr, rmarkdown, spelling, testthat (>= 3.0.0), torch, zeallot
VignetteBuilder: knitr
Depends: R (>= 3.5)
LazyData: true
Language: en-US
NeedsCompilation: no
Packaged: 2025-08-29 22:24:54 UTC; qile
Author: Qile Yang [cre, aut, cph]
Repository: CRAN
Date/Publication: 2025-09-03 21:40:08 UTC

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Package broman updated to version 0.88 with previous version 0.86 dated 2025-06-08

Title: Karl Broman's R Code
Description: Miscellaneous R functions, including functions related to graphics (mostly for base graphics), permutation tests, running mean/median, and general utilities.
Author: Karl W Broman [aut, cre] , Aimee Teo Broman [ctb]
Maintainer: Karl W Broman <broman@wisc.edu>

Diff between broman versions 0.86 dated 2025-06-08 and 0.88 dated 2025-09-03

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Package trtswitch updated to version 0.1.9 with previous version 0.1.8 dated 2025-07-12

Title: Treatment Switching
Description: Implements rank-preserving structural failure time model (RPSFTM), iterative parameter estimation (IPE), inverse probability of censoring weights (IPCW), and two-stage estimation (TSE) methods for treatment switching in randomized clinical trials.
Author: Kaifeng Lu [aut, cre]
Maintainer: Kaifeng Lu <kaifenglu@gmail.com>

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 inst/doc/tsegest.Rmd          |   25 
 inst/doc/tsegest.html         |   90 +
 inst/doc/tsesimp.R            |    2 
 inst/doc/tsesimp.Rmd          |    6 
 inst/doc/tsesimp.html         |    9 
 man/ipcw.Rd                   |   34 
 man/ipe.Rd                    |    3 
 man/msm.Rd                    |   15 
 man/residuals_liferegr.Rd     |   23 
 man/residuals_phregr.Rd       |    2 
 man/rpsftm.Rd                 |    3 
 man/survfit_phregr.Rd         |    2 
 man/survsplit.Rd              |    2 
 man/tsegest.Rd                |   16 
 man/tsegestsim.Rd             |    2 
 man/tsesimp.Rd                |    3 
 man/tssim.Rd                  |   69 +
 src/RcppExports.cpp           |   61 +
 src/ipcw.cpp                  |  572 ++++++++----
 src/ipe.cpp                   |  761 +++++++++-------
 src/logistic_regression.cpp   |   43 
 src/msm.cpp                   |  567 ++++++++---
 src/rpsftm.cpp                |  715 +++++++++------
 src/survival_analysis.cpp     | 1985 +++++++++++++++++++++---------------------
 src/tsegest.cpp               | 1070 ++++++++++++++--------
 src/tsegestsim.cpp            |   37 
 src/tsesimp.cpp               |  706 +++++++++-----
 src/tssim.cpp                 |  173 ++-
 src/utilities.cpp             |  169 +++
 src/utilities.h               |   20 
 tests/testthat/test-ipcw.R    |  303 +++---
 tests/testthat/test-ipe.R     |    4 
 tests/testthat/test-msm.R     |  177 +--
 tests/testthat/test-rpsftm.R  |   13 
 tests/testthat/test-tsegest.R |   82 -
 tests/testthat/test-tsesimp.R |    2 
 vignettes/ipcw.Rmd            |  343 +++----
 vignettes/ipe.Rmd             |   12 
 vignettes/msm.Rmd             |  214 ++--
 vignettes/rpsftm.Rmd          |    2 
 vignettes/tsegest.Rmd         |   25 
 vignettes/tsesimp.Rmd         |    6 
 68 files changed, 6794 insertions(+), 4863 deletions(-)

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New package TrialSimulator with initial version 1.0.0
Package: TrialSimulator
Title: Clinical Trial Simulator
Version: 1.0.0
Description: Simulate phase II and/or phase III clinical trials. It supports various types of endpoints and adaptive strategies. Tools for carrying out graphical testing procedure and combination test under group sequential design are also provided.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: base64enc, dplyr, emmeans, ggplot2, gMCPLite, htmltools, mvtnorm, R6, rlang, rpact, rstudioapi, survival, utils
Suggests: DoseFinding, graphicalMCP, kableExtra, knitr, rmarkdown, simdata, survminer, testthat (>= 3.0.0)
VignetteBuilder: knitr
URL: https://zhangh12.github.io/TrialSimulator/
BugReports: https://github.com/zhangh12/TrialSimulator/issues
Depends: R (>= 4.1.0)
NeedsCompilation: no
Packaged: 2025-08-29 06:25:20 UTC; zhhan
Author: Han Zhang [cre, aut]
Maintainer: Han Zhang <zhangh.ustc@gmail.com>
Repository: CRAN
Date/Publication: 2025-09-03 20:50:13 UTC

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New package rtiktokads with initial version 0.3.2
Package: rtiktokads
Title: Load Data from 'tiktok Marketing API'
Version: 0.3.2
Description: Loading data from 'tiktok Marketing API' <https://business-api.tiktok.com/portal> by business centers, advertisers, budgets and reports.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: cli, dplyr, httr2, jsonlite, purrr, rappdirs, stringr, tidyr, utils
Depends: R (>= 4.1.0)
URL: https://github.com/selesnow/rtiktokads
BugReports: https://github.com/selesnow/rtiktokads/issues
NeedsCompilation: no
Packaged: 2025-08-29 14:11:37 UTC; User
Author: Alexey Seleznev [aut, cre] , Netpeak [cph]
Maintainer: Alexey Seleznev <selesnow@gmail.com>
Repository: CRAN
Date/Publication: 2025-09-03 21:00:09 UTC

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Package lvplot updated to version 0.2.2 with previous version 0.2.1 dated 2022-09-25

Title: Letter Value 'Boxplots'
Description: Implements the letter value 'boxplot' which extends the standard 'boxplot' to deal with both larger and smaller number of data points by dynamically selecting the appropriate number of letter values to display.
Author: Hadley Wickham [aut, cre], Heike Hofmann [aut]
Maintainer: Hadley Wickham <hadley@rstudio.com>

Diff between lvplot versions 0.2.1 dated 2022-09-25 and 0.2.2 dated 2025-09-03

 DESCRIPTION           |   11 +++++----
 MD5                   |   14 +++++------
 NAMESPACE             |    2 +
 NEWS.md               |    9 +++----
 R/geom-lv.r           |   10 +++++---
 R/lvbagplot.R         |    8 ++----
 man/geom_lv.Rd        |   59 ++++++++++++++++++++++++++++++++++++++------------
 man/lvplot-package.Rd |    8 ++++++
 8 files changed, 83 insertions(+), 38 deletions(-)

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New package cppSim with initial version 0.2
Package: cppSim
Title: Fast and Memory Efficient Spatial Interaction Models
Version: 0.2
Author: Ivann Schlosser [aut, cre]
Maintainer: Ivann Schlosser <ivann.schlosser.19@ucl.ac.uk>
Description: Building on top of the 'RcppArmadillo' linear algebra functionalities to do fast spatial interaction models in the context of urban analytics, geography, transport modelling. It uses the Newton root search algorithm to determine the optimal cost exponent and can run country level models with thousands of origins and destinations. It aims at implementing an easy approach based on matrices, that can originate from various routing and processing steps earlier in an workflow. Currently, the simplest form of production, destination and doubly constrained models are implemented. Schlosser et al. (2023) <doi:10.48550/arXiv.2309.02112>.
Date: 2025-08-29
License: MIT + file LICENSE
URL: https://ischlo.github.io/cppSim/, https://github.com/ischlo/cppSim
Depends: R (>= 3.6)
Imports: Rcpp
Suggests: data.table, foreach, knitr, rlist, rmarkdown, cli, sf, testthat (>= 3.0.0)
LinkingTo: Rcpp, RcppArmadillo
VignetteBuilder: knitr
Encoding: UTF-8
LazyData: true
LazyDataCompression: bzip2
SystemRequirements: Quarto command line tools (https://github.com/quarto-dev/quarto-cli).
NeedsCompilation: yes
Packaged: 2025-08-29 14:44:01 UTC; cenv1069
Repository: CRAN
Date/Publication: 2025-09-03 21:00:14 UTC

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New package CompClassMetrics with initial version 0.1.0
Package: CompClassMetrics
Title: Classification Measures when Subclasses are Involved
Version: 0.1.0
Description: Accuracy metrics are commonly used to assess the discriminating ability of diagnostic tests or biomarkers. Among them, metrics based on the ROC framework are particularly popular. When classification involves subclasses, the package 'CompClassMetrics' includes functions that can provide the point estimate, confidence interval as well as true values if a parametric setting is known. For more details see Nan and Tian (2025) <doi:10.1177/09622802251343600> and Nan and Tian (2023) <doi:10.1002/sim.9908> and Feng and Tian (2020) <doi:10.1177/0962280220938077>.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: plot3D, pracma, cubature, stats
NeedsCompilation: no
Packaged: 2025-08-29 16:40:34 UTC; nannan
Author: Nan Nan [aut, cre]
Maintainer: Nan Nan <nannan@buffalo.edu>
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2025-09-03 21:00:20 UTC

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