Fri, 21 Mar 2025

Package rUM updated to version 2.1.0 with previous version 2.0.0 dated 2024-06-02

Title: R Templates from the University of Miami
Description: This holds some r markdown and quarto templates and a template to create a research project in "R Studio".
Author: Raymond Balise [aut, cre] , Gabriel Odom [aut] , Kyle Grealis [aut] , Francisco Cardozo [aut] , Frank Gutierrez [ctb]
Maintainer: Raymond Balise <balise@miami.edu>

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Package lqmix updated to version 1.1 with previous version 1.0 dated 2023-12-07

Title: Linear Quantile Mixture Models
Description: Estimate linear quantile mixtures based on Time-Constant (TC) and/or Time-Varying (TV), discrete, random coefficients.
Author: Maria Francesca Marino [aut, cre], Marco Alfo' [aut], Nicola Salvati [aut], Maria Giovanna Ranalli [aut]
Maintainer: Maria Francesca Marino <mariafrancesca.marino@unifi.it>

Diff between lqmix versions 1.0 dated 2023-12-07 and 1.1 dated 2025-03-21

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Package WorldMapR updated to version 1.2.0 with previous version 1.1.0 dated 2025-01-28

Title: Worldwide or Coordinates-Based Heat Maps
Description: Easily plot heat maps of the world, based on continuous or categorical data. Country labels can also be added to the map.
Author: Luigi Annicchiarico [cre, aut]
Maintainer: Luigi Annicchiarico <luigi.annic@gmail.com>

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Package sparsevctrs updated to version 0.3.2 with previous version 0.3.1 dated 2025-03-17

Title: Sparse Vectors for Use in Data Frames
Description: Provides sparse vectors powered by ALTREP (Alternative Representations for R Objects) that behave like regular vectors, and can thus be used in data frames. Also provides tools to convert between sparse matrices and data frames with sparse columns and functions to interact with sparse vectors.
Author: Emil Hvitfeldt [aut, cre] , Davis Vaughan [ctb], Posit Software, PBC [cph, fnd]
Maintainer: Emil Hvitfeldt <emil.hvitfeldt@posit.co>

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Package REDCapTidieR updated to version 1.2.2 with previous version 1.2.1 dated 2024-12-09

Title: Extract 'REDCap' Databases into Tidy 'Tibble's
Description: Convert 'REDCap' exports into tidy tables for easy handling of 'REDCap' repeat instruments and event arms.
Author: Richard Hanna [aut, cre] , Stephan Kadauke [aut] , Ezra Porter [aut]
Maintainer: Richard Hanna <hannar1@chop.edu>

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Package ECOTOXr updated to version 1.2.0 with previous version 1.1.1 dated 2024-09-20

Title: Download and Extract Data from US EPA's ECOTOX Database
Description: The US EPA ECOTOX database is a freely available database with a treasure of aquatic and terrestrial ecotoxicological data. As the online search interface doesn't come with an API, this package provides the means to easily access and search the database in R. To this end, all raw tables are downloaded from the EPA website and stored in a local SQLite database <doi:10.1016/j.chemosphere.2024.143078>.
Author: Pepijn de Vries [aut, cre, dtc]
Maintainer: Pepijn de Vries <pepijn.devries@outlook.com>

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Package chromote updated to version 0.5.0 with previous version 0.4.0 dated 2025-01-24

Title: Headless Chrome Web Browser Interface
Description: An implementation of the 'Chrome DevTools Protocol', for controlling a headless Chrome web browser.
Author: Garrick Aden-Buie [aut, cre] , Winston Chang [aut], Barret Schloerke [aut] , Posit Software, PBC [cph, fnd]
Maintainer: Garrick Aden-Buie <garrick@posit.co>

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Package tinyVAST updated to version 1.0.1 with previous version 1.0.0 dated 2025-03-13

Title: Multivariate Spatio-Temporal Models using Structural Equations
Description: Fits a wide variety of multivariate spatio-temporal models with simultaneous and lagged interactions among variables (including vector autoregressive spatio-temporal ('VAST') dynamics) for areal, continuous, or network spatial domains. It includes time-variable, space-variable, and space-time-variable interactions using dynamic structural equation models ('DSEM') as expressive interface, and the 'mgcv' package to specify splines via the formula interface. See Thorson et al. (2024) <doi:10.48550/arXiv.2401.10193> for more details.
Author: James T. Thorson [aut, cre] , Sean C. Anderson [aut]
Maintainer: James T. Thorson <James.Thorson@noaa.gov>

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Package cpp11armadillo updated to version 0.4.6 with previous version 0.4.4 dated 2025-02-20

Title: An 'Armadillo' Interface
Description: Provides function declarations and inline function definitions that facilitate communication between R and the 'Armadillo' 'C++' library for linear algebra and scientific computing. This implementation is detailed in Vargas Sepulveda and Schneider Malamud (2024) <doi:10.1016/j.softx.2025.102087>.
Author: Mauricio Vargas Sepulveda [aut, cre] , Jonathan Schneider Malamud [ctb], Conrad Sanderson [aut] )
Maintainer: Mauricio Vargas Sepulveda <m.sepulveda@mail.utoronto.ca>

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Package IVPP updated to version 1.1.0 with previous version 1.0.0 dated 2025-02-11

Title: Invariance Partial Pruning Test
Description: An implementation of the Invariance Partial Pruning (IVPP) approach described in Du, X., Johnson, S. U., Epskamp, S. (2025) The Invariance Partial Pruning Approach to The Network Comparison in Longitudinal Data. IVPP is a two-step method that first test for global network structural difference with invariance test and then inspect specific edge difference with partial pruning.
Author: Xinkai Du [aut, cre, cph]
Maintainer: Xinkai Du <xinkai.du.xd@gmail.com>

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Thu, 20 Mar 2025

Package echelon updated to version 0.3.1 with previous version 0.3.0 dated 2025-03-03

Title: The Echelon Analysis and the Detection of Spatial Clusters using Echelon Scan Method
Description: Functions for the echelon analysis proposed by Myers et al. (1997) <doi:10.1023/A:1018518327329>, and the detection of spatial clusters using echelon scan method proposed by Kurihara (2003) <doi:10.20551/jscswabun.15.2_171>.
Author: Fumio Ishioka [aut, cre]
Maintainer: Fumio Ishioka <fishioka@okayama-u.ac.jp>

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Package fastcpd updated to version 0.16.1 with previous version 0.16.0 dated 2025-03-13

Title: Fast Change Point Detection via Sequential Gradient Descent
Description: Implements fast change point detection algorithm based on the paper "Sequential Gradient Descent and Quasi-Newton's Method for Change-Point Analysis" by Xianyang Zhang, Trisha Dawn <https://proceedings.mlr.press/v206/zhang23b.html>. The algorithm is based on dynamic programming with pruning and sequential gradient descent. It is able to detect change points a magnitude faster than the vanilla Pruned Exact Linear Time(PELT). The package includes examples of linear regression, logistic regression, Poisson regression, penalized linear regression data, and whole lot more examples with custom cost function in case the user wants to use their own cost function.
Author: Xingchi Li [aut, cre, cph] , Xianyang Zhang [aut, cph]
Maintainer: Xingchi Li <anthony.li.stat.tamu.edu@lixingchi.com>

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Package datadictionary updated to version 1.0.1 with previous version 1.0.0 dated 2023-03-12

Title: Create a Data Dictionary
Description: Creates a data dictionary from any dataframe or tibble in your R environment. You can opt to add variable labels. You can write the object directly to Excel.
Author: Bethany Jones [aut, cre]
Maintainer: Bethany Jones <r.data.nerd@gmail.com>

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Package archive updated to version 1.1.12 with previous version 1.1.11 dated 2025-02-05

Title: Multi-Format Archive and Compression Support
Description: Bindings to 'libarchive' <http://www.libarchive.org> the Multi-format archive and compression library. Offers R connections and direct extraction for many archive formats including 'tar', 'ZIP', '7-zip', 'RAR', 'CAB' and compression formats including 'gzip', 'bzip2', 'compress', 'lzma' and 'xz'.
Author: Jim Hester [aut] , Gabor Csardi [aut, cre], Ondrej Holy [cph] , RStudio [cph, fnd]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>

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Package tinylabels updated to version 0.2.5 with previous version 0.2.4 dated 2023-09-02

Title: Lightweight Variable Labels
Description: Assign, extract, or remove variable labels from R vectors. Lightweight and dependency-free.
Author: Marius Barth [aut, cre]
Maintainer: Marius Barth <marius.barth.uni.koeln@gmail.com>

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Package HDclassif updated to version 2.2.2 with previous version 2.2.1 dated 2023-08-23

Title: High Dimensional Supervised Classification and Clustering
Description: Discriminant analysis and data clustering methods for high dimensional data, based on the assumption that high-dimensional data live in different subspaces with low dimensionality proposing a new parametrization of the Gaussian mixture model which combines the ideas of dimension reduction and constraints on the model.
Author: Laurent Berge [aut, cre], Charles Bouveyron [aut], Stephane Girard [aut]
Maintainer: Laurent Berge <laurent.berge@u-bordeaux.fr>

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Package eventPred updated to version 0.2.8 with previous version 0.2.7 dated 2025-03-13

Title: Event Prediction
Description: Predicts enrollment and events at the design or analysis stage using specified enrollment and time-to-event models through simulations.
Author: Kaifeng Lu [aut, cre]
Maintainer: Kaifeng Lu <kaifenglu@gmail.com>

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Package diceplot updated to version 0.1.6 with previous version 0.1.5 dated 2025-03-12

Title: High Dimensional Categorical Data Visualization
Description: Easy visualization for datasets with more than two categorical variables and additional continuous variables. 'diceplot' is particularly useful for exploring complex categorical data in the context of pathway analysis across multiple conditions. For a detailed documentation please visit <https://dice-and-domino-plot.readthedocs.io/en/latest/>.
Author: Matthias Flotho [aut, cre]
Maintainer: Matthias Flotho <matthias.flotho@ccb.uni-saarland.de>

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Package cucumber updated to version 1.2.1 with previous version 1.2.0 dated 2025-02-24

Title: Behavior-Driven Development for R
Description: Write executable specifications in a natural language that describes how your code should behave. Write specifications in feature files using 'Gherkin' language and execute them using functions implemented in R. Use them as an extension to your 'testthat' tests to provide a high level description of how your code works.
Author: Jakub Sobolewski [aut, cre]
Maintainer: Jakub Sobolewski <jakupsob@gmail.com>

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Package thunder updated to version 1.1.4 with previous version 1.1.3 dated 2023-11-10

Title: Computation and Visualisation of Atmospheric Convective Parameters
Description: Allow to compute and visualise convective parameters commonly used in the operational prediction of severe convective storms. Core algorithm is based on a highly optimized 'C++' code linked into 'R' via 'Rcpp'. Highly efficient engine allows to derive thermodynamic and kinematic parameters from large numerical datasets such as reanalyses or operational Numerical Weather Prediction models in a reasonable amount of time. Package has been developed since 2017 by research meteorologists specializing in severe thunderstorms. The most relevant methods used in the package based on the following publications Stipanuk (1973) <https://apps.dtic.mil/sti/pdfs/AD0769739.pdf>, McCann et al. (1994) <doi:10.1175/1520-0434(1994)009%3C0532:WNIFFM%3E2.0.CO;2>, Bunkers et al. (2000) <doi:10.1175/1520-0434(2000)015%3C0061:PSMUAN%3E2.0.CO;2>, Corfidi et al. (2003) <doi:10.1175/1520-0434(2003)018%3C0997:CPAMPF%3E2.0.CO;2>, Showalter (1953) <doi:10.1175/1520-0477-34.6.250>, Coffe [...truncated...]
Author: Bartosz Czernecki [aut, cre] , Mateusz Taszarek [aut] , Piotr Szuster [aut]
Maintainer: Bartosz Czernecki <nwp@amu.edu.pl>

Diff between thunder versions 1.1.3 dated 2023-11-10 and 1.1.4 dated 2025-03-20

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Package networksem updated to version 0.3 with previous version 0.2 dated 2025-01-31

Title: Network Structural Equation Modeling
Description: Several methods have been developed to integrate structural equation modeling techniques with network data analysis to examine the relationship between network and non-network data. Both node-based and edge-based information can be extracted from the network data to be used as observed variables in structural equation modeling. To facilitate the application of these methods, model specification can be performed in the familiar syntax of the 'lavaan' package, ensuring ease of use for researchers. Technical details and examples can be found at <https://bigsem.psychstat.org>.
Author: Zhiyong Zhang [aut, cre] , Ziqian Xu [aut]
Maintainer: Zhiyong Zhang <johnnyzhz@gmail.com>

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Package renv updated to version 1.1.4 with previous version 1.1.3 dated 2025-03-18

Title: Project Environments
Description: A dependency management toolkit for R. Using 'renv', you can create and manage project-local R libraries, save the state of these libraries to a 'lockfile', and later restore your library as required. Together, these tools can help make your projects more isolated, portable, and reproducible.
Author: Kevin Ushey [aut, cre] , Hadley Wickham [aut] , Posit Software, PBC [cph, fnd]
Maintainer: Kevin Ushey <kevin@rstudio.com>

Diff between renv versions 1.1.3 dated 2025-03-18 and 1.1.4 dated 2025-03-20

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Package epidatr updated to version 1.2.1 with previous version 1.2.0 dated 2024-06-20

Title: Client for Delphi's 'Epidata' API
Description: The Delphi 'Epidata' API provides real-time access to epidemiological surveillance data for influenza, 'COVID-19', and other diseases for the USA at various geographical resolutions, both from official government sources such as the Center for Disease Control (CDC) and Google Trends and private partners such as Facebook and Change 'Healthcare'. It is built and maintained by the Carnegie Mellon University Delphi research group. To cite this API: David C. Farrow, Logan C. Brooks, Aaron 'Rumack', Ryan J. 'Tibshirani', 'Roni' 'Rosenfeld' (2015). Delphi 'Epidata' API. <https://github.com/cmu-delphi/delphi-epidata>.
Author: Logan Brooks [aut], Dmitry Shemetov [aut], Samuel Gratzl [aut], David Weber [ctb, cre], Nat DeFries [ctb], Alex Reinhart [ctb], Daniel J. McDonald [ctb], Kean Ming Tan [ctb], Will Townes [ctb], George Haff [ctb], Kathryn Mazaitis [ctb]
Maintainer: David Weber <davidweb@andrew.cmu.edu>

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Package EEAaq updated to version 1.0.1 with previous version 1.0.0 dated 2025-02-06

Title: Handle Air Quality Data from the European Environment Agency Data Portal
Description: This software downloads and manages air quality data from the European Environmental Agency (EEA) dataflow (<https://www.eea.europa.eu/data-and-maps/data/aqereporting-9>). See the web page <https://eeadmz1-downloads-webapp.azurewebsites.net/> for details on the EEA's Air Quality Download Service. The package allows dynamically mapping the stations, summarising and time aggregating the measurements and building spatial interpolation maps. See the web page <https://www.eea.europa.eu/en> for further information on EEA activities and history. Further details, as well as, an extended vignette of the main functions included in the package, are available at the GitHub web page dedicated to the project.
Author: Paolo Maranzano [aut, cre, cph] , Riccardo Borgoni [aut, cph] , Samir Doghmi [aut, cph], Agostino Tassan Mazzocco [aut, cph]
Maintainer: Paolo Maranzano <pmaranzano.ricercastatistica@gmail.com>

Diff between EEAaq versions 1.0.0 dated 2025-02-06 and 1.0.1 dated 2025-03-20

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Package questionr updated to version 0.8.0 with previous version 0.7.8 dated 2023-01-31

Title: Functions to Make Surveys Processing Easier
Description: Set of functions to make the processing and analysis of surveys easier : interactive shiny apps and addins for data recoding, contingency tables, dataset metadata handling, and several convenience functions.
Author: Julien Barnier [aut, cre], Francois Briatte [aut], Joseph Larmarange [aut]
Maintainer: Julien Barnier <julien.barnier@cnrs.fr>

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Package openxlsx2 updated to version 1.14 with previous version 1.13 dated 2025-02-15

Title: Read, Write and Edit 'xlsx' Files
Description: Simplifies the creation of 'xlsx' files by providing a high level interface to writing, styling and editing worksheets.
Author: Jordan Mark Barbone [aut] , Jan Marvin Garbuszus [aut, cre], Olivier Roy [ctb], openxlsx authors [cph] , Arseny Kapoulkine [ctb, cph]
Maintainer: Jan Marvin Garbuszus <jan.garbuszus@ruhr-uni-bochum.de>

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Package eudract updated to version 1.0.4 with previous version 1.0.3 dated 2025-01-13

Title: Creates Safety Results Summary in XML to Upload to EudraCT, or ClinicalTrials.gov
Description: The remit of the European Clinical Trials Data Base (EudraCT <https://eudract.ema.europa.eu/> ), or ClinicalTrials.gov <https://clinicaltrials.gov/>, is to provide open access to summaries of all registered clinical trial results; thus aiming to prevent non-reporting of negative results and provide open-access to results to inform future research. The amount of information required and the format of the results, however, imposes a large extra workload at the end of studies on clinical trial units. In particular, the adverse-event-reporting component requires entering: each unique combination of treatment group and safety event; for every such event above, a further 4 pieces of information (body system, number of occurrences, number of subjects, number exposed) for non-serious events, plus an extra three pieces of data for serious adverse events (numbers of causally related events, deaths, causally related deaths). This package prepares the required statistics needed by Eudr [...truncated...]
Author: Simon Bond [cre], Beatrice Pantaleo [aut]
Maintainer: Simon Bond <simon.bond7@nhs.net>

Diff between eudract versions 1.0.3 dated 2025-01-13 and 1.0.4 dated 2025-03-20

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Package globalKinhom updated to version 0.1.10 with previous version 0.1.9 dated 2024-10-07

Title: Inhomogeneous K- And Pair Correlation Functions Using Global Estimators
Description: Second-order summary statistics K- and pair-correlation functions describe interactions in point pattern data. This package provides computations to estimate those statistics on inhomogeneous point processes, using the methods of in T Shaw, J Møller, R Waagepetersen, 2020 <doi:10.48550/arXiv.2004.00527>.
Author: Thomas Shaw [aut, cre], Ege Rubak [ctb], Adrian Baddeley [ctb], Rolf Turner [ctb]
Maintainer: Thomas Shaw <tshaw20@utk.edu>

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Package quincunx updated to version 0.1.9 with previous version 0.1.7 dated 2023-07-04

Title: REST API Client for the 'PGS' Catalog
Description: Programmatic access to the 'PGS' Catalog. This package provides easy access to 'PGS' Catalog data by accessing the REST API <https://www.pgscatalog.org/rest/>.
Author: Ramiro Magno [aut, cre] , Isabel Duarte [aut] , Ana-Teresa Maia [aut] , CINTESIS [cph, fnd], Pattern Institute [cph, fnd]
Maintainer: Ramiro Magno <rmagno@pattern.institute>

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Package barcode updated to version 1.4.0 with previous version 1.3.0 dated 2022-05-10

Title: Render Barcode Distribution Plots
Description: The function \code{barcode()} produces a histogram-like plot of a distribution that shows granularity in the data.
Author: John W. Emerson [aut, cre], Walton A. Green [aut], John A. Hartigan [aut], Liya Xiang [ctb]
Maintainer: John W. Emerson <john.emerson@yale.edu>

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Package mirai updated to version 2.2.0 with previous version 2.1.0 dated 2025-02-07

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. The result is automatically available upon completion. Modern networking and concurrency, built on 'nanonext' and 'NNG' (Nanomsg Next Gen), ensures reliable and efficient scheduling over fast inter-process communications or TCP/IP secured by TLS. Distributed computing can launch remote resources via SSH or cluster managers. An inherently queued architecture handles many more tasks than available processes, and requires no storage on the file system. Innovative features include support for otherwise non-exportable reference objects, event-driven promises, and asynchronous parallel map.
Author: Charlie Gao [aut, cre] , Joe Cheng [ctb], Hibiki AI Limited [cph], Posit Software, PBC [cph]
Maintainer: Charlie Gao <charlie.gao@shikokuchuo.net>

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Package DrugUtilisation updated to version 0.8.3 with previous version 0.8.2 dated 2025-01-16

Title: Summarise Patient-Level Drug Utilisation in Data Mapped to the OMOP Common Data Model
Description: Summarise patient-level drug utilisation cohorts using data mapped to the Observational Medical Outcomes Partnership (OMOP) common data model. New users and prevalent users cohorts can be generated and their characteristics, indication and drug use summarised.
Author: Marti Catala [aut, cre] , Mike Du [ctb] , Yuchen Guo [aut] , Kim Lopez-Guell [aut] , Edward Burn [aut] , Xintong Li [ctb] , Marta Alcalde-Herraiz [ctb] , Nuria Mercade-Besora [aut] , Xihang Chen [aut]
Maintainer: Marti Catala <marti.catalasabate@ndorms.ox.ac.uk>

Diff between DrugUtilisation versions 0.8.2 dated 2025-01-16 and 0.8.3 dated 2025-03-20

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Package transfR updated to version 1.1.4 with previous version 1.1.0 dated 2025-02-05

Title: Transfer of Hydrograph from Gauged to Ungauged Catchments
Description: A geomorphology-based hydrological modelling for transferring streamflow measurements from gauged to ungauged catchments. Inverse modelling enables to estimate net rainfall from streamflow measurements following Boudhraâ et al. (2018) <doi:10.1080/02626667.2018.1425801>. Resulting net rainfall is then estimated on the ungauged catchments by spatial interpolation in order to finally simulate streamflow following de Lavenne et al. (2016) <doi:10.1002/2016WR018716>.
Author: Alban de Lavenne [aut, cre] , Christophe Cudennec [ths] , Tom Loree [ctb], Herve Squividant [ctb]
Maintainer: Alban de Lavenne <alban.delavenne@inrae.fr>

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Package syrup updated to version 0.1.3 with previous version 0.1.2 dated 2025-03-17

Title: Measure Memory and CPU Usage for Parallel R Code
Description: Measures memory and CPU usage of R code by regularly taking snapshots of calls to the system command 'ps'. The package provides an entry point (albeit coarse) to profile usage of system resources by R code run in parallel.
Author: Simon Couch [aut, cre] , Posit Software, PBC [cph, fnd]
Maintainer: Simon Couch <simon.couch@posit.co>

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Package ProFAST updated to version 1.5 with previous version 1.4 dated 2024-03-18

Title: Probabilistic Factor Analysis for Spatially-Aware Dimension Reduction
Description: Probabilistic factor analysis for spatially-aware dimension reduction across multi-section spatial transcriptomics data with millions of spatial locations. More details can be referred to Wei Liu, et al. (2023) <doi:10.1101/2023.07.11.548486>.
Author: Wei Liu [aut, cre], Xiao Zhang [aut], Jin Liu [aut]
Maintainer: Wei Liu <liuweideng@gmail.com>

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Package messydates updated to version 0.5.3 with previous version 0.5.2 dated 2025-03-07

Title: A Flexible Class for Messy Dates
Description: Contains a set of tools for constructing and coercing into and from the "mdate" class. This date class implements ISO 8601-2:2019(E) and allows regular dates to be annotated to express unspecified date components, approximate or uncertain date components, date ranges, and sets of dates. This is useful for describing and analysing temporal information, whether historical or recent, where date precision may vary.
Author: James Hollway [cre, aut, ctb] , Henrique Sposito [ctb] , Jael Tan [ctb] , Nathan Werth [ctb]
Maintainer: James Hollway <james.hollway@graduateinstitute.ch>

Diff between messydates versions 0.5.2 dated 2025-03-07 and 0.5.3 dated 2025-03-20

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Package kitesquare updated to version 0.0.2 with previous version 0.0.1 dated 2025-03-17

Title: Visualize Contingency Tables Using Kite-Square Plots
Description: Create a kite-square plot for contingency tables using 'ggplot2', to display their relevant quantities in a single figure (marginal, conditional, expected, observed, chi-squared). The plot resembles a flying kite inside a square if the variables are independent, and deviates from this the more dependence exists.
Author: John Wiedenhoeft [aut, cre, cph]
Maintainer: John Wiedenhoeft <john.wiedenhoeft@medizin.uni-leipzig.de>

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Package childfree updated to version 0.0.4 with previous version 0.0.3 dated 2024-09-04

Title: Access and Harmonize Childfree Demographic Data
Description: Reads demographic data from a variety of public data sources, extracting and harmonizing variables useful for the study of childfree individuals. The identification of childfree individuals and those with other family statuses uses Neal & Neal's (2024) "A Framework for Studying Adults who Neither have Nor Want Children" <doi:10.1177/10664807231198869>; A pre-print is available at <doi:10.31234/osf.io/fa89m>.
Author: Zachary Neal [aut, cre] , Jennifer Watling Neal [aut]
Maintainer: Zachary Neal <zpneal@msu.edu>

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Package CANE updated to version 0.1.1 with previous version 0.1.0 dated 2025-03-19

Title: Comprehensive Groups of Experiments Analysis for Numerous Environments
Description: In many cases, experiments must be repeated across multiple seasons or locations to ensure applicability of findings. A single experiment conducted in one location and season may yield limited conclusions, as results can vary under different environmental conditions. In agricultural research, treatment × location and treatment × season interactions play a crucial role. Analyzing a series of experiments across diverse conditions allows for more generalized and reliable recommendations. The 'CANE' package facilitates the pooled analysis of experiments conducted over multiple years, seasons, or locations. It is designed to assess treatment interactions with environmental factors (such as location and season) using various experimental designs. The package supports pooled analysis of variance (ANOVA) for the following designs: (1) 'PooledCRD()': completely randomized design; (2) 'PooledRBD()': randomized block design; (3) 'PooledLSD()': Latin square design; (4) 'PooledSPD()': split plot de [...truncated...]
Author: Vinayaka [aut, cre] , T. Lakshmi Pathy [aut, ctb] , K. Gopalareddy [aut, ctb] , Shweta Kumari [aut, ctb] , P. Murali [aut, ctb] , P. Govindaraj [aut, ctb], P. Rama Chandra Prasad [aut, ctb] , L.N. Vinaykumar [aut, ctb]
Maintainer: Vinayaka <vinayaka.b3vs@gmail.com>

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Package shinyscholar updated to version 0.3.0 with previous version 0.2.5 dated 2025-02-05

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 mlt updated to version 1.6-3 with previous version 1.6-2 dated 2025-01-29

Title: Most Likely Transformations
Description: Likelihood-based estimation of conditional transformation models via the most likely transformation approach described in Hothorn et al. (2018) <DOI:10.1111/sjos.12291> and Hothorn (2020) <DOI:10.18637/jss.v092.i01>. Shift-scale (Siegfried et al, 2023, <DOI:10.1080/00031305.2023.2203177>) and multivariate (Klein et al, 2022, <DOI:10.1111/sjos.12501>) transformation models are part of this package. A package vignette is available from <DOI:10.32614/CRAN.package.mlt.docreg> and more convenient user interfaces to many models from <DOI:10.32614/CRAN.package.tram>.
Author: Torsten Hothorn [aut, cre]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>

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Package lrstat updated to version 0.2.13 with previous version 0.2.12 dated 2025-01-17

Title: Power and Sample Size Calculation for Non-Proportional Hazards and Beyond
Description: Performs power and sample size calculation for non-proportional hazards model using the Fleming-Harrington family of weighted log-rank tests. The sequentially calculated log-rank test score statistics are assumed to have independent increments as characterized in Anastasios A. Tsiatis (1982) <doi:10.1080/01621459.1982.10477898>. The mean and variance of log-rank test score statistics are calculated based on Kaifeng Lu (2021) <doi:10.1002/pst.2069>. The boundary crossing probabilities are calculated using the recursive integration algorithm described in Christopher Jennison and Bruce W. Turnbull (2000, ISBN:0849303168). The package can also be used for continuous, binary, and count data. For continuous data, it can handle missing data through mixed-model for repeated measures (MMRM). In crossover designs, it can estimate direct treatment effects while accounting for carryover effects. For binary data, it can design Simon's 2-stage, modified toxicity probability-2 (mTPI-2), a [...truncated...]
Author: Kaifeng Lu [aut, cre]
Maintainer: Kaifeng Lu <kaifenglu@gmail.com>

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Package modEvA updated to version 3.33 with previous version 3.30 dated 2025-02-21

Title: Model Evaluation and Analysis
Description: Analyses species distribution models and evaluates their performance. It includes functions for variation partitioning, extracting variable importance, computing several metrics of model discrimination and calibration performance, optimizing prediction thresholds based on a number of criteria, performing multivariate environmental similarity surface (MESS) analysis, and displaying various analytical plots. Initially described in Barbosa et al. (2013) <doi:10.1111/ddi.12100>.
Author: A. Marcia Barbosa [aut, cre], Jennifer A. Brown [aut], Alberto Jimenez-Valverde [aut], Raimundo Real [aut], Oswald van Ginkel [ctb], Jurica Levatic [ctb], Victoria Formoso-Freire [ctb], Andres Baselga [ctb], Carola Gomez-Rodriguez [ctb], Jose Carlos [...truncated...]
Maintainer: A. Marcia Barbosa <ana.marcia.barbosa@gmail.com>

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Package freegroup updated to version 1.2-0 with previous version 1.1-9 dated 2025-01-30

Title: The Free Group
Description: The free group in R; juxtaposition is represented by a plus. Includes inversion, multiplication by a scalar, group-theoretic power operation, and Tietze forms. To cite the package in publications please use Hankin (2022) <doi:10.48550/ARXIV.2212.05883>.
Author: Robin K. S. Hankin [aut, cre]
Maintainer: Robin K. S. Hankin <hankin.robin@gmail.com>

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Package autoEnsemble updated to version 0.3 with previous version 0.2 dated 2023-05-09

Title: Automated Stacked Ensemble Classifier for Severe Class Imbalance
Description: A stacking solution for modeling imbalanced and severely skewed data. It automates the process of building homogeneous or heterogeneous stacked ensemble models by selecting "best" models according to different criteria. In doing so, it strategically searches for and selects diverse, high-performing base-learners to construct ensemble models optimized for skewed data. This package is particularly useful for addressing class imbalance in datasets, ensuring robust and effective model outcomes through advanced ensemble strategies which aim to stabilize the model, reduce its overfitting, and further improve its generalizability.
Author: E. F. Haghish [aut, cre, cph]
Maintainer: E. F. Haghish <haghish@hotmail.com>

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Package scoutbaR updated to version 0.2.0 with previous version 0.1.0 dated 2025-03-04

Title: A Spotlight 'React' Widget for 'shiny' Apps
Description: Creates a contextual menu that can be triggered with keyboard shortcuts or programmatically. This can replace traditional sidebars or navigation bars, thereby enhancing the user experience with lighter user interfaces.
Author: David Granjon [aut, cre], Adenekan Wonderful [cph]
Maintainer: David Granjon <dgranjon@ymail.com>

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Package MHQoL updated to version 0.14.0 with previous version 0.13.0 dated 2025-03-11

Title: Mental Health Quality of Life Toolkit
Description: Transforms, calculates, and presents results from the Mental Health Quality of Life Questionnaire (MHQoL), a measure of health-related quality of life for individuals with mental health conditions. Provides scoring functions, summary statistics, and visualization tools to facilitate interpretation. For more details see van Krugten et al.(2022) <doi:10.1007/s11136-021-02935-w>.
Author: Stijn Peeters [aut, cre] , Frederick Thielen [aut]
Maintainer: Stijn Peeters <s.b.peeters@eshpm.eur.nl>

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Package ieugwasr updated to version 1.0.3 with previous version 1.0.1 dated 2024-07-01

Title: Interface to the 'OpenGWAS' Database API
Description: Interface to the 'OpenGWAS' database API <https://api.opengwas.io/api/>. Includes a wrapper to make generic calls to the API, plus convenience functions for specific queries.
Author: Gibran Hemani [aut, cre, cph] , Ben Elsworth [aut] , Tom Palmer [aut] , Rita Rasteiro [aut]
Maintainer: Gibran Hemani <g.hemani@bristol.ac.uk>

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Package hutilscpp updated to version 0.10.10 with previous version 0.10.8 dated 2025-03-06

Title: Miscellaneous Functions in C++
Description: Provides utility functions that are simply, frequently used, but may require higher performance that what can be obtained from base R. Incidentally provides support for 'reverse geocoding', such as matching a point with its nearest neighbour in another array. Used as a complement to package 'hutils' by sacrificing compilation or installation time for higher running speeds. The name is a portmanteau of the author and 'Rcpp'.
Author: Hugh Parsonage [aut, cre], Simon Urbanek [ctb]
Maintainer: Hugh Parsonage <hugh.parsonage@gmail.com>

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Package BioVizSeq updated to version 1.0.2 with previous version 1.0.1 dated 2025-01-11

Title: Visualizing the Elements Within Bio-Sequences
Description: Visualizing the types and distribution of elements within bio-sequences. At the same time, We have developed a geom layer, geom_rrect(), that can generate rounded rectangles. No external references are used in the development of this package.
Author: Shiqi Zhao [aut, cre, cph]
Maintainer: Shiqi Zhao <zhaosq89@163.com>

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Package manymodelr updated to version 0.3.9 with previous version 0.3.7 dated 2021-11-15

Title: Build and Tune Several Models
Description: Frequently one needs a convenient way to build and tune several models in one go.The goal is to provide a number of machine learning convenience functions. It provides the ability to build, tune and obtain predictions of several models in one function. The models are built using functions from 'caret' with easier to read syntax. Kuhn(2014) <doi:10.48550/arXiv.1405.6974>.
Author: Nelson Gonzabato [aut, cre]
Maintainer: Nelson Gonzabato <gonzabato@hotmail.com>

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Package emmeans updated to version 1.11.0 with previous version 1.10.7 dated 2025-01-31

Title: Estimated Marginal Means, aka Least-Squares Means
Description: Obtain estimated marginal means (EMMs) for many linear, generalized linear, and mixed models. Compute contrasts or linear functions of EMMs, trends, and comparisons of slopes. Plots and other displays. Least-squares means are discussed, and the term "estimated marginal means" is suggested, in Searle, Speed, and Milliken (1980) Population marginal means in the linear model: An alternative to least squares means, The American Statistician 34(4), 216-221 <doi:10.1080/00031305.1980.10483031>.
Author: Russell V. Lenth [aut, cre, cph], Balazs Banfai [ctb], Ben Bolker [ctb], Paul Buerkner [ctb], Iago Gine-Vazquez [ctb], Maxime Herve [ctb], Maarten Jung [ctb], Jonathon Love [ctb], Fernando Miguez [ctb], Julia Piaskowski [ctb], Hannes Riebl [ctb], Hen [...truncated...]
Maintainer: Russell V. Lenth <russell-lenth@uiowa.edu>

Diff between emmeans versions 1.10.7 dated 2025-01-31 and 1.11.0 dated 2025-03-20

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Package trtswitch updated to version 0.1.4 with previous version 0.1.3 dated 2025-02-06

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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Package string2path updated to version 0.2.1 with previous version 0.2.0 dated 2025-02-08

Title: Rendering Font into 'data.frame'
Description: Extract glyph information from font data, and translate the outline curves to flattened paths or tessellated polygons. The converted data is returned as a 'data.frame' in easy-to-plot format.
Author: Hiroaki Yutani [aut, cre] , The authors of the dependency Rust crates [ctb]
Maintainer: Hiroaki Yutani <yutani.ini@gmail.com>

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Wed, 19 Mar 2025

Package sparr updated to version 2.3-16 with previous version 2.3-15 dated 2024-07-07

Title: Spatial and Spatiotemporal Relative Risk
Description: Provides functions to estimate kernel-smoothed spatial and spatio-temporal densities and relative risk functions, and perform subsequent inference. Methodological details can be found in the accompanying tutorial: Davies et al. (2018) <DOI:10.1002/sim.7577>.
Author: Tilman M. Davies [aut, cre], Jonathan C. Marshall [aut]
Maintainer: Tilman M. Davies <tilman.davies@otago.ac.nz>

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Package jskm updated to version 0.5.11 with previous version 0.5.10 dated 2025-02-05

Title: Kaplan-Meier Plot with 'ggplot2'
Description: The function 'jskm()' creates publication quality Kaplan-Meier plot with at risk tables below. 'svyjskm()' provides plot for weighted Kaplan-Meier estimator.
Author: Jinseob Kim [aut, cre] , yoonkyoung Chun [aut], Zarathu [cph, fnd]
Maintainer: Jinseob Kim <jinseob2kim@gmail.com>

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Package bayeslist updated to version 0.0.1.5 with previous version 0.0.1.4 dated 2024-11-28

Title: Bayesian Analysis of List Experiments with Prior Information
Description: Estimates Bayesian models of list experiments with informative priors. It includes functionalities to estimate different types of list experiment models with varying prior information. See Lu and Traunmüller (2021) <doi:10.2139/ssrn.3871089> for examples and details of estimation.
Author: Xiao Lu [aut, cre], Richard Traunmueller [aut]
Maintainer: Xiao Lu <xiao.lu.research@gmail.com>

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Package ggbrain updated to version 0.9.0 with previous version 0.8.1 dated 2023-03-21

Title: Create Images of Volumetric Brain Data in NIfTI Format Using 'ggplot2' Syntax
Description: A 'ggplot2'-consistent approach to generating 2D displays of volumetric brain imaging data. Display data from multiple NIfTI images using standard 'ggplot2' conventions such scales, limits, and themes to control the appearance of displays. The resulting plots are returned as 'patchwork' objects, inheriting from 'ggplot', allowing for any standard modifications of display aesthetics supported by 'ggplot2'.
Author: Michael Hallquist [aut, cre]
Maintainer: Michael Hallquist <michael.hallquist@gmail.com>

Diff between ggbrain versions 0.8.1 dated 2023-03-21 and 0.9.0 dated 2025-03-19

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Package gdalcubes updated to version 0.7.1 with previous version 0.7.0 dated 2024-03-06

Title: Earth Observation Data Cubes from Satellite Image Collections
Description: Processing collections of Earth observation images as on-demand multispectral, multitemporal raster data cubes. Users define cubes by spatiotemporal extent, resolution, and spatial reference system and let 'gdalcubes' automatically apply cropping, reprojection, and resampling using the 'Geospatial Data Abstraction Library' ('GDAL'). Implemented functions on data cubes include reduction over space and time, applying arithmetic expressions on pixel band values, moving window aggregates over time, filtering by space, time, bands, and predicates on pixel values, exporting data cubes as 'netCDF' or 'GeoTIFF' files, plotting, and extraction from spatial and or spatiotemporal features. All computational parts are implemented in C++, linking to the 'GDAL', 'netCDF', 'CURL', and 'SQLite' libraries. See Appel and Pebesma (2019) <doi:10.3390/data4030092> for further details.
Author: Marius Appel [aut, cre] , Edzer Pebesma [ctb] , Roger Bivand [ctb], Jeroen Ooms [ctb] , Lewis Van Winkle [cph], Ole Christian Eidheim [cph], Howard Hinnant [cph], Adrian Colomitchi [cph], Florian Dang [cph], Paul Thompson [cph], Tomasz Kaminski [cph] [...truncated...]
Maintainer: Marius Appel <marius.appel@hs-bochum.de>

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Package Rtwobitlib updated to version 0.3.9 with previous version 0.3.8 dated 2025-03-18

Title: '2bit' 'C' Library
Description: A trimmed down copy of the "kent-core source tree" turned into a 'C' library for manipulation of '.2bit' files. See <https://genome.ucsc.edu/FAQ/FAQformat.html#format7> for a quick overview of the '2bit' format. The "kent-core source tree" can be found here: <https://github.com/ucscGenomeBrowser/kent-core/>. Only the '.c' and '.h' files from the source tree that are related to manipulation of '.2bit' files were kept. Note that the package is primarily useful to developers of other R packages who wish to use the '2bit' 'C' library in their own 'C'/'C++' code.
Author: Herve Pages [aut, cre], UC Regents [cph]
Maintainer: Herve Pages <hpages.on.github@gmail.com>

Diff between Rtwobitlib versions 0.3.8 dated 2025-03-18 and 0.3.9 dated 2025-03-19

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Package MSCquartets updated to version 3.2 with previous version 3.1 dated 2025-03-07

Title: Analyzing Gene Tree Quartets under the Multi-Species Coalescent
Description: Methods for analyzing and using quartets displayed on a collection of gene trees, primarily to make inferences about the species tree or network under the multi-species coalescent model. These include quartet hypothesis tests for the model, as developed by Mitchell et al. (2019) <doi:10.1214/19-EJS1576>, simplex plots of quartet concordance factors as presented by Allman et al. (2020) <doi:10.1101/2020.02.13.948083>, species tree inference methods based on quartet distances of Rhodes (2019) <doi:10.1109/TCBB.2019.2917204> and Yourdkhani and Rhodes (2019) <doi:10.1007/s11538-020-00773-4>, the NANUQ algorithm for inference of level-1 species networks of Allman et al. (2019) <doi:10.1186/s13015-019-0159-2>, the TINNIK algorithm for inference of the tree of blobs of an arbitrary network of Allman et al.(2022) <doi:10.1007/s00285-022-01838-9>, and NANUQ+ routines for resolving multifurcations in the tree of blobs to cycles as in Allman et al.(2024) (forth [...truncated...]
Author: Elizabeth Allman [aut], Hector Banos [aut], Jonathan Mitchell [aut], Kristina Wicke [aut], John Rhodes [aut, cre]
Maintainer: John Rhodes <j.rhodes@alaska.edu>

Diff between MSCquartets versions 3.1 dated 2025-03-07 and 3.2 dated 2025-03-19

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Package kDGLM updated to version 1.2.7 with previous version 1.2.0 dated 2024-05-25

Title: Bayesian Analysis of Dynamic Generalized Linear Models
Description: Provide routines for filtering and smoothing, forecasting, sampling and Bayesian analysis of Dynamic Generalized Linear Models using the methodology described in Alves et al. (2024)<doi:10.48550/arXiv.2201.05387> and dos Santos Jr. et al. (2024)<doi:10.48550/arXiv.2403.13069>.
Author: Silvaneo dos Santos Jr. [aut, cre], Mariane Branco Alves [aut], Helio dos Santos Migon [aut]
Maintainer: Silvaneo dos Santos Jr. <silvaneojunior@utexas.edu>

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More information about kDGLM at CRAN
Permanent link

Package dtComb updated to version 1.0.5 with previous version 1.0.4 dated 2024-10-11

Title: Statistical Combination of Diagnostic Tests
Description: A system for combining two diagnostic tests using various approaches that include statistical and machine-learning-based methodologies. These approaches are divided into four groups: linear combination methods, non-linear combination methods, mathematical operators, and machine learning algorithms. See the <https://biotools.erciyes.edu.tr/dtComb/> website for more information, documentation, and examples.
Author: Serra Ilayda Yerlitas [aut, ctb], Serra Bersan Gengec [aut, ctb], Necla Kochan [aut, ctb], Gozde Erturk Zararsiz [aut, ctb], Selcuk Korkmaz [aut, ctb], Gokmen Zararsiz [aut, ctb, cre]
Maintainer: Gokmen Zararsiz <gokmen.zararsiz@gmail.com>

Diff between dtComb versions 1.0.4 dated 2024-10-11 and 1.0.5 dated 2025-03-19

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Package conleyreg updated to version 0.1.8 with previous version 0.1.7 dated 2022-03-03

Title: Estimations using Conley Standard Errors
Description: Functions calculating Conley (1999) <doi:10.1016/S0304-4076(98)00084-0> standard errors. The package started by merging and extending multiple packages and other published scripts on this econometric technique. It strongly emphasizes computational optimization. Details are available in the function documentation and in the vignette.
Author: Christian Dueben [aut, cre], Richard Bluhm [cph], Luis Calderon [cph], Darin Christensen [cph], Timothy Conley [cph], Thiemo Fetzer [cph], Leander Heldring [cph]
Maintainer: Christian Dueben <cdueben.ml+cran@proton.me>

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Package SerolyzeR updated to version 1.1.0 with previous version 1.0.0 dated 2025-03-07

Title: Reading, Quality Control and Preprocessing of MBA (Multiplex Bead Assay) Data
Description: Speeds up the process of loading raw data from MBA (Multiplex Bead Assay) examinations, performs quality control checks, and automatically normalises the data, preparing it for more advanced, downstream tasks. The main objective of the package is to create a simple environment for a user, who does not necessarily have experience with R language. The package is developed within the project 'PvSTATEM', which is an international project aiming for malaria elimination.
Author: Tymoteusz Kwiecinski [aut, cre] , Jakub Grzywaczewski [aut], Mateusz Nizwantowski [aut], Przemyslaw Biecek [ths] , Nuno Sepulveda [ths]
Maintainer: Tymoteusz Kwiecinski <tymoteuszkwiecinski@gmail.com>

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Package MDPIexploreR updated to version 0.3.0 with previous version 0.2.0 dated 2024-10-15

Title: Web Scraping and Bibliometric Analysis of MDPI Journals
Description: Provides comprehensive tools to scrape and analyze data from the MDPI journals. It allows users to extract metrics such as submission-to-acceptance times, article types, and whether articles are part of special issues. The package can also visualize this information through plots. Additionally, 'MDPIexploreR' offers tools to explore patterns of self-citations within articles and provides insights into guest-edited special issues.
Author: Pablo Gomez Barreiro [aut, cre]
Maintainer: Pablo Gomez Barreiro <pablogomezbr@hotmail.es>

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Package Bayenet updated to version 0.3 with previous version 0.2 dated 2024-04-05

Title: Robust Bayesian Elastic Net
Description: As heavy-tailed error distribution and outliers in the response variable widely exist, models which are robust to data contamination are highly demanded. Here, we develop a novel robust Bayesian variable selection method with elastic net penalty. In particular, the spike-and-slab priors have been incorporated to impose sparsity. An efficient Gibbs sampler has been developed to facilitate computation.The core modules of the package have been developed in 'C++' and R.
Author: Xi Lu [aut, cre], Cen Wu [aut]
Maintainer: Xi Lu <xilu@ksu.edu>

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Package visa updated to version 1.0.0 with previous version 0.1.0 dated 2021-04-20

Title: Vegetation Imaging Spectroscopy Analyzer
Description: Provides easy-to-use tools for data analysis and visualization for hyperspectral remote sensing (also known as imaging spectroscopy), with a particular focus on vegetation hyperspectral data analysis. It consists of a set of functions, ranging from the organization of hyperspectral data in the proper data structure for spectral feature selection, calculation of vegetation index, multivariate analysis, as well as to the visualization of spectra and results of analysis in the 'ggplot2' style.
Author: Kang Yu [aut, cre]
Maintainer: Kang Yu <kang.yu@outlook.com>

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Package miesmuschel updated to version 0.0.4-3 with previous version 0.0.4-2 dated 2024-07-09

Title: Mixed Integer Evolution Strategies
Description: Evolutionary black box optimization algorithms building on the 'bbotk' package. 'miesmuschel' offers both ready-to-use optimization algorithms, as well as their fundamental building blocks that can be used to manually construct specialized optimization loops. The Mixed Integer Evolution Strategies as described by Li et al. (2013) <doi:10.1162/EVCO_a_00059> can be implemented, as well as the multi-objective optimization algorithms NSGA-II by Deb, Pratap, Agarwal, and Meyarivan (2002) <doi:10.1109/4235.996017>.
Author: Martin Binder [aut, cre], Lennart Schneider [ctb] , Susanne Dandl [ctb] , Andreas Hofheinz [ctb]
Maintainer: Martin Binder <mlr.developer@mb706.com>

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Package gofigR updated to version 0.3.1 with previous version 0.2.2 dated 2025-02-07

Title: Client for 'GoFigr.io'
Description: Integrates with your 'RMarkdown' documents to automatically publish figures to the <https://GoFigr.io> service. Supports both 'knitr' and interactive execution within 'RStudio'.
Author: Maciej Pacula [cre, aut], Flagstaff Solutions, LLC [cph]
Maintainer: Maciej Pacula <maciej@gofigr.io>

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Package BrazilMet updated to version 0.3.0 with previous version 0.2.0 dated 2022-10-27

Title: Download and Processing of Automatic Weather Stations (AWS) Data of INMET-Brazil
Description: A compilation of functions to download and processing AWS data of INMET-Brazil, with the purpose of reference evapotranspiration (ETo) estimation. The package aims to make meteorological and agricultural data analysis more parsimonious.
Author: Roberto Filgueiras [aut, cre] , Luan P. Venancio [aut] , Catariny C. Aleman [aut] , Fernando F. da Cunha [aut]
Maintainer: Roberto Filgueiras <betofilgueiras@gmail.com>

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Package ARUtools updated to version 0.7.2 with previous version 0.7.1 dated 2024-10-08

Title: Management and Processing of Autonomous Recording Unit (ARU) Data
Description: Parse Autonomous Recording Unit (ARU) data and for sub-sampling recordings. Extract Metadata from your recordings, select a subset of recordings for interpretation, and prepare files for processing on the 'WildTrax' <https://wildtrax.ca/> platform. Read and process metadata from recordings collected using the SongMeter and BAR-LT types of ARUs.
Author: David Hope [aut, cre] , Steffi LaZerte [aut] , Government of Canada [cph, fnd]
Maintainer: David Hope <david.hope@ec.gc.ca>

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Package rasterpic updated to version 0.3.0 with previous version 0.2.6 dated 2024-12-17

Title: Convert Digital Images into 'SpatRaster' Objects
Description: Generate 'SpatRaster' objects, as defined by the 'terra' package, from digital images, using a specified spatial object as a geographical reference.
Author: Diego Hernangomez [aut, cre, cph]
Maintainer: Diego Hernangomez <diego.hernangomezherrero@gmail.com>

Diff between rasterpic versions 0.2.6 dated 2024-12-17 and 0.3.0 dated 2025-03-19

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Package SSVS updated to version 2.1.0 with previous version 2.0.0 dated 2022-05-29

Title: Functions for Stochastic Search Variable Selection (SSVS)
Description: Functions for performing stochastic search variable selection (SSVS) for binary and continuous outcomes and visualizing the results. SSVS is a Bayesian variable selection method used to estimate the probability that individual predictors should be included in a regression model. Using MCMC estimation, the method samples thousands of regression models in order to characterize the model uncertainty regarding both the predictor set and the regression parameters. For details see Bainter, McCauley, Wager, and Losin (2020) Improving practices for selecting a subset of important predictors in psychology: An application to predicting pain, Advances in Methods and Practices in Psychological Science 3(1), 66-80 <DOI:10.1177/2515245919885617>.
Author: Sierra Bainter [cre, aut] , Thomas McCauley [aut], Mahmoud Fahmy [aut], Dean Attali [aut]
Maintainer: Sierra Bainter <sbainter@miami.edu>

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Package rerddap updated to version 1.2.1 with previous version 1.2.0 dated 2024-12-11

Title: General Purpose Client for 'ERDDAPâ„¢' Servers
Description: General purpose R client for 'ERDDAPâ„¢' servers. Includes functions to search for 'datasets', get summary information on 'datasets', and fetch 'datasets', in either 'csv' or 'netCDF' format. 'ERDDAPâ„¢' information: <https://upwell.pfeg.noaa.gov/erddap/information.html>.
Author: Scott Chamberlain [aut], Ben Tupper [ctb], Salvador Jesus Fernandez Bejarano [ctb], Roy Mendelssohn [cre, ctb]
Maintainer: Roy Mendelssohn <roy.mendelssohn@noaa.gov>

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Package FMAT updated to version 2025.3 with previous version 2024.7 dated 2024-07-29

Title: The Fill-Mask Association Test
Description: The Fill-Mask Association Test ('FMAT') <doi:10.1037/pspa0000396> is an integrative and probability-based method using Masked Language Models to measure conceptual associations (e.g., attitudes, biases, stereotypes, social norms, cultural values) as propositions in natural language. Supported language models include 'BERT' <doi:10.48550/arXiv.1810.04805> and its variants available at 'Hugging Face' <https://huggingface.co/models?pipeline_tag=fill-mask>. Methodological references and installation guidance are provided at <https://psychbruce.github.io/FMAT/>.
Author: Han-Wu-Shuang Bao [aut, cre]
Maintainer: Han-Wu-Shuang Bao <baohws@foxmail.com>

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Package mlr3learners updated to version 0.10.0 with previous version 0.9.0 dated 2024-11-23

Title: Recommended Learners for 'mlr3'
Description: Recommended Learners for 'mlr3'. Extends 'mlr3' with interfaces to essential machine learning packages on CRAN. This includes, but is not limited to: (penalized) linear and logistic regression, linear and quadratic discriminant analysis, k-nearest neighbors, naive Bayes, support vector machines, and gradient boosting.
Author: Michel Lang [aut] , Quay Au [aut] , Stefan Coors [aut] , Patrick Schratz [aut] , Marc Becker [cre, aut] , John Zobolas [aut]
Maintainer: Marc Becker <marcbecker@posteo.de>

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Package MDMA updated to version 2.0.0 with previous version 1.1.0 dated 2024-04-25

Title: Mathijs Deen's Miscellaneous Auxiliaries
Description: Provides a variety of functions useful for data analysis, selection, manipulation, and graphics.
Author: Mathijs Deen [aut, cre]
Maintainer: Mathijs Deen <dev@mathijsdeen.com>

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Package FeatureExtraction updated to version 3.8.0 with previous version 3.7.2 dated 2024-10-18

Title: Generating Features for a Cohort
Description: An R interface for generating features for a cohort using data in the Common Data Model. Features can be constructed using default or custom made feature definitions. Furthermore it's possible to aggregate features and get the summary statistics.
Author: Martijn Schuemie [aut], Marc Suchard [aut], Patrick Ryan [aut], Jenna Reps [aut], Anthony Sena [aut], Ger Inberg [aut, cre], Observational Health Data Science and Informatics [cph]
Maintainer: Ger Inberg <g.inberg@erasmusmc.nl>

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Package vvconverter updated to version 0.7.0 with previous version 0.5.10 dated 2024-06-11

Title: Apply Transformations to Data
Description: Provides a set of functions for data transformations. Transformations are performed on character and numeric data. As the scope of the package is within Student Analytics, there are functions focused around the academic year.
Author: Tomer Iwan [aut, cre, cph]
Maintainer: Tomer Iwan <t.iwan@vu.nl>

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Package RcppDPR updated to version 0.1.10 with previous version 0.1.9 dated 2025-03-15

Title: 'Rcpp' Implementation of Dirichlet Process Regression
Description: 'Rcpp' reimplementation of the the Bayesian non-parametric Dirichlet Process Regression model for penalized regression first published in Zeng and Zhou (2017) <doi:10.1038/s41467-017-00470-2>. A full Bayesian version is implemented with Gibbs sampling, as well as a faster but less accurate variational Bayes approximation.
Author: Mohammad Abu Gazala [cre, aut], Daniel Nachun [ctb], Ping Zeng [ctb]
Maintainer: Mohammad Abu Gazala <abugazalamohammad@gmail.com>

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Package pedprobr updated to version 0.9.5 with previous version 0.9.4 dated 2024-05-08

Title: Probability Computations on Pedigrees
Description: An implementation of the Elston-Stewart algorithm for calculating pedigree likelihoods given genetic marker data (Elston and Stewart (1971) <doi:10.1159/000152448>). The standard algorithm is extended to allow inbred founders. 'pedprobr' is part of the 'pedsuite', a collection of packages for pedigree analysis in R. In particular, 'pedprobr' depends on 'pedtools' for pedigree manipulations and 'pedmut' for mutation modelling. For more information, see 'Pedigree Analysis in R' (Vigeland, 2021, ISBN:9780128244302).
Author: Magnus Dehli Vigeland [aut, cre]
Maintainer: Magnus Dehli Vigeland <m.d.vigeland@medisin.uio.no>

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Package forceplate updated to version 1.1-4 with previous version 1.1-3 dated 2024-03-12

Title: Processing Force-Plate Data
Description: Process raw force-plate data (txt-files) by segmenting them into trials and, if needed, calculating (user-defined) descriptive statistics of variables for user-defined time bins (relative to trigger onsets) for each trial. When segmenting the data a baseline correction, a filter, and a data imputation can be applied if needed. Experimental data can also be processed and combined with the segmented force-plate data. This procedure is suggested by Johannsen et al. (2023) <doi:10.6084/m9.figshare.22190155> and some of the options (e.g., choice of low-pass filter) are also suggested by Winter (2009) <doi:10.1002/9780470549148>.
Author: Raphael Hartmann [aut, cre] , Anton Koger [aut, ctb] , Leif Johannsen [ctb]
Maintainer: Raphael Hartmann <raphael.hartmann@protonmail.com>

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Package Certara.RsNLME.ModelExecutor updated to version 3.0.2 with previous version 3.0.1 dated 2025-01-07

Title: Execute Pharmacometric Models Using 'shiny'
Description: Execute Nonlinear Mixed Effects (NLME) models for pharmacometrics using a 'shiny' interface. Specify engine parameters and select from different run options, including simple estimation, stepwise covariate search, bootstrapping, simulation, visual predictive check, and more. Models are executed using the 'Certara.RsNLME' package.
Author: James Craig [aut, cre], Mike Talley [aut], Vitalii Nazarov [aut], Certara USA, Inc [cph, fnd]
Maintainer: James Craig <james.craig@certara.com>

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Package wildlifeDI updated to version 1.0.1 with previous version 1.0.0 dated 2024-03-22

Title: Calculate Indices of Dynamic Interaction for Wildlife Tracking Data
Description: Dynamic interaction refers to spatial-temporal associations in the movements of two (or more) animals. This package provides tools for calculating a suite of indices used for quantifying dynamic interaction with wildlife telemetry data. For more information on each of the methods employed see the references within. The package (as of version >= 0.3) also has new tools for automating contact analysis in large tracking datasets. The package (as of version 1.0) uses the 'move2' class of objects for working with tracking dataset.
Author: Jed Long [aut, cre, cph]
Maintainer: Jed Long <jed.long@uwo.ca>

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Package ecb updated to version 0.4.3 with previous version 0.4.2 dated 2023-04-20

Title: Programmatic Access to the European Central Bank's Data Portal
Description: Provides an interface to the European Central Bank's Data Portal API, allowing for programmatic retrieval of a vast quantity of statistical data.
Author: Eric Persson [aut, cre], Franz X. Mohr [ctb]
Maintainer: Eric Persson <expersso5@gmail.com>

Diff between ecb versions 0.4.2 dated 2023-04-20 and 0.4.3 dated 2025-03-19

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Package rtmpt updated to version 2.0-3 with previous version 2.0-2 dated 2025-01-23

Title: Fitting (Exponential/Diffusion) RT-MPT Models
Description: Fit (exponential or diffusion) response-time extended multinomial processing tree (RT-MPT) models by Klauer and Kellen (2018) <doi:10.1016/j.jmp.2017.12.003> and Klauer, Hartmann, and Meyer-Grant (submitted). The RT-MPT class not only incorporate frequencies like traditional multinomial processing tree (MPT) models, but also latencies. This enables it to estimate process completion times and encoding plus motor execution times next to the process probabilities of traditional MPTs. 'rtmpt' is a hierarchical Bayesian framework and posterior samples are sampled using a Metropolis-within-Gibbs sampler (for exponential RT-MPTs) or Hamiltonian-within-Gibbs sampler (for diffusion RT-MPTs).
Author: Raphael Hartmann [aut, cre], Karl C. Klauer [cph, aut, ctb, ths], Constantin G. Meyer-Grant [aut, ctb], Henrik Singmann [ctb, aut], Jean Marie Linhart [ctb], Frederick Novomestky [ctb]
Maintainer: Raphael Hartmann <raphael.hartmann@protonmail.com>

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Package SurfRough updated to version 0.0.1.1 with previous version 0.0.1.0 dated 2024-08-30

Title: Calculate Surface/Image Texture Indexes
Description: Methods for the computation of surface/image texture indices using a geostatistical based approach (Trevisani et al. (2023) <doi:10.1016/j.geomorph.2023.108838>). It provides various functions for the computation of surface texture indices (e.g., omnidirectional roughness and roughness anisotropy), including the ones based on the robust MAD estimator. The kernels included in the software permit also to calculate the surface/image texture indices directly from the input surface (i.e., without de-trending) using increments of order 2. It also provides the new radial roughness index (RRI), representing the improvement of the popular topographic roughness index (TRI). The framework can be easily extended with ad-hoc surface/image texture indices.
Author: Sebastiano Trevisani [aut, cre] , Ilich Alexander [ctb] , Zakharko Taras [ctb]
Maintainer: Sebastiano Trevisani <strevisani@iuav.it>

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Package scan updated to version 0.64.0 with previous version 0.63.0 dated 2025-03-01

Title: Single-Case Data Analyses for Single and Multiple Baseline Designs
Description: A collection of procedures for analysing, visualising, and managing single-case data. These include piecewise linear regression models, multilevel models, overlap indices ('PND', 'PEM', 'PAND', 'PET', 'tau-u', 'baseline corrected tau', 'CDC'), and randomization tests. Data preparation functions support outlier detection, handling missing values, scaling, and custom transformations. An export function helps to generate html, word, and latex tables in a publication friendly style. More details can be found in the online book 'Analyzing single-case data with R and scan', Juergen Wilbert (2025) <https://jazznbass.github.io/scan-Book/>.
Author: Juergen Wilbert [cre, aut] , Timo Lueke [aut]
Maintainer: Juergen Wilbert <juergen.wilbert@uni-muenster.de>

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Package piar updated to version 0.8.2 with previous version 0.8.1 dated 2024-09-12

Title: Price Index Aggregation
Description: Most price indexes are made with a two-step procedure, where period-over-period elemental indexes are first calculated for a collection of elemental aggregates at each point in time, and then aggregated according to a price index aggregation structure. These indexes can then be chained together to form a time series that gives the evolution of prices with respect to a fixed base period. This package contains a collection of functions that revolve around this work flow, making it easy to build standard price indexes, and implement the methods described by Balk (2008, <doi:10.1017/CBO9780511720758>), von der Lippe (2007, <doi:10.3726/978-3-653-01120-3>), and the CPI manual (2020, <doi:10.5089/9781484354841.069>) for bilateral price indexes.
Author: Steve Martin [aut, cre, cph]
Maintainer: Steve Martin <marberts@protonmail.com>

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Package msigdbr updated to version 10.0.1 with previous version 10.0.0 dated 2025-03-12

Title: MSigDB Gene Sets for Multiple Organisms in a Tidy Data Format
Description: Provides the 'Molecular Signatures Database' (MSigDB) gene sets typically used with the 'Gene Set Enrichment Analysis' (GSEA) software (Subramanian et al. 2005 <doi:10.1073/pnas.0506580102>, Liberzon et al. 2015 <doi:10.1016/j.cels.2015.12.004>, Castanza et al. 2023 <doi:10.1038/s41592-023-02014-7>) as an R data frame. The package includes the human genes as listed in MSigDB as well as the corresponding symbols and IDs for frequently studied model organisms such as mouse, rat, pig, fly, and yeast.
Author: Igor Dolgalev [aut, cre]
Maintainer: Igor Dolgalev <igor.dolgalev@nyumc.org>

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Package libgeos updated to version 3.11.1-3 with previous version 3.11.1-2 dated 2023-11-29

Title: Open Source Geometry Engine ('GEOS') C API
Description: Provides the Open Source Geometry Engine ('GEOS') as a C API that can be used to write high-performance C and C++ geometry operations using R as an interface. Headers are provided to make linking to and using these functions from C++ code as easy and as safe as possible. This package contains an internal copy of the 'GEOS' library to guarantee the best possible consistency on multiple platforms.
Author: Dewey Dunnington [aut, cre] , GEOS authors [aut], Martin Davis [ctb, cph], Benjamin Campbell [ctb, cph], Tomasz Sowa [ctb, cph], Christian Kaiser [ctb, cph], David Skea [ctb, cph], Daniel Baston [ctb, cph], Sandro Santilli [ctb, cph], Mateusz Loskot [...truncated...]
Maintainer: Dewey Dunnington <dewey@fishandwhistle.net>

Diff between libgeos versions 3.11.1-2 dated 2023-11-29 and 3.11.1-3 dated 2025-03-19

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Package gemini.R updated to version 0.10.1 with previous version 0.9.2 dated 2025-03-12

Title: Interface for 'Google Gemini' API
Description: Provides a comprehensive interface for Google Gemini API, enabling users to access and utilize Gemini Large Language Model (LLM) functionalities directly from R. This package facilitates seamless integration with Google Gemini, allowing for advanced language processing, text generation, and other AI-driven capabilities within the R environment. For more information, please visit <https://ai.google.dev/docs/gemini_api_overview>.
Author: Jinhwan Kim [aut, cre, cph] , Maciej Nasinski [ctb]
Maintainer: Jinhwan Kim <hwanistic@gmail.com>

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Tue, 18 Mar 2025

Package spatstat.random updated to version 3.3-3 with previous version 3.3-2 dated 2024-09-18

Title: Random Generation Functionality for the 'spatstat' Family
Description: Functionality for random generation of spatial data in the 'spatstat' family of packages. Generates random spatial patterns of points according to many simple rules (complete spatial randomness, Poisson, binomial, random grid, systematic, cell), randomised alteration of patterns (thinning, random shift, jittering), simulated realisations of random point processes including simple sequential inhibition, Matern inhibition models, Neyman-Scott cluster processes (using direct, Brix-Kendall, or hybrid algorithms), log-Gaussian Cox processes, product shot noise cluster processes and Gibbs point processes (using Metropolis-Hastings birth-death-shift algorithm, alternating Gibbs sampler, or coupling-from-the-past perfect simulation). Also generates random spatial patterns of line segments, random tessellations, and random images (random noise, random mosaics). Excludes random generation on a linear network, which is covered by the separate package 'spatstat.linnet'.
Author: Adrian Baddeley [aut, cre, cph] , Rolf Turner [aut, cph] , Ege Rubak [aut, cph] , Tilman Davies [aut, cph] , Kasper Klitgaard Berthelsen [ctb, cph], David Bryant [ctb, cph], Ya-Mei Chang [ctb, cph], Ute Hahn [ctb], Abdollah Jalilian [ctb], Dominic Sc [...truncated...]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>

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Package btergm updated to version 1.11.1 with previous version 1.10.12 dated 2024-03-31

Title: Temporal Exponential Random Graph Models by Bootstrapped Pseudolikelihood
Description: Temporal Exponential Random Graph Models (TERGM) estimated by maximum pseudolikelihood with bootstrapped confidence intervals or Markov Chain Monte Carlo maximum likelihood. Goodness of fit assessment for ERGMs, TERGMs, and SAOMs. Micro-level interpretation of ERGMs and TERGMs. The methods are described in Leifeld, Cranmer and Desmarais (2018), JStatSoft <doi:10.18637/jss.v083.i06>.
Author: Philip Leifeld [aut, cre], Skyler J. Cranmer [ctb], Bruce A. Desmarais [ctb]
Maintainer: Philip Leifeld <philip.leifeld@manchester.ac.uk>

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Package unitizer updated to version 1.4.22 with previous version 1.4.21 dated 2024-05-18

Title: Interactive R Unit Tests
Description: Simplifies regression tests by comparing objects produced by test code with earlier versions of those same objects. If objects are unchanged the tests pass, otherwise execution stops with error details. If in interactive mode, tests can be reviewed through the provided interactive environment.
Author: Brodie Gaslam [aut, cre], Michael https://github.com/MichaelChirico [ctb], R Core Team [cph]
Maintainer: Brodie Gaslam <brodie.gaslam@yahoo.com>

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Package shapley updated to version 0.5 with previous version 0.4 dated 2024-10-22

Title: Weighted Mean SHAP and CI for Robust Feature Assessment in ML Grid
Description: This R package introduces Weighted Mean SHapley Additive exPlanations (WMSHAP), an innovative method for calculating SHAP values for a grid of fine-tuned base-learner machine learning models as well as stacked ensembles, a method not previously available due to the common reliance on single best-performing models. By integrating the weighted mean SHAP values from individual base-learners comprising the ensemble or individual base-learners in a tuning grid search, the package weights SHAP contributions according to each model's performance, assessed by multiple either R squared (for both regression and classification models). alternatively, this software also offers weighting SHAP values based on the area under the precision-recall curve (AUCPR), the area under the curve (AUC), and F2 measures for binary classifiers. It further extends this framework to implement weighted confidence intervals for weighted mean SHAP values, offering a more comprehensive and robust feature importance eval [...truncated...]
Author: E. F. Haghish [aut, cre, cph]
Maintainer: E. F. Haghish <haghish@hotmail.com>

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Package laminr updated to version 1.0.1 with previous version 1.0.0 dated 2025-03-10

Title: Client for 'LaminDB'
Description: Interact with 'LaminDB'. 'LaminDB' is an open-source data framework for biology. This package allows you to query and download data from 'LaminDB' instances.
Author: Robrecht Cannoodt [aut, cre] , Luke Zappia [aut] , Data Intuitive [aut], Lamin Labs [aut, cph]
Maintainer: Robrecht Cannoodt <robrecht@data-intuitive.com>

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Package clustermq updated to version 0.9.8 with previous version 0.9.7 dated 2025-02-09

Title: Evaluate Function Calls on HPC Schedulers (LSF, SGE, SLURM, PBS/Torque)
Description: Evaluate arbitrary function calls using workers on HPC schedulers in single line of code. All processing is done on the network without accessing the file system. Remote schedulers are supported via SSH.
Author: Michael Schubert [aut, cre, cph] , ZeroMQ authors [aut, cph]
Maintainer: Michael Schubert <mschu.dev@gmail.com>

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Package butcher updated to version 0.3.5 with previous version 0.3.4 dated 2024-04-11

Title: Model Butcher
Description: Provides a set of S3 generics to axe components of fitted model objects and help reduce the size of model objects saved to disk.
Author: Joyce Cahoon [aut] , Davis Vaughan [aut], Max Kuhn [aut], Alex Hayes [aut], Julia Silge [cre, aut] , Posit, PBC [cph, fnd]
Maintainer: Julia Silge <julia.silge@posit.co>

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Package subscreen updated to version 4.0.1 with previous version 3.0.7 dated 2022-05-12

Title: Systematic Screening of Study Data for Subgroup Effects
Description: Identifying outcome relevant subgroups has now become as simple as possible! The formerly lengthy and tedious search for the needle in a haystack will be replaced by a single, comprehensive and coherent presentation. The central result of a subgroup screening is a diagram in which each single dot stands for a subgroup. The diagram may show thousands of them. The position of the dot in the diagram is determined by the sample size of the subgroup and the statistical measure of the treatment effect in that subgroup. The sample size is shown on the horizontal axis while the treatment effect is displayed on the vertical axis. Furthermore, the diagram shows the line of no effect and the overall study results. For small subgroups, which are found on the left side of the plot, larger random deviations from the mean study effect are expected, while for larger subgroups only small deviations from the study mean can be expected to be chance findings. So for a study with no conspicuous subgroup ef [...truncated...]
Author: Bodo Kirsch [aut, cre], Steffen Jeske [aut], Julia Eichhorn [aut], Susanne Lippert [aut], Thomas Schmelter [aut], Christoph Muysers [aut], Hermann Kulmann [aut]
Maintainer: Bodo Kirsch <kirschbodo@gmail.com>

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Package secr updated to version 5.2.1 with previous version 5.2.0 dated 2025-01-24

Title: Spatially Explicit Capture-Recapture
Description: Functions to estimate the density and size of a spatially distributed animal population sampled with an array of passive detectors, such as traps, or by searching polygons or transects. Models incorporating distance-dependent detection are fitted by maximizing the likelihood. Tools are included for data manipulation and model selection.
Author: Murray Efford [aut, cre] , Philipp Jund [ctb] , David Fletcher [ctb] , Yan Ru Choo [ctb]
Maintainer: Murray Efford <murray.efford@otago.ac.nz>

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Package metamedian updated to version 1.2.1 with previous version 1.1.1 dated 2023-12-13

Title: Meta-Analysis of Medians
Description: Implements several methods to meta-analyze studies that report the sample median of the outcome. The methods described by McGrath et al. (2019) <doi:10.1002/sim.8013>, Ozturk and Balakrishnan (2020) <doi:10.1002/sim.8738>, and McGrath et al. (2020a) <doi:10.1002/bimj.201900036> can be applied to directly meta-analyze the median or difference of medians between groups. Additionally, a number of methods (e.g., McGrath et al. (2020b) <doi:10.1177/0962280219889080>, Cai et al. (2021) <doi:10.1177/09622802211047348>, and McGrath et al. (2023) <doi:10.1177/09622802221139233>) are implemented to estimate study-specific (difference of) means and their standard errors in order to estimate the pooled (difference of) means. Methods for meta-analyzing median survival times (McGrath et al. (2025) <doi:10.48550/arXiv.2503.03065>) are also implemented. See McGrath et al. (2024) <doi:10.1002/jrsm.1686> for a detailed guide on using the package.
Author: Sean McGrath [aut, cre] , XiaoFei Zhao [aut], Stephan Katzenschlager [aut], Omer Ozturk [aut], Renata Iskander [ctb], Russell Steele [aut], Andrea Benedetti [aut]
Maintainer: Sean McGrath <sean.mcgrath514@gmail.com>

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Package ICS updated to version 1.4-2 with previous version 1.4-1 dated 2023-09-21

Title: Tools for Exploring Multivariate Data via ICS/ICA
Description: Implementation of Tyler, Critchley, Duembgen and Oja's (JRSS B, 2009, <doi:10.1111/j.1467-9868.2009.00706.x>) and Oja, Sirkia and Eriksson's (AJS, 2006, <https://www.ajs.or.at/index.php/ajs/article/view/vol35,%20no2%263%20-%207>) method of two different scatter matrices to obtain an invariant coordinate system or independent components, depending on the underlying assumptions.
Author: Klaus Nordhausen [aut, cre] , Andreas Alfons [aut] , Aurore Archimbaud [aut] , Hannu Oja [aut] , Anne Ruiz-Gazen [aut] , David E. Tyler [aut]
Maintainer: Klaus Nordhausen <klausnordhausenR@gmail.com>

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Package accumulate updated to version 1.0.0 with previous version 0.9.3 dated 2023-09-22

Title: Split-Apply-Combine with Dynamic Groups
Description: Estimate group aggregates, where one can set user-defined conditions that each group of records must satisfy to be suitable for aggregation. If a group of records is not suitable, it is expanded using a collapsing scheme defined by the user. A paper on this package was published in the Journal of Statistical Software <doi:10.18637/jss.v112.i04>.
Author: Mark van der Loo [aut, cre]
Maintainer: Mark van der Loo <mark.vanderloo@gmail.com>

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Package prism updated to version 0.2.2 with previous version 0.2.1 dated 2023-10-18

Title: Access Data from the Oregon State Prism Climate Project
Description: Allows users to access the Oregon State Prism climate data (<https://prism.nacse.org/>). Using the web service API data can easily downloaded in bulk and loaded into R for spatial analysis. Some user friendly visualizations are also provided.
Author: Hart Edmund [aut, ccp], Kendon Bell [aut], Alan Butler [ctb, cre]
Maintainer: Alan Butler <rabutler@usbr.gov>

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Package VisualizeSimon2Stage updated to version 0.1.7 with previous version 0.1.6 dated 2024-10-27

Title: Visualize Simon's Two-Stage Design
Description: To visualize the probabilities of early termination, fail and success of Simon's two-stage design. To evaluate and visualize the operating characteristics of Simon's two-stage design.
Author: Tingting Zhan [aut, cre]
Maintainer: Tingting Zhan <tingtingzhan@gmail.com>

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Package pgmm updated to version 1.2.8 with previous version 1.2.7 dated 2023-09-25

Title: Parsimonious Gaussian Mixture Models
Description: Carries out model-based clustering or classification using parsimonious Gaussian mixture models. McNicholas and Murphy (2008) <doi:10.1007/s11222-008-9056-0>, McNicholas (2010) <doi:10.1016/j.jspi.2009.11.006>, McNicholas and Murphy (2010) <doi:10.1093/bioinformatics/btq498>, McNicholas et al. (2010) <doi:10.1016/j.csda.2009.02.011>.
Author: Paul D. McNicholas [aut, cre] , Aisha ElSherbiny [aut], K. Raju Jampani [ctb], Aaron F. McDaid [aut], T. Brendan Murphy [aut], Larry Banks [ctb]
Maintainer: Paul D. McNicholas <mcnicholas@math.mcmaster.ca>

Diff between pgmm versions 1.2.7 dated 2023-09-25 and 1.2.8 dated 2025-03-18

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Package EcoEnsemble updated to version 1.1.2 with previous version 1.1.0 dated 2024-08-19

Title: A General Framework for Combining Ecosystem Models
Description: Fit and sample from the ensemble model described in Spence et al (2018): "A general framework for combining ecosystem models"<doi:10.1111/faf.12310>.
Author: Michael A. Spence [aut, cre] , James A. Martindale [aut] , Michael J. Thomson [aut] , Thomas I. J. Bartos [aut]
Maintainer: Michael A. Spence <michael.spence@cefas.gov.uk>

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Package rbiom updated to version 2.1.2 with previous version 2.1.1 dated 2025-03-10

Title: Read/Write, Analyze, and Visualize 'BIOM' Data
Description: A toolkit for working with Biological Observation Matrix ('BIOM') files. Read/write all 'BIOM' formats. Compute rarefaction, alpha diversity, and beta diversity (including 'UniFrac'). Summarize counts by taxonomic level. Subset based on metadata. Generate visualizations and statistical analyses. CPU intensive operations are coded in C for speed.
Author: Daniel P. Smith [aut, cre] , Alkek Center for Metagenomics and Microbiome Research [cph, fnd]
Maintainer: Daniel P. Smith <dansmith01@gmail.com>

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Package textrecipes updated to version 1.1.0 with previous version 1.0.7 dated 2025-01-23

Title: Extra 'Recipes' for Text Processing
Description: Converting text to numerical features requires specifically created procedures, which are implemented as steps according to the 'recipes' package. These steps allows for tokenization, filtering, counting (tf and tfidf) and feature hashing.
Author: Emil Hvitfeldt [aut, cre] , Michael W. Kearney [cph] , Posit Software, PBC [cph, fnd]
Maintainer: Emil Hvitfeldt <emil.hvitfeldt@posit.co>

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Package nanonext updated to version 1.5.2 with previous version 1.5.1 dated 2025-02-16

Title: NNG (Nanomsg Next Gen) Lightweight Messaging Library
Description: R binding for NNG (Nanomsg Next Gen), a successor to ZeroMQ. NNG is a socket library for reliable, high-performance messaging over in-process, IPC, TCP, WebSocket and secure TLS transports. Implements 'Scalability Protocols', a standard for common communications patterns including publish/subscribe, request/reply and service discovery. As its own threaded concurrency framework, provides a toolkit for asynchronous programming and distributed computing. Intuitive 'aio' objects resolve automatically when asynchronous operations complete, and synchronisation primitives allow R to wait upon events signalled by concurrent threads.
Author: Charlie Gao [aut, cre] , Hibiki AI Limited [cph], R Consortium [fnd]
Maintainer: Charlie Gao <charlie.gao@shikokuchuo.net>

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Package avocado updated to version 0.2.0 with previous version 0.1.0 dated 2020-12-18

Title: Weekly Hass Avocado Sales Summary
Description: Provides a weekly summary of Hass Avocado sales for the contiguous US from January 2017 through December 20204. See the package website for more information, documentation, and examples. Data source: Haas Avocado Board <https://hassavocadoboard.com/category-data/>.
Author: Nikhil Agarwal [aut, cre]
Maintainer: Nikhil Agarwal <gitnik@niks.me>

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Package surveydown updated to version 0.9.0 with previous version 0.8.0 dated 2025-01-27

Title: Markdown-Based Surveys Using 'Quarto' and 'shiny'
Description: Generate surveys using markdown and R code chunks. Surveys are composed of two files: a survey.qmd 'Quarto' file defining the survey content (pages, questions, etc), and an app.R file defining a 'shiny' app with global settings (libraries, database configuration, etc.) and server configuration options (e.g., conditional skipping / display, etc.). Survey data collected from respondents is stored in a 'PostgreSQL' database. Features include controls for conditional skip logic (skip to a page based on an answer to a question), conditional display logic (display a question based on an answer to a question), a customizable progress bar, and a wide variety of question types, including multiple choice (single choice and multiple choices), select, text, numeric, multiple choice buttons, text area, and dates. Because the surveys render into a 'shiny' app, designers can also leverage the reactive capabilities of 'shiny' to create dynamic and interactive surveys.
Author: John Paul Helveston [aut, cre, cph] , Pingfan Hu [aut, cph] , Bogdan Bunea [aut, cph] , Stefan Munnes [ctb]
Maintainer: John Paul Helveston <john.helveston@gmail.com>

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Package sarima updated to version 0.9.4 with previous version 0.9.3 dated 2024-03-26

Title: Simulation and Prediction with Seasonal ARIMA Models
Description: Functions, classes and methods for time series modelling with ARIMA and related models. The aim of the package is to provide consistent interface for the user. For example, a single function autocorrelations() computes various kinds of theoretical and sample autocorrelations. This is work in progress, see the documentation and vignettes for the current functionality. Function sarima() fits extended multiplicative seasonal ARIMA models with trends, exogenous variables and arbitrary roots on the unit circle, which can be fixed or estimated (for the algebraic basis for this see <doi:10.48550/arXiv.2208.05055>, a paper on the methodology is being prepared).
Author: Georgi N. Boshnakov [aut, cre], Jamie Halliday [aut]
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>

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Package mapgl updated to version 0.2.1 with previous version 0.2.0 dated 2025-01-13

Title: Interactive Maps with 'Mapbox GL JS' and 'MapLibre GL JS'
Description: Provides an interface to the 'Mapbox GL JS' (<https://docs.mapbox.com/mapbox-gl-js/guides>) and the 'MapLibre GL JS' (<https://maplibre.org/maplibre-gl-js/docs/>) interactive mapping libraries to help users create custom interactive maps in R. Users can create interactive globe visualizations; layer 'sf' objects to create filled maps, circle maps, 'heatmaps', and three-dimensional graphics; and customize map styles and views. The package also includes utilities to use 'Mapbox' and 'MapLibre' maps in 'Shiny' web applications.
Author: Kyle Walker [aut, cre]
Maintainer: Kyle Walker <kyle@walker-data.com>

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Package sparklyr updated to version 1.9.0 with previous version 1.8.6 dated 2024-04-29

Title: R Interface to Apache Spark
Description: R interface to Apache Spark, a fast and general engine for big data processing, see <https://spark.apache.org/>. This package supports connecting to local and remote Apache Spark clusters, provides a 'dplyr' compatible back-end, and provides an interface to Spark's built-in machine learning algorithms.
Author: Javier Luraschi [aut], Kevin Kuo [aut] , Kevin Ushey [aut], JJ Allaire [aut], Samuel Macedo [ctb], Hossein Falaki [aut], Lu Wang [aut], Andy Zhang [aut], Yitao Li [aut] , Jozef Hajnala [ctb], Maciej Szymkiewicz [ctb] , Wil Davis [ctb], Edgar Ruiz [au [...truncated...]
Maintainer: Edgar Ruiz <edgar@rstudio.com>

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Package rumidas updated to version 0.1.3 with previous version 0.1.2 dated 2024-02-17

Title: Univariate GARCH-MIDAS, Double-Asymmetric GARCH-MIDAS and MEM-MIDAS
Description: Adds the MIxing-Data Sampling (MIDAS, Ghysels et al. (2007) <doi:10.1080/07474930600972467>) components to a variety of GARCH and MEM (Engle (2002) <doi:10.1002/jae.683>, Engle and Gallo (2006) <doi:10.1016/j.jeconom.2005.01.018>, and Amendola et al. (2024) <doi:10.1016/j.seps.2023.101764>) models, with the aim of predicting the volatility with additional low-frequency (that is, MIDAS) terms. The estimation takes place through simple functions, which provide in-sample and (if present) and out-of-sample evaluations. 'rumidas' also offers a summary tool, which synthesizes the main information of the estimated model. There is also the possibility of generating one-step-ahead and multi-step-ahead forecasts.
Author: Vincenzo Candila [aut, cre]
Maintainer: Vincenzo Candila <vcandila@unisa.it>

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Package officedown updated to version 0.4.0 with previous version 0.3.3 dated 2024-07-16

Title: Enhanced 'R Markdown' Format for 'Word' and 'PowerPoint'
Description: Allows production of 'Microsoft' corporate documents from 'R Markdown' by reusing formatting defined in 'Microsoft Word' documents. You can reuse table styles, list styles but also add column sections, landscape oriented pages. Table and image captions as well as cross-references are transformed into 'Microsoft Word' fields, allowing documents edition and merging without issue with references; the syntax conforms to the 'bookdown' cross-reference definition. Objects generated by the 'officer' package are also supported in the 'knitr' chunks. 'Microsoft PowerPoint' presentations also benefit from this as well as the ability to produce editable vector graphics in 'PowerPoint' and also to define placeholder where content is to be added.
Author: David Gohel [aut, cre, cph], ArData [cph], Institut fuer Qualitaetssicherung und Transparenz im Gesundheitswesen [fnd], Noam Ross [aut] , ArData [cph], Martin Camitz [ctb]
Maintainer: David Gohel <david.gohel@ardata.fr>

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Package lpirfs updated to version 0.2.4 with previous version 0.2.3 dated 2023-07-06

Title: Local Projections Impulse Response Functions
Description: Provides functions to estimate and visualize linear as well as nonlinear impulse responses based on local projections by Jordà (2005) <doi:10.1257/0002828053828518>. The methods and the package are explained in detail in Adämmer (2019) <doi:10.32614/RJ-2019-052>.
Author: Philipp Adaemmer [aut, cre] , James P. LeSage [ctb], Mehmet Balcilar [ctb], Jon Danielsson [ctb]
Maintainer: Philipp Adaemmer <philipp.adaemmer@uni-greifswald.de>

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Package LLMR updated to version 0.2.5 with previous version 0.2.3 dated 2025-03-13

Title: Interface for Large Language Model APIs in R
Description: A unified interface to interact with various Large Language Model (LLM) APIs such as 'OpenAI' (see <https://platform.openai.com/docs/overview> for details), 'Anthropic' (see <https://docs.anthropic.com/en/api/getting-started> for details), 'Groq' (see <https://console.groq.com/docs/api-reference> for details), 'Together AI' (see <https://docs.together.ai/docs/quickstart> for details), 'DeepSeek' (see <https://api-docs.deepseek.com> for details), 'Gemini' (see <https://aistudio.google.com> for details), and 'Voyage AI' (see <https://docs.voyageai.com/docs/introduction> for details). Allows users to use and switch between various APIs seamlessly within R, and define LLM agents.
Author: Ali Sanaei [aut, cre]
Maintainer: Ali Sanaei <sanaei@uchicago.edu>

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Package copula updated to version 1.1-6 with previous version 1.1-5 dated 2025-02-09

Title: Multivariate Dependence with Copulas
Description: Classes (S4) of commonly used elliptical, Archimedean, extreme-value and other copula families, as well as their rotations, mixtures and asymmetrizations. Nested Archimedean copulas, related tools and special functions. Methods for density, distribution, random number generation, bivariate dependence measures, Rosenblatt transform, Kendall distribution function, perspective and contour plots. Fitting of copula models with potentially partly fixed parameters, including standard errors. Serial independence tests, copula specification tests (independence, exchangeability, radial symmetry, extreme-value dependence, goodness-of-fit) and model selection based on cross-validation. Empirical copula, smoothed versions, and non-parametric estimators of the Pickands dependence function.
Author: Marius Hofert [aut] , Ivan Kojadinovic [aut] , Martin Maechler [aut, cre] , Jun Yan [aut] , Johanna G. Neslehova [ctb] , <https://orcid.org/0000-0001-9634-4796>), Rebecca Morger [ctb] : code for free mixCopula weight parameters)
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>

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Package bibliometrix updated to version 4.3.3 with previous version 4.3.2 dated 2025-01-27

Title: Comprehensive Science Mapping Analysis
Description: Tool for quantitative research in scientometrics and bibliometrics. It implements the comprehensive workflow for science mapping analysis proposed in Aria M. and Cuccurullo C. (2017) <doi:10.1016/j.joi.2017.08.007>. 'bibliometrix' provides various routines for importing bibliographic data from 'SCOPUS', 'Clarivate Analytics Web of Science' (<https://www.webofknowledge.com/>), 'Digital Science Dimensions' (<https://www.dimensions.ai/>), 'OpenAlex' (<https://openalex.org/>), 'Cochrane Library' (<https://www.cochranelibrary.com/>), 'Lens' (<https://lens.org>), and 'PubMed' (<https://pubmed.ncbi.nlm.nih.gov/>) databases, performing bibliometric analysis and building networks for co-citation, coupling, scientific collaboration and co-word analysis.
Author: Massimo Aria [cre, aut, cph] , Corrado Cuccurullo [aut]
Maintainer: Massimo Aria <aria@unina.it>

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Package VertexWiseR updated to version 1.3.0 with previous version 1.2.1 dated 2025-03-09

Title: Simplified Vertex-Wise Analyses of Whole-Brain and Hippocampal Surface
Description: Provides functions to run statistical analyses on surface-based neuroimaging data, computing measures including cortical thickness and surface area of the whole-brain and of the hippocampi. It can make use of 'FreeSurfer', 'fMRIprep' and 'HCP' preprocessed datasets and 'HippUnfold' hippocampal segmentation outputs for a given sample by restructuring the data values into a single file. The single file can then be used by the package for analyses independently from its base dataset and without need for its access.
Author: Junhong Yu [aut] , Charly Billaud [aut, cre]
Maintainer: Charly Billaud <charly.billaud@ntu.edu.sg>

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Package text updated to version 1.4 with previous version 1.3.0 dated 2024-12-05

Title: Analyses of Text using Transformers Models from HuggingFace, Natural Language Processing and Machine Learning
Description: Link R with Transformers from Hugging Face to transform text variables to word embeddings; where the word embeddings are used to statistically test the mean difference between set of texts, compute semantic similarity scores between texts, predict numerical variables, and visual statistically significant words according to various dimensions etc. For more information see <https://www.r-text.org>.
Author: Oscar Kjell [aut, cre] , Salvatore Giorgi [aut] , Andrew Schwartz [aut]
Maintainer: Oscar Kjell <oscar.kjell@psy.lu.se>

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Package spatstat.geom updated to version 3.3-6 with previous version 3.3-5 dated 2025-01-18

Title: Geometrical Functionality of the 'spatstat' Family
Description: Defines spatial data types and supports geometrical operations on them. Data types include point patterns, windows (domains), pixel images, line segment patterns, tessellations and hyperframes. Capabilities include creation and manipulation of data (using command line or graphical interaction), plotting, geometrical operations (rotation, shift, rescale, affine transformation), convex hull, discretisation and pixellation, Dirichlet tessellation, Delaunay triangulation, pairwise distances, nearest-neighbour distances, distance transform, morphological operations (erosion, dilation, closing, opening), quadrat counting, geometrical measurement, geometrical covariance, colour maps, calculus on spatial domains, Gaussian blur, level sets of images, transects of images, intersections between objects, minimum distance matching. (Excludes spatial data on a network, which are supported by the package 'spatstat.linnet'.)
Author: Adrian Baddeley [aut, cre, cph] , Rolf Turner [aut, cph] , Ege Rubak [aut, cph] , Warick Brown [ctb], Tilman Davies [ctb], Ute Hahn [ctb], Martin Hazelton [ctb], Abdollah Jalilian [ctb], Greg McSwiggan [ctb, cph], Sebastian Meyer [ctb, cph], Jens Oeh [...truncated...]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>

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Package PRROC updated to version 1.4 with previous version 1.3.1 dated 2018-06-19

Title: Precision-Recall and ROC Curves for Weighted and Unweighted Data
Description: Computes the areas under the precision-recall (PR) and ROC curve for weighted (e.g., soft-labeled) and unweighted data. In contrast to other implementations, the interpolation between points of the PR curve is done by a non-linear piecewise function. In addition to the areas under the curves, the curves themselves can also be computed and plotted by a specific S3-method. References: Davis and Goadrich (2006) <doi:10.1145/1143844.1143874>; Keilwagen et al. (2014) <doi:10.1371/journal.pone.0092209>; Grau et al. (2015) <doi:10.1093/bioinformatics/btv153>.
Author: Jan Grau [aut, cre], Jens Keilwagen [aut]
Maintainer: Jan Grau <grau@informatik.uni-halle.de>

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Package OxSR updated to version 1.0.1 with previous version 1.0.0 dated 2025-03-11

Title: Soil Iron Oxides via Diffuse Reflectance
Description: Calculate the ratio of iron oxides, hematite and goethite, in soil using the diffuse reflectance technique. The Kubelka-Munk theory, second derivative analysis, and spectral region amplitudes related to hematite and goethite content are used for quantification (Torrent, J., & Barron, V. (2008) <doi:10.2136/sssabookser5.5.c13>). Additionally, the package calculates soil color in the visible spectrum using Munsell and RGB color spaces, based on color theory (Viscarra et al. (2006) <doi:10.1016/j.geoderma.2005.07.017>).
Author: Gustavo Frosi [aut, cre] , Vidal Barron [aut] , Alberto Inda [aut] , Kayn Bastiani [aut]
Maintainer: Gustavo Frosi <gustavofrosi@hotmail.com>

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Package liver updated to version 1.19 with previous version 1.18 dated 2024-11-22

Title: "Eating the Liver of Data Science"
Description: Provides a suite of helper functions and a collection of datasets used in the book <https://uncovering-data-science.netlify.app>. It is designed to make data science techniques accessible to individuals with minimal coding experience. Inspired by an ancient Persian idiom, the package likens this learning process to "eating the liver of data science," symbolizing deep and immersive engagement with the field.
Author: Reza Mohammadi [aut, cre] , Kevin Burke [aut]
Maintainer: Reza Mohammadi <a.mohammadi@uva.nl>

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More information about liver at CRAN
Permanent link

Package crunch updated to version 1.31.0 with previous version 1.30.4 dated 2024-01-17

Title: Crunch.io Data Tools
Description: The Crunch.io service <https://crunch.io/> provides a cloud-based data store and analytic engine, as well as an intuitive web interface. Using this package, analysts can interact with and manipulate Crunch datasets from within R. Importantly, this allows technical researchers to collaborate naturally with team members, managers, and clients who prefer a point-and-click interface.
Author: Greg Freedman Ellis [aut, cre], Jonathan Keane [aut], Mike Malecki [aut], Neal Richardson [aut], Gordon Shotwell [aut], Aljaz Sluga [aut]
Maintainer: Greg Freedman Ellis <greg@crunch.io>

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Package crplyr updated to version 0.4.2 with previous version 0.4.0 dated 2023-03-21

Title: A 'dplyr' Interface for Crunch
Description: In order to facilitate analysis of datasets hosted on the Crunch data platform <https://crunch.io/>, the 'crplyr' package implements 'dplyr' methods on top of the Crunch backend. The usual methods 'select', 'filter', 'group_by', 'summarize', and 'collect' are implemented in such a way as to perform as much computation on the server and pull as little data locally as possible.
Author: Greg Freedman Ellis [aut, cre], Jonathan Keane [aut], Neal Richardson [aut], Mike Malecki [aut], Gordon Shotwell [aut], Aljaz Sluga [aut]
Maintainer: Greg Freedman Ellis <greg@crunch.io>

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Package censoredAIDS updated to version 1.0.0 with previous version 0.1.0 dated 2025-03-13

Title: Estimation of Censored AI/QUAI Demand System via Maximum Likelihood Estimation (MLE)
Description: Tools for estimating censored Almost Ideal (AI) and Quadratic Almost Ideal (QUAI) demand systems using Maximum Likelihood Estimation (MLE). It includes functions for calculating demand share equations and the truncated log-likelihood function for a system of equations, incorporating demographic variables. The package is designed to handle censored data, where some observations may be zero due to non-purchase of certain goods. Package also contains a procedure to approximate demand elasticities numerically and estimate standard errors via Delta Method. It is particularly useful for applied researchers analyzing household consumption data.
Author: Noe J Nava [aut, cre]
Maintainer: Noe J Nava <noejnava2@gmail.com>

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Package semaphore updated to version 1.1.0 with previous version 1.0.2 dated 2024-11-13

Title: Shared Memory Atomic Operations
Description: Implements named semaphores from the 'boost' 'C++' library <https://www.boost.org/>. A semaphore object is shared amongst several processes. This integer value can be safely incremented or decremented by each process. Processes can also wait (blocking) for the value to become positive.
Author: Daniel P. Smith [aut, cre] , Alkek Center for Metagenomics and Microbiome Research [cph, fnd]
Maintainer: Daniel P. Smith <dansmith01@gmail.com>

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Package Rtwobitlib updated to version 0.3.8 with previous version 0.3.6 dated 2024-04-24

Title: '2bit' 'C' Library
Description: A trimmed down copy of the "kent-core source tree" turned into a 'C' library for manipulation of '.2bit' files. See <https://genome.ucsc.edu/FAQ/FAQformat.html#format7> for a quick overview of the '2bit' format. The "kent-core source tree" can be found here: <https://github.com/ucscGenomeBrowser/kent-core/>. Only the '.c' and '.h' files from the source tree that are related to manipulation of '.2bit' files were kept. Note that the package is primarily useful to developers of other R packages who wish to use the '2bit' 'C' library in their own 'C'/'C++' code.
Author: Herve Pages [aut, cre], UC Regents [cph]
Maintainer: Herve Pages <hpages.on.github@gmail.com>

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Package R2D2ordinal updated to version 1.0.1 with previous version 1.0.0 dated 2025-02-27

Title: Implements Pseudo-R2D2 Prior for Ordinal Regression
Description: Implements the pseudo-R2D2 prior for ordinal regression from the paper "Psuedo-R2D2 prior for high-dimensional ordinal regression" by Yanchenko (2025) <doi:10.48550/arXiv.2502.17491>. In particular, it provides code to evaluate the probability distribution function for the cut-points, compute the log-likelihood, calculate the hyper-parameters for the global variance parameter, find the distribution of McFadden's coefficient-of-determination, and fit the model in 'rstan'. Please cite the paper if you use these codes.
Author: Eric Yanchenko [aut, cre]
Maintainer: Eric Yanchenko <eyanchenko@aiu.ac.jp>

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Package L1pack updated to version 0.52 with previous version 0.50 dated 2024-09-08

Title: Routines for L1 Estimation
Description: L1 estimation for linear regression using Barrodale and Roberts' method <doi:10.1145/355616.361024> and the EM algorithm <doi:10.1023/A:1020759012226>. Estimation of mean and covariance matrix using the multivariate Laplace distribution, density, distribution function, quantile function and random number generation for univariate and multivariate Laplace distribution <doi:10.1080/03610929808832115>. Implementation of Naik and Plungpongpun <doi:10.1007/0-8176-4487-3_7> for the Generalized spatial median estimator is included.
Author: Felipe Osorio [aut, cre] , Tymoteusz Wolodzko [aut]
Maintainer: Felipe Osorio <faosorios.stat@gmail.com>

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Package gifski updated to version 1.32.0-2 with previous version 1.32.0-1 dated 2024-10-13

Title: Highest Quality GIF Encoder
Description: Multi-threaded GIF encoder written in Rust: <https://gif.ski/>. Converts images to GIF animations using pngquant's efficient cross-frame palettes and temporal dithering with thousands of colors per frame.
Author: Jeroen Ooms [aut, cre] , Kornel Lesinski [aut] , Authors of the dependency Rust crates [aut]
Maintainer: Jeroen Ooms <jeroenooms@gmail.com>

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Package CohortCharacteristics updated to version 0.5.0 with previous version 0.4.0 dated 2024-11-26

Title: Summarise and Visualise Characteristics of Patients in the OMOP CDM
Description: Summarise and visualise the characteristics of patients in data mapped to the Observational Medical Outcomes Partnership (OMOP) common data model (CDM).
Author: Marti Catala [aut, cre] , Yuchen Guo [aut] , Mike Du [ctb] , Kim Lopez-Guell [aut] , Edward Burn [aut] , Nuria Mercade-Besora [aut] , Marta Alcalde [aut]
Maintainer: Marti Catala <marti.catalasabate@ndorms.ox.ac.uk>

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Package brotli updated to version 1.3.2 with previous version 1.3.1 dated 2024-10-04

Title: A Compression Format Optimized for the Web
Description: A lossless compressed data format that uses a combination of the LZ77 algorithm and Huffman coding <https://www.rfc-editor.org/rfc/rfc7932>. Brotli is similar in speed to deflate (gzip) but offers more dense compression.
Author: Jeroen Ooms [aut, cre] , Google, Inc [aut, cph]
Maintainer: Jeroen Ooms <jeroenooms@gmail.com>

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Package renv updated to version 1.1.3 with previous version 1.1.2 dated 2025-03-02

Title: Project Environments
Description: A dependency management toolkit for R. Using 'renv', you can create and manage project-local R libraries, save the state of these libraries to a 'lockfile', and later restore your library as required. Together, these tools can help make your projects more isolated, portable, and reproducible.
Author: Kevin Ushey [aut, cre] , Hadley Wickham [aut] , Posit Software, PBC [cph, fnd]
Maintainer: Kevin Ushey <kevin@rstudio.com>

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Package h2otools updated to version 0.4 with previous version 0.3 dated 2023-05-04

Title: Machine Learning Model Evaluation for 'h2o' Package
Description: Enhances the H2O platform by providing tools for detailed evaluation of machine learning models. It includes functions for bootstrapped performance evaluation, extended F-score calculations, and various other metrics, aimed at improving model assessment.
Author: E. F. Haghish [aut, cre, cph]
Maintainer: E. F. Haghish <haghish@hotmail.com>

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Package dbx updated to version 0.4.0 with previous version 0.3.2 dated 2024-06-03

Title: A Fast, Easy-to-Use Database Interface
Description: Provides select, insert, update, upsert, and delete database operations. Supports 'PostgreSQL', 'MySQL', 'SQLite', and more, and plays nicely with the 'DBI' package.
Author: Andrew Kane [aut, cre]
Maintainer: Andrew Kane <andrew@chartkick.com>

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Package crm12Comb updated to version 0.1.10 with previous version 0.1.9 dated 2024-12-09

Title: Phase I/II CRM Based Drug Combination Design
Description: Implements the adaptive designs for integrated phase I/II trials of drug combinations via continual reassessment method (CRM) to evaluate toxicity and efficacy simultaneously for each enrolled patient cohort based on Bayesian inference. It supports patients assignment guidance in a single trial using current enrolled data, as well as conducting extensive simulation studies to evaluate operating characteristics before the trial starts. It includes various link functions such as empiric, one-parameter logistic, two-parameter logistic, and hyperbolic tangent, as well as considering multiple prior distributions of the parameters like normal distribution, gamma distribution and exponential distribution to accommodate diverse clinical scenarios. Method using Bayesian framework with empiric link function is described in: Wages and Conaway (2014) <doi:10.1002/sim.6097>.
Author: Junying Wang [cre, aut], Song Wu [aut], Jie Yang [aut]
Maintainer: Junying Wang <junying.wang@stonybrook.edu>

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Package sitreeE updated to version 0.0-9 with previous version 0.0-8 dated 2021-11-23

Title: Sitree Extensions
Description: Provides extensions for package 'sitree' for allometric variables, growth, mortality, recruitment, management, tree removal and external modifiers functions.
Author: Clara Anton Fernandez [aut] , Ignacio Sevillano [cre]
Maintainer: Ignacio Sevillano <ignacio.sevillano@nibio.no>

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Package gips updated to version 1.2.3 with previous version 1.2.1 dated 2023-08-12

Title: Gaussian Model Invariant by Permutation Symmetry
Description: Find the permutation symmetry group such that the covariance matrix of the given data is approximately invariant under it. Discovering such a permutation decreases the number of observations needed to fit a Gaussian model, which is of great use when it is smaller than the number of variables. Even if that is not the case, the covariance matrix found with 'gips' approximates the actual covariance with less statistical error. The methods implemented in this package are described in Graczyk et al. (2022) <doi:10.1214/22-AOS2174>. Documentation about 'gips' is provided via its website at <https://przechoj.github.io/gips/> and the paper by Chojecki, Morgen, Kołodziejek (2025, <doi:10.18637/jss.v112.i07>).
Author: Adam Przemyslaw Chojecki [aut, cre], Pawel Morgen [aut], Bartosz Kolodziejek [aut]
Maintainer: Adam Przemyslaw Chojecki <adam.prze.choj@gmail.com>

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More information about gips at CRAN
Permanent link

Package SudokuDesigns updated to version 1.2.0 with previous version 1.1.0 dated 2024-11-28

Title: Sudoku as an Experimental Design
Description: Sudoku designs (Bailey et al., 2008<doi:10.1080/00029890.2008.11920542>) can be used as experimental designs which tackle one extra source of variation than conventional Latin square designs. Although Sudoku designs are similar to Latin square designs, only addition is the region concept. Some very important functions related to row-column designs as well as block designs along with basic functions are included in this package.
Author: Ashutosh Dalal [aut, cre], Cini Varghese [aut, ctb], Rajender Parsad [aut, ctb], Mohd Harun [aut, ctb]
Maintainer: Ashutosh Dalal <ashutosh.dalal97@gmail.com>

Diff between SudokuDesigns versions 1.1.0 dated 2024-11-28 and 1.2.0 dated 2025-03-18

 DESCRIPTION          |    6 +++---
 MD5                  |    4 ++--
 R/Check_MP_Inverse.R |   46 +++++++++++++++++++++++++++++-----------------
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More information about SudokuDesigns at CRAN
Permanent link

Package RcppArmadillo updated to version 14.4.0-1 with previous version 14.2.3-1 dated 2025-02-06

Title: 'Rcpp' Integration for the 'Armadillo' Templated Linear Algebra Library
Description: 'Armadillo' is a templated C++ linear algebra library (by Conrad Sanderson) that aims towards a good balance between speed and ease of use. Integer, floating point and complex numbers are supported, as well as a subset of trigonometric and statistics functions. Various matrix decompositions are provided through optional integration with LAPACK and ATLAS libraries. The 'RcppArmadillo' package includes the header files from the templated 'Armadillo' library. Thus users do not need to install 'Armadillo' itself in order to use 'RcppArmadillo'. From release 7.800.0 on, 'Armadillo' is licensed under Apache License 2; previous releases were under licensed as MPL 2.0 from version 3.800.0 onwards and LGPL-3 prior to that; 'RcppArmadillo' (the 'Rcpp' bindings/bridge to Armadillo) is licensed under the GNU GPL version 2 or later, as is the rest of 'Rcpp'.
Author: Dirk Eddelbuettel [aut, cre] , Romain Francois [aut] , Doug Bates [aut] , Binxiang Ni [aut], Conrad Sanderson [aut]
Maintainer: Dirk Eddelbuettel <edd@debian.org>

Diff between RcppArmadillo versions 14.2.3-1 dated 2025-02-06 and 14.4.0-1 dated 2025-03-18

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More information about RcppArmadillo at CRAN
Permanent link

Package fmesher updated to version 0.3.0 with previous version 0.2.0 dated 2024-11-06

Title: Triangle Meshes and Related Geometry Tools
Description: Generate planar and spherical triangle meshes, compute finite element calculations for 1- and 2-dimensional flat and curved manifolds with associated basis function spaces, methods for lines and polygons, and transparent handling of coordinate reference systems and coordinate transformation, including 'sf' and 'sp' geometries. The core 'fmesher' library code was originally part of the 'INLA' package, and implements parts of "Triangulations and Applications" by Hjelle and Daehlen (2006) <doi:10.1007/3-540-33261-8>.
Author: Finn Lindgren [aut, cre, cph] , Seaton Andy [ctb] , Suen Man Ho [ctb] , Fabian E. Bachl [ctb]
Maintainer: Finn Lindgren <finn.lindgren@gmail.com>

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More information about fmesher at CRAN
Permanent link

Mon, 17 Mar 2025

Package EIEntropy updated to version 0.0.1.4 with previous version 0.0.1.3 dated 2024-11-04

Title: Ecological Inference Applying Entropy
Description: Implements two estimations related to the foundations of info metrics applied to ecological inference. These methodologies assess the lack of disaggregated data and provide an approach to obtaining disaggregated territorial-level data. For more details, see the following references: Fernández-Vázquez, E., Díaz-Dapena, A., Rubiera-Morollón, F. et al. (2020) "Spatial Disaggregation of Social Indicators: An Info-Metrics Approach." <doi:10.1007/s11205-020-02455-z>. Díaz-Dapena, A., Fernández-Vázquez, E., Rubiera-Morollón, F., & Vinuela, A. (2021) "Mapping poverty at the local level in Europe: A consistent spatial disaggregation of the AROPE indicator for France, Spain, Portugal and the United Kingdom." <doi:10.1111/rsp3.12379>.
Author: Alberto Diaz-Dapena [aut, cph], Esteban Fernandez-Vazquez [aut, cph], Silvia Maria Franco Anaya [aut, cre, cph]
Maintainer: Silvia Maria Franco Anaya <sfrana@unileon.es>

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Package writexl updated to version 1.5.2 with previous version 1.5.1 dated 2024-10-04

Title: Export Data Frames to Excel 'xlsx' Format
Description: Zero-dependency data frame to xlsx exporter based on 'libxlsxwriter' <https://libxlsxwriter.github.io>. Fast and no Java or Excel required.
Author: Jeroen Ooms [aut, cre] , John McNamara [cph] )
Maintainer: Jeroen Ooms <jeroenooms@gmail.com>

Diff between writexl versions 1.5.1 dated 2024-10-04 and 1.5.2 dated 2025-03-17

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More information about writexl at CRAN
Permanent link

Package ProbBreed updated to version 1.0.4.6 with previous version 1.0.4.5 dated 2025-02-02

Title: Probability Theory for Selecting Candidates in Plant Breeding
Description: Use probability theory under the Bayesian framework for calculating the risk of selecting candidates in a multi-environment context. Contained are functions used to fit a Bayesian multi-environment model (based on the available presets), extract posterior values and maximum posterior values, compute the variance components, check the model’s convergence, and calculate the probabilities. For both across and within-environments scopes, the package computes the probability of superior performance and the pairwise probability of superior performance. Furthermore, the probability of superior stability and the pairwise probability of superior stability across environments is estimated. A joint probability of superior performance and stability is also provided.
Author: Saulo Chaves [aut, cre] , Kaio Dias [aut, cph] , Matheus Krause [aut]
Maintainer: Saulo Chaves <saulo.chaves@ufv.br>

Diff between ProbBreed versions 1.0.4.5 dated 2025-02-02 and 1.0.4.6 dated 2025-03-17

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 21 files changed, 225 insertions(+), 221 deletions(-)

More information about ProbBreed at CRAN
Permanent link

Package makeit updated to version 1.0.2 with previous version 1.0.1 dated 2023-10-27

Title: Run R Scripts if Needed
Description: Automation tool to run R scripts if needed, based on last modified time. It comes with no package dependencies, organizational overhead, or structural requirements. In short: run an R script if underlying files have changed, otherwise do nothing.
Author: Arni Magnusson [aut, cre]
Maintainer: Arni Magnusson <thisisarni@gmail.com>

Diff between makeit versions 1.0.1 dated 2023-10-27 and 1.0.2 dated 2025-03-17

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More information about makeit at CRAN
Permanent link

Package recipes updated to version 1.2.0 with previous version 1.1.1 dated 2025-02-12

Title: Preprocessing and Feature Engineering Steps for Modeling
Description: A recipe prepares your data for modeling. We provide an extensible framework for pipeable sequences of feature engineering steps provides preprocessing tools to be applied to data. Statistical parameters for the steps can be estimated from an initial data set and then applied to other data sets. The resulting processed output can then be used as inputs for statistical or machine learning models.
Author: Max Kuhn [aut, cre], Hadley Wickham [aut], Emil Hvitfeldt [aut], Posit Software, PBC [cph, fnd]
Maintainer: Max Kuhn <max@posit.co>

Diff between recipes versions 1.1.1 dated 2025-02-12 and 1.2.0 dated 2025-03-17

 DESCRIPTION                                   |    8 
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 R/arrange.R                                   |   22 
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 R/center.R                                    |   32 -
 R/class.R                                     |   95 +--
 R/classdist.R                                 |   63 +-
 R/classdist_shrunken.R                        |  226 ++++---
 R/colcheck.R                                  |   24 
 R/corr.R                                      |   72 +-
 R/count.R                                     |   99 ++-
 R/cut.R                                       |   23 
 R/date.R                                      |   75 +-
 R/deprec-impute_bag.R                         |   26 
 R/deprec-impute_knn.R                         |   26 
 R/deprec-impute_lower.R                       |   18 
 R/deprec-impute_median.R                      |   18 
 R/deprec-impute_mena.R                        |   22 
 R/deprec-impute_mode.R                        |   22 
 R/deprec-impute_roll.R                        |   24 
 R/deprec-terms_select.R                       |    2 
 R/depth.R                                     |   57 +
 R/developer.R                                 |   16 
 R/discretize.R                                |   80 +-
 R/dummy.R                                     |  101 +--
 R/dummy_extract.R                             |  127 +++-
 R/dummy_multi_choice.R                        |  119 ++-
 R/extension_check.R                           |   17 
 R/extract_parameter.R                         |    9 
 R/factor2string.R                             |   17 
 R/filter.R                                    |   22 
 R/filter_missing.R                            |   58 +
 R/format.R                                    |    6 
 R/geodist.R                                   |   90 +-
 R/get_types_recipes.R                         |    7 
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 R/holiday.R                                   |  108 ++-
 R/hyperbolic.R                                |   27 
 R/ica.R                                       |   64 +-
 R/import-standalone-obj-type.R                |  107 +--
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 R/missing.R                                   |   16 
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 R/nnmf.R                                      |   72 +-
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 R/poly.R                                      |   45 -
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 tests/testthat/_snaps/bs.md                   |    4 
 tests/testthat/_snaps/classdist.md            |    2 
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 tests/testthat/_snaps/corr.md                 |    2 
 tests/testthat/_snaps/date.md                 |    2 
 tests/testthat/_snaps/depth.md                |    2 
 tests/testthat/_snaps/discretize.md           |    2 
 tests/testthat/_snaps/dummy.md                |   14 
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 tests/testthat/_snaps/filter_missing.md       |    2 
 tests/testthat/_snaps/geodist.md              |    6 
 tests/testthat/_snaps/hyperbolic.md           |    4 
 tests/testthat/_snaps/ica.md                  |    6 
 tests/testthat/_snaps/impute_knn.md           |    4 
 tests/testthat/_snaps/impute_lower.md         |    4 
 tests/testthat/_snaps/mutate_at.md            |    2 
 tests/testthat/_snaps/nnmf_sparse.md          |    4 
 tests/testthat/_snaps/normalize.md            |    4 
 tests/testthat/_snaps/ns.md                   |    4 
 tests/testthat/_snaps/nzv.md                  |    5 
 tests/testthat/_snaps/other.md                |    4 
 tests/testthat/_snaps/pca.md                  |    4 
 tests/testthat/_snaps/percentile.md           |    8 
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 tests/testthat/_snaps/poly_bernstein.md       |    4 
 tests/testthat/_snaps/range.md                |    4 
 tests/testthat/_snaps/ratio.md                |    2 
 tests/testthat/_snaps/rename_at.md            |    2 
 tests/testthat/_snaps/scale.md                |    4 
 tests/testthat/_snaps/spatialsign.md          |   12 
 tests/testthat/_snaps/spline_b.md             |    4 
 tests/testthat/_snaps/spline_convex.md        |    4 
 tests/testthat/_snaps/spline_monotone.md      |    4 
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 tests/testthat/_snaps/sqrt.md                 |    4 
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 tests/testthat/test-inverse.R                 |    6 
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Permanent link

Package mongolite updated to version 3.1.2 with previous version 3.1.1 dated 2025-03-05

Title: Fast and Simple 'MongoDB' Client for R
Description: High-performance MongoDB client based on 'mongo-c-driver' and 'jsonlite'. Includes support for aggregation, indexing, map-reduce, streaming, encryption, enterprise authentication, and GridFS. The online user manual provides an overview of the available methods in the package: <https://jeroen.github.io/mongolite/>.
Author: Jeroen Ooms [aut, cre] , MongoDB, Inc [cph]
Maintainer: Jeroen Ooms <jeroenooms@gmail.com>

Diff between mongolite versions 3.1.1 dated 2025-03-05 and 3.1.2 dated 2025-03-17

 DESCRIPTION      |    6 +++---
 MD5              |   10 +++++-----
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More information about mongolite at CRAN
Permanent link

Package hellorust updated to version 1.2.3 with previous version 1.2.2 dated 2024-09-22

Title: Minimal Examples of Using Rust Code in R
Description: Template R package with minimal setup to use Rust code in R without hacks or frameworks. Includes basic examples of importing cargo dependencies, spawning threads and passing numbers or strings from Rust to R. Cargo crates are automatically 'vendored' in the R source package to support offline installation. The GitHub repository for this package has more details and also explains how to set up CI. This project was first presented at 'Erum2018' to showcase R-Rust integration <https://jeroen.github.io/erum2018/>; for a real world use-case, see the 'gifski' package on 'CRAN'.
Author: Jeroen Ooms [aut, cre] , Authors of the dependency Rust crates [aut]
Maintainer: Jeroen Ooms <jeroenooms@gmail.com>

Diff between hellorust versions 1.2.2 dated 2024-09-22 and 1.2.3 dated 2025-03-17

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More information about hellorust at CRAN
Permanent link

Package graphql updated to version 1.5.3 with previous version 1.5.2 dated 2024-10-04

Title: A GraphQL Query Parser
Description: Bindings to the 'libgraphqlparser' C++ library. Parses GraphQL <https://graphql.org> syntax and exports the AST in JSON format.
Author: Jeroen Ooms [cre, aut], Barret Schloerke [ctb], Scott Wolchok [ctb], Facebook, Inc [aut, cph]
Maintainer: Jeroen Ooms <jeroenooms@gmail.com>

Diff between graphql versions 1.5.2 dated 2024-10-04 and 1.5.3 dated 2025-03-17

 DESCRIPTION  |    6 +++---
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Permanent link

Package TSLA updated to version 0.1.2 with previous version 0.1.1 dated 2025-02-10

Title: Tree-Guided Rare Feature Selection and Logic Aggregation
Description: Implementation of the tree-guided feature selection and logic aggregation approach introduced in Chen et al. (2024) <doi:10.1080/01621459.2024.2326621>. The method enables the selection and aggregation of large-scale rare binary features with a known hierarchical structure using a convex, linearly-constrained regularized regression framework. The package facilitates the application of this method to both linear regression and binary classification problems by solving the optimization problem via the smoothing proximal gradient descent algorithm (Chen et al. (2012) <doi:10.1214/11-AOAS514>).
Author: Jianmin Chen [aut, cre], Kun Chen [aut]
Maintainer: Jianmin Chen <jianminc000@gmail.com>

Diff between TSLA versions 0.1.1 dated 2025-02-10 and 0.1.2 dated 2025-03-17

 DESCRIPTION       |    6 +++---
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More information about TSLA at CRAN
Permanent link

Package sparsevctrs updated to version 0.3.1 with previous version 0.3.0 dated 2025-03-10

Title: Sparse Vectors for Use in Data Frames
Description: Provides sparse vectors powered by ALTREP (Alternative Representations for R Objects) that behave like regular vectors, and can thus be used in data frames. Also provides tools to convert between sparse matrices and data frames with sparse columns and functions to interact with sparse vectors.
Author: Emil Hvitfeldt [aut, cre] , Davis Vaughan [ctb], Posit Software, PBC [cph, fnd]
Maintainer: Emil Hvitfeldt <emil.hvitfeldt@posit.co>

Diff between sparsevctrs versions 0.3.0 dated 2025-03-10 and 0.3.1 dated 2025-03-17

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More information about sparsevctrs at CRAN
Permanent link

Package mime updated to version 0.13 with previous version 0.12 dated 2021-09-28

Title: Map Filenames to MIME Types
Description: Guesses the MIME type from a filename extension using the data derived from /etc/mime.types in UNIX-type systems.
Author: Yihui Xie [aut, cre] , Jeffrey Horner [ctb], Beilei Bian [ctb]
Maintainer: Yihui Xie <xie@yihui.name>

Diff between mime versions 0.12 dated 2021-09-28 and 0.13 dated 2025-03-17

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Package OncoBayes2 updated to version 0.9-1 with previous version 0.9-0 dated 2025-03-01

Title: Bayesian Logistic Regression for Oncology Dose-Escalation Trials
Description: Bayesian logistic regression model with optional EXchangeability-NonEXchangeability parameter modelling for flexible borrowing from historical or concurrent data-sources. The safety model can guide dose-escalation decisions for adaptive oncology Phase I dose-escalation trials which involve an arbitrary number of drugs. Please refer to Neuenschwander et al. (2008) <doi:10.1002/sim.3230> and Neuenschwander et al. (2016) <doi:10.1080/19466315.2016.1174149> for details on the methodology.
Author: Novartis Pharma AG [cph], Sebastian Weber [aut, cre], Lukas A. Widmer [aut], Andrew Bean [aut], Trustees of Columbia University [cph]
Maintainer: Sebastian Weber <sebastian.weber@novartis.com>

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Package gptoolsStan updated to version 1.0.0 with previous version 0.2.0 dated 2024-12-12

Title: Gaussian Processes on Graphs and Lattices in 'Stan'
Description: Gaussian processes are flexible distributions to model functional data. Whilst theoretically appealing, they are computationally cumbersome except for small datasets. This package implements two methods for scaling Gaussian process inference in 'Stan'. First, a sparse approximation of the likelihood that is generally applicable and, second, an exact method for regularly spaced data modeled by stationary kernels using fast Fourier methods. Utility functions are provided to compile and fit 'Stan' models using the 'cmdstanr' interface. References: Hoffmann and Onnela (2025) <doi:10.18637/jss.v112.i02>.
Author: Till Hoffmann [aut, cre] , Jukka-Pekka Onnela [ctb]
Maintainer: Till Hoffmann <thoffmann@hsph.harvard.edu>

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Package FORTLS updated to version 1.5.0 with previous version 1.4.0 dated 2024-01-21

Title: Automatic Processing of Terrestrial-Based Technologies Point Cloud Data for Forestry Purposes
Description: Process automation of point cloud data derived from terrestrial-based technologies such as Terrestrial Laser Scanner (TLS) or Mobile Laser Scanner. 'FORTLS' enables (i) detection of trees and estimation of tree-level attributes (e.g. diameters and heights), (ii) estimation of stand-level variables (e.g. density, basal area, mean and dominant height), (iii) computation of metrics related to important forest attributes estimated in Forest Inventories at stand-level, and (iv) optimization of plot design for combining TLS data and field measured data. Documentation about 'FORTLS' is described in Molina-Valero et al. (2022, <doi:10.1016/j.envsoft.2022.105337>).
Author: Juan Alberto Molina-Valero [aut, cph, cre], Adela Martinez-Calvo [aut, com], Maria Jose Ginzo Villamayor [aut, com], Manuel Antonio Novo Perez [aut, com], Juan Gabriel Alvarez-Gonzalez [aut, ths], Fernando Montes [aut], Cesar Perez-Cruzado [aut, ths]
Maintainer: Juan Alberto Molina-Valero <jamolinavalero@gmail.com>

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Package CNID updated to version 2.1.0 with previous version 2.0.2 dated 2025-02-28

Title: Get Basic Information from Chinese ID Number
Description: The Chinese ID number contains a lot of information, this package helps you get the region, date of birth, age, age based on year, gender, zodiac, constellation information from the Chinese ID number.
Author: Xinyuan Chu [aut, cre]
Maintainer: Xinyuan Chu <chuxinyuan@outlook.com>

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Package BacenAPI updated to version 0.1.1 with previous version 0.1.0 dated 2025-03-07

Title: Data Collection from the Central Bank of Brazil
Description: Provides tools to facilitate the access and processing of data from the Central Bank of Brazil API. The package allows users to retrieve economic and financial data, transforming them into usable tabular formats for further analysis. The data is obtained from the Central Bank of Brazil API: <https://api.bcb.gov.br/dados/serie/bcdata.sgs.{series_code}/dados?formato=json&dataInicial={start_date}&dataFinal={end_date}>.
Author: Paulo Icaro [aut], Lissandro Sousa [cre, aut], Francisco Gildemir Ferreira da Silva [ths, aut]
Maintainer: Lissandro Sousa <lisandrosousa54@gmail.com>

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Package timeplyr updated to version 1.1.0 with previous version 1.0.0 dated 2025-02-03

Title: Fast Tidy Tools for Date and Date-Time Manipulation
Description: A set of fast tidy functions for wrangling, completing and summarising date and date-time data. It combines 'tidyverse' syntax with the efficiency of 'data.table' and speed of 'collapse'.
Author: Nick Christofides [aut, cre]
Maintainer: Nick Christofides <nick.christofides.r@gmail.com>

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Package syrup updated to version 0.1.2 with previous version 0.1.1 dated 2024-07-18

Title: Measure Memory and CPU Usage for Parallel R Code
Description: Measures memory and CPU usage of R code by regularly taking snapshots of calls to the system command 'ps'. The package provides an entry point (albeit coarse) to profile usage of system resources by R code run in parallel.
Author: Simon Couch [aut, cre] , Posit Software, PBC [cph, fnd]
Maintainer: Simon Couch <simon.couch@posit.co>

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Package funcharts updated to version 1.7.0 with previous version 1.6.0 dated 2024-12-11

Title: Functional Control Charts
Description: Provides functional control charts for statistical process monitoring of functional data, using the methods of Capezza et al. (2020) <doi:10.1002/asmb.2507>, Centofanti et al. (2021) <doi:10.1080/00401706.2020.1753581>, Capezza et al. (2024) <doi:10.1080/00401706.2024.2327346>, Capezza et al. (2024) <doi:10.1080/00224065.2024.2383674>, Centofanti et al. (2022) <doi:10.48550/arXiv.2205.06256>. The package is thoroughly illustrated in the paper of Capezza et al (2023) <doi:10.1080/00224065.2023.2219012>.
Author: Christian Capezza [cre, aut], Fabio Centofanti [aut], Antonio Lepore [aut], Biagio Palumbo [aut], Alessandra Menafoglio [ctb], Simone Vantini [ctb]
Maintainer: Christian Capezza <christian.capezza@unina.it>

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Package ssMousetrack updated to version 1.1.7 with previous version 1.1.6 dated 2023-04-05

Title: Bayesian State-Space Modeling of Mouse-Tracking Experiments via Stan
Description: Estimates previously compiled state-space modeling for mouse-tracking experiments using the 'rstan' package, which provides the R interface to the Stan C++ library for Bayesian estimation.
Author: Antonio Calcagnì [aut, cre], Massimiliano Pastore [ctb]
Maintainer: Antonio Calcagnì <ant.calcagni@gmail.com>

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Package commonmark updated to version 1.9.5 with previous version 1.9.4 dated 2025-03-17

Title: High Performance CommonMark and Github Markdown Rendering in R
Description: The CommonMark specification <https://github.github.com/gfm/> defines a rationalized version of markdown syntax. This package uses the 'cmark' reference implementation for converting markdown text into various formats including html, latex and groff man. In addition it exposes the markdown parse tree in xml format. Also includes opt-in support for GFM extensions including tables, autolinks, and strikethrough text.
Author: Jeroen Ooms [aut, cre] , John MacFarlane [cph]
Maintainer: Jeroen Ooms <jeroenooms@gmail.com>

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Package biogrowth updated to version 1.0.6 with previous version 1.0.5 dated 2024-11-08

Title: Modelling of Population Growth
Description: Modelling of population growth under static and dynamic environmental conditions. Includes functions for model fitting and making prediction under isothermal and dynamic conditions. The methods (algorithms & models) are based on predictive microbiology (See Perez-Rodriguez and Valero (2012, ISBN:978-1-4614-5519-6)).
Author: Alberto Garre [aut, cre] , Jeroen Koomen [aut], Heidy den Besten [aut], Marcel Zwietering [aut]
Maintainer: Alberto Garre <garre.alberto@gmail.com>

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Package paws updated to version 0.9.0 with previous version 0.8.0 dated 2025-02-10

Title: Amazon Web Services Software Development Kit
Description: Interface to Amazon Web Services <https://aws.amazon.com>, including storage, database, and compute services, such as 'Simple Storage Service' ('S3'), 'DynamoDB' 'NoSQL' database, and 'Lambda' functions-as-a-service.
Author: David Kretch [aut], Adam Banker [aut], Dyfan Jones [cre], Amazon.com, Inc. [cph]
Maintainer: Dyfan Jones <dyfan.r.jones@gmail.com>

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Package TKCat updated to version 1.1.12 with previous version 1.1.11 dated 2024-07-03

Title: Tailored Knowledge Catalog
Description: Facilitate the management of data from knowledge resources that are frequently used alone or together in research environments. In 'TKCat', knowledge resources are manipulated as modeled database (MDB) objects. These objects provide access to the data tables along with a general description of the resource and a detail data model documenting the tables, their fields and their relationships. These MDBs are then gathered in catalogs that can be easily explored an shared. Finally, 'TKCat' provides tools to easily subset, filter and combine MDBs and create new catalogs suited for specific needs.
Author: Patrice Godard [aut, cre, cph]
Maintainer: Patrice Godard <patrice.godard@gmail.com>

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Package easySdcTable updated to version 1.1.1 with previous version 1.0.7 dated 2022-12-22

Title: Easy Interface to the Statistical Disclosure Control Package 'sdcTable' Extended with Own Implementation of 'GaussSuppression'
Description: The main function, ProtectTable(), performs table suppression according to a frequency rule with a data set as the only required input. Within this function, protectTable(), protect_linked_tables() or runArgusBatchFile() in package 'sdcTable' is called. Lists of level-hierarchy (parameter 'dimList') and other required input to these functions are created automatically. The suppression method Gauss (default) is implemented independently of 'sdcTable'. The function, PTgui(), starts a graphical user interface based on the 'shiny' package.
Author: Oeyvind Langsrud [aut, cre]
Maintainer: Oeyvind Langsrud <oyl@ssb.no>

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Package nettskjemar updated to version 1.0.0 with previous version 0.1.4 dated 2021-05-20

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. 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 SimDesign updated to version 2.19.1 with previous version 2.18 dated 2024-12-14

Title: Structure for Organizing Monte Carlo Simulation Designs
Description: Provides tools to safely and efficiently organize and execute Monte Carlo simulation experiments in R. The package controls the structure and back-end of Monte Carlo simulation experiments by utilizing a generate-analyse-summarise workflow. The workflow safeguards against common simulation coding issues, such as automatically re-simulating non-convergent results, prevents inadvertently overwriting simulation files, catches error and warning messages during execution, implicitly supports parallel processing with high-quality random number generation, and provides tools for managing high-performance computing (HPC) array jobs submitted to schedulers such as SLURM. For a pedagogical introduction to the package see Sigal and Chalmers (2016) <doi:10.1080/10691898.2016.1246953>. For a more in-depth overview of the package and its design philosophy see Chalmers and Adkins (2020) <doi:10.20982/tqmp.16.4.p248>.
Author: Phil Chalmers [aut, cre] , Matthew Sigal [ctb], Ogreden Oguzhan [ctb], Mikko Ronkko [ctb], Moritz Ketzer [ctb]
Maintainer: Phil Chalmers <rphilip.chalmers@gmail.com>

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Package RcppExamples updated to version 0.1.10 with previous version 0.1.9 dated 2019-08-24

Title: Examples using 'Rcpp' to Interface R and C++
Description: Examples for Seamless R and C++ integration The 'Rcpp' package contains a C++ library that facilitates the integration of R and C++ in various ways. This package provides some usage examples. Note that the documentation in this package currently does not cover all the features in the package. The site <https://gallery.rcpp.org> regroups a large number of examples for 'Rcpp'.
Author: Dirk Eddelbuettel [aut, cre] , Romain Francois [aut]
Maintainer: Dirk Eddelbuettel <edd@debian.org>

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Package DIZtools updated to version 1.0.2 with previous version 1.0.1 dated 2023-09-18

Title: Lightweight Utilities for 'DIZ' R Package Development
Description: Lightweight utility functions used for the R package development infrastructure inside the data integration centers ('DIZ') to standardize and facilitate repetitive tasks such as setting up a database connection or issuing notification messages and to avoid redundancy.
Author: Jonathan M. Mang [aut, cre] , Lorenz A. Kapsner [aut] , MIRACUM - Medical Informatics in Research and Care in University Medicine [fnd], Universitaetsklinikum Erlangen, Germany [cph]
Maintainer: Jonathan M. Mang <jonathan.mang@uk-erlangen.de>

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Package commonmark updated to version 1.9.4 with previous version 1.9.2 dated 2024-10-04

Title: High Performance CommonMark and Github Markdown Rendering in R
Description: The CommonMark specification <https://github.github.com/gfm/> defines a rationalized version of markdown syntax. This package uses the 'cmark' reference implementation for converting markdown text into various formats including html, latex and groff man. In addition it exposes the markdown parse tree in xml format. Also includes opt-in support for GFM extensions including tables, autolinks, and strikethrough text.
Author: Jeroen Ooms [aut, cre] , John MacFarlane [cph]
Maintainer: Jeroen Ooms <jeroenooms@gmail.com>

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Package rix updated to version 0.15.7 with previous version 0.15.5 dated 2025-03-01

Title: Reproducible Data Science Environments with 'Nix'
Description: Simplifies the creation of reproducible data science environments using the 'Nix' package manager, as described in Dolstra (2006) <ISBN 90-393-4130-3>. The included `rix()` function generates a complete description of the environment as a `default.nix` file, which can then be built using 'Nix'. This results in project specific software environments with pinned versions of R, packages, linked system dependencies, and other tools. Additional helpers make it easy to run R code in 'Nix' software environments for testing and production.
Author: Bruno Rodrigues [aut, cre] , Philipp Baumann [aut] , David Watkins [rev] for rOpenSci, see <https://github.com/ropensci/software-review/issues/625>), Jacob Wujiciak-Jens [rev] for rOpenSci, see <https://github.com/ropensci/software-review/issues/62 [...truncated...]
Maintainer: Bruno Rodrigues <bruno@brodrigues.co>

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Package sitree updated to version 0.1-15 with previous version 0.1-14 dated 2024-02-07

Title: Single Tree Simulator
Description: Framework to build an individual tree simulator.
Author: Clara Anton Fernandez [aut] , Ignacio Sevillano [cre]
Maintainer: Ignacio Sevillano <ignacio.sevillano@nibio.no>

Diff between sitree versions 0.1-14 dated 2024-02-07 and 0.1-15 dated 2025-03-17

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Package pwr4exp updated to version 1.0.0 with previous version 0.1.0 dated 2024-10-11

Title: Power Analysis for Research Experiments
Description: Provides tools for calculating statistical power for experiments analyzed using linear mixed models. It supports standard designs, including randomized block, split-plot, and Latin Square designs, while offering flexibility to accommodate a variety of other complex study designs.
Author: Kai Wang [aut, cre, cph] , Mutian Niu [aut, cph]
Maintainer: Kai Wang <kai.wang@usys.ethz.ch>

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Package pcts updated to version 0.15.8 with previous version 0.15.7 dated 2023-11-25

Title: Periodically Correlated and Periodically Integrated Time Series
Description: Classes and methods for modelling and simulation of periodically correlated (PC) and periodically integrated time series. Compute theoretical periodic autocovariances and related properties of PC autoregressive moving average models. Some original methods including Boshnakov & Iqelan (2009) <doi:10.1111/j.1467-9892.2009.00617.x>, Boshnakov (1996) <doi:10.1111/j.1467-9892.1996.tb00281.x>.
Author: Georgi N. Boshnakov [aut, cre]
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>

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Package campsismod updated to version 1.2.1 with previous version 1.2.0 dated 2025-02-07

Title: Generic Implementation of a PK/PD Model
Description: A generic, easy-to-use and expandable implementation of a pharmacokinetic (PK) / pharmacodynamic (PD) model based on the S4 class system. This package allows the user to read/write a pharmacometric model from/to files and adapt it further on the fly in the R environment. For this purpose, this package provides an intuitive API to add, modify or delete equations, ordinary differential equations (ODE's), model parameters or compartment properties (like infusion duration or rate, bioavailability and initial values). Finally, this package also provides a useful export of the model for use with simulation packages 'rxode2' and 'mrgsolve'. This package is designed and intended to be used with package 'campsis', a PK/PD simulation platform built on top of 'rxode2' and 'mrgsolve'.
Author: Nicolas Luyckx [aut, cre]
Maintainer: Nicolas Luyckx <nicolas.luyckx@calvagone.com>

Diff between campsismod versions 1.2.0 dated 2025-02-07 and 1.2.1 dated 2025-03-17

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Package denim updated to version 1.0.1 with previous version 1.0.0 dated 2024-06-05

Title: Generate and Simulate Deterministic Discrete-Time Compartmental Models
Description: R package to build and simulate deterministic discrete-time compartmental models that can be non-Markov. Length of stay in each compartment can be defined to follow a parametric distribution (d_exponential(), d_gamma(), d_weibull(), d_lognormal()) or a non-parametric distribution (nonparametric()). Other supported types of transition from one compartment to another includes fixed transition (constant()), multinomial (multinomial()), fixed transition probability (transprob()).
Author: Thinh Ong [aut, cph] , Anh Phan [aut, cre] , Marc Choisy [aut] , Niels Lohman [ctb], Bjoern Hoehrmann [ctb], Florian Loitsch [ctb], Ingo Berg [ctb]
Maintainer: Anh Phan <anhptq@oucru.org>

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Package ComBatFamQC updated to version 1.0.5 with previous version 1.0.4 dated 2025-01-25

Title: Comprehensive Batch Effect Diagnostics and Harmonization
Description: Provides a comprehensive framework for batch effect diagnostics, harmonization, and post-harmonization downstream analysis. Features include interactive visualization tools, robust statistical tests, and a range of harmonization techniques. Additionally, 'ComBatFamQC' enables the creation of life-span age trend plots with estimated age-adjusted centiles and facilitates the generation of covariate-corrected residuals for analytical purposes. Methods for harmonization are based on approaches described in Johnson et al., (2007) <doi:10.1093/biostatistics/kxj037>, Beer et al., (2020) <doi:10.1016/j.neuroimage.2020.117129>, Pomponio et al., (2020) <doi:10.1016/j.neuroimage.2019.116450>, and Chen et al., (2021) <doi:10.1002/hbm.25688>.
Author: Zheng Ren [aut, cre, cph] , Andrew Chen [aut, cph] , Elizabeth Horwath [ctb]
Maintainer: Zheng Ren <zren1422@gmail.com>

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Package MethEvolSIM updated to version 0.2 with previous version 0.1.7 dated 2024-09-22

Title: Simulate DNA Methylation Dynamics on Different Genomic Structures along Genealogies
Description: DNA methylation is an epigenetic modification involved in genomic stability, gene regulation, development and disease. DNA methylation occurs mainly through the addition of a methyl group to cytosines, for example to cytosines in a CpG dinucleotide context (CpG stands for a cytosine followed by a guanine). Tissue-specific methylation patterns lead to genomic regions with different characteristic methylation levels. E.g. in vertebrates CpG islands (regions with high CpG content) that are associated to promoter regions of expressed genes tend to be unmethylated. 'MethEvolSIM' is a model-based simulation software for the generation and modification of cytosine methylation patterns along a given tree, which can be a genealogy of cells within an organism, a coalescent tree of DNA sequences sampled from a population, or a species tree. The simulations are based on an extension of the model of Grosser & Metzler (2020) <doi:10.1186/s12859-020-3438-5> and allows for changes of the met [...truncated...]
Author: Sara Castillo Vicente [aut, cre], Dirk Metzler [aut, ths]
Maintainer: Sara Castillo Vicente <castillo@bio.lmu.de>

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Package summarytools updated to version 1.1.2 with previous version 1.1.1 dated 2025-02-26

Title: Tools to Quickly and Neatly Summarize Data
Description: Data frame summaries, cross-tabulations, weight-enabled frequency tables and common descriptive (univariate) statistics in concise tables available in a variety of formats (plain ASCII, Markdown and HTML). A good point-of-entry for exploring data, both for experienced and new R users.
Author: Dominic Comtois [aut, cre]
Maintainer: Dominic Comtois <dominic.comtois@gmail.com>

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Package spatstat.data updated to version 3.1-6 with previous version 3.1-4 dated 2024-11-15

Title: Datasets for 'spatstat' Family
Description: Contains all the datasets for the 'spatstat' family of packages.
Author: Adrian Baddeley [aut, cre] , Rolf Turner [aut] , Ege Rubak [aut] , W Aherne [ctb], Freda Alexander [ctb], Qi Wei Ang [ctb], Sourav Banerjee [ctb], Mark Berman [ctb], R Bernhardt [ctb], Thomas Berndtsen [ctb], Andrew Bevan [ctb], Jeffrey Betts [ctb], [...truncated...]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>

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Package eDNAjoint updated to version 0.3.2 with previous version 0.3.1 dated 2025-01-25

Title: Joint Modeling of Traditional and Environmental DNA Survey Data in a Bayesian Framework
Description: Models integrate environmental DNA (eDNA) detection data and traditional survey data to jointly estimate species catch rate (see package vignette: <https://ednajoint.netlify.app/>). Models can be used with count data via traditional survey methods (i.e., trapping, electrofishing, visual) and replicated eDNA detection/nondetection data via polymerase chain reaction (i.e., PCR or qPCR) from multiple survey locations. Estimated parameters include probability of a false positive eDNA detection, a site-level covariates that scale the sensitivity of eDNA surveys relative to traditional surveys, and catchability coefficients for traditional gear types. Models are implemented with a Bayesian framework (Markov chain Monte Carlo) using the 'Stan' probabilistic programming language.
Author: Abigail G. Keller [aut, cre], Ryan P. Kelly [ctb], Chitra M. Saraswati [rev], Saras M. Windecker [rev]
Maintainer: Abigail G. Keller <agkeller@berkeley.edu>

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Sun, 16 Mar 2025

Package nloptr updated to version 2.2.1 with previous version 2.2.0 dated 2025-03-12

Title: R Interface to NLopt
Description: Solve optimization problems using an R interface to NLopt. NLopt is a free/open-source library for nonlinear optimization, providing a common interface for a number of different free optimization routines available online as well as original implementations of various other algorithms. See <https://nlopt.readthedocs.io/en/latest/NLopt_Algorithms/> for more information on the available algorithms. Building from included sources requires 'CMake'. On Linux and 'macOS', if a suitable system build of NLopt (2.7.0 or later) is found, it is used; otherwise, it is built from included sources via 'CMake'. On Windows, NLopt is obtained through 'rwinlib' for 'R <= 4.1.x' or grabbed from the appropriate toolchain for 'R >= 4.2.0'.
Author: Jelmer Ypma [aut], Steven G. Johnson [aut] , Aymeric Stamm [ctb, cre] , Hans W. Borchers [ctb], Dirk Eddelbuettel [ctb], Brian Ripley [ctb] , Kurt Hornik [ctb] , Julien Chiquet [ctb], Avraham Adler [ctb] , Xiongtao Dai [ctb], Jeroen Ooms [ctb], Tomas [...truncated...]
Maintainer: Aymeric Stamm <aymeric.stamm@cnrs.fr>

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Package WCluster updated to version 1.3.0 with previous version 1.2.0 dated 2023-11-17

Title: Clustering and PCA with Weights, and Data Nuggets Clustering
Description: K-means clustering, hierarchical clustering, and PCA with observational weights and/or variable weights. It also includes the corresponding functions for data nuggets which serve as representative samples of large datasets. Cherasia et al., (2022) <doi:10.1007/978-3-031-22687-8_20>. Amaratunga et al., (2009) <doi:10.1002/9780470317129>.
Author: Rituparna Dey [aut, cre], Yajie Duan [aut], Javier Cabrera [aut], Ge Cheng [aut]
Maintainer: Rituparna Dey <rituparnadey525@gmail.com>

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Package OmopSketch updated to version 0.3.1 with previous version 0.3.0 dated 2025-03-04

Title: Characterise Tables of an OMOP Common Data Model Instance
Description: Summarises key information in data mapped to the Observational Medical Outcomes Partnership (OMOP) common data model. Assess suitability to perform specific epidemiological studies and explore the different domains to obtain feasibility counts and trends.
Author: Marta Alcalde-Herraiz [aut] , Kim Lopez-Guell [aut] , Elin Rowlands [aut] , Cecilia Campanile [aut, cre] , Edward Burn [aut] , Marti Catala [aut]
Maintainer: Cecilia Campanile <cecilia.campanile@ndorms.ox.ac.uk>

Diff between OmopSketch versions 0.3.0 dated 2025-03-04 and 0.3.1 dated 2025-03-16

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Package LGCU updated to version 0.1.5 with previous version 0.1.4 dated 2025-03-11

Title: Implementation of Learning Gamma CUSUM (Cumulative Sum) Control Charts
Description: Implements Cumulative Sum (CUSUM) control charts specifically designed for monitoring processes following a Gamma distribution. Provides functions to estimate distribution parameters, simulate control limits, and apply cautious learning schemes for adaptive thresholding. It supports upward and downward monitoring with guaranteed performance evaluated via Monte Carlo simulations. It is useful for quality control applications in industries where data follows a Gamma distribution. Methods are based on Madrid-Alvarez et al. (2024) <doi:10.1002/qre.3464> and Madrid-Alvarez et al. (2024) <doi:10.1080/08982112.2024.2440368>.
Author: Harold Manuel Madrid-Alvarez [aut, cre], Victor Gustavo Tercero-Gomez [aut], Juan Carlos Garcia-Diaz [aut]
Maintainer: Harold Manuel Madrid-Alvarez <harold.madrid@unisimon.edu.co>

Diff between LGCU versions 0.1.4 dated 2025-03-11 and 0.1.5 dated 2025-03-16

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Package omopgenerics updated to version 1.1.1 with previous version 1.1.0 dated 2025-02-25

Title: Methods and Classes for the OMOP Common Data Model
Description: Provides definitions of core classes and methods used by analytic pipelines that query the OMOP (Observational Medical Outcomes Partnership) common data model.
Author: Marti Catala [aut, cre] , Edward Burn [aut] , Mike Du [ctb] , Yuchen Guo [ctb] , Adam Black [ctb] , Marta Alcalde-Herraiz [ctb]
Maintainer: Marti Catala <marti.catalasabate@ndorms.ox.ac.uk>

Diff between omopgenerics versions 1.1.0 dated 2025-02-25 and 1.1.1 dated 2025-03-16

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Package centr updated to version 0.2.3 with previous version 0.2.2 dated 2025-02-07

Title: Weighted and Unweighted Spatial Centers
Description: Generate mean and median weighted or unweighted spatial centers. Functions are analogous to their identically named counterparts within 'ArcGIS Pro'. Median center methodology based off of Kuhn and Kuenne (1962) <doi:10.1111/j.1467-9787.1962.tb00902.x>.
Author: Ryan Zomorrodi [aut, cre, cph]
Maintainer: Ryan Zomorrodi <rzomor2@uic.edu>

Diff between centr versions 0.2.2 dated 2025-02-07 and 0.2.3 dated 2025-03-16

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Package lessR updated to version 4.4.2 with previous version 4.4.1 dated 2025-02-03

Title: Less Code, More Results
Description: Each function replaces multiple standard R functions. For example, two function calls, Read() and CountAll(), generate summary statistics for all variables in the data frame, plus histograms and bar charts as appropriate. Other functions provide for summary statistics via pivot tables, a comprehensive regression analysis, ANOVA and t-test, visualizations including the Violin/Box/Scatter plot for a numerical variable, bar chart, histogram, box plot, density curves, calibrated power curve, reading multiple data formats with the same function call, variable labels, time series with aggregation and forecasting, color themes, and Trellis (facet) graphics. Also includes a confirmatory factor analysis of multiple indicator measurement models, pedagogical routines for data simulation such as for the Central Limit Theorem, generation and rendering of regression instructions for interpretative output, and interactive visualizations.
Author: David W. Gerbing [aut, cre]
Maintainer: David W. Gerbing <gerbing@pdx.edu>

Diff between lessR versions 4.4.1 dated 2025-02-03 and 4.4.2 dated 2025-03-16

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Package tinysnapshot updated to version 0.1.0 with previous version 0.0.8 dated 2025-01-21

Title: Snapshots for Unit Tests using the 'tinytest' Framework
Description: Snapshots for unit tests using the 'tinytest' framework for R. Includes expectations to test base R and 'ggplot2' plots as well as console output from print().
Author: Vincent Arel-Bundock [aut, cre]
Maintainer: Vincent Arel-Bundock <vincent.arel-bundock@umontreal.ca>

Diff between tinysnapshot versions 0.0.8 dated 2025-01-21 and 0.1.0 dated 2025-03-16

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Package R2sample updated to version 3.1.1 with previous version 3.1.0 dated 2025-03-09

Title: Various Methods for the Two Sample Problem
Description: The routine twosample_test() in this package runs the two sample test using various test statistic. The p values are found via permutation or large sample theory. The routine twosample_power() allows the calculation of the power in various cases, and plot_power() draws the corresponding power graphs. The routine run.studies allows a user to quickly study the power of a new method and how it compares to some of the standard ones.
Author: Wolfgang Rolke [aut, cre]
Maintainer: Wolfgang Rolke <wolfgang.rolke@upr.edu>

Diff between R2sample versions 3.1.0 dated 2025-03-09 and 3.1.1 dated 2025-03-16

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Package gpkg updated to version 0.0.12 with previous version 0.0.8 dated 2024-02-19

Title: Utilities for the Open Geospatial Consortium 'GeoPackage' Format
Description: Build Open Geospatial Consortium 'GeoPackage' files (<https://www.geopackage.org/>). 'GDAL' utilities for reading and writing spatial data are provided by the 'terra' package. Additional 'GeoPackage' and 'SQLite' features for attributes and tabular data are implemented with the 'RSQLite' package.
Author: Andrew Brown [aut, cre]
Maintainer: Andrew Brown <brown.andrewg@gmail.com>

Diff between gpkg versions 0.0.8 dated 2024-02-19 and 0.0.12 dated 2025-03-16

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Package SSDforR updated to version 1.5.38 with previous version 1.5.37 dated 2024-12-16

Title: Functions to Analyze Single System Data
Description: Functions to visually and statistically analyze single system data.
Author: Charles Auerbach [aut, cre], Wendy Zeitlin [aut]
Maintainer: Charles Auerbach <auerbach@yu.edu>

Diff between SSDforR versions 1.5.37 dated 2024-12-16 and 1.5.38 dated 2025-03-16

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