Sat, 23 Aug 2025

Package poppr updated to version 2.9.8 with previous version 2.9.7 dated 2025-06-18

Title: Genetic Analysis of Populations with Mixed Reproduction
Description: Population genetic analyses for hierarchical analysis of partially clonal populations built upon the architecture of the 'adegenet' package. Originally described in Kamvar, Tabima, and Grünwald (2014) <doi:10.7717/peerj.281> with version 2.0 described in Kamvar, Brooks, and Grünwald (2015) <doi:10.3389/fgene.2015.00208>.
Author: Zhian N. Kamvar [cre, aut] , Javier F. Tabima [aut] , Sydney E. Everhart [ctb, dtc] , Jonah C. Brooks [aut], Stacy A. Krueger-Hadfield [ctb] , Erik Sotka [ctb], Brian J. Knaus [ctb] , Patrick G. Meirmans [ctb] , Frederic D. Chevalier [ctb] , David Fo [...truncated...]
Maintainer: Zhian N. Kamvar <zkamvar@gmail.com>

Diff between poppr versions 2.9.7 dated 2025-06-18 and 2.9.8 dated 2025-08-23

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More information about poppr at CRAN
Permanent link

Package pliman updated to version 3.1.1 with previous version 3.1.0 dated 2025-08-19

Title: Tools for Plant Image Analysis
Description: Tools for both single and batch image manipulation and analysis (Olivoto, 2022 <doi:10.1111/2041-210X.13803>) and phytopathometry (Olivoto et al., 2022 <doi:10.1007/S40858-021-00487-5>). The tools can be used for the quantification of leaf area, object counting, extraction of image indexes, shape measurement, object landmark identification, and Elliptical Fourier Analysis of object outlines (Claude (2008) <doi:10.1007/978-0-387-77789-4>). The package also provides a comprehensive pipeline for generating shapefiles with complex layouts and supports high-throughput phenotyping of RGB, multispectral, and hyperspectral orthomosaics. This functionality facilitates field phenotyping using UAV- or satellite-based imagery.
Author: Tiago Olivoto [aut, cre]
Maintainer: Tiago Olivoto <tiagoolivoto@gmail.com>

Diff between pliman versions 3.1.0 dated 2025-08-19 and 3.1.1 dated 2025-08-23

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Permanent link

Package osmdata updated to version 0.3.0 with previous version 0.2.5 dated 2023-08-14

Title: Import 'OpenStreetMap' Data as Simple Features or Spatial Objects
Description: Download and import of 'OpenStreetMap' ('OSM') data as 'sf' or 'sp' objects. 'OSM' data are extracted from the 'Overpass' web server (<https://overpass-api.de/>) and processed with very fast 'C++' routines for return to 'R'.
Author: Joan Maspons [aut, cre] , Mark Padgham [aut], Bob Rudis [aut], Robin Lovelace [aut], Maelle Salmon [aut], Andrew Smith [ctb], James Smith [ctb], Andrea Gilardi [ctb], Enrico Spinielli [ctb], Anthony North [ctb], Martin Machyna [ctb], Marcin Kalicinsk [...truncated...]
Maintainer: Joan Maspons <joanmaspons@gmail.com>

Diff between osmdata versions 0.2.5 dated 2023-08-14 and 0.3.0 dated 2025-08-23

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Package conquestr updated to version 1.5.5 with previous version 1.5.1 dated 2025-05-18

Title: An R Package to Extend 'ACER ConQuest'
Description: Extends 'ACER ConQuest' through a family of functions designed to improve graphical outputs and help with advanced analysis (e.g., differential item functioning). Allows R users to call 'ACER ConQuest' from within R and read 'ACER ConQuest' System Files (generated by the command `put` <https://conquestmanual.acer.org/s4-00.html#put>). Requires 'ACER ConQuest' version 5.40 or later. A demonstration version can be downloaded from <https://shop.acer.org/acer-conquest-5.html>.
Author: Dan Cloney [aut, cre] , Ray Adams [aut]
Maintainer: Dan Cloney <dan.cloney@acer.org>

Diff between conquestr versions 1.5.1 dated 2025-05-18 and 1.5.5 dated 2025-08-23

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Package Statamarkdown readmission to version 0.9.4 with previous version 0.9.2 dated 2023-12-04

Title: 'Stata' Markdown
Description: Settings and functions to extend the 'knitr' 'Stata' engine.
Author: Doug Hemken [aut, cre] ), Tom Palmer [ctb] , Philipp Lepert [ctb]
Maintainer: Doug Hemken <d_hemken@yahoo.com>

This is a re-admission after prior archival of version 0.9.2 dated 2023-12-04

Diff between Statamarkdown versions 0.9.2 dated 2023-12-04 and 0.9.4 dated 2025-08-23

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More information about Statamarkdown at CRAN
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Package rbedrock updated to version 0.4.0 with previous version 0.3.3 dated 2025-03-25

Title: Analysis and Manipulation of Data from Minecraft Bedrock Edition
Description: Implements an interface to Minecraft (Bedrock Edition) worlds. Supports the analysis and management of these worlds and game saves.
Author: Reed Cartwright [aut, cre] , Rich FitzJohn [ctb], Christian Stigen Larsen [ctb], The LevelDB Authors [cph]
Maintainer: Reed Cartwright <racartwright@gmail.com>

Diff between rbedrock versions 0.3.3 dated 2025-03-25 and 0.4.0 dated 2025-08-23

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Package PCPS readmission to version 1.0.8 with previous version 1.0.7 dated 2020-01-15

Title: Principal Coordinates of Phylogenetic Structure
Description: Set of functions for analysis of Principal Coordinates of Phylogenetic Structure (PCPS).
Author: Vanderlei Julio Debastiani [aut, cre]
Maintainer: Vanderlei Julio Debastiani <vanderleidebastiani@yahoo.com.br>

This is a re-admission after prior archival of version 1.0.7 dated 2020-01-15

Diff between PCPS versions 1.0.7 dated 2020-01-15 and 1.0.8 dated 2025-08-23

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Package nftbart updated to version 2.2 with previous version 2.1 dated 2023-11-27

Title: Nonparametric Failure Time Bayesian Additive Regression Trees
Description: Nonparametric Failure Time (NFT) Bayesian Additive Regression Trees (BART): Time-to-event Machine Learning with Heteroskedastic Bayesian Additive Regression Trees (HBART) and Low Information Omnibus (LIO) Dirichlet Process Mixtures (DPM). An NFT BART model is of the form Y = mu + f(x) + sd(x) E where functions f and sd have BART and HBART priors, respectively, while E is a nonparametric error distribution due to a DPM LIO prior hierarchy. See the following for a description of the model at <doi:10.1111/biom.13857>.
Author: Rodney Sparapani [aut, cre], Robert McCulloch [aut], Matthew Pratola [ctb], Hugh Chipman [ctb]
Maintainer: Rodney Sparapani <rsparapa@mcw.edu>

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Package DImodelsVis updated to version 1.0.3 with previous version 1.0.2 dated 2025-08-21

Title: Visualising and Interpreting Statistical Models Fit to Compositional Data
Description: Statistical models fit to compositional data are often difficult to interpret due to the sum to 1 constraint on data variables. 'DImodelsVis' provides novel visualisations tools to aid with the interpretation of models fit to compositional data. All visualisations in the package are created using the 'ggplot2' plotting framework and can be extended like every other 'ggplot' object.
Author: Rishabh Vishwakarma [aut, cre] , Caroline Brophy [aut], Laura Byrne [aut], Catherine Hurley [aut]
Maintainer: Rishabh Vishwakarma <vishwakr@tcd.ie>

Diff between DImodelsVis versions 1.0.2 dated 2025-08-21 and 1.0.3 dated 2025-08-23

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Package aifeducation readmission to version 1.1.1 with previous version 1.1.0 dated 2025-08-19

Title: Artificial Intelligence for Education
Description: In social and educational settings, the use of Artificial Intelligence (AI) is a challenging task. Relevant data is often only available in handwritten forms, or the use of data is restricted by privacy policies. This often leads to small data sets. Furthermore, in the educational and social sciences, data is often unbalanced in terms of frequencies. To support educators as well as educational and social researchers in using the potentials of AI for their work, this package provides a unified interface for neural nets in 'PyTorch' to deal with natural language problems. In addition, the package ships with a shiny app, providing a graphical user interface. This allows the usage of AI for people without skills in writing python/R scripts. The tools integrate existing mathematical and statistical methods for dealing with small data sets via pseudo-labeling (e.g. Cascante-Bonilla et al. (2020) <doi:10.48550/arXiv.2001.06001>) and imbalanced data via the creation of synthetic cases [...truncated...]
Author: Berding Florian [aut, cre] , Tykhonova Yuliia [aut] , Pargmann Julia [ctb] , Leube Anna [ctb] , Riebenbauer Elisabeth [ctb] , Rebmann Karin [ctb], Slopinski Andreas [ctb]
Maintainer: Berding Florian <florian.berding@uni-hamburg.de>

This is a re-admission after prior archival of version 1.1.0 dated 2025-08-19

Diff between aifeducation versions 1.1.0 dated 2025-08-19 and 1.1.1 dated 2025-08-23

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Package vivid readmission to version 0.3.0 with previous version 0.2.9 dated 2024-07-31

Title: Variable Importance and Variable Interaction Displays
Description: A suite of plots for displaying variable importance and two-way variable interaction jointly. Can also display partial dependence plots laid out in a pairs plot or 'zenplots' style.
Author: Alan Inglis [aut, cre], Andrew Parnell [aut], Catherine Hurley [aut]
Maintainer: Alan Inglis <alan.n.inglis@gmail.com>

This is a re-admission after prior archival of version 0.2.9 dated 2024-07-31

Diff between vivid versions 0.2.9 dated 2024-07-31 and 0.3.0 dated 2025-08-23

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Package pricesensitivitymeter updated to version 1.3.1 with previous version 1.3.0 dated 2024-02-25

Title: Van Westendorp Price Sensitivity Meter Analysis
Description: An implementation of the van Westendorp Price Sensitivity Meter in R, which is a survey-based approach to analyze consumer price preferences and sensitivity (van Westendorp 1976, isbn:9789283100386).
Author: Max Alletsee [aut, cre]
Maintainer: Max Alletsee <max.alletsee@gmail.com>

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Package plotthis updated to version 0.7.4 with previous version 0.7.3 dated 2025-07-30

Title: High-Level Plotting Built Upon 'ggplot2' and Other Plotting Packages
Description: Provides high-level API and a wide range of options to create stunning, publication-quality plots effortlessly. It is built upon 'ggplot2' and other plotting packages, and is designed to be easy to use and to work seamlessly with 'ggplot2' objects. It is particularly useful for creating complex plots with multiple layers, facets, and annotations. It also provides a set of functions to create plots for specific types of data, such as Venn diagrams, alluvial diagrams, and phylogenetic trees. The package is designed to be flexible and customizable, and to work well with the 'ggplot2' ecosystem. The API can be found at <https://pwwang.github.io/plotthis/reference/index.html>.
Author: Panwen Wang [aut, cre]
Maintainer: Panwen Wang <pwwang@pwwang.com>

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Package letsRept updated to version 1.0.1 with previous version 1.0.0 dated 2025-08-22

Title: An Interface to the Reptile Database
Description: Provides tools to retrieve and summarize taxonomic information and synonymy data for reptile species using data scraped from The Reptile Database website (<https://reptile-database.reptarium.cz/>). Outputs include clean and structured data frames useful for ecological, evolutionary, and conservation research.
Author: Joao Paulo dos Santos Vieira-Alencar [aut, cre] , Christoph Liedtke [aut]
Maintainer: Joao Paulo dos Santos Vieira-Alencar <joaopaulo.valencar@gmail.com>

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Package ezplot updated to version 0.8.2 with previous version 0.7.13 dated 2024-01-28

Title: Functions for Common Chart Types
Description: Wrapper for the 'ggplot2' package that creates a variety of common charts (e.g. bar, line, area, ROC, waterfall, pie) while aiming to reduce typing.
Author: Wojtek Kostelecki [aut, cre]
Maintainer: Wojtek Kostelecki <wojtek.kostelecki@gmail.com>

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Package dtmapi readmission to version 0.1.0 with previous version 0.0.3 dated 2025-06-23

Title: Fetching Data from the 'Displacement Tracking Matrix'
Description: Allows humanitarian community, academia, media, government, and non-governmental organizations to utilize the data collected by the 'Displacement Tracking Matrix' (<https://dtm.iom.int>), a unit in the International Organization for Migration. This also provides non-sensitive Internally Displaced Person figures, aggregated at the country, Admin 1 (states, provinces, or equivalent), and Admin 2 (smaller administrative areas) levels.
Author: Luong Bang Tran [aut], Assad Asil Companioni [aut, cre], Displacement Tracking Matrix [cph]
Maintainer: Assad Asil Companioni <aasil@iom.int>

This is a re-admission after prior archival of version 0.0.3 dated 2025-06-23

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Package CFtime updated to version 1.7.0 with previous version 1.6.2 dated 2025-05-18

Title: Using CF-Compliant Calendars with Climate Projection Data
Description: Support for all calendars as specified in the Climate and Forecast (CF) Metadata Conventions for climate and forecasting data. The CF Metadata Conventions is widely used for distributing files with climate observations or projections, including the Coupled Model Intercomparison Project (CMIP) data used by climate change scientists and the Intergovernmental Panel on Climate Change (IPCC). This package specifically allows the user to work with any of the CF-compliant calendars (many of which are not compliant with POSIXt). The CF time coordinate is formally defined in the CF Metadata Conventions document available at <https://cfconventions.org/Data/cf-conventions/cf-conventions-1.12/cf-conventions.html#time-coordinate>.
Author: Patrick Van Laake [aut, cre, cph]
Maintainer: Patrick Van Laake <patrick@vanlaake.net>

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

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

2025-08-19 1.1.0
2025-02-05 1.0.2
2025-01-28 1.0.1
2024-12-20 1.0.0
2024-04-22 0.3.3

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Package awdb updated to version 0.1.3 with previous version 0.1.2 dated 2025-04-14

Title: Query the USDA NWCC Air and Water Database REST API
Description: Query the four endpoints of the 'Air and Water Database (AWDB) REST API' maintained by the National Water and Climate Center (NWCC) at the United States Department of Agriculture (USDA). Endpoints include data, forecast, reference-data, and metadata. The package is extremely light weight, with 'Rust' via 'extendr' doing most of the heavy lifting to deserialize and flatten deeply nested 'JSON' responses. The AWDB can be found at <https://wcc.sc.egov.usda.gov/awdbRestApi/swagger-ui/index.html>.
Author: Kenneth Blake Vernon [aut, cre, cph]
Maintainer: Kenneth Blake Vernon <kenneth.b.vernon@gmail.com>

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Package CoSMoS updated to version 2.1.1 with previous version 2.1.0 dated 2021-05-29

Title: Complete Stochastic Modelling Solution
Description: Makes univariate, multivariate, or random fields simulations precise and simple. Just select the desired time series or random fields’ properties and it will do the rest. CoSMoS is based on the framework described in Papalexiou (2018, <doi:10.1016/j.advwatres.2018.02.013>), extended for random fields in Papalexiou and Serinaldi (2020, <doi:10.1029/2019WR026331>), and further advanced in Papalexiou et al. (2021, <doi:10.1029/2020WR029466>) to allow fine-scale space-time simulation of storms (or even cyclone-mimicking fields).
Author: Simon Michael Papalexiou [aut], Francesco Serinaldi [aut], Filip Strnad [aut], Yannis Markonis [aut], Kevin Shook [ctb, cre]
Maintainer: Kevin Shook <kevin.shook@usask.ca>

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Package amt updated to version 0.3.0.0 with previous version 0.2.2.0 dated 2024-04-01

Title: Animal Movement Tools
Description: Manage and analyze animal movement data. The functionality of 'amt' includes methods to calculate home ranges, track statistics (e.g. step lengths, speed, or turning angles), prepare data for fitting habitat selection analyses, and simulation of space-use from fitted step-selection functions.
Author: Johannes Signer [aut, cre], Brian Smith [ctb], Bjoern Reineking [ctb], Ulrike Schlaegel [ctb], John Fieberg [ctb], Josh O'Brien [ctb], Bernardo Niebuhr [ctb], Alec Robitaille [ctb], Tal Avgar [ctb], Gerben IJntema [ctb], Scott LaPoint [dtc]
Maintainer: Johannes Signer <jsigner@gwdg.de>

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Package ggprism updated to version 1.0.7 with previous version 1.0.6 dated 2025-05-17

Title: A 'ggplot2' Extension Inspired by 'GraphPad Prism'
Description: Provides various themes, palettes, and other functions that are used to customise ggplots to look like they were made in 'GraphPad Prism'. The 'Prism'-look is achieved with theme_prism() and scale_fill|colour_prism(), axes can be changed with custom guides like guide_prism_minor(), and significance indicators added with add_pvalue().
Author: Charlotte Dawson [aut, cre]
Maintainer: Charlotte Dawson <csdaw@outlook.com>

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Package cgam updated to version 1.29 with previous version 1.28 dated 2025-07-05

Title: Constrained Generalized Additive Model
Description: A constrained generalized additive model is fitted by the cgam routine. Given a set of predictors, each of which may have a shape or order restrictions, the maximum likelihood estimator for the constrained generalized additive model is found using an iteratively re-weighted cone projection algorithm. The ShapeSelect routine chooses a subset of predictor variables and describes the component relationships with the response. For each predictor, the user needs only specify a set of possible shape or order restrictions. A model selection method chooses the shapes and orderings of the relationships as well as the variables. The cone information criterion (CIC) is used to select the best combination of variables and shapes. A genetic algorithm may be used when the set of possible models is large. In addition, the cgam routine implements a two-dimensional isotonic regression using warped-plane splines without additivity assumptions. It can also fit a convex or concave regression surface with [...truncated...]
Author: Mary Meyer [aut], Xiyue Liao [aut, cre]
Maintainer: Xiyue Liao <xliao@sdsu.edu>

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Package LifemapR (with last version 1.1.5) was removed from CRAN

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

2025-03-06 1.1.5
2024-07-31 1.1.4

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Package LMest updated to version 3.2.7 with previous version 3.2.6 dated 2025-06-28

Title: Generalized Latent Markov Models
Description: Latent Markov models for longitudinal continuous and categorical data. See Bartolucci, Pandolfi, Pennoni (2017)<doi:10.18637/jss.v081.i04>.
Author: Francesco Bartolucci [aut, cre], Silvia Pandolfi [aut], Fulvia Pennoni [aut], Alessio Farcomeni [ctb], Alessio Serafini [ctb]
Maintainer: Francesco Bartolucci <francesco.bartolucci@unipg.it>

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Package ecocbo updated to version 0.13.0 with previous version 0.12.0 dated 2024-08-21

Title: Calculating Optimum Sampling Effort in Community Ecology
Description: A system for calculating the optimal sampling effort, based on the ideas of "Ecological cost-benefit optimization" as developed by A. Underwood (1997, ISBN 0 521 55696 1). Data is obtained from simulated ecological communities with prep_data() which formats and arranges the initial data, and then the optimization follows the following procedure of four functions: (1) prep_data() takes the original dataset and creates simulated sets that can be used as a basis for estimating statistical power and type II error. (2) sim_beta() is used to estimate the statistical power for the different sampling efforts specified by the user. (3) sim_cbo() calculates then the optimal sampling effort, based on the statistical power and the sampling costs. Additionally, (4) scompvar() calculates the variation components necessary for (5) Underwood_cbo() to calculate the optimal combination of number of sites and samples depending on either an economic budget or on a desired statistical accuracy. Lastly, (6) [...truncated...]
Author: Edlin Guerra-Castro [aut, cph] , Arturo Sanchez-Porras [aut, cre]
Maintainer: Arturo Sanchez-Porras <sp.arturo@gmail.com>

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

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

2024-12-12 0.3.1
2024-10-29 0.3.0

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Package PacketLLM updated to version 0.1.1 with previous version 0.1.0 dated 2025-04-24

Title: Interactive 'OpenAI' Model Integration in 'RStudio'
Description: Offers an interactive 'RStudio' gadget interface for communicating with 'OpenAI' large language models (e.g., 'gpt-5', 'gpt-5-mini', 'gpt-5-nano') (<https://platform.openai.com/docs/api-reference>). Enables users to conduct multiple chat conversations simultaneously in separate tabs. Supports uploading local files (R, PDF, DOCX) to provide context for the models. Allows per-conversation configuration of system messages (where supported by the model). API interactions via the 'httr' package are performed asynchronously using 'promises' and 'future' to avoid blocking the R console. Useful for tasks like code generation, text summarization, and document analysis directly within the 'RStudio' environment. Requires an 'OpenAI' API key set as an environment variable.
Author: Antoni Czolgowski [aut, cre]
Maintainer: Antoni Czolgowski <antoni.czolgowski@gmail.com>

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Permanent link

Package shide updated to version 0.3.0 with previous version 0.2.1 dated 2024-07-19

Title: Date/Time Classes Based on Jalali Calendar
Description: Implements S3 classes for storing dates and date-times based on the Jalali calendar. The main design goal of 'shide' is consistency with base R's 'Date' and 'POSIXct'. It provide features such as: date-time parsing, formatting and arithmetic.
Author: Mohsen Mollayi [aut, cre, cph]
Maintainer: Mohsen Mollayi <mmollayi@gmail.com>

Diff between shide versions 0.2.1 dated 2024-07-19 and 0.3.0 dated 2025-08-23

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Package BeeBDC updated to version 1.3.0 with previous version 1.2.1 dated 2024-11-03

Title: Occurrence Data Cleaning
Description: Flags and checks occurrence data that are in Darwin Core format. The package includes generic functions and data as well as some that are specific to bees. This package is meant to build upon and be complimentary to other excellent occurrence cleaning packages, including 'bdc' and 'CoordinateCleaner'. This package uses datasets from several sources and particularly from the Discover Life Website, created by Ascher and Pickering (2020). For further information, please see the original publication and package website. Publication - Dorey et al. (2023) <doi:10.1101/2023.06.30.547152> and package website - Dorey et al. (2023) <https://github.com/jbdorey/BeeBDC>.
Author: James B. Dorey [aut, cre, cph] , Robert L. O'Reilly [aut] , Silas Bossert [aut] , Erica E. Fischer [aut]
Maintainer: James B. Dorey <jbdorey@me.com>

Diff between BeeBDC versions 1.2.1 dated 2024-11-03 and 1.3.0 dated 2025-08-23

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Package vhica updated to version 0.2.9 with previous version 0.2.8 dated 2023-03-08

Title: Vertical and Horizontal Inheritance Consistence Analysis
Description: The "Vertical and Horizontal Inheritance Consistence Analysis" method is described in the following publication: "VHICA: a new method to discriminate between vertical and horizontal transposon transfer: application to the mariner family within Drosophila" by G. Wallau. et al. (2016) <DOI:10.1093/molbev/msv341>. The purpose of the method is to detect horizontal transfers of transposable elements, by contrasting the divergence of transposable element sequences with that of regular genes.
Author: Arnaud Le Rouzic [aut, cre]
Maintainer: Arnaud Le Rouzic <arnaud.le-rouzic@universite-paris-saclay.fr>

Diff between vhica versions 0.2.8 dated 2023-03-08 and 0.2.9 dated 2025-08-23

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Package DataMetProcess updated to version 1.0.6 with previous version 1.0.5 dated 2025-05-12

Title: Meteorological Data Processing
Description: Set of tools aimed at processing meteorological data, converting hourly recorded data to daily, monthly and annual data.
Author: Wagner Martins dos Santos [aut, cre] , Hoi Leong Lee [aut], Edimir Xavier Leal Ferraz [aut] , Abelardo Antonio de Assuncao Montenegro [aut], Lady Daiane Costa de Sousa Martins [aut] , Alan Cezar Bezerra [aut], Ênio Farias de Franca e Silva [aut], Thi [...truncated...]
Maintainer: Wagner Martins dos Santos <wagnnerms97@gmail.com>

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Package ASRgenomics updated to version 1.1.5 with previous version 1.1.4 dated 2024-01-29

Title: Complementary Genomic Functions
Description: Presents a series of molecular and genetic routines in the R environment with the aim of assisting in analytical pipelines before and after the use of 'asreml' or another library to perform analyses such as Genomic Selection or Genome-Wide Association Analyses. Methods and examples are described in Gezan, Oliveira, Galli, and Murray (2022) <https://asreml.kb.vsni.co.uk/wp-content/uploads/sites/3/ASRgenomics_Manual.pdf>.
Author: Salvador Gezan [aut, cre], Darren Murray [aut], Amanda Avelar de Oliveira [aut], Giovanni Galli [aut], VSN International [cph]
Maintainer: Salvador Gezan <salvador.gezan@vsni.co.uk>

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Package FDboost updated to version 1.1-3 with previous version 1.1-2 dated 2023-08-12

Title: Boosting Functional Regression Models
Description: Regression models for functional data, i.e., scalar-on-function, function-on-scalar and function-on-function regression models, are fitted by a component-wise gradient boosting algorithm. For a manual on how to use 'FDboost', see Brockhaus, Ruegamer, Greven (2017) <doi:10.18637/jss.v094.i10>.
Author: Sarah Brockhaus [aut] , David Ruegamer [aut, cre] , Almond Stoecker [aut] , Torsten Hothorn [ctb] , with contributions by many others [ctb]
Maintainer: David Ruegamer <david.ruegamer@gmail.com>

Diff between FDboost versions 1.1-2 dated 2023-08-12 and 1.1-3 dated 2025-08-23

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Package emdi updated to version 2.2.3 with previous version 2.2.2 dated 2024-06-11

Title: Estimating and Mapping Disaggregated Indicators
Description: Functions that support estimating, assessing and mapping regional disaggregated indicators. So far, estimation methods comprise direct estimation, the model-based unit-level approach Empirical Best Prediction (see "Small area estimation of poverty indicators" by Molina and Rao (2010) <doi:10.1002/cjs.10051>), the area-level model (see "Estimates of income for small places: An application of James-Stein procedures to Census Data" by Fay and Herriot (1979) <doi:10.1080/01621459.1979.10482505>) and various extensions of it (adjusted variance estimation methods, log and arcsin transformation, spatial, robust and measurement error models), as well as their precision estimates. The assessment of the used model is supported by a summary and diagnostic plots. For a suitable presentation of estimates, map plots can be easily created. Furthermore, results can easily be exported to excel. For a detailed description of the package and the methods used see "The R Package emdi for Estima [...truncated...]
Author: Sylvia Harmening [aut], Ann-Kristin Kreutzmann [aut], Soeren Pannier [aut, cre], Felix Skarke [aut], Natalia Rojas-Perilla [aut], Nicola Salvati [aut], Timo Schmid [aut], Matthias Templ [aut], Nikos Tzavidis [aut], Nora Wuerz [aut]
Maintainer: Soeren Pannier <soeren.pannier@fu-berlin.de>

Diff between emdi versions 2.2.2 dated 2024-06-11 and 2.2.3 dated 2025-08-23

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Package chooseGCM updated to version 1.2 with previous version 1.1 dated 2025-08-18

Title: Selecting General Circulation Models for Species Distribution Modeling
Description: Methods to help selecting General Circulation Models (GCMs) in the context of projecting models to future scenarios. It is provided clusterization algorithms, distance and correlation metrics, as well as a tailor-made algorithm to detect the optimum subset of GCMs that recreate the environment of all GCMs as proposed in Esser et al. (2025) <doi:10.1111/gcb.70008>.
Author: Dayani Bailly [aut] , Reginaldo Re [aut] , Marcos R. Lima [aut] , Luiz Esser [aut, cre, cph]
Maintainer: Luiz Esser <luizesser@gmail.com>

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Package xpose.xtras updated to version 0.0.3 with previous version 0.0.2 dated 2024-11-21

Title: Extra Functionality for the 'xpose' Package
Description: Adding some at-present missing functionality, or functions unlikely to be added to the base 'xpose' package. This includes some diagnostic plots that have been missing in translation from 'xpose4', but also some useful features that truly extend the capabilities of what can be done with 'xpose'. These extensions include the concept of a set of 'xpose' objects, and diagnostics for likelihood-based models.
Author: John Prybylski [aut, cre, cph]
Maintainer: John Prybylski <jprybylski@gmail.com>

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Package W3CMarkupValidator updated to version 0.2-1 with previous version 0.2-0 dated 2025-08-21

Title: R Interface to W3C Markup Validation Services
Description: R interface to a W3C Markup Validation service. See <https://validator.w3.org/> for more information.
Author: Kurt Hornik [aut, cre]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>

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Package mtdesign updated to version 0.1.3 with previous version 0.1.2 dated 2024-11-05

Title: Mander and Thompson Designs
Description: Implements Mander & Thompson's (2010) <doi:10.1016/j.cct.2010.07.008> methods for two-stage designs optimal under the alternative hypothesis for phase II [cancer] trials. Also provides an implementation of Simon's (1989) <doi:10.1016/0197-2456(89)90015-9> original methodology and allows exploration of the operating characteristics of sub-optimal designs.
Author: John Kirkpatrick [aut, cre]
Maintainer: John Kirkpatrick <mtdesign@puzzledface.net>

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Package BayesianReasoning updated to version 0.4.3 with previous version 0.4.2 dated 2023-11-14

Title: Plot Positive and Negative Predictive Values for Medical Tests
Description: Functions to plot and help understand positive and negative predictive values (PPV and NPV), and their relationship with sensitivity, specificity, and prevalence. See Akobeng, A.K. (2007) <doi:10.1111/j.1651-2227.2006.00180.x> for a theoretical overview of the technical concepts and Navarrete et al. (2015) for a practical explanation about the importance of their understanding <doi:10.3389/fpsyg.2015.01327>.
Author: Gorka Navarrete [aut, cre]
Maintainer: Gorka Navarrete <gorkang@gmail.com>

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Package TreeSearch updated to version 1.7.0 with previous version 1.6.1 dated 2025-06-10

Title: Phylogenetic Analysis with Discrete Character Data
Description: Reconstruct phylogenetic trees from discrete data. Inapplicable character states are handled using the algorithm of Brazeau, Guillerme and Smith (2019) <doi:10.1093/sysbio/syy083> with the "Morphy" library, under equal or implied step weights. Contains a "shiny" user interface for interactive tree search and exploration of results, including character visualization, rogue taxon detection, tree space mapping, and cluster consensus trees (Smith 2022a, b) <doi:10.1093/sysbio/syab099>, <doi:10.1093/sysbio/syab100>. Profile Parsimony (Faith and Trueman, 2001) <doi:10.1080/10635150118627>, Successive Approximations (Farris, 1969) <doi:10.2307/2412182> and custom optimality criteria are implemented.
Author: Martin R. Smith [aut, cre, cph] , Martin Brazeau [cph]
Maintainer: Martin R. Smith <martin.smith@durham.ac.uk>

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 TreeSearch-1.7.0/TreeSearch/src/RMorphy.h                                                       |    1 
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 TreeSearch-1.7.0/TreeSearch/tests/testthat/test-pp-fitch.R                                      |  184 
 TreeSearch-1.7.0/TreeSearch/tests/testthat/test-pp-random-tree.R                                |  276 
 TreeSearch-1.7.0/TreeSearch/tests/testthat/test-tree_length.R                                   |  623 
 TreeSearch-1.7.0/TreeSearch/tests/testthat/test-zzz-tree-rearrange.R                            |  540 
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More information about TreeSearch at CRAN
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Package GGally updated to version 2.4.0 with previous version 2.3.0 dated 2025-07-18

Title: Extension to 'ggplot2'
Description: The R package 'ggplot2' is a plotting system based on the grammar of graphics. 'GGally' extends 'ggplot2' by adding several functions to reduce the complexity of combining geometric objects with transformed data. Some of these functions include a pairwise plot matrix, a two group pairwise plot matrix, a parallel coordinates plot, a survival plot, and several functions to plot networks.
Author: Barret Schloerke [aut, cre] , Di Cook [aut, ths] , Joseph Larmarange [aut] , Francois Briatte [aut], Moritz Marbach [aut], Edwin Thoen [aut], Amos Elberg [aut], Ott Toomet [ctb], Jason Crowley [aut], Heike Hofmann [ths] , Hadley Wickham [ths]
Maintainer: Barret Schloerke <schloerke@gmail.com>

Diff between GGally versions 2.3.0 dated 2025-07-18 and 2.4.0 dated 2025-08-23

 DESCRIPTION                           |   31 ++--
 MD5                                   |   87 ++++++-------
 NEWS.md                               |   11 +
 R/data-nba_ppg_2008.R                 |only
 R/deprecated.R                        |   34 +++--
 R/gg-plots.R                          |   38 +++--
 R/ggally_colbar.R                     |    4 
 R/ggaly_trends.R                      |    4 
 R/ggbivariate.R                       |    2 
 R/ggcoef.R                            |    4 
 R/ggcorr.R                            |   39 ++---
 R/ggfacet.R                           |   20 +--
 R/gglyph.R                            |   10 -
 R/ggmatrix.R                          |    6 
 R/ggmatrix_gtable.R                   |   22 +--
 R/ggmatrix_progress.R                 |    8 -
 R/ggnet.R                             |   80 ++++++------
 R/ggnet2.R                            |  123 +++++++++---------
 R/ggnetworkmap.R                      |  224 ++++++++++++++++++----------------
 R/ggnostic.R                          |   42 +-----
 R/ggpairs.R                           |  158 +++++++----------------
 R/ggpairs_add.R                       |   94 +++++---------
 R/ggpairs_getput.R                    |   17 +-
 R/ggpairs_internal_plots.R            |   29 ++--
 R/ggparcoord.R                        |  106 ++++++++--------
 R/ggscatmat.R                         |   26 ++-
 R/ggsurv.R                            |   10 -
 R/vig_ggally.R                        |    4 
 build/stage23.rdb                     |binary
 data/nba_ppg_2008.rda                 |only
 inst/WORDLIST                         |   12 +
 man/ggcorr.Rd                         |   11 -
 man/ggnetworkmap.Rd                   |  208 +++++++++++++++++--------------
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 tests/testthat/test-crosstalk.R       |    8 -
 tests/testthat/test-ggcorr.R          |    4 
 tests/testthat/test-ggmatrix.R        |   13 +
 tests/testthat/test-ggmatrix_add.R    |    2 
 tests/testthat/test-ggmatrix_getput.R |   16 +-
 tests/testthat/test-ggnet.R           |   32 ++--
 tests/testthat/test-ggnet2.R          |   63 +++++----
 tests/testthat/test-ggnetworkmap.R    |    4 
 tests/testthat/test-ggnostic.R        |    2 
 tests/testthat/test-ggparcoord.R      |   38 ++---
 tests/testthat/test-wrap.R            |    6 
 tests/testthat/test-zzz_ggpairs.R     |   67 ++++------
 46 files changed, 858 insertions(+), 861 deletions(-)

More information about GGally at CRAN
Permanent link


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