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>

Diff between EIEntropy versions 0.0.1.3 dated 2024-11-04 and 0.0.1.4 dated 2025-03-17

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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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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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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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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

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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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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

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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

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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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New package pacta.loanbook with initial version 0.1.0
Package: pacta.loanbook
Title: Easily Install and Load PACTA for Banks Packages
Version: 0.1.0
Description: PACTA (Paris Agreement Capital Transition Assessment) for Banks is a tool that allows banks to calculate the climate alignment of their corporate lending portfolios. This package is designed to make it easy to install and load multiple PACTA for Banks packages in a single step. It also provides thorough documentation - the PACTA for Banks cookbook at <https://rmi-pacta.github.io/pacta.loanbook/articles/cookbook_overview.html> - on how to run a PACTA for Banks analysis. This covers prerequisites for the analysis, the separate steps of running the analysis, the interpretation of PACTA for Banks results, and advanced use cases.
License: MIT + file LICENSE
URL: https://rmi-pacta.github.io/pacta.loanbook/, https://github.com/RMI-PACTA/pacta.loanbook
BugReports: https://github.com/RMI-PACTA/pacta.loanbook/issues
Depends: R (>= 4.0.0)
Imports: cli, dplyr, ggrepel, magrittr, purrr, r2dii.analysis (>= 0.5.1), r2dii.data (>= 0.6.0), r2dii.match (>= 0.4.0), r2dii.plot (>= 0.5.1), rlang, rstudioapi, scales, tibble, tidyselect
Suggests: covr, DiagrammeR, ggplot2, gt (>= 0.11.0), knitr (>= 1.42), readr, readxl, rmarkdown (>= 2.19), spelling, testthat (>= 3.2.2), tidyr, writexl
Encoding: UTF-8
Language: en-US
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-03-14 17:03:28 UTC; jkastl
Author: Jacob Kastl [aut, cre, ctr] , Jackson Hoffart [aut, ctr] , CJ Yetman [aut, ctr] , RMI [cph, fnd]
Maintainer: Jacob Kastl <jacob.kastl@gmail.com>
Repository: CRAN
Date/Publication: 2025-03-17 20:50:02 UTC

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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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New package FunSurv with initial version 1.0.0
Package: FunSurv
Title: Modeling Time-to-Event Data with Functional Predictors
Version: 1.0.0
Description: A collection of methods for modeling time-to-event data using both functional and scalar predictors. It implements functional data analysis techniques for estimation and inference, allowing researchers to assess the impact of functional covariates on survival outcomes, including time-to-single event and recurrent event outcomes.
Depends: R (>= 3.5.0)
License: MIT + file LICENSE
URL: https://github.com/zifangkong/FunSurv
BugReports: https://github.com/zifangkong/FunSurv/issues
Encoding: UTF-8
Imports: MFPCA, MASS, funData, Matrix, ggplot2, methods, reda (>= 0.5.0)
NeedsCompilation: no
Packaged: 2025-03-13 15:59:20 UTC; zifangkong
Author: Zifang Kong [aut, cre], Sy Han Chiou [aut], Yu-Lun Liu [aut]
Maintainer: Zifang Kong <zkong@smu.edu>
Repository: CRAN
Date/Publication: 2025-03-17 21:00:02 UTC

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New package EQRN with initial version 0.1.1
Package: EQRN
Title: Extreme Quantile Regression Neural Networks for Risk Forecasting
Version: 0.1.1
Description: This framework enables forecasting and extrapolating measures of conditional risk (e.g. of extreme or unprecedented events), including quantiles and exceedance probabilities, using extreme value statistics and flexible neural network architectures. It allows for capturing complex multivariate dependencies, including dependencies between observations, such as sequential dependence (time-series). The methodology was introduced in Pasche and Engelke (2024) <doi:10.1214/24-AOAS1907> (also available in preprint: Pasche and Engelke (2022) <doi:10.48550/arXiv.2208.07590>).
License: GPL (>= 3)
Encoding: UTF-8
Imports: coro, doFuture, evd, foreach, future, ismev, magrittr, stats, torch, utils
URL: https://github.com/opasche/EQRN, https://opasche.github.io/EQRN/
BugReports: https://github.com/opasche/EQRN/issues
NeedsCompilation: no
Packaged: 2025-03-14 15:35:01 UTC; pascheo
Author: Olivier C. Pasche [aut, cre, cph]
Maintainer: Olivier C. Pasche <olivier_pasche@alumni.epfl.ch>
Repository: CRAN
Date/Publication: 2025-03-17 20:40:02 UTC

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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>

Diff between OncoBayes2 versions 0.9-0 dated 2025-03-01 and 0.9-1 dated 2025-03-17

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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>

Diff between FORTLS versions 1.4.0 dated 2024-01-21 and 1.5.0 dated 2025-03-17

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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>

Diff between timeplyr versions 1.0.0 dated 2025-02-03 and 1.1.0 dated 2025-03-17

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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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New package rIACI with initial version 1.0.0
Package: rIACI
Title: Iberian Actuarial Climate Index Calculations
Version: 1.0.0
Description: Calculates the Iberian Actuarial Climate Index and its components—including temperature, precipitation, wind power, and sea level data—to support climate change analysis and risk assessment. See "Zhou et al." (2023) <doi:10.26360/2023_3> for further details.
License: GPL-3
Encoding: UTF-8
Imports: Rcpp (>= 1.0.5), dplyr, tidyr, lubridate, magrittr, reticulate, ecmwfr, readr, stats, utils
LinkingTo: Rcpp
Suggests: roxygen2, devtools, knitr, rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2025-03-17 14:53:24 UTC; nnnn
Author: Nan Zhou [aut, cre]
Maintainer: Nan Zhou <zhounan@ucm.es>
Repository: CRAN
Date/Publication: 2025-03-17 16:10:02 UTC

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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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New package DLSSM with initial version 1.1.0
Package: DLSSM
Title: Dynamic Logistic State Space Prediction Model
Version: 1.1.0
Maintainer: Jiakun Jiang <jiakunj@bnu.edu.cn>
Description: Implements the dynamic logistic state space model for binary outcome data proposed by Jiang et al. (2021) <doi:10.1111/biom.13593>. It provides a computationally efficient way to update the prediction whenever new data becomes available. It allows for both time-varying and time-invariant coefficients, and use cubic smoothing splines to model varying coefficients. The smoothing parameters are objectively chosen by maximum likelihood. The model is updated using batch data accumulated at pre-specified time intervals.
License: GPL-3
Encoding: UTF-8
LazyData: true
Imports: Matrix
Depends: R (>= 3.10)
Suggests: knitr, rmarkdown, testthat (>= 3.0.0), withr
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-03-17 09:09:33 UTC; jiakun
Author: Jiakun Jiang [aut, cre], Wei Yang [aut], Wensheng Guo [aut]
Repository: CRAN
Date/Publication: 2025-03-17 12:10:02 UTC

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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>

Diff between commonmark versions 1.9.2 dated 2024-10-04 and 1.9.4 dated 2025-03-17

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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>

Diff between rix versions 0.15.5 dated 2025-03-01 and 0.15.7 dated 2025-03-17

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New package btb with initial version 0.2.1
Encoding: UTF-8
Package: btb
Title: Beyond the Border - Kernel Density Estimation for Urban Geography
Description: The kernelSmoothing() function allows you to square and smooth geolocated data. It calculates a classical kernel smoothing (conservative) or a geographically weighted median. There are four major call modes of the function. The first call mode is kernelSmoothing(obs, epsg, cellsize, bandwidth) for a classical kernel smoothing and automatic grid. The second call mode is kernelSmoothing(obs, epsg, cellsize, bandwidth, quantiles) for a geographically weighted median and automatic grid. The third call mode is kernelSmoothing(obs, epsg, cellsize, bandwidth, centroids) for a classical kernel smoothing and user grid. The fourth call mode is kernelSmoothing(obs, epsg, cellsize, bandwidth, quantiles, centroids) for a geographically weighted median and user grid. Geographically weighted summary statistics : a framework for localised exploratory data analysis, C.Brunsdon & al., in Computers, Environment and Urban Systems C.Brunsdon & al. (2002) <doi:10.1016/S0198-9715(01)00009-6>, S [...truncated...]
Version: 0.2.1
License: GPL (>= 2)
Date: 2025-03-13
Imports: methods, Rcpp (>= 1.0.9), sf, RcppParallel, magrittr
Suggests: knitr, rmarkdown, testthat (>= 3.0.0),
Depends: R (>= 3.3.0), dplyr, mapsf
Maintainer: Solene Colin <solene.colin@insee.fr>
LinkingTo: Rcpp, RcppParallel, BH (>= 1.60.0-1), RcppArmadillo
LazyData: true
URL: https://github.com/InseeFr/btb, https://inseefr.github.io/btb/
BugReports: https://github.com/InseeFr/btb/issues
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2025-03-17 10:33:17 UTC; onyxia
Author: Arlindo Dos Santos [aut], Francois Semecurbe [aut], Julien Pramil [aut], Solene Colin [cre, ctb], Kim Antunez [ctb], Auriane Renaud [ctb], Farida Marouchi [ctb], Joachim Timoteo [ctb], Institut national de la statistique et des etudes economiques [cp [...truncated...]
Repository: CRAN
Date/Publication: 2025-03-17 11:30:07 UTC

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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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New package DATAstudio with initial version 1.2
Package: DATAstudio
Version: 1.2
Date: 2025-03-16
Title: The Research Data Warehouse of Miguel de Carvalho
Description: Pulls together a collection of datasets from Miguel de Carvalho research articles. Including, for example: - de Carvalho (2012) <doi:10.1016/j.jspi.2011.08.016>; - de Carvalho et al (2012) <doi:10.1080/03610926.2012.709905>; - de Carvalho et al (2012) <doi:10.1016/j.econlet.2011.09.007>); - de Carvalho and Davison (2014) <doi:10.1080/01621459.2013.872651>; - de Carvalho and Rua (2017) <doi:10.1016/j.ijforecast.2015.09.004>; - de Carvalho et al (2023) <doi:10.1002/sta4.560>; - de Carvalho et al (2022) <doi:10.1007/s13253-021-00469-9>; - Palacios et al (2024) <doi:10.1214/24-BA1420>.
Author: Miguel de Carvalho [aut, cre]
Depends: R (>= 3.5)
Maintainer: Miguel de Carvalho <Miguel.deCarvalho@ed.ac.uk>
License: GPL (>= 3)
Repository: CRAN
Suggests: extremis, spearmanCI
Imports: data.table, ggplot2, scales
LazyData: true
URL: https://www.maths.ed.ac.uk/~mdecarv/
NeedsCompilation: no
Packaged: 2025-03-17 06:51:05 UTC; muad'dib
Date/Publication: 2025-03-17 10:30:08 UTC

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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>

Diff between denim versions 1.0.0 dated 2024-06-05 and 1.0.1 dated 2025-03-17

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Package noegletalR (with last version 0.2.1) was removed from CRAN

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

2024-09-12 0.2.1

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New package shinyNextUI with initial version 0.1.0
Package: shinyNextUI
Title: 'HeroUI' 'React' Template for 'shiny' Apps
Version: 0.1.0
Description: A set of user interface components to create outstanding 'shiny' apps <https://shiny.posit.co/>, with the power of 'React' 'JavaScript' <https://react.dev/>. Seamlessly support dark and light themes, customize CSS with 'tailwind' <https://tailwindcss.com/>.
License: MIT + file LICENSE
Encoding: UTF-8
URL: https://rinterface.github.io/shinyNextUI/
Imports: htmltools, shiny, shiny.react, jsonlite
Suggests: testthat (>= 3.0.0), shinytest2, purrr, thematic, shiny.router, roxy.shinylive
Depends: R (>= 2.10)
LazyData: true
NeedsCompilation: no
Packaged: 2025-03-14 06:43:57 UTC; davidgranjon
Author: David Granjon [aut, cre], Next UI Inc [ctb, cph]
Maintainer: David Granjon <dgranjon@ymail.com>
Repository: CRAN
Date/Publication: 2025-03-17 08:50:02 UTC

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New package rlowdb with initial version 0.1.0
Package: rlowdb
Title: Lightweight JSON-Based Database
Version: 0.1.0
Description: The goal of 'rlowdb' is to provide a lightweight, file-based JSON database. Inspired by 'LowDB' in 'JavaScript', it generates an intuitive interface for storing, retrieving, updating, and querying structured data without requiring a full-fledged database system. Ideal for prototyping, small-scale applications, and lightweight data management needs.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: jsonlite (>= 1.8.8), purrr (>= 1.0.2), R6 (>= 2.5.1), rlang (>= 1.1.3)
Suggests: testthat (>= 3.2.3)
NeedsCompilation: no
Packaged: 2025-03-14 05:53:24 UTC; mohamedelfodilihaddaden
Author: Mohamed El Fodil Ihaddaden [aut, cre], lowdb developers [ctb, cph]
Maintainer: Mohamed El Fodil Ihaddaden <ihaddaden.fodeil@gmail.com>
Repository: CRAN
Date/Publication: 2025-03-17 08:50:08 UTC

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New package kitesquare with initial version 0.0.1
Package: kitesquare
Title: Visualize Contingency Tables Using Kite-Square Plots
Version: 0.0.1
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.
License: LGPL (>= 3)
Encoding: UTF-8
URL: https://github.com/HUGLeipzig/kitesquare
BugReports: https://github.com/HUGLeipzig/kitesquare/issues
VignetteBuilder: quarto
Imports: tidyr, dplyr, ggplot2, ggh4x, scales, rlang
Suggests: knitr, quarto
NeedsCompilation: no
Packaged: 2025-03-14 08:58:31 UTC; Wiedenhoef
Author: John Wiedenhoeft [aut, cre, cph]
Maintainer: John Wiedenhoeft <john.wiedenhoeft@medizin.uni-leipzig.de>
Repository: CRAN
Date/Publication: 2025-03-17 08:50:12 UTC

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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>

Diff between ComBatFamQC versions 1.0.4 dated 2025-01-25 and 1.0.5 dated 2025-03-17

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New package bdsm with initial version 0.1.1
Package: bdsm
Title: Bayesian Dynamic Systems Modeling
Version: 0.1.1
Description: Implements methods for building and analyzing models based on panel data as described in the paper by Moral-Benito (2013, <doi:10.1080/07350015.2013.818003>). The package provides functions to estimate dynamic panel data models and analyze the results of the estimation.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Suggests: spelling, testthat (>= 3.0.0)
Imports: dplyr, ggplot2, ggpubr, grid, gridExtra, knitr, magrittr, optimbase, parallel, rje, rlang, rootSolve, stats, tidyr, tidyselect
Depends: R (>= 2.10)
Language: en-US
NeedsCompilation: no
Packaged: 2025-03-16 21:34:16 UTC; marcindubel
Author: Mateusz Wyszynski [aut], Marcin Dubel [ctb, cre], Krzysztof Beck [ctb]
Maintainer: Marcin Dubel <marcindubel@gmail.com>
Repository: CRAN
Date/Publication: 2025-03-17 07:30:12 UTC

More information about bdsm at CRAN
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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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More information about MethEvolSIM at CRAN
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Package webqueue (with last version 1.0.0) was removed from CRAN

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

2025-03-13 1.0.0

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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>

Diff between summarytools versions 1.1.1 dated 2025-02-26 and 1.1.2 dated 2025-03-17

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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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