Sat, 13 Jul 2024

Package insight updated to version 0.20.2 with previous version 0.20.1 dated 2024-06-11

Title: Easy Access to Model Information for Various Model Objects
Description: A tool to provide an easy, intuitive and consistent access to information contained in various R models, like model formulas, model terms, information about random effects, data that was used to fit the model or data from response variables. 'insight' mainly revolves around two types of functions: Functions that find (the names of) information, starting with 'find_', and functions that get the underlying data, starting with 'get_'. The package has a consistent syntax and works with many different model objects, where otherwise functions to access these information are missing.
Author: Daniel Luedecke [aut, cre] , Dominique Makowski [aut, ctb] , Indrajeet Patil [aut, ctb] , Philip Waggoner [aut, ctb] , Mattan S. Ben-Shachar [aut, ctb] , Brenton M. Wiernik [aut, ctb] , Vincent Arel-Bundock [aut, ctb] , Etienne Bacher [aut, ctb] , Ale [...truncated...]
Maintainer: Daniel Luedecke <d.luedecke@uke.de>

Diff between insight versions 0.20.1 dated 2024-06-11 and 0.20.2 dated 2024-07-13

 DESCRIPTION                                         |   45 
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 NAMESPACE                                           |   21 
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Package forsearch updated to version 6.2.0 with previous version 6.1.0 dated 2024-06-22

Title: Diagnostic Analysis Using Forward Search Procedure for Various Models
Description: Identifies potential data outliers and their impact on estimates and analyses. Uses the forward search approach of Atkinson and Riani, "Robust Diagnostic Regression Analysis", 2000,<ISBN: o-387-95017-6> to prepare descriptive statistics of a dataset that is to be analyzed by stats::lm(), stats::glm(), stats::nls(), nlme::lme() or survival::coxph(). Includes graphics functions to display the descriptive statistics.
Author: William Fairweather [aut, cre]
Maintainer: William Fairweather <wrf343@flowervalleyconsulting.com>

Diff between forsearch versions 6.1.0 dated 2024-06-22 and 6.2.0 dated 2024-07-13

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New package vol2birdR with initial version 1.0.3
Package: vol2birdR
Title: Vertical Profiles of Biological Signals in Weather Radar Data
Version: 1.0.3
Date: 2024-07-10
Description: 'R' implementation of the 'vol2bird' software for generating vertical profiles of birds and other biological signals in weather radar data. See Dokter et al. (2011) <doi:10.1098/rsif.2010.0116> for a paper describing the methodology.
License: LGPL (>= 3)
Language: en-US
URL: https://github.com/adokter/vol2birdR/, https://adriaandokter.com/vol2bird/
BugReports: https://github.com/adokter/vol2birdR/issues
Imports: assertthat, methods, pkgbuild, Rcpp (>= 1.0.4), rlang, utils, withr
LinkingTo: Rcpp, RcppGSL
VignetteBuilder: knitr
SystemRequirements: GNU make, GSL, HDF5, PROJ
NeedsCompilation: yes
RcppModules: RaveIO, PolarVolume, Vol2Bird, Vol2BirdConfig
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
Copyright: file COPYRIGHTS
Encoding: UTF-8
Packaged: 2024-07-10 20:45:07 UTC; at744
Author: Anders Henja [aut] , Adriaan M. Dokter [aut, cre] , Alexander Tedeschi [ctb] , Tsung-Yu Lin [ctb] , Subranshu Maji [ctb] , Daniel Sheldon [ctb] , Bart Kranstauber [ctb] , Jurriaan H. Spaaks [ctb] , Lourens Veen [ctb] , Iwan Holleman [ctb] , Hidde Lei [...truncated...]
Maintainer: Adriaan M. Dokter <vol2birdr@cornell.edu>
Repository: CRAN
Date/Publication: 2024-07-13 12:30:02 UTC

More information about vol2birdR at CRAN
Permanent link

Package bnmonitor updated to version 0.2.0 with previous version 0.1.4 dated 2023-06-02

Title: An Implementation of Sensitivity Analysis in Bayesian Networks
Description: An implementation of sensitivity and robustness methods in Bayesian networks in R. It includes methods to perform parameter variations via a variety of co-variation schemes, to compute sensitivity functions and to quantify the dissimilarity of two Bayesian networks via distances and divergences. It further includes diagnostic methods to assess the goodness of fit of a Bayesian networks to data, including global, node and parent-child monitors. Reference: M. Leonelli, R. Ramanathan, R.L. Wilkerson (2022) <doi:10.1016/j.knosys.2023.110882>.
Author: Manuele Leonelli [aut, cre], Ramsiya Ramanathan [aut], Rachel Wilkerson [aut]
Maintainer: Manuele Leonelli <manuele.leonelli@ie.edu>

Diff between bnmonitor versions 0.1.4 dated 2023-06-02 and 0.2.0 dated 2024-07-13

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Package nuts updated to version 1.1.0 with previous version 1.0.0 dated 2024-03-22

Title: Convert European Regional Data
Description: Motivated by changing administrative boundaries over time, the 'nuts' package can convert European regional data with NUTS codes between versions (2006, 2010, 2013, 2016 and 2021) and levels (NUTS 1, NUTS 2 and NUTS 3). The package uses spatial interpolation as in Lam (1983) <doi:10.1559/152304083783914958> based on granular (100m x 100m) area, population and land use data provided by the European Commission's Joint Research Center.
Author: Moritz Hennicke [aut, cre, cph] , Werner Krause [aut, cph] , Pueyo-Ros Josep [rev] , Le Meur Nolwenn [rev]
Maintainer: Moritz Hennicke <AAoritz@posteo.de>

Diff between nuts versions 1.0.0 dated 2024-03-22 and 1.1.0 dated 2024-07-13

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Package callback updated to version 0.1.1 with previous version 0.1.0 dated 2024-05-07

Title: Computes Statistics from Discrimination Experimental Data
Description: In discrimination experiments candidates are sent on the same test (e.g. job, house rental) and one examines whether they receive the same outcome. The number of non negative answers are first examined in details looking for outcome differences. Then various answering rates and their exacts confidence intervals are computed. Last, exact and asymptotic discrimination tests are performed. Graphical methods are also available.
Author: Emmanuel Duguet [aut, cre] , David Gray [ctb] , Loic du Parquet [dtc], Yannick L'Horty [ctb] , Remi Le Gall [dtc] , Noam Leandri [dtc], Pascale Petit [ctb] , Florent Sari [ctb]
Maintainer: Emmanuel Duguet <emmanuel.duguet@u-pec.fr>

Diff between callback versions 0.1.0 dated 2024-05-07 and 0.1.1 dated 2024-07-13

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More information about callback at CRAN
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Package PubChemR updated to version 2.0 with previous version 1.2 dated 2024-01-16

Title: Interface to the 'PubChem' Database for Chemical Data Retrieval
Description: Provides an interface to the 'PubChem' database via the PUG REST <https://pubchem.ncbi.nlm.nih.gov/docs/pug-rest> and PUG View <https://pubchem.ncbi.nlm.nih.gov/docs/pug-view> services. This package allows users to automatically access chemical and biological data from 'PubChem', including compounds, substances, assays, and various other data types. Functions are available to retrieve data in different formats, perform searches, and access detailed annotations.
Author: Selcuk Korkmaz [aut, cre] , Bilge Eren Yamasan [aut] , Dincer Goksuluk [aut]
Maintainer: Selcuk Korkmaz <selcukorkmaz@gmail.com>

Diff between PubChemR versions 1.2 dated 2024-01-16 and 2.0 dated 2024-07-13

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Package pivotea updated to version 1.0.2 with previous version 1.0.1 dated 2023-07-15

Title: Create Pivot Table Easily
Description: Pivot easily by specifying rows, columns, values and split.
Author: Toshikazu Matsumura [aut, cre]
Maintainer: Toshikazu Matsumura <matutosi@gmail.com>

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Package grpnet updated to version 0.5 with previous version 0.4 dated 2024-06-05

Title: Group Elastic Net Regularized GLMs and GAMs
Description: Efficient algorithms for fitting generalized linear and additive models with group elastic net penalties as described in Helwig (2024) <doi:10.1080/10618600.2024.2362232>. Implements group LASSO, group MCP, and group SCAD with an optional group ridge penalty. Computes the regularization path for linear regression (gaussian), logistic regression (binomial), multinomial logistic regression (multinomial), log-linear count regression (poisson and negative.binomial), and log-linear continuous regression (gamma and inverse gaussian). Supports default and formula methods for model specification, k-fold cross-validation for tuning the regularization parameters, and nonparametric regression via tensor product reproducing kernel (smoothing spline) basis function expansion.
Author: Nathaniel E. Helwig [aut, cre]
Maintainer: Nathaniel E. Helwig <helwig@umn.edu>

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Fri, 12 Jul 2024

Package cmhc updated to version 0.2.8 with previous version 0.2.7 dated 2023-12-13

Title: Access, Retrieve, and Work with CMHC Data
Description: Wrapper around the Canadian Mortgage and Housing Corporation (CMHC) web interface. It enables programmatic and reproducible access to a wide variety of housing data from CMHC.
Author: Jens von Bergmann
Maintainer: Jens von Bergmann <jens@mountainmath.ca>

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Package lqr updated to version 5.2 with previous version 5.1 dated 2024-06-28

Title: Robust Linear Quantile Regression
Description: It fits a robust linear quantile regression model using a new family of zero-quantile distributions for the error term. Missing values and censored observations can be handled as well. This family of distribution includes skewed versions of the Normal, Student's t, Laplace, Slash and Contaminated Normal distribution. It also performs logistic quantile regression for bounded responses as shown in Galarza et.al.(2020) <doi:10.1007/s13571-020-00231-0>. It provides estimates and full inference. It also provides envelopes plots for assessing the fit and confidences bands when several quantiles are provided simultaneously.
Author: Christian E. Galarza <chedgala@espol.edu.ec>, Luis Benites <lbenitess@pucp.edu.pe>, Marcelo Bourguignon <m.p.bourguignon@gmail.com>, Victor H. Lachos <hlachos@uconn.edu>
Maintainer: Christian E. Galarza <cgalarza88@gmail.com>

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Package qrNLMM updated to version 3.4 with previous version 3.3 dated 2022-08-18

Title: Quantile Regression for Nonlinear Mixed-Effects Models
Description: Quantile regression (QR) for Nonlinear Mixed-Effects Models via the asymmetric Laplace distribution (ALD). It uses the Stochastic Approximation of the EM (SAEM) algorithm for deriving exact maximum likelihood estimates and full inference results for the fixed-effects and variance components. It also provides prediction and graphical summaries for assessing the algorithm convergence and fitting results.
Author: Christian E. Galarza <chedgala@espol.edu.ec> and Victor H. Lachos <hlachos@uconn.edu>
Maintainer: Christian E. Galarza <cgalarza88@gmail.com>

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Package missRanger updated to version 2.5.0 with previous version 2.4.0 dated 2023-11-19

Title: Fast Imputation of Missing Values
Description: Alternative implementation of the beautiful 'MissForest' algorithm used to impute mixed-type data sets by chaining random forests, introduced by Stekhoven, D.J. and Buehlmann, P. (2012) <doi:10.1093/bioinformatics/btr597>. Under the hood, it uses the lightning fast random forest package 'ranger'. Between the iterative model fitting, we offer the option of using predictive mean matching. This firstly avoids imputation with values not already present in the original data (like a value 0.3334 in 0-1 coded variable). Secondly, predictive mean matching tries to raise the variance in the resulting conditional distributions to a realistic level. This would allow, e.g., to do multiple imputation when repeating the call to missRanger(). A formula interface allows to control which variables should be imputed by which.
Author: Michael Mayer [aut, cre]
Maintainer: Michael Mayer <mayermichael79@gmail.com>

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Package mirtCAT updated to version 1.14 with previous version 1.13 dated 2023-10-17

Title: Computerized Adaptive Testing with Multidimensional Item Response Theory
Description: Provides tools to generate HTML interfaces for adaptive and non-adaptive tests using the shiny package (Chalmers (2016) <doi:10.18637/jss.v071.i05>). Suitable for applying unidimensional and multidimensional computerized adaptive tests (CAT) using item response theory methodology and for creating simple questionnaires forms to collect response data directly in R. Additionally, optimal test designs (e.g., "shadow testing") are supported for tests that contain a large number of item selection constraints. Finally, package contains tools useful for performing Monte Carlo simulations for studying test item banks.
Author: Phil Chalmers [aut, cre] , Magnus Nordmo [ctb]
Maintainer: Phil Chalmers <rphilip.chalmers@gmail.com>

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Package kernelshap updated to version 0.6.0 with previous version 0.5.0 dated 2024-05-26

Title: Kernel SHAP
Description: Efficient implementation of Kernel SHAP, see Lundberg and Lee (2017), and Covert and Lee (2021) <http://proceedings.mlr.press/v130/covert21a>. Furthermore, for up to 14 features, exact permutation SHAP values can be calculated. The package plays well together with meta-learning packages like 'tidymodels', 'caret' or 'mlr3'. Visualizations can be done using the R package 'shapviz'.
Author: Michael Mayer [aut, cre] , David Watson [aut] , Przemyslaw Biecek [ctb]
Maintainer: Michael Mayer <mayermichael79@gmail.com>

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Package genMCMCDiag updated to version 0.2.2 with previous version 0.2.1 dated 2024-05-10

Title: Generalized Convergence Diagnostics for Difficult MCMC Algorithms
Description: Trace plots and convergence diagnostics for Markov Chain Monte Carlo (MCMC) algorithms on highly multivariate or unordered spaces. Methods outlined in a forthcoming paper.
Author: Luke Duttweiler [aut, cre, cph]
Maintainer: Luke Duttweiler <lduttweiler@hsph.harvard.edu>

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Package adaR updated to version 0.3.3 with previous version 0.3.2 dated 2024-02-08

Title: A Fast 'WHATWG' Compliant URL Parser
Description: A wrapper for 'ada-url', a 'WHATWG' compliant and fast URL parser written in modern 'C++'. Also contains auxiliary functions such as a public suffix extractor.
Author: David Schoch [aut, cre] , Chung-hong Chan [aut] , Yagiz Nizipli [ctb, cph] , Daniel Lemire [ctb, cph]
Maintainer: David Schoch <david@schochastics.net>

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Package qrLMM updated to version 2.3 with previous version 2.2 dated 2022-10-25

Title: Quantile Regression for Linear Mixed-Effects Models
Description: Quantile regression (QR) for Linear Mixed-Effects Models via the asymmetric Laplace distribution (ALD). It uses the Stochastic Approximation of the EM (SAEM) algorithm for deriving exact maximum likelihood estimates and full inference results for the fixed-effects and variance components. It also provides graphical summaries for assessing the algorithm convergence and fitting results.
Author: Christian E. Galarza <cgalarza88@gmail.com> and Victor H. Lachos <hlachos@ime.unicamp.br>
Maintainer: Christian E. Galarza <cgalarza88@gmail.com>

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Package kayadata updated to version 1.4.0 with previous version 1.3.0 dated 2023-07-17

Title: Kaya Identity Data for Nations and Regions
Description: Provides data for Kaya identity variables (population, gross domestic product, primary energy consumption, and energy-related CO2 emissions) for the world and for individual nations, and utility functions for looking up data, plotting trends of Kaya variables, and plotting the fuel mix for a given country or region. The Kaya identity (Yoichi Kaya and Keiichi Yokobori, "Environment, Energy, and Economy: Strategies for Sustainability" (United Nations University Press, 1998) and <https://en.wikipedia.org/wiki/Kaya_identity>) expresses a nation's or region's greenhouse gas emissions in terms of its population, per-capita Gross Domestic Product, the energy intensity of its economy, and the carbon-intensity of its energy supply.
Author: Jonathan Gilligan [cre, aut]
Maintainer: Jonathan Gilligan <jonathan.gilligan@vanderbilt.edu>

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Package damAOI updated to version 0.1 with previous version 0.0 dated 2024-02-07

Title: Create an 'Area of Interest' Around a Constructed Dam for Comparative Impact Evaluations
Description: Define a spatial 'Area of Interest' (AOI) around a constructed dam using hydrology data. Dams have environmental and social impacts, both positive and negative. Current analyses of dams have no consistent way to specify at what spatial extent we should evaluate these impacts. 'damAOI' implements methods to adjust reservoir polygons to match satellite-observed surface water areas, plot upstream and downstream rivers using elevation data and accumulated river flow, and draw buffers clipped by river basins around reservoirs and relevant rivers. This helps to consistently determine the areas which could be impacted by dam construction, facilitating comparative analysis and informed infrastructure investments.
Author: Chris Littleboy [aut, cre] , Isabel Jones [ctb, fnd]
Maintainer: Chris Littleboy <chris.littleboy@stir.ac.uk>

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New package SmithWilsonYieldCurve with initial version 1.1.1
Package: SmithWilsonYieldCurve
Title: Smith-Wilson Yield Curve Construction
Version: 1.1.1
Date: 2024-07-11
Description: Constructs a yield curve by the Smith-Wilson method from a table of libor and swap rates. Now updated to take bond coupons and prices in the same table.
License: GPL-3
Suggests: testthat
Packaged: 2024-07-11 06:53:34 UTC; philj
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2024-07-12 15:20:05 UTC
Author: Phil Joubert [aut, cre]
Maintainer: Phil Joubert <phil.joubert@gmail.com>

More information about SmithWilsonYieldCurve at CRAN
Permanent link

New package SCIntRuler with initial version 0.99.6
Package: SCIntRuler
Title: Guiding the Integration of Multiple Single-Cell RNA-Seq Datasets
Version: 0.99.6
Maintainer: Yue Lyu <yuelyu0521@gmail.com>
Description: The accumulation of single-cell RNA-seq ('scRNA-seq') studies highlights the potential benefits of integrating multiple datasets. By augmenting sample sizes and enhancing analytical robustness, integration can lead to more insightful biological conclusions. However, challenges arise due to the inherent diversity and batch discrepancies within and across studies. 'SCIntRuler', a novel R package, addresses these challenges by guiding the integration of multiple 'scRNA-seq' datasets.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: Rcpp, Matrix, batchelor, base, Seurat, SeuratObject, MatrixGenerics, SingleCellExperiment, SummarizedExperiment, dplyr, coin, harmony, ggplot2, gridExtra, cowplot, magrittr, stats
LinkingTo: Rcpp
URL: https://github.com/yuelyu21/SCIntRuler, https://yuelyu21.github.io/SCIntRuler/
BugReports: https://github.com/yuelyu21/SCIntRuler/issues
Suggests: BiocStyle, knitr, rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
Depends: R (>= 4.3.0)
LazyData: true
LazyDataCompression: xz
NeedsCompilation: yes
Packaged: 2024-07-11 06:55:10 UTC; a98455
Author: Yue Lyu [aut, cre]
Repository: CRAN
Date/Publication: 2024-07-12 15:20:08 UTC

More information about SCIntRuler at CRAN
Permanent link

Package pdynmc updated to version 0.9.11 with previous version 0.9.10 dated 2023-11-24

Title: Moment Condition Based Estimation of Linear Dynamic Panel Data Models
Description: Linear dynamic panel data modeling based on linear and nonlinear moment conditions as proposed by Holtz-Eakin, Newey, and Rosen (1988) <doi:10.2307/1913103>, Ahn and Schmidt (1995) <doi:10.1016/0304-4076(94)01641-C>, and Arellano and Bover (1995) <doi:10.1016/0304-4076(94)01642-D>. Estimation of the model parameters relies on the Generalized Method of Moments (GMM) and instrumental variables (IV) estimation, numerical optimization (when nonlinear moment conditions are employed) and the computation of closed form solutions (when estimation is based on linear moment conditions). One-step, two-step and iterated estimation is available. For inference and specification testing, Windmeijer (2005) <doi:10.1016/j.jeconom.2004.02.005> and doubly corrected standard errors (Hwang, Kang, Lee, 2021 <doi:10.1016/j.jeconom.2020.09.010>) are available. Additionally, serial correlation tests, tests for overidentification, and Wald tests are provided. Functions for visualiz [...truncated...]
Author: Markus Fritsch [aut, cre], Joachim Schnurbus [aut], Andrew Adrian Yu Pua [aut]
Maintainer: Markus Fritsch <Markus.Fritsch@uni-Passau.de>

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Package multe updated to version 1.1.0 with previous version 1.0.1 dated 2024-06-19

Title: Multiple Treatment Effects Regression
Description: Implements contamination bias diagnostics and alternative estimators for regressions with multiple treatments. The implementation is based on Goldsmith-Pinkham, Hull, and Kolesár (2024) <doi:10.48550/arXiv.2106.05024>.
Author: Michal Kolesar [aut, cre] , Paul Goldsmith-Pinkham [ctb], Peter Hull [ctb]
Maintainer: Michal Kolesar <kolesarmi@googlemail.com>

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Package mlr3resampling updated to version 2024.7.7 with previous version 2024.7.3 dated 2024-07-05

Title: Resampling Algorithms for 'mlr3' Framework
Description: A supervised learning algorithm inputs a train set, and outputs a prediction function, which can be used on a test set. If each data point belongs to a group (such as geographic region, year, etc), then how do we know if it is possible to train on one group, and predict accurately on another group? Cross-validation can be used to determine the extent to which this is possible, by first assigning fold IDs from 1 to K to all data (possibly using stratification, usually by group and label). Then we loop over test sets (group/fold combinations), train sets (same group, other groups, all groups), and compute test/prediction accuracy for each combination. Comparing test/prediction accuracy between same and other, we can determine the extent to which it is possible (perfect if same/other have similar test accuracy for each group; other is usually somewhat less accurate than same; other can be just as bad as featureless baseline when the groups have different patterns). For more information, [...truncated...]
Author: Toby Hocking [aut, cre] , Michel Lang [ctb] , Bernd Bischl [ctb] , Jakob Richter [ctb] , Patrick Schratz [ctb] , Giuseppe Casalicchio [ctb] , Stefan Coors [ctb] , Quay Au [ctb] , Martin Binder [ctb], Florian Pfisterer [ctb] , Raphael Sonabend [ctb] , [...truncated...]
Maintainer: Toby Hocking <toby.hocking@r-project.org>

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New package governor with initial version 0.1.2
Package: governor
Title: Speed Limiter to Control Rate of Execution of Loops
Version: 0.1.2
Maintainer: Mike Cheng <mikefc@coolbutuseless.com>
Description: Speed limiter for controlling rate of execution of loops. It can be necessary to limit the rate of execution of a loop or repeated function call e.g. to show or gather data only at particular intervals. This package includes two methods for limiting this execution rate; speed governors and timers. A speed governor will insert pauses during execution to meet a user-specified loop time. Timers are alarm clocks which will indicate whether a certain time has passed. These mechanisms are implemented in 'C' to minimize processing overhead.
License: MIT + file LICENSE
Encoding: UTF-8
URL: https://github.com/coolbutuseless/governor
BugReports: https://github.com/coolbutuseless/governor/issues
NeedsCompilation: yes
Packaged: 2024-07-11 08:01:15 UTC; mike
Author: Mike Cheng [aut, cre, cph]
Repository: CRAN
Date/Publication: 2024-07-12 15:20:01 UTC

More information about governor at CRAN
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Package glmnetr updated to version 0.5-2 with previous version 0.5-1 dated 2024-05-12

Title: Nested Cross Validation for the Relaxed Lasso and Other Machine Learning Models
Description: Cross validation informed Relaxed LASSO, Artificial Neural Network (ANN), gradient boosting machine ('xgboost'), Random Forest ('RandomForestSRC'), Oblique Random Forest ('aorsf'), Recursive Partitioning ('RPART') or step wise regression models are fit. Cross validation leave out samples (leading to nested cross validation) or bootstrap out-of-bag samples are used to evaluate and compare performances between these models with results presented in tabular or graphical means. Calibration plots can also be generated, again based upon (outer nested) cross validation or bootstrap leave out (out of bag) samples. For some datasets, for example when the design matrix is not of full rank, 'glmnet' may have very long run times when fitting the relaxed lasso model, from our experience when fitting Cox models on data with many predictors and many patients, making it difficult to get solutions from either glmnet() or cv.glmnet(). This may be remedied by using the 'path=TRUE' option when calling [...truncated...]
Author: Walter K Kremers [aut, cre] , Nicholas B Larson [ctb]
Maintainer: Walter K Kremers <kremers.walter@mayo.edu>

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New package WES with initial version 1.0.0
Package: WES
Title: Tools for Analyzing Wastewater and Environmental Sampling Data
Version: 1.0.0
Date: 2024-07-03
Description: Provides reproducible functions for collating and analyzing data from environmental sampling studies. Environmental Sampling (ES) of infectious diseases involves collecting samples from various sources (such as sewage, water, air, soil, or surfaces) to monitor the presence of pathogens in the environment. Analysis of ES data often requires the calculation of Real-Time Quantitative PCR (qPCR) variables, normalizing ES observations, and analyzing sampling site characteristics. To help reduce the complexity of these analyses we have implemented tools that assist with establishing standardized ES data formats, absolute and relative quantification of qPCR data, estimation of qPCR amplification efficiency, and collating open-source spatial data for sampling sites.
URL: https://www.r-wes.com/
License: CC BY 4.0
Encoding: UTF-8
LazyData: true
Imports: glue, foreach, data.table, dplyr, HDInterval, zoo, openmeteo, chirps, whitebox, exactextractr, elevatr, raster, sp, sf, rworldmap, stars, RCurl, XML, httr, jsonlite
Depends: R (>= 4.1.1), stats, graphics, grDevices, utils
Suggests: rmarkdown, rworldxtra, progress
NeedsCompilation: no
Packaged: 2024-07-11 02:31:38 UTC; johngiles
Author: John R Giles [aut, cre]
Maintainer: John R Giles <john.giles@gatesfoundation.org>
Repository: CRAN
Date/Publication: 2024-07-12 14:00:06 UTC

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Permanent link

New package tidygate with initial version 1.0.13
Package: tidygate
Title: Interactively Gate Points
Version: 1.0.13
Maintainer: Stefano Mangiola <mangiolastefano@gmail.com>
Description: Interactively gate points on a scatter plot. Interactively drawn gates are recorded and can be applied programmatically to reproduce results exactly. Programmatic gating is based on the package gatepoints by Wajid Jawaid (who is also an author of this package).
License: GPL-3
Encoding: UTF-8
LazyData: true
Depends: R (>= 3.6.0)
Imports: utils, graphics, lifecycle, scales, magrittr, tibble, dplyr, purrr, rlang, tidyr, viridis, grDevices, RColorBrewer, stringr, shiny, plotly, ggplot2
Suggests: testthat, markdown, knitr, readr
VignetteBuilder: knitr
Biarch: true
URL: https://github.com/stemangiola/tidygate
BugReports: https://github.com/stemangiola/tidygate/issues
NeedsCompilation: no
Packaged: 2024-07-11 00:17:21 UTC; mangiola.s
Author: Stefano Mangiola [aut, cre], Wajid Jawaid [ctb], William Hutchison [aut]
Repository: CRAN
Date/Publication: 2024-07-12 13:30:01 UTC

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Permanent link

Package simpleboot updated to version 1.1-8 with previous version 1.1-7 dated 2019-02-20

Title: Simple Bootstrap Routines
Description: Simple bootstrap routines.
Author: Roger D. Peng <roger.peng@austin.utexas.edu>
Maintainer: Roger D. Peng <roger.peng@austin.utexas.edu>

Diff between simpleboot versions 1.1-7 dated 2019-02-20 and 1.1-8 dated 2024-07-12

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New package sdtmchecks with initial version 1.0.0
Package: sdtmchecks
Title: Data Quality Checks for Study Data Tabulation Model (SDTM) Datasets
Version: 1.0.0
Description: A series of checks to identify common issues in Study Data Tabulation Model (SDTM) datasets. These checks are intended to be generalizable, actionable, and meaningful for analysis.
License: Apache License (>= 2)
Encoding: UTF-8
Language: en-US
LazyData: true
Imports: dplyr (>= 1.1.1), tidyselect, openxlsx
Suggests: knitr, rmarkdown (>= 2.7), testthat, DT
VignetteBuilder: knitr
URL: https://pharmaverse.github.io/sdtmchecks/, https://github.com/pharmaverse/sdtmchecks
BugReports: https://github.com/pharmaverse/sdtmchecks/issues
Repository: CRAN
NeedsCompilation: no
Packaged: 2024-07-11 01:33:03 UTC; harric17
Author: Will Harris [aut, cre], Sara Bodach [aut], Edgar Manukyan [aut], Adrian Waddell [aut], Ross Farrugia [aut], F. Hoffmann-La Roche AG [cph, fnd]
Maintainer: Will Harris <harric17@gene.com>
Date/Publication: 2024-07-12 13:50:02 UTC

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Permanent link

Package RCzechia updated to version 1.12.2 with previous version 1.12.0 dated 2023-10-29

Title: Spatial Objects of the Czech Republic
Description: Administrative regions and other spatial objects of the Czech Republic.
Author: Jindra Lacko [aut, cre] , Nick Bearman [rev]
Maintainer: Jindra Lacko <jindra.lacko@gmail.com>

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Package bamdit updated to version 3.4.1 with previous version 3.4.0 dated 2022-04-04

Title: Bayesian Meta-Analysis of Diagnostic Test Data
Description: Provides a new class of Bayesian meta-analysis models that incorporates a model for internal and external validity bias. In this way, it is possible to combine studies of diverse quality and different types. For example, we can combine the results of randomized control trials (RCTs) with the results of observational studies (OS).
Author: Pablo Emilio Verde [aut, cre]
Maintainer: Pablo Emilio Verde <pabloemilio.verde@hhu.de>

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Package adestr updated to version 1.0.0 with previous version 0.5.0 dated 2023-09-27

Title: Estimation in Optimal Adaptive Two-Stage Designs
Description: Methods to evaluate the performance characteristics of various point and interval estimators for optimal adaptive two-stage designs as described in Meis et al. (2024) <doi:10.1002/sim.10020>. Specifically, this package is written to work with trial designs created by the 'adoptr' package (Kunzmann et al. (2021) <doi:10.18637/jss.v098.i09>; Pilz et al. (2021) <doi:10.1002/sim.8953>)). Apart from the a priori evaluation of performance characteristics, this package also allows for the evaluation of the implemented estimators on real datasets, and it implements methods to calculate p-values.
Author: Jan Meis [aut, cre] , Martin Maechler [cph] .)
Maintainer: Jan Meis <meis@imbi.uni-heidelberg.de>

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Package ura updated to version 1.0.1 with previous version 1.0.0 dated 2023-09-13

Title: Monitoring Rater Reliability
Description: Provides researchers with a simple set of diagnostic tools for monitoring the progress and reliability of raters conducting content coding tasks. Goehring (2024) <https://bengoehring.github.io/improving-content-analysis-tools-for-working-with-undergraduate-research-assistants.pdf> argues that supervisors---especially supervisors of small teams---should utilize computational tools to monitor reliability in real time. As such, this package provides easy-to-use functions for calculating inter-rater reliability statistics and measuring the reliability of one coder compared to the rest of the team.
Author: Benjamin Goehring [aut, cre]
Maintainer: Benjamin Goehring <bengoehr@umich.edu>

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Package stgam updated to version 0.0.1.1 with previous version 0.0.1.0 dated 2024-06-25

Title: Spatially and Temporally Varying Coefficient Models Using Generalized Additive Models
Description: A framework for specifying spatially, temporally and spatial-and-temporally varying coefficient models using Generalized Additive Models with Gaussian Process smooths. The smooths are parameterised with location and / or time attributes. Importantly the framework supports the investigation of the presence and nature of any space-time dependencies in the data, allows the user to evaluate different model forms (specifications) and to pick the most probable model or to combine multiple varying coefficient models using Bayesian Model Averaging. For more details see: Brunsdon et al (2023) <doi:10.4230/LIPIcs.GIScience.2023.17>, Comber et al (2023) <doi:10.4230/LIPIcs.GIScience.2023.22> and Comber et al (2024) <doi:10.1080/13658816.2023.2270285>.
Author: Lex Comber [aut, cre], Paul Harris [ctb], Chris Brunsdon [ctb]
Maintainer: Lex Comber <a.comber@leeds.ac.uk>

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Package hstats updated to version 1.2.0 with previous version 1.1.2 dated 2024-02-03

Title: Interaction Statistics
Description: Fast, model-agnostic implementation of different H-statistics introduced by Jerome H. Friedman and Bogdan E. Popescu (2008) <doi:10.1214/07-AOAS148>. These statistics quantify interaction strength per feature, feature pair, and feature triple. The package supports multi-output predictions and can account for case weights. In addition, several variants of the original statistics are provided. The shape of the interactions can be explored through partial dependence plots or individual conditional expectation plots. 'DALEX' explainers, meta learners ('mlr3', 'tidymodels', 'caret') and most other models work out-of-the-box.
Author: Michael Mayer [aut, cre] , Przemyslaw Biecek [ctb]
Maintainer: Michael Mayer <mayermichael79@gmail.com>

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Package fitdistrplus updated to version 1.2-1 with previous version 1.1-11 dated 2023-04-25

Title: Help to Fit of a Parametric Distribution to Non-Censored or Censored Data
Description: Extends the fitdistr() function (of the MASS package) with several functions to help the fit of a parametric distribution to non-censored or censored data. Censored data may contain left censored, right censored and interval censored values, with several lower and upper bounds. In addition to maximum likelihood estimation (MLE), the package provides moment matching (MME), quantile matching (QME), maximum goodness-of-fit estimation (MGE) and maximum spacing estimation (MSE) methods (available only for non-censored data). Weighted versions of MLE, MME, QME and MSE are available. See e.g. Casella & Berger (2002), Statistical inference, Pacific Grove, for a general introduction to parametric estimation.
Author: Marie-Laure Delignette-Muller [aut] , Christophe Dutang [aut] , Regis Pouillot [ctb], Jean-Baptiste Denis [ctb], Aurelie Siberchicot [aut, cre]
Maintainer: Aurelie Siberchicot <aurelie.siberchicot@univ-lyon1.fr>

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More information about fitdistrplus at CRAN
Permanent link

New package sampcompR with initial version 0.2.0
Package: sampcompR
Title: Comparing and Visualizing Differences Between Surveys
Version: 0.2.0
Description: Easily analyze and visualize differences between samples (e.g., benchmark comparisons, nonresponse comparisons in surveys) on three levels. The comparisons can be univariate, bivariate or multivariate. On univariate level the variables of interest of a survey and a comparison survey (i.e. benchmark) are compared, by calculating one of several difference measures (e.g., relative difference in mean), and an average difference between the surveys. On bivariate level a function can calculate significant differences in correlations for the surveys. And on multivariate levels a function can calculate significant differences in model coefficients between the surveys of comparison. All of those differences can be easily plotted and outputted as a table. For more detailed information on the methods and example use see Rohr, B., Silber, H., & Felderer, B. (2024). „Comparing the Accuracy of Univariate, Bivariate, and Multivariate Estimates across Probability and Non-Probability Surveys with [...truncated...]
License: GPL-3
Encoding: UTF-8
Imports: boot, boot.pval, data.table, dplyr, forcats, furrr, future, ggplot2, Hmisc, lmtest, magrittr, psych, purrr, readr, reshape2, sandwich, stats, survey, svrep, tibble, tidyr,
Suggests: testthat (>= 3.0.0), wooldridge, jtools, utils, parallel
NeedsCompilation: no
Packaged: 2024-07-10 08:27:27 UTC; rohrbn
Author: Bjoern Rohr [aut, cre, cph]
Maintainer: Bjoern Rohr <bjoern.rohr@gesis.org>
Repository: CRAN
Date/Publication: 2024-07-12 11:20:03 UTC

More information about sampcompR at CRAN
Permanent link

New package mergenstudio with initial version 1.0
Package: mergenstudio
Title: 'Mergen' Studio: An 'RStudio' Addin Wrapper for the 'Mergen' Package
Version: 1.0
Maintainer: Jacqueline Jansen <jacqueline-98@hotmail.com>
Description: An 'RStudio' Addin wrapper for the 'mergen' package. This package employs artificial intelligence to convert data analysis questions into executable code, explanations, and algorithms. This package makes it easier to use Large Language Models in your development environment by providing a chat-like interface, while also allowing you to inspect and execute the returned code.
License: MIT + file LICENSE
Depends: R (>= 4.0)
Imports: mergen, assertthat, bslib (>= 0.4.2), cli, colorspace, fontawesome, glue, grDevices, htmltools, htmlwidgets, httr2, ids, jsonlite, magrittr, purrr, rlang, rstudioapi (>= 0.12), shiny, shiny.i18n, shinyjs, shinyFiles, fs, stringr (>= 1.5.0), rvest, utils, waiter, yaml, rmarkdown, methods
Encoding: UTF-8
Language: en-US
Suggests: testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2024-07-10 11:35:56 UTC; jacquelinejansen
Author: Jacqueline Jansen [aut, cre], Artuer Manukyan [aut], Nour Alkhoury [aut], Altuna Akalin [aut]
Repository: CRAN
Date/Publication: 2024-07-12 11:30:02 UTC

More information about mergenstudio at CRAN
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New package drglm with initial version 1.0
Package: drglm
Title: Fitting Linear and Generalized Linear Models in "Divide and Recombine" Approach to Large Data Sets
Version: 1.0
Maintainer: Md. Mahadi Hassan Nayem <mhnayem.cu.stat@outlook.com>
Depends: R (>= 3.5.0)
Imports: nnet, speedglm, stats
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
Description: To overcome the memory limitations for fitting linear (LM) and Generalized Linear Models (GLMs) to large data sets, this package implements the Divide and Recombine (D&R) strategy. It basically divides the entire large data set into suitable subsets manageable in size and then fits model to each subset. Finally, results from each subset are aggregated to obtain the final estimate. This package also supports fitting GLMs to data sets that cannot fit into memory and provides methods for fitting GLMs under linear regression, binomial regression, Poisson regression, and multinomial logistic regression settings. Respective models are fitted using different D&R strategies as described by: Xi, Lin, and Chen (2009) <doi:10.1109/TKDE.2008.186>, Xi, Lin and Chen (2006) <doi:10.1109/TKDE.2006.196>, Zuo and Li (2018) <doi:10.4236/ojs.2018.81003>, Karim, M.R., Islam, M.A. (2019) <doi:10.1007/978-981-13-9776-9>.
License: GPL (>= 3)
Encoding: UTF-8
VignetteBuilder: knitr
URL: https://nayemmh.github.io/drglm/
NeedsCompilation: no
Packaged: 2024-07-10 14:27:38 UTC; mhnay
Author: Md. Mahadi Hassan Nayem [aut, cre]
Repository: CRAN
Date/Publication: 2024-07-12 11:40:02 UTC

More information about drglm at CRAN
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New package docket with initial version 1.33
Package: docket
Title: Insert R Data into 'Word' Documents
Version: 1.33
Description: Populate data from an R environment into '.doc' and '.docx' templates. Create a template document in a program such as 'Word', and add strings encased in guillemet characters to create flags («example»). Use getDictionary() to create a dictionary of flags and replacement values, then call docket() to generate a populated document.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: stringr, XML, xml2, zip
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
URL: https://github.com/JonathanConrad98/docket
BugReports: https://github.com/JonathanConrad98/docket/issues
NeedsCompilation: no
Packaged: 2024-07-10 20:48:35 UTC; Jonra
Author: Jonathan Conrad [aut, cre], Ian Conrad [ctb]
Maintainer: Jonathan Conrad <JonathanGConrad@gmail.com>
Repository: CRAN
Date/Publication: 2024-07-12 11:50:02 UTC

More information about docket at CRAN
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New package CPoptim with initial version 0.1.0
Package: CPoptim
Title: Convex Partition Optimisation
Version: 0.1.0
Author: Erick G.G. de Paz [aut, cre] , Humberto Vaquera Huerta [aut] , Francisco Javier Albores Velasco [aut] , John R. Bauer Mengelberg [aut] , Juan Manuel Romero Padilla [aut]
Maintainer: Erick G.G. de Paz <giles.erick@colpos.mx>
Description: Convex Partition is a black-box optimisation algorithm for single objective real-parameters functions. The basic principle is to progressively estimate and exploit a regression tree similar to a CART (Classification and Regression Tree) of the objective function. For more details see 'de Paz' (2024) <doi:10.1007/978-3-031-62836-8_3> and 'Loh' (2011) <doi:10.1002/widm.8> .
License: GPL-2
Encoding: UTF-8
NeedsCompilation: yes
Repository: CRAN
Date: 2024-07-07
Depends: R (>= 2.10.0)
Packaged: 2024-07-10 00:04:28 UTC; erickdepaz
Date/Publication: 2024-07-12 11:10:02 UTC

More information about CPoptim at CRAN
Permanent link

Package duckplyr updated to version 0.4.1 with previous version 0.4.0 dated 2024-05-21

Title: A 'DuckDB'-Backed Version of 'dplyr'
Description: A drop-in replacement for 'dplyr', powered by 'DuckDB' for performance. Also defines a set of generics that provide a low-level implementer's interface for the high-level user interface of 'dplyr'.
Author: Hannes Muehleisen [aut] , Kirill Mueller [aut, cre] , Posit Software, PBC [cph, fnd]
Maintainer: Kirill Mueller <kirill@cynkra.com>

Diff between duckplyr versions 0.4.0 dated 2024-05-21 and 0.4.1 dated 2024-07-12

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More information about duckplyr at CRAN
Permanent link

Package deseats updated to version 1.1.0 with previous version 1.0.0 dated 2023-11-08

Title: Data-Driven Locally Weighted Regression for Trend and Seasonality in TS
Description: Various methods for the identification of trend and seasonal components in time series (TS) are provided. Among them is a data-driven locally weighted regression approach with automatically selected bandwidth for equidistant short-memory time series. The approach is a combination / extension of the algorithms by Feng (2013) <doi:10.1080/02664763.2012.740626> and Feng, Y., Gries, T., and Fritz, M. (2020) <doi:10.1080/10485252.2020.1759598> and a brief description of this new method is provided in the package documentation. Furthermore, the package allows its users to apply the base model of the Berlin procedure, version 4.1, as described in Speth (2004) <https://www.destatis.de/DE/Methoden/Saisonbereinigung/BV41-methodenbericht-Heft3_2004.pdf?__blob=publicationFile>. Permission to include this procedure was kindly provided by the Federal Statistical Office of Germany.
Author: Yuanhua Feng [aut] , Dominik Schulz [aut, cre]
Maintainer: Dominik Schulz <dominik.schulz@uni-paderborn.de>

Diff between deseats versions 1.0.0 dated 2023-11-08 and 1.1.0 dated 2024-07-12

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Package WeibullR.shiny updated to version 0.2.1 with previous version 0.2.0 dated 2023-10-18

Title: A 'Shiny' App for Weibull Analysis from 'WeibullR'
Description: A 'Shiny' web application for life data analysis that depends on 'WeibullR' by David Silkworth and Jurgen Symynck (2022) <https://CRAN.R-project.org/package=WeibullR>, an R package for Weibull analysis.
Author: Paul Govan [aut, cre, cph]
Maintainer: Paul Govan <paul.govan2@gmail.com>

Diff between WeibullR.shiny versions 0.2.0 dated 2023-10-18 and 0.2.1 dated 2024-07-12

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Package CodelistGenerator updated to version 3.1.0 with previous version 3.0 dated 2024-05-31

Title: Identify Relevant Clinical Codes and Evaluate Their Use
Description: Generate a candidate code list for the Observational Medical Outcomes Partnership (OMOP) common data model based on string matching. For a given search strategy, a candidate code list will be returned.
Author: Edward Burn [aut, cre] , Marti Catala [ctb] , Xihang Chen [ctb] , Mike Du [ctb] , Danielle Newby [ctb]
Maintainer: Edward Burn <edward.burn@ndorms.ox.ac.uk>

Diff between CodelistGenerator versions 3.0 dated 2024-05-31 and 3.1.0 dated 2024-07-12

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Package BayesianNetwork updated to version 0.3.2 with previous version 0.3 dated 2023-06-26

Title: Bayesian Network Modeling and Analysis
Description: A "Shiny"" web application for creating interactive Bayesian Network models, learning the structure and parameters of Bayesian networks, and utilities for classic network analysis.
Author: Paul Govan [aut, cre, cph]
Maintainer: Paul Govan <paul.govan2@gmail.com>

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Thu, 11 Jul 2024

Package eSDM updated to version 0.4.2 with previous version 0.4.1 dated 2024-02-14

Title: Ensemble Tool for Predictions from Species Distribution Models
Description: A tool which allows users to create and evaluate ensembles of species distribution model (SDM) predictions. Functionality is offered through R functions or a GUI (R Shiny app). This tool can assist users in identifying spatial uncertainties and making informed conservation and management decisions. The package is further described in Woodman et al (2019) <doi:10.1111/2041-210X.13283>.
Author: Sam Woodman [aut, cre]
Maintainer: Sam Woodman <sam.woodman@noaa.gov>

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Package PAMpal updated to version 1.2.1 with previous version 1.0.0 dated 2023-08-11

Title: Load and Process Passive Acoustic Data
Description: Tools for loading and processing passive acoustic data. Read in data that has been processed in 'Pamguard' (<https://www.pamguard.org/>), apply a suite processing functions, and export data for reports or external modeling tools. Parameter calculations implement methods by Oswald et al (2007) <doi:10.1121/1.2743157>, Griffiths et al (2020) <doi:10.1121/10.0001229> and Baumann-Pickering et al (2010) <doi:10.1121/1.3479549>.
Author: Taiki Sakai [aut, cre], Jay Barlow [ctb], Emily Griffiths [ctb], Michael Oswald [ctb], Simone Baumann-Pickering [ctb], Julie Oswald [ctb]
Maintainer: Taiki Sakai <taiki.sakai@noaa.gov>

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Package ltable updated to version 2.0.4 with previous version 2.0.3 dated 2023-08-16

Title: Easy to Make (Lazy) Tables
Description: Constructs tables of counts and proportions out of data sets with possibility to insert tables to Excel, Word, HTML, and PDF documents. Transforms tables to data suitable for modelling. Features Gibbs sampling based log-linear (NB2) and power analyses (original by Oleksandr Ocheredko <doi:10.35566/isdsa2019c5>) for tabulated data.
Author: Ocheredko Oleksandr
Maintainer: Ocheredko Oleksandr <Ocheredko@yahoo.com>

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Package genieBPC updated to version 2.0.1 with previous version 1.1.1 dated 2024-03-29

Title: Project GENIE BioPharma Collaborative Data Processing Pipeline
Description: The American Association Research (AACR) Project Genomics Evidence Neoplasia Information Exchange (GENIE) BioPharma Collaborative represents a multi-year, multi-institution effort to build a pan-cancer repository of linked clinico-genomic data. The genomic and clinical data are provided in multiple releases (separate releases for each cancer cohort with updates following data corrections), which are stored on the data sharing platform 'Synapse' <https://www.synapse.org/>. The 'genieBPC' package provides a seamless way to obtain the data corresponding to each release from 'Synapse' and to prepare datasets for analysis.
Author: Jessica A. Lavery [aut, cre] , Michael A. Curry [aut] , Samantha Brown [aut] , Karissa Whiting [aut] , Hannah Fuchs [aut] , Axel Martin [aut], Daniel D. Sjoberg [ctb]
Maintainer: Jessica A. Lavery <laveryj@mskcc.org>

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Package spaths updated to version 1.1.3 with previous version 1.1.2 dated 2024-05-30

Title: Shortest Paths Between Points in Grids
Description: Shortest paths between points in grids. Optional barriers and custom transition functions. Applications regarding planet Earth, as well as generally spheres and planes. Optimized for computational performance, customizability, and user friendliness. Graph-theoretical implementation tailored to gridded data. Currently focused on Dijkstra's (1959) <doi:10.1007/BF01386390> algorithm. Future updates broaden the scope to other least cost path algorithms and to centrality measures.
Author: Christian Dueben [aut, cre]
Maintainer: Christian Dueben <cdueben.ml+cran@proton.me>

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Package samc updated to version 3.3.0 with previous version 3.2.1 dated 2023-05-09

Title: Spatial Absorbing Markov Chains
Description: Implements functions for working with absorbing Markov chains. The implementation is based on the framework described in "Toward a unified framework for connectivity that disentangles movement and mortality in space and time" by Fletcher et al. (2019) <doi:10.1111/ele.13333>, which applies them to spatial ecology. This framework incorporates both resistance and absorption with spatial absorbing Markov chains (SAMC) to provide several short-term and long-term predictions for metrics related to connectivity in landscapes. Despite the ecological context of the framework, this package can be used in any application of absorbing Markov chains.
Author: Andrew Marx [aut, cre, cph] , Robert Fletcher [ctb] , Miguel Acevedo [ctb] , Jorge Sefair [ctb] , Chao Wang [ctb] , Hughes Josie [ctb] , Barrett Griffin [ctb]
Maintainer: Andrew Marx <ajm.rpackages@gmail.com>

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Package mstate updated to version 0.3.3 with previous version 0.3.2 dated 2021-11-08

Title: Data Preparation, Estimation and Prediction in Multi-State Models
Description: Contains functions for data preparation, descriptives, hazard estimation and prediction with Aalen-Johansen or simulation in competing risks and multi-state models, see Putter, Fiocco, Geskus (2007) <doi:10.1002/sim.2712>.
Author: Hein Putter [aut, cre], Liesbeth C. de Wreede [aut], Marta Fiocco [aut], Ronald B. Geskus [ctb], Edouard F. Bonneville [aut], Damjan Manevski [ctb]
Maintainer: Hein Putter <H.Putter@lumc.nl>

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Package rmdHelpers updated to version 1.3.1 with previous version 1.2 dated 2016-07-11

Title: Helper Functions for Rmd Documents
Description: A series of functions to aid in repeated tasks for Rmd documents. All details are to my personal preference, though I am happy to add flexibility if there are use cases I am missing. I will continue updating with new functions as I add utility functions for myself.
Author: Mark Peterson
Maintainer: Mark Peterson <mark.phillip.peterson@gmail.com>

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Package isnullptr updated to version 1.0.2 with previous version 1.0.1 dated 2017-09-28

Title: Check if an 'externalptr' is a Null Pointer
Description: Check if an 'externalptr' is a null pointer. R does currently not have a native function for that purpose. This package contains a C function that returns TRUE in case of a null pointer.
Author: Jonas Foerster [aut, cre]
Maintainer: Jonas Foerster <jonasfoerster@gmail.com>

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Package rfacebookstat updated to version 2.11.0 with previous version 2.10.0 dated 2024-01-25

Title: Load Data from Facebook API Marketing
Description: Load data by campaigns, ads, ad sets and insights, ad account and business manager from Facebook Marketing API into R. For more details see official documents by Facebook Marketing API <https://developers.facebook.com/docs/marketing-apis/>.
Author: Alexey Seleznev [aut, cre]
Maintainer: Alexey Seleznev <selesnow@gmail.com>

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Package mvtsplot updated to version 1.0-5 with previous version 1.0-4 dated 2022-05-10

Title: Multivariate Time Series Plot
Description: A function for plotting multivariate time series data.
Author: Roger D. Peng <roger.peng@austin.utexas.edu>
Maintainer: Roger D. Peng <roger.peng@austin.utexas.edu>

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Package metap updated to version 1.11 with previous version 1.10 dated 2024-04-15

Title: Meta-Analysis of Significance Values
Description: The canonical way to perform meta-analysis involves using effect sizes. When they are not available this package provides a number of methods for meta-analysis of significance values including the methods of Edgington, Fisher, Lancaster, Stouffer, Tippett, and Wilkinson; a number of data-sets to replicate published results; and routines for graphical display.
Author: Michael Dewey [aut, cre]
Maintainer: Michael Dewey <lists@dewey.myzen.co.uk>

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Package CICA updated to version 1.1.0 with previous version 1.0.2 dated 2024-02-05

Title: Clusterwise Independent Component Analysis
Description: Clustering multi-subject resting state functional Magnetic Resonance Imaging data. This methods enables the clustering of subjects based on multi-subject resting state functional Magnetic Resonance Imaging data. Objects are clustered based on similarities and differences in cluster-specific estimated components obtained by Independent Component Analysis.
Author: Jeffrey Durieux [aut, cre], Tom Wilderjans [aut], Juan Claramunt Gonzalez [ctb]
Maintainer: Jeffrey Durieux <durieux.jeffrey@gmail.com>

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Package RCurl updated to version 1.98-1.16 with previous version 1.98-1.14 dated 2024-01-09

Title: General Network (HTTP/FTP/...) Client Interface for R
Description: A wrapper for 'libcurl' <https://curl.se/libcurl/> Provides functions to allow one to compose general HTTP requests and provides convenient functions to fetch URIs, get & post forms, etc. and process the results returned by the Web server. This provides a great deal of control over the HTTP/FTP/... connection and the form of the request while providing a higher-level interface than is available just using R socket connections. Additionally, the underlying implementation is robust and extensive, supporting FTP/FTPS/TFTP (uploads and downloads), SSL/HTTPS, telnet, dict, ldap, and also supports cookies, redirects, authentication, etc.
Author: CRAN Team [ctb, cre] , Duncan Temple Lang [aut]
Maintainer: CRAN Team <CRAN@r-project.org>

Diff between RCurl versions 1.98-1.14 dated 2024-01-09 and 1.98-1.16 dated 2024-07-11

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New package quantspec with initial version 1.2-4
Package: quantspec
Version: 1.2-4
Encoding: UTF-8
Date: 2024-07-10
Title: Quantile-Based Spectral Analysis of Time Series
Depends: R (>= 3.0.0), stats4
Suggests: testthat
Imports: methods, graphics, quantreg, abind, zoo, snowfall, Rcpp (>= 0.11.0)
Description: Methods to determine, smooth and plot quantile periodograms for univariate and multivariate time series. See Kley (2016) <doi:10.18637/jss.v070.i03> for a description and tutorial.
License: GPL (>= 2)
URL: https://github.com/tobiaskley/quantspec
BugReports: https://github.com/tobiaskley/quantspec/issues
LazyData: TRUE
LinkingTo: Rcpp
NeedsCompilation: yes
Packaged: 2024-07-10 13:05:01 UTC; tkley
Author: Tobias Kley [aut, cre], Stefan Birr [ctb]
Maintainer: Tobias Kley <tobias.kley@uni-goettingen.de>
Repository: CRAN
Date/Publication: 2024-07-11 12:50:02 UTC

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Package openalexR updated to version 1.4.0 with previous version 1.3.1 dated 2024-05-08

Title: Getting Bibliographic Records from 'OpenAlex' Database Using 'DSL' API
Description: A set of tools to extract bibliographic content from 'OpenAlex' database using API <https://docs.openalex.org>.
Author: Massimo Aria [aut, cre, cph] , Corrado Cuccurullo [ctb] , Trang Le [aut] , June Choe [aut]
Maintainer: Massimo Aria <aria@unina.it>

Diff between openalexR versions 1.3.1 dated 2024-05-08 and 1.4.0 dated 2024-07-11

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Package datawizard updated to version 0.12.0 with previous version 0.11.0 dated 2024-06-05

Title: Easy Data Wrangling and Statistical Transformations
Description: A lightweight package to assist in key steps involved in any data analysis workflow: (1) wrangling the raw data to get it in the needed form, (2) applying preprocessing steps and statistical transformations, and (3) compute statistical summaries of data properties and distributions. It is also the data wrangling backend for packages in 'easystats' ecosystem. References: Patil et al. (2022) <doi:10.21105/joss.04684>.
Author: Indrajeet Patil [aut] , Etienne Bacher [aut, cre] , Dominique Makowski [aut] , Daniel Luedecke [aut] , Mattan S. Ben-Shachar [aut] , Brenton M. Wiernik [aut] , Remi Theriault [ctb] , Thomas J. Faulkenberry [rev], Robert Garrett [rev]
Maintainer: Etienne Bacher <etienne.bacher@protonmail.com>

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Package catregs updated to version 0.2.1 with previous version 0.2.0 dated 2024-06-11

Title: Post-Estimation Functions for Generalized Linear Mixed Models
Description: Several functions for working with mixed effects regression models for limited dependent variables. The functions facilitate post-estimation of model predictions or margins, and comparisons between model predictions for assessing or probing moderation. Additional helper functions facilitate model comparisons and implements simulation-based inference for model predictions of alternative-specific outcome models. See also, Melamed and Doan (2024, ISBN: 978-1032509518).
Author: David Melamed [aut, cre]
Maintainer: David Melamed <dmmelamed@gmail.com>

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Package spant updated to version 2.22.0 with previous version 2.21.0 dated 2024-05-30

Title: MR Spectroscopy Analysis Tools
Description: Tools for reading, visualising and processing Magnetic Resonance Spectroscopy data. The package includes methods for spectral fitting: Wilson (2021) <DOI:10.1002/mrm.28385> and spectral alignment: Wilson (2018) <DOI:10.1002/mrm.27605>.
Author: Martin Wilson [cre, aut] , Yong Wang [ctb], John Muschelli [ctb]
Maintainer: Martin Wilson <martin@pipegrep.co.uk>

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Package disaggR updated to version 1.0.5.3 with previous version 1.0.5.2 dated 2024-02-09

Title: Two-Steps Benchmarks for Time Series Disaggregation
Description: The twoStepsBenchmark() and threeRuleSmooth() functions allow you to disaggregate a low-frequency time series with higher frequency time series, using the French National Accounts methodology. The aggregated sum of the resulting time series is strictly equal to the low-frequency time series within the benchmarking window. Typically, the low-frequency time series is an annual one, unknown for the last year, and the high frequency one is either quarterly or monthly. See "Methodology of quarterly national accounts", Insee Méthodes N°126, by Insee (2012, ISBN:978-2-11-068613-8, <https://www.insee.fr/en/information/2579410>).
Author: Arnaud Feldmann [aut] , Pauline Meinzel [cre], Thomas Laurent [ctb] , Franck Arnaud [ctb] , Institut national de la statistique et des etudes economiques [cph]
Maintainer: Pauline Meinzel <pauline.meinzel@insee.fr>

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Wed, 10 Jul 2024

New package rnaCrosslinkOO with initial version 0.1.4
Package: rnaCrosslinkOO
Title: Analysis of RNA Crosslinking Data
Version: 0.1.4
Maintainer: Jonathan Price <jlp76@cam.ac.uk>
Description: Analysis of RNA crosslinking data for RNA structure prediction. The package is suitable for the analysis of RNA structure cross-linking data and chemical probing data.
License: GPL-3
Encoding: UTF-8
BugReports: https://github.com/JLP-BioInf/rnaCrosslinkOO/issues
Depends: seqinr, GenomicRanges, stats
Imports: ggplot2, reshape2, MASS, mixtools, utils, S4Vectors, patchwork, doParallel, igraph, R4RNA, RColorBrewer, IRanges, foreach,grDevices, heatmap3, TopDom, tidyverse, RRNA, ggrepel, methods, parallel, ClassDiscovery
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-07-10 15:59:22 UTC; jp
Author: Jonathan Price [aut, cre] , Andrew Lim [ctb]
Repository: CRAN
Date/Publication: 2024-07-10 23:40:02 UTC

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Package leidenbase updated to version 0.1.30 with previous version 0.1.27 dated 2023-12-01

Title: R and C/C++ Wrappers to Run the Leiden find_partition() Function
Description: An R to C/C++ interface that runs the Leiden community detection algorithm to find a basic partition (). It runs the equivalent of the 'leidenalg' find_partition() function, which is given in the 'leidenalg' distribution file 'leiden/src/functions.py'. This package includes the required source code files from the official 'leidenalg' distribution and functions from the R 'igraph' package. The 'leidenalg' distribution is available from <https://github.com/vtraag/leidenalg/> and the R 'igraph' package is available from <https://igraph.org/r/>. The Leiden algorithm is described in the article by Traag et al. (2019) <doi:10.1038/s41598-019-41695-z>. Leidenbase includes code from the packages: igraph version 0.9.8 with license GPL (>= 2), leidenalg version 0.8.10 with license GPL 3.
Author: Brent Ewing [aut, cre], Vincent Traag [ctb], Gabor Csardi [ctb], Tamas Nepusz [ctb], Szabolcs Horvat [ctb], Fabio Zanini [ctb]
Maintainer: Brent Ewing <bge@uw.edu>

Diff between leidenbase versions 0.1.27 dated 2023-12-01 and 0.1.30 dated 2024-07-10

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Package JSDNE updated to version 4.3.4 with previous version 4.3.2 dated 2024-04-16

Title: Estimating the Age using Auricular Surface by DNE
Description: The age is estimated by calculating the Dirichlet Normal Energy (DNE) on the whole auricular surface and the apex of the auricular surface. It involves three estimation methods: principal component discriminant analysis (PCQDA), principal component regression analysis (PCR), and principal component logistic regression analysis (PCLR) methods. The package is created with the data from the Louis Lopes Collection in Lisbon, the 21st Century Identified Human Remains Collection in Coimbra, and the CAL Milano Cemetery Skeletal Collection in Milan.
Author: Jisun Jang [aut, cre]
Maintainer: Jisun Jang <jisun.jang.19@ucl.ac.uk>

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Package report updated to version 0.5.9 with previous version 0.5.8 dated 2023-12-07

Title: Automated Reporting of Results and Statistical Models
Description: The aim of the 'report' package is to bridge the gap between R’s output and the formatted results contained in your manuscript. This package converts statistical models and data frames into textual reports suited for publication, ensuring standardization and quality in results reporting.
Author: Dominique Makowski [aut] , Daniel Luedecke [aut] , Indrajeet Patil [aut] , Remi Theriault [aut, cre] , Mattan S. Ben-Shachar [aut] , Brenton M. Wiernik [aut] , Rudolf Siegel [ctb] , Camden Bock [ctb]
Maintainer: Remi Theriault <remi.theriault@mail.mcgill.ca>

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Package ggplate updated to version 0.1.4 with previous version 0.1.2 dated 2024-06-14

Title: Create Layout Plots of Biological Culture Plates and Microplates
Description: Enables users to create simple plots of biological culture plates as well as microplates. Both continuous and discrete values can be plotted onto the plate layout.
Author: Jan-Philipp Quast [aut, cre]
Maintainer: Jan-Philipp Quast <quast@imsb.biol.ethz.ch>

Diff between ggplate versions 0.1.2 dated 2024-06-14 and 0.1.4 dated 2024-07-10

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New package PurpleAir with initial version 1.0.0
Package: PurpleAir
Title: Query the 'PurpleAir' Application Programming Interface
Version: 1.0.0
Description: Send requests to the 'PurpleAir' Application Programming Interface (API; <https://community.purpleair.com/c/data/api/18>). Check a 'PurpleAir' API key and get information about the related organization. Download real-time data from a single 'PurpleAir' sensor or many sensors by sensor identifier, geographical bounding box, or time since modified. Download historical data from a single sensor.
License: MIT + file LICENSE
Encoding: UTF-8
Suggests: sf, testthat (>= 3.0.0)
URL: https://github.com/cole-brokamp/PurpleAir
BugReports: https://github.com/cole-brokamp/PurpleAir/issues
Imports: httr2, purrr, tibble, rlang, cli, dplyr, glue
NeedsCompilation: no
Packaged: 2024-07-09 18:27:07 UTC; cole
Author: Cole Brokamp [aut, cre, cph]
Maintainer: Cole Brokamp <cole@colebrokamp.com>
Repository: CRAN
Date/Publication: 2024-07-10 16:50:05 UTC

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New package exams.forge with initial version 1.0.10
Package: exams.forge
Title: Support for Compiling Examination Tasks using the 'exams' Package
Version: 1.0.10
Date: 2024-07-08
Description: The main aim is to further facilitate the creation of exercises based on the package 'exams' by Grün, B., and Zeileis, A. (2009) <doi:10.18637/jss.v029.i10>. Creating effective student exercises involves challenges such as creating appropriate data sets and ensuring access to intermediate values for accurate explanation of solutions. The functionality includes the generation of univariate and bivariate data including simple time series, functions for theoretical distributions and their approximation, statistical and mathematical calculations for tasks in basic statistics courses as well as general tasks such as string manipulation, LaTeX/HTML formatting and the editing of XML task files for 'Moodle'.
License: GPL-3
LazyData: true
Depends: R (>= 3.5.0), tools, polynom
Imports: base64enc, extraDistr, exams, knitr, MASS, methods, magrittr, psych, rjson, rstudioapi, spelling, stringdist, stringr, stranslate, tinytex, utils, xml2, xtable, yaml
Encoding: UTF-8
VignetteBuilder: knitr
Suggests: rmarkdown
NeedsCompilation: no
Packaged: 2024-07-09 09:29:52 UTC; sigbert
Author: Sigbert Klinke [aut, cre]
Maintainer: Sigbert Klinke <sigbert@hu-berlin.de>
Repository: CRAN
Date/Publication: 2024-07-10 16:40:02 UTC

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Package crew.cluster updated to version 0.3.2 with previous version 0.3.1 dated 2024-04-24

Title: Crew Launcher Plugins for Traditional High-Performance Computing Clusters
Description: In computationally demanding analysis projects, statisticians and data scientists asynchronously deploy long-running tasks to distributed systems, ranging from traditional clusters to cloud services. The 'crew.cluster' package extends the 'mirai'-powered 'crew' package with worker launcher plugins for traditional high-performance computing systems. Inspiration also comes from packages 'mirai' by Gao (2023) <https://github.com/shikokuchuo/mirai>, 'future' by Bengtsson (2021) <doi:10.32614/RJ-2021-048>, 'rrq' by FitzJohn and Ashton (2023) <https://github.com/mrc-ide/rrq>, 'clustermq' by Schubert (2019) <doi:10.1093/bioinformatics/btz284>), and 'batchtools' by Lang, Bischl, and Surmann (2017). <doi:10.21105/joss.00135>.
Author: William Michael Landau [aut, cre] , Michael Gilbert Levin [aut] , Brendan Furneaux [aut] , Eli Lilly and Company [cph]
Maintainer: William Michael Landau <will.landau.oss@gmail.com>

Diff between crew.cluster versions 0.3.1 dated 2024-04-24 and 0.3.2 dated 2024-07-10

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Package crew.aws.batch updated to version 0.0.6 with previous version 0.0.5 dated 2024-02-07

Title: A Crew Launcher Plugin for AWS Batch
Description: In computationally demanding analysis projects, statisticians and data scientists asynchronously deploy long-running tasks to distributed systems, ranging from traditional clusters to cloud services. The 'crew.aws.batch' package extends the 'mirai'-powered 'crew' package with a worker launcher plugin for AWS Batch. Inspiration also comes from packages 'mirai' by Gao (2023) <https://github.com/shikokuchuo/mirai>, 'future' by Bengtsson (2021) <doi:10.32614/RJ-2021-048>, 'rrq' by FitzJohn and Ashton (2023) <https://github.com/mrc-ide/rrq>, 'clustermq' by Schubert (2019) <doi:10.1093/bioinformatics/btz284>), and 'batchtools' by Lang, Bischl, and Surmann (2017). <doi:10.21105/joss.00135>.
Author: William Michael Landau [aut, cre] , Eli Lilly and Company [cph]
Maintainer: William Michael Landau <will.landau.oss@gmail.com>

Diff between crew.aws.batch versions 0.0.5 dated 2024-02-07 and 0.0.6 dated 2024-07-10

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New package checked with initial version 0.1.0
Package: checked
Title: Systematically Run R CMD Checks
Version: 0.1.0
Description: Systematically Run R checks against multiple packages. Checks are run in parallel with strategies to minimize dependency installation. Provides out of the box interface for running reverse dependency check.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: callr, cli, igraph, jsonlite, R6, rcmdcheck, utils (>= 3.6.2), tools
Suggests: testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2024-07-08 23:38:16 UTC; maksymis
Author: Szymon Maksymiuk [cre, aut] , Doug Kelkhoff [aut] , F. Hoffmann-La Roche AG [cph, fnd]
Maintainer: Szymon Maksymiuk <sz.maksymiuk@gmail.com>
Repository: CRAN
Date/Publication: 2024-07-10 16:30:02 UTC

More information about checked at CRAN
Permanent link

New package amscorer with initial version 0.1.0
Package: amscorer
Title: Clinical Scores Calculator for Healthcare
Version: 0.1.0
Description: Provides functions to compute various clinical scores used in healthcare. These include the Charlson Comorbidity Index (CCI), predicting 10-year survival in patients with multiple comorbidities; the EPICES score, an individual indicator of precariousness considering its multidimensional nature; the MELD score for chronic liver disease severity; the Alternative Fistula Risk Score (a-FRS) for postoperative pancreatic fistula risk; and the Distal Pancreatectomy Fistula Risk Score (D-FRS) for risk following distal pancreatectomy. For detailed methodology, refer to Charlson et al. (1987) <doi:10.1016/0021-9681(87)90171-8> , Sass et al. (2006) <doi:10.1007/s10332-006-0131-5>, Kamath et al. (2001) <doi:10.1053/jhep.2001.22172>, Kim et al. (2008) <doi:10.1056/NEJMoa0801209> Kim et al. (2021) <doi:10.1053/j.gastro.2021.08.050>, Mungroop et al. (2019) <doi:10.1097/SLA.0000000000002620>, and de Pastena et al. (2023) <doi:10.1097/SLA.0000000000005497>..
Imports: stats
License: GPL-3
Encoding: UTF-8
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-07-09 15:54:24 UTC; amadousow
Author: Amadou Khalilou Sow [aut, cre]
Maintainer: Amadou Khalilou Sow <kkhalilou.sow@gmail.com>
Repository: CRAN
Date/Publication: 2024-07-10 16:50:02 UTC

More information about amscorer at CRAN
Permanent link

Package rhino updated to version 1.9.0 with previous version 1.8.0 dated 2024-06-06

Title: A Framework for Enterprise Shiny Applications
Description: A framework that supports creating and extending enterprise Shiny applications using best practices.
Author: Kamil Zyla [aut, cre], Jakub Nowicki [aut], Leszek Sieminski [aut], Marek Rogala [aut], Recle Vibal [aut], Tymoteusz Makowski [aut], Rodrigo Basa [aut], Eduardo Almeida [ctb], Appsilon Sp. z o.o. [cph]
Maintainer: Kamil Zyla <opensource+kamil@appsilon.com>

Diff between rhino versions 1.8.0 dated 2024-06-06 and 1.9.0 dated 2024-07-10

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More information about rhino at CRAN
Permanent link

Package ipumsr updated to version 0.8.0 with previous version 0.7.2 dated 2024-03-12

Title: An R Interface for Downloading, Reading, and Handling IPUMS Data
Description: An easy way to work with census, survey, and geographic data provided by IPUMS in R. Generate and download data through the IPUMS API and load IPUMS files into R with their associated metadata to make analysis easier. IPUMS data describing 1.4 billion individuals drawn from over 750 censuses and surveys is available free of charge from the IPUMS website <https://www.ipums.org>.
Author: Greg Freedman Ellis [aut], Derek Burk [aut, cre], Finn Roberts [aut], Joe Grover [ctb], Dan Ehrlich [ctb], Renae Rodgers [ctb], Institute for Social Research and Data Innovation [cph]
Maintainer: Derek Burk <ipums+cran@umn.edu>

Diff between ipumsr versions 0.7.2 dated 2024-03-12 and 0.8.0 dated 2024-07-10

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 94 files changed, 18385 insertions(+), 17050 deletions(-)

More information about ipumsr at CRAN
Permanent link

Package rebmix updated to version 2.16.0 with previous version 2.15.0 dated 2023-07-16

Title: Finite Mixture Modeling, Clustering & Classification
Description: Random univariate and multivariate finite mixture model generation, estimation, clustering, latent class analysis and classification. Variables can be continuous, discrete, independent or dependent and may follow normal, lognormal, Weibull, gamma, Gumbel, binomial, Poisson, Dirac, uniform or circular von Mises parametric families.
Author: Marko Nagode [aut, cre] , Branislav Panic [ctb] , Jernej Klemenc [ctb] , Simon Oman [ctb]
Maintainer: Marko Nagode <marko.nagode@fs.uni-lj.si>

Diff between rebmix versions 2.15.0 dated 2023-07-16 and 2.16.0 dated 2024-07-10

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More information about rebmix at CRAN
Permanent link

Package migrate updated to version 0.5.0 with previous version 0.4.0 dated 2021-10-15

Title: Create Credit State Migration (Transition) Matrices
Description: Tools to help convert credit risk data at two timepoints into traditional credit state migration (aka, "transition") matrices. At a higher level, 'migrate' is intended to help an analyst understand how risk moved in their credit portfolio over a time interval. References to this methodology include: 1. Schuermann, T. (2008) <doi:10.1002/9780470061596.risk0409>. 2. Perederiy, V. (2017) <doi:10.48550/arXiv.1708.00062>.
Author: Michael Thomas [aut, cre], Brad Lindblad [ctb], Ivan Millanes [ctb]
Maintainer: Michael Thomas <mthomas@ketchbrookanalytics.com>

Diff between migrate versions 0.4.0 dated 2021-10-15 and 0.5.0 dated 2024-07-10

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More information about migrate at CRAN
Permanent link

Package ClusterVAR updated to version 0.0.7 with previous version 0.0.6 dated 2024-06-06

Title: Fitting Latent Class Vector-Autoregressive (VAR) Models
Description: Estimates latent class vector-autoregressive models via EM algorithm on time-series data for model-based clustering and classification. Includes model selection criteria for selecting the number of lags and clusters.
Author: Anja Ernst [aut, cre], Jonas Haslbeck [aut]
Maintainer: Anja Ernst <a.f.ernst@rug.nl>

Diff between ClusterVAR versions 0.0.6 dated 2024-06-06 and 0.0.7 dated 2024-07-10

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More information about ClusterVAR at CRAN
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Package ebvcube updated to version 0.2.3 with previous version 0.2.1 dated 2024-06-11

Title: Working with netCDF for Essential Biodiversity Variables
Description: The concept of Essential Biodiversity Variables (EBV, <https://geobon.org/ebvs/what-are-ebvs/>) comes with a data structure based on the Network Common Data Form (netCDF). The 'ebvcube' 'R' package provides functionality to easily create, access and visualise this data. The EBV netCDFs can be downloaded from the EBV Data Portal: Christian Langer/ iDiv (2020) <https://portal.geobon.org/>.
Author: Luise Quoss [aut, cre] , Nestor Fernandez [aut] , Christian Langer [aut] , Jose Valdez [aut] , Henrique Miguel Pereira [aut]
Maintainer: Luise Quoss <luise.quoss@idiv.de>

Diff between ebvcube versions 0.2.1 dated 2024-06-11 and 0.2.3 dated 2024-07-10

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More information about ebvcube at CRAN
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Package RRNA updated to version 1.2 with previous version 1.1 dated 2024-05-15

Title: Secondary Structure Plotting for RNA
Description: Functions for creating and manipulating RNA secondary structure plots.
Author: JP Bida [aut], Jonathan Price [cre, ctb]
Maintainer: Jonathan Price <jlp76@cam.ac.uk>

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Package Epi updated to version 2.52 with previous version 2.51 dated 2024-06-12

Title: Statistical Analysis in Epidemiology
Description: Functions for demographic and epidemiological analysis in the Lexis diagram, i.e. register and cohort follow-up data. In particular representation, manipulation, rate estimation and simulation for multistate data - the Lexis suite of functions, which includes interfaces to 'mstate', 'etm' and 'cmprsk' packages. Contains functions for Age-Period-Cohort and Lee-Carter modeling and a function for interval censored data and some useful functions for tabulation and plotting, as well as a number of epidemiological data sets.
Author: Bendix Carstensen [aut, cre], Martyn Plummer [aut], Esa Laara [ctb], Michael Hills [ctb]
Maintainer: Bendix Carstensen <b@bxc.dk>

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Package bimets updated to version 4.0.1 with previous version 3.0.2 dated 2023-12-13

Title: Time Series and Econometric Modeling
Description: Time series analysis, (dis)aggregation and manipulation, e.g. time series extension, merge, projection, lag, lead, delta, moving and cumulative average and product, selection by index, date and year-period, conversion to daily, monthly, quarterly, (semi)annually. Simultaneous equation models definition, estimation, simulation and forecasting with coefficient restrictions, error autocorrelation, exogenization, add-factors, impact and interim multipliers analysis, conditional equation evaluation, rational expectations, endogenous targeting and model renormalization, structural stability, stochastic simulation and forecast, optimal control.
Author: Andrea Luciani [aut, cre] , Roberto Stok [aut], Bank of Italy [cph]
Maintainer: Andrea Luciani <andrea.luciani@bancaditalia.it>

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Package sotkanet updated to version 0.10.1 with previous version 0.9.79 dated 2022-02-01

Title: Sotkanet Open Data Access and Analysis
Description: Access statistical information on welfare and health in Finland from the Sotkanet open data portal <https://sotkanet.fi/sotkanet/fi/index>.
Author: Leo Lahti [aut, cre] , Einari Happonen [aut], Joona Lehtomaki [ctb], Juuso Parkkinen [ctb], Vesa Saaristo [ctb], Pyry Kantanen [aut] , Aleksi Lahtinen [aut]
Maintainer: Leo Lahti <leo.lahti@iki.fi>

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Package gm updated to version 2.0.0 with previous version 1.0.2 dated 2021-04-17

Title: Create Music with Ease
Description: Provides a simple and intuitive high-level language for music representation. Generates and embeds music scores and audio files in 'RStudio', 'R Markdown' documents, and R 'Jupyter Notebooks'. Internally, uses 'MusicXML' <https://github.com/w3c/musicxml> to represent music, and 'MuseScore' <https://musescore.org/> to convert 'MusicXML'.
Author: Renfei Mao
Maintainer: Renfei Mao <renfeimao@gmail.com>

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Package rsgeo updated to version 0.1.7 with previous version 0.1.6 dated 2023-09-08

Title: An Interface to Rust's 'geo' Library
Description: An R interface to the GeoRust crates 'geo' and 'geo-types' providing access to geometry primitives and algorithms.
Author: Josiah Parry [aut, cre]
Maintainer: Josiah Parry <josiah.parry@gmail.com>

Diff between rsgeo versions 0.1.6 dated 2023-09-08 and 0.1.7 dated 2024-07-10

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Package joyn updated to version 0.2.2 with previous version 0.2.0 dated 2024-03-29

Title: Tool for Diagnosis of Tables Joins and Complementary Join Features
Description: Tool for diagnosing table joins. It combines the speed of `collapse` and `data.table`, the flexibility of `dplyr`, and the diagnosis and features of the `merge` command in `Stata`.
Author: R.Andres Castaneda [aut, cre], Zander Prinsloo [aut], Rossana Tatulli [aut]
Maintainer: R.Andres Castaneda <acastanedaa@worldbank.org>

Diff between joyn versions 0.2.0 dated 2024-03-29 and 0.2.2 dated 2024-07-10

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Package exams updated to version 2.4-1 with previous version 2.4-0 dated 2022-10-17

Title: Automatic Generation of Exams in R
Description: Automatic generation of exams based on exercises in Markdown or LaTeX format, possibly including R code for dynamic generation of exercise elements. Exercise types include single-choice and multiple-choice questions, arithmetic problems, string questions, and combinations thereof (cloze). Output formats include standalone files (PDF, HTML, Docx, ODT, ...), Moodle XML, QTI 1.2, QTI 2.1, Blackboard, Canvas, OpenOlat, ILIAS, TestVision, Particify, ARSnova, Kahoot!, Grasple, and TCExam. In addition to fully customizable PDF exams, a standardized PDF format (NOPS) is provided that can be printed, scanned, and automatically evaluated.
Author: Achim Zeileis [aut, cre] , Bettina Gruen [aut] , Friedrich Leisch [aut] , Nikolaus Umlauf [aut], Mirko Birbaumer [ctb], Dominik Ernst [ctb], Patrik Keller [ctb], Niels Smits [ctb] , Reto Stauffer [ctb], Kenji Sato [ctb], Florian Wickelmaier [ctb]
Maintainer: Achim Zeileis <Achim.Zeileis@R-project.org>

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Package arcpbf updated to version 0.1.3 with previous version 0.1.2 dated 2024-07-05

Title: Process ArcGIS Protocol Buffer FeatureCollections
Description: Fast processing of ArcGIS FeatureCollection protocol buffers in R. It is designed to work seamlessly with 'httr2' and integrates with 'sf'.
Author: Josiah Parry [aut, cre]
Maintainer: Josiah Parry <josiah.parry@gmail.com>

Diff between arcpbf versions 0.1.2 dated 2024-07-05 and 0.1.3 dated 2024-07-10

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Package rpdo (with last version 0.3.2) was removed from CRAN

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

2023-08-22 0.3.2
2020-07-09 0.3.1
2020-03-04 0.3.0
2018-11-17 0.2.5
2018-08-15 0.2.4
2018-01-31 0.2.3
2017-04-12 0.2.2
2017-01-01 0.2.1
2016-05-06 0.2.0
2016-04-02 0.1.2
2016-01-11 0.1.1
2015-10-19 0.1.0
2015-08-21 0.0.1

Permanent link
Package Apoderoides updated to version 3.0.0 with previous version 2.0.1 dated 2024-06-19

Title: Prioritize and Delete Erroneous Taxa in a Large Phylogenetic Tree
Description: Finds, prioritizes and deletes erroneous taxa in a phylogenetic tree. This package calculates scores for taxa in a tree. Higher score means the taxon is more erroneous. If the score is zero for a taxon, the taxon is not erroneous. This package also can remove all erroneous taxa automatically by iterating score calculation and pruning taxa with the highest score.
Author: Satoshi Aoki [aut, cph, cre], Keita Fukasawa [ctb]
Maintainer: Satoshi Aoki <aokis1ll1@gmail.com>

Diff between Apoderoides versions 2.0.1 dated 2024-06-19 and 3.0.0 dated 2024-07-10

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Tue, 09 Jul 2024

Package duckdb updated to version 1.0.0-1 with previous version 1.0.0 dated 2024-06-13

Title: DBI Package for the DuckDB Database Management System
Description: The DuckDB project is an embedded analytical data management system with support for the Structured Query Language (SQL). This package includes all of DuckDB and a R Database Interface (DBI) connector.
Author: Hannes Muehleisen [aut] , Mark Raasveldt [aut] , Kirill Mueller [cre] , Stichting DuckDB Foundation [cph], Apache Software Foundation [cph], PostgreSQL Global Development Group [cph], The Regents of the University of California [cph], Cameron Desrocher [...truncated...]
Maintainer: Kirill Mueller <kirill@cynkra.com>

Diff between duckdb versions 1.0.0 dated 2024-06-13 and 1.0.0-1 dated 2024-07-09

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 duckdb-1.0.0-1/duckdb/R/Driver.R                                               |    2 
 duckdb-1.0.0-1/duckdb/R/Result.R                                               |    2 
 duckdb-1.0.0-1/duckdb/R/dbConnect__duckdb_driver.R                             |    3 
 duckdb-1.0.0-1/duckdb/R/dbExistsTable__duckdb_connection_ANY.R                 |only
 duckdb-1.0.0-1/duckdb/R/dbGetInfo__duckdb_connection.R                         |    1 
 duckdb-1.0.0-1/duckdb/R/dbGetInfo__duckdb_driver.R                             |    1 
 duckdb-1.0.0-1/duckdb/R/dbGetInfo__duckdb_result.R                             |    1 
 duckdb-1.0.0-1/duckdb/R/dbWriteTable__duckdb_connection_character_data.frame.R |    1 
 duckdb-1.0.0-1/duckdb/inst/include/cpp11.hpp                                   |    4 
 duckdb-1.0.0-1/duckdb/inst/include/cpp11/R.hpp                                 |   23 
 duckdb-1.0.0-1/duckdb/inst/include/cpp11/altrep.hpp                            |    4 
 duckdb-1.0.0-1/duckdb/inst/include/cpp11/as.hpp                                |  331 +++++-----
 duckdb-1.0.0-1/duckdb/inst/include/cpp11/attribute_proxy.hpp                   |    4 
 duckdb-1.0.0-1/duckdb/inst/include/cpp11/data_frame.hpp                        |    4 
 duckdb-1.0.0-1/duckdb/inst/include/cpp11/declarations.hpp                      |   15 
 duckdb-1.0.0-1/duckdb/inst/include/cpp11/doubles.hpp                           |   27 
 duckdb-1.0.0-1/duckdb/inst/include/cpp11/environment.hpp                       |    4 
 duckdb-1.0.0-1/duckdb/inst/include/cpp11/external_pointer.hpp                  |    4 
 duckdb-1.0.0-1/duckdb/inst/include/cpp11/function.hpp                          |    4 
 duckdb-1.0.0-1/duckdb/inst/include/cpp11/integers.hpp                          |   29 
 duckdb-1.0.0-1/duckdb/inst/include/cpp11/list.hpp                              |    6 
 duckdb-1.0.0-1/duckdb/inst/include/cpp11/list_of.hpp                           |   12 
 duckdb-1.0.0-1/duckdb/inst/include/cpp11/logicals.hpp                          |   19 
 duckdb-1.0.0-1/duckdb/inst/include/cpp11/matrix.hpp                            |    4 
 duckdb-1.0.0-1/duckdb/inst/include/cpp11/named_arg.hpp                         |    4 
 duckdb-1.0.0-1/duckdb/inst/include/cpp11/protect.hpp                           |  193 +----
 duckdb-1.0.0-1/duckdb/inst/include/cpp11/r_bool.hpp                            |   11 
 duckdb-1.0.0-1/duckdb/inst/include/cpp11/r_string.hpp                          |   11 
 duckdb-1.0.0-1/duckdb/inst/include/cpp11/r_vector.hpp                          |   30 
 duckdb-1.0.0-1/duckdb/inst/include/cpp11/raws.hpp                              |   21 
 duckdb-1.0.0-1/duckdb/inst/include/cpp11/sexp.hpp                              |   15 
 duckdb-1.0.0-1/duckdb/inst/include/cpp11/strings.hpp                           |    7 
 duckdb-1.0.0-1/duckdb/man/duckdb.Rd                                            |    5 
 duckdb-1.0.0-1/duckdb/man/duckdb_connection-class.Rd                           |   16 
 duckdb-1.0.0-1/duckdb/man/duckdb_driver-class.Rd                               |    6 
 duckdb-1.0.0-1/duckdb/man/duckdb_read_csv.Rd                                   |    2 
 duckdb-1.0.0-1/duckdb/man/duckdb_result-class.Rd                               |    6 
 duckdb-1.0.0-1/duckdb/src/rfuns.cpp                                            |    6 
 duckdb-1.0.0/duckdb/R/dbExistsTable__duckdb_connection_character.R             |only
 43 files changed, 454 insertions(+), 487 deletions(-)

More information about duckdb at CRAN
Permanent link

Package gt updated to version 0.11.0 with previous version 0.10.1 dated 2024-01-17

Title: Easily Create Presentation-Ready Display Tables
Description: Build display tables from tabular data with an easy-to-use set of functions. With its progressive approach, we can construct display tables with a cohesive set of table parts. Table values can be formatted using any of the included formatting functions. Footnotes and cell styles can be precisely added through a location targeting system. The way in which 'gt' handles things for you means that you don't often have to worry about the fine details.
Author: Richard Iannone [aut, cre] , Joe Cheng [aut], Barret Schloerke [aut] , Ellis Hughes [aut] , Alexandra Lauer [aut] , JooYoung Seo [aut] , Ken Brevoort [aut] , Olivier Roy [aut], Posit Software, PBC [cph, fnd]
Maintainer: Richard Iannone <rich@posit.co>

Diff between gt versions 0.10.1 dated 2024-01-17 and 0.11.0 dated 2024-07-09

 gt-0.10.1/gt/man/define_units.Rd                          |only
 gt-0.10.1/gt/man/print.gt_group.Rd                        |only
 gt-0.10.1/gt/man/print.rtf_text.Rd                        |only
 gt-0.11.0/gt/DESCRIPTION                                  |   87 
 gt-0.11.0/gt/LICENSE                                      |    2 
 gt-0.11.0/gt/MD5                                          |  609 -
 gt-0.11.0/gt/NAMESPACE                                    |   62 
 gt-0.11.0/gt/NEWS.md                                      |  128 
 gt-0.11.0/gt/R/build_data.R                               |    2 
 gt-0.11.0/gt/R/compile_scss.R                             |    4 
 gt-0.11.0/gt/R/data_color.R                               |  176 
 gt-0.11.0/gt/R/datasets.R                                 |  410 +
 gt-0.11.0/gt/R/dt_boxhead.R                               |    7 
 gt-0.11.0/gt/R/dt_data.R                                  |   25 
 gt-0.11.0/gt/R/dt_footnotes.R                             |   18 
 gt-0.11.0/gt/R/dt_groups_rows.R                           |   17 
 gt-0.11.0/gt/R/dt_heading.R                               |    2 
 gt-0.11.0/gt/R/dt_options.R                               |    3 
 gt-0.11.0/gt/R/dt_row_groups.R                            |    6 
 gt-0.11.0/gt/R/dt_spanners.R                              |   63 
 gt-0.11.0/gt/R/dt_stub_df.R                               |   29 
 gt-0.11.0/gt/R/dt_stubhead.R                              |    2 
 gt-0.11.0/gt/R/dt_styles.R                                |   14 
 gt-0.11.0/gt/R/dt_summary.R                               |  123 
 gt-0.11.0/gt/R/export.R                                   |  559 +
 gt-0.11.0/gt/R/format_data.R                              | 4660 ++++++++++----
 gt-0.11.0/gt/R/format_vec.R                               |  967 --
 gt-0.11.0/gt/R/gt-package.R                               |    9 
 gt-0.11.0/gt/R/gt.R                                       |   38 
 gt-0.11.0/gt/R/gt_group.R                                 |  135 
 gt-0.11.0/gt/R/gt_preview.R                               |    8 
 gt-0.11.0/gt/R/gt_split.R                                 |   26 
 gt-0.11.0/gt/R/helpers.R                                  | 1557 +---
 gt-0.11.0/gt/R/image.R                                    |   74 
 gt-0.11.0/gt/R/import-standalone-obj-type.R               |only
 gt-0.11.0/gt/R/import-standalone-types-check.R            |only
 gt-0.11.0/gt/R/info_tables.R                              |  863 +-
 gt-0.11.0/gt/R/knitr-utils.R                              |    8 
 gt-0.11.0/gt/R/location_methods.R                         |   52 
 gt-0.11.0/gt/R/modify_columns.R                           |  626 +
 gt-0.11.0/gt/R/modify_rows.R                              |   15 
 gt-0.11.0/gt/R/opts.R                                     |  115 
 gt-0.11.0/gt/R/print.R                                    |   26 
 gt-0.11.0/gt/R/render_as_html.R                           |    2 
 gt-0.11.0/gt/R/render_as_i_html.R                         |  545 +
 gt-0.11.0/gt/R/resolver.R                                 |  212 
 gt-0.11.0/gt/R/rows_add.R                                 |   55 
 gt-0.11.0/gt/R/shiny.R                                    |   32 
 gt-0.11.0/gt/R/substitution.R                             |  225 
 gt-0.11.0/gt/R/summary_rows.R                             |   71 
 gt-0.11.0/gt/R/sysdata.rda                                |binary
 gt-0.11.0/gt/R/tab_create_modify.R                        |  824 +-
 gt-0.11.0/gt/R/tab_info.R                                 |   98 
 gt-0.11.0/gt/R/tab_remove.R                               |  112 
 gt-0.11.0/gt/R/tab_style_body.R                           |   42 
 gt-0.11.0/gt/R/text_transform.R                           |  171 
 gt-0.11.0/gt/R/topics.R                                   |only
 gt-0.11.0/gt/R/utils.R                                    |  894 +-
 gt-0.11.0/gt/R/utils_examples.R                           |  111 
 gt-0.11.0/gt/R/utils_formatters.R                         |   96 
 gt-0.11.0/gt/R/utils_general_str_formatting.R             |   85 
 gt-0.11.0/gt/R/utils_plots.R                              |  107 
 gt-0.11.0/gt/R/utils_render_common.R                      |   57 
 gt-0.11.0/gt/R/utils_render_grid.R                        |only
 gt-0.11.0/gt/R/utils_render_html.R                        |   99 
 gt-0.11.0/gt/R/utils_render_latex.R                       |  865 ++
 gt-0.11.0/gt/R/utils_render_rtf.R                         |   84 
 gt-0.11.0/gt/R/utils_render_xml.R                         |  434 -
 gt-0.11.0/gt/R/utils_units.R                              |  408 +
 gt-0.11.0/gt/R/z_utils_render_footnotes.R                 |  176 
 gt-0.11.0/gt/R/zzz.R                                      |   57 
 gt-0.11.0/gt/data/constants.rda                           |binary
 gt-0.11.0/gt/data/countrypops.rda                         |binary
 gt-0.11.0/gt/data/exibble.rda                             |binary
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 gt-0.11.0/gt/data/towny.rda                               |binary
 gt-0.11.0/gt/inst/css/gt_styles_default.scss              |   10 
 gt-0.11.0/gt/inst/gt_tables/fa_icons_vec.rds              |only
 gt-0.11.0/gt/inst/gt_tables/info_conversions.rds          |only
 gt-0.11.0/gt/inst/gt_tables/info_flags.rds                |binary
 gt-0.11.0/gt/inst/gt_tables/info_icons.rds                |binary
 gt-0.11.0/gt/inst/gt_tables/info_paletteer.rds            |binary
 gt-0.11.0/gt/man/adjust_luminance.Rd                      |   20 
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 gt-0.11.0/gt/man/as_latex.Rd                              |    3 
 gt-0.11.0/gt/man/as_raw_html.Rd                           |    5 
 gt-0.11.0/gt/man/as_rtf.Rd                                |    1 
 gt-0.11.0/gt/man/as_word.Rd                               |    5 
 gt-0.11.0/gt/man/cell_borders.Rd                          |   33 
 gt-0.11.0/gt/man/cell_fill.Rd                             |   27 
 gt-0.11.0/gt/man/cell_text.Rd                             |   36 
 gt-0.11.0/gt/man/cells_body.Rd                            |   92 
 gt-0.11.0/gt/man/cells_column_labels.Rd                   |   80 
 gt-0.11.0/gt/man/cells_column_spanners.Rd                 |   89 
 gt-0.11.0/gt/man/cells_footnotes.Rd                       |   87 
 gt-0.11.0/gt/man/cells_grand_summary.Rd                   |   93 
 gt-0.11.0/gt/man/cells_group.Rd                           |    7 
 gt-0.11.0/gt/man/cells_row_groups.Rd                      |   90 
 gt-0.11.0/gt/man/cells_source_notes.Rd                    |   81 
 gt-0.11.0/gt/man/cells_stub.Rd                            |   81 
 gt-0.11.0/gt/man/cells_stub_grand_summary.Rd              |   90 
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 gt-0.11.0/gt/man/cells_stubhead.Rd                        |   73 
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 gt-0.11.0/gt/man/cells_title.Rd                           |   75 
 gt-0.11.0/gt/man/cols_add.Rd                              |   34 
 gt-0.11.0/gt/man/cols_align.Rd                            |   15 
 gt-0.11.0/gt/man/cols_align_decimal.Rd                    |   23 
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 gt-0.11.0/gt/man/cols_move.Rd                             |   18 
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 gt-0.11.0/gt/man/cols_move_to_start.Rd                    |   31 
 gt-0.11.0/gt/man/cols_nanoplot.Rd                         |  170 
 gt-0.11.0/gt/man/cols_unhide.Rd                           |   30 
 gt-0.11.0/gt/man/cols_units.Rd                            |   25 
 gt-0.11.0/gt/man/cols_width.Rd                            |   22 
 gt-0.11.0/gt/man/constants.Rd                             |    8 
 gt-0.11.0/gt/man/countrypops.Rd                           |    6 
 gt-0.11.0/gt/man/currency.Rd                              |   18 
 gt-0.11.0/gt/man/data_color.Rd                            |   85 
 gt-0.11.0/gt/man/default_fonts.Rd                         |   37 
 gt-0.11.0/gt/man/escape_latex.Rd                          |   26 
 gt-0.11.0/gt/man/exibble.Rd                               |    6 
 gt-0.11.0/gt/man/extract_body.Rd                          |   13 
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 gt-0.11.0/gt/man/fmt.Rd                                   |   29 
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 gt-0.11.0/gt/man/fmt_image.Rd                             |   66 
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Package cthist updated to version 2.1.10 with previous version 2.1.9 dated 2024-06-01

Title: Clinical Trial Registry History
Description: Retrieves historical versions of clinical trial registry entries from <https://ClinicalTrials.gov>. Package functionality and implementation for v 1.0.0 is documented in Carlisle (2022) <DOI:10.1371/journal.pone.0270909>.
Author: Benjamin Gregory Carlisle [aut, cre]
Maintainer: Benjamin Gregory Carlisle <murph@bgcarlisle.com>

Diff between cthist versions 2.1.9 dated 2024-06-01 and 2.1.10 dated 2024-07-09

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Package zonohedra updated to version 0.3-0 with previous version 0.2-2 dated 2023-05-31

Title: Compute and Plot Zonohedra from Vector Generators
Description: Computes a zonohedron from real vector generators. The package also computes zonogons (2D zonotopes) and zonosegs (1D zonotopes). An elementary S3 class for matroids is included, which supports matroids with rank 3, 2, and 1. Optimization methods are taken from Heckbert (1985) <https://www.cs.cmu.edu/~ph/zono.ps.gz>.
Author: Glenn Davis [aut, cre]
Maintainer: Glenn Davis <gdavis@gluonics.com>

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Package PAMscapes updated to version 0.6.0 with previous version 0.5.8 dated 2024-06-11

Title: Tools for Summarising and Analysing Soundscape Data
Description: A variety of tools relevant to the analysis of marine soundscape data. There are tools for downloading AIS (automatic identification system) data from Marine Cadastre <https://marinecadastre.gov/ais/>, connecting AIS data to GPS coordinates, plotting summaries of various soundscape measurements, and downloading relevant environmental variables (wind, swell height) from the National Center for Atmospheric Research data server <https://rda.ucar.edu/datasets/ds084.1/>. Most tools were developed to work well with output from 'Triton' software, but can be adapted to work with any similar measurements.
Author: Taiki Sakai [aut, cre], Anne Simonis [ctb], Shannon Rankin [ctb], Megan McKenna [ctb], Kaitlin Palmer [ctb]
Maintainer: Taiki Sakai <taiki.sakai@noaa.gov>

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Package sbw updated to version 1.1.8 with previous version 1.1.5 dated 2021-09-22

Title: Stable Balancing Weights for Causal Inference and Missing Data
Description: Implements the Stable Balancing Weights by Zubizarreta (2015) <DOI:10.1080/01621459.2015.1023805>. These are the weights of minimum variance that approximately balance the empirical distribution of the observed covariates. For an overview, see Chattopadhyay, Hase and Zubizarreta (2020) <DOI:10.1002/sim.8659>. To solve the optimization problem in 'sbw', the default solver is 'quadprog', which is readily available through CRAN. The solver 'osqp' is also posted on CRAN. To enhance the performance of 'sbw', users are encouraged to install other solvers such as 'gurobi' and 'Rmosek', which require special installation. For the installation of gurobi and pogs, please follow the instructions at <https://www.gurobi.com/documentation/current/refman/r_ins_the_r_package.html> and <http://foges.github.io/pogs/stp/r>.
Author: Jose R. Zubizarreta [aut, cre], Yige Li [aut], Kwangho Kim [aut], Amine Allouah [ctb], Noah Greifer [ctb]
Maintainer: Jose R. Zubizarreta <zubizarreta@hcp.med.harvard.edu>

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Package fossilbrush updated to version 1.0.5 with previous version 1.0.3 dated 2022-07-21

Title: Automated Cleaning of Fossil Occurrence Data
Description: Functions to automate the detection and resolution of taxonomic and stratigraphic errors in fossil occurrence datasets. Functions were developed using data from the Paleobiology Database.
Author: Joe Flannery-Sutherland [aut, cre] , Nussaibah Raja-Schoob [aut, ctb], Adam Kocsis [aut, ctb], Wolfgang Kiessling [aut]
Maintainer: Joe Flannery-Sutherland <jf15558@bristol.ac.uk>

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Package dosearch updated to version 1.0.10 with previous version 1.0.8 dated 2021-08-19

Title: Causal Effect Identification from Multiple Incomplete Data Sources
Description: Identification of causal effects from arbitrary observational and experimental probability distributions via do-calculus and standard probability manipulations using a search-based algorithm by Tikka, Hyttinen and Karvanen (2021) <doi:10.18637/jss.v099.i05>. Allows for the presence of mechanisms related to selection bias (Bareinboim and Tian, 2015) <doi:10.1609/aaai.v29i1.9679>, transportability (Bareinboim and Pearl, 2014) <http://ftp.cs.ucla.edu/pub/stat_ser/r443.pdf>, missing data (Mohan, Pearl, and Tian, 2013) <http://ftp.cs.ucla.edu/pub/stat_ser/r410.pdf>) and arbitrary combinations of these. Also supports identification in the presence of context-specific independence (CSI) relations through labeled directed acyclic graphs (LDAG). For details on CSIs see (Corander et al., 2019) <doi:10.1016/j.apal.2019.04.004>.
Author: Santtu Tikka [aut, cre] , Antti Hyttinen [ctb] , Juha Karvanen [ctb]
Maintainer: Santtu Tikka <santtuth@gmail.com>

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Package dejaVu updated to version 0.3.1 with previous version 0.3.0 dated 2021-04-27

Title: Multiple Imputation for Recurrent Events
Description: Performs reference based multiple imputation of recurrent event data based on a negative binomial regression model, as described by Keene et al (2014) <doi:10.1002/pst.1624>.
Author: Nikolas Burkoff [aut], Paul Metcalfe [aut], Jonathan Bartlett [aut, cre], David Ruau [aut]
Maintainer: Jonathan Bartlett <jonathan.bartlett1@lshtm.ac.uk>

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Package chk updated to version 0.9.2 with previous version 0.9.1 dated 2023-10-05

Title: Check User-Supplied Function Arguments
Description: For developers to check user-supplied function arguments. It is designed to be simple, fast and customizable. Error messages follow the tidyverse style guide.
Author: Joe Thorley [aut, cre] , Kirill Mueller [aut] , Ayla Pearson [aut] , Nadine Hussein [ctb] , Evan Amies-Galonski [ctb] , Poisson Consulting [cph, fnd]
Maintainer: Joe Thorley <joe@poissonconsulting.ca>

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Package rolog updated to version 0.9.18 with previous version 0.9.17 dated 2024-05-01

Title: Query 'SWI'-'Prolog' from R
Description: This R package connects to SWI-Prolog, <https://www.swi-prolog.org/>, so that R can send deterministic and non-deterministic queries to prolog (consult, query/submit, once, findall).
Author: Matthias Gondan [aut, com, cre] , European Commission [fnd]
Maintainer: Matthias Gondan <Matthias.Gondan-Rochon@uibk.ac.at>

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Package InteractionPoweR updated to version 0.2.2 with previous version 0.2.1 dated 2023-04-18

Title: Power Analyses for Interaction Effects in Cross-Sectional Regressions
Description: Power analysis for regression models which test the interaction of two or three independent variables on a single dependent variable. Includes options for correlated interacting variables and specifying variable reliability. Two-way interactions can include continuous, binary, or ordinal variables. Power analyses can be done either analytically or via simulation. Includes tools for simulating single data sets and visualizing power analysis results. The primary functions are power_interaction_r2() and power_interaction() for two-way interactions, and power_interaction_3way_r2() for three-way interactions. Please cite as: Baranger DAA, Finsaas MC, Goldstein BL, Vize CE, Lynam DR, Olino TM (2023). "Tutorial: Power analyses for interaction effects in cross-sectional regressions." <doi:10.1177/25152459231187531>.
Author: David Baranger [aut, cre] , Brandon Goldstein [ctb], Megan Finsaas [ctb], Thomas Olino [ctb], Colin Vize [ctb], Don Lynam [ctb]
Maintainer: David Baranger <dbaranger@gmail.com>

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Package gcplyr updated to version 1.10.0 with previous version 1.9.0 dated 2024-03-11

Title: Wrangle and Analyze Growth Curve Data
Description: Easy wrangling and model-free analysis of microbial growth curve data, as commonly output by plate readers. Tools for reshaping common plate reader outputs into 'tidy' formats and merging them with design information, making data easy to work with using 'gcplyr' and other packages. Also streamlines common growth curve processing steps, like smoothing and calculating derivatives, and facilitates model-free characterization and analysis of growth data. See methods at <https://mikeblazanin.github.io/gcplyr/>.
Author: Mike Blazanin [aut, cre]
Maintainer: Mike Blazanin <mikeblazanin@gmail.com>

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 R/utility_functions.R                                                                     |    5 
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 man/block_tidydesign.Rd                                                                   |    2 
 man/calc_deriv.Rd                                                                         |    4 
 man/first_peak.Rd                                                                         |    4 
 man/gc_smooth.spline.Rd                                                                   |    8 
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 man/import_blockmeasures.Rd                                                               |   20 
 man/make_design.Rd                                                                        |    4 
 man/make_designpattern.Rd                                                                 |    2 
 man/makemethod_train_smooth_data.Rd                                                       |   14 
 man/merge_dfs.Rd                                                                          |   11 
 man/paste_blocks.Rd                                                                       |    4 
 man/read_blocks.Rd                                                                        |   40 
 man/read_tidys.Rd                                                                         |   36 
 man/read_wides.Rd                                                                         |   32 
 man/separate_tidy.Rd                                                                      |   14 
 man/smooth_data.Rd                                                                        |   27 
 man/train_smooth_data.Rd                                                                  |   27 
 man/trans_block_to_wide.Rd                                                                |    4 
 man/trans_wide_to_tidy.Rd                                                                 |    4 
 man/write_blocks.Rd                                                                       |    4 
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 vignettes/gc06_analyze.Rmd                                                                |   30 
 vignettes/gc06_analyze.html                                                               |  312 +++--
 vignettes/gc07_noise.html                                                                 |   16 
 vignettes/gc08_conclusion.Rmd                                                             |   12 
 vignettes/gc08_conclusion.html                                                            |   38 
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Package RNAmf updated to version 1.0.0 with previous version 0.1.2 dated 2024-03-22

Title: Recursive Non-Additive Emulator for Multi-Fidelity Data
Description: Performs RNA emulation and active learning proposed by Heo and Sung (2024) <doi:10.1080/00401706.2024.2376173> for multi-fidelity computer experiments. The RNA emulator is particularly useful when the simulations with different fidelity level are nonlinearly correlated. The hyperparameters in the model are estimated by maximum likelihood estimation.
Author: Junoh Heo [aut, cre], Chih-Li Sung [aut]
Maintainer: Junoh Heo <heojunoh@msu.edu>

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Package FielDHub updated to version 1.4.0 with previous version 1.3.7 dated 2024-03-28

Title: A Shiny App for Design of Experiments in Life Sciences
Description: A shiny design of experiments (DOE) app that aids in the creation of traditional, un-replicated, augmented and partially-replicated designs applied to agriculture, plant breeding, forestry, animal and biological sciences.
Author: Didier Murillo [cre, aut], Salvador Gezan [aut], Ana Heilman [ctb], Thomas Walk [ctb], Johan Aparicio [ctb], Matthew Seefeldt [ctb], Jean-Marc Montpetit [ctb], Richard Horsley [ctb], North Dakota State University [cph]
Maintainer: Didier Murillo <didier.murilloflorez@ndsu.edu>

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Package mstudentd updated to version 1.1.1 with previous version 1.0.0 dated 2024-03-22

Title: Multivariate t Distribution
Description: Distance between multivariate t distributions, as presented by N. Bouhlel and D. Rousseau (2023) <doi:10.1109/LSP.2023.3324594>.
Author: Pierre Santagostini [aut, cre], Nizar Bouhlel [aut]
Maintainer: Pierre Santagostini <pierre.santagostini@agrocampus-ouest.fr>

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Package GEOmap updated to version 2.5-11 with previous version 2.5-5 dated 2023-09-01

Title: Topographic and Geologic Mapping
Description: Set of routines for making map projections (forward and inverse), topographic maps, perspective plots, geological maps, geological map symbols, geological databases, interactive plotting and selection of focus regions.
Author: Jonathan M. Lees [aut, cre]
Maintainer: Jonathan M. Lees <jonathan.lees@unc.edu>

Diff between GEOmap versions 2.5-5 dated 2023-09-01 and 2.5-11 dated 2024-07-09

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New package FVDDPpkg with initial version 0.1.2
Package: FVDDPpkg
Title: Implement Fleming-Viot-Dependent Dirichlet Processes
Version: 0.1.2
Description: A Bayesian Nonparametric model for the study of time-evolving frequencies, which has become renowned in the study of population genetics. The model consists of a Hidden Markov Model (HMM) in which the latent signal is a distribution-valued stochastic process that takes the form of a finite mixture of Dirichlet Processes, indexed by vectors that count how many times each value is observed in the population. The package implements methodologies presented in Ascolani, Lijoi and Ruggiero (2021) <doi:10.1214/20-BA1206> and Ascolani, Lijoi and Ruggiero (2023) <doi:10.3150/22-BEJ1504> that make it possible to study the process at the time of data collection or to predict its evolution in future or in the past.
License: LGPL (>= 3)
Encoding: UTF-8
Imports: Rcpp, Rdpack
LinkingTo: Rcpp
Suggests: rmarkdown, knitr
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2024-07-08 15:42:52 UTC; stefano.damato
Author: Stefano Damato [aut, cre]
Maintainer: Stefano Damato <stefano.damato@idsia.ch>
Repository: CRAN
Date/Publication: 2024-07-09 16:10:12 UTC

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New package decp with initial version 0.1.0
Package: decp
Title: Complete Change Point Analysis
Version: 0.1.0
Description: Provides a comprehensive approach for identifying and estimating change points in multivariate time series through various statistical methods. Implements the multiple change point detection methodology from Ryan & Killick (2023) <doi:10.1080/00401706.2023.2183261> and a novel estimation methodology from Fotopoulos et al. (2023) <doi:10.1007/s00362-023-01495-0> generalized to fit the detection methodologies. Performs both detection and estimation of change points, providing visualization and summary information of the estimation process for each detected change point.
Depends: R (>= 3.1)
License: GPL-3
Encoding: UTF-8
Imports: geigen, ggplot2, magrittr, matrixcalc, purrr, rlang, stats
Maintainer: Vasileios Pavlopoulos <vasileios.pavlopoulos@uah.edu>
NeedsCompilation: no
Packaged: 2024-07-08 19:19:16 UTC; Business
Author: Vasileios Pavlopoulos [cre, aut], Hieu Pham [aut, ctb], Paras Bhatt [aut, ctb], Yi Tan [aut, ctb], Ravi Patnayakuni [aut, ctb]
Repository: CRAN
Date/Publication: 2024-07-09 16:10:02 UTC

More information about decp at CRAN
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New package dapper with initial version 1.0.0
Package: dapper
Title: Data Augmentation for Private Posterior Estimation
Version: 1.0.0
Description: A data augmentation based sampler for conducting privacy-aware Bayesian inference. The dapper_sample() function takes an existing sampler as input and automatically constructs a privacy-aware sampler. The process of constructing a sampler is simplified through the specification of four independent modules, allowing for easy comparison between different privacy mechanisms by only swapping out the relevant modules. Probability mass functions for the discrete Gaussian and discrete Laplacian are provided to facilitate analyses dealing with privatized count data. The output of dapper_sample() can be analyzed using many of the same tools from the `rstan` ecosystem. For methodological details on the sampler see Ju et al. (2022) <doi:10.48550/arXiv.2206.00710>, and for details on the discrete Gaussian and discrete Laplacian distributions see Canonne et al. (2020) <doi:10.48550/arXiv.2004.00010>.
License: MIT + file LICENSE
Encoding: UTF-8
URL: https://github.com/mango-empire/dapper
BugReports: https://github.com/mango-empire/dapper/issues
Suggests: testthat (>= 3.0.0)
Imports: bayesplot, checkmate, furrr, memoise, posterior, progressr, stats
NeedsCompilation: no
Packaged: 2024-07-08 15:30:25 UTC; kevin
Author: Kevin Eng [aut, cre, cph]
Maintainer: Kevin Eng <kevine1221@gmail.com>
Repository: CRAN
Date/Publication: 2024-07-09 16:10:05 UTC

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Package childfree updated to version 0.0.2 with previous version 0.0.1 dated 2024-04-05

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>

Diff between childfree versions 0.0.1 dated 2024-04-05 and 0.0.2 dated 2024-07-09

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 vignettes/childfree.Rmd |    4 
 vignettes/codebooks.Rmd |   51 +++--
 21 files changed, 781 insertions(+), 257 deletions(-)

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New package syrup with initial version 0.1.0
Package: syrup
Title: Measure Memory and CPU Usage for Parallel R Code
Version: 0.1.0
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.
License: MIT + file LICENSE
Suggests: testthat (>= 3.0.0)
Encoding: UTF-8
Depends: bench
Imports: callr, dplyr, ps, purrr, rlang, tibble, vctrs, withr
URL: https://github.com/simonpcouch/syrup, https://simonpcouch.github.io/syrup/
BugReports: https://github.com/simonpcouch/syrup/issues
NeedsCompilation: no
Packaged: 2024-07-08 17:11:18 UTC; simoncouch
Author: Simon Couch [aut, cre] , Posit Software, PBC [cph, fnd]
Maintainer: Simon Couch <simon.couch@posit.co>
Repository: CRAN
Date/Publication: 2024-07-09 15:50:02 UTC

More information about syrup at CRAN
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New package somaticflags with initial version 0.1.0
Package: somaticflags
Title: Database of Somatic Flags
Version: 0.1.0
Description: Database of genes which frequently sustain somatic mutations, but are unlikely to drive cancer.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Depends: R (>= 2.10)
Suggests: usethis, devtools
URL: https://github.com/CCICB/somaticflags
BugReports: https://github.com/CCICB/somaticflags/issues
NeedsCompilation: no
Packaged: 2024-07-07 23:04:50 UTC; selkamand
Author: Sam El-Kamand [aut, cre] , Children's Cancer Institute Australia [cph]
Maintainer: Sam El-Kamand <selkamand@ccia.org.au>
Repository: CRAN
Date/Publication: 2024-07-09 15:50:06 UTC

More information about somaticflags at CRAN
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Package SLOPE updated to version 0.5.1 with previous version 0.5.0 dated 2022-06-09

Title: Sorted L1 Penalized Estimation
Description: Efficient implementations for Sorted L-One Penalized Estimation (SLOPE): generalized linear models regularized with the sorted L1-norm (Bogdan et al. 2015). Supported models include ordinary least-squares regression, binomial regression, multinomial regression, and Poisson regression. Both dense and sparse predictor matrices are supported. In addition, the package features predictor screening rules that enable fast and efficient solutions to high-dimensional problems.
Author: Johan Larsson [aut, cre] , Jonas Wallin [aut] , Malgorzata Bogdan [aut], Ewout van den Berg [aut], Chiara Sabatti [aut], Emmanuel Candes [aut], Evan Patterson [aut], Weijie Su [aut], Jakub Kala [aut], Krystyna Grzesiak [aut], Michal Burdukiewicz [aut [...truncated...]
Maintainer: Johan Larsson <johanlarsson@outlook.com>

Diff between SLOPE versions 0.5.0 dated 2022-06-09 and 0.5.1 dated 2024-07-09

 SLOPE-0.5.0/SLOPE/build/partial.rdb                                                  |only
 SLOPE-0.5.1/SLOPE/DESCRIPTION                                                        |   28 
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 SLOPE-0.5.1/SLOPE/R/SLOPE.R                                                          |    9 
 SLOPE-0.5.1/SLOPE/R/predict.R                                                        |    2 
 SLOPE-0.5.1/SLOPE/R/sortedL1Prox.R                                                   |    2 
 SLOPE-0.5.1/SLOPE/R/utils.R                                                          |   13 
 SLOPE-0.5.1/SLOPE/README.md                                                          |    2 
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 SLOPE-0.5.1/SLOPE/inst/WORDLIST                                                      |    4 
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 SLOPE-0.5.1/SLOPE/man/SLOPE-package.Rd                                               |    5 
 SLOPE-0.5.1/SLOPE/man/SLOPE.Rd                                                       |    7 
 SLOPE-0.5.1/SLOPE/man/sortedL1Prox.Rd                                                |    2 
 SLOPE-0.5.1/SLOPE/src/Makevars                                                       |    1 
 SLOPE-0.5.1/SLOPE/src/SLOPE.h                                                        |   22 
 SLOPE-0.5.1/SLOPE/src/families/binomial.h                                            |    2 
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 SLOPE-0.5.1/SLOPE/src/families/gaussian.h                                            |    2 
 SLOPE-0.5.1/SLOPE/src/families/multinomial.h                                         |    2 
 SLOPE-0.5.1/SLOPE/src/families/poisson.h                                             |    2 
 SLOPE-0.5.1/SLOPE/src/prox.cpp                                                       |   19 
 SLOPE-0.5.1/SLOPE/src/standardize.cpp                                                |    4 
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 SLOPE-0.5.1/SLOPE/tests/testthat/_snaps/plotting/q-plot-trainedslope-in-test.svg     |   20 
 SLOPE-0.5.1/SLOPE/vignettes/SLOPE.bib                                                |   45 
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New package rank with initial version 0.1.0
Package: rank
Title: Customisable Ranking of Numerical and Categorical Data
Version: 0.1.0
Description: Provides a flexible alternative to the built-in rank() function called smartrank(). Optionally rank categorical variables by frequency (instead of in alphabetical order), and control whether ranking is based on descending/ascending order. smartrank() is suitable for both numerical and categorical data.
License: MIT + file LICENSE
Suggests: covr, testthat (>= 3.0.0)
Encoding: UTF-8
URL: https://github.com/selkamand/rank, https://selkamand.github.io/rank/
BugReports: https://github.com/selkamand/rank/issues
NeedsCompilation: no
Packaged: 2024-07-07 05:14:16 UTC; selkamand
Author: Sam El-Kamand [aut, cre, cph]
Maintainer: Sam El-Kamand <sam.elkamand@gmail.com>
Repository: CRAN
Date/Publication: 2024-07-09 15:30:02 UTC

More information about rank at CRAN
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Package quickcode updated to version 0.9 with previous version 0.8 dated 2024-04-06

Title: Quick and Essential 'R' Tricks for Better Scripts
Description: The NOT functions, 'R' tricks and a compilation of some simple quick plus often used 'R' codes to improve your scripts. Improve the quality and reproducibility of 'R' scripts.
Author: Obinna Obianom [aut, cre], Brice Richard [aut]
Maintainer: Obinna Obianom <idonshayo@gmail.com>

Diff between quickcode versions 0.8 dated 2024-04-06 and 0.9 dated 2024-07-09

 quickcode-0.8/quickcode/man/add_key.Rd                                      |only
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 quickcode-0.9/quickcode/R/aaa.R                                             |    2 
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 quickcode-0.9/quickcode/R/duplicate.R                                       |    2 
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 quickcode-0.9/quickcode/R/nin.R                                             |    4 
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 51 files changed, 377 insertions(+), 148 deletions(-)

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New package pEPA with initial version 1.0
Package: pEPA
Title: Tests of Equal Predictive Accuracy for Panels of Forecasts
Version: 1.0
Depends: R (>= 2.10)
Date: 2024-07-07
Author: Krzysztof Drachal [aut, cre]
Maintainer: Krzysztof Drachal <kdrachal@wne.uw.edu.pl>
Description: Allows to perform the tests of equal predictive accuracy for panels of forecasts. Main references: Qu et al. (2024) <doi:10.1016/j.ijforecast.2023.08.001> and Akgun et al. (2024) <doi:10.1016/j.ijforecast.2023.02.001>.
License: GPL-3
LazyData: TRUE
URL: https://CRAN.R-project.org/package=pEPA
Note: Research funded by the grant of the National Science Centre, Poland, under the contract number DEC-2018/31/B/HS4/02021.
NeedsCompilation: no
Packaged: 2024-07-07 13:49:30 UTC; Krzysiek
Repository: CRAN
Date/Publication: 2024-07-09 15:50:14 UTC

More information about pEPA at CRAN
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New package paramDemo with initial version 1.0.1
Package: paramDemo
Title: Parametric and Non-Parametric Demographic Functions and Applications
Version: 1.0.1
Date: 2024-07-03
Depends: R (>= 2.10)
Description: Calculate parametric mortality and Fertility models, following packages 'BaSTA' in Colchero, Jones and Rebke (2012) <doi:10.1111/j.2041-210X.2012.00186.x> and 'BaFTA' <https://github.com/fercol/BaFTA>, summary statistics (e.g. ageing rates, life expectancy, lifespan equality, etc.), life table and product limit estimators from census data.
License: GPL
BugReports: https://github.com/fercol/paramDemo/issues
NeedsCompilation: no
Packaged: 2024-07-08 08:26:27 UTC; fernando_colchero
Author: Fernando Colchero [aut, cre]
Maintainer: Fernando Colchero <fernando_colchero@eva.mpg.de>
Repository: CRAN
Date/Publication: 2024-07-09 15:50:10 UTC

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New package nascaR.data with initial version 1.0.0
Package: nascaR.data
Title: NASCAR Race Data
Version: 1.0.0
Description: A collection of NASCAR race, driver, owner and manufacturer data across the three major NASCAR divisions: NASCAR Cup Series, NASCAR Xfinity Series, and NASCAR Craftsman Truck Series. The curated data begins with the 1949 season and extends through the end of the 2023 season. Data was sourced with permission from DriverAverages.com.
LazyData: true
License: CC BY 4.0
Depends: R (>= 3.5.0)
Encoding: UTF-8
Suggests: conflicted, ggtext, glue, gtsummary, here, knitr, quarto (>= 1.3.12), rmarkdown, roxygen2, rUM, scales, tidyverse
VignetteBuilder: quarto
URL: https://github.com/kyleGrealis/nascaR.data/, https://kylegrealis.github.io/nascaR.data/
BugReports: https://github.com/kyleGrealis/nascaR.data/issues
NeedsCompilation: no
Packaged: 2024-07-06 15:16:39 UTC; kxg679
Author: Kyle Grealis [aut, cre] , Gabriel Odom [ctb]
Maintainer: Kyle Grealis <kylegrealis@icloud.com>
Repository: CRAN
Date/Publication: 2024-07-09 15:20:02 UTC

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New package glam with initial version 1.0.2
Package: glam
Title: Generalized Additive and Linear Models (GLAM)
Version: 1.0.2
Description: Contains methods for fitting Generalized Linear Models (GLMs) and Generalized Additive Models (GAMs). Generalized regression models are common methods for handling data for which assuming Gaussian-distributed errors is not appropriate. For instance, if the response of interest is binary, count, or proportion data, one can instead model the expectation of the response based on an appropriate data-generating distribution. This package provides methods for fitting GLMs and GAMs under Beta regression, Poisson regression, Gamma regression, and Binomial regression (currently GLM only) settings. Models are fit using local scoring algorithms described in Hastie and Tibshirani (1990) <doi:10.1214/ss/1177013604>.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: gam, stats
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-07-07 18:11:43 UTC; Andy
Author: Andrew Cooper [aut, cre, cph]
Maintainer: Andrew Cooper <ahcooper@vt.edu>
Repository: CRAN
Date/Publication: 2024-07-09 15:40:02 UTC

More information about glam at CRAN
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New package GDILM.ME with initial version 1.2.1
Package: GDILM.ME
Title: Spatial Modeling of Infectious Diseases with Co-Variate Error
Version: 1.2.1
Description: Provides tools for simulating from spatial modeling of individual level of infectious disease transmission when co-variates measured with error, and carrying out infectious disease data analyses with the same models. The epidemic models considered are distance-based model within Susceptible-Infectious-Removed (SIR) compartmental frameworks.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: MASS, corpcor, mvtnorm, ngspatial, numDeriv, stats, psych
Depends: R (>= 2.10)
LazyData: true
NeedsCompilation: no
Packaged: 2024-07-06 14:41:34 UTC; ruwan
Author: Ruwani Herath [aut, cre], Leila Amiri [ctb], Mahmoud Torabi [ctb]
Maintainer: Ruwani Herath <ruwanirasanjalih@gmail.com>
Repository: CRAN
Date/Publication: 2024-07-09 15:20:06 UTC

More information about GDILM.ME at CRAN
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New package FastUtils with initial version 0.1.1
Package: FastUtils
Title: Fast, Readable Utility Functions
Version: 0.1.1
Date: 2024-06-21
Maintainer: Qile Yang <qile.yang@berkeley.edu>
Description: A wide variety of tools for general data analysis, wrangling, spelling, statistics, visualizations, package development, and more. All functions have vectorized implementations whenever possible.
BugReports: https://github.com/Qile0317/FastUtils/issues/
License: MIT + file LICENSE
Encoding: UTF-8
Language: en-US
Imports: assertthat, BiocManager, devtools, dplyr, ggplot2, hash, lifecycle, methods, Rcpp (>= 1.0.12), rlang, testthat, tools, usethis
LinkingTo: Rcpp
Suggests: covr, knitr, rmarkdown, spelling
VignetteBuilder: knitr
URL: https://github.com/Qile0317/FastUtils, https://qile0317.github.io/FastUtils/
NeedsCompilation: yes
Packaged: 2024-07-07 21:12:07 UTC; qile
Author: Qile Yang [cre, aut, cph]
Repository: CRAN
Date/Publication: 2024-07-09 15:40:06 UTC

More information about FastUtils at CRAN
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New package FAfA with initial version 0.2
Package: FAfA
Title: Factor Analysis for All
Version: 0.2
Description: This Shiny application offers researchers a comprehensive tool for performing factor analysis. Users can upload datasets, validate assumptions, manage missing and outlier data, split data for different analyses, and run exploratory and confirmatory factor analyses ("EFA" and "CFA"). The software also offers reliability analysis, exploratory graph analysis, and item weighting. With a user-friendly interface, this tool simplifies the EFA and CFA processes. The main features are data submission and simple data inspection. Data manipulation (excluding variables, splitting data, checking for outliers), assumption checking (Tabachnik & Fidell (2012) <ISBN:978-0-205-84957-4> and Field (2009) <ISBN:978-1-84787-906-6>) for factor analysis, exploratory factor analysis (with various factor number determination methods (Lorenzo-Seva & Ferrando (2021) <doi:10.5964/meth.7185>)), confirmatory factor analysis (model definition and modification suggestions (Kline (2011) <IS [...truncated...]
License: GPL-3
Imports: shiny, shinydashboard, utils, shinycssloaders, golem, magrittr, lavaan, dplyr, psych
Suggests: knitr, rmarkdown, spelling, testthat, EFA.MRFA, EFA.dimensions, EFAtools, EGAnet, MBESS, config, energy, ggcorrplot, mctest, moments, mvnormalTest, pastecs, psychometric, semPlot, semTools, sirt, stats
VignetteBuilder: knitr
Encoding: UTF-8
Language: en-US
NeedsCompilation: no
Packaged: 2024-07-08 08:11:37 UTC; Faruk
Author: Abdullah Faruk KILIC [cre, aut]
Maintainer: Abdullah Faruk KILIC <afarukkilic@trakya.edu.tr>
Repository: CRAN
Date/Publication: 2024-07-09 15:50:25 UTC

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New package boomer with initial version 0.2.0
Package: boomer
Title: Debugging Tools to Inspect the Intermediate Steps of a Call
Version: 0.2.0
Description: Provides debugging tools that let you inspect the intermediate results of a call. The output looks as if we explode a call into its parts hence the package name.
License: GPL-3
URL: https://github.com/moodymudskipper/boomer
BugReports: https://github.com/moodymudskipper/boomer/issues
Imports: crayon, methods, pryr, rlang, rstudioapi, styler, withr
Suggests: flow, knitr, lobstr, magrittr, rmarkdown, shiny, testthat (>= 3.0.0)
VignetteBuilder: knitr
Encoding: UTF-8
Language: en
NeedsCompilation: no
Packaged: 2024-07-07 16:13:26 UTC; Antoine
Author: Antoine Fabri [aut, cre]
Maintainer: Antoine Fabri <antoine.fabri@gmail.com>
Repository: CRAN
Date/Publication: 2024-07-09 15:50:17 UTC

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New package aLBI with initial version 0.1.4
Package: aLBI
Title: Estimating Length-Based Indicators for Fish Stock
Version: 0.1.4
Maintainer: Ataher Ali <ataher.cu.ms@gmail.com>
Description: Provides tools for estimating length-based indicators from length frequency data to assess fish stock status and manage fisheries sustainably. Implements methods from Cope and Punt (2009) <doi:10.1577/C08-025.1> for data-limited stock assessment and Froese (2004) <doi:10.1111/j.1467-2979.2004.00144.x> for detecting overfishing using simple indicators. Key functions include: CalPar(): Calculates various lengths used in fish stock assessment as biological length indicators such as asymptotic length (Linf), maximum length (Lmax), length at sexual maturity (Lm), and optimal length (Lopt). FishPar(): Calculates length-based indicators (LBIs) proposed by Froese (2004) <doi:10.1111/j.1467-2979.2004.00144.x> such as the percentage of mature fish (Pmat), percentage of optimal length fish (Popt), percentage of mega spawners (Pmega), and the sum of these as Pobj. This function also estimates confidence intervals for different lengths, visualizes length frequency distributions, a [...truncated...]
Depends: R (>= 3.5.0)
Suggests: testthat, knitr, rmarkdown, devtools, readxl
License: GPL-3
Encoding: UTF-8
LazyData: true
URL: https://github.com/Ataher76/aLBI
BugReports: https://github.com/Ataher76/aLBI/issues
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-07-08 07:50:43 UTC; User
Author: Ataher Ali [aut, cre], Alam Mohammed Shahidul [aut]
Repository: CRAN
Date/Publication: 2024-07-09 15:50:21 UTC

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Package WeibullR.learnr updated to version 0.1.3 with previous version 0.1.1 dated 2023-06-06

Title: An Interactive Introduction to Life Data Analysis
Description: An interactive introduction to Life Data Analysis that depends on 'WeibullR' by David Silkworth and Jurgen Symynck (2022) <https://CRAN.R-project.org/package=WeibullR>, a R package for Weibull Analysis, and 'learnr' by Garrick Aden-Buie et al. (2023) <https://CRAN.R-project.org/package=learnr>, a framework for building interactive learning modules in R.
Author: Paul Govan [aut, cre, cph]
Maintainer: Paul Govan <paul.govan2@gmail.com>

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Package OPI updated to version 3.0.2 with previous version 3.0.1 dated 2024-07-03

Title: Open Perimetry Interface
Description: Implementation of the Open Perimetry Interface (OPI) for simulating and controlling visual field machines using R. The OPI is a standard for interfacing with visual field testing machines (perimeters) first started as an open source project with support of Haag-Streit in 2010. It specifies basic functions that allow many visual field tests to be constructed. As of February 2022 it is fully implemented on the Haag-Streit Octopus 900 and 'CrewT ImoVifa' ('Topcon Tempo') with partial implementations on the Centervue Compass, Kowa AP 7000 and Android phones. It also has a cousin: the R package 'visualFields', which has tools for analysing and manipulating visual field data.
Author: Andrew Turpin [cre, aut, cph] , David Lawson [ctb, cph], Ivan Marin-Franch [ctb, cph], Matthias Muller [ctb], Jonathan Denniss [ctb, cph], Astrid Zeman [ctb], Giovanni Montesano [ctb]
Maintainer: Andrew Turpin <andrew.turpin@lei.org.au>

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Package multilevelcoda updated to version 1.3.0.2 with previous version 1.3.0.1 dated 2024-06-30

Title: Estimate Bayesian Multilevel Models for Compositional Data
Description: Implement Bayesian Multilevel Modelling for compositional data in a multilevel framework. Compute multilevel compositional data and Isometric log ratio (ILR) at between and within-person levels, fit Bayesian multilevel models for compositional predictors and outcomes, and run post-hoc analyses such as isotemporal substitution models.
Author: Flora Le [aut, cre] , Joshua F. Wiley [aut]
Maintainer: Flora Le <13florale@gmail.com>

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Package jmvReadWrite updated to version 0.4.7 with previous version 0.4.6 dated 2024-05-22

Title: Read and Write 'jamovi' Files ('.omv')
Description: The free and open a statistical spreadsheet 'jamovi' (<https://www.jamovi.org>) aims to make statistical analyses easy and intuitive. 'jamovi' produces syntax that can directly be used in R (in connection with the R-package 'jmv'). Having import / export routines for the data files 'jamovi' produces ('.omv') permits an easy transfer of data and analyses between 'jamovi' and R.
Author: Sebastian Jentschke [aut, cre, cph]
Maintainer: Sebastian Jentschke <sebastian.jentschke@uib.no>

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Package gsDesign updated to version 3.6.3 with previous version 3.6.2 dated 2024-04-09

Title: Group Sequential Design
Description: Derives group sequential clinical trial designs and describes their properties. Particular focus on time-to-event, binary, and continuous outcomes. Largely based on methods described in Jennison, Christopher and Turnbull, Bruce W., 2000, "Group Sequential Methods with Applications to Clinical Trials" ISBN: 0-8493-0316-8.
Author: Keaven Anderson [aut, cre]
Maintainer: Keaven Anderson <keaven_anderson@merck.com>

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Package GeoModels updated to version 2.0.4 with previous version 2.0.3 dated 2024-06-07

Title: Procedures for Gaussian and Non Gaussian Geostatistical (Large) Data Analysis
Description: Functions for Gaussian and Non Gaussian (bivariate) spatial and spatio-temporal data analysis are provided for a) (fast) simulation of random fields, b) inference for random fields using standard likelihood and a likelihood approximation method called weighted composite likelihood based on pairs and b) prediction using (local) best linear unbiased prediction. Weighted composite likelihood can be very efficient for estimating massive datasets. Both regression and spatial (temporal) dependence analysis can be jointly performed. Flexible covariance models for spatial and spatial-temporal data on Euclidean domains and spheres are provided. There are also many useful functions for plotting and performing diagnostic analysis. Different non Gaussian random fields can be considered in the analysis. Among them, random fields with marginal distributions such as Skew-Gaussian, Student-t, Tukey-h, Sin-Arcsin, Two-piece, Weibull, Gamma, Log-Gaussian, Binomial, Negative Binomial and Poisson. Se [...truncated...]
Author: Moreno Bevilacqua [aut, cre] , Victor Morales-Onate [aut] , Christian Caamano-Carrillo [aut]
Maintainer: Moreno Bevilacqua <moreno.bevilacqua89@gmail.com>

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Package burgle updated to version 0.1.1 with previous version 0.1.0 dated 2024-05-15

Title: 'Burgle': Stealing the Necessary Parts of Model Objects
Description: Provides a way to reduce model objects to necessary parts, making them easier to work with, store, share and simulate multiple values for new responses while allowing for parameter uncertainty.
Author: Paul R. Gunsalus [aut, cre] , Jarrod E. Dalton [aut]
Maintainer: Paul R. Gunsalus <gunsalp@ccf.org>

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Package paradox updated to version 1.0.1 with previous version 1.0.0 dated 2024-06-11

Title: Define and Work with Parameter Spaces for Complex Algorithms
Description: Define parameter spaces, constraints and dependencies for arbitrary algorithms, to program on such spaces. Also includes statistical designs and random samplers. Objects are implemented as 'R6' classes.
Author: Michel Lang [aut] , Bernd Bischl [aut] , Jakob Richter [aut] , Xudong Sun [aut] , Martin Binder [aut, cre], Marc Becker [ctb]
Maintainer: Martin Binder <mlr.developer@mb706.com>

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Package miesmuschel updated to version 0.0.4-2 with previous version 0.0.4-1 dated 2024-06-07

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 ccdR updated to version 1.1.0 with previous version 1.0.0 dated 2024-03-29

Title: Utilities for Interacting with the 'CTX' APIs
Description: Access chemical, hazard, bioactivity, and exposure data from the Computational Toxicology and Exposure ('CTX') APIs <https://api-ccte.epa.gov/docs/>. 'ccdR' was developed to streamline the process of accessing the information available through the 'CTX' APIs without requiring prior knowledge of how to use APIs. Most data is also available on the CompTox Chemical Dashboard ('CCD') <https://comptox.epa.gov/dashboard/> and other resources found at the EPA Computational Toxicology and Exposure Online Resources <https://www.epa.gov/comptox-tools>.
Author: Paul Kruse [aut, cre] , Caroline Ring [aut] , Madison Feshuk [ctb] , Carter Thunes [ctb], Jason Brown [ctb]
Maintainer: Paul Kruse <kruse.paul@epa.gov>

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 ccdR-1.1.0/ccdR/DESCRIPTION                                                                             |   26 
 ccdR-1.1.0/ccdR/MD5                                                                                     |  432 -
 ccdR-1.1.0/ccdR/NAMESPACE                                                                               |   25 
 ccdR-1.1.0/ccdR/NEWS.md                                                                                 |   93 
 ccdR-1.1.0/ccdR/R/attach.R                                                                              |   26 
 ccdR-1.1.0/ccdR/R/bioactivity-APIs-batch.R                                                              |   18 
 ccdR-1.1.0/ccdR/R/bioactivity-APIs.R                                                                    |   38 
 ccdR-1.1.0/ccdR/R/ccdr_options.R                                                                        |   12 
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 ccdR-1.1.0/ccdR/R/chemical-APIs.R                                                                       |  311 
 ccdR-1.1.0/ccdR/R/data.R                                                                                |    8 
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 ccdR-1.1.0/ccdR/R/exposure-APIs.R                                                                       |   92 
 ccdR-1.1.0/ccdR/R/hazard-APIs-batch.R                                                                   |   70 
 ccdR-1.1.0/ccdR/R/hazard-APIs.R                                                                         |   57 
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 ccdR-1.1.0/ccdR/README.md                                                                               |   23 
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 ccdR-1.1.0/ccdR/inst/doc/Chemical.R                                                                     |   21 
 ccdR-1.1.0/ccdR/inst/doc/Chemical.Rmd                                                                   |   23 
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 ccdR-1.1.0/ccdR/inst/doc/Hazard.R                                                                       |    8 
 ccdR-1.1.0/ccdR/inst/doc/Hazard.Rmd                                                                     |   18 
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 ccdR-1.1.0/ccdR/inst/doc/Introduction.R                                                                 |   40 
 ccdR-1.1.0/ccdR/inst/doc/Introduction.Rmd                                                               |   46 
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 ccdR-1.1.0/ccdR/inst/httptest/request.R                                                                 |    4 
 ccdR-1.1.0/ccdR/man/ccdr_options.Rd                                                                     |   12 
 ccdR-1.1.0/ccdR/man/chemical_contains.Rd                                                                |    8 
 ccdR-1.1.0/ccdR/man/chemical_contains_batch.Rd                                                          |    8 
 ccdR-1.1.0/ccdR/man/chemical_equal.Rd                                                                   |    2 
 ccdR-1.1.0/ccdR/man/chemical_equal_batch.Rd                                                             |    4 
 ccdR-1.1.0/ccdR/man/chemical_starts_with.Rd                                                             |   11 
 ccdR-1.1.0/ccdR/man/chemical_starts_with_batch.Rd                                                       |    8 
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 ccdR-1.1.0/ccdR/man/get_all_assays.Rd                                                                   |    2 
 ccdR-1.1.0/ccdR/man/get_all_public_chemical_lists.Rd                                                    |    4 
 ccdR-1.1.0/ccdR/man/get_annotation_by_aeid.Rd                                                           |    2 
 ccdR-1.1.0/ccdR/man/get_annotation_by_aeid_batch.Rd                                                     |    2 
 ccdR-1.1.0/ccdR/man/get_bioactivity_details.Rd                                                          |    2 
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 ccdR-1.1.0/ccdR/man/get_bioactivity_summary.Rd                                                          |    2 
 ccdR-1.1.0/ccdR/man/get_bioactivity_summary_batch.Rd                                                    |    2 
 ccdR-1.1.0/ccdR/man/get_cancer_hazard.Rd                                                                |    2 
 ccdR-1.1.0/ccdR/man/get_cancer_hazard_batch.Rd                                                          |    2 
 ccdR-1.1.0/ccdR/man/get_chem_info.Rd                                                                    |    2 
 ccdR-1.1.0/ccdR/man/get_chem_info_batch.Rd                                                              |    2 
 ccdR-1.1.0/ccdR/man/get_chemical_by_property_range.Rd                                                   |    2 
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 ccdR-1.1.0/ccdR/man/get_chemical_details.Rd                                                             |   10 
 ccdR-1.1.0/ccdR/man/get_chemical_details_batch.Rd                                                       |    8 
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 ccdR-1.1.0/ccdR/man/get_chemical_image.Rd                                                               |    5 
 ccdR-1.1.0/ccdR/man/get_chemical_image_batch.Rd                                                         |    5 
 ccdR-1.1.0/ccdR/man/get_chemical_lists_by_type.Rd                                                       |    2 
 ccdR-1.1.0/ccdR/man/get_chemical_lists_by_type_batch.Rd                                                 |    2 
 ccdR-1.1.0/ccdR/man/get_chemical_mol.Rd                                                                 |    2 
 ccdR-1.1.0/ccdR/man/get_chemical_mol_batch.Rd                                                           |    2 
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 ccdR-1.1.0/ccdR/man/get_skin_eye_hazard.Rd                                                              |    2 
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 222 files changed, 15010 insertions(+), 9933 deletions(-)

More information about ccdR at CRAN
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Package rswipl updated to version 9.3.7.2 with previous version 9.3.5.1 dated 2024-05-13

Title: Embed 'SWI'-'Prolog'
Description: Interface to 'SWI'-'Prolog', <https://www.swi-prolog.org/>. This package is normally not loaded directly, please refer to package 'rolog' instead. The purpose of this package is to provide the 'Prolog' runtime on systems that do not have a software installation of 'SWI'-'Prolog'.
Author: Matthias Gondan [aut, com, cre] , Jan Wielemaker [ctb, cph] , European Commission [fnd]
Maintainer: Matthias Gondan <Matthias.Gondan-Rochon@uibk.ac.at>

Diff between rswipl versions 9.3.5.1 dated 2024-05-13 and 9.3.7.2 dated 2024-07-09

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Package heterometa updated to version 0.3 with previous version 0.2 dated 2024-03-05

Title: Convert Various Meta-Analysis Heterogeneity Measures
Description: Published meta-analyses routinely present one of the measures of heterogeneity introduced in Higgins and Thompson (2002) <doi:10.1002/sim.1186>. For critiquing articles it is often better to convert to another of those measures. Some conversions are provided here and confidence intervals are also available.
Author: Michael Dewey [aut, cre]
Maintainer: Michael Dewey <lists@dewey.myzen.co.uk>

Diff between heterometa versions 0.2 dated 2024-03-05 and 0.3 dated 2024-07-09

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Package fastTopics updated to version 0.6-192 with previous version 0.6-186 dated 2024-06-29

Title: Fast Algorithms for Fitting Topic Models and Non-Negative Matrix Factorizations to Count Data
Description: Implements fast, scalable optimization algorithms for fitting topic models ("grade of membership" models) and non-negative matrix factorizations to count data. The methods exploit the special relationship between the multinomial topic model (also, "probabilistic latent semantic indexing") and Poisson non-negative matrix factorization. The package provides tools to compare, annotate and visualize model fits, including functions to efficiently create "structure plots" and identify key features in topics. The 'fastTopics' package is a successor to the 'CountClust' package. For more information, see <doi:10.48550/arXiv.2105.13440> and <doi:10.1186/s13059-023-03067-9>. Please also see the GitHub repository for additional vignettes not included in the package on CRAN.
Author: Peter Carbonetto [aut, cre], Kevin Luo [aut], Kushal Dey [aut], Joyce Hsiao [ctb], Abhishek Sarkar [ctb], Anthony Hung [ctb], Xihui Lin [ctb], Paul C. Boutros [ctb], Minzhe Wang [ctb], Tracy Ke [ctb], Eric Weine [ctb], Matthew Stephens [aut]
Maintainer: Peter Carbonetto <peter.carbonetto@gmail.com>

Diff between fastTopics versions 0.6-186 dated 2024-06-29 and 0.6-192 dated 2024-07-09

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Package lidR updated to version 4.1.2 with previous version 4.1.1 dated 2024-03-05

Title: Airborne LiDAR Data Manipulation and Visualization for Forestry Applications
Description: Airborne LiDAR (Light Detection and Ranging) interface for data manipulation and visualization. Read/write 'las' and 'laz' files, computation of metrics in area based approach, point filtering, artificial point reduction, classification from geographic data, normalization, individual tree segmentation and other manipulations.
Author: Jean-Romain Roussel [aut, cre, cph], David Auty [aut, ctb] , Florian De Boissieu [ctb] , Andrew Sanchez Meador [ctb] for segment_snags), Bourdon Jean-Francois [ctb] for track_sensor), Gatziolis Demetrios [ctb] for track_sensor), Leon Steinmeier [c [...truncated...]
Maintainer: Jean-Romain Roussel <jean-romain.roussel.1@ulaval.ca>

Diff between lidR versions 4.1.1 dated 2024-03-05 and 4.1.2 dated 2024-07-09

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Package PCAPAM50 updated to version 1.0.1 with previous version 1.0.0 dated 2024-07-08

Title: Enhanced 'PAM50' Subtyping of Breast Cancer
Description: Accurate classification of breast cancer tumors based on gene expression data is not a trivial task, and it lacks standard practices.The 'PAM50' classifier, which uses 50 gene centroid correlation distances to classify tumors, faces challenges with balancing estrogen receptor (ER) status and gene centering. The 'PCAPAM50' package leverages principal component analysis and iterative 'PAM50' calls to create a gene expression-based ER-balanced subset for gene centering, avoiding the use of protein expression-based ER data resulting into an enhanced Breast Cancer subtyping.
Author: Praveen-Kumar Raj-Kumar [aut, cre, cph], Boyi Chen [aut], Ming-Wen Hu [aut], Tyler Hohenstein [aut], Jianfang Liu [aut], Craig D. Shriver [aut], Xiaoying Lin [aut, cph], Hai Hu [aut, cph]
Maintainer: Praveen-Kumar Raj-Kumar <p.rajkumar@wriwindber.org>

Diff between PCAPAM50 versions 1.0.0 dated 2024-07-08 and 1.0.1 dated 2024-07-09

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Package DSMolgenisArmadillo updated to version 2.0.9 with previous version 2.0.5 dated 2023-10-30

Title: 'DataSHIELD' Client for 'MOLGENIS Armadillo'
Description: 'DataSHIELD' is an infrastructure and series of R packages that enables the remote and 'non-disclosive' analysis of sensitive research data. This package is the 'DataSHIELD' interface implementation to analyze data shared on a 'MOLGENIS Armadillo' server. 'MOLGENIS Armadillo' is a light-weight 'DataSHIELD' server using a file store and an 'RServe' server.
Author: Mariska Slofstra [aut, cre] , Sido Haakma [aut] , Tommy de Boer [aut] , Fleur Kelpin [aut] , MOLGENIS org [cph, fnd]
Maintainer: Mariska Slofstra <m.k.slofstra@umcg.nl>

Diff between DSMolgenisArmadillo versions 2.0.5 dated 2023-10-30 and 2.0.9 dated 2024-07-09

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Package dockerfiler updated to version 0.2.3 with previous version 0.2.2 dated 2023-11-13

Title: Easy Dockerfile Creation from R
Description: Build a Dockerfile straight from your R session. 'dockerfiler' allows you to create step by step a Dockerfile, and provide convenient tools to wrap R code inside this Dockerfile.
Author: Colin Fay [cre, aut] , Vincent Guyader [aut] , Josiah Parry [aut] , Sebastien Rochette [aut]
Maintainer: Colin Fay <contact@colinfay.me>

Diff between dockerfiler versions 0.2.2 dated 2023-11-13 and 0.2.3 dated 2024-07-09

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Package adbcpostgresql updated to version 0.13.0 with previous version 0.12.0 dated 2024-05-22

Title: 'Arrow' Database Connectivity ('ADBC') 'PostgreSQL' Driver
Description: Provides a developer-facing interface to the 'Arrow' Database Connectivity ('ADBC') 'PostgreSQL' driver for the purposes of building high-level database interfaces for users. 'ADBC' <https://arrow.apache.org/adbc/> is an API standard for database access libraries that uses 'Arrow' for result sets and query parameters.
Author: Dewey Dunnington [aut, cre] , Apache Arrow [aut, cph], Apache Software Foundation [cph]
Maintainer: Dewey Dunnington <dewey@dunnington.ca>

Diff between adbcpostgresql versions 0.12.0 dated 2024-05-22 and 0.13.0 dated 2024-07-09

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Package FastRet (with last version 1.1.3) was removed from CRAN

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

2024-06-25 1.1.3

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Package rDNAse (with last version 1.1-1) was removed from CRAN

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

2016-07-14 1.1-1

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Package MobileTrigger (with last version 0.0.31) was removed from CRAN

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

2019-05-16 0.0.31

Permanent link
Package ShapeRotator (with last version 0.1.0) was removed from CRAN

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

2020-05-06 0.1.0

Permanent link
Package wk updated to version 0.9.2 with previous version 0.9.1 dated 2023-11-29

Title: Lightweight Well-Known Geometry Parsing
Description: Provides a minimal R and C++ API for parsing well-known binary and well-known text representation of geometries to and from R-native formats. Well-known binary is compact and fast to parse; well-known text is human-readable and is useful for writing tests. These formats are useful in R only if the information they contain can be accessed in R, for which high-performance functions are provided here.
Author: Dewey Dunnington [aut, cre] , Edzer Pebesma [aut] , Anthony North [ctb]
Maintainer: Dewey Dunnington <dewey@fishandwhistle.net>

Diff between wk versions 0.9.1 dated 2023-11-29 and 0.9.2 dated 2024-07-09

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Package mev updated to version 1.17 with previous version 1.16 dated 2023-11-30

Title: Modelling of Extreme Values
Description: Various tools for the analysis of univariate, multivariate and functional extremes. Exact simulation from max-stable processes [Dombry, Engelke and Oesting (2016) <doi:10.1093/biomet/asw008>, R-Pareto processes for various parametric models, including Brown-Resnick (Wadsworth and Tawn, 2014, <doi:10.1093/biomet/ast042>) and Extremal Student (Thibaud and Opitz, 2015, <doi:10.1093/biomet/asv045>). Threshold selection methods, including Wadsworth (2016) <doi:10.1080/00401706.2014.998345>, and Northrop and Coleman (2014) <doi:10.1007/s10687-014-0183-z>. Multivariate extreme diagnostics. Estimation and likelihoods for univariate extremes, e.g., Coles (2001) <doi:10.1007/978-1-4471-3675-0>.
Author: Leo Belzile [aut, cre] , Jennifer L. Wadsworth [aut], Paul J. Northrop [aut], Scott D. Grimshaw [aut], Jin Zhang [ctb], Michael A. Stephens [ctb], Art B. Owen [ctb], Raphael Huser [aut]
Maintainer: Leo Belzile <belzilel@gmail.com>

Diff between mev versions 1.16 dated 2023-11-30 and 1.17 dated 2024-07-09

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Package adbcdrivermanager updated to version 0.13.0 with previous version 0.12.0 dated 2024-05-22

Title: 'Arrow' Database Connectivity ('ADBC') Driver Manager
Description: Provides a developer-facing interface to 'Arrow' Database Connectivity ('ADBC') for the purposes of driver development, driver testing, and building high-level database interfaces for users. 'ADBC' <https://arrow.apache.org/adbc/> is an API standard for database access libraries that uses 'Arrow' for result sets and query parameters.
Author: Dewey Dunnington [aut, cre] , Apache Arrow [aut, cph], Apache Software Foundation [cph]
Maintainer: Dewey Dunnington <dewey@dunnington.ca>

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Mon, 08 Jul 2024

Package adbcsqlite updated to version 0.13.0 with previous version 0.12.0 dated 2024-05-22

Title: 'Arrow' Database Connectivity ('ADBC') 'SQLite' Driver
Description: Provides a developer-facing interface to the 'Arrow' Database Connectivity ('ADBC') 'SQLite' driver for the purposes of building high-level database interfaces for users. 'ADBC' <https://arrow.apache.org/adbc/> is an API standard for database access libraries that uses 'Arrow' for result sets and query parameters.
Author: Dewey Dunnington [aut, cre] , Apache Arrow [aut, cph], Apache Software Foundation [cph]
Maintainer: Dewey Dunnington <dewey@dunnington.ca>

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Package statpsych updated to version 1.6.0 with previous version 1.5.0 dated 2023-12-20

Title: Statistical Methods for Psychologists
Description: Implements confidence interval and sample size methods that are especially useful in psychological research. The methods can be applied in 1-group, 2-group, paired-samples, and multiple-group designs and to a variety of parameters including means, medians, proportions, slopes, standardized mean differences, standardized linear contrasts of means, plus several measures of correlation and association. The confidence intervals and sample size functions are applicable to single parameters as well as differences, ratios, and linear contrasts of parameters. The sample size functions can be used to approximate the sample size needed to estimate a parameter or function of parameters with desired confidence interval precision or to perform a variety of hypothesis tests (directional two-sided, equivalence, superiority, noninferiority) with desired power. For details see: Statistical Methods for Psychologists, Volumes 1 – 4, <https://dgbonett.sites.ucsc.edu/>.
Author: Douglas G. Bonett [aut, cre], Robert J. Calin-Jageman [ctb]
Maintainer: Douglas G. Bonett <dgbonett@ucsc.edu>

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Package syllogi updated to version 1.0.3 with previous version 1.0.2 dated 2024-01-08

Title: Collection of Data Sets for Teaching Purposes
Description: Collection (syllogi in greek) of real and fictitious data sets for teaching purposes. The datasets were manually entered by the author from the respective references as listed in the individual dataset documentation. The fictions datasets are the creation of the author, that he has found useful for teaching statistics.
Author: Jared Studyvin [aut, cre]
Maintainer: Jared Studyvin <studyvinstat@gmail.com>

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Package rodeo updated to version 0.8.2 with previous version 0.8.1 dated 2024-07-04

Title: A Code Generator for ODE-Based Models
Description: Provides an R6 class and several utility methods to facilitate the implementation of models based on ordinary differential equations. The heart of the package is a code generator that creates compiled 'Fortran' (or 'R') code which can be passed to a numerical solver. There is direct support for solvers contained in packages 'deSolve' and 'rootSolve'.
Author: David Kneis <david.kneis@tu-dresden.de>
Maintainer: David Kneis <david.kneis@tu-dresden.de>

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Package phoenix updated to version 1.1.1 with previous version 1.1.0 dated 2024-05-03

Title: The Phoenix Pediatric Sepsis and Septic Shock Criteria
Description: Implementation of the Phoenix and Phoenix-8 Sepsis Criteria as described in "Development and Validation of the Phoenix Criteria for Pediatric Sepsis and Septic Shock" by Sanchez-Pinto, Bennett, DeWitt, Russell et al. (2024) <doi:10.1001/jama.2024.0196> (Drs. Sanchez-Pinto and Bennett contributed equally to this manuscript; Dr. DeWitt and Mr. Russell contributed equally to the manuscript), "International Consensus Criteria for Pediatric Sepsis and Septic Shock" by Schlapbach, Watson, Sorce, Argent, et al. (2024) <doi:10.1001/jama.2024.0179> (Drs Schlapbach, Watson, Sorce, and Argent contributed equally) and the application note "phoenix: an R package and Python module for calculating the Phoenix pediatric sepsis score and criteria" by DeWitt, Russell, Rebull, Sanchez-Pinto, and Bennett (2024) <doi:10.1093/jamiaopen/ooae066>.
Author: Peter DeWitt [aut, cre] , Seth Russell [ctb] , Meg Rebull [ctb] , Tell Bennett [ctb] , L. Nelson Sanchez-Pinto [ctb]
Maintainer: Peter DeWitt <peter.dewitt@cuanschutz.edu>

Diff between phoenix versions 1.1.0 dated 2024-05-03 and 1.1.1 dated 2024-07-08

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Package esci updated to version 1.0.3 with previous version 1.0.2 dated 2024-03-21

Title: Estimation Statistics with Confidence Intervals
Description: A collection of functions and 'jamovi' module for the estimation approach to inferential statistics, the approach which emphasizes effect sizes, interval estimates, and meta-analysis. Nearly all functions are based on 'statpsych' and 'metafor'. This package is still under active development, and breaking changes are likely, especially with the plot and hypothesis test functions. Data sets are included for all examples from Cumming & Calin-Jageman (2024) <ISBN:9780367531508>.
Author: Robert Calin-Jageman [aut, cre, cph]
Maintainer: Robert Calin-Jageman <rcalinjageman@dom.edu>

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Package energyr updated to version 0.1.3 with previous version 0.1.2 dated 2018-12-02

Title: Data Published by the United States Federal Energy Regulatory Commission
Description: Data published by the United States Federal Energy Regulatory Commission including electric company financial data, natural gas company financial data, hydropower plant data, liquified natural gas plant data, oil company financial data natural gas company financial data, and natural gas storage field data.
Author: Paul Govan [aut, cre, cph]
Maintainer: Paul Govan <paul.govan2@gmail.com>

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Package evt0 updated to version 1.1.5 with previous version 1.1-4 dated 2023-04-21

Title: Mean of Order P, Peaks over Random Threshold Hill and High Quantile Estimates
Description: The R package proposes extreme value index estimators for heavy tailed models by mean of order p <DOI:10.1016/j.csda.2012.07.019>, peaks over random threshold <DOI:10.57805/revstat.v4i3.37> and a bias-reduced estimator <DOI:10.1080/00949655.2010.547196>. The package also computes moment, generalised Hill <DOI:10.2307/3318416> and mixed moment estimates for the extreme value index. High quantiles and value at risk estimators based on these estimators are implemented.
Author: Leo Belzile [cre] , B. G. Manjunath [aut] , Frederico Caeiro [aut] , Maria Ivette. Gomes [ctb] , Maria Isabel Fraga Alves [ctb]
Maintainer: Leo Belzile <belzilel@gmail.com>

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Package forestly updated to version 0.1.1 with previous version 0.1.0 dated 2023-07-19

Title: Interactive Forest Plot
Description: Interactive forest plot for clinical trial safety analysis using 'metalite', 'reactable', 'plotly', and Analysis Data Model (ADaM) datasets. Includes functionality for adverse event filtering, incidence-based group filtering, hover-over reveals, and search and sort operations. The workflow allows for metadata construction, data preparation, output formatting, and interactive plot generation.
Author: Yilong Zhang [aut], Benjamin Wang [aut, cre], Yujie Zhao [aut], Nan Xiao [ctb], Hiroaki Fukuda [ctb], Yulia Sidi [ctb], Xuan Deng [ctb], Merck & Co., Inc., Rahway, NJ, USA and its affiliates [cph]
Maintainer: Benjamin Wang <benjamin.wang@merck.com>

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Package TruncatedNormal updated to version 2.3 with previous version 2.2.2 dated 2021-09-08

Title: Truncated Multivariate Normal and Student Distributions
Description: A collection of functions to deal with the truncated univariate and multivariate normal and Student distributions, described in Botev (2017) <doi:10.1111/rssb.12162> and Botev and L'Ecuyer (2015) <doi:10.1109/WSC.2015.7408180>.
Author: Zdravko Botev [aut] , Leo Belzile [aut, cre]
Maintainer: Leo Belzile <belzilel@gmail.com>

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Package SimDesign updated to version 2.16 with previous version 2.15.1 dated 2024-04-24

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]
Maintainer: Phil Chalmers <rphilip.chalmers@gmail.com>

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Package Compositional updated to version 6.9 with previous version 6.8 dated 2024-04-01

Title: Compositional Data Analysis
Description: Regression, classification, contour plots, hypothesis testing and fitting of distributions for compositional data are some of the functions included. We further include functions for percentages (or proportions). The standard textbook for such data is John Aitchison's (1986) "The statistical analysis of compositional data". Relevant papers include: a) Tsagris M.T., Preston S. and Wood A.T.A. (2011). "A data-based power transformation for compositional data". Fourth International International Workshop on Compositional Data Analysis. <doi:10.48550/arXiv.1106.1451> b) Tsagris M. (2014). "The k-NN algorithm for compositional data: a revised approach with and without zero values present". Journal of Data Science, 12(3): 519--534. <doi:10.6339/JDS.201407_12(3).0008>. c) Tsagris M. (2015). "A novel, divergence based, regression for compositional data". Proceedings of the 28th Panhellenic Statistics Conference, 15-18 April 2015, Athens, Greece, 430--444. <doi:10.48550/arXiv.151 [...truncated...]
Author: Michail Tsagris [aut, cre], Giorgos Athineou [aut], Abdulaziz Alenazi [ctb], Christos Adam [ctb]
Maintainer: Michail Tsagris <mtsagris@uoc.gr>

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Package WeibullR.plotly updated to version 0.2.1 with previous version 0.2.0 dated 2023-10-14

Title: Interactive Weibull Probability Plots with 'WeibullR'
Description: Build interactive Weibull Probability Plots with 'WeibullR' by David Silkworth and Jurgen Symynck (2022) <https://CRAN.R-project.org/package=WeibullR>, an R package for Weibull analysis, and 'plotly' by Carson Sievert (2020) <https://plotly-r.com>, an interactive web-based graphing library.
Author: Paul Govan [aut, cre, cph]
Maintainer: Paul Govan <paul.govan2@gmail.com>

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Package surveil updated to version 0.3.0 with previous version 0.2.2 dated 2023-10-02

Title: Time Series Models for Disease Surveillance
Description: Fits time trend models for routine disease surveillance tasks and returns probability distributions for a variety of quantities of interest, including age-standardized rates, period and cumulative percent change, and measures of health inequality. The models are appropriate for count data such as disease incidence and mortality data, employing a Poisson or binomial likelihood and the first-difference (random-walk) prior for unknown risk. Optionally add a covariance matrix for multiple, correlated time series models. Inference is completed using Markov chain Monte Carlo via the Stan modeling language. References: Donegan, Hughes, and Lee (2022) <doi:10.2196/34589>; Stan Development Team (2021) <https://mc-stan.org>; Theil (1972, ISBN:0-444-10378-3).
Author: Connor Donegan [aut, cre]
Maintainer: Connor Donegan <connor.donegan@gmail.com>

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Package hgwrr updated to version 0.4-0 with previous version 0.3-0 dated 2023-05-26

Title: Hierarchical and Geographically Weighted Regression
Description: This model divides coefficients into three types, i.e., local fixed effects, global fixed effects, and random effects (Hu et al., 2022)<doi:10.1177/23998083211063885>. If data have spatial hierarchical structures (especially are overlapping on some locations), it is worth trying this model to reach better fitness.
Author: Yigong Hu, Richard Harris, Richard Timmerman
Maintainer: Yigong Hu <yigong.hu@bristol.ac.uk>

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Package QuickJSR updated to version 1.3.0 with previous version 1.2.2 dated 2024-06-07

Title: Interface for the 'QuickJS' Lightweight 'JavaScript' Engine
Description: An 'R' interface to the 'QuickJS' portable 'JavaScript' engine. The engine and all 'R' to 'JavaScript' interoperability is bundled within the package, requiring no dependencies beyond a 'C' compiler.
Author: Andrew R. Johnson [aut, cre] , Fabrice Bellard [cph] , Charlie Gordon [cph] , QuickJS-NG Authors [cph]
Maintainer: Andrew R. Johnson <andrew.johnson@arjohnsonau.com>

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Package PointedSDMs updated to version 2.1.0 with previous version 1.3.2 dated 2024-02-02

Title: Fit Models Derived from Point Processes to Species Distributions using 'inlabru'
Description: Integrated species distribution modeling is a rising field in quantitative ecology thanks to significant rises in the quantity of data available, increases in computational speed and the proven benefits of using such models. Despite this, the general software to help ecologists construct such models in an easy-to-use framework is lacking. We therefore introduce the R package 'PointedSDMs': which provides the tools to help ecologists set up integrated models and perform inference on them. There are also functions within the package to help run spatial cross-validation for model selection, as well as generic plotting and predicting functions. An introduction to these methods is discussed in Issac, Jarzyna, Keil, Dambly, Boersch-Supan, Browning, Freeman, Golding, Guillera-Arroita, Henrys, Jarvis, Lahoz-Monfort, Pagel, Pescott, Schmucki, Simmonds and O’Hara (2020) <doi:10.1016/j.tree.2019.08.006>.
Author: Philip Mostert [aut, cre], Bob O'hara [aut]
Maintainer: Philip Mostert <philip.s.mostert@ntnu.no>

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Package gitignore updated to version 0.1.7 with previous version 0.1.6 dated 2023-12-12

Title: Create Useful .gitignore Files for your Project
Description: Simple interface to query gitignore.io to fetch gitignore templates that can be included in the .gitignore file. More than 450 templates are currently available.
Author: Philippe Massicotte [aut, cre] , Amanda Dobbyn [rev], Mauro Lepore [rev]
Maintainer: Philippe Massicotte <pmassicotte@hotmail.com>

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Package customiser updated to version 0.1.1 with previous version 0.1.0 dated 2024-06-24

Title: Use R Markdown to Write your "Rprofile"
Description: A simple way to write ".Rprofile" code in an R Markdown file and have it knit to the correct location for your operating system.
Author: James Laird-Smith [aut, cre, cph]
Maintainer: James Laird-Smith <jameslairdsmith@gmail.com>

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Package convevol updated to version 2.2.0 with previous version 2.0.1 dated 2023-06-30

Title: Analysis of Convergent Evolution
Description: Quantifies and assesses the significance of convergent evolution using multiple methods and measures as described in Stayton (2015) <DOI: 10.1111/evo.12729> and Grossnickle et al. 2023. Also displays results in various ways.
Author: William Brightly [aut], C. Tristan Stayton [aut, cre]
Maintainer: C. Tristan Stayton <tstayton@bucknell.edu>

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Package optiSel updated to version 2.0.9 with previous version 2.0.8 dated 2024-06-12

Title: Optimum Contribution Selection and Population Genetics
Description: A framework for the optimization of breeding programs via optimum contribution selection and mate allocation. An easy to use set of function for computation of optimum contributions of selection candidates, and of the population genetic parameters to be optimized. These parameters can be estimated using pedigree or genotype information, and include kinships, kinships at native haplotype segments, and breed composition of crossbred individuals. They are suitable for managing genetic diversity, removing introgressed genetic material, and accelerating genetic gain. Additionally, functions are provided for computing genetic contributions from ancestors, inbreeding coefficients, the native effective size, the native genome equivalent, pedigree completeness, and for preparing and plotting pedigrees. The methods are described in:\n Wellmann, R., and Pfeiffer, I. (2009) <doi:10.1017/S0016672309000202>.\n Wellmann, R., and Bennewitz, J. (2011) <doi:10.2527/jas.2010-3709>.\n Wellmann [...truncated...]
Author: Robin Wellmann [aut, cre]
Maintainer: Robin Wellmann <r.wellmann@uni-hohenheim.de>

Diff between optiSel versions 2.0.8 dated 2024-06-12 and 2.0.9 dated 2024-07-08

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Package jskm updated to version 0.5.5 with previous version 0.5.3 dated 2024-01-26

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 collapse updated to version 2.0.15 with previous version 2.0.14 dated 2024-05-24

Title: Advanced and Fast Data Transformation
Description: A C/C++ based package for advanced data transformation and statistical computing in R that is extremely fast, class-agnostic, robust and programmer friendly. Core functionality includes a rich set of S3 generic grouped and weighted statistical functions for vectors, matrices and data frames, which provide efficient low-level vectorizations, OpenMP multithreading, and skip missing values by default. These are integrated with fast grouping and ordering algorithms (also callable from C), and efficient data manipulation functions. The package also provides a flexible and rigorous approach to time series and panel data in R. It further includes fast functions for common statistical procedures, detailed (grouped, weighted) summary statistics, powerful tools to work with nested data, fast data object conversions, functions for memory efficient R programming, and helpers to effectively deal with variable labels, attributes, and missing data. It is well integrated with base R classes, 'dplyr'/' [...truncated...]
Author: Sebastian Krantz [aut, cre] , Matt Dowle [ctb], Arun Srinivasan [ctb], Morgan Jacob [ctb], Dirk Eddelbuettel [ctb], Laurent Berge [ctb], Kevin Tappe [ctb], R Core Team and contributors worldwide [ctb], Martyn Plummer [cph], 1999-2016 The R Core Team [...truncated...]
Maintainer: Sebastian Krantz <sebastian.krantz@graduateinstitute.ch>

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Package rmsb updated to version 1.1-1 with previous version 1.1-0 dated 2024-03-12

Title: Bayesian Regression Modeling Strategies
Description: A Bayesian companion to the 'rms' package, 'rmsb' provides Bayesian model fitting, post-fit estimation, and graphics. It implements Bayesian regression models whose fit objects can be processed by 'rms' functions such as 'contrast()', 'summary()', 'Predict()', 'nomogram()', and 'latex()'. The fitting function currently implemented in the package is 'blrm()' for Bayesian logistic binary and ordinal regression with optional clustering, censoring, and departures from the proportional odds assumption using the partial proportional odds model of Peterson and Harrell (1990) <https://www.jstor.org/stable/2347760>.
Author: Frank Harrell [aut, cre] , Ben Goodrich [ctb] , Ben Bolker [ctb] , Doug Bates [ctb]
Maintainer: Frank Harrell <fh@fharrell.com>

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More information about rmsb at CRAN
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Package LUCIDus updated to version 3.0.2 with previous version 3.0.1 dated 2023-10-31

Title: LUCID with Multiple Omics Data
Description: An implementation of estimating the Latent Unknown Clusters By Integrating Multi-omics Data (LUCID) model (Peng (2019) <doi:10.1093/bioinformatics/btz667>). LUCID conducts integrated clustering using exposures, omics information (and outcome information as an option). This package implements three different integration strategies for multi-omics data analysis within the LUCID framework: LUCID early integration (the original LUCID model), LUCID in parallel (intermediate integration), and LUCID in serial (late integration). Automated model selection for each LUCID model is available to obtain the optimal number of latent clusters, and an integrated imputation approach is implemented to handle sporadic and list-wise missingness in multi-omics data. Lasso-type regularity for exposure and omics features were added. S3 methods for summary and plotting functions were fixed.
Author: Qiran Jia [aut, cre] , Yinqi Zhao [aut] , David Conti [ths] , Jesse Goodrich [ctb]
Maintainer: Qiran Jia <qiranjia@usc.edu>

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Package ClusBoot updated to version 1.2.2 with previous version 1.2.1 dated 2023-10-17

Title: Bootstrap a Clustering Solution to Establish the Stability of the Clusters
Description: Providing a cluster allocation for n samples, either with an $n \times p$ data matrix or an $n \times n$ distance matrix, a bootstrap procedure is performed. The proportion of bootstrap replicates where a pair of samples cluster in the same cluster indicates who tightly the samples in a particular cluster clusters together.
Author: Sugnet Lubbe [aut, cre, cph]
Maintainer: Sugnet Lubbe <slubbe@sun.ac.za>

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Package PPCDT updated to version 0.2.0 with previous version 0.1.0 dated 2024-05-25

Title: An Optimal Subset Selection for Distributed Hypothesis Testing
Description: In the era of big data, data redundancy and distributed characteristics present novel challenges to data analysis. This package introduces a method for estimating optimal subsets of redundant distributed data, based on PPCDT (Conjunction of Power and P-value in Distributed Settings). Leveraging PPC technology, this approach can efficiently extract valuable information from redundant distributed data and determine the optimal subset. Experimental results demonstrate that this method not only enhances data quality and utilization efficiency but also assesses its performance effectively. The philosophy of the package is described in Guo G. (2020) <doi:10.1007/s00180-020-00974-4>.
Author: Guangbao Guo [aut, cre, cph], Jiarui Li [ctb]
Maintainer: Guangbao Guo <ggb11111111@163.com>

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Package paws.common updated to version 0.7.4 with previous version 0.7.3 dated 2024-05-15

Title: Paws Low-Level Amazon Web Services API
Description: Functions for making low-level API requests to Amazon Web Services <https://aws.amazon.com>. The functions handle building, signing, and sending requests, and receiving responses. They are designed to help build higher-level interfaces to individual services, such as Simple Storage Service (S3).
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 bbk updated to version 0.4.0 with previous version 0.3.0 dated 2024-06-12

Title: Client for the Deutsche Bundesbank and European Central Bank APIs
Description: Download data and metadata from the 'Bundesbank SDMX Web Service API' found at <https://www.bundesbank.de/en/statistics/time-series-databases/help-for-sdmx-web-service/web-service-interface-data> and the 'ECB Data Portal API' found at <https://data.ecb.europa.eu/help/api/overview>.
Author: Maximilian Muecke [aut, cre]
Maintainer: Maximilian Muecke <muecke.maximilian@gmail.com>

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New package BaSTA with initial version 2.0.0
Package: BaSTA
Title: Age-Specific Bayesian Survival Trajectory Analysis from Incomplete Census or Capture-Recapture/Recovery Data
Version: 2.0.0
Date: 2024-07-05
Depends: R (>= 3.5.0)
Imports: snowfall (>= 1.84-6-2)
Description: Estimates survival and mortality with covariates from census or capture-recapture/recovery data in a Bayesian framework when many individuals are of unknown age. It includes tools for data checking, model diagnostics and outputs such as life-tables and plots, as described in Colchero, Jones, and Rebke (2012) <doi:10.1111/j.2041-210X.2012.00186.x> and Colchero et al. (2021) <doi:10.1038/s41467-021-23894-3>.
License: GPL (>= 3)
LazyData: yes
NeedsCompilation: no
Packaged: 2024-07-08 08:47:00 UTC; fernando_colchero
Author: Fernando Colchero [aut, cre], Owen Jones [ctb]
Maintainer: Fernando Colchero <fernando_colchero@eva.mpg.de>
Repository: CRAN
Date/Publication: 2024-07-08 11:00:09 UTC

More information about BaSTA at CRAN
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Package DiscreteFDR updated to version 2.0.0 with previous version 1.3.7 dated 2024-02-08

Title: FDR Based Multiple Testing Procedures with Adaptation for Discrete Tests
Description: Implementations of the multiple testing procedures for discrete tests described in the paper Döhler, Durand and Roquain (2018) "New FDR bounds for discrete and heterogeneous tests" <doi:10.1214/18-EJS1441>. The main procedures of the paper (HSU and HSD), their adaptive counterparts (AHSU and AHSD), and the HBR variant are available and are coded to take as input the results of a test procedure from package 'DiscreteTests', or a set of observed p-values and their discrete support under their nulls. A shortcut function to obtain such p-values and supports is also provided, along with a wrapper allowing to apply discrete procedures directly to data.
Author: Sebastian Doehler [aut, ctb], Florian Junge [aut, ctb, cre], Guillermo Durand [aut, ctb], Etienne Roquain [ctb], Christina Kihn [ctb]
Maintainer: Florian Junge <diso.fbmn@h-da.de>

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Package biplotEZ updated to version 2.0 with previous version 1.2.0 dated 2023-11-28

Title: EZ-to-Use Biplots
Description: Provides users with an EZ-to-use platform for representing data with biplots. Currently principal component analysis (PCA) and canonical variate analysis (CVA) biplots are included. This is accompanied by various formatting options for the samples and axes. Alpha-bags and concentration ellipses are included for visual enhancements and interpretation. For an extensive discussion on the topic, see Gower, J.C., Lubbe, S. and le Roux, N.J. (2011, ISBN: 978-0-470-01255-0) Understanding Biplots. Wiley: Chichester.
Author: Sugnet Lubbe [aut, cre, cph] , Niel le Roux [aut] , Johane Nienkemper-Swanepoel [aut] , Raeesa Ganey [aut] , Ruan Buys [aut] , Zoe-Mae Adams [aut] , Peter Manefeldt [aut]
Maintainer: Sugnet Lubbe <muvisu@sun.ac.za>

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Permanent link

Package rethnicity updated to version 0.2.5 with previous version 0.2.4 dated 2023-03-13

Title: Predicting Ethnic Group from Names
Description: Implementation of the race/ethnicity prediction method, described in "rethnicity: An R package for predicting ethnicity from names" by Fangzhou Xie (2022) <doi:10.1016/j.softx.2021.100965> and "Rethnicity: Predicting Ethnicity from Names" by Fangzhou Xie (2021) <doi:10.48550/arXiv.2109.09228>.
Author: Fangzhou Xie [aut, cre]
Maintainer: Fangzhou Xie <fangzhou.xie@rutgers.edu>

Diff between rethnicity versions 0.2.4 dated 2023-03-13 and 0.2.5 dated 2024-07-08

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Package splines2 updated to version 0.5.3 with previous version 0.5.2 dated 2024-05-09

Title: Regression Spline Functions and Classes
Description: Constructs basis functions of B-splines, M-splines, I-splines, convex splines (C-splines), periodic splines, natural cubic splines, generalized Bernstein polynomials, their derivatives, and integrals (except C-splines) by closed-form recursive formulas. It also contains a C++ head-only library integrated with Rcpp. See Wang and Yan (2021) <doi:10.6339/21-JDS1020> for details.
Author: Wenjie Wang [aut, cre] , Jun Yan [aut]
Maintainer: Wenjie Wang <wang@wwenjie.org>

Diff between splines2 versions 0.5.2 dated 2024-05-09 and 0.5.3 dated 2024-07-08

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New package translit.uk with initial version 1.0.0
Package: translit.uk
Title: Ukrainian to Latin Transliteration
Version: 1.0.0
Description: Provides a robust and user-friendly solution for transliterating Ukrainian strings into Latin symbols.
License: MIT + file LICENSE
Encoding: UTF-8
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
URL: https://github.com/Amice13/translit.uk
BugReports: https://github.com/Amice13/translit.uk/issues
NeedsCompilation: no
Packaged: 2024-07-04 14:49:17 UTC; kiril
Author: Kyrylo Zakharov [aut, cre]
Maintainer: Kyrylo Zakharov <kirillzakharov13@gmail.com>
Repository: CRAN
Date/Publication: 2024-07-08 05:10:02 UTC

More information about translit.uk at CRAN
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New package taxnames with initial version 0.1.0
Package: taxnames
Version: 0.1.0
Encoding: UTF-8
Title: Formatting Taxonomic Names in Markdown
Depends: R (>= 4.3.0)
Imports: taxlist (>= 0.3.0)
Suggests: testthat (>= 3.0.0)
Description: A collection of functions used to format taxonomic names in Markdown documents. Those functions work with data structured according to Alvarez and Luebert (2018) <doi:10.3897/bdj.6.e23635>.
License: GPL-3
URL: https://github.com/kamapu/taxnames
BugReports: https://github.com/kamapu/taxnames/issues
NeedsCompilation: no
Packaged: 2024-07-05 11:19:11 UTC; miguel
Author: Miguel Alvarez [aut, cre]
Maintainer: Miguel Alvarez <kamapu78@gmail.com>
Repository: CRAN
Date/Publication: 2024-07-08 05:10:05 UTC

More information about taxnames at CRAN
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New package Rdune with initial version 1.0.2
Package: Rdune
Title: 'Creates Color Palettes Inspired by Dune'
Version: 1.0.2
Maintainer: Nicholas Vietto <nicholasvietto@gmail.com>
Description: Enables the use of color palettes inspired by the 'Dune' movies. These palettes are compatible with 'ggplot2'. See Wickham (2016) <doi:10.1007/978-3-319-24277-4> for more details on 'ggplot2'.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: ggplot2, graphics, grDevices
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
URL: https://github.com/nvietto/Rdune
BugReports: https://github.com/nvietto/Rdune/issues
NeedsCompilation: no
Packaged: 2024-07-05 14:06:08 UTC; nicholasvietto
Author: Nicholas Vietto [aut, cre, cph]
Repository: CRAN
Date/Publication: 2024-07-08 05:30:05 UTC

More information about Rdune at CRAN
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Package RcppArmadillo updated to version 14.0.0-1 with previous version 0.12.8.4.0 dated 2024-05-31

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, Romain Francois, Doug Bates, Binxiang Ni, and Conrad Sanderson
Maintainer: Dirk Eddelbuettel <edd@debian.org>

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 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_clamp.hpp                            |   16 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_cond_rcond.hpp                       |    6 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_conv.hpp                             |    8 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_conv_to.hpp                          |   84 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_cor.hpp                              |    8 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_cov.hpp                              |    8 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_cross.hpp                            |    2 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_cumprod.hpp                          |    6 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_cumsum.hpp                           |    6 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_det.hpp                              |    6 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_diagmat.hpp                          |    8 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_diags_spdiags.hpp                    |   16 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_diagvec.hpp                          |   10 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_diff.hpp                             |    6 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_dot.hpp                              |   26 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_eig_gen.hpp                          |   38 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_eig_pair.hpp                         |   22 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_eig_sym.hpp                          |   22 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_eigs_gen.hpp                         |   42 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_eigs_sym.hpp                         |   30 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_elem.hpp                             |  166 -
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_eps.hpp                              |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_expmat.hpp                           |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_eye.hpp                              |   20 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_fft.hpp                              |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_fft2.hpp                             |    8 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_find.hpp                             |   38 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_find_unique.hpp                      |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_flip.hpp                             |    8 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_hess.hpp                             |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_hist.hpp                             |    6 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_histc.hpp                            |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_index_max.hpp                        |   14 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_index_min.hpp                        |   14 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_inplace_strans.hpp                   |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_inplace_trans.hpp                    |   14 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_interp1.hpp                          |   18 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_interp2.hpp                          |   32 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_intersect.hpp                        |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_inv.hpp                              |   16 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_inv_sympd.hpp                        |   16 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_join.hpp                             |   58 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_kmeans.hpp                           |    2 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_kron.hpp                             |    8 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_log_det.hpp                          |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_log_normpdf.hpp                      |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_logmat.hpp                           |   18 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_lu.hpp                               |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_max.hpp                              |   34 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_mean.hpp                             |   24 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_median.hpp                           |    6 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_min.hpp                              |   34 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_misc.hpp                             |   64 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_mvnrnd.hpp                           |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_n_unique.hpp                         |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_nonzeros.hpp                         |    8 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_norm.hpp                             |   18 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_normalise.hpp                        |    6 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_normcdf.hpp                          |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_normpdf.hpp                          |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_numel.hpp                            |   10 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_ones.hpp                             |   24 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_orth_null.hpp                        |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_pinv.hpp                             |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_polyfit.hpp                          |    6 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_polyval.hpp                          |    2 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_powext.hpp                           |   16 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_powmat.hpp                           |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_princomp.hpp                         |   18 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_prod.hpp                             |    6 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_qr.hpp                               |   20 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_quantile.hpp                         |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_qz.hpp                               |    6 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_randg.hpp                            |   36 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_randi.hpp                            |   40 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_randn.hpp                            |   48 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_randperm.hpp                         |   14 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_randu.hpp                            |   48 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_range.hpp                            |    6 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_rank.hpp                             |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_regspace.hpp                         |   24 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_repelem.hpp                          |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_repmat.hpp                           |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_reshape.hpp                          |   16 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_resize.hpp                           |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_reverse.hpp                          |    8 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_roots.hpp                            |    6 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_schur.hpp                            |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_shift.hpp                            |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_shuffle.hpp                          |    6 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_size.hpp                             |   46 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_solve.hpp                            |   24 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_sort.hpp                             |   16 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_sort_index.hpp                       |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_speye.hpp                            |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_spones.hpp                           |    2 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_sprandn.hpp                          |   14 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_sprandu.hpp                          |   14 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_spsolve.hpp                          |   22 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_sqrtmat.hpp                          |   18 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_stddev.hpp                           |   62 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_strans.hpp                           |    8 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_sum.hpp                              |   22 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_svd.hpp                              |   26 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_svds.hpp                             |   26 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_sylvester.hpp                        |    6 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_symmat.hpp                           |   16 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_toeplitz.hpp                         |    6 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_trace.hpp                            |   38 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_trans.hpp                            |    8 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_trapz.hpp                            |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_trig.hpp                             |   60 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_trimat.hpp                           |   16 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_trimat_ind.hpp                       |    8 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_trunc_exp.hpp                        |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_trunc_log.hpp                        |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_unique.hpp                           |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_var.hpp                              |   22 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_vecnorm.hpp                          |   42 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_vectorise.hpp                        |   14 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_wishrnd.hpp                          |   24 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/fn_zeros.hpp                            |   32 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/glue_affmul_meat.hpp                    |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/glue_atan2_meat.hpp                     |   16 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/glue_conv_meat.hpp                      |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/glue_cor_meat.hpp                       |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/glue_cov_meat.hpp                       |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/glue_cross_meat.hpp                     |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/glue_hist_meat.hpp                      |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/glue_histc_meat.hpp                     |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/glue_hypot_meat.hpp                     |    8 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/glue_intersect_meat.hpp                 |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/glue_join_meat.hpp                      |   52 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/glue_kron_meat.hpp                      |    8 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/glue_max_meat.hpp                       |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/glue_min_meat.hpp                       |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/glue_mixed_meat.hpp                     |   56 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/glue_mvnrnd_meat.hpp                    |   18 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/glue_polyfit_meat.hpp                   |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/glue_polyval_meat.hpp                   |    6 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/glue_powext_meat.hpp                    |   32 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/glue_quantile_meat.hpp                  |   16 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/glue_relational_meat.hpp                |   40 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/glue_solve_meat.hpp                     |  160 -
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/glue_times_meat.hpp                     |  151 -
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/glue_times_misc_meat.hpp                |   52 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/glue_toeplitz_meat.hpp                  |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/glue_trapz_meat.hpp                     |   18 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/gmm_diag_meat.hpp                       |  218 -
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/gmm_full_meat.hpp                       |  206 -
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/gmm_misc_meat.hpp                       |   10 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/injector_meat.hpp                       |   32 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/memory.hpp                              |    2 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/mtGlueCube_meat.hpp                     |    6 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/mtGlue_meat.hpp                         |    6 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/mtOpCube_meat.hpp                       |   14 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/mtOp_meat.hpp                           |   14 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/mtSpGlue_meat.hpp                       |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/mtSpOp_bones.hpp                        |    5 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/mtSpOp_meat.hpp                         |   19 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/mtSpReduceOp_bones.hpp                  |only
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/mtSpReduceOp_meat.hpp                   |only
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/mul_gemm.hpp                            |   22 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/mul_gemm_mixed.hpp                      |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/mul_gemv.hpp                            |   18 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/mul_herk.hpp                            |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/mul_syrk.hpp                            |   10 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/newarp_DenseGenMatProd_meat.hpp         |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/newarp_DoubleShiftQR_meat.hpp           |   32 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/newarp_GenEigsSolver_meat.hpp           |   30 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/newarp_SortEigenvalue.hpp               |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/newarp_SparseGenMatProd_meat.hpp        |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/newarp_SparseGenRealShiftSolve_meat.hpp |   14 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/newarp_SymEigsShiftSolver_meat.hpp      |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/newarp_SymEigsSolver_meat.hpp           |   30 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/newarp_TridiagEigen_meat.hpp            |   20 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/newarp_UpperHessenbergEigen_meat.hpp    |   20 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/newarp_UpperHessenbergQR_meat.hpp       |   24 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_all_meat.hpp                         |   20 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_any_meat.hpp                         |   20 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_chi2rnd_meat.hpp                     |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_chol_meat.hpp                        |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_clamp_meat.hpp                       |   52 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_col_as_mat_meat.hpp                  |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_cond_meat.hpp                        |   18 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_cor_meat.hpp                         |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_cov_meat.hpp                         |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_cumprod_meat.hpp                     |    8 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_cumsum_meat.hpp                      |    8 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_cx_scalar_meat.hpp                   |   24 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_det_meat.hpp                         |   16 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_diagmat_meat.hpp                     |   60 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_diagvec_meat.hpp                     |   42 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_diff_meat.hpp                        |    8 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_dot_bones.hpp                        |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_dot_meat.hpp                         |  168 -
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_dotext_meat.hpp                      |   10 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_expmat_meat.hpp                      |   24 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_fft_meat.hpp                         |   14 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_find_meat.hpp                        |   38 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_find_unique_meat.hpp                 |    6 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_flip_meat.hpp                        |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_hist_meat.hpp                        |    6 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_htrans_meat.hpp                      |   28 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_index_max_meat.hpp                   |   38 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_index_min_meat.hpp                   |   38 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_inv_gen_meat.hpp                     |   50 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_inv_spd_meat.hpp                     |   58 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_log_det_meat.hpp                     |   32 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_logmat_meat.hpp                      |   62 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_max_meat.hpp                         |   88 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_mean_meat.hpp                        |   46 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_median_meat.hpp                      |   34 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_min_meat.hpp                         |   88 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_misc_meat.hpp                        |   16 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_nonzeros_bones.hpp                   |   11 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_nonzeros_meat.hpp                    |   54 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_norm2est_meat.hpp                    |   36 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_norm_meat.hpp                        |   48 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_normalise_meat.hpp                   |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_orth_null_meat.hpp                   |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_pinv_meat.hpp                        |   20 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_powmat_meat.hpp                      |   24 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_princomp_meat.hpp                    |   10 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_prod_meat.hpp                        |   10 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_range_meat.hpp                       |   10 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_rank_meat.hpp                        |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_rcond_meat.hpp                       |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_relational_meat.hpp                  |   40 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_repelem_meat.hpp                     |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_repmat_meat.hpp                      |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_reshape_meat.hpp                     |   17 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_resize_meat.hpp                      |   15 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_reverse_meat.hpp                     |    6 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_roots_meat.hpp                       |    8 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_row_as_mat_meat.hpp                  |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_shift_meat.hpp                       |    8 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_shuffle_meat.hpp                     |   16 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_sort_index_meat.hpp                  |   14 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_sort_meat.hpp                        |   26 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_sp_as_dense_bones.hpp                |only
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_sp_as_dense_meat.hpp                 |only
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_sp_diagvec_bones.hpp                 |only
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_sp_diagvec_meat.hpp                  |only
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_sp_max_bones.hpp                     |only
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_sp_max_meat.hpp                      |only
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_sp_mean_bones.hpp                    |only
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_sp_mean_meat.hpp                     |only
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_sp_min_bones.hpp                     |only
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_sp_min_meat.hpp                      |only
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_sp_minus_bones.hpp                   |   20 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_sp_minus_meat.hpp                    |  176 -
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_sp_nonzeros_bones.hpp                |only
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_sp_nonzeros_meat.hpp                 |only
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_sp_plus_bones.hpp                    |    8 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_sp_plus_meat.hpp                     |   89 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_sp_stddev_bones.hpp                  |only
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_sp_stddev_meat.hpp                   |only
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_sp_sum_bones.hpp                     |only
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_sp_sum_meat.hpp                      |only
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_sp_var_bones.hpp                     |only
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_sp_var_meat.hpp                      |only
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_sp_vecnorm_bones.hpp                 |only
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_sp_vecnorm_meat.hpp                  |only
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_sqrtmat_meat.hpp                     |   54 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_stddev_bones.hpp                     |   11 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_stddev_meat.hpp                      |   99 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_strans_meat.hpp                      |   36 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_sum_meat.hpp                         |   20 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_symmat_meat.hpp                      |   16 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_toeplitz_meat.hpp                    |    8 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_trimat_meat.hpp                      |   28 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_unique_meat.hpp                      |   10 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_var_meat.hpp                         |   59 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_vecnorm_meat.hpp                     |   28 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_vectorise_meat.hpp                   |   24 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/op_wishrnd_meat.hpp                     |   32 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/operator_cube_div.hpp                   |   20 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/operator_cube_minus.hpp                 |   22 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/operator_cube_plus.hpp                  |   22 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/operator_cube_relational.hpp            |   40 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/operator_cube_schur.hpp                 |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/operator_cube_times.hpp                 |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/operator_div.hpp                        |   32 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/operator_minus.hpp                      |   97 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/operator_ostream.hpp                    |   22 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/operator_plus.hpp                       |   50 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/operator_relational.hpp                 |  270 +
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/operator_schur.hpp                      |   28 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/operator_times.hpp                      |   44 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/podarray_meat.hpp                       |   36 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/restrictors.hpp                         |   15 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/running_stat_meat.hpp                   |   40 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/running_stat_vec_meat.hpp               |   50 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/sp_auxlib_meat.hpp                      |  266 -
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/spdiagview_meat.hpp                     |  102 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/spglue_join_meat.hpp                    |   34 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/spglue_kron_meat.hpp                    |    6 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/spglue_max_meat.hpp                     |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/spglue_merge_meat.hpp                   |    8 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/spglue_min_meat.hpp                     |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/spglue_minus_meat.hpp                   |   18 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/spglue_plus_meat.hpp                    |   14 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/spglue_relational_meat.hpp              |   24 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/spglue_schur_meat.hpp                   |   18 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/spglue_times_meat.hpp                   |   10 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/spop_diagmat_meat.hpp                   |   26 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/spop_htrans_meat.hpp                    |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/spop_misc_bones.hpp                     |   11 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/spop_misc_meat.hpp                      |  106 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/spop_norm_meat.hpp                      |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/spop_normalise_meat.hpp                 |    8 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/spop_relational_bones.hpp               |only
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/spop_relational_meat.hpp                |only
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/spop_repmat_meat.hpp                    |    6 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/spop_reverse_meat.hpp                   |    8 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/spop_shift_meat.hpp                     |    6 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/spop_strans_meat.hpp                    |    6 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/spop_symmat_meat.hpp                    |    8 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/spop_trimat_meat.hpp                    |   22 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/spop_vectorise_meat.hpp                 |   10 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/spsolve_factoriser_meat.hpp             |   32 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/strip.hpp                               |   20 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/subview_cube_each_meat.hpp              |   86 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/subview_cube_meat.hpp                   |  198 -
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/subview_cube_slices_meat.hpp            |   80 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/subview_each_meat.hpp                   |  104 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/subview_elem1_meat.hpp                  |  136 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/subview_elem2_meat.hpp                  |  122 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/subview_field_meat.hpp                  |   36 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/subview_meat.hpp                        |  536 +--
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/sym_helper.hpp                          |   16 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/traits.hpp                              |   27 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/trimat_helper.hpp                       |    8 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/unwrap.hpp                              |  499 ++-
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/unwrap_cube.hpp                         |   14 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/unwrap_spmat.hpp                        |   42 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/wall_clock_meat.hpp                     |   12 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/xtrans_mat_meat.hpp                     |    4 
 RcppArmadillo-14.0.0-1/RcppArmadillo/inst/include/armadillo_bits/xvec_htrans_meat.hpp                    |    4 
 435 files changed, 9892 insertions(+), 8570 deletions(-)

More information about RcppArmadillo at CRAN
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New package PCAPAM50 with initial version 1.0.0
Package: PCAPAM50
Title: Enhanced 'PAM50' Subtyping of Breast Cancer
Version: 1.0.0
Maintainer: Praveen-Kumar Raj-Kumar <p.rajkumar@wriwindber.org>
Description: Accurate classification of breast cancer tumors based on gene expression data is not a trivial task, and it lacks standard practices.The 'PAM50' classifier, which uses 50 gene centroid correlation distances to classify tumors, faces challenges with balancing estrogen receptor (ER) status and gene centering. The 'PCAPAM50' package leverages principal component analysis and iterative 'PAM50' calls to create a gene expression-based ER-balanced subset for gene centering, avoiding the use of protein expression-based ER data resulting into an enhanced Breast Cancer subtyping.
License: GPL (>= 3)
Copyright: 2024 Windber Research Institute, Windber, PA - 15963. All Rights Reserved.
Encoding: UTF-8
Suggests: testthat, knitr, rmarkdown
Imports: Biobase, lattice, ComplexHeatmap, impute
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-07-05 13:26:08 UTC; praveen
Author: Praveen-Kumar Raj-Kumar [aut, cre, cph], Jianfang Liu [aut], Jeffrey A. Hooke [aut], Albert J. Kovatich [aut], Leonid Kvecher [aut], Craig D. Shriver [aut], Hai Hu [aut, cph]
Repository: CRAN
Date/Publication: 2024-07-08 05:30:11 UTC

More information about PCAPAM50 at CRAN
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New package mlr3torch with initial version 0.1.0
Package: mlr3torch
Title: Deep Learning with 'mlr3'
Version: 0.1.0
Description: Deep Learning library that extends the mlr3 framework by building upon the 'torch' package. It allows to conveniently build, train, and evaluate deep learning models without having to worry about low level details. Custom architectures can be created using the graph language defined in 'mlr3pipelines'.
License: LGPL (>= 3)
Depends: mlr3 (>= 0.20.0), mlr3pipelines (>= 0.6.0), torch (>= 0.13.0), R (>= 3.5.0)
Imports: backports, checkmate (>= 2.2.0), data.table, lgr, methods, mlr3misc (>= 0.14.0), paradox (>= 1.0.0), R6, withr
Suggests: callr, future, ggplot2, igraph, jsonlite, knitr, magick, mlr3tuning (>= 1.0.0), progress, rmarkdown, rpart, viridis, visNetwork, testthat (>= 3.0.0), torchvision (>= 0.6.0), waldo
NeedsCompilation: no
ByteCompile: no
Encoding: UTF-8
Packaged: 2024-07-06 07:40:01 UTC; sebi
Author: Sebastian Fischer [cre, aut] , Bernd Bischl [ctb] , Lukas Burk [ctb] , Martin Binder [aut], Florian Pfisterer [ctb]
Maintainer: Sebastian Fischer <sebf.fischer@gmail.com>
Repository: CRAN
Date/Publication: 2024-07-08 05:40:02 UTC

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Package dynsurv updated to version 0.4-7 with previous version 0.4-6 dated 2023-11-28

Title: Dynamic Models for Survival Data
Description: Time-varying coefficient models for interval censored and right censored survival data including 1) Bayesian Cox model with time-independent, time-varying or dynamic coefficients for right censored and interval censored data studied by Sinha et al. (1999) <doi:10.1111/j.0006-341X.1999.00585.x> and Wang et al. (2013) <doi:10.1007/s10985-013-9246-8>, 2) Spline based time-varying coefficient Cox model for right censored data proposed by Perperoglou et al. (2006) <doi:10.1016/j.cmpb.2005.11.006>, and 3) Transformation model with time-varying coefficients for right censored data using estimating equations proposed by Peng and Huang (2007) <doi:10.1093/biomet/asm058>.
Author: Wenjie Wang [aut, cre] , Ming-Hui Chen [aut], Xiaojing Wang [aut], Jun Yan [aut]
Maintainer: Wenjie Wang <wang@wwenjie.org>

Diff between dynsurv versions 0.4-6 dated 2023-11-28 and 0.4-7 dated 2024-07-08

 ChangeLog                 |   19 +++++++++++-----
 DESCRIPTION               |    8 +++---
 MD5                       |   54 +++++++++++++++++++++++-----------------------
 R/bayesCox.R              |    2 -
 R/bayesCoxMcmc.R          |    2 -
 R/coef.R                  |    2 -
 R/data.R                  |    2 -
 R/dynsurv-package.R       |    9 ++++---
 R/jump.R                  |    2 -
 R/misc.R                  |    2 -
 R/plot.R                  |    2 -
 R/print.R                 |    2 -
 R/reexports.R             |    2 -
 R/splineCox.R             |    2 -
 R/survCurv.R              |    2 -
 R/tvTran.R                |    2 -
 inst/CITATION             |    4 +--
 man/dynsurv.Rd            |   20 +++++++++++++++++
 src/CoxModel.h            |    2 -
 src/DynamicCoxModel.h     |    2 -
 src/DynamicCoxModel_v2.h  |    2 -
 src/DynamicModel.h        |    2 -
 src/IntRegModel.h         |    2 -
 src/IntRegPrior.h         |   10 ++++----
 src/TimeIndepCoxModel.h   |    2 -
 src/TimeIndepModel.h      |    2 -
 src/TimeVaryingCoxModel.h |    2 -
 src/TimeVaryingModel.h    |    2 -
 28 files changed, 97 insertions(+), 69 deletions(-)

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New package aelab with initial version 0.4.0
Package: aelab
Title: Calculation of Greenhouse Gas Flux
Version: 0.4.0
Maintainer: Zhao-Jun Yong <nuannuan0425@gmail.com>
Description: Facilitate the analysis of data related to ecology, specifically the establishment of carbon budget. Currently, the package allows the below analysis. (i) the calculation of greenhouse gas flux based on data obtained from trace gas analyzer using the method described in Lin et al. (2024). (ii) the calculation of Dissolved Oxygen (DO) metabolism based on data obtained from dissolved oxygen data logger using the method described in Staehr et al. (2010). Lin et al. (2024) <doi:10.1016/j.scitotenv.2024.170768>. Staehr et al. (2024) <doi:10.4319/lom.2010.8.0628>.
Imports: tibble, lubridate, stats, dplyr, openxlsx, readxl, ggplot2, readr, tidyr
License: GPL (>= 3)
Encoding: UTF-8
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
Depends: R (>= 2.10)
VignetteBuilder: knitr
LazyData: true
NeedsCompilation: no
Packaged: 2024-07-05 15:18:24 UTC; yangshaojun
Author: Zhao-Jun Yong [cre, aut]
Repository: CRAN
Date/Publication: 2024-07-08 05:30:02 UTC

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New package rkriging with initial version 1.0
Package: rkriging
Title: Kriging Modeling
Version: 1.0
Description: An 'Eigen'-based computationally efficient 'C++' implementation for fitting various kriging models to data. This research is supported by U.S. National Science Foundation grant DMS-2310637.
License: GPL (>= 2)
Depends: R (>= 3.0.2)
Imports: Rcpp, nloptr (>= 1.2.0), methods, stats
LinkingTo: Rcpp, RcppEigen (>= 0.3.3.5.0), BH (>= 1.75.0.0), nloptr (>= 1.2.0)
Encoding: UTF-8
NeedsCompilation: yes
Packaged: 2024-07-04 19:08:48 UTC; billhuang
Author: Chaofan Huang [aut, cre], V. Roshan Joseph [aut]
Maintainer: Chaofan Huang <10billhuang01@gmail.com>
Repository: CRAN
Date/Publication: 2024-07-08 05:00:02 UTC

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