Wed, 08 Mar 2023

Package yamlet updated to version 0.10.18 with previous version 0.10.10 dated 2023-02-17

Title: Versatile Curation of Table Metadata
Description: A YAML-based mechanism for working with table metadata. Supports compact syntax for creating, modifying, viewing, exporting, importing, displaying, and plotting metadata coded as column attributes. The 'yamlet' dialect is valid 'YAML' with defaults and conventions chosen to improve readability. See ?yamlet, ?decorate.data.frame and ?modify.default. See ?read_yamlet ?write_yamlet, ?io_csv, and ?ggplot.decorated.
Author: Tim Bergsma
Maintainer: Tim Bergsma <bergsmat@gmail.com>

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Package taxadb updated to version 0.2.1 with previous version 0.2.0 dated 2023-02-14

Title: A High-Performance Local Taxonomic Database Interface
Description: Creates a local database of many commonly used taxonomic authorities and provides functions that can quickly query this data.
Author: Carl Boettiger [aut, cre] , Kari Norman [aut] , Jorrit Poelen [aut] , Scott Chamberlain [aut] , Noam Ross [ctb]
Maintainer: Carl Boettiger <cboettig@gmail.com>

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Package phase updated to version 1.2.9 with previous version 1.2.8 dated 2023-03-08

Title: Analyse Biological Time-Series Data
Description: Compiles functions to trim, bin, visualise, and analyse activity/sleep time-series data collected from the Drosophila Activity Monitor (DAM) system (Trikinetics, USA). The following methods were used to compute periodograms - Chi-square periodogram: Sokolove and Bushell (1978) <doi:10.1016/0022-5193(78)90022-X>, Lomb-Scargle periodogram: Lomb (1976) <doi:10.1007/BF00648343>, Scargle (1982) <doi:10.1086/160554> and Ruf (1999) <doi:10.1076/brhm.30.2.178.1422>, and Autocorrelation: Eijzenbach et al. (1986) <doi:10.1111/j.1440-1681.1986.tb00943.x>. Identification of activity peaks is done after using a Savitzky-Golay filter (Savitzky and Golay (1964) <doi:10.1021/ac60214a047>) to smooth raw activity data. Three methods to estimate anticipation of activity are used based on the following papers - Slope method: Fernandez et al. (2020) <doi:10.1016/j.cub.2020.04.025>, Harrisingh method: Harrisingh et al. (2007) <doi:10.1523/JNEUROSCI.3680-07.2007&g [...truncated...]
Author: Lakshman Abhilash [aut, cre]
Maintainer: Lakshman Abhilash <labhilash@gc.cuny.edu>

Diff between phase versions 1.2.8 dated 2023-03-08 and 1.2.9 dated 2023-03-08

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Package sparr updated to version 2.3-10 with previous version 2.2-17 dated 2022-11-09

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

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Package rules updated to version 1.0.2 with previous version 1.0.1 dated 2023-01-17

Title: Model Wrappers for Rule-Based Models
Description: Bindings for additional models for use with the 'parsnip' package. Models include prediction rule ensembles (Friedman and Popescu, 2008) <doi:10.1214/07-AOAS148>, C5.0 rules (Quinlan, 1992 ISBN: 1558602380), and Cubist (Kuhn and Johnson, 2013) <doi:10.1007/978-1-4614-6849-3>.
Author: Emil Hvitfeldt [aut, cre] , Max Kuhn [aut] , Posit Software, PBC [cph, fnd]
Maintainer: Emil Hvitfeldt <emil.hvitfeldt@posit.co>

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Package rmumps updated to version 5.2.1-23 with previous version 5.2.1-22 dated 2023-01-12

Title: Wrapper for MUMPS Library
Description: Some basic features of 'MUMPS' (Multifrontal Massively Parallel sparse direct Solver) are wrapped in a class whose methods can be used for sequentially solving a sparse linear system (symmetric or not) with one or many right hand sides (dense or sparse). There is a possibility to do separately symbolic analysis, LU (or LDL^t) factorization and system solving. Third part ordering libraries are included and can be used: 'PORD', 'METIS', 'SCOTCH'. 'MUMPS' method was first described in Amestoy et al. (2001) <doi:10.1137/S0895479899358194> and Amestoy et al. (2006) <doi:10.1016/j.parco.2005.07.004>.
Author: Serguei Sokol [aut, cre], Emmanuel Agullo [ctb], Patrick Amestoy [ctb, cph], Maurice Bremond [ctb], Alfredo Buttari [ctb], Philippe Combes [ctb], Marie Durand [ctb], Aurelia Fevre [ctb], Abdou Guermouche [ctb], Guillaume Joslin [ctb], Jacko Koster [c [...truncated...]
Maintainer: Serguei Sokol <sokol@insa-toulouse.fr>

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Package modelenv updated to version 0.1.1 with previous version 0.1.0 dated 2022-10-17

Title: Provide Tools to Register Models for Use in 'tidymodels'
Description: An developer focused, low dependency package in 'tidymodels' that provides functions to register how models are to be used. Functions to register models are complimented with accessor functions to retrieve registered model information to aid in model fitting and error handling.
Author: Emil Hvitfeldt [aut, cre] , Posit Software, PBC [cph, fnd]
Maintainer: Emil Hvitfeldt <emil.hvitfeldt@posit.co>

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Package mlr3tuningspaces updated to version 0.3.5 with previous version 0.3.4 dated 2023-03-02

Title: Search Spaces for 'mlr3'
Description: Collection of search spaces for hyperparameter optimization in the 'mlr3' ecosystem. It features ready-to-use search spaces for many popular machine learning algorithms. The search spaces are from scientific articles and work for a wide range of data sets.
Author: Marc Becker [cre, aut] , Michel Lang [ctb]
Maintainer: Marc Becker <marcbecker@posteo.de>

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Package gdiff updated to version 0.2-5 with previous version 0.2-4 dated 2022-07-14

Title: Graphical Difference Testing
Description: Functions for performing graphical difference testing. Differences are generated between raster images. Comparisons can be performed between different package versions and between different R versions.
Author: Paul Murrell
Maintainer: Paul Murrell <paul@stat.auckland.ac.nz>

Diff between gdiff versions 0.2-4 dated 2022-07-14 and 0.2-5 dated 2023-03-08

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Package BAMBI updated to version 2.3.5 with previous version 2.3.4 dated 2022-09-02

Title: Bivariate Angular Mixture Models
Description: Fit (using Bayesian methods) and simulate mixtures of univariate and bivariate angular distributions. Chakraborty and Wong (2021) <doi:10.18637/jss.v099.i11>.
Author: Saptarshi Chakraborty, Samuel W.K. Wong
Maintainer: Saptarshi Chakraborty <chakra.saptarshi@gmail.com>

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Package tsbox updated to version 0.4 with previous version 0.3.1 dated 2021-09-16

Title: Class-Agnostic Time Series
Description: Time series toolkit with identical behavior for all time series classes: 'ts','xts', 'data.frame', 'data.table', 'tibble', 'zoo', 'timeSeries', 'tsibble', 'tis' or 'irts'. Also converts reliably between these classes.
Author: Christoph Sax [aut, cre] , Cathy Chamberlin [rev], Nunes Matt [rev]
Maintainer: Christoph Sax <christoph.sax@gmail.com>

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Package parttime updated to version 0.1.1 with previous version 0.1.0 dated 2022-11-04

Title: Partial Datetime Handling
Description: Datetimes and timestamps are invariably an imprecise notation, with any partial representation implying some amount of uncertainty. To handle this, 'parttime' provides classes for embedding partial missingness as a central part of its datetime classes. This central feature allows for more ergonomic use of datetimes for challenging datetime computation, including calculations of overlapping date ranges, imputations, and more thoughtful handling of ambiguity that arises from uncertain time zones. This package was developed first and foremost with pharmaceutical applications in mind, but aims to be agnostic to application to accommodate general use cases just as conveniently.
Author: Doug Kelkhoff [aut, cre], Bill Denney [ctb]
Maintainer: Doug Kelkhoff <doug.kelkhoff@gmail.com>

Diff between parttime versions 0.1.0 dated 2022-11-04 and 0.1.1 dated 2023-03-08

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Package jointVIP updated to version 0.1.2 with previous version 0.1.1 dated 2023-01-26

Title: Prioritize Variables with Joint Variable Importance Plot in Observational Study Design
Description: In the observational study design stage, matching/weighting methods are conducted. However, when many background variables are present, the decision as to which variables to prioritize for matching/weighting is not trivial. Thus, the joint treatment-outcome variable importance plots are created to guide variable selection. The joint variable importance plots enhance variable comparisons via unadjusted bias curves derived under the omitted variable bias framework. The plots translate variable importance into recommended values for tuning parameters in existing methods. Post-matching and/or weighting plots can also be used to visualize and assess the quality of the observational study design. The method motivation and derivation is presented in "Using Joint Variable Importance Plots to Prioritize Variables in Assessing the Impact of Glyburide on Adverse Birth Outcomes" by Liao et al. (2023) <arXiv:2301.09754>. See the package paper by Liao and Pimentel (2023) <arxiv:2302.10367&g [...truncated...]
Author: Lauren D. Liao [aut, cre] , Samuel D. Pimentel [aut]
Maintainer: Lauren D. Liao <ldliao@berkeley.edu>

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Package ecr updated to version 2.1.1 with previous version 2.1.0 dated 2017-07-10

Title: Evolutionary Computation in R
Description: Framework for building evolutionary algorithms for both single- and multi-objective continuous or discrete optimization problems. A set of predefined evolutionary building blocks and operators is included. Moreover, the user can easily set up custom objective functions, operators, building blocks and representations sticking to few conventions. The package allows both a black-box approach for standard tasks (plug-and-play style) and a much more flexible white-box approach where the evolutionary cycle is written by hand.
Author: Jakob Bossek [aut, cre, cph], Michael H. Buselli [ctb, cph], Wessel Dankers [ctb, cph], Carlos M. Fonseca [ctb, cph], Manuel Lopez-Ibanez [ctb, cph], Luis Paquete [ctb, cph], Joshua Knowles [ctb, cph], Eckart Zitzler [ctb, cph], Olaf Mersmann [ctb]
Maintainer: Jakob Bossek <j.bossek@gmail.com>

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Package discrim updated to version 1.0.1 with previous version 1.0.0 dated 2022-06-23

Title: Model Wrappers for Discriminant Analysis
Description: Bindings for additional classification models for use with the 'parsnip' package. Models include flavors of discriminant analysis, such as linear (Fisher (1936) <doi:10.1111/j.1469-1809.1936.tb02137.x>), regularized (Friedman (1989) <doi:10.1080/01621459.1989.10478752>), and flexible (Hastie, Tibshirani, and Buja (1994) <doi:10.1080/01621459.1994.10476866>), as well as naive Bayes classifiers (Hand and Yu (2007) <doi:10.1111/j.1751-5823.2001.tb00465.x>).
Author: Emil Hvitfeldt [aut, cre] , Max Kuhn [aut] , Posit Software, PBC [cph, fnd]
Maintainer: Emil Hvitfeldt <emil.hvitfeldt@posit.co>

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Package detect updated to version 0.4-6 with previous version 0.4-5 dated 2022-11-07

Title: Analyzing Wildlife Data with Detection Error
Description: Models for analyzing site occupancy and count data models with detection error, including single-visit based models, conditional distance sampling and time-removal models. Package development was supported by the Alberta Biodiversity Monitoring Institute and the Boreal Avian Modelling Project.
Author: Peter Solymos [cre, aut], Monica Moreno [aut], Subhash R. Lele [aut]
Maintainer: Peter Solymos <psolymos@gmail.com>

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Package cmfrec updated to version 3.5.1 with previous version 3.5.0 dated 2022-11-26

Title: Collective Matrix Factorization for Recommender Systems
Description: Collective matrix factorization (a.k.a. multi-view or multi-way factorization, Singh, Gordon, (2008) <doi:10.1145/1401890.1401969>) tries to approximate a (potentially very sparse or having many missing values) matrix 'X' as the product of two low-dimensional matrices, optionally aided with secondary information matrices about rows and/or columns of 'X', which are also factorized using the same latent components. The intended usage is for recommender systems, dimensionality reduction, and missing value imputation. Implements extensions of the original model (Cortes, (2018) <arXiv:1809.00366>) and can produce different factorizations such as the weighted 'implicit-feedback' model (Hu, Koren, Volinsky, (2008) <doi:10.1109/ICDM.2008.22>), the 'weighted-lambda-regularization' model, (Zhou, Wilkinson, Schreiber, Pan, (2008) <doi:10.1007/978-3-540-68880-8_32>), or the enhanced model with 'implicit features' (Rendle, Zhang, Koren, (2019) <arXiv:1905.01395>), with [...truncated...]
Author: David Cortes [aut, cre, cph], Jorge Nocedal [cph] , Naoaki Okazaki [cph] , David Blackman [cph] , Sebastiano Vigna [cph] , NumPy Developers [cph]
Maintainer: David Cortes <david.cortes.rivera@gmail.com>

Diff between cmfrec versions 3.5.0 dated 2022-11-26 and 3.5.1 dated 2023-03-08

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Package ggvis updated to version 0.4.8 with previous version 0.4.7 dated 2020-12-04

Title: Interactive Grammar of Graphics
Description: An implementation of an interactive grammar of graphics, taking the best parts of 'ggplot2', combining them with the reactive framework of 'shiny' and drawing web graphics using 'vega'.
Author: Winston Chang [aut, cre], Hadley Wickham [aut], RStudio [cph], jQuery Foundation [cph] , jQuery contributors [ctb, cph] , jQuery UI contributors [ctb, cph] , Mike Bostock [ctb, cph] , D3 contributors [ctb] , Trifacta Inc. [cph] , Vega contributors [c [...truncated...]
Maintainer: Winston Chang <winston@rstudio.com>

Diff between ggvis versions 0.4.7 dated 2020-12-04 and 0.4.8 dated 2023-03-08

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Package taylor updated to version 2.0.1 with previous version 2.0.0 dated 2022-11-07

Title: Lyrics and Song Data for Taylor Swift's Discography
Description: A comprehensive resource for data on Taylor Swift songs. Data is included for all officially released studio albums, extended plays (EPs), and individual singles are included. Data comes from 'Genius' (lyrics) and 'Spotify' (song characteristics). Additional functions are included for easily creating data visualizations with color palettes inspired by Taylor Swift's album covers.
Author: W. Jake Thompson [aut, cre, cph]
Maintainer: W. Jake Thompson <wjakethompson@gmail.com>

Diff between taylor versions 2.0.0 dated 2022-11-07 and 2.0.1 dated 2023-03-08

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Package TSP updated to version 1.2-3 with previous version 1.2-2 dated 2023-01-25

Title: Traveling Salesperson Problem (TSP)
Description: Basic infrastructure and some algorithms for the traveling salesperson problem (also traveling salesman problem; TSP). The package provides some simple algorithms and an interface to the Concorde TSP solver and its implementation of the Chained-Lin-Kernighan heuristic. The code for Concorde itself is not included in the package and has to be obtained separately. Hahsler and Hornik (2007) <doi:10.18637/jss.v023.i02>.
Author: Michael Hahsler [aut, cre, cph] , Kurt Hornik [aut, cph]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>

Diff between TSP versions 1.2-2 dated 2023-01-25 and 1.2-3 dated 2023-03-08

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Package printr updated to version 0.3 with previous version 0.2 dated 2021-09-27

Title: Automatically Print R Objects to Appropriate Formats According to the 'knitr' Output Format
Description: Extends the S3 generic function knit_print() in 'knitr' to automatically print some objects using an appropriate format such as Markdown or LaTeX. For example, data frames are automatically printed as tables, and the help() pages can also be rendered in 'knitr' documents.
Author: Yihui Xie [aut, cre]
Maintainer: Yihui Xie <xie@yihui.name>

Diff between printr versions 0.2 dated 2021-09-27 and 0.3 dated 2023-03-08

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Package mlr3tuning updated to version 0.18.0 with previous version 0.17.2 dated 2022-12-22

Title: Hyperparameter Optimization for 'mlr3'
Description: Hyperparameter optimization package of the 'mlr3' ecosystem. It features highly configurable search spaces via the 'paradox' package and finds optimal hyperparameter configurations for any 'mlr3' learner. 'mlr3tuning' works with several optimization algorithms e.g. Random Search, Iterated Racing, Bayesian Optimization (in 'mlr3mbo') and Hyperband (in 'mlr3hyperband'). Moreover, it can automatically optimize learners and estimate the performance of optimized models with nested resampling.
Author: Marc Becker [cre, aut] , Michel Lang [aut] , Jakob Richter [aut] , Bernd Bischl [aut] , Daniel Schalk [aut]
Maintainer: Marc Becker <marcbecker@posteo.de>

Diff between mlr3tuning versions 0.17.2 dated 2022-12-22 and 0.18.0 dated 2023-03-08

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New package metaGE with initial version 1.0.0
Package: metaGE
Title: Meta-Analysis for Detecting Genotype x Environment Associations
Version: 1.0.0
Maintainer: Annaïg De Walsche <annaig.de-walsche@inrae.fr>
Description: Meta-analysis of genome-wide association studies for studying Genotype x Environment interactions. The 4 main functions of the package metaGE.collect(), metaGE.cor(), metaGE.fit() and metaGE.test() correspond to 4 steps to perform the meta-analysis: Collecting the results of genome-wide association studies data from different files; Inferring the inter-environment correlation matrix; Performing global test procedure for quantitative trait loci detection (using a Fixed or Random effect model); Performing tests of contrast or meta-regression using an environmental co-factor. (De Walsche, A., et al. (2023) <doi:10.1101/2023.03.01.530237>).
License: GPL-3
Depends: R (>= 3.0.2)
Imports: circlize, ComplexHeatmap, corrplot, data.table, dplyr, emdbook, future, ggplot2, ggrepel, graphics, grid, ks, purrr, qqman, Rfast, stats, stringr, tibble, tidyr, utils, viridis
Encoding: UTF-8
LazyData: true
NeedsCompilation: no
Packaged: 2023-03-08 09:38:54 UTC; annai
Author: Annaïg De Walsche [aut, cre] , Tristan Mary-Huard [aut]
Repository: CRAN
Date/Publication: 2023-03-08 19:40:06 UTC

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New package MacroZooBenthosWaterA with initial version 0.1.0
Package: MacroZooBenthosWaterA
Title: Fresh Water Quality Analysis Based on Macrozoobenthos
Version: 0.1.0
Description: Includes functions for calculating basic indices of macrozoobenthos for water quality and is designed to provide researchers and environmental professionals with a comprehensive tool for evaluating the ecological health of aquatic ecosystems.The package is based on the following references: Paisley, M. F., Trigg, D. J. and Walley, W. J. (2014)<doi:10.1002/rra.2686>. Arslan, N., Salur, A., Kalyoncu, H. et al.(2016) <doi:10.1515/biolog-2016-0005>. Hilsenhoff W.L. (1987). Hilsenhoff. W.L. (1988) Barbour, M.T., Gerritsen, J., Snyder, B.D., and Stribling, J.B. (1999).
License: GPL (>= 3)
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2023-03-08 08:46:53 UTC; Admin
Author: Donard Geci [aut, cre, cph], Astrit Bilalli [aut], Halil Ibrahimi [aut], Milaim Musliu [aut], Linda Grapci-Kotori [aut], Agim Gashi [aut]
Maintainer: Donard Geci <donard.geci@uni-pr.edu>
Repository: CRAN
Date/Publication: 2023-03-08 19:40:12 UTC

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Package LGDtoolkit updated to version 0.1.0 with previous version 0.0.9 dated 2023-01-30

Title: Collection of Tools for LGD Rating Model Development
Description: The goal of this package is to cover the most common steps in Loss Given Default (LGD) rating model development. The main procedures available are those that refer to bivariate and multivariate analysis. In particular two statistical methods for multivariate analysis are currently implemented – OLS regression and fractional logistic regression. Both methods are also available within different blockwise model designs and both have customized stepwise algorithms. Descriptions of these customized designs are available in Siddiqi (2016) <doi:10.1002/9781119282396.ch10> and Anderson, R.A. (2021) <doi:10.1093/oso/9780192844194.001.0001>. Although they are explained for PD model, the same designs are applicable for LGD model with different underlying regression methods (OLS and fractional logistic regression). To cover other important steps for LGD model development, it is recommended to use 'LGDtoolkit' package along with 'PDtoolkit', and 'monobin' (or 'monobinShiny') packages.
Author: Andrija Djurovic [aut, cre]
Maintainer: Andrija Djurovic <djandrija@gmail.com>

Diff between LGDtoolkit versions 0.0.9 dated 2023-01-30 and 0.1.0 dated 2023-03-08

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New package FuncDiv with initial version 1.0.0
Package: FuncDiv
Title: Compute Contributional Diversity Metrics
Version: 1.0.0
Description: Compute alpha and beta contributional diversity metrics, which is intended for linking taxonomic and functional microbiome data. See 'GitHub' repository for the tutorial: <https://github.com/gavinmdouglas/FuncDiv/wiki>. Citation: Gavin M. Douglas, Sunu Kim, Morgan G. I. Langille, B. Jesse Shapiro (2023) <doi:10.1093/bioinformatics/btac809>.
License: AGPL-3
Depends: R (>= 3.5.0)
Imports: ape, collapse, data.table, parallel, parallelDist, Rcpp, RcppParallel, RcppXPtrUtils, stats
Suggests: testthat (>= 3.0.0)
LinkingTo: Rcpp, RcppArmadillo, RcppParallel
Encoding: UTF-8
NeedsCompilation: yes
Packaged: 2023-03-07 16:26:31 UTC; gavin
Author: Gavin Douglas [aut, cre]
Maintainer: Gavin Douglas <gavinmdouglas@gmail.com>
Repository: CRAN
Date/Publication: 2023-03-08 19:20:02 UTC

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New package DrugExposureDiagnostics with initial version 0.4.0
Package: DrugExposureDiagnostics
Title: Diagnostics for OMOP Common Data Model Drug Records
Version: 0.4.0
Description: Ingredient specific diagnostics for drug exposure records in the Observational Medical Outcomes Partnership (OMOP) common data model.
License: Apache License (>= 2)
Encoding: UTF-8
Depends: R (>= 4.0)
Imports: CDMConnector (>= 0.4.1), dplyr (>= 1.0.0), magrittr (>= 2.0.0), rlang (>= 1.0.0), tidyr (>= 1.2.0), tidyselect (>= 1.2.0), checkmate (>= 2.0.0), glue (>= 1.5.0)
Suggests: testthat (>= 3.0.0), duckdb, odbc, DBI, knitr, rmarkdown, zip, lubridate, tibble, DT, graphics
VignetteBuilder: knitr
Language: en-US
NeedsCompilation: no
Packaged: 2023-03-07 17:13:08 UTC; ginberg
Author: Ger Inberg [aut, cre] , Edward Burn [aut] , Yuchen Guo [ctb] , Marti Catala [ctb] , Mike Du [ctb] , Theresa Burkard [ctb] , Xintong Li [ctb] , Ross Williams [ctb] , Erasmus MC [cph]
Maintainer: Ger Inberg <g.inberg@erasmusmc.nl>
Repository: CRAN
Date/Publication: 2023-03-08 19:20:05 UTC

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Package BVAR updated to version 1.0.4 with previous version 1.0.3 dated 2022-02-25

Title: Hierarchical Bayesian Vector Autoregression
Description: Estimation of hierarchical Bayesian vector autoregressive models following Kuschnig & Vashold (2021) <doi:10.18637/jss.v100.i14>. Implements hierarchical prior selection for conjugate priors in the fashion of Giannone, Lenza & Primiceri (2015) <doi:10.1162/REST_a_00483>. Functions to compute and identify impulse responses, calculate forecasts, forecast error variance decompositions and scenarios are available. Several methods to print, plot and summarise results facilitate analysis.
Author: Nikolas Kuschnig [aut, cre] , Lukas Vashold [aut] , Nirai Tomass [ctb], Michael McCracken [dtc], Serena Ng [dtc]
Maintainer: Nikolas Kuschnig <nikolas.kuschnig@wu.ac.at>

Diff between BVAR versions 1.0.3 dated 2022-02-25 and 1.0.4 dated 2023-03-08

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Package bumbl updated to version 1.0.3 with previous version 1.0.2 dated 2022-05-13

Title: Tools for Modeling Bumblebee Colony Growth and Decline
Description: Bumblebee colonies grow during worker production, then decline after switching to production of reproductive individuals (drones and gynes). This package provides tools for modeling and visualizing this pattern by identifying a switchpoint with a growth rate before and a decline rate after the switchpoint. The mathematical models fit by bumbl are described in Crone and Williams (2016) <doi:10.1111/ele.12581>.
Author: Eric R. Scott [aut, cre]
Maintainer: Eric R. Scott <scottericr@gmail.com>

Diff between bumbl versions 1.0.2 dated 2022-05-13 and 1.0.3 dated 2023-03-08

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Package gtfsio updated to version 1.1.0 with previous version 1.0.0 dated 2021-11-06

Title: Read and Write General Transit Feed Specification (GTFS) Files
Description: Tools for the development of packages related to General Transit Feed Specification (GTFS) files. Establishes a standard for representing GTFS feeds using R data types. Provides fast and flexible functions to read and write GTFS feeds while sticking to this standard. Defines a basic 'gtfs' class which is meant to be extended by packages that depend on it. And offers utility functions that support checking the structure of GTFS objects.
Author: Daniel Herszenhut [aut, cre] , Flavio Poletti [aut], Mark Padgham [aut], Rafael H. M. Pereira [rev] , Tom Buckley [rev], Ipea - Institute for Applied Economic Research [cph, fnd]
Maintainer: Daniel Herszenhut <dhersz@gmail.com>

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Package sarp.snowprofile updated to version 1.3.2 with previous version 1.3.1 dated 2022-08-05

Title: Snow Profile Analysis for Snowpack and Avalanche Research
Description: Analysis and plotting tools for snow profile data produced from manual snowpack observations and physical snowpack models. The functions in this package support snowpack and avalanche research by reading various formats of data (including CAAML, SMET, generic csv, and outputs from the snow cover model SNOWPACK), manipulate the data, and produce graphics such as stratigraphy and time series profiles. Package developed by the Simon Fraser University Avalanche Research Program <http://www.avalancheresearch.ca>. Graphics apply visualization concepts from Horton, Nowak, and Haegeli (2020, <doi:10.5194/nhess-20-1557-2020>).
Author: Pascal Haegeli [aut, cre], Simon Horton [aut], Florian Herla [aut], SFU Avalanche Research Program [fnd]
Maintainer: Pascal Haegeli <pascal_haegeli@sfu.ca>

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Package mitml updated to version 0.4-5 with previous version 0.4-4 dated 2023-01-06

Title: Tools for Multiple Imputation in Multilevel Modeling
Description: Provides tools for multiple imputation of missing data in multilevel modeling. Includes a user-friendly interface to the packages 'pan' and 'jomo', and several functions for visualization, data management and the analysis of multiply imputed data sets.
Author: Simon Grund [aut,cre], Alexander Robitzsch [aut], Oliver Luedtke [aut]
Maintainer: Simon Grund <simon.grund@uni-hamburg.de>

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Package emmeans updated to version 1.8.5 with previous version 1.8.4-1 dated 2023-01-17

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

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Package dynaTree updated to version 1.2-15 with previous version 1.2-14 dated 2022-10-19

Title: Dynamic Trees for Learning and Design
Description: Inference by sequential Monte Carlo for dynamic tree regression and classification models with hooks provided for sequential design and optimization, fully online learning with drift, variable selection, and sensitivity analysis of inputs. Illustrative examples from the original dynamic trees paper (Gramacy, Taddy & Polson (2011); <doi:10.1198/jasa.2011.ap09769>) are facilitated by demos in the package; see demo(package="dynaTree").
Author: Robert B. Gramacy <rbg@vt.edu>, Matt A. Taddy and Christoforos Anagnostopoulos
Maintainer: Robert B. Gramacy <rbg@vt.edu>

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Package campfin updated to version 1.0.10 with previous version 1.0.9 dated 2022-05-24

Title: Wrangle Campaign Finance Data
Description: Explore and normalize American campaign finance data. Created by the Investigative Reporting Workshop to facilitate work on The Accountability Project, an effort to collect public data into a central, standard database that is more easily searched: <https://publicaccountability.org/>.
Author: Kiernan Nicholls [aut, cre, cph], Investigative Reporting Workshop [cph], Yanqi Xu [aut], Schuyler Erle [cph]
Maintainer: Kiernan Nicholls <kiernann@protonmail.com>

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Package wildmeta updated to version 0.3.2 with previous version 0.3.1 dated 2023-02-15

Title: Cluster Wild Bootstrapping for Meta-Analysis
Description: Conducts single coefficient tests and multiple-contrast hypothesis tests of meta-regression models using cluster wild bootstrapping, based on methods examined in Joshi, Pustejovsky, and Beretvas (2022) <DOI:10.1002/jrsm.1554>.
Author: Megha Joshi [aut, cre] , James Pustejovsky [aut] , Pierce Cappelli [aut]
Maintainer: Megha Joshi <megha.j456@gmail.com>

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Package NNS updated to version 0.9.6.1 with previous version 0.9.6 dated 2023-03-08

Title: Nonlinear Nonparametric Statistics
Description: Nonlinear nonparametric statistics using partial moments. Partial moments are the elements of variance and asymptotically approximate the area of f(x). These robust statistics provide the basis for nonlinear analysis while retaining linear equivalences. NNS offers: Numerical integration, Numerical differentiation, Clustering, Correlation, Dependence, Causal analysis, ANOVA, Regression, Classification, Seasonality, Autoregressive modeling, Normalization and Stochastic dominance. All routines based on: Viole, F. and Nawrocki, D. (2013), Nonlinear Nonparametric Statistics: Using Partial Moments (ISBN: 1490523995).
Author: Fred Viole [aut, cre], Roberto Spadim [ctb]
Maintainer: Fred Viole <ovvo.financial.systems@gmail.com>

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Package MultiATSM updated to version 0.3.1 with previous version 0.2.4 dated 2022-10-03

Title: Multicountry Term Structure of Interest Rates Models
Description: Estimation routines for several classes of affine term structure of interest rates models. All the models are based on the single-country unspanned macroeconomic risk framework from Joslin, Priebsch, and Singleton (2014) <doi:10.1111/jofi.12131>. Multicountry extensions such as the ones of Jotikasthira, Le, and Lundblad (2015) <doi:10.1016/j.jfineco.2014.09.004> and Candelon and Moura (2021) <http://hdl.handle.net/2078.1/249985> are also available.
Author: Rubens Moura
Maintainer: Rubens Moura <rubens.gtmoura@gmail.com>

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Package tibble updated to version 3.2.0 with previous version 3.1.8 dated 2022-07-22

Title: Simple Data Frames
Description: Provides a 'tbl_df' class (the 'tibble') with stricter checking and better formatting than the traditional data frame.
Author: Kirill Mueller [aut, cre] , Hadley Wickham [aut], Romain Francois [ctb], Jennifer Bryan [ctb], RStudio [cph, fnd]
Maintainer: Kirill Mueller <kirill@cynkra.com>

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Package ShortForm updated to version 0.5.2 with previous version 0.4.6 dated 2020-03-13

Title: Automatic Short Form Creation
Description: Performs automatic creation of short forms of scales with an ant colony optimization algorithm and a Tabu search. As implemented in the package, the ant colony algorithm randomly selects items to build a model of a specified length, then updates the probability of item selection according to the fit of the best model within each set of searches. The algorithm continues until the same items are selected by multiple ants a given number of times in a row. On the other hand, the Tabu search changes one parameter at a time to be either free, constrained, or fixed while keeping track of the changes made and putting changes that result in worse fit in a "tabu" list so that the algorithm does not revisit them for some number of searches. See Leite, Huang, & Marcoulides (2008) <doi:10.1080/00273170802285743> for an applied example of the ant colony algorithm, and Marcoulides & Falk (2018) <doi:10.1080/10705511.2017.1409074> for an applied example of the Tabu search.
Author: Anthony Raborn [aut, cre] , Walter Leite [aut]
Maintainer: Anthony Raborn <anthony.w.raborn@gmail.com>

Diff between ShortForm versions 0.4.6 dated 2020-03-13 and 0.5.2 dated 2023-03-08

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New package prefio with initial version 0.1.0
Package: prefio
Title: Structures for Preference Data
Description: Convenient structures for creating, sourcing, reading, writing and manipulating ordinal preference data. Methods for writing to/from PrefLib formats. See Nicholas Mattei and Toby Walsh "PrefLib: A Library of Preference Data" (2013) <doi:10.1007/978-3-642-41575-3_20>.
Version: 0.1.0
Depends: R (>= 2.10)
License: GPL-3
Encoding: UTF-8
URL: https://github.com/fleverest/prefio/, https://fleverest.github.io/prefio/
BugReports: https://github.com/fleverest/prefio/issues/
Imports: dplyr, magrittr, tidyr, stats
Suggests: covr, testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2023-03-07 14:07:11 UTC; dev
Author: Floyd Everest [aut, cre] , Heather Turner [aut] , Damjan Vukcevic [aut]
Maintainer: Floyd Everest <me@floydeverest.com>
Repository: CRAN
Date/Publication: 2023-03-08 15:10:02 UTC

More information about prefio at CRAN
Permanent link

Package pda updated to version 1.2.6 with previous version 1.2.5 dated 2023-02-22

Title: Privacy-Preserving Distributed Algorithms
Description: A collection of privacy-preserving distributed algorithms for conducting multi-site data analyses. The regression analyses can be linear regression for continuous outcome, logistic regression for binary outcome, Cox proportional hazard regression for time-to event outcome, Poisson regression for count outcome, or multi-categorical regression for nominal or ordinal outcome. The PDA algorithm runs on a lead site and only requires summary statistics from collaborating sites, with one or few iterations. The package can be used together with the online system (<https://pda-ota.pdamethods.org/>) for safe and convenient collaboration. For more information, please visit our software websites: <https://github.com/Penncil/pda>, and <https://pdamethods.org/>.
Author: Chongliang Luo [aut], Rui Duan [aut], Mackenzie Edmondson [aut], Jiayi Tong [aut], Xiaokang Liu [aut], Kenneth Locke [aut], Jiajie Chen [cre], Yong Chen [aut], Penn Computing Inference Learning lab [cph]
Maintainer: Jiajie Chen <jiajie.chen@pennmedicine.upenn.edu>

Diff between pda versions 1.2.5 dated 2023-02-22 and 1.2.6 dated 2023-03-08

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New package EPLSIM with initial version 0.1.0
Package: EPLSIM
Title: Partial Linear Single Index Models for Environmental Mixture Analysis
Version: 0.1.0
Date: 2023-03-02
Maintainer: Yuyan Wang <yuyan.wang@nyumc.org>
Description: Collection of ancillary functions and utilities for Partial Linear Single Index Models for Environmental mixture analyses, which currently provides functions for scalar outcomes. The outputs of these functions include the single index function, single index coefficients, partial linear coefficients, mixture overall effect, exposure main and interaction effects, and differences of quartile effects. In the future, we will add functions for binary, ordinal, Poisson, survival, and longitudinal outcomes, as well as models for time-dependent exposures. See Wang et al (2020) <doi:10.1186/s12940-020-00644-4> for an overview.
License: MIT + file LICENSE
Encoding: UTF-8
Depends: R (>= 2.10)
Imports: splines, ggplot2, MASS, ciTools
Suggests: knitr, PerformanceAnalytics, rmarkdown, testthat (>= 3.0.0)
URL: https://github.com/YuyanWangSixTwo/EPLSIM
BugReports: https://github.com/YuyanWangSixTwo/EPLSIM/issues
VignetteBuilder: knitr
LazyData: true
NeedsCompilation: no
Packaged: 2023-03-07 14:55:47 UTC; wangy40
Author: Yuyan Wang [aut, cre] , Mengling Liu [aut, ctb]
Repository: CRAN
Date/Publication: 2023-03-08 15:10:05 UTC

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Package descr updated to version 1.1.6 with previous version 1.1.5 dated 2021-02-16

Title: Descriptive Statistics
Description: Weighted frequency and contingency tables of categorical variables and of the comparison of the mean value of a numerical variable by the levels of a factor, and methods to produce xtable objects of the tables and to plot them. There are also functions to facilitate the character encoding conversion of objects, to quickly convert fixed width files into csv ones, and to export a data.frame to a text file with the necessary R and SPSS codes to reread the data.
Author: Jakson Aquino. Includes R source code and/or documentation written by Dirk Enzmann, Marc Schwartz, Nitin Jain, and Stefan Kraft
Maintainer: Jakson Aquino <jalvesaq@gmail.com>

Diff between descr versions 1.1.5 dated 2021-02-16 and 1.1.6 dated 2023-03-08

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New package toposort with initial version 1.0.0
Package: toposort
Title: Topological Sorting Algorithms
Version: 1.0.0
Description: Flexible and ergonomic topological sorting implementation for R. Supports a variety of input data encoding (lists of edges or adjacency matrices, graphs edge direction), stable sort variants as well as cycle detection with detailed diagnosis.
License: MIT + file LICENSE
URL: https://github.com/tzakharko/toposort
BugReports: https://github.com/tzakharko/toposort/issues
Imports: glue, rlang, vctrs
Suggests: cli, testthat (>= 3.0.0), tibble
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2023-03-07 10:21:02 UTC; tzakharko
Author: Taras Zakharko [aut, cre]
Maintainer: Taras Zakharko <taras.zakharko@gmail.com>
Repository: CRAN
Date/Publication: 2023-03-08 15:00:03 UTC

More information about toposort at CRAN
Permanent link

Package spocc updated to version 1.2.1 with previous version 1.2.0 dated 2021-01-05

Title: Interface to Species Occurrence Data Sources
Description: A programmatic interface to many species occurrence data sources, including Global Biodiversity Information Facility ('GBIF'), 'iNaturalist', 'eBird', Integrated Digitized 'Biocollections' ('iDigBio'), 'VertNet', Ocean 'Biogeographic' Information System ('OBIS'), and Atlas of Living Australia ('ALA'). Includes functionality for retrieving species occurrence data, and combining those data.
Author: Hannah Owens [aut, cre] , Vijay Barve [aut] , Scott Chamberlain [aut] , Karthik Ram [ctb], Ted Hart [ctb], rOpenSci [fnd]
Maintainer: Hannah Owens <hannah.owens@gmail.com>

Diff between spocc versions 1.2.0 dated 2021-01-05 and 1.2.1 dated 2023-03-08

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Package phase updated to version 1.2.8 with previous version 1.2.7 dated 2022-11-15

Title: Analyse Biological Time-Series Data
Description: Compiles functions to trim, bin, visualise, and analyse activity/sleep time-series data collected from the Drosophila Activity Monitor (DAM) system (Trikinetics, USA). The following methods were used to compute periodograms - Chi-square periodogram: Sokolove and Bushell (1978) <doi:10.1016/0022-5193(78)90022-X>, Lomb-Scargle periodogram: Lomb (1976) <doi:10.1007/BF00648343>, Scargle (1982) <doi:10.1086/160554> and Ruf (1999) <doi:10.1076/brhm.30.2.178.1422>, and Autocorrelation: Eijzenbach et al. (1986) <doi:10.1111/j.1440-1681.1986.tb00943.x>. Identification of activity peaks is done after using a Savitzky-Golay filter (Savitzky and Golay (1964) <doi:10.1021/ac60214a047>) to smooth raw activity data. Three methods to estimate anticipation of activity are used based on the following papers - Slope method: Fernandez et al. (2020) <doi:10.1016/j.cub.2020.04.025>, Harrisingh method: Harrisingh et al. (2007) <doi:10.1523/JNEUROSCI.3680-07.2007&g [...truncated...]
Author: Lakshman Abhilash [aut, cre]
Maintainer: Lakshman Abhilash <labhilash@gc.cuny.edu>

Diff between phase versions 1.2.7 dated 2022-11-15 and 1.2.8 dated 2023-03-08

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New package PCRA with initial version 1.0
Package: PCRA
Title: Companion to Portfolio Construction and Risk Analysis
Version: 1.0
Date: 2023-02-26
Description: A collection of functions and data sets that support teaching a quantitative finance MS level course on Portfolio Construction and Risk Analysis, and the writing of a textbook for such a course. The package is unique in providing several real-world data sets that may be used for problem assignments and student projects. The data sets include cross-sections of stock data from the Center for Research on Security Prices, LLC (CRSP), corresponding factor exposures data from S&P Global, and several SP500 data sets.
License: GPL-2
Depends: R (>= 4.0.0),
Encoding: UTF-8
Imports: PerformanceAnalytics, PortfolioAnalytics, boot, methods, xts, zoo, lattice, corpcor, data.table, quadprog, RobStatTM, robustbase, R.cache
Suggests: R.rsp
LazyLoad: true
LazyData: true
LazyDataCompression: xz
Copyright: (c) 2022-2023
VignetteBuilder: R.rsp
NeedsCompilation: no
Packaged: 2023-03-07 06:52:24 UTC; cocok
Author: Doug Martin [cre, aut], Alexios Galanos [ctb], Kirk Li [aut, ctb], Jon Spinney [ctb], Thomas Philips [ctb]
Maintainer: Doug Martin <martinrd3d@gmail.com>
Repository: CRAN
Date/Publication: 2023-03-08 15:00:10 UTC

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Package LMMstar updated to version 0.9.0 with previous version 0.8.10 dated 2023-01-06

Title: Repeated Measurement Models for Discrete Times
Description: Companion R package for the course "Statistical analysis of correlated and repeated measurements for health science researchers" taught by the section of Biostatistics of the University of Copenhagen. It implements linear mixed models where the model for the variance-covariance of the residuals is specified via patterns (compound symmetry, toeplitz, unstructured, ...). Statistical inference for mean, variance, and correlation parameters is performed based on the observed information and a Satterthwaite approximation of the degrees of freedom. Normalized residuals are provided to assess model misspecification. Statistical inference can be performed for arbitrary linear or non-linear combination(s) of model coefficients. Predictions can be computed conditional to covariates only or also to outcome values.
Author: Brice Ozenne [aut, cre] , Julie Forman [aut]
Maintainer: Brice Ozenne <brice.mh.ozenne@gmail.com>

Diff between LMMstar versions 0.8.10 dated 2023-01-06 and 0.9.0 dated 2023-03-08

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Package hybridEnsemble updated to version 1.7.9 with previous version 1.7.8 dated 2022-05-10

Title: Build, Deploy and Evaluate Hybrid Ensembles
Description: Functions to build and deploy a hybrid ensemble consisting of different sub-ensembles such as bagged logistic regressions, random forest, stochastic boosting, kernel factory, bagged neural networks, bagged support vector machines, rotation forest, bagged k-nearest neighbors, and bagged naive Bayes. Functions to cross-validate the hybrid ensemble and plot and summarize the results are also provided. There is also a function to assess the importance of the predictors.
Author: Michel Ballings, Dauwe Vercamer, Matthias Bogaert, and Dirk Van den Poel
Maintainer: Michel Ballings <Michel.Ballings@GMail.com>

Diff between hybridEnsemble versions 1.7.8 dated 2022-05-10 and 1.7.9 dated 2023-03-08

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Package geojsonio updated to version 0.11.0 with previous version 0.10.0 dated 2022-10-07

Title: Convert Data from and to 'GeoJSON' or 'TopoJSON'
Description: Convert data to 'GeoJSON' or 'TopoJSON' from various R classes, including vectors, lists, data frames, shape files, and spatial classes. 'geojsonio' does not aim to replace packages like 'sp', 'rgdal', 'rgeos', but rather aims to be a high level client to simplify conversions of data from and to 'GeoJSON' and 'TopoJSON'.
Author: Scott Chamberlain [aut], Andy Teucher [aut], Michael Mahoney [aut, cre]
Maintainer: Michael Mahoney <mike.mahoney.218@gmail.com>

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New package funspace with initial version 0.1.0
Package: funspace
Title: Creating and Representing Functional Trait Spaces
Version: 0.1.0
Description: Estimation of functional spaces based on traits of organisms. The package includes functions to impute missing trait values (with or without considering phylogenetic information), and to create, represent and analyse two dimensional functional spaces based on principal components analysis, other ordination methods, or raw traits. It also allows for mapping a third variable onto the functional space. See 'Carmona et al. (2021)' <doi:10.1038/s41586-021-03871-y>, 'Puglielli et al. (2021)' <doi:10.1111/nph.16952>, 'Carmona et al. (2021)' <doi:10.1126/sciadv.abf2675>, 'Carmona et al. (2019)' <doi:10.1002/ecy.2876> for more information.
License: GPL-3
Depends: R (>= 2.10)
Imports: ade4, ape, ks, mgcv, missForest, MASS, paran, phytools, viridis
Suggests: testthat (>= 3.0.0)
Encoding: UTF-8
LazyData: true
NeedsCompilation: no
Packaged: 2023-03-07 08:07:53 UTC; Carlos
Author: Carlos P. Carmona [cre] , Nicola Pavanetto [aut] , Giacomo Puglielli [aut]
Maintainer: Carlos P. Carmona <perezcarmonacarlos@gmail.com>
Repository: CRAN
Date/Publication: 2023-03-08 14:50:05 UTC

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Package disk.frame updated to version 0.8.1 with previous version 0.8.0 dated 2023-02-05

Title: Larger-than-RAM Disk-Based Data Manipulation Framework
Description: A disk-based data manipulation tool for working with large-than-RAM datasets. Aims to lower the barrier-to-entry for manipulating large datasets by adhering closely to popular and familiar data manipulation paradigms like 'dplyr' verbs and 'data.table' syntax.
Author: Dai ZJ [aut, cre], Jacky Poon [ctb]
Maintainer: Dai ZJ <zhuojia.dai@gmail.com>

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Package torchopt updated to version 0.1.3 with previous version 0.1.2 dated 2022-06-30

Title: Advanced Optimizers for Torch
Description: Optimizers for 'torch' deep learning library. These functions include recent results published in the literature and are not part of the optimizers offered in 'torch'. Prospective users should test these optimizers with their data, since performance depends on the specific problem being solved. The packages includes the following optimizers: (a) 'adabelief' by Zhuang et al (2020), <arXiv:2010.07468>; (b) 'adabound' by Luo et al.(2019), <arXiv:1902.09843>; (c) 'adahessian' by Yao et al.(2021) <arXiv:2006.00719>; (d) 'adamw' by Loshchilov & Hutter (2019), <arXiv:1711.05101>; (e) 'madgrad' by Defazio and Jelassi (2021), <arXiv:2101.11075>; (f) 'nadam' by Dozat (2019), <https://openreview.net/pdf/OM0jvwB8jIp57ZJjtNEZ.pdf>; (g) 'qhadam' by Ma and Yarats(2019), <arXiv:1810.06801>; (h) 'radam' by Liu et al. (2019), <arXiv:1908.03265>; (i) 'swats' by Shekar and Sochee (2018), <arXiv:1712.07628>; (j) 'yogi' by Zaheer et al.(2019), <h [...truncated...]
Author: Gilberto Camara [aut, cre], Rolf Simoes [aut], Daniel Falbel [aut], Felipe Souza [aut]
Maintainer: Gilberto Camara <gilberto.camara.inpe@gmail.com>

Diff between torchopt versions 0.1.2 dated 2022-06-30 and 0.1.3 dated 2023-03-08

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Package targets updated to version 0.14.3 with previous version 0.14.2 dated 2023-01-06

Title: Dynamic Function-Oriented 'Make'-Like Declarative Pipelines
Description: A pipeline toolkit for Statistics and data science in R, the 'targets' package brings function-oriented programming to 'Make'-like declarative pipelines. 'targets' orchestrates a pipeline as a graph of dependencies, skips steps that are already up to date, runs the necessary computation with optional parallel workers, abstracts files as R objects, and provides tangible evidence that the results are reproducible given the underlying code and data. The methodology in this package borrows from GNU 'Make' (2015, ISBN:978-9881443519) and 'drake' (2018, <doi:10.21105/joss.00550>).
Author: William Michael Landau [aut, cre] , Matthew T. Warkentin [ctb], Mark Edmondson [ctb] , Samantha Oliver [rev] , Tristan Mahr [rev] , Eli Lilly and Company [cph]
Maintainer: William Michael Landau <will.landau@gmail.com>

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Package santoku updated to version 0.9.1 with previous version 0.9.0 dated 2022-11-01

Title: A Versatile Cutting Tool
Description: A tool for cutting data into intervals. Allows singleton intervals. Always includes the whole range of data by default. Flexible labelling. Convenience functions for cutting by quantiles etc. Handles dates, times, units and other vectors.
Author: David Hugh-Jones [aut, cre], Daniel Possenriede [ctb]
Maintainer: David Hugh-Jones <davidhughjones@gmail.com>

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Package rstpm2 updated to version 1.6.2 with previous version 1.6.1 dated 2023-02-28

Title: Smooth Survival Models, Including Generalized Survival Models
Description: R implementation of generalized survival models (GSMs), smooth accelerated failure time (AFT) models and Markov multi-state models. For the GSMs, g(S(t|x))=eta(t,x) for a link function g, survival S at time t with covariates x and a linear predictor eta(t,x). The main assumption is that the time effect(s) are smooth <doi:10.1177/0962280216664760>. For fully parametric models with natural splines, this re-implements Stata's 'stpm2' function, which are flexible parametric survival models developed by Royston and colleagues. We have extended the parametric models to include any smooth parametric smoothers for time. We have also extended the model to include any smooth penalized smoothers from the 'mgcv' package, using penalized likelihood. These models include left truncation, right censoring, interval censoring, gamma frailties and normal random effects <doi:10.1002/sim.7451>, and copulas. For the smooth AFTs, S(t|x) = S_0(t*eta(t,x)), where the baseline survival function S_0 [...truncated...]
Author: Mark Clements [aut, cre], Xing-Rong Liu [aut], Benjamin Christoffersen [aut], Paul Lambert [ctb], Lasse Hjort Jakobsen [ctb], Alessandro Gasparini [ctb], Gordon Smyth [cph], Patrick Alken [cph], Simon Wood [cph], Rhys Ulerich [cph]
Maintainer: Mark Clements <mark.clements@ki.se>

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Package ReIns updated to version 1.0.12 with previous version 1.0.11 dated 2023-01-30

Title: Functions from "Reinsurance: Actuarial and Statistical Aspects"
Description: Functions from the book "Reinsurance: Actuarial and Statistical Aspects" (2017) by Hansjoerg Albrecher, Jan Beirlant and Jef Teugels <https://www.wiley.com/en-us/Reinsurance%3A+Actuarial+and+Statistical+Aspects-p-9780470772683>.
Author: Tom Reynkens [aut, cre] , Roel Verbelen [aut] , Anastasios Bardoutsos [ctb] , Dries Cornilly [ctb] , Yuri Goegebeur [ctb] , Klaus Herrmann [ctb]
Maintainer: Tom Reynkens <tomreynkens@hotmail.com>

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Package quanteda.textstats updated to version 0.96.1 with previous version 0.96 dated 2022-09-19

Title: Textual Statistics for the Quantitative Analysis of Textual Data
Description: Textual statistics functions formerly in the 'quanteda' package. Textual statistics for characterizing and comparing textual data. Includes functions for measuring term and document frequency, the co-occurrence of words, similarity and distance between features and documents, feature entropy, keyword occurrence, readability, and lexical diversity. These functions extend the 'quanteda' package and are specially designed for sparse textual data.
Author: Kenneth Benoit [cre, aut, cph] , Kohei Watanabe [aut] , Haiyan Wang [aut] , Jiong Wei Lua [aut], Jouni Kuha [aut] , European Research Council [fnd]
Maintainer: Kenneth Benoit <kbenoit@lse.ac.uk>

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Package Hmisc updated to version 5.0-1 with previous version 5.0-0 dated 2023-03-06

Title: Harrell Miscellaneous
Description: Contains many functions useful for data analysis, high-level graphics, utility operations, functions for computing sample size and power, simulation, importing and annotating datasets, imputing missing values, advanced table making, variable clustering, character string manipulation, conversion of R objects to LaTeX and html code, recoding variables, caching, simplified parallel computing, general moving window statistical estimation, and assistance in interpreting principal component analysis.
Author: Frank E Harrell Jr [aut, cre] , Charles Dupont [ctb]
Maintainer: Frank E Harrell Jr <fh@fharrell.com>

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Package emayili updated to version 0.7.15 with previous version 0.7.13 dated 2022-11-27

Title: Send Email Messages
Description: A light, simple tool for sending emails with minimal dependencies.
Author: Andrew B. Collier [aut, cre, cph], Matt Dennis [ctb], Antoine Bichat [ctb] , Daniel Fahey [ctb], Johann R. Kleinbub [ctb], Panagiotis Moulos [ctb], Swechhya Bista [ctb], Colin Fay [ctb]
Maintainer: Andrew B. Collier <andrew@fathomdata.dev>

Diff between emayili versions 0.7.13 dated 2022-11-27 and 0.7.15 dated 2023-03-08

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Package cxhull updated to version 0.7.2 with previous version 0.7.1 dated 2023-01-27

Title: Convex Hull
Description: Computes the convex hull in arbitrary dimension, based on the Qhull library (<http://www.qhull.org>). The package provides a complete description of the convex hull: edges, ridges, facets, adjacencies. Triangulation is optional.
Author: C. B. Barber [cph] , The Geometry Center [cph], Stephane Laurent [cph, aut, cre]
Maintainer: Stephane Laurent <laurent_step@outlook.fr>

Diff between cxhull versions 0.7.1 dated 2023-01-27 and 0.7.2 dated 2023-03-08

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Package aplot updated to version 0.1.10 with previous version 0.1.9 dated 2022-11-23

Title: Decorate a 'ggplot' with Associated Information
Description: For many times, we are not just aligning plots as what 'cowplot' and 'patchwork' did. Users would like to align associated information that requires axes to be exactly matched in subplots, e.g. hierarchical clustering with a heatmap. This package provides utilities to aligns associated subplots to a main plot at different sides (left, right, top and bottom) with axes exactly matched.
Author: Guangchuang Yu [aut, cre] , Shuangbin Xu [ctb] , Thomas Hackl [ctb]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>

Diff between aplot versions 0.1.9 dated 2022-11-23 and 0.1.10 dated 2023-03-08

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Package voteogram updated to version 0.3.2 with previous version 0.3.1 dated 2018-09-16

Title: United States House and Senate Voting Cartogram Generators
Description: 'ProPublica' <https://projects.propublica.org/represent/> makes United States Congress member votes available and has developed their own unique cartogram to visually represent this data. Tools are provided to retrieve voting data, prepare voting data for plotting with 'ggplot2', create vote cartograms and theme them.
Author: Bob Rudis [aut, cre] , ProPublica [cph] , GovTrack [cph]
Maintainer: Bob Rudis <bob@rud.is>

Diff between voteogram versions 0.3.1 dated 2018-09-16 and 0.3.2 dated 2023-03-08

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Package RcppRedis updated to version 0.2.3 with previous version 0.2.2 dated 2022-10-31

Title: 'Rcpp' Bindings for 'Redis' using the 'hiredis' Library
Description: Connection to the 'Redis' key/value store using the C-language client library 'hiredis' (included as a fallback) with 'MsgPack' encoding provided via 'RcppMsgPack' headers. It now also includes the pub/sub functions from the 'rredis' package.
Author: Dirk Eddelbuettel and Bryan W. Lewis
Maintainer: Dirk Eddelbuettel <edd@debian.org>

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New package BayesVarSel with initial version 2.2.5
Package: BayesVarSel
Title: Bayes Factors, Model Choice and Variable Selection in Linear Models
Version: 2.2.5
Date: 2023-03-07
Description: Bayes factors and posterior probabilities in Linear models, aimed at provide a formal Bayesian answer to testing and variable selection problems.
Maintainer: Gonzalo Garcia-Donato <gonzalo.garciadonato@uclm.es>
Author: Gonzalo Garcia-Donato [aut, cre], Anabel Forte [aut], Carlos Vergara-Hernandez [ctb]
Acknowledgements: since version 1.9.0 BayesVarSel uses the non-exported function get_rdX from package lmerTest (distributed under GPL-2, GPL-3) and authored by Alexandra Kuznetsova, Per Bruun Brockhoff and Rune Haubo Bojesen Christensen.
Encoding: UTF-8
LazyData: TRUE
URL: https://github.com/comodin19/BayesVarSel
BugReports: https://github.com/comodin19/BayesVarSel/issues
SystemRequirements: GNU Scientific Library
Depends: MASS (>= 7.3-45), mvtnorm (>= 1.0-5), parallel (>= 3.3), R (>= 3.5.0)
License: GPL-2
NeedsCompilation: yes
Suggests: knitr, faraway, hdi
Packaged: 2023-03-08 11:17:16 UTC; gonzalo.garciadonatouclm.es
Repository: CRAN
Date/Publication: 2023-03-08 12:40:02 UTC

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Package hier.part (with last version 1.0-6) was removed from CRAN

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

2020-03-03 1.0-6
2020-02-25 1.0-5
2013-01-08 1.0-4

Permanent link
Package tvgarch updated to version 2.4 with previous version 2.3 dated 2023-01-28

Title: Time Varying GARCH Modelling
Description: Simulation, estimation and inference for univariate and multivariate TV(s)-GARCH(p,q,r)-X models, where s indicates the number and shape of the transition functions, p is the ARCH order, q is the GARCH order, r is the asymmetry order, and 'X' indicates that covariates can be included. In the multivariate case, variances are estimated equation by equation and dynamic conditional correlations are allowed. The TV long-term component of the variance as in the multiplicative TV-GARCH model of Amado and Ter{\"a}svirta (2013) <doi:10.1016/j.jeconom.2013.03.006> introduces non-stationarity whereas the GARCH-X short-term component describes conditional heteroscedasticity. Maximisation by parts leads to consistent and asymptotically normal estimates.
Author: Susana Campos-Martins [aut, cre], Genaro Sucarrat [ctb]
Maintainer: Susana Campos-Martins <susana.martins@nuffield.ox.ac.uk>

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Package BIGL updated to version 1.7.0 with previous version 1.6.7 dated 2023-01-26

Title: Biochemically Intuitive Generalized Loewe Model
Description: Response surface methods for drug synergy analysis. Available methods include generalized and classical Loewe formulations as well as Highest Single Agent methodology. Response surfaces can be plotted in an interactive 3-D plot and formal statistical tests for presence of synergistic effects are available. Implemented methods and tests are described in the article "BIGL: Biochemically Intuitive Generalized Loewe null model for prediction of the expected combined effect compatible with partial agonism and antagonism" by Koen Van der Borght, Annelies Tourny, Rytis Bagdziunas, Olivier Thas, Maxim Nazarov, Heather Turner, Bie Verbist & Hugo Ceulemans (2017) <doi:10.1038/s41598-017-18068-5>.
Author: Heather Turner, Annelies Tourny, Olivier Thas, Maxim Nazarov, Rytis Bagdziunas, Stijn Hawinkel, Javier Franco Perez
Maintainer: Maxim Nazarov <maxim.nazarov@openanalytics.eu>

Diff between BIGL versions 1.6.7 dated 2023-01-26 and 1.7.0 dated 2023-03-08

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Package refineR updated to version 1.6.0 with previous version 1.5.1 dated 2022-07-19

Title: Reference Interval Estimation using Real-World Data
Description: Indirect method for the estimation of reference intervals using Real-World Data ('RWD'). It takes routine measurements of diagnostic tests, containing pathological and non-pathological samples as input and uses sophisticated statistical methods to derive a model describing the distribution of the non-pathological samples. This distribution can then be used to derive reference intervals. Furthermore, the package offers functions for printing and plotting the results of the algorithm. See ?refineR for a more comprehensive description of the features. Version 1.0 of the algorithm is described in detail in Ammer T., Schuetzenmeister A., Prokosch H.-U., Rauh M., Rank C.M., Zierk J. "refineR: A Novel Algorithm for Reference Interval Estimation from Real-World Data". Scientific Reports (2021) <doi:10.1038/s41598-021-95301-2>.
Author: Tatjana Ammer [aut, cre], Christopher M Rank [aut], Andre Schuetzenmeister [aut]
Maintainer: Tatjana Ammer <tatjana.ammer@roche.com>

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Package prnsamplr updated to version 0.3.0 with previous version 0.2.1 dated 2022-09-29

Title: Permanent Random Number Sampling
Description: Survey sampling using permanent random numbers (PRN's). A solution to the problem of unknown overlap between survey samples, which leads to a low precision in estimates when the survey is repeated or combined with other surveys. The PRN solution is to supply the U(0, 1) random numbers to the sampling procedure, instead of having the sampling procedure generate them. In Lindblom (2014) <doi:10.2478/jos-2014-0047>, and therein cited articles, it is shown how this is carried out and how it improves the estimates. This package supports two common fixed-size sampling procedures (simple random sampling and probability-proportional-to-size sampling) and includes a function for transforming the PRN's in order to control the sample overlap.
Author: Kira Coder Gylling
Maintainer: Kira Coder Gylling <kira.gylling@gmail.com>

Diff between prnsamplr versions 0.2.1 dated 2022-09-29 and 0.3.0 dated 2023-03-08

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Package microsimulation updated to version 1.4.2 with previous version 1.4.1 dated 2022-10-18

Title: Discrete Event Simulation in R and C++, with Tools for Cost-Effectiveness Analysis
Description: Discrete event simulation using both R and C++ (Karlsson et al 2016; <doi:10.1109/eScience.2016.7870915>). The C++ code is adapted from the SSIM library <https://www.inf.usi.ch/carzaniga/ssim/>, allowing for event-oriented simulation. The code includes a SummaryReport class for reporting events and costs by age and other covariates. The C++ code is available as a static library for linking to other packages. A priority queue implementation is given in C++ together with an S3 closure and a reference class implementation. Finally, some tools are provided for cost-effectiveness analysis.
Author: Mark Clements [aut, cre, cph], Alexandra Jauhiainen [aut], Andreas Karlsson [aut], Antonio Carzaniga [cph], University of Colorado [cph], Pierre L'Ecuyer [cph]
Maintainer: Mark Clements <mark.clements@ki.se>

Diff between microsimulation versions 1.4.1 dated 2022-10-18 and 1.4.2 dated 2023-03-08

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Package tidydr updated to version 0.0.5 with previous version 0.0.4 dated 2022-03-16

Title: Unify Dimensionality Reduction Results
Description: Dimensionality reduction (DR) is widely used in many domain for analyzing and visualizing high-dimensional data. 'tidydr' provides uniform output and is compatible with multiple methods, including 'prcomp', 'mds', 'Rtsne'. etc.
Author: Guangchuang Yu [aut, cre, cph] , Shuangbin Xu [aut] , Erqiang Hu [ctb]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>

Diff between tidydr versions 0.0.4 dated 2022-03-16 and 0.0.5 dated 2023-03-08

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New package treetop with initial version 0.0.5
Package: treetop
Title: A Shiny-Based Application for Extracting Forest Information from LiDAR Data
Version: 0.0.5
Description: Set of tools implemented into a shiny-based application for extracting and analyzing individual tree forest attributes from LiDAR (Light Detection and Ranging) data.
License: GPL-3
Encoding: UTF-8
Depends: R (>= 4.0)
Imports: shiny, RColorBrewer, spatstat.geom, spatstat.explore, raster, rasterVis, sp, geometry, rgdal, rgl, lidR, pryr, sf, stars
Suggests: rmarkdown
URL: https://github.com/carlos-alberto-silva/weblidar-treetop
BugReports: https://github.com/carlos-alberto-silva/weblidar-treetop/issues
NeedsCompilation: no
Packaged: 2023-03-07 21:16:26 UTC; jeffa
Author: Carlos Alberto Silva [aut, cre, cph], Andrew Hudak [aut], Lee Vierling [aut], Ruben Valbuena [aut], Adrian Cardil [aut], Midhun Mohan [aut], Danilo Roberti Alves de Almeida [aut], Eben North Broadbent [aut], Angelica Zambrano [aut], Ben Wilkinson [au [...truncated...]
Maintainer: Carlos Alberto Silva <carlos_engflorestal@outlook.com>
Repository: CRAN
Date/Publication: 2023-03-08 10:00:03 UTC

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Package sra updated to version 0.1.4 with previous version 0.1.3 dated 2020-02-28

Title: Selection Response Analysis
Description: Artificial selection through selective breeding is an efficient way to induce changes in traits of interest in experimental populations. This package (sra) provides a set of tools to analyse artificial-selection response datasets. The data typically feature for several generations the average value of a trait in a population, the variance of the trait, the population size and the average value of the parents that were chosen to breed. Sra implements two families of models aiming at describing the dynamics of the genetic architecture of the trait during the selection response. The first family relies on purely descriptive (phenomenological) models, based on an autoregressive framework. The second family provides different mechanistic models, accounting e.g. for inbreeding, mutations, genetic and environmental canalization, or epistasis. The parameters underlying the dynamics of the time series are estimated by maximum likelihood. The sra package thus provides (i) a wrapper for the R fun [...truncated...]
Author: Arnaud Le Rouzic
Maintainer: Arnaud Le Rouzic <arnaud.le-rouzic@universite-paris-saclay.fr>

Diff between sra versions 0.1.3 dated 2020-02-28 and 0.1.4 dated 2023-03-08

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Package saeHB.panel.beta updated to version 0.1.1 with previous version 0.1.0 dated 2023-02-27

Title: Small Area Estimation using HB for Rao Yu Model under Beta Distribution
Description: Several functions are provided for small area estimation at the area level using the hierarchical bayesian (HB) method with panel data under beta distribution for variable interest. This package also provides a dataset produced by data generation. The 'rjags' package is employed to obtain parameter estimates. Model-based estimators involve the HB estimators, which include the mean and the variation of the mean. For the reference, see Rao and Molina (2015, ISBN: 978-1-118-73578-7).
Author: Dian Rahmawati Salis [aut, cre], Azka Ubaidillah [aut]
Maintainer: Dian Rahmawati Salis <dianrahmawatisalis03@gmail.com>

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Package proteus updated to version 1.1.0 with previous version 1.0.0 dated 2021-06-24

Title: Multiform Seq2Seq Model for Time-Feature Analysis
Description: Seq2seq time-feature analysis based on variational model, with a wide range of distributions available for the latent variable.
Author: Giancarlo Vercellino
Maintainer: Giancarlo Vercellino <giancarlo.vercellino@gmail.com>

Diff between proteus versions 1.0.0 dated 2021-06-24 and 1.1.0 dated 2023-03-08

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Package hydflood updated to version 0.5.3 with previous version 0.5.2 dated 2023-01-17

Title: Flood Extents and Durations along the Rivers Elbe and Rhine
Description: Raster based flood modelling internally using 'hyd1d', an R package to interpolate 1d water level and gauging data. The package computes flood extent and durations through strategies originally developed for 'INFORM', an 'ArcGIS'-based hydro-ecological modelling framework. It does not provide a full, physical hydraulic modelling algorithm, but a simplified, near real time 'GIS' approach for flood extent and duration modelling. Computationally demanding annual flood durations have been computed already and data products were published by Weber (2022) <doi:10.1594/PANGAEA.948042>.
Author: Arnd Weber [aut, cre] , Stephan Rosenzweig [ctb]
Maintainer: Arnd Weber <arnd.weber@bafg.de>

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Package hetGP updated to version 1.1.5 with previous version 1.1.4 dated 2021-07-08

Title: Heteroskedastic Gaussian Process Modeling and Design under Replication
Description: Performs Gaussian process regression with heteroskedastic noise following the model by Binois, M., Gramacy, R., Ludkovski, M. (2016) <arXiv:1611.05902>, with implementation details in Binois, M. & Gramacy, R. B. (2021) <doi:10.18637/jss.v098.i13>. The input dependent noise is modeled as another Gaussian process. Replicated observations are encouraged as they yield computational savings. Sequential design procedures based on the integrated mean square prediction error and lookahead heuristics are provided, and notably fast update functions when adding new observations.
Author: Mickael Binois, Robert B. Gramacy
Maintainer: Mickael Binois <mickael.binois@inria.fr>

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New package expertsurv with initial version 1.1.0
Package: expertsurv
Title: Incorporate Expert Opinion with Parametric Survival Models
Version: 1.1.0
Description: Enables users to incorporate expert opinion with parametric survival analysis using a Bayesian or frequentist approach. Expert Opinion can be provided on the survival probabilities at certain time-point(s) or for the difference in mean survival between two treatment arms.Please reference its use as Cooney, P., White, A. (2023) <doi:10.1177/0272989X221150212>.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Biarch: true
Depends: R (>= 3.5.0), survival
Imports: abind, dplyr, flexsurv (>= 2.0), ggplot2, loo, magrittr (>= 2.0), methods, Rcpp (>= 0.12.0), RcppParallel (>= 5.0.1), Rdpack, rms, rstan (>= 2.18.1), rstantools (>= 2.2.0), scales, SHELF, stats, stringr, tibble, tidyselect, utils
LinkingTo: BH (>= 1.66.0), Rcpp (>= 0.12.0), RcppEigen (>= 0.3.3.3.0), RcppParallel (>= 5.0.1), rstan (>= 2.18.1), StanHeaders (>= 2.18.0)
SystemRequirements: GNU make, C++17
Suggests: rmarkdown, knitr, rjags, R2jags, xlsx
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2023-03-07 18:21:18 UTC; philipcooney
Author: Philip Cooney [aut, cre] , Arthur White [ths]
Maintainer: Philip Cooney <phcooney@tcd.ie>
Repository: CRAN
Date/Publication: 2023-03-08 09:30:05 UTC

More information about expertsurv at CRAN
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Package cryptoTax updated to version 0.0.4 with previous version 0.0.3 dated 2023-03-07

Title: Report Crypto Taxes (Canada Only)
Description: Helps calculate crypto taxes in R. First, by allowing you to format .CSV files from various exchanges to one large data frame of organized transactions. Second, by allowing you to calculate your Adjusted Cost Base (ACB), ACB per share, and realized and unrealized capital gains/losses. Third, by calculating revenues gained from staking, interest, airdrops, etc. Fourth, by calculating superficial losses as well. *Disclaimer: This is not financial advice. Use at your own risks. There are no guarantees whatsoever in relation to the use of this package. Please consult a tax professional as necessary*.
Author: Steve Wong [aut, cre]
Maintainer: Steve Wong <mr.cryptoltruist@gmail.com>

Diff between cryptoTax versions 0.0.3 dated 2023-03-07 and 0.0.4 dated 2023-03-08

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Package cowsay updated to version 0.8.2 with previous version 0.8.0 dated 2020-02-06

Title: Messages, Warnings, Strings with Ascii Animals
Description: Allows printing of character strings as messages/warnings/etc. with ASCII animals, including cats, cows, frogs, chickens, ghosts, and more.
Author: Scott Chamberlain [aut, cre], Amanda Dobbyn [aut], Tyler Rinker [ctb], Thomas Leeper [ctb], Noam Ross [ctb], Rich FitzJohn [ctb], Carson Sievert [ctb], Kiyoko Gotanda [ctb], Andy Teucher [ctb], Karl Broman [ctb], Franz-Sebastian Krah [ctb], Lucy D'Ag [...truncated...]
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>

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New package cosso with initial version 2.1-2
Package: cosso
Version: 2.1-2
Date: 2023-03-07
Title: Fit Regularized Nonparametric Regression Models Using COSSO Penalty
Description: The COSSO regularization method automatically estimates and selects important function components by a soft-thresholding penalty in the context of smoothing spline ANOVA models. Implemented models include mean regression, quantile regression, logistic regression and the Cox regression models.
License: GPL (>= 2)
Depends: quadprog, Rglpk, parallel, glmnet
NeedsCompilation: no
URL: https://arxiv.org/abs/math/0702659
Packaged: 2023-03-07 17:39:53 UTC; IsaacRay
Author: Hao Helen Zhang [aut, cph], Chen-Yen Lin [aut, cph], Isaac Ray [cre, ctb]
Maintainer: Isaac Ray <null@stat.tamu.edu>
Repository: CRAN
Date/Publication: 2023-03-08 09:30:09 UTC

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Package arrow updated to version 11.0.0.3 with previous version 11.0.0.2 dated 2023-02-12

Title: Integration to 'Apache' 'Arrow'
Description: 'Apache' 'Arrow' <https://arrow.apache.org/> is a cross-language development platform for in-memory data. It specifies a standardized language-independent columnar memory format for flat and hierarchical data, organized for efficient analytic operations on modern hardware. This package provides an interface to the 'Arrow C++' library.
Author: Neal Richardson [aut], Ian Cook [aut], Nic Crane [aut, cre], Dewey Dunnington [aut] , Romain Francois [aut] , Jonathan Keane [aut], Dragoș Moldovan-Gruenfeld [aut], Jeroen Ooms [aut], Javier Luraschi [ctb], Karl Dunkle Werner [ctb] , Jeffrey Wong [ctb [...truncated...]
Maintainer: Nic Crane <thisisnic@gmail.com>

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Package vhica updated to version 0.2.8 with previous version 0.2.7 dated 2020-03-02

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

Diff between vhica versions 0.2.7 dated 2020-03-02 and 0.2.8 dated 2023-03-08

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Package tessellation updated to version 2.1.2 with previous version 2.1.1 dated 2023-01-27

Title: Delaunay and Voronoï Tessellations
Description: Delaunay and Voronoï tessellations, with emphasis on the two-dimensional and the three-dimensional cases (the package provides functions to plot the tessellations for these cases). Delaunay tessellations are computed in C with the help of the 'Qhull' library <http://www.qhull.org/>.
Author: Stephane Laurent [aut, cre], C. B. Barber [cph] , The Geometry Center [cph]
Maintainer: Stephane Laurent <laurent_step@outlook.fr>

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Package seriation updated to version 1.4.2 with previous version 1.4.1 dated 2023-01-07

Title: Infrastructure for Ordering Objects Using Seriation
Description: Infrastructure for ordering objects with an implementation of several seriation/sequencing/ordination techniques to reorder matrices, dissimilarity matrices, and dendrograms. Also provides (optimally) reordered heatmaps, color images and clustering visualizations like dissimilarity plots, and visual assessment of cluster tendency plots (VAT and iVAT). Hahsler et al (2008) <doi:10.18637/jss.v025.i03>.
Author: Michael Hahsler [aut, cre, cph] , Christian Buchta [aut, cph], Kurt Hornik [aut, cph] , David Barnett [ctb], Michael Brusco [ctb, cph], Michael Friendly [ctb], Hans-Friedrich Koehn [ctb, cph], Fionn Murtagh [ctb, cph], Stephanie Stahl [ctb, cph]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>

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Package pathviewr updated to version 1.1.7 with previous version 1.1.5 dated 2022-11-08

Title: Wrangle, Analyze, and Visualize Animal Movement Data
Description: Tools to import, clean, and visualize movement data, particularly from motion capture systems such as Optitrack's 'Motive', the Straw Lab's 'Flydra', or from other sources. We provide functions to remove artifacts, standardize tunnel position and tunnel axes, select a region of interest, isolate specific trajectories, fill gaps in trajectory data, and calculate 3D and per-axis velocity. For experiments of visual guidance, we also provide functions that use subject position to estimate perception of visual stimuli.
Author: Vikram B. Baliga [aut, cre] , Melissa S. Armstrong [aut] , Eric R. Press [aut] , Anne-Sophie Bonnet-Lebrun [rev], Marco Sciaini [rev]
Maintainer: Vikram B. Baliga <vbaliga87@gmail.com>

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Package noia updated to version 0.97.3 with previous version 0.97.1 dated 2015-01-08

Title: Implementation of the Natural and Orthogonal InterAction (NOIA) Model
Description: The NOIA model, as described extensively in Alvarez-Castro & Carlborg (2007), is a framework facilitating the estimation of genetic effects and genotype-to-phenotype maps. This package provides the basic tools to perform linear and multilinear regressions from real populations (provided the phenotype and the genotype of every individuals), estimating the genetic effects from different reference points, the genotypic values, and the decomposition of genetic variances in a multi-locus, 2 alleles system. This package is presented in Le Rouzic & Alvarez-Castro (2008).
Author: Arnaud Le Rouzic , Arne B. Gjuvsland , Olivier Ariste
Maintainer: Arnaud Le Rouzic <arnaud.le-rouzic@universite-paris-saclay.fr>

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Package NNS updated to version 0.9.6 with previous version 0.9.5 dated 2023-01-07

Title: Nonlinear Nonparametric Statistics
Description: Nonlinear nonparametric statistics using partial moments. Partial moments are the elements of variance and asymptotically approximate the area of f(x). These robust statistics provide the basis for nonlinear analysis while retaining linear equivalences. NNS offers: Numerical integration, Numerical differentiation, Clustering, Correlation, Dependence, Causal analysis, ANOVA, Regression, Classification, Seasonality, Autoregressive modeling, Normalization and Stochastic dominance. All routines based on: Viole, F. and Nawrocki, D. (2013), Nonlinear Nonparametric Statistics: Using Partial Moments (ISBN: 1490523995).
Author: Fred Viole [aut, cre], Roberto Spadim [ctb]
Maintainer: Fred Viole <ovvo.financial.systems@gmail.com>

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Package meteoForecast updated to version 0.56 with previous version 0.54 dated 2021-03-02

Title: Numerical Weather Predictions
Description: Access to several Numerical Weather Prediction services both in raster format and as a time series for a location. Currently it works with GFS <https://www.ncei.noaa.gov/products/weather-climate-models/global-forecast>, MeteoGalicia <https://www.meteogalicia.gal/web/modelos/threddsIndex.action>, NAM <https://www.ncei.noaa.gov/products/weather-climate-models/north-american-mesoscale>, and RAP <https://www.ncei.noaa.gov/products/weather-climate-models/rapid-refresh-update>.
Author: Oscar Perpinan Lamigueiro [cre, aut], Marcelo Pinho Almeida [ctb]
Maintainer: Oscar Perpinan Lamigueiro <oscar.perpinan@upm.es>

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Package hspm updated to version 1.1 with previous version 1.0-0 dated 2022-11-18

Title: Heterogeneous Spatial Models
Description: Spatial heterogeneity can be specified in various ways. 'hspm' is an ambitious project that aims at implementing various methodologies to control for heterogeneity in spatial models. The current version of 'hspm' deals with spatial and (non-spatial) regimes models. In particular, the package allows to estimate a general spatial regimes model with additional endogenous variables, specified in terms of a spatial lag of the dependent variable, the spatially lagged regressors, and, potentially, a spatially autocorrelated error term. Spatial regime models are estimated by instrumental variables and generalized methods of moments (see Arraiz et al., (2010) <doi:10.1111/j.1467-9787.2009.00618.x>, Bivand and Piras, (2015) <doi:10.18637/jss.v063.i18>, Drukker et al., (2013) <doi:10.1080/07474938.2013.741020>, Kelejian and Prucha, (2010) <doi:10.1016/j.jeconom.2009.10.025>).
Author: Gianfranco Piras [aut, cre] , Mauricio Sarrias [aut]
Maintainer: Gianfranco Piras <gpiras@mac.com>

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Package ggsci updated to version 3.0.0 with previous version 2.9 dated 2018-05-14

Title: Scientific Journal and Sci-Fi Themed Color Palettes for 'ggplot2'
Description: A collection of 'ggplot2' color palettes inspired by plots in scientific journals, data visualization libraries, science fiction movies, and TV shows.
Author: Nan Xiao [aut, cre] , Joshua Cook [ctb], Clara Jegousse [ctb], Miaozhu Li [ctb]
Maintainer: Nan Xiao <me@nanx.me>

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Package geeCRT updated to version 1.1.0 with previous version 0.1.1 dated 2021-10-10

Title: Bias-Corrected GEE for Cluster Randomized Trials
Description: Population-averaged models have been increasingly used in the design and analysis of cluster randomized trials (CRTs). To facilitate the applications of population-averaged models in CRTs, the package implements the generalized estimating equations (GEE) and matrix-adjusted estimating equations (MAEE) approaches to jointly estimate the marginal mean models correlation models both for general CRTs and stepped wedge CRTs. Despite the general GEE/MAEE approach, the package also implements a fast cluster-period GEE method by Li et al. (2021) <doi:10.1093/biostatistics/kxaa056> specifically for stepped wedge CRTs with large and variable cluster-period sizes and gives a simple and efficient estimating equations approach based on the cluster-period means to estimate the intervention effects as well as correlation parameters. In addition, the package also provides functions for generating correlated binary data with specific mean vector and correlation matrix based on the multivariate pr [...truncated...]
Author: Hengshi Yu [aut, cre], Fan Li [aut], Paul Rathouz [aut], Elizabeth L. Turner [aut], John Preisser [aut]
Maintainer: Hengshi Yu <hengshi@umich.edu>

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Package diversityForest updated to version 0.4.0 with previous version 0.3.4 dated 2022-06-09

Title: Innovative Complex Split Procedures in Random Forests Through Candidate Split Sampling
Description: Implements interaction forests [1], which are specific diversity forests and the basic form of diversity forests that uses univariable, binary splitting [2]. Interaction forests (IFs) are ensembles of decision trees that model quantitative and qualitative interaction effects using bivariable splitting. IFs come with the Effect Importance Measure (EIM), which can be used to identify variable pairs that feature quantitative and qualitative interaction effects with high predictive relevance. IFs and EIM focus on well interpretable forms of interactions. The package also offers plot functions for visualising the estimated forms of interaction effects. Categorical, metric, and survival outcomes are supported. This is a fork of the R package 'ranger' (main author: Marvin N. Wright) that implements random forests using an efficient C++ implementation. References: [1] Hornung, R. & Boulesteix, A.-L. (2022) Interaction Forests: Identifying and exploiting interpretable quantitative and qual [...truncated...]
Author: Roman Hornung [aut, cre], Marvin N. Wright [ctb, cph]
Maintainer: Roman Hornung <hornung@ibe.med.uni-muenchen.de>

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Package cir updated to version 2.3.0 with previous version 2.2.1 dated 2022-07-02

Title: Centered Isotonic Regression and Dose-Response Utilities
Description: Isotonic regression (IR) and its improvement: centered isotonic regression (CIR). CIR is recommended in particular with small samples. Also, interval estimates for both, and additional utilities such as plotting dose-response data.
Author: Assaf P. Oron [cre, aut]
Maintainer: Assaf P. Oron <assaf.oron@gmail.com>

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Package butcher updated to version 0.3.2 with previous version 0.3.1 dated 2022-12-14

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

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Package admiral updated to version 0.10.0 with previous version 0.9.1 dated 2022-12-23

Title: ADaM in R Asset Library
Description: A toolbox for programming Clinical Data Interchange Standards Consortium (CDISC) compliant Analysis Data Model (ADaM) datasets in R. ADaM datasets are a mandatory part of any New Drug or Biologics License Application submitted to the United States Food and Drug Administration (FDA). Analysis derivations are implemented in accordance with the "Analysis Data Model Implementation Guide" (CDISC Analysis Data Model Team, 2021, <https://www.cdisc.org/standards/foundational/adam/adamig-v1-3-release-package>).
Author: Thomas Neitmann [aut, cre], Stefan Bundfuss [aut], Ben Straub [aut], Samia Kabi [aut], Gordon Miller [aut], Teckla Akinyi [aut], Andrew Smith [aut], Konstantina Koukourikou [aut], Ross Farrugia [aut], Eric Simms [aut], Annie Yang [aut], Robin Koeger [...truncated...]
Maintainer: Thomas Neitmann <thomas.neitmann@roche.com>

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More information about admiral at CRAN
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Package officer updated to version 0.6.1 with previous version 0.6.0 dated 2023-02-17

Title: Manipulation of Microsoft Word and PowerPoint Documents
Description: Access and manipulate 'Microsoft Word', 'RTF' and 'Microsoft PowerPoint' documents from R. The package focuses on tabular and graphical reporting from R; it also provides two functions that let users get document content into data objects. A set of functions lets add and remove images, tables and paragraphs of text in new or existing documents. The package does not require any installation of Microsoft products to be able to write Microsoft files.
Author: David Gohel [aut, cre], ArData [cph], Frank Hangler [ctb] , Liz Sander [ctb] , Anton Victorson [ctb] , Jon Calder [ctb] , John Harrold [ctb] , John Muschelli [ctb] , Bill Denney [ctb] , Nikolai Beck [ctb] , Stefan Moog [ctb] , Greg Leleu [ctb] , Hong [...truncated...]
Maintainer: David Gohel <david.gohel@ardata.fr>

Diff between officer versions 0.6.0 dated 2023-02-17 and 0.6.1 dated 2023-03-08

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Package matsindf updated to version 0.4.0 with previous version 0.3.12 dated 2023-01-24

Title: Matrices in Data Frames
Description: Provides functions to collapse a tidy data frame into matrices in a data frame and expand a data frame of matrices into a tidy data frame.
Author: Matthew Heun [aut, cre]
Maintainer: Matthew Heun <matthew.heun@me.com>

Diff between matsindf versions 0.3.12 dated 2023-01-24 and 0.4.0 dated 2023-03-08

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 tests/testthat/test-matsindf_apply.R |  166 +++++++++++++++++++++++++++
 tests/testthat/test-utilities.R      |  165 ++++++++++++++++++++++-----
 vignettes/matsindf.Rmd               |    4 
 20 files changed, 810 insertions(+), 111 deletions(-)

More information about matsindf at CRAN
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