Sun, 26 Mar 2023

Package segmented updated to version 1.6-3 with previous version 1.6-2 dated 2022-12-09

Title: Regression Models with Break-Points / Change-Points (with Possibly Random Effects) Estimation
Description: Given a regression model, segmented `updates' it by adding one or more segmented (i.e., piece-wise linear) relationships. Several variables with multiple breakpoints are allowed. The estimation method is discussed in Muggeo (2003, <doi:10.1002/sim.1545>) and illustrated in Muggeo (2008, <https://www.r-project.org/doc/Rnews/Rnews_2008-1.pdf>). An approach for hypothesis testing is presented in Muggeo (2016, <doi:10.1080/00949655.2016.1149855>), and interval estimation for the breakpoint is discussed in Muggeo (2017, <doi:10.1111/anzs.12200>). Segmented mixed models, i.e. random effects in the change point, are discussed in in Muggeo (2014, <doi:10.1177/1471082X13504721>).
Author: Vito M. R. Muggeo [aut, cre]
Maintainer: Vito M. R. Muggeo <vito.muggeo@unipa.it>

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Package rgl updated to version 1.1.3 with previous version 1.0.1 dated 2023-01-18

Title: 3D Visualization Using OpenGL
Description: Provides medium to high level functions for 3D interactive graphics, including functions modelled on base graphics (plot3d(), etc.) as well as functions for constructing representations of geometric objects (cube3d(), etc.). Output may be on screen using OpenGL, or to various standard 3D file formats including WebGL, PLY, OBJ, STL as well as 2D image formats, including PNG, Postscript, SVG, PGF.
Author: Duncan Murdoch [aut, cre], Daniel Adler [aut], Oleg Nenadic [ctb], Simon Urbanek [ctb], Ming Chen [ctb], Albrecht Gebhardt [ctb], Ben Bolker [ctb], Gabor Csardi [ctb], Adam Strzelecki [ctb], Alexander Senger [ctb], The R Core Team [ctb, cph], Dirk Ed [...truncated...]
Maintainer: Duncan Murdoch <murdoch.duncan@gmail.com>

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Package HTRX updated to version 1.2.2 with previous version 1.2.1 dated 2023-02-14

Title: Haplotype Trend Regression with eXtra Flexibility (HTRX)
Description: Detection of haplotype patterns that include single nucleotide polymorphisms (SNPs) and non-contiguous haplotypes that are associated with a phenotype. Methods for implementing HTRX are described in Yang Y, Lawson DJ (2023) <doi:10.1093/bioadv/vbad038> and Barrie W, Yang Y, Attfield K E, et al (2022) <doi:10.1101/2022.09.23.509097>.
Author: Yaoling Yang [aut, cre] , Daniel Lawson [aut]
Maintainer: Yaoling Yang <yaoling.yang@bristol.ac.uk>

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Package eatRep updated to version 0.14.7 with previous version 0.14.6 dated 2022-11-18

Title: Educational Assessment Tools for Replication Methods
Description: Replication methods to compute some basic statistic operations (means, standard deviations, frequency tables, percentiles and generalized linear models) in complex survey designs comprising multiple imputed variables and/or a clustered sampling structure which both deserve special procedures at least in estimating standard errors. See the package documentation for a more detailed description along with references.
Author: Sebastian Weirich [aut, cre], Martin Hecht [aut], Karoline Sachse [aut], Benjamin Becker [aut]
Maintainer: Sebastian Weirich <sebastian.weirich@iqb.hu-berlin.de>

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Package startR updated to version 2.2.2 with previous version 2.2.1 dated 2022-11-18

Title: Automatically Retrieve Multidimensional Distributed Data Sets
Description: Tool to automatically fetch, transform and arrange subsets of multi- dimensional data sets (collections of files) stored in local and/or remote file systems or servers, using multicore capabilities where possible. The tool provides an interface to perceive a collection of data sets as a single large multidimensional data array, and enables the user to request for automatic retrieval, processing and arrangement of subsets of the large array. Wrapper functions to add support for custom file formats can be plugged in/out, making the tool suitable for any research field where large multidimensional data sets are involved.
Author: Nicolau Manubens [aut], An-Chi Ho [aut, cre], Nuria Perez-Zanon [aut] , Javier Vegas [ctb], Pierre-Antoine Bretonniere [ctb], Roberto Serrano [ctb], Eva Rifa [ctb], BSC-CNS [aut, cph]
Maintainer: An-Chi Ho <an.ho@bsc.es>

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Package rmarkdown updated to version 2.21 with previous version 2.20 dated 2023-01-19

Title: Dynamic Documents for R
Description: Convert R Markdown documents into a variety of formats.
Author: JJ Allaire [aut], Yihui Xie [aut, cre] , Christophe Dervieux [aut] , Jonathan McPherson [aut], Javier Luraschi [aut], Kevin Ushey [aut], Aron Atkins [aut], Hadley Wickham [aut], Joe Cheng [aut], Winston Chang [aut], Richard Iannone [aut] , Andrew Dun [...truncated...]
Maintainer: Yihui Xie <xie@yihui.name>

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Package PxWebApiData updated to version 0.8.0 with previous version 0.7.0 dated 2021-10-11

Title: PX-Web Data by API
Description: Function to read PX-Web data into R via API. The example code reads data from the three national statistical institutes, Statistics Norway, Statistics Sweden and Statistics Finland.
Author: Oyvind Langsrud [aut, cre], Jan Bruusgaard [aut], Solveig Bjoerkholt [ctb], Susie Jentoft [ctb]
Maintainer: Oyvind Langsrud <oyl@ssb.no>

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Package pchc updated to version 1.0 with previous version 0.9 dated 2023-03-22

Title: Bayesian Network Learning with the PCHC and Related Algorithms
Description: Bayesian network learning using the PCHC algorithm. PCHC stands for PC Hill-Climbing, a new hybrid algorithm that uses PC to construct the skeleton of the BN and then applies the Hill-Climbing greedy search. More algorithms and variants have been added, such as MMHC, FEDHC, and the Tabu search variants, PCTABU, MMTABU and FEDTABU. The relevant papers are a) Tsagris M. (2021). A new scalable Bayesian network learning algorithm with applications to economics. Computational Economics, 57(1): 341-367. <doi:10.1007/s10614-020-10065-7>. b) Tsagris M. (2022). The FEDHC Bayesian Network Learning Algorithm. Mathematics 2022, 10(15): 2604. <doi:10.3390/math10152604>.
Author: Michail Tsagris [aut, cre]
Maintainer: Michail Tsagris <mtsagris@uoc.gr>

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New package poismf with initial version 0.4.0-4
Package: poismf
Title: Factorization of Sparse Counts Matrices Through Poisson Likelihood
Version: 0.4.0-4
Maintainer: David Cortes <david.cortes.rivera@gmail.com>
URL: https://github.com/david-cortes/poismf
BugReports: https://github.com/david-cortes/poismf/issues
Description: Creates a non-negative low-rank approximate factorization of a sparse counts matrix by maximizing Poisson likelihood with L1/L2 regularization (e.g. for implicit-feedback recommender systems or bag-of-words-based topic modeling) (Cortes, (2018) <arXiv:1811.01908>), which usually leads to very sparse user and item factors (over 90% zero-valued). Similar to hierarchical Poisson factorization (HPF), but follows an optimization-based approach with regularization instead of a hierarchical prior, and is fit through gradient-based methods instead of variational inference.
License: BSD_2_clause + file LICENSE
Imports: Matrix (>= 1.3), methods
NeedsCompilation: yes
Encoding: UTF-8
Packaged: 2023-03-26 14:41:07 UTC; david
Author: David Cortes [aut, cre, cph], Jean-Sebastien Roy [cph] , Stephen Nash [cph]
Repository: CRAN
Date/Publication: 2023-03-26 21:30:02 UTC

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Package HydroCode updated to version 1.0.3 with previous version 1.0.2 dated 2020-08-31

Title: Hydrological Codes
Description: Pfafstetter Hydrological Codes as cited in Verdin and Verdin (1999) <doi: 10.1016/S0022-1694(99)00011-6> are decoded for upstream or downstream queries.
Author: Thorsten Pohlert [aut, cre]
Maintainer: Thorsten Pohlert <thorsten.pohlert@gmx.de>

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New package DepCens with initial version 0.2.3
Package: DepCens
Title: Dependent Censoring Regression Models
Version: 0.2.3
Description: Dependent censoring regression models for survival multivariate data. These models are based on extensions of the frailty models, capable to accommodating the dependence between failure and censoring times, with Weibull and piecewise exponential marginal distributions. Theoretical details regarding the models implemented in the package can be found in Schneider et al. (2019) <doi:10.1002/bimj.201800391>.
License: GPL (>= 2)
URL: https://github.com/GabrielGrandemagne/DepCens, https://gabrielgrandemagne.github.io/DepCens/
BugReports: https://github.com/GabrielGrandemagne/DepCens/issues
Depends: R (>= 2.10)
Imports: dlm, Formula, rootSolve, survival, matrixStats, stats
Encoding: UTF-8
LazyData: true
Suggests: testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2023-03-26 16:52:17 UTC; Gabriel-PC
Author: Silvana Schneider [aut, cre] , Gabriel Grandemagne dos Santos [aut]
Maintainer: Silvana Schneider <silvana.schneider@ufrgs.br>
Repository: CRAN
Date/Publication: 2023-03-26 21:40:02 UTC

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Package auth0 updated to version 0.2.3 with previous version 0.2.1 dated 2019-09-26

Title: Authentication in Shiny with Auth0
Description: Uses Auth0 API (see <https://auth0.com> for more information) to use a simple authentication system. It provides tools to log in and out a shiny application using social networks or a list of e-mails.
Author: Julio Trecenti [cre], Daniel Falbel [aut], Jose Jesus [ctb], Dean Attali [ctb], C Lente [ctb]
Maintainer: Julio Trecenti <julio.trecenti@gmail.com>

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Package Directional updated to version 5.9 with previous version 5.8 dated 2023-02-07

Title: A Collection of Functions for Directional Data Analysis
Description: A collection of functions for directional data (including massive data, with millions of observations) analysis. Hypothesis testing, discriminant and regression analysis, MLE of distributions and more are included. The standard textbook for such data is the "Directional Statistics" by Mardia, K. V. and Jupp, P. E. (2000). Other references include a) Phillip J. Paine, Simon P. Preston Michail Tsagris and Andrew T. A. Wood (2018). An elliptically symmetric angular Gaussian distribution. Statistics and Computing 28(3): 689-697. <doi:10.1007/s11222-017-9756-4>. b) Tsagris M. and Alenazi A. (2019). Comparison of discriminant analysis methods on the sphere. Communications in Statistics: Case Studies, Data Analysis and Applications 5(4):467--491. <doi:10.1080/23737484.2019.1684854>. c) P. J. Paine, S. P. Preston, M. Tsagris and Andrew T. A. Wood (2020). Spherical regression models with general covariates and anisotropic errors. Statistics and Computing 30(1): 153--165. <doi:10. [...truncated...]
Author: Michail Tsagris, Giorgos Athineou, Christos Adam, Anamul Sajib, Eli Amson, Micah J. Waldstein
Maintainer: Michail Tsagris <mtsagris@uoc.gr>

Diff between Directional versions 5.8 dated 2023-02-07 and 5.9 dated 2023-03-26

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New package spINAR with initial version 0.1.0
Package: spINAR
Title: (Semi)Parametric Estimation and Bootstrapping of INAR Models
Version: 0.1.0
Date: 2023-03-22
Maintainer: Maxime Faymonville <faymonville@statistik.tu-dortmund.de>
Description: Semiparametric and parametric estimation of INAR models including a finite sample refinement (Faymonville et al. (2022) <doi:10.1007/s10260-022-00655-0>) for the semiparametric setting introduced in Drost et al. (2009) <doi:10.1111/j.1467-9868.2008.00687.x>, different procedures to bootstrap INAR data (Jentsch, C. and Weiß, C.H. (2017) <doi:10.3150/18-BEJ1057>) and flexible simulation of INAR data.
License: GPL (>= 3)
Encoding: UTF-8
Depends: R (>= 3.6.0)
Imports: checkmate (>= 1.8.5), progress, stats
URL: https://github.com/MFaymon/spINAR
BugReports: https://github.com/MFaymon/spINAR/issues
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2023-03-24 15:08:04 UTC; faymonville
Author: Maxime Faymonville [aut, cre] , Javiera Riffo [aut] , Jonas Rieger [aut] , Carsten Jentsch [aut]
Repository: CRAN
Date/Publication: 2023-03-26 19:10:02 UTC

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New package simulMGF with initial version 0.1.0
Package: simulMGF
Title: Simulate SNP Matrix, Phenotype and Genotypic Effects
Version: 0.1.0
Author: Martin Nahuel Garcia [aut, cre]
Maintainer: Martin Nahuel Garcia <garcia.martin@inta.gob.ar>
Description: Simulate genotypes in SNP (single nucleotide polymorphisms) Matrix as random numbers from an uniform distribution, for diploid organisms (coded by 0, 1, 2), Sikorska et al., (2013) <doi:10.1186/1471-2105-14-166>, or half-sib/full-sib SNP matrix from real or simulated parents SNP data, assuming mendelian segregation. Simulate phenotypic traits for real or simulated SNP data, controlled by a specific number of quantitative trait loci and their effects, sampled from a Normal or an Uniform distributions, assuming a pure additive model. This is useful for testing association and genomic prediction models or for educational purposes.
License: MIT + file LICENSE
Encoding: UTF-8
URL: https://github.com/mngar/simulMGF
Suggests: spelling
Language: en-US
NeedsCompilation: no
Packaged: 2023-03-24 18:24:02 UTC; Martin
Repository: CRAN
Date/Publication: 2023-03-26 19:20:02 UTC

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New package PINMA with initial version 1.1-1
Package: PINMA
Title: Improved Methods for Constructing Prediction Intervals for Network Meta-Analysis
Version: 1.1-1
Date: 2023-03-24
Maintainer: Hisashi Noma <noma@ism.ac.jp>
Description: Improved methods to construct prediction intervals for network meta-analysis. The parametric bootstrap and Kenward-Roger-type adjustment by Noma et al. (2022) <forthcoming> are implementable.
Depends: R (>= 3.5.0)
Imports: stats, MASS, metafor
License: GPL-3
Encoding: UTF-8
LazyData: true
NeedsCompilation: no
Packaged: 2023-03-24 17:51:00 UTC; Hisashi
Author: Hisashi Noma [aut, cre]
Repository: CRAN
Date/Publication: 2023-03-26 19:20:07 UTC

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New package oldbailey with initial version 1.0.0
Package: oldbailey
Title: For Accessing the Old Bailey Open Data
Version: 1.0.0
Maintainer: Steph Buongiorno <steph.buon@gmail.com>
Depends: R (>= 3.4.4)
Imports: dplyr, httr, jsonlite, stringr, tidyr, rvest
URL: https://github.com/rOpenGov/oldbailey
BugReports: https://github.com/rOpenGov/oldbailey/issues
Description: Fetch trial data from the Old Bailey Online API <https://www.oldbaileyonline.org/static/DocAPI.jsp>. Data is returned in an analysis-ready data frame with fields for metadata including (but not limited to) the names of the first person speakers, defendants, victims, their recorded genders, verdicts, punishments, crime locations, and dates. Optional parameters allow users to specify the number of results, whether these results contain key terms, and trial dates.
License: MIT + file LICENSE
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2023-03-24 19:58:31 UTC; stephbuon
Author: Steph Buongiorno [aut, cre]
Repository: CRAN
Date/Publication: 2023-03-26 19:30:02 UTC

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New package irtawsi with initial version 0.3.4
Package: irtawsi
Title: Items Response Theory Analysis with Steps and Interpretation
Version: 0.3.4
Maintainer: Hari Purnomo Susanto <haripurnomosusanto@gmail.com>
Description: Analysis of Dichotomous and polytomous data using unidimensional Item Response Theory model (Chalmers (2012) <doi:10.18637/jss.v048.i06>) with user friendly Graphical User Interface. Suitable for beginners who are learning Item Response Theory.
Imports: DT, mirt, psych, readxl,shiny,shinyWidgets,shinycssloaders,rmarkdown,bs4Dash,gt,diagram
License: GPL (>= 3)
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2023-03-24 23:39:43 UTC; Hari PS
Author: Hari Purnomo Susanto [aut, cre] , Heri Retnawati [ctb] , Agus Maman Abadi [ctb] , Haryanto Haryanto [ctb] , Raden Muhammad Ali [ctb]
Repository: CRAN
Date/Publication: 2023-03-26 19:40:02 UTC

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Package globalKinhom updated to version 0.1.6 with previous version 0.1.5 dated 2022-11-18

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

Diff between globalKinhom versions 0.1.5 dated 2022-11-18 and 0.1.6 dated 2023-03-26

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Package crosstable updated to version 0.6.0 with previous version 0.5.0 dated 2022-08-16

Title: Crosstables for Descriptive Analyses
Description: Create descriptive tables for continuous and categorical variables. Apply summary statistics and counting function, with or without a grouping variable, and create beautiful reports using 'rmarkdown' or 'officer'. You can also compute effect sizes and statistical tests if needed.
Author: Dan Chaltiel [aut, cre] , David Hajage [ccp]
Maintainer: Dan Chaltiel <dan.chaltiel@gmail.com>

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Package trend updated to version 1.1.5 with previous version 1.1.4 dated 2020-09-17

Title: Non-Parametric Trend Tests and Change-Point Detection
Description: The analysis of environmental data often requires the detection of trends and change-points. This package includes tests for trend detection (Cox-Stuart Trend Test, Mann-Kendall Trend Test, (correlated) Hirsch-Slack Test, partial Mann-Kendall Trend Test, multivariate (multisite) Mann-Kendall Trend Test, (Seasonal) Sen's slope, partial Pearson and Spearman correlation trend test), change-point detection (Lanzante's test procedures, Pettitt's test, Buishand Range Test, Buishand U Test, Standard Normal Homogeinity Test), detection of non-randomness (Wallis-Moore Phase Frequency Test, Bartels rank von Neumann's ratio test, Wald-Wolfowitz Test) and the two sample Robust Rank-Order Distributional Test.
Author: Thorsten Pohlert [aut, cre]
Maintainer: Thorsten Pohlert <thorsten.pohlert@gmx.de>

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Package stickyr updated to version 0.1.2 with previous version 0.1.1 dated 2023-01-13

Title: Data Frames with Persistent Columns and Attributes
Description: Provides data frames that hold certain columns and attributes persistently for data processing in 'dplyr'.
Author: Mizuki Uchida [aut, cre]
Maintainer: Mizuki Uchida <uchidamizuki@vivaldi.net>

Diff between stickyr versions 0.1.1 dated 2023-01-13 and 0.1.2 dated 2023-03-26

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Package splines2 updated to version 0.4.8 with previous version 0.4.7 dated 2023-01-14

Title: Regression Spline Functions and Classes
Description: Constructs basis matrix of B-splines, M-splines, I-splines, convex splines (C-splines), periodic M-splines, natural cubic splines, generalized Bernstein polynomials, and their integrals (except C-splines) and derivatives of given order by close-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>

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Package sortable updated to version 0.5.0 with previous version 0.4.6 dated 2022-08-14

Title: Drag-and-Drop in 'shiny' Apps with 'SortableJS'
Description: Enables drag-and-drop behaviour in Shiny apps, by exposing the functionality of the 'SortableJS' <https://sortablejs.github.io/Sortable/> JavaScript library as an 'htmlwidget'. You can use this in Shiny apps and widgets, 'learnr' tutorials as well as R Markdown. In addition, provides a custom 'learnr' question type - 'question_rank()' - that allows ranking questions with drag-and-drop.
Author: Andrie de Vries [cre, aut], Barret Schloerke [aut], Kenton Russell [aut, ccp] , RStudio [cph, fnd], Lebedev Konstantin [cph]
Maintainer: Andrie de Vries <apdevries@gmail.com>

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Package SISIR updated to version 0.2.2 with previous version 0.2.1 dated 2023-03-12

Title: Select Intervals Suited for Functional Regression
Description: Interval fusion and selection procedures for regression with functional inputs. Methods include a semiparametric approach based on Sliced Inverse Regression (SIR), as described in <doi:10.1007/s11222-018-9806-6> (standard ridge and sparse SIR are also included in the package) and a random forest based approach.
Author: Victor Picheny [aut], Remi Servien [aut], Nathalie Vialaneix [aut, cre]
Maintainer: Nathalie Vialaneix <nathalie.vialaneix@inrae.fr>

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Package refund updated to version 0.1-30 with previous version 0.1-29 dated 2023-01-17

Title: Regression with Functional Data
Description: Methods for regression for functional data, including function-on-scalar, scalar-on-function, and function-on-function regression. Some of the functions are applicable to image data.
Author: Jeff Goldsmith [aut], Fabian Scheipl [aut], Lei Huang [aut], Julia Wrobel [aut, cre], Chongzhi Di [aut], Jonathan Gellar [aut], Jaroslaw Harezlak [aut], Mathew W. McLean [aut], Bruce Swihart [aut], Luo Xiao [aut], Ciprian Crainiceanu [aut], Philip T. [...truncated...]
Maintainer: Julia Wrobel <julia.wrobel@cuanschutz.edu>

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Package nodbi updated to version 0.9.2 with previous version 0.9.1 dated 2022-11-20

Title: 'NoSQL' Database Connector
Description: Simplified document database access and manipulation, providing a common API across supported 'NoSQL' databases 'Elasticsearch', 'CouchDB', 'MongoDB' as well as 'SQLite/JSON1', 'PostgreSQL', and 'DuckDB'.
Author: Ralf Herold [aut, cre] , Scott Chamberlain [aut] , Rich FitzJohn [aut], Jeroen Ooms [aut]
Maintainer: Ralf Herold <ralf.herold@mailbox.org>

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Package NMdata updated to version 0.0.16 with previous version 0.0.15 dated 2022-11-30

Title: Preparation, Checking and Post-Processing Data for PK/PD Modeling
Description: Efficient tools for preparation, checking and post-processing of data in PK/PD (pharmacokinetics/pharmacodynamics) modeling, with focus on use of Nonmem. Attention is paid to ensure consistency, traceability, and Nonmem compatibility of Data. Rigorously checks final Nonmem datasets. Implemented in 'data.table', but easily integrated with 'base' and 'tidyverse'.
Author: Philip Delff [aut, cre]
Maintainer: Philip Delff <philip@delff.dk>

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Package navigatr updated to version 0.2.1 with previous version 0.2.0 dated 2022-11-19

Title: Navigation Menu for Pipe-Friendly Data Processing
Description: Provides a navigation menu to enable pipe-friendly data processing for hierarchical data structures. By activating the menu items, you can perform operations on each item while maintaining the overall structure in attributes.
Author: Mizuki Uchida [aut, cre]
Maintainer: Mizuki Uchida <uchidamizuki@vivaldi.net>

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Package ctsem updated to version 3.7.6 with previous version 3.7.2 dated 2022-11-06

Title: Continuous Time Structural Equation Modelling
Description: Hierarchical continuous (and discrete) time state space modelling, for linear and nonlinear systems measured by continuous variables, with limited support for binary data. The subject specific dynamic system is modelled as a stochastic differential equation (SDE) or difference equation, measurement models are typically multivariate normal factor models. Linear mixed effects SDE's estimated via maximum likelihood and optimization are the default. Nonlinearities, (state dependent parameters) and random effects on all parameters are possible, using either max likelihood / max a posteriori optimization (with optional importance sampling) or Stan's Hamiltonian Monte Carlo sampling. See <https://github.com/cdriveraus/ctsem/raw/master/vignettes/hierarchicalmanual.pdf> for details. Priors may be used. For the conceptual overview of the hierarchical Bayesian linear SDE approach, see <https://www.researchgate.net/publication/324093594_Hierarchical_Bayesian_Continuous_Time_Dynamic_Mod [...truncated...]
Author: Charles Driver [aut, cre, cph], Manuel Voelkle [aut, cph], Han Oud [aut, cph], Trustees of Columbia University [cph]
Maintainer: Charles Driver <charles.driver@ife.uzh.ch>

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Package Andromeda updated to version 0.6.3 with previous version 0.6.1 dated 2022-05-24

Title: Asynchronous Disk-Based Representation of Massive Data
Description: Storing very large data objects on a local drive, while still making it possible to manipulate the data in an efficient manner.
Author: Adam Black [aut, cre], Martijn Schuemie [aut], Marc A. Suchard [aut], Observational Health Data Science and Informatics [cph]
Maintainer: Adam Black <black@ohdsi.org>

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Package stdmod updated to version 0.2.7 with previous version 0.2.6 dated 2023-03-10

Title: Standardized Moderation Effect and Its Confidence Interval
Description: Functions for computing a standardized moderation effect in moderated regression and forming its confidence interval by nonparametric bootstrapping as proposed in Cheung, Cheung, Lau, Hui, and Vong (2022) <doi:10.1037/hea0001188>. Also includes simple-to-use functions for computing conditional effects (unstandardized or standardized) and plotting moderation effects.
Author: Shu Fai Cheung [aut, cre] , David Weng Ngai Vong [ctb]
Maintainer: Shu Fai Cheung <shufai.cheung@gmail.com>

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Package FastJM updated to version 1.3.1 with previous version 1.2.0 dated 2022-08-06

Title: Semi-Parametric Joint Modeling of Longitudinal and Survival Data
Description: Maximum likelihood estimation for the semi-parametric joint modeling of competing risks and longitudinal data applying customized linear scan algorithms, proposed by Li and colleagues (2022) <doi:10.1155/2022/1362913>. The time-to-event data is modelled using a (cause-specific) Cox proportional hazards regression model with time-fixed covariates. The longitudinal outcome is modelled using a linear mixed effects model. The association is captured by shared random effects. The model is estimated using an Expectation Maximization algorithm.
Author: Shanpeng Li [aut, cre], Ning Li [ctb], Hong Wang [ctb], Jin Zhou [ctb], Hua Zhou [ctb], Gang Li [ctb]
Maintainer: Shanpeng Li <lishanpeng0913@ucla.edu>

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Package phers updated to version 1.0.2 with previous version 1.0.0 dated 2022-12-14

Title: Calculate Phenotype Risk Scores
Description: Use phenotype risk scores based on linked clinical and genetic data to study Mendelian disease and rare genetic variants. See Bastarache et al. 2018 <doi:10.1126/science.aal4043>.
Author: Jake Hughey [aut, cre], Layla Aref [aut]
Maintainer: Jake Hughey <jakejhughey@gmail.com>

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Package jpgrid updated to version 0.3.1 with previous version 0.3.0 dated 2023-02-11

Title: Functions for the Grid Square Codes in Japan
Description: Provides functions for grid square codes in Japan (<https://www.stat.go.jp/english/data/mesh/index.html>). Generates the grid square codes from longitude/latitude, geometries, and the grid square codes of different scales, and vice versa.
Author: Mizuki Uchida [aut, cre]
Maintainer: Mizuki Uchida <uchidamizuki@vivaldi.net>

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Package rspm updated to version 0.3.1 with previous version 0.3.0 dated 2022-12-22

Title: 'RStudio' Package Manager
Description: Enables binary package installations on Linux distributions. Provides access to 'RStudio' public repositories at <https://packagemanager.rstudio.com>, and transparent management of system requirements without administrative privileges. Currently supported distributions are 'CentOS' / 'RHEL' 7-9, and several 'RHEL' derivatives ('Rocky Linux', 'AlmaLinux', 'Oracle Linux', and 'Amazon Linux' 2), 'openSUSE' / 'SLES' 15.3-4, and 'Ubuntu' 18.04, 20.04 and 22.04.
Author: Inaki Ucar [aut, cph, cre] , R Core Team [aut, cph]
Maintainer: Inaki Ucar <iucar@fedoraproject.org>

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Package Rcompadre updated to version 1.2.1 with previous version 1.2.0 dated 2023-01-18

Title: Utilities for using the 'COM(P)ADRE' Matrix Model Database
Description: Utility functions for interacting with the 'COMPADRE' and 'COMADRE' databases of matrix population models. Described in Jones et al. (2021) <doi:10.1101/2021.04.26.441330>.
Author: Patrick Barks [aut] , Danny Buss [aut], Roberto Salguero-Gomez [aut] , Iain Stott [aut] , William K. Petry [aut] , Tamora James [aut] , Owen Jones [aut, cre] , Julia Jones [aut] , Gesa Roemer [aut] , Sam Levin [aut]
Maintainer: Owen Jones <jones@biology.sdu.dk>

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Package littler updated to version 0.3.18 with previous version 0.3.17 dated 2022-10-29

Title: R at the Command-Line via 'r'
Description: A scripting and command-line front-end is provided by 'r' (aka 'littler') as a lightweight binary wrapper around the GNU R language and environment for statistical computing and graphics. While R can be used in batch mode, the r binary adds full support for both 'shebang'-style scripting (i.e. using a hash-mark-exclamation-path expression as the first line in scripts) as well as command-line use in standard Unix pipelines. In other words, r provides the R language without the environment.
Author: Dirk Eddelbuettel and Jeff Horner
Maintainer: Dirk Eddelbuettel <edd@debian.org>

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Package ggquickeda updated to version 0.3.0 with previous version 0.2.2 dated 2022-05-16

Title: Quickly Explore Your Data Using 'ggplot2' and 'table1' Summary Tables
Description: Quickly and easily perform exploratory data analysis by uploading your data as a 'csv' file. Start generating insights using 'ggplot2' plots and 'table1' tables with descriptive stats, all using an easy-to-use point and click 'Shiny' interface.
Author: Samer Mouksassi [aut, cre] , Dean Attali [aut], Benjamin Rich [aut] , Michael Sachs [aut] , James Craig [aut]
Maintainer: Samer Mouksassi <samermouksassi@gmail.com>

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Package BEKKs updated to version 1.4.3 with previous version 1.4.2 dated 2023-03-20

Title: Multivariate Conditional Volatility Modelling and Forecasting
Description: Methods and tools for estimating, simulating and forecasting of so-called BEKK-models (named after Baba, Engle, Kraft and Kroner) based on the fast Berndt–Hall–Hall–Hausman (BHHH) algorithm described in Hafner and Herwartz (2008) <doi:10.1007/s00184-007-0130-y>.
Author: Markus J. Fuelle [aut, cre], Alexander Lange [aut], Christian M. Hafner [aut], Helmut Herwartz [aut]
Maintainer: Markus J. Fuelle <fuelle@uni-goettingen.de>

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Package abctools updated to version 1.1.6 with previous version 1.1.4 dated 2022-11-02

Title: Tools for ABC Analyses
Description: Tools for approximate Bayesian computation including summary statistic selection and assessing coverage. See Nunes and Prangle (2015) <doi:10.32614/RJ-2015-030> and Rodrigues, Prangle and Sisson (2018) <doi:10.1016/j.csda.2018.04.004>.
Author: Matt Nunes [aut, cre], Dennis Prangle [aut], Guilherme Rodrigues [ctb]
Maintainer: Matt Nunes <nunesrpackages@gmail.com>

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Package tatoo updated to version 1.1.2 with previous version 1.1.1 dated 2019-03-29

Title: Combine and Export Data Frames
Description: Functions to combine data.frames in ways that require additional effort in base R, and to add metadata (id, title, ...) that can be used for printing and xlsx export. The 'Tatoo_report' class is provided as a convenient helper to write several such tables to a workbook, one table per worksheet. Tatoo is built on top of 'openxlsx', but intimate knowledge of that package is not required to use tatoo.
Author: Stefan Fleck [aut, cre]
Maintainer: Stefan Fleck <stefan.b.fleck@gmail.com>

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Package wnl updated to version 0.7.2 with previous version 0.7.1 dated 2022-11-29

Title: Minimization Tool for Pharmacokinetic-Pharmacodynamic Data Analysis
Description: This is a set of minimization tools (maximum likelihood estimation and least square fitting) to solve examples in the Johan Gabrielsson and Dan Weiner's book "Pharmacokinetic and Pharmacodynamic Data Analysis - Concepts and Applications" 5th ed. (ISBN:9198299107). Examples include linear and nonlinear compartmental model, turn-over model, single or multiple dosing bolus/infusion/oral models, allometry, toxicokinetics, reversible metabolism, in-vitro/in-vivo extrapolation, enterohepatic circulation, metabolite modeling, Emax model, inhibitory model, tolerance model, oscillating response model, enantiomer interaction model, effect compartment model, drug-drug interaction model, receptor occupancy model, and rebound phenomena model.
Author: Kyun-Seop Bae [aut]
Maintainer: Kyun-Seop Bae <k@acr.kr>

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Package DescribeDisplay updated to version 0.2.9 with previous version 0.2.7 dated 2018-09-23

Title: An Interface to the 'DescribeDisplay' 'GGobi' Plugin
Description: Produce publication quality graphics from output of 'GGobi' describe display plugin.
Author: Di Cook [aut, cre], Hadley Wickham [aut], Andreas Buja [aut], Barret Schloerke [aut]
Maintainer: Di Cook <dicook@monash.edu>

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Package ctrdata updated to version 1.12.0 with previous version 1.11.1 dated 2022-11-20

Title: Retrieve and Analyze Clinical Trials in Public Registers
Description: A system for querying, retrieving and analyzing protocol- and results-related information on clinical trials from three public registers, the 'European Union Clinical Trials Register' ('EUCTR', <https://www.clinicaltrialsregister.eu/>), 'ClinicalTrials.gov' ('CTGOV', <https://clinicaltrials.gov/>) and the 'ISRCTN' (<http://www.isrctn.com/>). Trial information is downloaded, converted and stored in a database ('PostgreSQL', 'SQLite', 'DuckDB' or 'MongoDB'; via package 'nodbi'). Functions are included to identify deduplicated records, to easily find and extract variables (fields) of interest even from complex nesting as used by the registers, and to update previous queries. The package can be used for meta-analysis and trend-analysis of the design and conduct as well as for results of clinical trials.
Author: Ralf Herold [aut, cre]
Maintainer: Ralf Herold <ralf.herold@mailbox.org>

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Package BNSP updated to version 2.2.2 with previous version 2.2.1 dated 2023-02-28

Title: Bayesian Non- And Semi-Parametric Model Fitting
Description: MCMC algorithms & processing functions for: 1. single response multiple regression, see Papageorgiou, G. (2018) <doi: 10.32614/RJ-2018-069>, 2. multivariate response multiple regression, with nonparametric models for the means, the variances and the correlation matrix, with variable selection, see Papageorgiou, G. and Marshall, B. C. (2020) <doi: 10.1080/10618600.2020.1739534>, 3. joint mean-covariance models for multivariate responses, see Papageorgiou, G. (2022) <doi: 10.1002/sim.9376>, and 4.Dirichlet process mixtures, see Papageorgiou, G. (2019) <doi: 10.1111/anzs.12273>.
Author: Georgios Papageorgiou
Maintainer: Georgios Papageorgiou <gpapageo@gmail.com>

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Package allestimates updated to version 0.2.3 with previous version 0.2.2 dated 2022-03-04

Title: Effect Estimates from All Models
Description: Estimates and plots effect estimates from models with all possible combinations of a list of variables. It can be used for assessing treatment effects in clinical trials or risk factors in bio-medical and epidemiological research. Like Stata command 'confall' (Wang Z (2007) <doi:10.1177/1536867X0700700203> ), 'allestimates' calculates and stores all effect estimates, and plots them against p values or Akaike information criterion (AIC) values. It currently has functions for linear regression: all_lm(), logistic and Poisson regression: all_glm(), and Cox proportional hazards regression: all_cox().
Author: Zhiqiang Wang [aut, cre]
Maintainer: Zhiqiang Wang <menzies.uq@gmail.com>

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Package adace (with last version 1.0.1) was removed from CRAN

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

2022-03-22 1.0.1

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Package lddmm updated to version 0.3.0 with previous version 0.2.1 dated 2023-01-31

Title: Longitudinal Drift-Diffusion Mixed Models (LDDMM)
Description: Implementation of the drift-diffusion mixed model for category learning as described in Paulon et al. (2021) <doi:10.1080/01621459.2020.1801448>.
Author: Giorgio Paulon [aut, cre], Abhra Sarkar [aut, ctb]
Maintainer: Giorgio Paulon <giorgio.paulon@utexas.edu>

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