Sat, 12 Sep 2020

Package statsExpressions updated to version 0.5.0 with previous version 0.4.2 dated 2020-06-20

Title: Expressions with Statistical Details
Description: Statistical processing backend for 'ggstatsplot', this package creates expressions with details from statistical tests. Currently, it supports only the most common types of statistical tests: parametric, nonparametric, robust, and Bayesian versions of t-test/ANOVA, correlation analyses, contingency table analysis, and meta-analysis.
Author: Indrajeet Patil [cre, aut, cph] (<https://orcid.org/0000-0003-1995-6531>)
Maintainer: Indrajeet Patil <patilindrajeet.science@gmail.com>

Diff between statsExpressions versions 0.4.2 dated 2020-06-20 and 0.5.0 dated 2020-09-12

 DESCRIPTION                                |   16 
 MD5                                        |   79 +--
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 NEWS.md                                    |    6 
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Package ipaddress updated to version 0.5.1 with previous version 0.5.0 dated 2020-08-26

Title: Tidy IP Addresses
Description: Classes and functions for working with IP (Internet Protocol) addresses and networks, inspired by the Python 'ipaddress' module. Offers full support for both IPv4 and IPv6 (Internet Protocol versions 4 and 6) address spaces. It is specifically designed to work well with the 'tidyverse'.
Author: David Hall [aut, cre] (<https://orcid.org/0000-0002-2193-0480>)
Maintainer: David Hall <david.hall.physics@gmail.com>

Diff between ipaddress versions 0.5.0 dated 2020-08-26 and 0.5.1 dated 2020-09-12

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Package diveMove updated to version 1.5.1 with previous version 1.4.6 dated 2020-04-29

Title: Dive Analysis and Calibration
Description: Utilities to represent, visualize, filter, analyse, and summarize time-depth recorder (TDR) data. Miscellaneous functions for handling location data are also provided.
Author: Sebastian P. Luque <spluque@gmail.com>
Maintainer: Sebastian P. Luque <spluque@gmail.com>

Diff between diveMove versions 1.4.6 dated 2020-04-29 and 1.5.1 dated 2020-09-12

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Package gtrendsR updated to version 1.4.7 with previous version 1.4.6 dated 2020-05-17

Title: Perform and Display Google Trends Queries
Description: An interface for retrieving and displaying the information returned online by Google Trends is provided. Trends (number of hits) over the time as well as geographic representation of the results can be displayed.
Author: Philippe Massicotte [aut, cre], Dirk Eddelbuettel [aut]
Maintainer: Philippe Massicotte <pmassicotte@hotmail.com>

Diff between gtrendsR versions 1.4.6 dated 2020-05-17 and 1.4.7 dated 2020-09-12

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Package DJL updated to version 3.5 with previous version 3.4 dated 2020-05-28

Title: Distance Measure Based Judgment and Learning
Description: Implements various decision support tools related to the Econometrics & Technometrics. Subroutines include correlation reliability test, Mahalanobis distance measure for outlier detection, combinatorial search (all possible subset regression), non-parametric efficiency analysis measures: DDF (directional distance function), DEA (data envelopment analysis), HDF (hyperbolic distance function), SBM (slack-based measure), and SF (shortage function), benchmarking, Malmquist productivity analysis, risk analysis, technology adoption model, new product target setting, etc.
Author: Dong-Joon Lim, Ph.D. <technometrics.org>
Maintainer: Dong-Joon Lim <tgno3.com@gmail.com>

Diff between DJL versions 3.4 dated 2020-05-28 and 3.5 dated 2020-09-12

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Package gof (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:

2020-03-15 1.0.1

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Package lava.tobit (with last version 0.5) was removed from CRAN

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

2017-03-31 0.5
2012-08-16 0.4-7
2012-05-15 0.4-6

Permanent link
Package mets (with last version 1.2.8) was removed from CRAN

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

2020-08-27 1.2.8
2020-03-04 1.2.7.1
2020-02-19 1.2.7
2019-08-05 1.2.6
2018-11-20 1.2.5
2018-08-13 1.2.4
2018-04-30 1.2.3.1
2018-02-09 1.2.3
2017-03-31 1.2.2
2017-02-26 1.2.1
2017-02-04 1.2
2015-05-29 1.1.1
2015-02-16 1.1.0
2014-11-18 1.0
2014-05-13 0.2.8
2014-02-20 0.2.7
2013-12-17 0.2.6
2013-11-04 0.2.5
2013-07-12 0.2.4
2013-05-22 0.2.3
2013-05-21 0.2.2
2013-04-24 0.2.1
2013-01-21 0.1-13
2012-11-20 0.1-12
2012-07-06 0.1-11
2012-05-14 0.1-8

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Package sigminer updated to version 1.0.16 with previous version 1.0.13 dated 2020-08-27

Title: Extract, Analyze and Visualize Signatures for Genomic Variations
Description: Genomic alterations including single nucleotide substitution, copy number alteration, etc. are the major force for cancer initialization and development. Due to the specificity of molecular lesions caused by genomic alterations, we can generate characteristic alteration spectra, called 'signature' (Wang, Shixiang, et al. (2020) <DOI:10.1101/2020.04.27.20082404> & Alexandrov, Ludmil B., et al. (2020) <DOI:10.1038/s41586-020-1943-3> & Macintyre, Geoff, et al. (2018) <DOI:10.1038/s41588-018-0179-8>). This package helps users to extract, analyze and visualize signatures from genomic alteration records, thus providing new insight into cancer study.
Author: Shixiang Wang [aut, cre] (<https://orcid.org/0000-0001-9855-7357>), Xue-Song Liu [aut, ctb] (<https://orcid.org/0000-0002-7736-0077>), Tao Wu [aut, ctb], Ziyu Tao [aut, ctb], Geoffrey Macintyre [ctb], Anand Mayakonda [ctb]
Maintainer: Shixiang Wang <w_shixiang@163.com>

Diff between sigminer versions 1.0.13 dated 2020-08-27 and 1.0.16 dated 2020-09-12

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Package reactlog updated to version 1.1.0 with previous version 1.0.0 dated 2019-03-22

Title: Reactivity Visualizer for 'shiny'
Description: Building interactive web applications with R is incredibly easy with 'shiny'. Behind the scenes, 'shiny' builds a reactive graph that can quickly become intertwined and difficult to debug. 'reactlog' (Schloerke 2019) <doi:10.5281/zenodo.2591517> provides a visual insight into that black box of 'shiny' reactivity by constructing a directed dependency graph of the application's reactive state at any time point in a reactive recording.
Author: Barret Schloerke [aut, cre] (<https://orcid.org/0000-0001-9986-114X>), Joe Cheng [ctb], RStudio [cph, fnd]
Maintainer: Barret Schloerke <barret@rstudio.com>

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Package r2dii.analysis updated to version 0.1.1 with previous version 0.1.0 dated 2020-09-03

Title: Tools to Calculate Climate Targets for Financial Portfolios
Description: These tools help you to assess if a financial portfolio aligns with climate goals. They summarize key metrics attributed to the portfolio (e.g. production, emission factors), and calculate targets based on climate scenarios. They implement in R the last step of the free software 'PACTA' (Paris Agreement Capital Transition Assessment; <https://2degrees-investing.org/>). Financial institutions use 'PACTA' to study how their capital allocation impacts the climate.
Author: Jackson Hoffart [aut, cre] (<https://orcid.org/0000-0002-8600-5042>), Mauro Lepore [aut, ctr] (<https://orcid.org/0000-0002-1986-7988>), Klaus Hogedorn [aut], 2 Degrees Investing Initiative [cph, fnd]
Maintainer: Jackson Hoffart <jackson.hoffart@gmail.com>

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Package markmyassignment updated to version 0.8.3 with previous version 0.8.2 dated 2019-04-28

Title: Automatic Marking of R Assignments
Description: Automatic marking of R assignments for students and teachers based on 'testthat' test suites.
Author: Mans Magnusson, Oscar Pettersson
Maintainer: Mans Magnusson <mons.magnusson@gmail.com>

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Package jstable updated to version 0.9.7 with previous version 0.9.6 dated 2020-08-26

Title: Create Tables from Different Types of Regression
Description: Create regression tables from generalized linear model(GLM), generalized estimating equation(GEE), generalized linear mixed-effects model(GLMM), Cox proportional hazards model, survey-weighted generalized linear model(svyglm) and survey-weighted Cox model results for publication.
Author: Jinseob Kim [aut, cre] (<https://orcid.org/0000-0002-9403-605X>), Zarathu [cph, fnd]
Maintainer: Jinseob Kim <jinseob2kim@gmail.com>

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Package swagger updated to version 3.33.0 with previous version 3.9.2 dated 2018-03-23

Title: Dynamically Generates Documentation from a 'Swagger' Compliant API
Description: A collection of 'HTML', 'JavaScript', and 'CSS' assets that dynamically generate beautiful documentation from a 'Swagger' compliant API: <https://swagger.io/specification/>.
Author: Barret Schloerke [cre, aut], Javier Luraschi [aut], RStudio [cph], SmartBear Software [aut, cph]
Maintainer: Barret Schloerke <barret@rstudio.com>

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Package simplextree updated to version 1.0.1 with previous version 1.0.0 dated 2020-09-02

Title: Provides Tools for Working with General Simplicial Complexes
Description: Provides an interface to a Simplex Tree data structure, which is a data structure aimed at enabling efficient manipulation of simplicial complexes of any dimension. The Simplex Tree data structure was originally introduced by Jean-Daniel Boissonnat and Clément Maria (2014) <doi:10.1007/s00453-014-9887-3>.
Author: Matt Piekenbrock [cre, aut], Jason Cory Brunson [ctb], Howard Hinnant [cph]
Maintainer: Matt Piekenbrock <matt.piekenbrock@gmail.com>

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Package marqLevAlg updated to version 2.0.4 with previous version 2.0.2 dated 2020-03-30

Title: A Parallelized General-Purpose Optimization Based on Marquardt-Levenberg Algorithm
Description: This algorithm provides a numerical solution to the problem of minimizing (or maximizing) a function. It is particularly suited for complex problems and more efficient than the Gauss-Newton-like algorithm when starting from points very far from the final minimum (or maximum). Each iteration is parallelized and convergence relies on a stringent stopping criterion based on the first and second derivatives. See Philipps et al, 2020 <arXiv:2009.03840>.
Author: Viviane Philipps, Cecile Proust-Lima, Melanie Prague, Boris Hejblum, Daniel Commenges, Amadou Diakite
Maintainer: Viviane Philipps <viviane.philipps@u-bordeaux.fr>

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Package poismf updated to version 0.2.5 with previous version 0.2.4 dated 2020-08-26

Title: Factorization of Sparse Counts Matrices Through Poisson Likelihood
Description: Creates a low-rank factorization of a sparse counts matrix by maximizing Poisson likelihood with l1/l2 regularization with all non-negative latent factors (e.g. for recommender systems or topic modeling) (Cortes, (2018) <arXiv:1811.01908>). Similar to hierarchical Poisson factorization, but follows an optimization-based approach with regularization instead of a hierarchical structure, and is fit through gradient-based methods instead of variational inference.
Author: David Cortes [aut, cre, cph], Jean-Sebastien Roy [cph], Stephen Nash [cph]
Maintainer: David Cortes <david.cortes.rivera@gmail.com>

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Package performance updated to version 0.5.0 with previous version 0.4.8 dated 2020-07-27

Title: Assessment of Regression Models Performance
Description: Utilities for computing measures to assess model quality, which are not directly provided by R's 'base' or 'stats' packages. These include e.g. measures like r-squared, intraclass correlation coefficient (Nakagawa, Johnson & Schielzeth (2017) <doi:10.1098/rsif.2017.0213>), root mean squared error or functions to check models for overdispersion, singularity or zero-inflation and more. Functions apply to a large variety of regression models, including generalized linear models, mixed effects models and Bayesian models.
Author: Daniel Lüdecke [aut, cre] (<https://orcid.org/0000-0002-8895-3206>), Dominique Makowski [aut, ctb] (<https://orcid.org/0000-0001-5375-9967>), Philip Waggoner [aut, ctb] (<https://orcid.org/0000-0002-7825-7573>), Indrajeet Patil [aut, ctb] (<https://orcid.org/0000-0003-1995-6531>)
Maintainer: Daniel Lüdecke <d.luedecke@uke.de>

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Package DetLifeInsurance updated to version 0.1.3 with previous version 0.1.2 dated 2020-07-07

Title: Life Insurance Premium and Reserves Valuation
Description: Methods for valuation of life insurance premiums and reserves (including variable-benefit and fractional coverage) based on "Actuarial Mathematics" by Bowers, H.U. Gerber, J.C. Hickman, D.A. Jones and C.J. Nesbitt (1997, ISBN: 978-0938959465), "Actuarial Mathematics for Life Contingent Risks" by Dickson, David C. M., Hardy, Mary R. and Waters, Howard R (2009) <doi:10.1017/CBO9780511800146> and "Life Contingencies" by Jordan, C. W (1952) <doi:10.1017/S002026810005410X>. It also contains functions for equivalent interest and discount rate calculation, present and future values of annuities, and loan amortization schedule.
Author: Joaquin Auza [aut, cre], Maria Sol Alvarez [aut]
Maintainer: Joaquin Auza <auzajoaquin@gmail.com>

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Package plot3logit updated to version 3.0.0 with previous version 2.2.0 dated 2020-07-19

Title: Ternary Plots for Trinomial Regression Models
Description: An implementation of the ternary plot for interpreting regression coefficients of trinomial regression models, as proposed in Santi, Dickson and Espa (2019) <doi:10.1080/00031305.2018.1442368>. Ternary plots can be drawn using either 'ggtern' package (based on 'ggplot2') or 'Ternary' package (based on standard graphics).
Author: Flavio Santi [cre, aut] (<https://orcid.org/0000-0002-2014-1981>), Maria Michela Dickson [aut] (<https://orcid.org/0000-0002-4307-0469>), Giuseppe Espa [aut] (<https://orcid.org/0000-0002-0331-3630>), Diego Giuliani [aut] (<https://orcid.org/0000-0002-7198-6714>)
Maintainer: Flavio Santi <flavio.santi@univr.it>

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Package LMest updated to version 3.0.0 with previous version 2.6.1 dated 2020-04-19

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

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Package pairwiseComparisons updated to version 2.0.1 with previous version 2.0.0 dated 2020-09-04

Title: Multiple Pairwise Comparison Tests
Description: Multiple pairwise comparison tests on tidy data for one-way analysis of variance for both between-subjects and within-subjects designs. Currently, it supports only the most common types of statistical analyses and tests: parametric (Welch's and Student's t-test), nonparametric (Durbin-Conover and Dunn test), robust (Yuen’s trimmed means test), and Bayes Factor (Student's t-test).
Author: Indrajeet Patil [cre, aut, cph] (<https://orcid.org/0000-0003-1995-6531>)
Maintainer: Indrajeet Patil <patilindrajeet.science@gmail.com>

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Package h2o updated to version 3.30.1.2 with previous version 3.30.0.1 dated 2020-04-09

Title: R Interface for the 'H2O' Scalable Machine Learning Platform
Description: R interface for 'H2O', the scalable open source machine learning platform that offers parallelized implementations of many supervised and unsupervised machine learning algorithms such as Generalized Linear Models (GLM), Gradient Boosting Machines (including XGBoost), Random Forests, Deep Neural Networks (Deep Learning), Stacked Ensembles, Naive Bayes, Generalized Additive Models (GAM), Cox Proportional Hazards, K-Means, PCA, Word2Vec, as well as a fully automatic machine learning algorithm (H2O AutoML).
Author: Erin LeDell [aut, cre], Navdeep Gill [aut], Spencer Aiello [aut], Anqi Fu [aut], Arno Candel [aut], Cliff Click [aut], Tom Kraljevic [aut], Tomas Nykodym [aut], Patrick Aboyoun [aut], Michal Kurka [aut], Michal Malohlava [aut], Ludi Rehak [ctb], Eric Eckstrand [ctb], Brandon Hill [ctb], Sebastian Vidrio [ctb], Surekha Jadhawani [ctb], Amy Wang [ctb], Raymond Peck [ctb], Wendy Wong [ctb], Jan Gorecki [ctb], Matt Dowle [ctb], Yuan Tang [ctb], Lauren DiPerna [ctb], H2O.ai [cph, fnd]
Maintainer: Erin LeDell <erin@h2o.ai>

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Package gamlss updated to version 5.2-0 with previous version 5.1-7 dated 2020-07-13

Title: Generalised Additive Models for Location Scale and Shape
Description: Functions for fitting the Generalized Additive Models for Location Scale and Shape introduced by Rigby and Stasinopoulos (2005), <doi:10.1111/j.1467-9876.2005.00510.x>. The models use a distributional regression approach where all the parameters of the conditional distribution of the response variable are modelled using explanatory variables.
Author: Mikis Stasinopoulos [aut, cre, cph], Bob Rigby [aut], Vlasios Voudouris [ctb], Calliope Akantziliotou [ctb], Marco Enea [ctb], Daniil Kiose [ctb]
Maintainer: Mikis Stasinopoulos <d.stasinopoulos@londonmet.ac.uk>

Diff between gamlss versions 5.1-7 dated 2020-07-13 and 5.2-0 dated 2020-09-12

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Package baseline updated to version 1.3-1 with previous version 1.3-0 dated 2020-05-11

Title: Baseline Correction of Spectra
Description: Collection of baseline correction algorithms, along with a framework and a Tcl/Tk enabled GUI for optimising baseline algorithm parameters. Typical use of the package is for removing background effects from spectra originating from various types of spectroscopy and spectrometry, possibly optimizing this with regard to regression or classification results. Correction methods include polynomial fitting, weighted local smoothers and many more.
Author: Kristian Hovde Liland [aut, cre], Bjørn-Helge Mevik [aut], Roberto Canteri [ctb]
Maintainer: Kristian Hovde Liland <kristian.liland@nmbu.no>

Diff between baseline versions 1.3-0 dated 2020-05-11 and 1.3-1 dated 2020-09-12

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Package xlsx updated to version 0.6.4.2 with previous version 0.6.3 dated 2020-02-28

Title: Read, Write, Format Excel 2007 and Excel 97/2000/XP/2003 Files
Description: Provide R functions to read/write/format Excel 2007 and Excel 97/2000/XP/2003 file formats.
Author: Adrian Dragulescu [aut], Cole Arendt [aut, cre]
Maintainer: Cole Arendt <cole.arendt@outlook.com>

Diff between xlsx versions 0.6.3 dated 2020-02-28 and 0.6.4.2 dated 2020-09-12

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Package tidyBF updated to version 0.3.0 with previous version 0.2.1 dated 2020-06-19

Title: Tidy Wrapper for 'BayesFactor' Package
Description: Provides helper functions that make it easy to run 'BayesFactor' package tests on a data which is in a tidy format. Additionally, it provides a more consistent syntax and by default returns a dataframe with rich details. These functions can also return expressions containing results from Bayes Factor tests that can then be displayed on custom plots.
Author: Indrajeet Patil [aut, cre, cph] (<https://orcid.org/0000-0003-1995-6531>)
Maintainer: Indrajeet Patil <patilindrajeet.science@gmail.com>

Diff between tidyBF versions 0.2.1 dated 2020-06-19 and 0.3.0 dated 2020-09-12

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Package SpaDES.core updated to version 1.0.3 with previous version 1.0.2 dated 2020-08-28

Title: Core Utilities for Developing and Running Spatially Explicit Discrete Event Models
Description: Provides the core framework for a discrete event system (DES) to implement a complete data-to-decisions, reproducible workflow. The core DES components facilitate modularity, and easily enable the user to include additional functionality by running user-built modules. Includes conditional scheduling, restart after interruption, packaging of reusable modules, tools for developing arbitrary automated workflows, automated interweaving of modules of different temporal resolution, and tools for visualizing and understanding the DES project.
Author: Alex M Chubaty [aut, cre] (<https://orcid.org/0000-0001-7146-8135>), Eliot J B McIntire [aut] (<https://orcid.org/0000-0002-6914-8316>), Yong Luo [ctb], Steve Cumming [ctb], Ceres Barros [ctb] (<https://orcid.org/0000-0003-4036-977X>), Her Majesty the Queen in Right of Canada, as represented by the Minister of Natural Resources Canada [cph]
Maintainer: Alex M Chubaty <alex.chubaty@gmail.com>

Diff between SpaDES.core versions 1.0.2 dated 2020-08-28 and 1.0.3 dated 2020-09-12

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Package shinyalert updated to version 2.0.0 with previous version 1.1 dated 2020-04-29

Title: Easily Create Pretty Popup Messages (Modals) in 'Shiny'
Description: Easily create pretty popup messages (modals) in 'Shiny'. A modal can contain text, images, OK/Cancel buttons, an input to get a response from the user, and many more customizable options.
Author: Dean Attali [aut, cre] (R interface), Tristan Edwards [aut] (sweetalert library), Zhengjia Wang [ctb]
Maintainer: Dean Attali <daattali@gmail.com>

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Package RSSL updated to version 0.9.2 with previous version 0.9.1 dated 2020-02-04

Title: Implementations of Semi-Supervised Learning Approaches for Classification
Description: A collection of implementations of semi-supervised classifiers and methods to evaluate their performance. The package includes implementations of, among others, Implicitly Constrained Learning, Moment Constrained Learning, the Transductive SVM, Manifold regularization, Maximum Contrastive Pessimistic Likelihood estimation, S4VM and WellSVM.
Author: Jesse Krijthe [aut, cre]
Maintainer: Jesse Krijthe <jkrijthe@gmail.com>

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Package RNiftyReg updated to version 2.7.0 with previous version 2.6.8 dated 2020-04-01

Title: Image Registration Using the 'NiftyReg' Library
Description: Provides an 'R' interface to the 'NiftyReg' image registration tools <https://github.com/KCL-BMEIS/niftyreg>. Linear and nonlinear registration are supported, in two and three dimensions.
Author: Jon Clayden [cre, aut] (<https://orcid.org/0000-0002-6608-0619>), Marc Modat [aut], Benoit Presles [aut], Thanasis Anthopoulos [aut], Pankaj Daga [aut]
Maintainer: Jon Clayden <code@clayden.org>

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Package RNetCDF updated to version 2.4-2 with previous version 2.3-1 dated 2020-05-04

Title: Interface to 'NetCDF' Datasets
Description: An interface to the 'NetCDF' file formats designed by Unidata for efficient storage of array-oriented scientific data and descriptions. Most capabilities of 'NetCDF' version 4 are supported. Optional conversions of time units are enabled by 'UDUNITS' version 2, also from Unidata.
Author: Pavel Michna [aut], Milton Woods [aut, cre]
Maintainer: Milton Woods <miltonjwoods@gmail.com>

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Package riingo updated to version 0.3.1 with previous version 0.3.0 dated 2020-07-23

Title: An R Interface to the 'Tiingo' Stock Price API
Description: Functionality to download stock prices, cryptocurrency data, and more from the 'Tiingo' API <https://api.tiingo.com/>.
Author: Davis Vaughan [aut, cre], Matt Dancho [aut]
Maintainer: Davis Vaughan <davis@rstudio.com>

Diff between riingo versions 0.3.0 dated 2020-07-23 and 0.3.1 dated 2020-09-12

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Package revdbayes updated to version 1.3.9 with previous version 1.3.8 dated 2020-08-31

Title: Ratio-of-Uniforms Sampling for Bayesian Extreme Value Analysis
Description: Provides functions for the Bayesian analysis of extreme value models. The 'rust' package <https://cran.r-project.org/package=rust> is used to simulate a random sample from the required posterior distribution. The functionality of 'revdbayes' is similar to the 'evdbayes' package <https://cran.r-project.org/package=evdbayes>, which uses Markov Chain Monte Carlo ('MCMC') methods for posterior simulation. Also provided are functions for making inferences about the extremal index, using the K-gaps model of Suveges and Davison (2010) <doi:10.1214/09-AOAS292>. Also provided are d,p,q,r functions for the Generalised Extreme Value ('GEV') and Generalised Pareto ('GP') distributions that deal appropriately with cases where the shape parameter is very close to zero.
Author: Paul J. Northrop [aut, cre, cph], Scott D. Grimshaw [ctb]
Maintainer: Paul J. Northrop <p.northrop@ucl.ac.uk>

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Package r2dii.data updated to version 0.1.3 with previous version 0.1.2 dated 2020-08-04

Title: Datasets to Align Financial Markets with Climate Goals
Description: These datasets support the implementation in R of the software 'PACTA' (Paris Agreement Capital Transition Assessment), which is a free tool that calculates the alignment between financial assets and climate scenarios (<https://2degrees-investing.org/>). Financial institutions use 'PACTA' to study how their capital allocation impacts the climate. Because both financial institutions and market data providers keep their data private, this package provides fake, public data to enable the development and use of 'PACTA' in R.
Author: Mauro Lepore [aut, cre, ctr] (<https://orcid.org/0000-0002-1986-7988>), Jackson Hoffart [aut, dtc] (<https://orcid.org/0000-0002-8600-5042>), Klaus Hagedorn [aut], 2 Degrees Investing Initiative [cph, fnd]
Maintainer: Mauro Lepore <maurolepore@gmail.com>

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Package PMCMRplus updated to version 1.5.0 with previous version 1.4.4 dated 2020-03-01

Title: Calculate Pairwise Multiple Comparisons of Mean Rank Sums Extended
Description: For one-way layout experiments the one-way ANOVA can be performed as an omnibus test. All-pairs multiple comparisons tests (Tukey-Kramer test, Scheffe test, LSD-test) and many-to-one tests (Dunnett test) for normally distributed residuals and equal within variance are available. Furthermore, all-pairs tests (Games-Howell test, Tamhane's T2 test, Dunnett T3 test, Ury-Wiggins-Hochberg test) and many-to-one (Tamhane-Dunnett Test) for normally distributed residuals and heterogeneous variances are provided. Van der Waerden's normal scores test for omnibus, all-pairs and many-to-one tests is provided for non-normally distributed residuals and homogeneous variances. The Kruskal-Wallis, BWS and Anderson-Darling omnibus test and all-pairs tests (Nemenyi test, Dunn test, Conover test, Dwass-Steele-Critchlow- Fligner test) as well as many-to-one (Nemenyi test, Dunn test, U-test) are given for the analysis of variance by ranks. Non-parametric trend tests (Jonckheere test, Cuzick test, Johnson-Mehrotra test, Spearman test) are included. In addition, a Friedman-test for one-way ANOVA with repeated measures on ranks (CRBD) and Skillings-Mack test for unbalanced CRBD is provided with consequent all-pairs tests (Nemenyi test, Siegel test, Miller test, Conover test, Exact test) and many-to-one tests (Nemenyi test, Demsar test, Exact test). A trend can be tested with Pages's test. Durbin's test for a two-way balanced incomplete block design (BIBD) is given in this package as well as Gore's test for CRBD with multiple observations per cell is given. Outlier tests, Mandel's k- and h statistic as well as functions for Type I error and Power analysis as well as generic summary, print and plot methods are provided.
Author: Thorsten Pohlert [aut, cre] (<https://orcid.org/0000-0003-3855-3025>)
Maintainer: Thorsten Pohlert <thorsten.pohlert@gmx.de>

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Package pkgdown updated to version 1.6.1 with previous version 1.6.0 dated 2020-09-07

Title: Make Static HTML Documentation for a Package
Description: Generate an attractive and useful website from a source package. 'pkgdown' converts your documentation, vignettes, 'README', and more to 'HTML' making it easy to share information about your package online.
Author: Hadley Wickham [aut, cre] (<https://orcid.org/0000-0003-4757-117X>), Jay Hesselberth [aut] (<https://orcid.org/0000-0002-6299-179X>), RStudio [cph, fnd]
Maintainer: Hadley Wickham <hadley@rstudio.com>

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Package photosynthesis updated to version 2.0.0 with previous version 1.0.2 dated 2020-07-01

Title: Tools for Plant Ecophysiology & Modeling
Description: Contains modeling and analytical tools for plant ecophysiology. MODELING: Simulate C3 photosynthesis using the Farquhar, von Caemmerer, Berry (1980) <doi:10.1007/BF00386231> model as described in Buckley and Diaz-Espejo (2015) <doi:10.1111/pce.12459>. It uses units to ensure that parameters are properly specified and transformed before calculations. Temperature response functions get automatically "baked" into all parameters based on leaf temperature following Bernacchi et al. (2002) <doi:10.1104/pp.008250>. The package includes boundary layer, cuticular, stomatal, and mesophyll conductances to CO2, which each can vary on the upper and lower portions of the leaf. Use straightforward functions to simulate photosynthesis over environmental gradients such as Photosynthetic Photon Flux Density (PPFD) and leaf temperature, or over trait gradients such as CO2 conductance or photochemistry. ANALYTICAL TOOLS: Fit ACi (Farquhar et al. 1980 <doi:10.1007/BF00386231>) and AQ curves (Marshall & Biscoe 1980 <doi:10.1093/jxb/31.1.29>), temperature responses (Heskel et al. 2016 <doi:10.1073/pnas.1520282113>; Kruse et al. 2008 <doi:10.1111/j.1365-3040.2008.01809.x>, Medlyn et al. 2002 <doi:10.1046/j.1365-3040.2002.00891.x>, Hobbs et al. 2013 <doi:10.1021/cb4005029>), respiration in the light (Kok 1956 <doi:10.1016/0006-3002(56)90003-8>, Walker & Ort 2015 <doi:10.1111/pce.12562>, Yin et al. 2009 <doi:10.1111/j.1365-3040.2009.01934.x>, Yin et al. 2011 <doi:10.1093/jxb/err038>), mesophyll conductance (Harley et al. 1992 <doi:10.1104/pp.98.4.1429>), pressure-volume curves (Koide et al. 2000 <doi:10.1007/978-94-009-2221-1_9>, Sack et al. 2003 <doi:10.1046/j.0016-8025.2003.01058.x>, Tyree et al. 1972 <doi:10.1093/jxb/23.1.267>), hydraulic vulnerability curves (Ogle et al. 2009 <doi:10.1111/j.1469-8137.2008.02760.x>, Pammenter et al. 1998 <doi:10.1093/treephys/18.8-9.589>), and tools for running sensitivity analyses particularly for variables with uncertainty (e.g. g_mc, gamma_star, R_d).
Author: Joseph Stinziano [aut] (<https://orcid.org/0000-0002-7628-4201>), Cassaundra Roback [aut], Demi Gamble [aut], Bridget Murphy [aut], Patrick Hudson [aut, dtc], Chris Muir [aut, cre] (<https://orcid.org/0000-0003-2555-3878>)
Maintainer: Chris Muir <cdmuir@hawaii.edu>

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Package parameters updated to version 0.8.5 with previous version 0.8.2 dated 2020-07-24

Title: Processing of Model Parameters
Description: Utilities for processing the parameters of various statistical models. Beyond computing p values, CIs, and other indices for a wide variety of models (see support list of insight; Lüdecke, Waggoner & Makowski (2019) <doi:10.21105/joss.01412>), this package implements features like bootstrapping or simulating of parameters and models, feature reduction (feature extraction and variable selection) as well as functions to describe data and variable characteristics (e.g. skewness, kurtosis, smoothness or distribution).
Author: Daniel Lüdecke [aut, cre] (<https://orcid.org/0000-0002-8895-3206>), Dominique Makowski [aut] (<https://orcid.org/0000-0001-5375-9967>), Mattan S. Ben-Shachar [aut] (<https://orcid.org/0000-0002-4287-4801>), Indrajeet Patil [aut] (<https://orcid.org/0000-0003-1995-6531>), Søren Højsgaard [aut], Zen J. Lau [ctb]
Maintainer: Daniel Lüdecke <d.luedecke@uke.de>

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Package padr updated to version 0.5.3 with previous version 0.5.2 dated 2020-05-12

Title: Quickly Get Datetime Data Ready for Analysis
Description: Transforms datetime data into a format ready for analysis. It offers two core functionalities; aggregating data to a higher level interval (thicken) and imputing records where observations were absent (pad).
Author: Edwin Thoen
Maintainer: Edwin Thoen <edwinthoen@gmail.com>

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Package MRReg updated to version 0.1.2 with previous version 0.1.1 dated 2020-05-12

Title: MDL Multiresolution Linear Regression Framework
Description: We provide the framework to analyze multiresolution partitions (e.g. country, provinces, subdistrict) where each individual data point belongs to only one partition in each layer (e.g. i belongs to subdistrict A, province P, and country Q). We assume that a partition in a higher layer subsumes lower-layer partitions (e.g. a nation is at the 1st layer subsumes all provinces at the 2nd layer). Given N individuals that have a pair of real values (x,y) that generated from independent variable X and dependent variable Y. Each individual i belongs to one partition per layer. Our goal is to find which partitions at which highest level that all individuals in the these partitions share the same linear model Y=f(X) where f is a linear function. The framework deploys the Minimum Description Length principle (MDL) to infer solutions. The publication of this package is at Chainarong Amornbunchornvej, Navaporn Surasvadi, Anon Plangprasopchok, and Suttipong Thajchayapong (2019) <arXiv:1907.05234>.
Author: Chainarong Amornbunchornvej [aut, cre] (<https://orcid.org/0000-0003-3131-0370>)
Maintainer: Chainarong Amornbunchornvej <grandca@gmail.com>

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Package move updated to version 4.0.4 with previous version 4.0.2 dated 2020-06-25

Title: Visualizing and Analyzing Animal Track Data
Description: Contains functions to access movement data stored in 'movebank.org' as well as tools to visualize and statistically analyze animal movement data, among others functions to calculate dynamic Brownian Bridge Movement Models. Move helps addressing movement ecology questions.
Author: Bart Kranstauber [aut, cre], Marco Smolla [aut], Anne K Scharf [aut]
Maintainer: Bart Kranstauber <b.kranstauber@uva.nl>

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Package inlmisc updated to version 0.5.2 with previous version 0.5.0 dated 2020-07-23

Title: Miscellaneous Functions for the USGS INL Project Office
Description: A collection of functions for creating high-level graphics, performing raster-based analysis, processing MODFLOW-based models, selecting subsets using a genetic algorithm, creating interactive web maps, accessing color palettes, etc. Used to support packages and scripts written by researchers at the United States Geological Survey (USGS) Idaho National Laboratory (INL) Project Office.
Author: Jason C. Fisher [aut, cre] (<https://orcid.org/0000-0001-9032-8912>)
Maintainer: Jason C. Fisher <jfisher@usgs.gov>

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Package iarm updated to version 0.4.2 with previous version 0.4.1 dated 2020-04-19

Title: Item Analysis in Rasch Models
Description: Tools to assess model fit and identify misfitting items for Rasch models (RM) and partial credit models (PCM). Included are item fit statistics, item characteristic curves, item-restscore association, conditional likelihood ratio tests, assessment of measurement error, estimates of the reliability and test targeting as described in Christensen et al. (Eds.) (2013, ISBN:978-1-84821-222-0).
Author: Marianne Mueller [aut, cre], Pedro Henrique Ribeiro Santiago [ctb]
Maintainer: Marianne Mueller <marianne.mueller@math.ethz.ch>

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Package forecast updated to version 8.13 with previous version 8.12 dated 2020-03-31

Title: Forecasting Functions for Time Series and Linear Models
Description: Methods and tools for displaying and analysing univariate time series forecasts including exponential smoothing via state space models and automatic ARIMA modelling.
Author: Rob Hyndman [aut, cre, cph] (<https://orcid.org/0000-0002-2140-5352>), George Athanasopoulos [aut], Christoph Bergmeir [aut] (<https://orcid.org/0000-0002-3665-9021>), Gabriel Caceres [aut], Leanne Chhay [aut], Mitchell O'Hara-Wild [aut] (<https://orcid.org/0000-0001-6729-7695>), Fotios Petropoulos [aut] (<https://orcid.org/0000-0003-3039-4955>), Slava Razbash [aut], Earo Wang [aut], Farah Yasmeen [aut] (<https://orcid.org/0000-0002-1479-5401>), R Core Team [ctb, cph], Ross Ihaka [ctb, cph], Daniel Reid [ctb], David Shaub [ctb], Yuan Tang [ctb] (<https://orcid.org/0000-0001-5243-233X>), Zhenyu Zhou [ctb]
Maintainer: Rob Hyndman <Rob.Hyndman@monash.edu>

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Package ENMeval updated to version 0.3.1 with previous version 0.3.0 dated 2018-08-15

Title: Automated Runs and Evaluations of Ecological Niche Models
Description: Automatically partitions data into evaluation bins, executes ecological niche models across a range of settings, and calculates a variety of evaluation statistics. Current version only implements ENMs with Maxent (Phillips et al. 2006) or maxnet (Phillips et al. 2017).
Author: Robert Muscarella, Peter J. Galante, Mariano Soley-Guardia, Robert A. Boria, Jamie M. Kass, Maria Uriarte and Robert P. Anderson
Maintainer: Robert Muscarella <bob.muscarella@gmail.com>

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Package EHR updated to version 0.3-0 with previous version 0.1-3 dated 2017-10-20

Title: Electronic Health Record (EHR) Data Processing and Analysis Tool
Description: Process and analyze Electronic Health Record (EHR) data. The `EHR` package provides modules to perform diverse medication-related studies using data from EHR databases. Especially, the package includes modules to perform pharmacokinetic/pharmacodynamic (PK/PD) analyses using EHRs, as outlined in Choi et al. (2020). Additional modules will be added in future. In addition, this package provides various functions useful to perform Phenome Wide Association Study (PheWAS) to explore associations between drug exposure and phenotypes obtained from EHR data (Choi et al., 2018).
Author: Leena Choi [aut, cre], Cole Beck [aut] (<https://orcid.org/0000-0002-6849-6255>), Hannah Weeks [aut], Elizabeth McNeer [aut]
Maintainer: Leena Choi <naturechoi@gmail.com>

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Package dsmisc updated to version 0.3.3 with previous version 0.3.2 dated 2020-09-09

Title: Data Science Box of Pandora Miscellaneous
Description: Tool collection for common and not so common data science use cases. This includes custom made algorithms for data management as well as value calculations that are hard to find elsewhere because of their specificity but would be a waste to get lost nonetheless. Currently available functionality: find sub-graphs in an edge list data.frame, find mode or modes in a vector of values, extract (a) specific regular expression group(s), generate ISO time stamps that play well with file names, or generate URL parameter lists by expanding value combinations.
Author: Peter Meissner [aut, cre]
Maintainer: Peter Meissner <retep.meissner@gmail.com>

Diff between dsmisc versions 0.3.2 dated 2020-09-09 and 0.3.3 dated 2020-09-12

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Package DescToolsAddIns updated to version 1.8 with previous version 1.7 dated 2020-03-08

Title: Interactive Functions to be Used as Shortcuts in 'RStudio'
Description: 'RStudio' as of recently offers the option to define addins and assign shortcuts to them. This package contains addins for a few most frequently used functions in a data scientist's (at least mine) daily work (like str(), example(), plot(), head(), view(), Desc()). Most of these functions will use the current selection in the editor window and send the specific command to the console while instantly executing it. Assigning shortcuts to these addins will save you quite a few keystrokes.
Author: Andri Signorell
Maintainer: Andri Signorell <andri@signorell.net>

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Package crandep updated to version 0.1.1 with previous version 0.1.0 dated 2020-08-11

Title: Network Analysis of Dependencies of CRAN Packages
Description: The dependencies of CRAN packages can be analysed in a network fashion. For each package we can obtain the packages that it depends, imports, suggests, etc. By iterating this procedure over a number of packages, we can build, visualise, and analyse the dependency network, enabling us to have a bird's-eye view of the CRAN ecosystem. One aspect of interest is the number of reverse dependencies of the packages, or equivalently the in-degree distribution of the dependency network. This can be fitted by the power law and/or an extreme value mixture distribution <arXiv:2008.03073>, of which functions are provided.
Author: Clement Lee [aut, cre] (<https://orcid.org/0000-0003-1785-8671>)
Maintainer: Clement Lee <clement.lee.tm@outlook.com>

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Package cocoreg (with last version 0.1.1) was removed from CRAN

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

2017-05-30 0.1.1
2016-05-04 0.1.0

Permanent link
Package CRUF (with last version 0.5.1) was removed from CRAN

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

2020-03-05 0.5.1

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Package nombre updated to version 0.3.0 with previous version 0.2.0 dated 2020-07-18

Title: Number Names
Description: Converts numeric vectors to character vectors of English number names. Provides conversion to cardinals, ordinals, numerators, and denominators. Supports negative and non-integer numbers.
Author: Alexander Rossell Hayes [aut, cre] (<https://orcid.org/0000-0001-9412-0457>)
Maintainer: Alexander Rossell Hayes <alexander@rossellhayes.com>

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Package ggrastr updated to version 0.2.0 with previous version 0.1.9 dated 2020-06-20

Title: Raster Layers for 'ggplot2'
Description: Provides a set of geoms to rasterize only specific layers of the plot while simultaneously keeping all labels and text in vector format. This allows users to keep plots within the reasonable size limit without loosing vector properties of the scale-sensitive information.
Author: Viktor Petukhov [aut, cph], Teun van den Brand [aut], Evan Biederstedt [cre, aut]
Maintainer: Evan Biederstedt <evan.biederstedt@gmail.com>

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