Thu, 16 Sep 2021

Package SAMtool updated to version 1.2.2 with previous version 1.2.1 dated 2021-08-12

Title: Stock Assessment Methods Toolkit
Description: Simulation tools for closed-loop simulation are provided for the 'MSEtool' operating model to inform data-rich fisheries. 'SAMtool' provides a conditioning model, assessment models of varying complexity with standardized reporting, model-based management procedures, and diagnostic tools for evaluating assessments inside closed-loop simulation.
Author: Quang Huynh [aut, cre], Tom Carruthers [aut], Adrian Hordyk [aut]
Maintainer: Quang Huynh <quang@bluematterscience.com>

Diff between SAMtool versions 1.2.1 dated 2021-08-12 and 1.2.2 dated 2021-09-16

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Package buildmer updated to version 2.1 with previous version 2.0 dated 2021-08-19

Title: Stepwise Elimination and Term Reordering for Mixed-Effects Regression
Description: Finds the largest possible regression model that will still converge for various types of regression analyses (including mixed models and generalized additive models) and then optionally performs stepwise elimination similar to the forward and backward effect-selection methods in SAS, based on the change in log-likelihood or its significance, Akaike's Information Criterion, the Bayesian Information Criterion, the explained deviance, or the F-test of the change in R².
Author: Cesko C. Voeten [aut, cre] (<https://orcid.org/0000-0003-4687-9973>)
Maintainer: Cesko C. Voeten <cvoeten@gmail.com>

Diff between buildmer versions 2.0 dated 2021-08-19 and 2.1 dated 2021-09-16

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New package Statsomat with initial version 1.0
Package: Statsomat
Title: Shiny Apps for Automated Data Analysis and Automated Interpretation
Version: 1.0
Maintainer: Denise Welsch <denise.welsch@reyar.de>
Imports: shiny, rmarkdown, data.table, readr, shinydisconnect, knitr, kableExtra, car, DDoutlier, energy, corrplot, ggplot2, gridExtra, reshape2
Suggests: MASS, boot, nortest, lmtest, DescTools, psych, Hmisc, PerformanceAnalytics, reticulate, fastDummies, semTools, semPlot, FactoMineR, FactoInvestigate, factoextra, rrcov, methods, parallel, graphics, imputeMissings, onewaytests
SystemRequirements: For all functions resp. apps: pandoc, LaTeX. For the edapy() function resp. Statsomat/EDAPY app: Python (>=3).
Description: Shiny apps for automated data analysis, annotated outputs and human-readable interpretation in natural language. Designed especially for learners and applied researchers. Currently available methods: EDA, EDA with Python, Correlation Analysis, Principal Components Analysis, Confirmatory Factor Analysis.
License: AGPL
URL: https://statsomat.com
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2021-09-16 09:54:24 UTC; Denise Welsch
Author: Denise Welsch [aut, cre] (<https://orcid.org/0000-0001-8904-1631>), Berit Hunsdieck [ctb], Omar Alhelal [ctb]
Repository: CRAN
Date/Publication: 2021-09-16 18:40:02 UTC

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Package RODBC updated to version 1.3-19 with previous version 1.3-18 dated 2021-08-30

Title: ODBC Database Access
Description: An ODBC database interface.
Author: Brian Ripley [aut, cre], Michael Lapsley [aut] (1999 to Oct 2002)
Maintainer: Brian Ripley <ripley@stats.ox.ac.uk>

Diff between RODBC versions 1.3-18 dated 2021-08-30 and 1.3-19 dated 2021-09-16

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Package RJSONIO updated to version 1.3-1.6 with previous version 1.3-1.5 dated 2021-08-17

Title: Serialize R Objects to JSON, JavaScript Object Notation
Description: This is a package that allows conversion to and from data in Javascript object notation (JSON) format. This allows R objects to be inserted into Javascript/ECMAScript/ActionScript code and allows R programmers to read and convert JSON content to R objects. This is an alternative to rjson package. Originally, that was too slow for converting large R objects to JSON and was not extensible. rjson's performance is now similar to this package, and perhaps slightly faster in some cases. This package uses methods and is readily extensible by defining methods for different classes, vectorized operations, and C code and callbacks to R functions for deserializing JSON objects to R. The two packages intentionally share the same basic interface. This package (RJSONIO) has many additional options to allow customizing the generation and processing of JSON content. This package uses libjson rather than implementing yet another JSON parser. The aim is to support other general projects by building on their work, providing feedback and benefit from their ongoing development.
Author: CRAN Team [ctb, cre] (de facto maintainer since 2014), Duncan Temple Lang [aut] (<https://orcid.org/0000-0003-0159-1546>), Jonathan Wallace [aut] (aka ninja9578, author of included libjson sources)
Maintainer: CRAN Team <CRAN@r-project.org>

Diff between RJSONIO versions 1.3-1.5 dated 2021-08-17 and 1.3-1.6 dated 2021-09-16

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Package reReg updated to version 1.4.1 with previous version 1.4.0 dated 2021-04-14

Title: Recurrent Event Regression
Description: A comprehensive collection of practical and easy-to-use tools for regression analysis of recurrent events, with or without the presence of a (possibly) informative terminal event. The modeling framework is based on a joint frailty scale-change model, that includes models described in Wang et al. (2001) <doi:10.1198/016214501753209031>, Huang and Wang (2004) <doi:10.1198/016214504000001033>, Xu et al. (2017) <doi:10.1080/01621459.2016.1173557>, and Xu et al. (2019) <doi:10.5705/SS.202018.0224> as special cases. The implemented estimating procedure does not require any parametric assumption on the frailty distribution. The package also allows the users to specify different model forms for both the recurrent event process and the terminal event.
Author: Sy Han (Steven) Chiou [aut, cre], Chiung-Yu Huang [aut]
Maintainer: Sy Han (Steven) Chiou <schiou@utdallas.edu>

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New package multigraphr with initial version 0.1.0
Package: multigraphr
Title: Probability Models and Statistical Analysis of Random Multigraphs
Version: 0.1.0
Description: Methods and models for analysing multigraphs as introduced by Shafie (2015) <doi:10.21307/joss-2019-011>, including methods to study local and global properties <doi:10.1080/0022250X.2016.1219732> and goodness of fit tests.
Depends: R (>= 3.2.0)
URL: https://github.com/termehs/multigraphr
BugReports: https://github.com/termehs/multigraphr/issues
License: MIT + file LICENSE
Encoding: UTF-8
Suggests: rmarkdown, knitr, testthat (>= 3.0.0)
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-09-16 18:23:06 UTC; termehshafie
Author: Termeh Shafie [aut, cre]
Maintainer: Termeh Shafie <termeh.shafie@manchester.ac.uk>
Repository: CRAN
Date/Publication: 2021-09-16 18:50:02 UTC

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New package frequentistSSD with initial version 0.1.0
Package: frequentistSSD
Title: Screened Selection Design with Survival Endpoints
Version: 0.1.0
Maintainer: Chia-Wei Hsu <Chia-Wei.Hsu@stjude.org>
Description: A study based on the screened selection design (SSD) is an exploratory phase II randomized trial with two or more arms but without concurrent control. The primary aim of the SSD trial is to pick a desirable treatment arm (e.g., in terms of the median survival time) to recommend to the subsequent randomized phase IIb (with the concurrent control) or phase III. Though The survival endpoint is often encountered in phase II trials, the existing SSD methods cannot deal with the survival endpoint. Furthermore, the existing SSD won’t control the type I error rate. The proposed designs can “partially” control or provide the empirical type I error/false positive rate by an optimal algorithm (implemented by the optimal() function) for each arm. All the design needed components (sample size, operating characteristics) are supported.
License: GPL-2
Encoding: UTF-8
Depends: survival
NeedsCompilation: no
Packaged: 2021-09-16 17:29:37 UTC; chsu1
Author: Chia-Wei Hsu [aut, cre], Haitao Pan [aut], Jianrong Wu [aut]
Repository: CRAN
Date/Publication: 2021-09-16 18:50:06 UTC

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New package cuml with initial version 0.2.0
Package: cuml
Title: R Interface for the RAPIDS cuML Suite of Libraries
Version: 0.2.0
Maintainer: Yitao Li <yitao@rstudio.com>
Description: R interface for RAPIDS cuML (<https://github.com/rapidsai/cuml>), a suite of GPU-accelerated machine learning libraries powered by CUDA (<https://en.wikipedia.org/wiki/CUDA>).
License: Apache License (>= 2.0)
Imports: ellipsis, hardhat, magrittr, parsnip, Rcpp (>= 1.0.6), rlang (>= 0.1.4)
Suggests: MASS, mlbench, purrr, xgboost
LinkingTo: Rcpp
Encoding: UTF-8
OS_type: unix
SystemRequirements: RAPIDS cuML (see https://rapids.ai/start.html)
NeedsCompilation: yes
Packaged: 2021-09-15 16:44:54 UTC; yitaoli
Author: Yitao Li [aut, cre] (<https://orcid.org/0000-0002-1261-905X>)
Repository: CRAN
Date/Publication: 2021-09-16 18:20:02 UTC

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Package WeibullR updated to version 1.1 with previous version 1.0.12 dated 2019-11-25

Title: Weibull Analysis for Reliability Engineering
Description: Life data analysis in the graphical tradition of Waloddi Weibull. Methods derived from Robert B. Abernethy (2008, ISBN 0-965306-3-2), Wayne Nelson (1982, ISBN: 9780471094586) <DOI:10.1002/0471725234>, William Q. Meeker and Lois A. Escobar (1998, ISBN: 1-471-14328-6), John I. McCool, (2012, ISBN: 9781118217986) <DOI:10.1002/9781118351994>.
Author: David Silkworth [aut], Jurgen Symynck [aut], Jacob Ormerod [cre], OpenReliability.org [cph]
Maintainer: Jacob Ormerod <jake@openreliability.org>

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Package embryogrowth updated to version 8.2 with previous version 8.1 dated 2021-06-04

Title: Tools to Analyze the Thermal Reaction Norm of Embryo Growth
Description: Tools to analyze the embryo growth and the sexualisation thermal reaction norms. See <doi:10.7717/peerj.8451> for tsd functions; see <doi:10.1016/j.jtherbio.2014.08.005> for thermal reaction norm of embryo growth.
Author: Marc Girondot <marc.girondot@gmail.com>
Maintainer: Marc Girondot <marc.girondot@gmail.com>

Diff between embryogrowth versions 8.1 dated 2021-06-04 and 8.2 dated 2021-09-16

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Package e1071 updated to version 1.7-9 with previous version 1.7-8 dated 2021-07-28

Title: Misc Functions of the Department of Statistics, Probability Theory Group (Formerly: E1071), TU Wien
Description: Functions for latent class analysis, short time Fourier transform, fuzzy clustering, support vector machines, shortest path computation, bagged clustering, naive Bayes classifier, generalized k-nearest neighbour ...
Author: David Meyer [aut, cre], Evgenia Dimitriadou [aut, cph], Kurt Hornik [aut], Andreas Weingessel [aut], Friedrich Leisch [aut], Chih-Chung Chang [ctb, cph] (libsvm C++-code), Chih-Chen Lin [ctb, cph] (libsvm C++-code)
Maintainer: David Meyer <David.Meyer@R-project.org>

Diff between e1071 versions 1.7-8 dated 2021-07-28 and 1.7-9 dated 2021-09-16

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Package wrMisc updated to version 1.6.2 with previous version 1.6.1 dated 2021-08-11

Title: Analyze Experimental High-Throughput (Omics) Data
Description: The efficient treatment and convenient analysis of experimental high-throughput (omics) data gets facilitated through this collection of diverse functions. Several functions address advanced object-conversions, like manipulating lists of lists or lists of arrays, reorganizing lists to arrays or into separate vectors, merging of multiple entries, etc. Another set of functions provides speed-optimized calculation of standard deviation (sd), coefficient of variance (CV) or standard error of the mean (SEM) for data in matrixes or means per line with respect to additional grouping (eg n groups of replicates). Other functions facilitate dealing with non-redundant information, by indexing unique, adding counters to redundant or eliminating lines with respect redundancy in a given reference-column, etc. Help is provided to identify very closely matching numeric values to generate (partial) distance matrixes for very big data in a memory efficient manner or to reduce the complexity of large data-sets by combining very close values. Many times large experimental datasets need some additional filtering, adequate functions are provided. Batch reading (or writing) of sets of files and combining data to arrays is supported, too. Convenient data normalization is supported in various different modes, parameter estimation via permutations or boot-strap as well as flexible testing of multiple pair-wise combinations using the framework of 'limma' is provided, too.
Author: Wolfgang Raffelsberger [aut, cre]
Maintainer: Wolfgang Raffelsberger <w.raffelsberger@gmail.com>

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Package tram updated to version 0.6-1 with previous version 0.6-0 dated 2021-03-10

Title: Transformation Models
Description: Formula-based user-interfaces to specific transformation models implemented in package 'mlt'. Available models include Cox models, some parametric survival models (Weibull, etc.), models for ordered categorical variables, normal and non-normal (Box-Cox type) linear models, and continuous outcome logistic regression (Lohse et al., 2017, <DOI:10.12688/f1000research.12934.1>). The underlying theory is described in Hothorn et al. (2018) <DOI:10.1111/sjos.12291>. An extension to transformation models for clustered data is provided (Hothorn, 2019, <arxiv:1910.09219>). Multivariate conditional transformation models (<arxiv:1906.03151>) can be fitted as well.
Author: Torsten Hothorn [aut, cre] (<https://orcid.org/0000-0001-8301-0471>), Luisa Barbanti [aut], Brian Ripley [ctb], Bill Venables [ctb], Douglas M. Bates [ctb], Nadja Klein [ctb]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>

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Package SWMPrExtension updated to version 1.1.7 with previous version 1.1.6 dated 2020-08-30

Title: Functions for Analyzing and Plotting Estuary Monitoring Data
Description: Tools for performing routine analysis and plotting tasks with environmental data from the System Wide Monitoring Program of the National Estuarine Research Reserve System <http://cdmo.baruch.sc.edu/>. This package builds on the functionality of the SWMPr package <https://cran.r-project.org/package=SWMPr>, which is used to retrieve and organize the data. The combined set of tools address common challenges associated with continuous time series data for environmental decision making, and are intended for use in annual reporting activities. References: Beck, Marcus W. (2016) <ISSN 2073-4859><https://journal.r-project.org/archive/2016-1/beck.pdf> Rudis, Bob (2014) <https://rud.is/b/2014/11/16/moving-the-earth-well-alaska-hawaii-with-r/>. United States Environmental Protection Agency (2015) <https://cfpub.epa.gov/si/si_public_record_Report.cfm?Lab=OWOW&dirEntryId=327030>. United States Environmental Protection Agency (2012) <http://citeseerx.ist.psu.edu/viewdoc/download?doi=10.1.1.646.1973&rep=rep1&type=pdf>.
Author: Julie Padilla [aut, ctb], Marcus Beck [ctb], Kimberly Cressman [ctb], Dave Eslinger [cre, ctb], Bob Rudis [ctb]
Maintainer: Dave Eslinger <dave.eslinger@noaa.gov>

Diff between SWMPrExtension versions 1.1.6 dated 2020-08-30 and 1.1.7 dated 2021-09-16

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Package corpcor updated to version 1.6.10 with previous version 1.6.9 dated 2017-04-01

Title: Efficient Estimation of Covariance and (Partial) Correlation
Description: Implements a James-Stein-type shrinkage estimator for the covariance matrix, with separate shrinkage for variances and correlations. The details of the method are explained in Schafer and Strimmer (2005) <DOI:10.2202/1544-6115.1175> and Opgen-Rhein and Strimmer (2007) <DOI:10.2202/1544-6115.1252>. The approach is both computationally as well as statistically very efficient, it is applicable to "small n, large p" data, and always returns a positive definite and well-conditioned covariance matrix. In addition to inferring the covariance matrix the package also provides shrinkage estimators for partial correlations and partial variances. The inverse of the covariance and correlation matrix can be efficiently computed, as well as any arbitrary power of the shrinkage correlation matrix. Furthermore, functions are available for fast singular value decomposition, for computing the pseudoinverse, and for checking the rank and positive definiteness of a matrix.
Author: Juliane Schafer, Rainer Opgen-Rhein, Verena Zuber, Miika Ahdesmaki, A. Pedro Duarte Silva, and Korbinian Strimmer.
Maintainer: Korbinian Strimmer <strimmerlab@gmail.com>

Diff between corpcor versions 1.6.9 dated 2017-04-01 and 1.6.10 dated 2021-09-16

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Package AzureKeyVault updated to version 1.0.5 with previous version 1.0.4 dated 2020-10-12

Title: Key and Secret Management in 'Azure'
Description: Manage keys, certificates, secrets, and storage accounts in Microsoft's 'Key Vault' service: <https://azure.microsoft.com/services/key-vault/>. Provides facilities to store and retrieve secrets, use keys to encrypt, decrypt, sign and verify data, and manage certificates. Integrates with the 'AzureAuth' package to enable authentication with a certificate, and with the 'openssl' package for importing and exporting cryptographic objects. Part of the 'AzureR' family of packages.
Author: Hong Ooi [aut, cre], Microsoft [cph]
Maintainer: Hong Ooi <hongooi73@gmail.com>

Diff between AzureKeyVault versions 1.0.4 dated 2020-10-12 and 1.0.5 dated 2021-09-16

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Package auk updated to version 0.5.0 with previous version 0.4.4 dated 2021-07-21

Title: eBird Data Extraction and Processing in R
Description: Extract and process bird sightings records from eBird (<http://ebird.org>), an online tool for recording bird observations. Public access to the full eBird database is via the eBird Basic Dataset (EBD; see <http://ebird.org/ebird/data/download> for access), a downloadable text file. This package is an interface to AWK for extracting data from the EBD based on taxonomic, spatial, or temporal filters, to produce a manageable file size that can be imported into R.
Author: Matthew Strimas-Mackey [aut, cre] (<https://orcid.org/0000-0001-8929-7776>), Eliot Miller [aut], Wesley Hochachka [aut], Cornell Lab of Ornithology [cph]
Maintainer: Matthew Strimas-Mackey <mes335@cornell.edu>

Diff between auk versions 0.4.4 dated 2021-07-21 and 0.5.0 dated 2021-09-16

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Package sparklyr updated to version 1.7.2 with previous version 1.7.1 dated 2021-06-17

Title: R Interface to Apache Spark
Description: R interface to Apache Spark, a fast and general engine for big data processing, see <http://spark.apache.org>. This package supports connecting to local and remote Apache Spark clusters, provides a 'dplyr' compatible back-end, and provides an interface to Spark's built-in machine learning algorithms.
Author: Javier Luraschi [aut], Kevin Kuo [aut] (<https://orcid.org/0000-0001-7803-7901>), Kevin Ushey [aut], JJ Allaire [aut], Samuel Macedo [ctb], Hossein Falaki [aut], Lu Wang [aut], Andy Zhang [aut], Yitao Li [aut, cre] (<https://orcid.org/0000-0002-1261-905X>), Jozef Hajnala [ctb], Maciej Szymkiewicz [ctb] (<https://orcid.org/0000-0003-1469-9396>), Wil Davis [ctb], RStudio [cph], The Apache Software Foundation [aut, cph]
Maintainer: Yitao Li <yitao@rstudio.com>

Diff between sparklyr versions 1.7.1 dated 2021-06-17 and 1.7.2 dated 2021-09-16

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Package sleepwalk updated to version 0.3.2 with previous version 0.3.1 dated 2020-09-29

Title: Interactively Explore Dimension-Reduced Embeddings
Description: A tool to interactively explore the embeddings created by dimension reduction methods such as Principal Components Analysis (PCA), Multidimensional Scaling (MDS), T-distributed Stochastic Neighbour Embedding (t-SNE), Uniform Manifold Approximation and Projection (UMAP) or any other.
Author: Svetlana Ovchinnikova [aut, cre], Simon Anders [aut]
Maintainer: Svetlana Ovchinnikova <s.ovchinnikova@zmbh.uni-heidelberg.de>

Diff between sleepwalk versions 0.3.1 dated 2020-09-29 and 0.3.2 dated 2021-09-16

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Package nser updated to version 1.3.2 with previous version 1.3.1 dated 2021-09-13

Title: Bhavcopy and Live Market Data from National Stock Exchange (NSE) India for Equities and Equity Derivatives (F&O)
Description: Download Historical Bhavcopy and get Live Market data from NSE India of Equities and Derivatives(F&O) segment. Data source <https://www.nseindia.com/>.
Author: Nandan Patil [cre, aut]
Maintainer: Nandan Patil <tryanother609@gmail.com>

Diff between nser versions 1.3.1 dated 2021-09-13 and 1.3.2 dated 2021-09-16

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Package gert updated to version 1.4.1 with previous version 1.4.0 dated 2021-09-15

Title: Simple Git Client for R
Description: Simple git client for R based on 'libgit2' with support for SSH and HTTPS remotes. All functions in 'gert' use basic R data types (such as vectors and data-frames) for their arguments and return values. User credentials are shared with command line 'git' through the git-credential store and ssh keys stored on disk or ssh-agent.
Author: Jeroen Ooms [aut, cre] (<https://orcid.org/0000-0002-4035-0289>), Jennifer Bryan [ctb] (<https://orcid.org/0000-0002-6983-2759>)
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>

Diff between gert versions 1.4.0 dated 2021-09-15 and 1.4.1 dated 2021-09-16

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Package SemNetCleaner updated to version 1.3.4 with previous version 1.3.3 dated 2021-08-16

Title: An Automated Cleaning Tool for Semantic and Linguistic Data
Description: Implements several functions that automates the cleaning and spell-checking of text data. Also converges, finalizes, removes plurals and continuous strings, and puts text data in binary format for semantic network analysis. Uses the 'SemNetDictionaries' package to make the cleaning process more accurate, efficient, and reproducible.
Author: Alexander P. Christensen [aut, cre] (<https://orcid.org/0000-0002-9798-7037>)
Maintainer: Alexander P. Christensen <alexpaulchristensen@gmail.com>

Diff between SemNetCleaner versions 1.3.3 dated 2021-08-16 and 1.3.4 dated 2021-09-16

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Package PhylogeneticEM updated to version 1.5.0 with previous version 1.4.0 dated 2020-02-11

Title: Automatic Shift Detection using a Phylogenetic EM
Description: Implementation of the automatic shift detection method for Brownian Motion (BM) or Ornstein–Uhlenbeck (OU) models of trait evolution on phylogenies. Some tools to handle equivalent shifts configurations are also available. See Bastide et al. (2017) <doi:10.1111/rssb.12206> and Bastide et al. (2018) <doi:10.1093/sysbio/syy005>.
Author: Paul Bastide [aut, cre], Mahendra Mariadassou [ctb]
Maintainer: Paul Bastide <paul.bastide@m4x.org>

Diff between PhylogeneticEM versions 1.4.0 dated 2020-02-11 and 1.5.0 dated 2021-09-16

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Package meanr updated to version 0.1-3 with previous version 0.1-2 dated 2019-07-19

Title: Sentiment Analysis Scorer
Description: Sentiment analysis is a popular technique in text mining that attempts to determine the emotional state of some text. We provide a new implementation of a common method for computing sentiment, whereby words are scored as positive or negative according to a dictionary lookup. Then the sum of those scores is returned for the document. We use the 'Hu' and 'Liu' sentiment dictionary ('Hu' and 'Liu', 2004) <doi:10.1145/1014052.1014073> for determining sentiment. The scoring function is 'vectorized' by document, and scores for multiple documents are computed in parallel via 'OpenMP'.
Author: Drew Schmidt [aut, cre]
Maintainer: Drew Schmidt <wrathematics@gmail.com>

Diff between meanr versions 0.1-2 dated 2019-07-19 and 0.1-3 dated 2021-09-16

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Package hlidacr updated to version 0.2.0 with previous version 0.1.3 dated 2021-03-04

Title: Access Data from the 'Hlídač Státu' API
Description: Provides access to datasets published by 'Hlídač státu' <https://www.hlidacstatu.cz/>, a Czech watchdog, via their API.
Author: Michael Škvrňák [aut, cre] (<https://orcid.org/0000-0003-4647-4095>)
Maintainer: Michael Škvrňák <michael.skvrnak@protonmail.com>

Diff between hlidacr versions 0.1.3 dated 2021-03-04 and 0.2.0 dated 2021-09-16

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Package flipr updated to version 0.3.1 with previous version 0.3.0 dated 2021-09-01

Title: Flexible Inference via Permutations in R
Description: A flexible permutation framework for making inference such as point estimation, confidence intervals or hypothesis testing, on any kind of data, be it univariate, multivariate, or more complex such as network-valued data, topological data, functional data or density-valued data.
Author: Alessia Pini [aut], Aymeric Stamm [aut, cre] (<https://orcid.org/0000-0002-8725-3654>), Simone Vantini [aut], Juliette Chiapello [ctb]
Maintainer: Aymeric Stamm <aymeric.stamm@math.cnrs.fr>

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Package climaemet updated to version 1.0.0 with previous version 0.2.0 dated 2020-07-17

Title: Climate AEMET Tools
Description: Tools to download the climatic data of the Spanish Meteorological Agency (AEMET) directly from R using their API and create scientific graphs (climate charts, trend analysis of climate time series, temperature and precipitation anomalies maps, warming stripes graphics, climatograms, etc.).
Author: Manuel Pizarro [aut, cph] (<https://orcid.org/0000-0002-6981-0154>), Diego Hernangómez [aut, cre] (<https://orcid.org/0000-0001-8457-4658>, rOpenSpain), Gema Fernández-Avilés [aut] (<https://orcid.org/0000-0001-5934-1916>)
Maintainer: Diego Hernangómez <diego.hernangomezherrero@gmail.com>

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Package simputation updated to version 0.2.7 with previous version 0.2.6 dated 2021-01-25

Title: Simple Imputation
Description: Easy to use interfaces to a number of imputation methods that fit in the not-a-pipe operator of the 'magrittr' package.
Author: Mark van der Loo [aut, cre]
Maintainer: Mark van der Loo <mark.vanderloo@gmail.com>

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Package htmltab updated to version 0.8.2 with previous version 0.8.1 dated 2021-03-08

Title: Assemble Data Frames from HTML Tables
Description: HTML tables are a valuable data source but extracting and recasting these data into a useful format can be tedious. This package allows to collect structured information from HTML tables. It is similar to `readHTMLTable()` of the XML package but provides three major advantages. First, the function automatically expands row and column spans in the header and body cells. Second, users are given more control over the identification of header and body rows which will end up in the R table, including semantic header information that appear throughout the body. Third, the function preprocesses table code, corrects common types of malformations, removes unneeded parts and so helps to alleviate the need for tedious post-processing.
Author: Christian Rubba [aut], Gerhard Burger [ctb, cre] (<https://orcid.org/0000-0003-1062-5576>), Roman Cheplyaka [ctb]
Maintainer: Gerhard Burger <burger.ga@gmail.com>

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Package adegraphics updated to version 1.0-16 with previous version 1.0-15 dated 2018-12-18

Title: An S4 Lattice-Based Package for the Representation of Multivariate Data
Description: Graphical functionalities for the representation of multivariate data. It is a complete re-implementation of the functions available in the 'ade4' package.
Author: Stéphane Dray <stephane.dray@univ-lyon1.fr> and Aurélie Siberchicot <aurelie.siberchicot@univ-lyon1.fr>, with contributions from Jean Thioulouse. Based on earlier work by Alice Julien-Laferrière.
Maintainer: Aurélie Siberchicot <aurelie.siberchicot@univ-lyon1.fr>

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Package ade4 updated to version 1.7-18 with previous version 1.7-17 dated 2021-06-17

Title: Analysis of Ecological Data: Exploratory and Euclidean Methods in Environmental Sciences
Description: Tools for multivariate data analysis. Several methods are provided for the analysis (i.e., ordination) of one-table (e.g., principal component analysis, correspondence analysis), two-table (e.g., coinertia analysis, redundancy analysis), three-table (e.g., RLQ analysis) and K-table (e.g., STATIS, multiple coinertia analysis). The philosophy of the package is described in Dray and Dufour (2007) <doi:10.18637/jss.v022.i04>.
Author: Stéphane Dray <stephane.dray@univ-lyon1.fr>, Anne-Béatrice Dufour <anne-beatrice.dufour@univ-lyon1.fr>, and Jean Thioulouse <jean.thioulouse@univ-lyon1.fr>, with contributions from Thibaut Jombart, Sandrine Pavoine, Jean R. Lobry, Sébastien Ollier, Daniel Borcard, Pierre Legendre, Stéphanie Bougeard and Aurélie Siberchicot. Based on earlier work by Daniel Chessel.
Maintainer: Aurélie Siberchicot <aurelie.siberchicot@univ-lyon1.fr>

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Package rgdal updated to version 1.5-27 with previous version 1.5-26 dated 2021-09-15

Title: Bindings for the 'Geospatial' Data Abstraction Library
Description: Provides bindings to the 'Geospatial' Data Abstraction Library ('GDAL') (>= 1.11.4) and access to projection/transformation operations from the 'PROJ' library. Please note that 'rgdal' will be retired by the end of 2023, plan transition to sf/stars/'terra' functions using 'GDAL' and 'PROJ' at your earliest convenience. Use is made of classes defined in the 'sp' package. Raster and vector map data can be imported into R, and raster and vector 'sp' objects exported. The 'GDAL' and 'PROJ' libraries are external to the package, and, when installing the package from source, must be correctly installed first; it is important that 'GDAL' < 3 be matched with 'PROJ' < 6. From 'rgdal' 1.5-8, installed with to 'GDAL' >=3, 'PROJ' >=6 and 'sp' >= 1.4, coordinate reference systems use 'WKT2_2019' strings, not 'PROJ' strings. 'Windows' and 'macOS' binaries (including 'GDAL', 'PROJ' and their dependencies) are provided on 'CRAN'.
Author: Roger Bivand [cre, aut] (<https://orcid.org/0000-0003-2392-6140>), Tim Keitt [aut], Barry Rowlingson [aut, ctb], Edzer Pebesma [ctb], Michael Sumner [ctb], Robert Hijmans [ctb], Daniel Baston [ctb], Even Rouault [cph, ctb], Frank Warmerdam [cph, ctb], Jeroen Ooms [ctb], Colin Rundel [ctb]
Maintainer: Roger Bivand <Roger.Bivand@nhh.no>

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Package lgr updated to version 0.4.3 with previous version 0.4.2 dated 2021-01-10

Title: A Fully Featured Logging Framework
Description: A flexible, feature-rich yet light-weight logging framework based on 'R6' classes. It supports hierarchical loggers, custom log levels, arbitrary data fields in log events, logging to plaintext, 'JSON', (rotating) files, memory buffers. For extra appenders that support logging to databases, email and push notifications see the the package lgr.app.
Author: Stefan Fleck [aut, cre] (<https://orcid.org/0000-0003-3344-9851>)
Maintainer: Stefan Fleck <stefan.b.fleck@gmail.com>

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Package jrc updated to version 0.5.0 with previous version 0.4.0 dated 2020-09-25

Title: Exchange Commands Between R and 'JavaScript'
Description: An 'httpuv' based bridge between R and 'JavaScript'. Provides an easy way to exchange commands and data between a web page and a currently running R session.
Author: Svetlana Ovchinnikova [aut, cre], Simon Anders [aut]
Maintainer: Svetlana Ovchinnikova <s.ovchinnikova@zmbh.uni-heidelberg.de>

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Package insee updated to version 1.1.1 with previous version 1.1.0 dated 2021-06-04

Title: Tools to Easily Download Data from INSEE BDM Database
Description: Using embedded sdmx queries, get the data of more than 150 000 insee series from bdm database. Have a look at the detailed sdmx web service page with the following link : <https://www.insee.fr/en/information/2868055>.
Author: Hadrien Leclerc [aut, cre], INSEE [cph]
Maintainer: Hadrien Leclerc <leclerc.hadrien@gmail.com>

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Package fsbrain updated to version 0.5.0 with previous version 0.4.3 dated 2021-05-12

Title: Managing and Visualizing Brain Surface Data
Description: Provides high-level access to neuroimaging data from standard software packages like 'FreeSurfer' <http://freesurfer.net/> on the level of subjects and groups. Load morphometry data, surfaces and brain parcellations based on atlases. Mask data using labels, load data for specific atlas regions only, and visualize data and statistical results directly in 'R'.
Author: Tim Schäfer [aut, cre] (<https://orcid.org/0000-0002-3683-8070>)
Maintainer: Tim Schäfer <ts+code@rcmd.org>

Diff between fsbrain versions 0.4.3 dated 2021-05-12 and 0.5.0 dated 2021-09-16

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More information about fsbrain at CRAN
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Package COINr updated to version 0.5.5 with previous version 0.5.4 dated 2021-09-09

Title: Composite Indicator Construction and Analysis
Description: A comprehensive high-level package for composite indicator construction and analysis. It is a "development environment" for composite indicators and scoreboards, which includes utilities for construction (indicator selection, denomination, imputation, data treatment, normalisation, weighting and aggregation) and analysis (multivariate analysis, correlation plotting, short cuts for principal component analysis, global sensitivity analysis, and more). A composite indicator is completely encapsulated inside a single hierarchical list called a "COIN". This allows a fast and efficient work flow, as well as making quick copies, testing methodological variations and making comparisons. It also includes many plotting options, both statistical (scatter plots, distribution plots) as well as for presenting results (maps, bar charts, radar charts, and more). Finally, three Shiny apps are available which enable fast data exploration, results presentation, and checking the effects of altering weights. Full documentation is found in the online book at <https://bluefoxr.github.io/COINrDoc/>, as well as the vignette.
Author: William Becker [aut, cre, cph] (<https://orcid.org/0000-0002-6467-4472>)
Maintainer: William Becker <william.becker@bluefoxdata.eu>

Diff between COINr versions 0.5.4 dated 2021-09-09 and 0.5.5 dated 2021-09-16

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More information about COINr at CRAN
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Package odr updated to version 1.2.1 with previous version 1.0.2 dated 2020-03-13

Title: Optimal Design and Statistical Power of Multilevel Randomized Trials
Description: Calculate the optimal sample allocation that produces the highest statistical power for experimental studies under a budget constraint, perform power analyses with and without accommodating cost structures of sampling, and calculate the relative efficiency between two sample allocations. The references for the proposed methods are: (1) Shen, Z., & Kelcey, B. (2020). Optimal sample allocation under unequal costs in cluster-randomized trials. Journal of Educational and Behavioral Statistics, 45(4): 446-474. <doi:10.3102/1076998620912418> (2) Shen, Z., & Kelcey, B. (in press). Optimal sample allocation in multisite randomized trials. The Journal of Experimental Education. <doi:10.1080/00220973.2020.1830361> (3) Shen, Z., & Kelcey, B. (in press). Optimal sampling ratios in three-level multisite experiments. Journal of Research on Educational Effectiveness. <doi:10.1080/19345747.2021.1953200> (4) Champely, S. (2020). pwr: Basic functions for power analysis (Version 1.3-0) [Software]. Available from <https://CRAN.R-project.org/package=pwr>.
Author: Zuchao Shen [aut, cre], Benjamin Kelcey [aut]
Maintainer: Zuchao Shen <zuchao.shen@gmail.com>

Diff between odr versions 1.0.2 dated 2020-03-13 and 1.2.1 dated 2021-09-16

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More information about odr at CRAN
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New package nominatimlite with initial version 0.1.0
Package: nominatimlite
Title: Interface with 'Nominatim' API Service
Version: 0.1.0
Description: Lite interface for getting data from 'OSM' service 'Nominatim' <https://nominatim.org/release-docs/latest/>. Extract coordinates from addresses, find places near a set of coordinates, search for amenities and return spatial objects on 'sf' format.
License: MIT + file LICENSE
URL: https://dieghernan.github.io/nominatimlite/, https://github.com/dieghernan/nominatimlite
BugReports: https://github.com/dieghernan/nominatimlite/issues
Depends: R (>= 3.6.0)
Imports: dplyr (>= 1.0.0), jsonlite (>= 1.7.0), sf (>= 0.9.0), tibble (>= 3.0.3), utils
Suggests: ggplot2 (>= 3.0.0), knitr, osmdata, rmarkdown, testthat (>= 3.0.0), tidygeocoder
VignetteBuilder: knitr
Encoding: UTF-8
LazyData: true
NeedsCompilation: no
Packaged: 2021-09-16 04:49:24 UTC; diego
Author: Diego Hernangómez [aut, cre, cph] (<https://orcid.org/0000-0001-8457-4658>), Jindra Lacko [ctb, rev], OpenStreetMap contributors [cph] (for the data.)
Maintainer: Diego Hernangómez <diego.hernangomezherrero@gmail.com>
Repository: CRAN
Date/Publication: 2021-09-16 07:30:05 UTC

More information about nominatimlite at CRAN
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New package MazamaSpatialPlots with initial version 0.1.2
Package: MazamaSpatialPlots
Version: 0.1.2
Title: Thematic Plots for Mazama Spatial Datasets
Author: Jonathan Callahan [aut, cre], Rachel Carroll [aut], Eli Grosman [aut]
Maintainer: Jonathan Callahan <jonathan.s.callahan@gmail.com>
Description: A suite of convenience functions for generating US state and county thematic maps using datasets from the MazamaSpatialUtils package.
License: GPL-3
URL: https://github.com/MazamaScience/MazamaSpatialPlots
BugReports: https://github.com/MazamaScience/MazamaSpatialPlots/issues
Depends: R (>= 3.5.0), MazamaSpatialUtils (>= 0.7.3)
Imports: dplyr, magrittr, MazamaCoreUtils (>= 0.4.6), rlang, sp, sf, tmap
Suggests: knitr, markdown, testthat (>= 2.1.0), rmarkdown, roxygen2
Encoding: UTF-8
VignetteBuilder: knitr
LazyData: true
NeedsCompilation: no
Packaged: 2021-09-15 20:13:26 UTC; jonathancallahan
Repository: CRAN
Date/Publication: 2021-09-16 07:20:02 UTC

More information about MazamaSpatialPlots at CRAN
Permanent link

Package hsstan updated to version 0.8.1 with previous version 0.8 dated 2020-06-29

Title: Hierarchical Shrinkage Stan Models for Biomarker Selection
Description: Linear and logistic regression models penalized with hierarchical shrinkage priors for selection of biomarkers (or more general variable selection), which can be fitted using Stan (Carpenter et al. (2017) <doi:10.18637/jss.v076.i01>). It implements the horseshoe and regularized horseshoe priors (Piironen and Vehtari (2017) <doi:10.1214/17-EJS1337SI>), as well as the projection predictive selection approach to recover a sparse set of predictive biomarkers (Piironen, Paasiniemi and Vehtari (2020) <doi:10.1214/20-EJS1711>).
Author: Marco Colombo [aut, cre] (<https://orcid.org/0000-0001-6672-0623>), Paul McKeigue [aut] (<https://orcid.org/0000-0002-5217-1034>), Athina Spiliopoulou [ctb] (<https://orcid.org/0000-0002-5929-6585>)
Maintainer: Marco Colombo <mar.colombo13@gmail.com>

Diff between hsstan versions 0.8 dated 2020-06-29 and 0.8.1 dated 2021-09-16

 hsstan-0.8.1/hsstan/DESCRIPTION                |   16 +++++++-----
 hsstan-0.8.1/hsstan/MD5                        |   31 ++++++++++++------------
 hsstan-0.8.1/hsstan/NEWS.md                    |   32 ++++++++++++++++++++-----
 hsstan-0.8.1/hsstan/R/diabetes.R               |    4 +--
 hsstan-0.8.1/hsstan/R/hsstan-package.R         |   16 ++++++++----
 hsstan-0.8.1/hsstan/R/misc.R                   |   26 ++++++++++++++++++++
 hsstan-0.8.1/hsstan/R/postestimation.R         |    6 ++--
 hsstan-0.8.1/hsstan/R/projection.R             |    9 ++++++-
 hsstan-0.8.1/hsstan/R/stan.R                   |    7 ++++-
 hsstan-0.8.1/hsstan/R/stanmodels.R             |    6 ++--
 hsstan-0.8.1/hsstan/README.md                  |   11 +++++---
 hsstan-0.8.1/hsstan/build                      |only
 hsstan-0.8.1/hsstan/inst/stan/base0.stan       |only
 hsstan-0.8.1/hsstan/inst/stan/base0_logit.stan |only
 hsstan-0.8.1/hsstan/man/bayes_R2.hsstan.Rd     |    2 -
 hsstan-0.8.1/hsstan/man/diabetes.Rd            |    4 +--
 hsstan-0.8.1/hsstan/man/hsstan-package.Rd      |   16 ++++++++----
 hsstan-0.8/hsstan/inst/stan/base.stan          |only
 hsstan-0.8/hsstan/inst/stan/base_logit.stan    |only
 19 files changed, 131 insertions(+), 55 deletions(-)

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Package geometa updated to version 0.6-4 with previous version 0.6-3 dated 2020-08-04

Title: Tools for Reading and Writing ISO/OGC Geographic Metadata
Description: Provides facilities to handle reading and writing of geographic metadata defined with OGC/ISO 19115, 11119 and 19110 geographic information metadata standards, and encoded using the ISO 19139 (XML) standard. It includes also a facility to check the validity of ISO 19139 XML encoded metadata.
Author: Emmanuel Blondel [aut, cre] (<https://orcid.org/0000-0002-5870-5762>)
Maintainer: Emmanuel Blondel <emmanuel.blondel1@gmail.com>

Diff between geometa versions 0.6-3 dated 2020-08-04 and 0.6-4 dated 2021-09-16

 DESCRIPTION                                             |    8 
 MD5                                                     |  414 ++++++++--------
 NAMESPACE                                               |    2 
 R/GMLTimeInstant.R                                      |    2 
 R/GMLTimePeriod.R                                       |    4 
 R/IANAMimeTypes.R                                       |only
 R/INSPIREMetadataValidator.R                            |    4 
 R/ISOAbstractObject.R                                   |   20 
 R/ISOConformanceResult.R                                |    2 
 R/ISOCoverageDescription.R                              |    2 
 R/ISODataQuality.R                                      |    2 
 R/ISODataQualityCompleteness.R                          |    4 
 R/ISODataQualityLogicalConsistency.R                    |    8 
 R/ISODataQualityPositionalAccuracy.R                    |    6 
 R/ISODataQualityTemporalAccuracy.R                      |    6 
 R/ISODataQualityThematicAccuracy.R                      |    6 
 R/ISODigitalTransferOptions.R                           |   34 +
 R/ISODimension.R                                        |    2 
 R/ISOFormat.R                                           |   26 -
 R/ISOImageryMetadata.R                                  |    2 
 R/ISOMetadata.R                                         |    2 
 R/ISOMetadataNamespace.R                                |    2 
 R/ISOMimeFileType.R                                     |   38 +
 R/geometa.R                                             |    4 
 R/profile.R                                             |    4 
 README.md                                               |    4 
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 inst/extdata/schemas/xlink                              |only
 man/INSPIREMetadataValidator.Rd                         |    2 
 man/ISOAbsoluteExternalPositionalAccuracy.Rd            |    2 
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 man/ISOCompletenessCommission.Rd                        |    2 
 man/ISOCompletenessOmission.Rd                          |    2 
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 man/ISODigitalTransferOptions.Rd                        |    9 
 man/ISODomainConsistency.Rd                             |    2 
 man/ISOFormatConsistency.Rd                             |    2 
 man/ISOGriddedDataPositionalAccuracy.Rd                 |    2 
 man/ISOImageryMetadata.Rd                               |    2 
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 man/ISOMimeFileType.Rd                                  |    6 
 man/ISONonQuantitativeAttributeAccuracy.Rd              |    2 
 man/ISOQuantitativeAttributeAccuracy.Rd                 |    2 
 man/ISORelativeInternalPositionalAccuracy.Rd            |    2 
 man/ISOTemporalConsistency.Rd                           |    2 
 man/ISOTemporalValidity.Rd                              |    2 
 man/ISOThematicClassificationCorrectness.Rd             |    2 
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 man/getIANAMimeTypes.Rd                                 |only
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 tests/testthat/test_GMLAbstractCRS.R                    |    1 
 tests/testthat/test_GMLAbstractFeature.R                |    1 
 tests/testthat/test_GMLAbstractGeneralDerivedCRS.R      |    1 
 tests/testthat/test_GMLAbstractGeometricAggregate.R     |    3 
 tests/testthat/test_GMLAbstractGeometricPrimitive.R     |    3 
 tests/testthat/test_GMLAbstractRing.R                   |    1 
 tests/testthat/test_GMLAbstractSingleCRS.R              |    1 
 tests/testthat/test_GMLCompoundCRS.R                    |    1 
 tests/testthat/test_GMLConversion.R                     |    1 
 tests/testthat/test_GMLCoordinateSystem.R               |   13 
 tests/testthat/test_GMLCoordinateSystemAxis.R           |    1 
 tests/testthat/test_GMLCoverages.R                      |    8 
 tests/testthat/test_GMLDefinition.R                     |    1 
 tests/testthat/test_GMLDerivedCRS.R                     |    1 
 tests/testthat/test_GMLElement.R                        |    1 
 tests/testthat/test_GMLEnvelope.R                       |    2 
 tests/testthat/test_GMLEnvelopeWithTimePeriod.R         |    1 
 tests/testthat/test_GMLGeneralGridAxis.R                |    1 
 tests/testthat/test_GMLGrid.R                           |    2 
 tests/testthat/test_GMLGridFunction.R                   |    1 
 tests/testthat/test_GMLOperationMethod.R                |    1 
 tests/testthat/test_GMLOperationParameter.R             |    3 
 tests/testthat/test_GMLParameterValue.R                 |    5 
 tests/testthat/test_GMLParameterValueGroup.R            |    1 
 tests/testthat/test_GMLProjectedCRS.R                   |    1 
 tests/testthat/test_GMLRectifiedGrid.R                  |    1 
 tests/testthat/test_GMLReferenceableGrid.R              |    2 
 tests/testthat/test_GMLTimeInstant.R                    |    3 
 tests/testthat/test_GMLTimePeriod.R                     |    4 
 tests/testthat/test_GMLUnitDefinition.R                 |    4 
 tests/testthat/test_INSPIREMetadataValidator.R          |    5 
 tests/testthat/test_ISOAddress.R                        |    2 
 tests/testthat/test_ISOAggregateInformation.R           |    1 
 tests/testthat/test_ISOAnchor.R                         |    1 
 tests/testthat/test_ISOApplicationSchemaInformation.R   |    1 
 tests/testthat/test_ISOAssociationRole.R                |    1 
 tests/testthat/test_ISOBand.R                           |    1 
 tests/testthat/test_ISOBinary.R                         |    1 
 tests/testthat/test_ISOBinding.R                        |    2 
 tests/testthat/test_ISOBoundAssociationRole.R           |    2 
 tests/testthat/test_ISOBoundFeatureAttribute.R          |    2 
 tests/testthat/test_ISOBoundingPolygon.R                |    1 
 tests/testthat/test_ISOBrowseGraphic.R                  |    2 
 tests/testthat/test_ISOCarrierOfCharacteristics.R       |    1 
 tests/testthat/test_ISOCitation.R                       |    2 
 tests/testthat/test_ISOCitationSeries.R                 |    2 
 tests/testthat/test_ISOConformanceResult.R              |    2 
 tests/testthat/test_ISOConstraint.R                     |    2 
 tests/testthat/test_ISOConstraints.R                    |    2 
 tests/testthat/test_ISOContact.R                        |    2 
 tests/testthat/test_ISOCoupledResource.R                |    2 
 tests/testthat/test_ISOCoverageDescription.R            |    1 
 tests/testthat/test_ISODataFile.R                       |    1 
 tests/testthat/test_ISODataIdentification.R             |    2 
 tests/testthat/test_ISODataQuality.R                    |    4 
 tests/testthat/test_ISODataQualityAbstractElement.R     |    4 
 tests/testthat/test_ISODataQualityCompleteness.R        |   11 
 tests/testthat/test_ISODataQualityLogicalConsistency.R  |   15 
 tests/testthat/test_ISODataQualityPositionalAccuracy.R  |   12 
 tests/testthat/test_ISODataQualityTemporalAccuracy.R    |   12 
 tests/testthat/test_ISODataQualityThematicAccuracy.R    |   12 
 tests/testthat/test_ISODefinitionReference.R            |    3 
 tests/testthat/test_ISODefinitionSource.R               |    3 
 tests/testthat/test_ISODigitalTransferOptions.R         |    2 
 tests/testthat/test_ISODimension.R                      |    1 
 tests/testthat/test_ISODistribution.R                   |    1 
 tests/testthat/test_ISODistributor.R                    |    2 
 tests/testthat/test_ISOExtendedElementInformation.R     |    2 
 tests/testthat/test_ISOExtent.R                         |    1 
 tests/testthat/test_ISOFeatureAssociation.R             |    1 
 tests/testthat/test_ISOFeatureAttribute.R               |    2 
 tests/testthat/test_ISOFeatureCatalogue.R               |    4 
 tests/testthat/test_ISOFeatureCatalogueDescription.R    |    1 
 tests/testthat/test_ISOFeatureOperation.R               |    2 
 tests/testthat/test_ISOFeatureType.R                    |    2 
 tests/testthat/test_ISOFormat.R                         |    2 
 tests/testthat/test_ISOFreeText.R                       |    1 
 tests/testthat/test_ISOGeographicBoundingBox.R          |    1 
 tests/testthat/test_ISOGeographicDescription.R          |    1 
 tests/testthat/test_ISOGeometricObjects.R               |    1 
 tests/testthat/test_ISOGeorectified.R                   |    1 
 tests/testthat/test_ISOGeoreferenceable.R               |    3 
 tests/testthat/test_ISOGridSpatialRepresentation.R      |    1 
 tests/testthat/test_ISOIdentifier.R                     |    1 
 tests/testthat/test_ISOImageDescription.R               |    1 
 tests/testthat/test_ISOImageryAlgorithm.R               |    1 
 tests/testthat/test_ISOImageryBand.R                    |    1 
 tests/testthat/test_ISOImageryCoverageDescription.R     |    1 
 tests/testthat/test_ISOImageryEnvironmentalRecord.R     |    1 
 tests/testthat/test_ISOImageryEvent.R                   |    1 
 tests/testthat/test_ISOImageryGCP.R                     |    1 
 tests/testthat/test_ISOImageryGCPCollection.R           |    1 
 tests/testthat/test_ISOImageryGeorectified.R            |    1 
 tests/testthat/test_ISOImageryGeoreferenceable.R        |    3 
 tests/testthat/test_ISOImageryImageDescription.R        |    1 
 tests/testthat/test_ISOImageryInstrument.R              |    1 
 tests/testthat/test_ISOImageryMetadata.R                |    6 
 tests/testthat/test_ISOImageryNominalResolution.R       |    1 
 tests/testthat/test_ISOImageryObjective.R               |    1 
 tests/testthat/test_ISOImageryPlan.R                    |    1 
 tests/testthat/test_ISOImageryPlatform.R                |    1 
 tests/testthat/test_ISOImageryPlatformPass.R            |    1 
 tests/testthat/test_ISOImageryProcessStep.R             |    1 
 tests/testthat/test_ISOImageryProcessing.R              |    1 
 tests/testthat/test_ISOImageryRangeElementDescription.R |    2 
 tests/testthat/test_ISOImageryRequestedDate.R           |    1 
 tests/testthat/test_ISOImageryRequirement.R             |    1 
 tests/testthat/test_ISOImagerySource.R                  |    1 
 tests/testthat/test_ISOImageryUsability.R               |    4 
 tests/testthat/test_ISOInheritanceRelation.R            |    1 
 tests/testthat/test_ISOKeywords.R                       |   12 
 tests/testthat/test_ISOLegalConstraints.R               |    2 
 tests/testthat/test_ISOLineage.R                        |    4 
 tests/testthat/test_ISOListedValue.R                    |    2 
 tests/testthat/test_ISOLocalName.R                      |    1 
 tests/testthat/test_ISOLocaleContainer.R                |    1 
 tests/testthat/test_ISOLocalisedCharacterString.R       |    6 
 tests/testthat/test_ISOMaintenanceInformation.R         |    1 
 tests/testthat/test_ISOMeasure.R                        |    5 
 tests/testthat/test_ISOMedium.R                         |    2 
 tests/testthat/test_ISOMemberName.R                     |    2 
 tests/testthat/test_ISOMetaIdentifier.R                 |    1 
 tests/testthat/test_ISOMetadata.R                       |   20 
 tests/testthat/test_ISOMetadataExtensionInformation.R   |    2 
 tests/testthat/test_ISOMimeFileType.R                   |   19 
 tests/testthat/test_ISOMultiplicity.R                   |    1 
 tests/testthat/test_ISOMultiplicityRange.R              |    1 
 tests/testthat/test_ISOOnlineResource.R                 |    2 
 tests/testthat/test_ISOOperationMetadata.R              |    1 
 tests/testthat/test_ISOParameter.R                      |    2 
 tests/testthat/test_ISOPortrayalCatalogueReference.R    |    2 
 tests/testthat/test_ISOProcessStep.R                    |    6 
 tests/testthat/test_ISOPropertyType.R                   |    2 
 tests/testthat/test_ISOQuantitativeResult.R             |    1 
 tests/testthat/test_ISORangeDimension.R                 |    2 
 tests/testthat/test_ISORecord.R                         |    1 
 tests/testthat/test_ISORecordType.R                     |    1 
 tests/testthat/test_ISOReferenceIdentifier.R            |    1 
 tests/testthat/test_ISOReferenceSystem.R                |    1 
 tests/testthat/test_ISORepresentativeFraction.R         |    1 
 tests/testthat/test_ISOResolution.R                     |    1 
 tests/testthat/test_ISOResponsibleParty.R               |    2 
 tests/testthat/test_ISOScope.R                          |    1 
 tests/testthat/test_ISOSecurityConstraints.R            |    2 
 tests/testthat/test_ISOServiceIdentification.R          |   28 -
 tests/testthat/test_ISOSource.R                         |    4 
 tests/testthat/test_ISOSpatialTemporalExtent.R          |    1 
 tests/testthat/test_ISOStandardOrderProcess.R           |    2 
 tests/testthat/test_ISOTelephone.R                      |    2 
 tests/testthat/test_ISOTemporalExtent.R                 |    2 
 tests/testthat/test_ISOTypeName.R                       |    2 
 tests/testthat/test_ISOURL.R                            |    1 
 tests/testthat/test_ISOUnlimitedInteger.R               |    2 
 tests/testthat/test_ISOUsage.R                          |    1 
 tests/testthat/test_ISOVectorSpatialRepresentation.R    |    1 
 tests/testthat/test_ISOVerticalExtent.R                 |    1 
 tests/testthat/test_geometa_mapping.R                   |    7 
 210 files changed, 481 insertions(+), 608 deletions(-)

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New package GlarmaVarSel with initial version 1.0
Package: GlarmaVarSel
Title: Variable Selection in Sparse GLARMA Models
Version: 1.0
Date: 2021-09-15
Author: M. Gomtsyan, C. Levy-Leduc, S. Ouadah, L. Sansonnet
Maintainer: Marina Gomtsyan <marina.gomtsyan@agroparistech.fr>
Description: Performs variable selection in high-dimensional sparse GLARMA models. For further details we refer the reader to the paper Gomtsyan et al. (2020), <arXiv:2007.08623v1>.
License: GPL-2
Depends: R (>= 3.5.0), Matrix, glmnet, stats, ggplot2
VignetteBuilder: knitr
Suggests: knitr, markdown, formatR, doMC
NeedsCompilation: no
Packaged: 2021-09-15 15:26:37 UTC; marina
Repository: CRAN
Date/Publication: 2021-09-16 07:40:02 UTC

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New package GENLIB with initial version 1.1.5
Package: GENLIB
Title: Genealogical Data Analysis
Version: 1.1.5
Date: 2021-09-08
Description: Genealogical data analysis including descriptive statistics (e.g., kinship and inbreeding coefficients) and gene-dropping simulations. See: "GENLIB: an R package for the analysis of genealogical data" Gauvin et al. (2015) <doi:10.1186/s12859-015-0581-5>.
License: GPL (>= 2)
LazyLoad: yes
Depends: R (>= 3.1.0), Rcpp (>= 0.9.10)
Imports: kinship2, methods, bootstrap, Matrix, lattice, quadprog, foreach, parallel, doParallel
LinkingTo: Rcpp
NeedsCompilation: yes
Author: Louis Houde [aut], Jean-Francois Lefebvre [aut], Valery Roy-Lagace [aut], Sebastien Lemieux [aut], Michael J. Fromberger [ctb], Jarno van der Kolk [ctb], Mohan Rakesh [ctb], Marie-Helene Roy-Gagnon [cre]
Maintainer: Marie-Helene Roy-Gagnon <mroygagn@uottawa.ca>
Repository: CRAN
Packaged: 2021-09-15 20:43:25 UTC; Mohan
Date/Publication: 2021-09-16 07:30:18 UTC

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New package geneticae with initial version 0.1.0
Package: geneticae
Title: Statistical Tools for the Analysis of Multi Environment Agronomic Trials
Version: 0.1.0
Description: Data from multi environment agronomic trials, which are often carried out by plant breeders, can be analyzed with the tools offered by this package such as the Additive Main effects and Multiplicative Interaction model or 'AMMI' ('Gauch' 1992, ISBN:9780444892409) and the Site Regression model or 'SREG' ('Cornelius' 1996, <doi:10.1201/9780367802226>). Since these methods present a poor performance under the presence of outliers and missing values, this package includes robust versions of the 'AMMI' model ('Rodrigues' 2016, <doi:10.1093/bioinformatics/btv533>), and also imputation techniques specifically developed for this kind of data ('Arciniegas-Alarcón' 2014, <doi:10.2478/bile-2014-0006>).
License: GPL-2
Encoding: UTF-8
LazyData: true
Imports: stats, GGEBiplots, ggforce, ggplot2, scales, MASS, pcaMethods, rrcov, dplyr, bcv, missMDA, calibrate, graphics, agridat, reshape2, matrixStats, tidyr, prettydoc
Suggests: spelling, knitr, rmarkdown, testthat
VignetteBuilder: knitr
Depends: R (>= 2.12.0)
URL: https://github.com/jangelini/geneticae
BugReports: https://github.com/jangelini/geneticae/issues
Language: en-US
NeedsCompilation: no
Packaged: 2021-09-15 21:55:57 UTC; julia-fedora
Author: Julia Angelini [aut, cre] (<https://orcid.org/0000-0002-9611-527X>), Marcos Prunello [aut] (<https://orcid.org/0000-0002-9611-527X>), Gerardo Cervigni [aut]
Maintainer: Julia Angelini <jangelini_93@hotmail.com>
Repository: CRAN
Date/Publication: 2021-09-16 07:10:02 UTC

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New package fsr with initial version 1.0.0
Package: fsr
Title: Handling Fuzzy Spatial Data
Version: 1.0.0
URL: https://github.com/accarniel/fsr
BugReports: https://github.com/accarniel/fsr/issues
Depends: R (>= 3.6.0)
Imports: rlang (>= 0.4.11), methods (>= 2.0.0), sf (>= 0.9.4), FuzzyR (>= 2.3.0), dplyr (>= 1.0.6), ggplot2 (>= 3.3.5), stringr (>= 1.4.0), tibble (>= 3.0.1), pso (>= 1.0.3), e1071 (>= 1.7.3), utils (>= 3.6.3), lwgeom (>= 0.2.6)
Description: Support for fuzzy spatial objects, their operations, and fuzzy spatial inference models based on Spatial Plateau Algebra. It employs fuzzy set theory and fuzzy logic as foundation to deal with spatial fuzziness. It implements underlying concepts defined in the following research papers: (i) "Spatial Plateau Algebra: An Executable Type System for Fuzzy Spatial Data Types" <doi:10.1109/FUZZ-IEEE.2018.8491565>; (ii) "A Systematic Approach to Creating Fuzzy Region Objects from Real Spatial Data Sets" <doi:10.1109/FUZZ-IEEE.2019.8858878>; (iii) "Fuzzy Inference on Fuzzy Spatial Objects (FIFUS) for Spatial Decision Support Systems" <doi:10.1109/FUZZ-IEEE.2017.8015707>.
License: GPL-3
NeedsCompilation: no
Encoding: UTF-8
Packaged: 2021-09-15 21:29:39 UTC; anderson
Author: Anderson Carniel [rth, aut, cre] (<https://orcid.org/0000-0002-8297-9894>), Felippe Galdino [rtm, aut] (<https://orcid.org/0000-0003-2594-9733>), Juliana Philippsen [rtm, aut], Markus Schneider [rth]
Maintainer: Anderson Carniel <accarniel@ufscar.br>
Repository: CRAN
Date/Publication: 2021-09-16 07:10:05 UTC

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Package ciftiTools updated to version 0.6.1 with previous version 0.4.3 dated 2021-08-19

Title: Tools for Reading, Writing, Viewing and Manipulating CIFTI Files
Description: CIFTI files contain brain imaging data in "grayordinates," which represent the gray matter as cortical surface vertices (left and right) and subcortical voxels (cerebellum, basal ganglia, and other deep gray matter). 'ciftiTools' provides a unified environment for reading, writing, visualizing and manipulating CIFTI-format data. It supports the "dscalar," "dlabel," and "dtseries" intents. Grayordinate data is read in as a "xifti" object, which is structured for convenient access to the data and metadata, and includes support for surface geometry files to enable spatially-dependent functionality such as static or interactive visualizations and smoothing.
Author: Amanda Mejia [aut, cre], Damon Pham [aut] (<https://orcid.org/0000-0001-7563-4727>), John Muschelli [ctb] (<https://orcid.org/0000-0001-6469-1750>)
Maintainer: Amanda Mejia <mandy.mejia@gmail.com>

Diff between ciftiTools versions 0.4.3 dated 2021-08-19 and 0.6.1 dated 2021-09-16

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 ciftiTools-0.6.1/ciftiTools/R/read_cifti_separate.R                |    9 
 ciftiTools-0.6.1/ciftiTools/R/read_xifti2.R                        |    8 
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 ciftiTools-0.6.1/ciftiTools/R/utils_xifti.R                        |  188 +-
 ciftiTools-0.6.1/ciftiTools/R/view_xifti.R                         |  335 +++
 ciftiTools-0.6.1/ciftiTools/R/view_xifti_surface.R                 |  194 --
 ciftiTools-0.6.1/ciftiTools/R/view_xifti_volume.R                  |  903 ++++++++--
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Package tsbox updated to version 0.3.1 with previous version 0.3.0 dated 2021-07-29

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] (<https://orcid.org/0000-0002-7192-7044>)
Maintainer: Christoph Sax <christoph.sax@gmail.com>

Diff between tsbox versions 0.3.0 dated 2021-07-29 and 0.3.1 dated 2021-09-16

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Package rEDM updated to version 1.9.2 with previous version 1.9.1 dated 2021-08-08

Title: Empirical Dynamic Modeling ('EDM')
Description: An implementation of 'EDM' algorithms based on research software developed for internal use at the Sugihara Lab ('UCSD/SIO'). The package is implemented with 'Rcpp' wrappers around the 'cppEDM' library. It implements the 'simplex' projection method from Sugihara & May (1990) <doi:10.1038/344734a0>, the 'S-map' algorithm from Sugihara (1994) <doi:10.1098/rsta.1994.0106>, convergent cross mapping described in Sugihara et al. (2012) <doi:10.1126/science.1227079>, and, 'multiview embedding' described in Ye & Sugihara (2016) <doi:10.1126/science.aag0863>.
Author: Joseph Park [aut, cre] (<https://orcid.org/0000-0001-5411-1409>), Cameron Smith [aut] (<https://orcid.org/0000-0003-0020-5607>), George Sugihara [aut, ccp] (<https://orcid.org/0000-0002-2863-6946>), Ethan Deyle [aut] (<https://orcid.org/0000-0001-8704-8434>), Erik Saberski [ctb] (<https://orcid.org/0000-0002-6475-6187>), Hao Ye [ctb] (<https://orcid.org/0000-0002-8630-1458>), The Regents of the University of California [cph]
Maintainer: Joseph Park <JosephPark@IEEE.org>

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Package ocs4R updated to version 0.2-1 with previous version 0.2 dated 2021-07-05

Title: Interface to Open Collaboration Services (OCS) REST API
Description: Provides an Interface to Open Collaboration Services 'OCS' (<https://www.open-collaboration-services.org/>) REST API.
Author: Emmanuel Blondel [aut, cre] (<https://orcid.org/0000-0002-5870-5762>)
Maintainer: Emmanuel Blondel <emmanuel.blondel1@gmail.com>

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Package MARVEL (with last version 1.2.1) was removed from CRAN

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

2021-09-15 1.2.1
2021-09-02 1.2.0
2021-03-31 1.1.0
2021-03-01 1.0.0

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Package shinyMobile updated to version 0.9.1 with previous version 0.9.0 dated 2021-07-22

Title: Mobile Ready 'shiny' Apps with Standalone Capabilities
Description: Develop outstanding 'shiny' apps for 'iOS', 'Android', desktop as well as beautiful 'shiny' gadgets. 'shinyMobile' is built on top of the latest 'Framework7' template <https://framework7.io>. Discover 14 new input widgets (sliders, vertical sliders, stepper, grouped action buttons, toggles, picker, smart select, ...), 2 themes (light and dark), 12 new widgets (expandable cards, badges, chips, timelines, gauges, progress bars, ...) combined with the power of server-side notifications such as alerts, modals, toasts, action sheets, sheets (and more) as well as 3 layouts (single, tabs and split).
Author: David Granjon [aut, cre], Victor Perrier [aut], John Coene [ctb], Isabelle Rudolf [aut], Dieter Menne [ctb], Marvelapp [ctb, cph] (device.css wrappers), Vladimir Kharlampidi [ctb, cph] (Framework7 HTML template)
Maintainer: David Granjon <dgranjon@ymail.com>

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Package rrcov updated to version 1.6-0 with previous version 1.5-5 dated 2020-08-03

Title: Scalable Robust Estimators with High Breakdown Point
Description: Robust Location and Scatter Estimation and Robust Multivariate Analysis with High Breakdown Point: principal component analysis (Filzmoser and Todorov (2013), <doi:10.1016/j.ins.2012.10.017>), linear and quadratic discriminant analysis (Todorov and Pires (2007)), multivariate tests (Todorov and Filzmoser (2010) <doi:10.1016/j.csda.2009.08.015>), outlier detection (Todorov et al. (2010) <doi:10.1007/s11634-010-0075-2>). See also Todorov and Filzmoser (2009) <ISBN-13:978-3838108148>, Todorov and Filzmoser (2010) <doi:10.18637/jss.v032.i03> and Boudt et al. (2019) <doi:10.1007/s11222-019-09869-x>.
Author: Valentin Todorov [aut, cre] (<https://orcid.org/0000-0003-4215-0245>)
Maintainer: Valentin Todorov <valentin.todorov@chello.at>

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Package pbapply updated to version 1.5-0 with previous version 1.4-3 dated 2020-08-18

Title: Adding Progress Bar to '*apply' Functions
Description: A lightweight package that adds progress bar to vectorized R functions ('*apply'). The implementation can easily be added to functions where showing the progress is useful (e.g. bootstrap). The type and style of the progress bar (with percentages or remaining time) can be set through options. Supports several parallel processing backends.
Author: Peter Solymos [aut, cre], Zygmunt Zawadzki [aut]
Maintainer: Peter Solymos <solymos@ualberta.ca>

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Package epiR updated to version 2.0.35 with previous version 2.0.33 dated 2021-07-30

Title: Tools for the Analysis of Epidemiological Data
Description: Tools for the analysis of epidemiological and surveillance data. Contains functions for directly and indirectly adjusting measures of disease frequency, quantifying measures of association on the basis of single or multiple strata of count data presented in a contingency table, computation of confidence intervals around incidence risk and incidence rate estimates and sample size calculations for cross-sectional, case-control and cohort studies. Surveillance tools include functions to calculate an appropriate sample size for 1- and 2-stage representative freedom surveys, functions to estimate surveillance system sensitivity and functions to support scenario tree modelling analyses.
Author: Mark Stevenson <mark.stevenson1@unimelb.edu.au> and Evan Sergeant <evansergeant@gmail.com> with contributions from Telmo Nunes, Cord Heuer, Jonathon Marshall, Javier Sanchez, Ron Thornton, Jeno Reiczigel, Jim Robison-Cox, Paola Sebastiani, Peter Solymos, Kazuki Yoshida, Geoff Jones, Sarah Pirikahu, Simon Firestone, Ryan Kyle, Johann Popp, Mathew Jay, Charles Reynard, Allison Cheung, Nagendra Singanallur and Aniko Szabo.
Maintainer: Mark Stevenson <mark.stevenson1@unimelb.edu.au>

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Package bs4Dash updated to version 2.0.3 with previous version 2.0.2 dated 2021-07-23

Title: A 'Bootstrap 4' Version of 'shinydashboard'
Description: Make 'Bootstrap 4' Shiny dashboards. Use the full power of 'AdminLTE3', a dashboard template built on top of 'Bootstrap 4' <https://github.com/ColorlibHQ/AdminLTE>.
Author: David Granjon [aut, cre], RinteRface [cph], Almasaeed Studio [ctb, cph] (AdminLTE3 theme for Bootstrap 4), Winston Chang [ctb, cph] (Utils functions from shinydashboard), Thomas Park [ctb, cph] (Bootswatch Sketchy theme CSS)
Maintainer: David Granjon <dgranjon@ymail.com>

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Package bestNormalize updated to version 1.8.2 with previous version 1.8.1 dated 2021-09-02

Title: Normalizing Transformation Functions
Description: Estimate a suite of normalizing transformations, including a new adaptation of a technique based on ranks which can guarantee normally distributed transformed data if there are no ties: ordered quantile normalization (ORQ). ORQ normalization combines a rank-mapping approach with a shifted logit approximation that allows the transformation to work on data outside the original domain. It is also able to handle new data within the original domain via linear interpolation. The package is built to estimate the best normalizing transformation for a vector consistently and accurately. It implements the Box-Cox transformation, the Yeo-Johnson transformation, three types of Lambert WxF transformations, and the ordered quantile normalization transformation. It estimates the normalization efficacy of other commonly used transformations, and it allows users to specify custom transformations or normalization statistics. Finally, functionality can be integrated into a machine learning workflow via recipes.
Author: Ryan Andrew Peterson [aut, cre]
Maintainer: Ryan Andrew Peterson <ryan.a.peterson@cuanschutz.edu>

Diff between bestNormalize versions 1.8.1 dated 2021-09-02 and 1.8.2 dated 2021-09-16

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More information about bestNormalize at CRAN
Permanent link

Package bayesnec updated to version 2.0 with previous version 1.0.1 dated 2021-07-02

Title: A Bayesian No-Effect- Concentration (NEC) Algorithm
Description: Implementation of No-Effect-Concentration estimation that uses 'brms' (see Burkner (2017)<doi:10.18637/jss.v080.i01>; Burkner (2018)<doi:10.32614/RJ-2018-017>; Carpenter 'et al.' (2017)<doi:10.18637/jss.v076.i01> to fit concentration(dose)-response data using Bayesian methods for the purpose of estimating 'ECX' values, but more particularly 'NEC' (see Fox (2010)<doi:10.1016/j.ecoenv.2009.09.012>. This package expands and supersedes an original version implemented in R2jags, see Fisher, Ricardo and Fox (2020)<doi:10.5281/ZENODO.3966864>.
Author: Rebecca Fisher [aut, cre], Diego Barneche [aut], Gerard Ricardo [aut], David Fox [aut]
Maintainer: Rebecca Fisher <r.fisher@aims.gov.au>

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Package retrosheet updated to version 1.1.4 with previous version 1.1.3 dated 2020-12-14

Title: Import Professional Baseball Data from 'Retrosheet'
Description: A collection of tools to import and structure the (currently) single-season event, game-log, roster, and schedule data available from <https://www.retrosheet.org>. In particular, the event (a.k.a. play-by-play) files can be especially difficult to parse. This package does the parsing on those files, returning the requested data in the most practical R structure to use for sabermetric or other analyses.
Author: Colin Douglas [aut, cre, cph], Richard Scriven [aut, cph]
Maintainer: Colin Douglas <colin@douglas.science>

Diff between retrosheet versions 1.1.3 dated 2020-12-14 and 1.1.4 dated 2021-09-16

 DESCRIPTION                     |   12 ++++++------
 MD5                             |    6 +++---
 NEWS.md                         |    3 +++
 tests/testthat/test-rmarkdown.R |    5 ++++-
 4 files changed, 16 insertions(+), 10 deletions(-)

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Package polished updated to version 0.4.0 with previous version 0.3.0 dated 2021-03-09

Title: Authentication, User Administration, and Hosting for 'shiny' Apps
Description: Easily add modern authentication and user administration to your 'shiny' apps. Customize user sign in and registration pages to match your brand. Control who can access one or more of your 'shiny' apps.
Author: Andy Merlino [aut, cre], Patrick Howard [aut], Jimmy Briggs [aut]
Maintainer: Andy Merlino <andy.merlino@tychobra.com>

Diff between polished versions 0.3.0 dated 2021-03-09 and 0.4.0 dated 2021-09-16

 DESCRIPTION                                  |   16 +--
 MD5                                          |   86 +++++++++++-----
 NAMESPACE                                    |   31 ++++-
 NEWS.md                                      |   16 ++-
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 R/secure_server.R                            |    6 -
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 R/sign_in_ui_default.R                       |   13 ++
 R/sign_out_from_shiny.R                      |    2 
 R/user_access_module.R                       |   39 +------
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