Tue, 05 Oct 2021

Package UKFE updated to version 0.1.9 with previous version 0.1.8 dated 2021-10-03

Title: UK Flood Estimation
Description: Functions to implement the methods of the Flood Estimation Handbook (FEH), associated updates and the revitalised flood hydrograph model (ReFH). Currently the package uses NRFA peak flow dataset version 10. Aside from FEH functionality, further hydrological functions are available. Most of the methods implemented in this package are described in one or more of the following: "Flood Estimation Handbook", Centre for Ecology & Hydrology (1999, ISBN:0 948540 94 X). "Flood Estimation Handbook Supplementary Report No. 1", Kjeldsen (2007, ISBN:0 903741 15 7). "Regional Frequency Analysis - an approach based on L-moments", Hosking & Wallis (1997, ISBN: 978 0 521 01940 8). "Proposal of the extreme rank plot for extreme value analysis: with an emphasis on flood frequency studies", Hammond (2019, <doi:10.2166/nh.2019.157>). "Making better use of local data in flood frequency estimation", Environment Agency (2017, ISBN: 978 1 84911 387 8). "Improving the FEH statistical procedures for flood frequency estimation", Environment Agency (2008, ISBN: 978 1 84432 920 5). "Low flow estimation in the United Kingdom", Institute of Hydrology (1992, ISBN 0 948540 45 1). Wallingford HydroSolutions, (2016, <http://software.hydrosolutions.co.uk/winfap4/Urban-Adjustment-Procedure-Technical-Note.pdf>). Data from the UK National River Flow Archive (<https://nrfa.ceh.ac.uk/>, terms and conditions: <https://nrfa.ceh.ac.uk/costs-terms-and-conditions>.
Author: Anthony Hammond
Maintainer: Anthony Hammond <agqhammond@gmail.com>

Diff between UKFE versions 0.1.8 dated 2021-10-03 and 0.1.9 dated 2021-10-05

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New package stratEst with initial version 1.1.4
Package: stratEst
Title: Strategy Estimation
Version: 1.1.4
Author: Fabian Dvorak
Maintainer: Fabian Dvorak <fabian.dvorak@uni.kn>
Date: 2021-09-22
Description: Variants of strategy estimation (Dal Bo & Frechette, 2011, <doi:10.1257/aer.101.1.411>), including the model with parameters for the choice probabilities of the strategies (Breitmoser, 2015, <doi:10.1257/aer.20130675>), and the model with individual level covariates for the selection of strategies by individuals (Dvorak & Fehrler, 2018, <doi:10.2139/ssrn.2986445>).
Copyright: See the file COPYRIGHTS for copyright, authorship and license details
License: GPL-3
Encoding: UTF-8
LazyData: true
LinkingTo: Rcpp, RcppArmadillo (>= 0.9.900.0.0)
Imports: Rcpp (>= 0.12.18), stats, graphics
Suggests: DiagrammeR (>= 1.0.6.1), DiagrammeRsvg (>= 0.1), spelling, testthat
Depends: R (>= 3.5)
URL: https://github.com/fdvorak/stratEst
BugReports: https://github.com/fdvorak/stratEst/issues
NeedsCompilation: yes
Language: en-US
Packaged: 2021-09-22 11:39:18 UTC; anon
Repository: CRAN
Date/Publication: 2021-10-05 23:20:02 UTC

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Package smoots updated to version 1.1.2 with previous version 1.1.1 dated 2021-09-22

Title: Nonparametric Estimation of the Trend and Its Derivatives in TS
Description: The nonparametric trend and its derivatives in equidistant time series (TS) with short-memory stationary errors can be estimated. The estimation is conducted via local polynomial regression using an automatically selected bandwidth obtained by a built-in iterative plug-in algorithm or a bandwidth fixed by the user. A Nadaraya-Watson kernel smoother is also built-in as a comparison. With version 1.1.0, a linearity test for the trend function, forecasting methods and backtesting approaches are implemented as well. The smoothing methods of the package are described in Feng, Y., Gries, T., and Fritz, M. (2020) <doi:10.1080/10485252.2020.1759598>.
Author: Yuanhua Feng [aut] (Paderborn University, Germany), Sebastian Letmathe [aut] (Paderborn University, Germany), Dominik Schulz [aut, cre] (Paderborn University, Germany), Thomas Gries [ctb] (Paderborn University, Germany), Marlon Fritz [ctb] (Paderborn University, Germany)
Maintainer: Dominik Schulz <schulzd@mail.uni-paderborn.de>

Diff between smoots versions 1.1.1 dated 2021-09-22 and 1.1.2 dated 2021-10-05

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Package simfam updated to version 1.0.3 with previous version 1.0.2 dated 2021-09-02

Title: Simulate and Model Family Pedigrees with Structured Founders
Description: The focus is on simulating and modeling families with founders drawn from a structured population (for example, with different ancestries or other potentially non-family relatedness), in contrast to traditional pedigree analysis that treats all founders as equally unrelated. Main function simulates a random pedigree for many generations, avoiding close relatives, pairing closest individuals according to a 1D geography and their randomly-drawn sex, and with variable children sizes to result in a target population size per generation. Auxiliary functions calculate kinship matrices, admixture matrices, and draw random genotypes across arbitrary pedigree structures starting from the corresponding founder values. The code is built around the plink FAM table format for pedigrees. Partially described in Yao and Ochoa (2019) <doi:10.1101/858399>.
Author: Alejandro Ochoa [aut, cre] (<https://orcid.org/0000-0003-4928-3403>)
Maintainer: Alejandro Ochoa <alejandro.ochoa@duke.edu>

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Package seqR updated to version 1.0.1 with previous version 1.0.0 dated 2021-09-15

Title: Fast and Comprehensive K-Mer Counting Package
Description: A fast implementation of k-mer (subsequences of length k) counting with the support for all types of biological sequences and k-mer variants.
Author: Jadwiga Słowik [aut, cre] (<https://orcid.org/0000-0003-3466-8933>), Michał Burdukiewicz [ths] (<https://orcid.org/0000-0001-8926-582X>)
Maintainer: Jadwiga Słowik <jadwiga.slowik5@gmail.com>

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Package resevol updated to version 0.2.0.8 with previous version 0.2.0.2 dated 2021-09-22

Title: Simulate Agricultural Production and Evolution of Pesticide Resistance
Description: Simulates individual-based models of agricultural pest management and the evolution of pesticide resistance. Management occurs on a spatially explicit landscape that is divided into an arbitrary number of farms that can grow one of up to 10 crops and apply one of up to 10 pesticides. Pest genomes are modelled in a way that allows for any number of pest traits with an arbitrary covariance structure that is constructed using an evolutionary algorithm in the mine_gmatrix() function. Simulations are then run using the run_farm_sim() function. This package thereby allows for highly mechanistic social-ecological models of the evolution of pesticide resistance under different types of crop rotation and pesticide application regimes.
Author: A. Bradley Duthie [aut, cre] (<https://orcid.org/0000-0001-8343-4995>), Rose McKeon [aut, ctr], Rosie Mangan [ctr], Luc Bussi&eacute;re [ctr], Matthew Tinsley [ctr]
Maintainer: A. Bradley Duthie <brad.duthie@gmail.com>

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Package redist updated to version 3.1.5 with previous version 3.1.4 dated 2021-09-19

Title: Simulation Methods for Legislative Redistricting
Description: Enables researchers to sample redistricting plans from a pre-specified target distribution using Sequential Monte Carlo and Markov Chain Monte Carlo algorithms. The package allows for the implementation of various constraints in the redistricting process such as geographic compactness and population parity requirements. Tools for analysis such as computation of various summary statistics and plotting functionality are also included. The package implements methods described in Fifield, Higgins, Imai and Tarr (2020) <doi:10.1080/10618600.2020.1739532>, Fifield, Imai, Kawahara, and Kenny (2020) <doi:10.1080/2330443X.2020.1791773>, and McCartan and Imai (2020) <arXiv:2008.06131>.
Author: Christopher T. Kenny [aut, cre], Cory McCartan [aut], Ben Fifield [aut], Kosuke Imai [aut], Jun Kawahara [ctb], Alexander Tarr [ctb], Michael Higgins [ctb]
Maintainer: Christopher T. Kenny <christopherkenny@fas.harvard.edu>

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Package pleLMA updated to version 0.2.1 with previous version 0.1.1 dated 2021-05-21

Title: Pseudo-Likelihood Estimation of Log-Multiplicative Association Models
Description: Log-multiplicative association models (LMA) are models for cross-classifications of categorical variables where interactions are represented by products of category scale values and an association parameter. Maximum likelihood estimation (MLE) fails for moderate to large numbers of categorical variables. The 'pleLMA' package overcomes this limitation of MLE by using pseudo-likelihood estimation to fit the models to small or large cross-classifications dichotomous or multi-category variables. Originally proposed by Besag (1974, <doi:10.1111/j.2517-6161.1974.tb00999.x>), pseudo-likelihood estimation takes large complex models and breaks it down into smaller ones. Rather than maximizing the likelihood of the joint distribution of all the variables, a pseudo-likelihood function, which is the product likelihoods from conditional distributions, is maximized. LMA models can be derived from a number of different frameworks including (but not limited to) graphical models and uni-dimensional and multi-dimensional item response theory models. More details about the models and estimation can be found in the vignette.
Author: Carolyn J. Anderson
Maintainer: Carolyn J. Anderson <cja@illinois.edu>

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Package meshed updated to version 0.1.3 with previous version 0.1.2 dated 2021-06-22

Title: Bayesian Regression with Meshed Gaussian Processes
Description: Fits Bayesian spatial or spatiotemporal multivariate regression models based on latent Meshed Gaussian Processes (MGP) as described in Peruzzi, Banerjee, Finley (2020) <doi:10.1080/01621459.2020.1833889> and Peruzzi, Banerjee, Dunson, and Finley (2021) <arXiv:2101.03579>. Funded by ERC grant 856506 and NIH grant R01ES028804.
Author: Michele Peruzzi
Maintainer: Michele Peruzzi <michele.peruzzi@duke.edu>

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Package MedianaDesigner updated to version 0.4 with previous version 0.3 dated 2021-09-20

Title: Efficient Simulation-Based Power and Sample Size Calculations for a Broad Class of Late-Stage Clinical Trials
Description: The following modules are included in the package: Adaptive designs with data-driven sample size or event count re-estimation, Adaptive designs with data-driven treatment selection, Adaptive designs with data-driven population selection, Optimal selection of a futility stopping rule, Event prediction in event-driven trials, Adaptive trials with response-adaptive randomization (experimental module), Traditional trials with multiple objectives (experimental module).
Author: Alex Dmitrienko [aut, cre]
Maintainer: Alex Dmitrienko <admitrienko@mediana.us>

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Package mazing updated to version 1.0.5 with previous version 1.0.2 dated 2021-06-02

Title: Utilities for Making and Plotting Mazes
Description: Functionality for generating and plotting random mazes. The mazes are based on matrices, so can only consist of vertical and horizontal lines along a regular grid. But there is no need to use every possible space, so they can take on many different shapes.
Author: Kelly Street [aut, cre] (<https://orcid.org/0000-0001-6379-5013>)
Maintainer: Kelly Street <street.kelly@gmail.com>

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Package littler updated to version 0.3.14 with previous version 0.3.13 dated 2021-07-24

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

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New package libproj with initial version 8.1.0-1
Package: libproj
Title: Generic Coordinate Transformation Library ('PROJ') C API
Version: 8.1.0-1
Description: Provides a 'PROJ' <https://proj.org> C API that can be used to write high-performance C and C++ coordinate transformation operations using R as an interface. This package contains an internal version of the 'PROJ' library to guarantee the best possible consistency on multiple platforms, and to provide a means by which 'PROJ' can be used on platforms where it may be impractical or impossible to install a binary version of the library.
License: MIT + file LICENSE
Encoding: UTF-8
SystemRequirements: C++11, libcurl, libtiff, zlib
Suggests: gh, testthat
URL: https://paleolimbot.github.io/libproj/, https://github.com/paleolimbot/libproj
BugReports: https://github.com/paleolimbot/libproj/issues
Imports: rappdirs
LinkingTo: cpp11
NeedsCompilation: yes
Packaged: 2021-09-26 12:59:37 UTC; deweydunnington
Author: Dewey Dunnington [aut, cre] (<https://orcid.org/0000-0002-9415-4582>), PROJ authors [aut], Jeroen Ooms [cph] (configure script), Evan Roualt [cph], Thomas Knudsen [cph], SDFE [cph], Kristan Evers [cph], Frank Warmerdam [cph], Charles Karney [cph], Evan Roualt [cph]
Maintainer: Dewey Dunnington <dewey@fishandwhistle.net>
Repository: CRAN
Date/Publication: 2021-10-05 23:10:02 UTC

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Package EPP updated to version 0.3.3 with previous version 0.3.2 dated 2021-08-05

Title: Evaluation of Proximity Programs
Description: A toolbox for coverage evaluation of proximity programs.
Author: Richard Detomasi [aut, cre] (<https://orcid.org/0000-0002-6725-0261>), German Botto [aut] (<https://orcid.org/0000-0002-4055-9277>)
Maintainer: Richard Detomasi <richard.detomasi@gmail.com>

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Package CausalMBSTS updated to version 0.1.1 with previous version 0.1.0 dated 2020-11-03

Title: MBSTS Models for Causal Inference and Forecasting
Description: Infers the causal effect of an intervention on a multivariate response through the use of Multivariate Bayesian Structural Time Series models (MBSTS) as described in Menchetti & Bojinov (2020) <arXiv:2006.12269>. The package also includes functions for model building and forecasting.
Author: Iavor Bojinov [aut], Fiammetta Menchetti [aut, cre], Victoria L. Prince [ctb], Ista Zahn [ctb]
Maintainer: Fiammetta Menchetti <fiammetta.menchetti@gmail.com>

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New package BayesSenMC with initial version 0.1.4
Package: BayesSenMC
Title: Different Models of Posterior Distributions of Adjusted Odds Ratio
Version: 0.1.4
Author: Jinhui Yang, Haitao Chu, and Lifeng Lin
Maintainer: Jinhui Yang <james.yangjinhui@gmail.com>
URL: https://github.com/formidify/BayesSenMC
BugReports: https://github.com/formidify/BayesSenMC/issues
Description: Generates different posterior distributions of adjusted odds ratio under different priors of sensitivity and specificity, and plots the models for comparison. It also provides estimations for the specifications of the models using diagnostics of exposure status with a non-linear mixed effects model. It implements the methods that are first proposed in <doi:10.1016/j.annepidem.2006.04.001> and <doi:10.1177/0272989X09353452>.
License: GPL-2
Encoding: UTF-8
LazyData: true
Biarch: true
Depends: R (>= 3.4.0)
Imports: methods, Rcpp (>= 0.12.0), RcppParallel (>= 5.0.1), rstan (>= 2.18.1), rstantools (>= 2.1.1), dplyr, ggplot2, lme4
LinkingTo: BH (>= 1.66.0), Rcpp (>= 0.12.0), RcppEigen (>= 0.3.3.3.0), RcppParallel (>= 5.0.1), rstan (>= 2.18.1), StanHeaders (>= 2.18.0)
SystemRequirements: GNU make
NeedsCompilation: yes
Packaged: 2021-09-28 14:35:06 UTC; james
Repository: CRAN
Date/Publication: 2021-10-05 23:10:12 UTC

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Package amanpg updated to version 0.3.3 with previous version 0.3.2 dated 2021-10-02

Title: Alternating Manifold Proximal Gradient Method for Sparse PCA
Description: Alternating Manifold Proximal Gradient Method for Sparse PCA uses the Alternating Manifold Proximal Gradient (AManPG) method to find sparse principal components from a data or covariance matrix. Provides a novel algorithm for solving the sparse principal component analysis problem which provides advantages over existing methods in terms of efficiency and convergence guarantees. Chen, S., Ma, S., Xue, L., & Zou, H. (2020) <doi:10.1287/ijoo.2019.0032>. Zou, H., Hastie, T., & Tibshirani, R. (2006) <doi:10.1198/106186006X113430>. Zou, H., & Xue, L. (2018) <doi:10.1109/JPROC.2018.2846588>.
Author: Shixiang Chen [aut], Justin Huang [aut], Benjamin Jochem [aut], Shiqian Ma [aut], Lingzhou Xue [cre, aut], Hui Zou [aut]
Maintainer: Lingzhou Xue <lzxue@psu.edu>

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Package wyz.code.offensiveProgramming updated to version 1.1.23 with previous version 1.1.18 dated 2020-04-19

Title: Wizardry Code Offensive Programming
Description: Allows to turn standard R code into offensive programming code. Provides code instrumentation to ease this change and tools to assist and accelerate code production and tuning while using offensive programming code technics. Should improve code robustness and quality. Function calls can be easily verified on-demand or in batch mode to assess parameter types and length conformities. Should improve coders productivity as offensive programming reduces the code size due to reduced number of controls all along the call chain. Should speed up processing as many checks will be reduced to one single check.
Author: Fabien Gelineau <neonira@gmail.com>
Maintainer: Fabien Gelineau <neonira@gmail.com>

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Package SIPDIBGE updated to version 0.1.5 with previous version 0.1.4 dated 2021-06-24

Title: Collection of Household Survey Packages Conducted by IBGE
Description: Provides access to packages developed for downloading, reading and analysing microdata from household surveys conducted by Brazilian Institute of Geography and Statistics - IBGE. More information can be obtained from the official website <https://www.ibge.gov.br/>.
Author: Gabriel Assuncao [aut, cre], Luna Hidalgo [aut], Douglas Braga [ctb]
Maintainer: Gabriel Assuncao <pacotesipd@ibge.gov.br>

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Package censable updated to version 0.0.3 with previous version 0.0.2 dated 2021-07-29

Title: Making Census Data More Usable
Description: Creates a common framework for organizing, naming, and gathering population, age, race, and ethnicity data from the Census Bureau. Accesses the API <https://www.census.gov/data/developers/data-sets.html> via the package tidycensus. Provides tools for adding information to existing data to line up with Census data.
Author: Christopher T. Kenny [aut, cre] (<https://orcid.org/0000-0002-9386-6860>)
Maintainer: Christopher T. Kenny <christopherkenny@fas.harvard.edu>

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Package Rssa updated to version 1.0.4 with previous version 1.0.3 dated 2020-11-19

Title: A Collection of Methods for Singular Spectrum Analysis
Description: Methods and tools for Singular Spectrum Analysis including decomposition, forecasting and gap-filling for univariate and multivariate time series. General description of the methods with many examples can be found in the book Golyandina (2018, <doi:10.1007/978-3-662-57380-8>). See 'citation("Rssa")' for details.
Author: Anton Korobeynikov, Alex Shlemov, Konstantin Usevich, Nina Golyandina
Maintainer: Anton Korobeynikov <anton@korobeynikov.info>

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Package lqr updated to version 4.0 with previous version 3.43 dated 2021-03-22

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

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Package nflreadr updated to version 1.1.1 with previous version 1.1.0 dated 2021-09-02

Title: Download 'nflverse' Data
Description: A low-level package for downloading data from 'GitHub' repositories of the 'nflverse' project.
Author: Tan Ho [aut, cre, cph] (<https://orcid.org/0000-0001-8388-5155>), Sebastian Carl [aut], John Edwards [ctb], Ben Baldwin [ctb], Thomas Mock [ctb], Lee Sharpe [ctb]
Maintainer: Tan Ho <tan@tanho.ca>

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Package EdSurvey updated to version 2.7.1 with previous version 2.7.0 dated 2021-07-19

Title: Analysis of NCES Education Survey and Assessment Data
Description: Read in and analyze functions for education survey and assessment data from the National Center for Education Statistics (NCES) <https://nces.ed.gov/>, including National Assessment of Educational Progress (NAEP) data <https://nces.ed.gov/nationsreportcard/> and data from the International Assessment Database: Organisation for Economic Co-operation and Development (OECD) <https://www.oecd.org/>, including Programme for International Student Assessment (PISA), Teaching and Learning International Survey (TALIS), Programme for the International Assessment of Adult Competencies (PIAAC), and International Association for the Evaluation of Educational Achievement (IEA) <https://www.iea.nl/>, including Trends in International Mathematics and Science Study (TIMSS), TIMSS Advanced, Progress in International Reading Literacy Study (PIRLS), International Civic and Citizenship Study (ICCS), International Computer and Information Literacy Study (ICILS), and Civic Education Study (CivEd).
Author: Paul Bailey [aut, cre], Ahmad Emad [aut], Huade Huo [aut], Michael Lee [aut], Yuqi Liao [aut], Alex Lishinski [aut], Trang Nguyen [aut], Qingshu Xie [aut], Jiao Yu [aut], Ting Zhang [aut], Eric Buehler [aut], person("Sun-joo", "Lee", role="aut"), person("Emmanuel", "Sikali", role="pdr", email = "Emmanuel.Sikali@ed.gov")), Jeppe Bundsgaard [ctb], Ren C'deBaca [ctb], Anders Astrup Christensen [ctb]
Maintainer: Paul Bailey <pbailey@air.org>

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Package tkrplot updated to version 0.0-26 with previous version 0.0-25 dated 2021-02-05

Title: TK Rplot
Description: Simple mechanism for placing R graphics in a Tk widget.
Author: Luke Tierney <luke-tierney@uiowa.edu>
Maintainer: Luke Tierney <luke-tierney@uiowa.edu>

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Package lessR updated to version 4.0.5 with previous version 4.0.3 dated 2021-09-09

Title: Less Code, More Results
Description: Each function accomplishes the work of several or more standard R functions. For example, two function calls, Read() and CountAll(), read the data and generate summary statistics for all variables in the data frame, plus histograms and bar charts as appropriate. Other functions provide for descriptive statistics, a comprehensive regression analysis, analysis of variance and t-test, plotting including the introduced here Violin/Box/Scatter plot for a numerical variable, bar chart, histogram, box plot, density curves, calibrated power curve, reading multiple data formats with the same function call, variable labels, color themes, Trellis graphics and a built-in help system. Also includes a confirmatory factor analysis of multiple indicator measurement models, pedagogical routines for data simulation such as for the Central Limit Theorem, and generation and rendering of R markdown instructions for interpretative output.
Author: David Gerbing, The School of Business, Portland State University
Maintainer: David W. Gerbing <gerbing@pdx.edu>

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Package eatDB updated to version 0.5.0 with previous version 0.4.1 dated 2020-07-17

Title: Spreadsheet Interface for Relational Databases
Description: Use 'SQLite3' as a database system via a complete SQL free R interface, treating the data as if it was a single spreadsheet.
Author: Benjamin Becker [aut, cre]
Maintainer: Benjamin Becker <b.becker@iqb.hu-berlin.de>

Diff between eatDB versions 0.4.1 dated 2020-07-17 and 0.5.0 dated 2021-10-05

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Package bayesDccGarch updated to version 3.0.3 with previous version 2.2 dated 2021-04-07

Title: Methods and Tools for Bayesian Dynamic Conditional Correlation GARCH(1,1) Model
Description: Bayesian estimation of dynamic conditional correlation GARCH model for multivariate time series volatility (Fioruci, J.A., Ehlers, R.S. and Andrade-Filho, M.G., (2014). <doi:10.1080/02664763.2013.839635>.
Author: Jose Augusto Fiorucci [aut, cre, cph] (<https://orcid.org/0000-0002-1201-9089>), Ricardo Sanders Ehlers [aut, cph] (<https://orcid.org/0000-0001-9034-5173>), Francisco Louzada [aut, cph] (<https://orcid.org/0000-0001-7815-9554>)
Maintainer: Jose Augusto Fiorucci <jafiorucci@gmail.com>

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Package astrochron updated to version 1.1 with previous version 1.0 dated 2021-02-11

Title: A Computational Tool for Astrochronology
Description: Routines for astrochronologic testing, astronomical time scale construction, and time series analysis <doi:10.1016/j.earscirev.2018.11.015>. Also included are a range of statistical analysis and modeling routines that are relevant to time scale development and paleoclimate analysis.
Author: Stephen Meyers [aut,cre], Alberto Malinverno [ctb], Linda Hinnov [ctb], Christian Zeeden [ctb], Huaran Liu [ctb], Vincent Moron [ctb]
Maintainer: Stephen Meyers <smeyers@geology.wisc.edu>

Diff between astrochron versions 1.0 dated 2021-02-11 and 1.1 dated 2021-10-05

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Package DatastreamDSWS2R updated to version 1.8.2 with previous version 1.7.9 dated 2020-11-25

Title: Provides a Link Between the 'Refinitiv Datastream' System and R
Description: Provides a set of functions and a class to connect, extract and upload information from the 'Refinitiv Datastream' database. This package uses the 'DSWS' API and server used by the 'Datastream DFO addin'. Details of this API are available at <https://www.refinitiv.com/en>. Please report issues at <https://github.com/CharlesCara/DatastreamDSWS2R/issues>.
Author: Charles Cara
Maintainer: Charles Cara <charles.cara@absolute-strategy.com>

Diff between DatastreamDSWS2R versions 1.7.9 dated 2020-11-25 and 1.8.2 dated 2021-10-05

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Package AnalyzeFMRI updated to version 1.1-24 with previous version 1.1-23 dated 2020-12-15

Title: Functions for Analysis of fMRI Datasets Stored in the ANALYZE or NIFTI Format
Description: Functions for I/O, visualisation and analysis of functional Magnetic Resonance Imaging (fMRI) datasets stored in the ANALYZE or NIFTI format. Note that the latest version of XQuartz seems to be necessary under MacOS.
Author: Pierre Lafaye De Micheaux [aut, cre], Jonathan L Marchini [aut], Cleve Moler [cph] (LAPACK/BLAS routines in src), Jack Dongarra [cph] (LAPACK/BLAS routines in src), Richard Hanson [cph] (LAPACK/BLAS routines in src), Sven Hammarling [cph] (LAPACK/BLAS routines in src), Jeremy Du Croz [cph] (LAPACK/BLAS routines in src)
Maintainer: Pierre Lafaye De Micheaux <lafaye@unsw.edu.au>

Diff between AnalyzeFMRI versions 1.1-23 dated 2020-12-15 and 1.1-24 dated 2021-10-05

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New package ttcg with initial version 1.0.1
Package: ttcg
Title: Three-Term Conjugate Gradient for Unconstrained Optimization
Version: 1.0.1
Date: 2021-10-04
Maintainer: Hao Chi Kiang <hello@hckiang.com>
Description: Some accelerated three-term conjugate gradient algorithms implemented purely in R with the same user interface as optim(). The search directions and acceleration scheme are described in Andrei, N. (2013) <doi:10.1016/j.amc.2012.11.097>, Andrei, N. (2013) <doi:10.1016/j.cam.2012.10.002>, and Andrei, N (2015) <doi:10.1007/s11075-014-9845-9>. Line search is done by a hybrid algorithm incorporating the ideas in Oliveia and Takahashi (2020) <doi:10.1145/3423597> and More and Thuente (1994) <doi:10.1145/192115.192132>.
License: GPL-3
Encoding: UTF-8
URL: https://git.sr.ht/~hckiang/ttcg
Depends: R (>= 3.3.0)
Imports: numDeriv
Suggests: testthat
NeedsCompilation: no
Packaged: 2021-10-04 21:13:58 UTC; hckiang
Author: Hao Chi Kiang [cre, aut]
Repository: CRAN
Date/Publication: 2021-10-05 12:30:02 UTC

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Package sfcr updated to version 0.2.0 with previous version 0.1.1 dated 2021-01-08

Title: Simulate Stock-Flow Consistent Models
Description: Routines to write, simulate, and validate stock-flow consistent (SFC) models. The accounting structure of SFC models are described in Godley and Lavoie (2007, ISBN:978-1-137-08599-3). The algorithms implemented to solve the models (Gauss-Seidel and Broyden) are described in Kinsella and O'Shea (2010) <doi:10.2139/ssrn.1729205> and Peressini and Sullivan (1988, ISBN:0-387-96614-5).
Author: Joao Macalos [aut, cre] (<https://orcid.org/0000-0001-6050-6394>)
Maintainer: Joao Macalos <joaomacalos@gmail.com>

Diff between sfcr versions 0.1.1 dated 2021-01-08 and 0.2.0 dated 2021-10-05

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New package multIntTestFunc with initial version 0.1.1
Package: multIntTestFunc
Title: Provides Test Functions for Multivariate Integration
Version: 0.1.1
Author: Klaus Herrmann [aut, cre]
Maintainer: Klaus Herrmann <klaus.herrmann@usherbrooke.ca>
Description: Provides implementations of functions that can be used to test multivariate integration routines. The package covers five different integration domains (unit hypercube, unit ball, unit sphere, standard simplex and R^n). For each domain several functions with different properties (smooth, non-differentiable, ...) are available. The functions are available in all dimensions n >= 1. For each function the exact value of the integral is known and implemented to allow testing the accuracy of multivariate integration routines. Details on the available test functions can be found at on the development website.
URL: https://github.com/KlausHerrmann/multIntTestFunc
Imports: gsl, pracma, methods
License: MIT + file LICENSE
Encoding: UTF-8
Suggests: knitr, rmarkdown, testthat
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-10-05 04:25:33 UTC; herk1401
Repository: CRAN
Date/Publication: 2021-10-05 12:30:05 UTC

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Package mitml updated to version 0.4-3 with previous version 0.4-2 dated 2021-09-10

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

Diff between mitml versions 0.4-2 dated 2021-09-10 and 0.4-3 dated 2021-10-05

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New package easylabel with initial version 0.1.0
Package: easylabel
Title: Interactive Scatter Plot and Volcano Plot Labels
Version: 0.1.0
Maintainer: Myles Lewis <myles.lewis@qmul.ac.uk>
Description: Interactive labelling of scatter plots and volcano plots using a 'shiny' and 'plotly' interface. Users can hover over points to see where specific points are located and click points on/off to easily label them. Labels can be dragged around the plot to place them optimally. Plots can be exported directly to pdf for publication.
Language: en-gb
License: MIT + file LICENSE
Encoding: UTF-8
biocViews:
Suggests: AnnotationDbi, knitr, org.Hs.eg.db, qvalue, rmarkdown
Imports: plotly, shiny, RColorBrewer, DT
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-10-04 21:33:38 UTC; myles
Author: Myles Lewis [aut, cre] (<https://orcid.org/0000-0001-9365-5345>), Katriona Goldmann [aut] (<https://orcid.org/0000-0002-9073-6323>), Cankut Cubuk [ctb] (<https://orcid.org/0000-0003-4646-0849>)
Repository: CRAN
Date/Publication: 2021-10-05 12:30:12 UTC

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Package dendRoAnalyst updated to version 0.1.2 with previous version 0.1.1 dated 2020-07-03

Title: A Tool for Processing and Analyzing Dendrometer Data
Description: There are various functions for managing and cleaning data before the application of different approaches. This includes identifying and erasing sudden jumps in dendrometer data not related to environmental change, identifying the time gaps of recordings, and changing the temporal resolution of data to different frequencies. Furthermore, the package calculates daily statistics of dendrometer data, including the daily amplitude of tree growth. Various approaches can be applied to separate radial growth from daily cyclic shrinkage and expansion due to uptake and loss of stem water. In addition, it identifies periods of consecutive days with user-defined climatic conditions in daily meteorological data, then check what trees are doing during that period.
Author: Sugam Aryal [aut, cre, dtc], Martin Häusser [aut], Jussi Grießinger [aut], Ze-Xin Fan [aut], Achim Bräuning [aut, dgs]
Maintainer: Sugam Aryal <sugam.aryal@fau.de>

Diff between dendRoAnalyst versions 0.1.1 dated 2020-07-03 and 0.1.2 dated 2021-10-05

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Package RandomFieldsUtils updated to version 0.5.5 with previous version 0.5.4 dated 2021-09-22

Title: Utilities for the Simulation and Analysis of Random Fields
Description: Various utilities are provided that might be used in spatial statistics and elsewhere. It delivers a method for solving linear equations that checks the sparsity of the matrix before any algorithm is used. Furthermore, it includes the Struve functions.
Author: Martin Schlather [aut, cre], Reinhard Furrer [ctb], Martin Kroll [ctb], Brian D. Ripley [ctb]
Maintainer: Martin Schlather <schlather@math.uni-mannheim.de>

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Package landsepi updated to version 1.1.1 with previous version 1.1.0 dated 2021-07-26

Title: Landscape Epidemiology and Evolution
Description: A stochastic, spatially-explicit, demo-genetic model simulating the spread and evolution of a plant pathogen in a heterogeneous landscape to assess resistance deployment strategies. It is based on a spatial geometry for describing the landscape and allocation of different cultivars, a dispersal kernel for the dissemination of the pathogen, and a SEIR ('Susceptible-Exposed-Infectious-Removed’) structure with a discrete time step. It provides a useful tool to assess the performance of a wide range of deployment options with respect to their epidemiological, evolutionary and economic outcomes. Loup Rimbaud, Julien Papaïx, Jean-François Rey, Luke G Barrett, Peter H Thrall (2018) <doi:10.1371/journal.pcbi.1006067>.
Author: Loup Rimbaud [aut], Julien Papaix [aut], Jean-François Rey [aut, cre] (<https://orcid.org/0000-0003-3281-6701>), Jean-Loup Gaussen [ctb]
Maintainer: Jean-François Rey <jean-francois.rey@inrae.fr>

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Package DUBStepR updated to version 1.2.0 with previous version 1.1.3 dated 2021-06-03

Title: Correlation-Based Feature Selection for Single-Cell RNA Sequencing Data
Description: Determining the optimal set of feature genes to characterise cell types in single-cell RNA sequencing data using stepwise regression on gene-gene correlations. <doi:10.1101/2020.10.07.330563>.
Author: Bobby Ranjan [aut, cre], Kunal Mishra [ctb], Shyam Lab [cph], Bryan Hanson [ctb], Damian Coventry [ctb], Brandon Crosby [ctb], Gregoire Thomas [ctb]
Maintainer: Bobby Ranjan <ranjan_bobby@gis.a-star.edu.sg>

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Package distr6 updated to version 1.6.2 with previous version 1.6.0 dated 2021-09-06

Title: The Complete R6 Probability Distributions Interface
Description: An R6 object oriented distributions package. Unified interface for 42 probability distributions and 11 kernels including functionality for multiple scientific types. Additionally functionality for composite distributions and numerical imputation. Design patterns including wrappers and decorators are described in Gamma et al. (1994, ISBN:0-201-63361-2). For quick reference of probability distributions including d/p/q/r functions and results we refer to McLaughlin, M. P. (2001). Additionally Devroye (1986, ISBN:0-387-96305-7) for sampling the Dirichlet distribution, Gentle (2009) <doi:10.1007/978-0-387-98144-4> for sampling the Multivariate Normal distribution and Michael et al. (1976) <doi:10.2307/2683801> for sampling the Wald distribution.
Author: Raphael Sonabend [aut, cre] (<https://orcid.org/0000-0001-9225-4654>), Franz Kiraly [aut], Peter Ruckdeschel [ctb] (Author of distr), Matthias Kohl [ctb] (Author of distr), Nurul Ain Toha [ctb], Shen Chen [ctb], Jordan Deenichin [ctb], Chengyang Gao [ctb], Chloe Zhaoyuan Gu [ctb], Yunjie He [ctb], Xiaowen Huang [ctb], Shuhan Liu [ctb], Runlong Yu [ctb], Chijing Zeng [ctb], Qian Zhou [ctb]
Maintainer: Raphael Sonabend <raphaelsonabend@gmail.com>

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Package VIGoR updated to version 1.1.0 with previous version 1.0 dated 2015-05-20

Title: Variational Bayesian Inference for Genome-Wide Regression
Description: Conducts linear regression using variational Bayesian inference, particularly optimized for genome-wide association mapping and whole-genome prediction which use a number of DNA markers as the explanatory variables. Provides seven regression models which select the important variables (i.e., the variables related to response variables) among the given explanatory variables in different ways (i.e., model structures).
Author: Akio Onogi
Maintainer: Akio Onogi <onogiakio@gmail.com>

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Package SISIR updated to version 0.1-2 with previous version 0.1-1 dated 2020-06-05

Title: Sparse Interval Sliced Inverse Regression
Description: An interval fusion procedure for functional data in the semiparametric framework of SIR, as described in <doi:10.1007/s11222-018-9806-6>. Standard ridge and sparse SIR are also included in the package.
Author: Victor Picheny [aut], Remi Servien [aut], Nathalie Vialaneix [aut, cre]
Maintainer: Nathalie Vialaneix <nathalie.vialaneix@inrae.fr>

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Package param6 updated to version 0.2.3 with previous version 0.2.2 dated 2021-09-22

Title: A Fast and Lightweight R6 Parameter Interface
Description: By making use of 'set6', alongside the S3 and R6 paradigms, this package provides a fast and lightweight R6 interface for parameters and parameter sets.
Author: Raphael Sonabend [aut, cre] (<https://orcid.org/0000-0001-9225-4654>)
Maintainer: Raphael Sonabend <raphaelsonabend@gmail.com>

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Package ichimoku updated to version 1.2.2 with previous version 1.2.1 dated 2021-09-23

Title: Visualization and Tools for Ichimoku Kinko Hyo Strategies
Description: An implementation of 'Ichimoku Kinko Hyo', also commonly known as 'cloud charts'. Static and interactive visualizations with tools for creating, backtesting and development of quantitative 'ichimoku' strategies. As described in Sasaki (1996, ISBN:4925152009), the technique is a refinement on candlestick charting, originating from Japan and now in widespread use in technical analysis worldwide. Translating as 'one-glance equilibrium chart', it allows the price action and market structure of financial securities to be determined 'at-a-glance'. Incorporates an interface with the OANDA fxTrade API <https://developer.oanda.com/> for retrieving historical and live streaming price data for major currencies, metals, commodities, government bonds and stock indices.
Author: Charlie Gao [aut, cre] (<https://orcid.org/0000-0002-0750-061X>)
Maintainer: Charlie Gao <charlie.gao@shikokuchuo.net>

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Package FateID updated to version 0.2.1 with previous version 0.2.0 dated 2021-04-07

Title: Quantification of Fate Bias in Multipotent Progenitors
Description: Application of 'FateID' allows computation and visualization of cell fate bias for multi-lineage single cell transcriptome data. Herman, J.S., Sagar, Grün D. (2018) <DOI:10.1038/nmeth.4662>.
Author: Dominic Grün <dominic.gruen@gmail.com>
Maintainer: Dominic Grün <dominic.gruen@gmail.com>

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Package bigmds updated to version 2.0.1 with previous version 2.0.0 dated 2021-10-02

Title: Multidimensional Scaling for Big Data
Description: MDS is a statistic tool for reduction of dimensionality, using as input a distance matrix of dimensions n × n. When n is large, classical algorithms suffer from computational problems and MDS configuration can not be obtained. With this package, we address these problems by means of three algorithms: - Divide-and-conquer MDS proposed by Delicado P. and C. Pachón-García (2021) <arXiv:2007.11919>. - Interpolation MDS, also proposed by Delicado P. and C. Pachón-García (2021) <arXiv:2007.11919>, which uses Gower's interpolation formula as described in Gower, J. C. and D. J. Hand (1995). - Fast MDS, which is an implementation of the algorithm proposed by Yang, T., J. Liu, L. McMillan, and W. Wang (2006). The main idea of these algorithms is based on partitioning the data set into small pieces, where classical methods can work. In order to align all the solutions, Procrustes formula is used as described in Borg, I. and P. Groenen (2005).
Author: Cristian Pachón García [aut, cre] (<https://orcid.org/0000-0001-9518-4874>), Pedro Delicado [aut] (<https://orcid.org/0000-0003-3933-4852>)
Maintainer: Cristian Pachón García <cc.pachon@gmail.com>

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Package BGData updated to version 2.3.0 with previous version 2.2.0 dated 2020-08-02

Title: A Suite of Packages for Analysis of Big Genomic Data
Description: An umbrella package providing a phenotype/genotype data structure and scalable and efficient computational methods for large genomic datasets in combination with several other packages: 'BEDMatrix', 'LinkedMatrix', and 'symDMatrix'.
Author: Gustavo de los Campos [aut], Alexander Grueneberg [aut, cre], Paulino Perez [ctb], Ana Vazquez [ctb]
Maintainer: Alexander Grueneberg <cran@agrueneberg.info>

Diff between BGData versions 2.2.0 dated 2020-08-02 and 2.3.0 dated 2021-10-05

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Package ARTofR updated to version 0.2.3 with previous version 0.2.2 dated 2021-10-03

Title: Who Ever Care About the [Art of R] Scripts?
Description: For instructions, check <https://github.com/Hzhang-ouce/ARTofR>. This is a wrapper of 'bannerCommenter', for generating neat comments!
Author: Huanyuan Zhang [aut, cre] (<https://orcid.org/0000-0003-4801-8771>)
Maintainer: Huanyuan Zhang <hyzhang1996@gmail.com>

Diff between ARTofR versions 0.2.2 dated 2021-10-03 and 0.2.3 dated 2021-10-05

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Package WeightedCluster updated to version 1.6-0 with previous version 1.4-1 dated 2020-07-06

Title: Clustering of Weighted Data
Description: Clusters state sequences and weighted data. It provides an optimized weighted PAM algorithm as well as functions for aggregating replicated cases, computing cluster quality measures for a range of clustering solutions and plotting (fuzzy) clusters of state sequences. Parametric bootstraps methods to validate typology of sequences are also provided.
Author: Matthias Studer [aut, cre]
Maintainer: Matthias Studer <matthias.studer@unige.ch>

Diff between WeightedCluster versions 1.4-1 dated 2020-07-06 and 1.6-0 dated 2021-10-05

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New package validata with initial version 0.1.0
Package: validata
Title: Validate Data Frames
Version: 0.1.0
Maintainer: Harrison Tietze <Harrison4192@gmail.com>
Description: Functions for validating the structure and properties of data frames. Answers essential questions about a data set after initial import or modification. What are the unique or missing values? What columns form a primary key? What are the properties of the numeric or categorical columns? What kind of overlap or mapping exists between 2 columns?
License: MIT + file LICENSE
URL: https://harrison4192.github.io/validata/, https://github.com/Harrison4192/validata
BugReports: https://github.com/Harrison4192/validata/issues
Encoding: UTF-8
LazyData: true
Imports: dplyr, stringr, janitor, rlang, tidyselect, purrr, magrittr, tidyr, tibble, gtools, listviewer, data.table, scales, utils, BBmisc, framecleaner, badger, rlist
Suggests: knitr, rmarkdown, testit, webshot
VignetteBuilder: knitr
Depends: R (>= 2.10)
NeedsCompilation: no
Packaged: 2021-10-04 20:26:19 UTC; Harrison
Author: Harrison Tietze [aut, cre]
Repository: CRAN
Date/Publication: 2021-10-05 08:20:02 UTC

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Package TriDimRegression updated to version 1.0.1 with previous version 1.0.0.0 dated 2021-05-04

Title: Bayesian Statistics for 2D/3D Transformations
Description: Fits 2D and 3D geometric transformations via 'Stan' probabilistic programming engine ( Stan Development Team (2021) <https://mc-stan.org>). Returns posterior distribution for individual parameters of the fitted distribution. Allows for computation of LOO and WAIC information criteria (Vehtari A, Gelman A, Gabry J (2017) <doi:10.1007/s11222-016-9696-4>) as well as Bayesian R-squared (Gelman A, Goodrich B, Gabry J, and Vehtari A (2018) <doi:10.1080/00031305.2018.1549100>).
Author: Alexander (Sasha) Pastukhov [cre, ctb], Claus-Christian Carbon [aut]
Maintainer: Alexander (Sasha) Pastukhov <pastukhov.alexander@gmail.com>

Diff between TriDimRegression versions 1.0.0.0 dated 2021-05-04 and 1.0.1 dated 2021-10-05

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New package tabularMLC with initial version 0.0.3
Package: tabularMLC
Title: Tabular Maximum Likelihood Classifier
Version: 0.0.3
Description: The maximum likelihood classifier (MLC) is one of the most common classifiers used for remote sensing imagery. This package uses 'RcppArmadillo' to provide a fast implementation of the MLC to train and predict over tabular data (data.frame). The algorithms were based on Mather (1985) <doi:10.1080/01431168508948456> method.
License: GPL-3
Depends: Rcpp, methods
Imports: stats
LinkingTo: Rcpp, RcppArmadillo
Encoding: UTF-8
URL: https://github.com/caiohamamura/tabularMLC
BugReports: https://github.com/caiohamamura/tabularMLC/issues
Author: Caio Hamamura [aut, cre] (<https://orcid.org/0000-0001-6149-5885>)
Maintainer: Caio Hamamura <caiohamamura@gmail.com>
Repository: CRAN
Repository/R-Forge/Project: tabularmlc
Repository/R-Forge/Revision: 5
Repository/R-Forge/DateTimeStamp: 2021-10-04 20:39:29
Date/Publication: 2021-10-05 08:30:02 UTC
NeedsCompilation: yes
Packaged: 2021-10-04 20:48:40 UTC; rforge

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Package spfilteR updated to version 1.1.1 with previous version 1.1.0 dated 2021-05-12

Title: Semiparametric Spatial Filtering with Eigenvectors in (Generalized) Linear Models
Description: Tools to decompose (transformed) spatial connectivity matrices and perform supervised or unsupervised semiparametric spatial filtering in a regression framework. The package supports unsupervised spatial filtering in standard linear as well as some generalized linear regression models.
Author: Sebastian Juhl [aut, cre] (<https://orcid.org/0000-0002-7123-5398>)
Maintainer: Sebastian Juhl <sebastian.juhl@t-online.de>

Diff between spfilteR versions 1.1.0 dated 2021-05-12 and 1.1.1 dated 2021-10-05

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Package spatialfusion updated to version 0.6-4 with previous version 0.6-3 dated 2021-06-27

Title: Multivariate Analysis of Spatial Data Using a Unifying Spatial Fusion Framework
Description: Multivariate modelling of geostatistical (point), lattice (areal) and point pattern data in a unifying spatial fusion framework. Details are given in Wang and Furrer (2021) <doi:10.1016/j.csda.2021.107240>. Model inference is done using either 'Stan' <https://mc-stan.org/> or 'INLA' <https://www.r-inla.org/>.
Author: Craig Wang [aut, cre] (<https://orcid.org/0000-0003-1804-2463>), Reinhard Furrer [ctb] (<https://orcid.org/0000-0002-6319-2332>)
Maintainer: Craig Wang <craig.wang@math.uzh.ch>

Diff between spatialfusion versions 0.6-3 dated 2021-06-27 and 0.6-4 dated 2021-10-05

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New package RCCPCA with initial version 0.1.0
Package: RCCPCA
Title: "Retained Component Criterion for Principal Component Analysis"
Version: 0.1.0
Date: 2021-10-01
Author: Fayed Alshammri
Maintainer: Dr. Fayed Alshammri <fayed333@hotmail.com>
Description: The RCC_PCA criterion is a tool to determine the optimal number of components to retain in PCA;See Alshammri (2021).
License: GPL-2
Depends: stats, graphics
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2021-10-04 16:00:01 UTC; User
Repository: CRAN
Date/Publication: 2021-10-05 08:10:10 UTC

More information about RCCPCA at CRAN
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New package predtools with initial version 0.0.2
Package: predtools
Title: Prediction Model Tools
Version: 0.0.2
Description: Provides additional functions for evaluating predictive models, including plotting calibration curves and model-based Receiver Operating Characteristic (mROC) based on Sadatsafavi et al (2021) <arXiv:2003.00316>.
License: GPL
Encoding: UTF-8
LazyData: true
URL: https://github.com/resplab/predtools
BugReports: https://github.com/resplab/predtools/issues
Depends: R (>= 3.6)
Imports: Rcpp, pROC, stats, graphics, RConics, ggplot2, dplyr, magrittr
LinkingTo: Rcpp
Suggests: rmarkdown, knitr
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2021-10-04 17:46:10 UTC; amin
Author: Mohsen Sadatsafavi [aut, cph] (<https://orcid.org/0000-0002-0419-7862>), Amin Adibi [cre] (<https://orcid.org/0000-0003-2748-4781>), Abdollah Safari [aut]
Maintainer: Amin Adibi <adibi@alumni.ubc.ca>
Repository: CRAN
Date/Publication: 2021-10-05 08:10:05 UTC

More information about predtools at CRAN
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Package plm updated to version 2.4-3 with previous version 2.4-2 dated 2021-09-21

Title: Linear Models for Panel Data
Description: A set of estimators and tests for panel data econometrics, as described in Baltagi (2021), Econometric Analysis of Panel Data, ISBN-13:978-3-030-53952-8, Hsiao (2014), Analysis of Panel Data <doi:10.1017/CBO9781139839327>, and Croissant and Millo (2018), Panel Data Econometrics with R, ISBN-13:978-1-118-94918-4.
Author: Yves Croissant [aut, cre], Giovanni Millo [aut], Kevin Tappe [aut], Ott Toomet [ctb], Christian Kleiber [ctb], Achim Zeileis [ctb], Arne Henningsen [ctb], Liviu Andronic [ctb], Nina Schoenfelder [ctb]
Maintainer: Yves Croissant <yves.croissant@univ-reunion.fr>

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New package OmicInt with initial version 1.1.5
Package: OmicInt
Title: Omics Network Exploration
Version: 1.1.5
Author: Auste Kanapeckaite
Maintainer: Auste Kanapeckaite <auste.kan@algorithm379.com>
Description: Omics integration and detailed gene network exploration to identify expression patterns, prepare for pathway building, and find disease candidate genes; the package compliments research "Insights into therapeutic targets and biomarkers using integrated multi-'omics' approaches for dilated and ischemic cardiomyopathies"; Auste Kanapeckaite and Neringa Burokiene; 2021, <doi:10.1093/intbio/zyab007>.
License: GPL (>= 3)
Encoding: UTF-8
VignetteBuilder: knitr
Suggests: viridis, utils, stats, graphics
Imports: cluster, stringr,RCurl, ggplot2, mclust,gtools,methods ,tidyr, dplyr, tidyselect,pheatmap,reshape2,plotly,knitr,rmarkdown,lattice, RColorBrewer, igraph, ggExtra, dendextend,STRINGdb
NeedsCompilation: no
Packaged: 2021-10-04 18:58:13 UTC; auste
Repository: CRAN
Date/Publication: 2021-10-05 08:20:06 UTC

More information about OmicInt at CRAN
Permanent link

Package manipulateWidget updated to version 0.11.1 with previous version 0.11.0 dated 2021-05-31

Title: Add Even More Interactivity to Interactive Charts
Description: Like package 'manipulate' does for static graphics, this package helps to easily add controls like sliders, pickers, checkboxes, etc. that can be used to modify the input data or the parameters of an interactive chart created with package 'htmlwidgets'.
Author: Veronique Bachelier [aut, cre], Jalal-Edine ZAWAM [aut], Francois Guillem [aut], RTE [cph], JJ Allaire [ctb], Marion Praz [ctb] (New user interface), Benoit Thieurmel [ctb], Titouan Robert [ctb], Duncan Murdoch [ctb]
Maintainer: Veronique Bachelier <veronique.bachelier@rte-france.com>

Diff between manipulateWidget versions 0.11.0 dated 2021-05-31 and 0.11.1 dated 2021-10-05

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Permanent link

Package madrat updated to version 2.3.1 with previous version 1.64.5 dated 2019-12-17

Title: May All Data be Reproducible and Transparent (MADRaT) *
Description: Provides a framework which should improve reproducibility and transparency in data processing. It provides functionality such as automatic meta data creation and management, rudimentary quality management, data caching, work-flow management and data aggregation. * The title is a wish not a promise. By no means we expect this package to deliver everything what is needed to achieve full reproducibility and transparency, but we believe that it supports efforts in this direction.
Author: Jan Philipp Dietrich [aut, cre], Lavinia Baumstark [aut], Stephen Wirth [aut], Anastasis Giannousakis [aut], Renato Rodrigues [aut], Benjamin Leon Bodirsky [aut], Ulrich Kreidenweis [aut], David Klein [aut], Pascal Führlich [aut]
Maintainer: Jan Philipp Dietrich <dietrich@pik-potsdam.de>

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New package LMMstar with initial version 0.3.2
Package: LMMstar
Title: Repeated Measurement Models for Discrete Times
Version: 0.3.2
Date: 2021-10-04
Description: Companion R package for the course "Statistical analysis of correlated and repeated measurements for health science researchers" taught by the section of Biostatistics of the University of Copenhagen. It provides functions for computing summary statistics and obtaining graphical displays of longitudinal data, as well as for statistical modeling and statistical inference using linear mixed model.
License: GPL-3
Encoding: UTF-8
URL: https://github.com/bozenne/LMMstar
BugReports: https://github.com/bozenne/LMMstar/issues
Depends: R (>= 3.5.0), ggplot2, nlme
Imports: emmeans, lava, Matrix, multcomp, numDeriv, reshape2, sandwich
Suggests: AICcmodavg, data.table, nlmeU, optimx, Publish, qqtest, R.rsp, testthat
VignetteBuilder: R.rsp
NeedsCompilation: no
Packaged: 2021-10-04 21:05:26 UTC; bozenne
Author: Brice Ozenne [aut, cre] (<https://orcid.org/0000-0001-9694-2956>), Julie Forman [aut] (<https://orcid.org/0000-0001-7368-0869>)
Maintainer: Brice Ozenne <brice.mh.ozenne@gmail.com>
Repository: CRAN
Date/Publication: 2021-10-05 08:30:12 UTC

More information about LMMstar at CRAN
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Package geostatsp updated to version 1.8.6 with previous version 1.8.5 dated 2021-03-18

Title: Geostatistical Modelling with Likelihood and Bayes
Description: Geostatistical modelling facilities using 'Raster' and 'SpatialPoints' objects are provided. Non-Gaussian models are fit using 'INLA', and Gaussian geostatistical models use Maximum Likelihood Estimation. For details see Brown (2015) <doi:10.18637/jss.v063.i12>.
Author: Patrick Brown <patrick.brown@utoronto.ca>[aut, cre], Robert Hijmans [ctb]
Maintainer: Patrick Brown <patrick.brown@utoronto.ca>

Diff between geostatsp versions 1.8.5 dated 2021-03-18 and 1.8.6 dated 2021-10-05

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More information about geostatsp at CRAN
Permanent link

New package ECOTOXr with initial version 0.1.1
Package: ECOTOXr
Title: Download and Extract Data from US EPA's ECOTOX Database
Version: 0.1.1
Date: 2021-10-04
Author: Pepijn de Vries [aut, cre, dtc]
Maintainer: Pepijn de Vries <pepijn.devries@outlook.com>
Description: The US EPA ECOTOX database is a freely available database with a treasure of aquatic and terrestrial ecotoxicological data. As the online search interface doesn't come with an API, this package provides the means to easily access and search the database in R. To this end, all raw tables are downloaded from the EPA website and stored in a local SQLite database.
Depends: R (>= 3.5.0), RSQLite
Imports: crayon, dplyr, rappdirs, readr, rvest, stringr, utils
Suggests: testthat (>= 3.0.0), webchem
URL: <https://github.com/pepijn-devries/ECOTOXr>
BugReports: https://github.com/pepijn-devries/ECOTOXr/issues
License: GPL (>= 3)
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2021-10-04 11:59:00 UTC; vries171
Repository: CRAN
Date/Publication: 2021-10-05 08:10:12 UTC

More information about ECOTOXr at CRAN
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Package coRanking updated to version 0.2.2 with previous version 0.2.1 dated 2020-02-12

Title: Co-Ranking Matrix
Description: Calculates the co-ranking matrix to assess the quality of a dimensionality reduction.
Author: Guido Kraemer
Maintainer: Guido Kraemer <guido.kraemer@uni-leipzig.de>

Diff between coRanking versions 0.2.1 dated 2020-02-12 and 0.2.2 dated 2021-10-05

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More information about coRanking at CRAN
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Package ADAPTS updated to version 1.0.21 with previous version 1.0.6 dated 2020-10-17

Title: Automated Deconvolution Augmentation of Profiles for Tissue Specific Cells
Description: Tools to construct (or add to) cell-type signature matrices using flow sorted or single cell samples and deconvolve bulk gene expression data. Useful for assessing the quality of single cell RNAseq experiments, estimating the accuracy of signature matrices, and determining cell-type spillover. Please cite: Danziger SA et al. (2019) ADAPTS: Automated Deconvolution Augmentation of Profiles for Tissue Specific cells <doi:10.1371/journal.pone.0224693>.
Author: Samuel A Danziger
Maintainer: Samuel A Danziger <sam.danziger@gmail.com>

Diff between ADAPTS versions 1.0.6 dated 2020-10-17 and 1.0.21 dated 2021-10-05

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Package actuar updated to version 3.2-0 with previous version 3.1-4 dated 2021-05-31

Title: Actuarial Functions and Heavy Tailed Distributions
Description: Functions and data sets for actuarial science: modeling of loss distributions; risk theory and ruin theory; simulation of compound models, discrete mixtures and compound hierarchical models; credibility theory. Support for many additional probability distributions to model insurance loss size and frequency: 23 continuous heavy tailed distributions; the Poisson-inverse Gaussian discrete distribution; zero-truncated and zero-modified extensions of the standard discrete distributions. Support for phase-type distributions commonly used to compute ruin probabilities.
Author: Vincent Goulet [cre, aut], Sébastien Auclair [ctb], Christophe Dutang [aut], Walter Garcia-Fontes [ctb], Nicholas Langevin [ctb], Xavier Milhaud [ctb], Tommy Ouellet [ctb], Alexandre Parent [ctb], Mathieu Pigeon [aut], Louis-Philippe Pouliot [ctb], Jeffrey A. Ryan [aut] (Package API), Robert Gentleman [aut] (Parts of the R to C interface), Ross Ihaka [aut] (Parts of the R to C interface), R Core Team [aut] (Parts of the R to C interface), R Foundation [aut] (Parts of the R to C interface)
Maintainer: Vincent Goulet <vincent.goulet@act.ulaval.ca>

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Package wikilake updated to version 0.6.0 with previous version 0.5.0 dated 2021-02-09

Title: Scrape Lake Metadata Tables from Wikipedia
Description: Scrape lake metadata tables from Wikipedia <https://www.wikipedia.org/>.
Author: Jemma Stachelek [aut, cre] (<https://orcid.org/0000-0002-5924-2464>)
Maintainer: Jemma Stachelek <stachel2@msu.edu>

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Package terra updated to version 1.4-7 with previous version 1.3-22 dated 2021-08-20

Title: Spatial Data Analysis
Description: Methods for spatial data analysis with raster and vector data. Raster methods allow for low-level data manipulation as well as high-level global, local, zonal, and focal computation. The predict and interpolate methods facilitate the use of regression type (interpolation, machine learning) models for spatial prediction, including with satellite remote sensing data. Processing of very large files is supported. See the manual and tutorials on <https://rspatial.org/terra/> to get started. 'terra' is very similar to the 'raster' package; but 'terra' can do more, is easier to use, and it is faster.
Author: Robert J. Hijmans [cre, aut] (<https://orcid.org/0000-0001-5872-2872>), Roger Bivand [ctb] (<https://orcid.org/0000-0003-2392-6140>), Karl Forner [ctb], Jeroen Ooms [ctb] (<https://orcid.org/0000-0002-4035-0289>), Edzer Pebesma [ctb] (<https://orcid.org/0000-0001-8049-7069>)
Maintainer: Robert J. Hijmans <r.hijmans@gmail.com>

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Package sem updated to version 3.1-13 with previous version 3.1-11 dated 2020-05-19

Title: Structural Equation Models
Description: Functions for fitting general linear structural equation models (with observed and latent variables) using the RAM approach, and for fitting structural equations in observed-variable models by two-stage least squares.
Author: John Fox [aut, cre], Zhenghua Nie [aut], Jarrett Byrnes [aut], Michael Culbertson [ctb], Saikat DebRoy [ctb], Michael Friendly [ctb], Benjamin Goodrich [ctb], Richard H. Jones [ctb], Adam Kramer [ctb], Georges Monette [ctb], Frederick Novomestky [ctb], R-Core [ctb]
Maintainer: John Fox <jfox@mcmaster.ca>

Diff between sem versions 3.1-11 dated 2020-05-19 and 3.1-13 dated 2021-10-05

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New package rnpn with initial version 1.2.2
Package: rnpn
Title: Interface to the National 'Phenology' Network 'API'
Description: Programmatic interface to the Web Service methods provided by the National 'Phenology' Network (<https://usanpn.org/>), which includes data on various life history events that occur at specific times.
Version: 1.2.2
License: MIT + file LICENSE
Depends: R (>= 3.5.0)
Imports: httr (>= 1.1.0), jsonlite (>= 0.9.19), data.table (>= 1.9.6), sp (>= 1.1-0), tibble, curl, raster, rgdal, plyr, XML, magrittr
Suggests: ggplot2, testthat, covr, knitr, markdown, rmarkdown, RColorBrewer, vcr
VignetteBuilder: knitr
URL: https://docs.ropensci.org/rnpn/ (website) https://github.com/ropensci/rnpn/ (devel)
NeedsCompilation: no
Packaged: 2021-10-04 20:47:14 UTC; usanpn
Author: Alyssa Rosemartin [aut, cre], Scott Chamberlain [aut], Lee Marsh [aut], Kevin Wong [aut]
Maintainer: Alyssa Rosemartin <alyssa@usanpn.org>
Repository: CRAN
Date/Publication: 2021-10-05 07:20:10 UTC

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New package rLiDAR with initial version 0.1.5
Package: rLiDAR
Title: LiDAR Data Processing and Visualization
Version: 0.1.5
Depends: R (>= 3.3.2)
Imports: bitops, deldir, geometry, methods, plyr, raster, rgeos, rgl, sp, spatstat.geom
Description: Set of tools for reading, processing and visualizing small set of LiDAR (Light Detection and Ranging) data for forest inventory applications. More details were published in Silva et al. (2016) <doi:10.1080/07038992.2016.1196582>.
License: GPL (>= 2)
Repository: CRAN
Repository/R-Forge/Project: rlidar
NeedsCompilation: no
Packaged: 2021-10-04 19:48:06 UTC; rforge
URL: https://github.com/carlos-alberto-silva/rLiDAR
Author: Carlos Alberto Silva [aut, cph, cre], Nicholas L. Crookston [aut, ctb], Andrew T. Hudak [aut, ctb], Lee A. Vierling [aut, ctb], Carine Klauberg [aut, ctb], Adrian Cardil [aut, ctb], Caio Hamamura [aut, ctb] (Maintenance and review)
Maintainer: Carlos Alberto Silva <carlos_engflorestal@outlook.com>
Repository/R-Forge/Revision: 129
Repository/R-Forge/DateTimeStamp: 2021-10-04 19:27:16
Date/Publication: 2021-10-05 07:30:02 UTC

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Package mssm updated to version 0.1.5 with previous version 0.1.4 dated 2020-12-15

Title: Multivariate State Space Models
Description: Provides methods to perform parameter estimation and make analysis of multivariate observed outcomes through time which depends on a latent state variable. All methods scale well in the dimension of the observed outcomes at each time point. The package contains an implementation of a Laplace approximation, particle filters like suggested by Lin, Zhang, Cheng, & Chen (2005) <doi:10.1198/016214505000000349>, and the gradient and observed information matrix approximation suggested by Poyiadjis, Doucet, & Singh (2011) <doi:10.1093/biomet/asq062>.
Author: Benjamin Christoffersen [cre, aut] (<https://orcid.org/0000-0002-7182-1346>), Anthony Williams [cph]
Maintainer: Benjamin Christoffersen <boennecd@gmail.com>

Diff between mssm versions 0.1.4 dated 2020-12-15 and 0.1.5 dated 2021-10-05

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Package mgcViz updated to version 0.1.9 with previous version 0.1.8 dated 2021-08-21

Title: Visualisations for Generalized Additive Models
Description: Extension of the 'mgcv' package, providing visual tools for Generalized Additive Models that exploit the additive structure of such models, scale to large data sets and can be used in conjunction with a wide range of response distributions. The focus is providing visual methods for better understanding the model output and for aiding model checking and development beyond simple exponential family regression. The graphical framework is based on the layering system provided by 'ggplot2'.
Author: Matteo Fasiolo [aut, cre], Raphael Nedellec [aut], Yannig Goude [ctb], Christian Capezza [ctb], Simon N. Wood [ctb]
Maintainer: Matteo Fasiolo <matteo.fasiolo@gmail.com>

Diff between mgcViz versions 0.1.8 dated 2021-08-21 and 0.1.9 dated 2021-10-05

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Package MazamaLocationUtils updated to version 0.2.0 with previous version 0.1.13 dated 2021-01-28

Title: Manage Spatial Metadata for Known Locations
Description: A suite of utility functions for discovering and managing metadata associated with spatially unique "known locations".
Author: Jonathan Callahan [aut, cre], Eli Grosman [aut]
Maintainer: Jonathan Callahan <jonathan.s.callahan@gmail.com>

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Permanent link

Package ISLR2 updated to version 1.3 with previous version 1.2 dated 2021-09-14

Title: Introduction to Statistical Learning, Second Edition
Description: We provide the collection of data-sets used in the book 'An Introduction to Statistical Learning with Applications in R, Second Edition'. These include many data-sets that we used in the first edition (some with minor changes), and some new datasets.
Author: Gareth James [aut], Daniela Witten [aut], Trevor Hastie [aut, cre], Rob Tibshirani [aut], Balasubramanian Narasimhan [ctb]
Maintainer: Trevor Hastie <hastie@stanford.edu>

Diff between ISLR2 versions 1.2 dated 2021-09-14 and 1.3 dated 2021-10-05

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Permanent link

New package GNRS with initial version 0.3.2
Package: GNRS
Title: Access the 'Geographic Name Resolution Service'
Version: 0.3.2
Description: Provides tools for interacting with the 'geographic name resolution service' ('GNRS') API <https://github.com/ojalaquellueva/gnrs> and associated functionality. The 'GNRS' is a batch application for resolving & standardizing political division names against standard name in the geonames database <http://www.geonames.org/>. The 'GNRS' resolves political division names at three levels: country, state/province and county/parish. Resolution is performed in a series of steps, beginning with direct matching to standard names, followed by direct matching to alternate names in different languages, followed by direct matching to standard codes (such as ISO and FIPS codes). If direct matching fails, the 'GNRS' attempts to match to standard and then alternate names using fuzzy matching, but does not perform fuzzing matching of political division codes. The 'GNRS' works down the political division hierarchy, stopping at the current level if all matches fail. In other words, if a country cannot be matched, the 'GNRS' does not attempt to match state or county.
Depends: R (>= 3.4.0)
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Imports: RCurl, jsonlite, httr
Suggests: knitr, rmarkdown, testthat, devtools
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-10-04 20:17:26 UTC; Brian
Author: Brad Boyle [aut], Brian Maitner [aut, cre]
Maintainer: Brian Maitner <bmaitner@gmail.com>
Repository: CRAN
Date/Publication: 2021-10-05 07:30:12 UTC

More information about GNRS at CRAN
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New package fflr with initial version 1.9.2
Package: fflr
Title: Retrieve ESPN Fantasy Football Data
Version: 1.9.2
Description: Format the raw data from the ESPN fantasy football API <https://fantasy.espn.com/apis/v3/games/ffl/> as data frames. Retrieve data on public leagues, rosters, athletes, and matches.
License: MIT + file LICENSE
Depends: R (>= 2.10)
Imports: httr (>= 1.4.2), jsonlite (>= 1.7.2), tibble (>= 3.1.3)
Suggests: knitr (>= 1.34), rmarkdown (>= 2.11), spelling (>= 2.2), testthat (>= 3.0.0), xml2 (>= 1.3.2)
VignetteBuilder: knitr
Encoding: UTF-8
Language: en-US
LazyData: true
NeedsCompilation: no
Packaged: 2021-10-05 03:31:52 UTC; kiernan
Author: Kiernan Nicholls [aut, cre, cph]
Maintainer: Kiernan Nicholls <kiernann@protonmail.com>
Repository: CRAN
Date/Publication: 2021-10-05 07:30:05 UTC

More information about fflr at CRAN
Permanent link

Package diffobj updated to version 0.3.5 with previous version 0.3.4 dated 2021-03-22

Title: Diffs for R Objects
Description: Generate a colorized diff of two R objects for an intuitive visualization of their differences.
Author: Brodie Gaslam [aut, cre], Michael B. Allen [ctb, cph] (Original C implementation of Myers Diff Algorithm)
Maintainer: Brodie Gaslam <brodie.gaslam@yahoo.com>

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Package deldir updated to version 1.0-2 with previous version 0.2-10 dated 2021-02-16

Title: Delaunay Triangulation and Dirichlet (Voronoi) Tessellation
Description: Calculates the Delaunay triangulation and the Dirichlet or Voronoi tessellation (with respect to the entire plane) of a planar point set. Plots triangulations and tessellations in various ways. Clips tessellations to sub-windows. Calculates perimeters of tessellations. Summarises information about the tiles of the tessellation. Calculates the centroidal Voronoi (Dirichlet) tessellation using Lloyd's algorithm.
Author: Rolf Turner
Maintainer: Rolf Turner <r.turner@auckland.ac.nz>

Diff between deldir versions 0.2-10 dated 2021-02-16 and 1.0-2 dated 2021-10-05

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Permanent link

Package CSTools updated to version 4.0.1 with previous version 4.0.0 dated 2021-02-23

Title: Assessing Skill of Climate Forecasts on Seasonal-to-Decadal Timescales
Description: Exploits dynamical seasonal forecasts in order to provide information relevant to stakeholders at the seasonal timescale. The package contains process-based methods for forecast calibration, bias correction, statistical and stochastic downscaling, optimal forecast combination and multivariate verification, as well as basic and advanced tools to obtain tailored products. This package was developed in the context of the ERA4CS project MEDSCOPE and the H2020 S2S4E project. Doblas-Reyes et al. (2005) <doi:10.1111/j.1600-0870.2005.00104.x>. Mishra et al. (2018) <doi:10.1007/s00382-018-4404-z>. Sanchez-Garcia et al. (2019) <doi:10.5194/asr-16-165-2019>. Straus et al. (2007) <doi:10.1175/JCLI4070.1>. Terzago et al. (2018) <doi:10.5194/nhess-18-2825-2018>. Torralba et al. (2017) <doi:10.1175/JAMC-D-16-0204.1>. D'Onofrio et al. (2014) <doi:10.1175/JHM-D-13-096.1>. Verfaillie et al. (2017) <doi:10.5194/gmd-10-4257-2017>. Van Schaeybroeck et al. (2019) <doi:10.1016/B978-0-12-812372-0.00010-8>. Yiou et al. (2013) <doi:10.1007/s00382-012-1626-3>.
Author: Nuria Perez-Zanon [aut, cre] (<https://orcid.org/0000-0001-8568-3071>), Louis-Philippe Caron [aut] (<https://orcid.org/0000-0001-5221-0147>), Carmen Alvarez-Castro [aut] (<https://orcid.org/0000-0002-9958-010X>), Lauriane Batte [aut], Carlos Delgado [aut], Jost von Hardenberg [aut] (<https://orcid.org/0000-0002-5312-8070>), Llorenç LLedo [aut], Nicolau Manubens [aut], Lluís Palma [aut], Eroteida Sanchez-Garcia [aut], Bert van Schaeybroeck [aut], Veronica Torralba [aut], Deborah Verfaillie [aut], Filippo Cali Quaglia [ctb], Maria M. Chaves-Montero [ctb], Chihchung Chou [ctb], Nicola Cortesi [ctb], Susanna Corti [ctb], Paolo Davini [ctb], Gildas Dayon [ctb], Marta Dominguez [ctb], Federico Fabiano [ctb], Ignazio Giuntoli [ctb], Raul Marcos [ctb], Paola Marson [ctb], Niti Mishra [ctb], Jesus Peña [ctb], Francesc Roura-Adserias [ctb], Silvia Terzago [ctb], Danila Volpi [ctb], BSC-CNS [cph]
Maintainer: Nuria Perez-Zanon <nuria.perez@bsc.es>

Diff between CSTools versions 4.0.0 dated 2021-02-23 and 4.0.1 dated 2021-10-05

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Permanent link

Package bsplus updated to version 0.1.3 with previous version 0.1.2 dated 2020-06-25

Title: Adds Functionality to the R Markdown + Shiny Bootstrap Framework
Description: The Bootstrap framework lets you add some JavaScript functionality to your web site by adding attributes to your HTML tags - Bootstrap takes care of the JavaScript <https://getbootstrap.com/docs/3.3/javascript/>. If you are using R Markdown or Shiny, you can use these functions to create collapsible sections, accordion panels, modals, tooltips, popovers, and an accordion sidebar framework (not described at Bootstrap site). Please note this package was designed for Bootstrap 3.3.
Author: Ian Lyttle [aut, cre, cph] (<https://orcid.org/0000-0001-9962-4849>), Schneider Electric [cph], Alex Shum [ctb], Emily Bosak [ctb]
Maintainer: Ian Lyttle <ian.lyttle@se.com>

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Package eggCounts updated to version 2.3-1 with previous version 2.3 dated 2020-01-19

Title: Hierarchical Modelling of Faecal Egg Counts
Description: An implementation of Bayesian hierarchical models for faecal egg count data to assess anthelmintic efficacy. Bayesian inference is done via MCMC sampling using 'Stan' <https://mc-stan.org/>.
Author: Craig Wang [aut, cre] (<https://orcid.org/0000-0003-1804-2463>), Michaela Paul [aut], Tea Isler [ctb], Reinhard Furrer [ctb] (<https://orcid.org/0000-0002-6319-2332>), Trustees of Columbia University [cph] (src/init.cpp, tools/make_cc.R, R/stanmodels.R)
Maintainer: Craig Wang <craig.wang@math.uzh.ch>

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Package partition updated to version 0.1.4 with previous version 0.1.3 dated 2021-01-07

Title: Agglomerative Partitioning Framework for Dimension Reduction
Description: A fast and flexible framework for agglomerative partitioning. 'partition' uses an approach called Direct-Measure-Reduce to create new variables that maintain the user-specified minimum level of information. Each reduced variable is also interpretable: the original variables map to one and only one variable in the reduced data set. 'partition' is flexible, as well: how variables are selected to reduce, how information loss is measured, and the way data is reduced can all be customized. 'partition' is based on the Partition framework discussed in Millstein et al. (2020) <doi: 10.1093/bioinformatics/btz661>.
Author: Joshua Millstein [aut], Malcolm Barrett [aut, cre] (<https://orcid.org/0000-0003-0299-5825>)
Maintainer: Malcolm Barrett <malcolmbarrett@gmail.com>

Diff between partition versions 0.1.3 dated 2021-01-07 and 0.1.4 dated 2021-10-05

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Package ExpDes.pt updated to version 1.2.2 with previous version 1.2.1 dated 2021-01-06

Title: Pacote Experimental Designs (Portugues)
Description: Pacote para análise de delineamentos experimentais (DIC, DBC e DQL), experimentos em esquema fatorial duplo (em DIC e DBC), experimentos em parcelas subdivididas (em DIC e DBC), experimentos em esquema fatorial duplo com um tratamento adicional (em DIC e DBC), experimentos em fatorial triplo (em DIC e DBC) e experimentos em esquema fatorial triplo com um tratamento adicional (em DIC e DBC), fazendo analise de variancia e comparacao de multiplas medias (para tratamentos qualitativos), ou ajustando modelos de regressao ate a terceira potencia (para tratamentos quantitativos); analise de residuos (Ferreira, Cavalcanti and Nogueira, 2014) <doi:10.4236/am.2014.519280>.
Author: Eric Batista Ferreira, Portya Piscitelli Cavalcanti, Denismar Alves Nogueira
Maintainer: Eric Batista Ferreira <eric.ferreira@unifal-mg.edu.br>

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 R/ex4.r             |   66 +-
 R/ex5.r             |   52 +-
 R/ex6.r             |   40 -
 R/ex7.r             |   58 +-
 R/ex8.r             |   54 +-
 R/ex9.r             |   54 +-
 R/exnl.r            |   36 -
 R/faixas.r          |   39 +
 R/fat2.ad.dbc.r     |  236 ++++-----
 R/fat2.ad.dic.r     |  312 ++++++------
 R/fat2.ad2.dbc.r    |only
 R/fat2.ad2.dic.r    |only
 R/fat2.dbc.r        |  279 +++++-----
 R/fat2.dic.r        |  294 ++++++-----
 R/fat3.ad.dbc.r     | 1343 ++++++++++++++++++++++++++--------------------------
 R/fat3.ad.dic.r     | 1289 +++++++++++++++++++++++--------------------------
 R/fat3.dbc.r        |  944 +++++++++++++-----------------------
 R/fat3.dic.r        | 1278 +++++++++++++++++++++++--------------------------
 R/ginv.r            |   64 +-
 R/graficos.r        |  316 ++++++------
 R/han.r             |  112 ++--
 R/lastC.r           |   50 -
 R/layard.r          |  116 ++--
 R/levene.r          |  102 +--
 R/lsd.r             |  194 +++----
 R/lsdb.r            |  192 +++----
 R/oneilldbc.r       |  128 ++--
 R/oneillmathews.r   |  118 ++--
 R/order.group.r     |  192 +++----
 R/order.stat.SNK.R  |  164 +++---
 R/plotres.r         |   21 
 R/psub2.dbc.r       |   47 +
 R/psub2.dic.r       |  334 ++++++------
 R/reg.nl.r          |  706 +++++++++++++--------------
 R/reg.poly.r        |  322 ++++++------
 R/respAd.r          |   22 
 R/samiuddin.r       |  124 ++--
 R/scottknott.r      |  312 ++++++------
 R/secaAd.r          |   24 
 R/snk.r             |  354 ++++++-------
 R/tapply.stat.r     |  126 ++--
 R/tukey.r           |  196 +++----
 data/exnl.txt       |   62 +-
 man/dbc.Rd          |   10 
 man/dic.Rd          |   18 
 man/dql.Rd          |   10 
 man/faixas.Rd       |   11 
 man/fat2.ad.dbc.Rd  |   14 
 man/fat2.ad.dic.Rd  |   16 
 man/fat2.ad2.dbc.Rd |only
 man/fat2.ad2.dic.Rd |only
 man/fat2.dbc.Rd     |   15 
 man/fat2.dic.Rd     |   15 
 man/fat3.ad.dbc.Rd  |   19 
 man/fat3.ad.dic.Rd  |   17 
 man/fat3.dbc.Rd     |   14 
 man/fat3.dic.Rd     |   16 
 man/psub2.dbc.Rd    |   11 
 man/psub2.dic.Rd    |   13 
 75 files changed, 6417 insertions(+), 6486 deletions(-)

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Package ExpDes updated to version 1.2.2 with previous version 1.2.1 dated 2021-01-06

Title: Experimental Designs Package
Description: Package for analysis of simple experimental designs (CRD, RBD and LSD), experiments in double factorial schemes (in CRD and RBD), experiments in a split plot in time schemes (in CRD and RBD), experiments in double factorial schemes with an additional treatment (in CRD and RBD), experiments in triple factorial scheme (in CRD and RBD) and experiments in triple factorial schemes with an additional treatment (in CRD and RBD), performing the analysis of variance and means comparison by fitting regression models until the third power (quantitative treatments) or by a multiple comparison test, Tukey test, test of Student-Newman-Keuls (SNK), Scott-Knott, Duncan test, t test (LSD) and Bonferroni t test (protected LSD) - for qualitative treatments; residual analysis (Ferreira, Cavalcanti and Nogueira, 2014) <doi:10.4236/am.2014.519280>.
Author: Eric Batista Ferreira, Portya Piscitelli Cavalcanti, Denismar Alves Nogueira
Maintainer: Eric Batista Ferreira <eric.ferreira@unifal-mg.edu.br>

Diff between ExpDes versions 1.2.1 dated 2021-01-06 and 1.2.2 dated 2021-10-05

 DESCRIPTION          |   10 
 MD5                  |  146 ++---
 NAMESPACE            |    2 
 R/anscombetukey.R    |  108 ++--
 R/bartlett.R         |   90 +--
 R/ccF.r              |  300 +++++------
 R/ccboot.r           |  598 +++++++++++-----------
 R/crd.R              |   25 
 R/duncan.R           |  180 +++---
 R/est21Ad.r          |   24 
 R/ex.r               |   40 -
 R/ex1.r              |   46 -
 R/ex2.r              |   48 -
 R/ex3.r              |   50 -
 R/ex4.r              |   66 +-
 R/ex5.r              |   52 -
 R/ex6.r              |   40 -
 R/ex7.r              |   58 +-
 R/ex8.r              |   56 +-
 R/ex9.r              |   52 -
 R/exnl.r             |   36 -
 R/fat2.ad.crd.R      |  319 ++++++------
 R/fat2.ad.rbd.R      |   43 +
 R/fat2.ad2.crd.r     |only
 R/fat2.ad2.rbd.r     |only
 R/fat2.crd.R         |   50 +
 R/fat2.rbd.R         |   49 +
 R/fat3.ad.crd.R      | 1339 +++++++++++++++++++++++++--------------------------
 R/fat3.ad.rbd.R      | 1336 +++++++++++++++++++++++++-------------------------
 R/fat3.crd.R         | 1330 +++++++++++++++++++++++++-------------------------
 R/fat3.rbd.R         |   48 +
 R/ginv.R             |   68 +-
 R/graphics.R         |  308 +++++------
 R/han.R              |  112 ++--
 R/lastC.R            |   52 -
 R/latsd.R            |   25 
 R/layard.R           |  114 ++--
 R/levene.R           |  100 +--
 R/lsd.R              |  196 +++----
 R/lsdb.R             |  196 +++----
 R/oneilldbc.R        |  130 ++--
 R/oneillmathews.R    |  112 ++--
 R/order.group.R      |  174 +++---
 R/order.stat.SNK.R   |  164 +++---
 R/plotres.R          |  132 ++---
 R/rbd.R              |   35 +
 R/reg.nl.R           |  704 +++++++++++++-------------
 R/reg.poly.R         |  328 ++++++------
 R/respAd.r           |   22 
 R/samiuddin.R        |  120 ++--
 R/scottknott.R       |  314 +++++------
 R/secaAd.r           |   24 
 R/snk.R              |  236 ++++----
 R/split2.crd.R       |   43 +
 R/split2.rbd.R       |   37 +
 R/strip.R            |   39 -
 R/tapply.stat.R      |  128 ++--
 R/tukey.R            |  208 +++----
 data/exnl.txt        |   62 +-
 man/anscombetukey.Rd |  158 +++---
 man/crd.Rd           |   10 
 man/fat2.ad.crd.Rd   |   15 
 man/fat2.ad.rbd.Rd   |   13 
 man/fat2.ad2.crd.Rd  |only
 man/fat2.ad2.rbd.Rd  |only
 man/fat2.crd.Rd      |   10 
 man/fat2.rbd.Rd      |   12 
 man/fat3.ad.crd.Rd   |   13 
 man/fat3.ad.rbd.Rd   |   13 
 man/fat3.crd.Rd      |   11 
 man/fat3.rbd.Rd      |   12 
 man/latsd.Rd         |   10 
 man/rbd.Rd           |   19 
 man/split2.crd.Rd    |   10 
 man/split2.rbd.Rd    |   10 
 man/strip.Rd         |   10 
 76 files changed, 5694 insertions(+), 5356 deletions(-)

More information about ExpDes at CRAN
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