Fri, 03 Apr 2020

Package RCT updated to version 1.0.1 with previous version 1.0.0 dated 2020-04-03

Title: Assign Treatments, Power Calculations, Balances, Impact Evaluation of Experiments
Description: Assists in the whole process of designing and evaluating Randomized Control Trials. Robust treatment assignment by strata/blocks, that handles misfits; Power calculations of the minimum detectable treatment effect Balance tables of T-test of covariates; Balance Regression: (treatment ~ all x variables) with F-test of null model; Impact_evaluation: Impact evaluation regressions. This function gives you the option to include control_vars, fixed effect variables, cluster variables (for robust SE), multiple endogenous variables and multiple heterogeneous variables (to test treatment effect heterogeneity) summary_statistics: Function that creates a summary statistics table with statistics rank observations in n groups: Creates a factor variable with n groups. Each group has a min and max label attach to each category. Athey, Susan, and Guido W. Imbens (2017) <arXiv:1607.00698>.
Author: Isidoro Garcia-Urquieta [aut, cre]
Maintainer: Isidoro Garcia-Urquieta <isidoro.gu@gmail.com>

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Package fs updated to version 1.4.1 with previous version 1.4.0 dated 2020-03-31

Title: Cross-Platform File System Operations Based on 'libuv'
Description: A cross-platform interface to file system operations, built on top of the 'libuv' C library.
Author: Jim Hester [aut, cre], Hadley Wickham [aut], libuv project contributors [cph] (libuv library), Joyent, Inc. and other Node contributors [cph] (libuv library), RStudio [cph, fnd]
Maintainer: Jim Hester <james.f.hester@gmail.com>

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Package auRoc updated to version 0.2-1 with previous version 0.2-0 dated 2019-01-13

Title: Various Methods to Estimate the AUC
Description: Estimate the AUC using a variety of methods as follows: (1) frequentist nonparametric methods based on the Mann-Whitney statistic or kernel methods. (2) frequentist parametric methods using the likelihood ratio test based on higher-order asymptotic results, the signed log-likelihood ratio test, the Wald test, or the approximate ''t'' solution to the Behrens-Fisher problem. (3) Bayesian parametric MCMC methods.
Author: Dai Feng [aut, cre], Damjan Manevski [auc], Maja Pohar Perme [auc]
Maintainer: Dai Feng <daifeng.stat@gmail.com>

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Package PROSPER updated to version 0.3.2 with previous version 0.3.0 dated 2018-10-30

Title: Simulation of Weed Population Dynamics
Description: An environment to simulate the development of annual plant populations with regard to population dynamics and genetics, especially herbicide resistance. It combines genetics on the individual level (Renton et al. 2011) with a stochastic development on the population level (Daedlow, 2015). Renton, M, Diggle, A, Manalil, S and Powles, S (2011) <doi:10.1016/j.jtbi.2011.05.010> Daedlow, Daniel (2015, doctoral dissertation: University of Rostock, Faculty of Agriculture and Environmental Sciences.)
Author: Christoph v. Redwitz [aut, cre], Friederike de Mol [aut]
Maintainer: Christoph v. Redwitz <christoph.redwitz@posteo.de>

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Package ggasym updated to version 0.1.3 with previous version 0.1.2 dated 2019-11-21

Title: Asymmetric Matrix Plotting in 'ggplot2'
Description: Plots a symmetric matrix with three different fill aesthetics for the top-left and bottom-right triangles and along the diagonal. It operates within the Grammar of Graphics paradigm implemented in 'ggplot2'.
Author: Joshua H Cook [aut, cre] (<https://orcid.org/0000-0001-9815-6879>)
Maintainer: Joshua H Cook <joshuacook0023@gmail.com>

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Package rFIA updated to version 0.2.1 with previous version 0.2.0 dated 2020-01-09

Title: Space-Time Estimation of Forest Variables using the FIA Database
Description: The goal of 'rFIA' is to increase the accessibility and use of the United States Forest Services (USFS) Forest Inventory and Analysis (FIA) Database by providing a user-friendly, open source toolkit to easily query and analyze FIA Data. Designed to accommodate a wide range of potential user objectives, 'rFIA' simplifies the estimation of forest variables from the FIA Database and allows all R users (experts and newcomers alike) to unlock the flexibility inherent to the Enhanced FIA design. Specifically, 'rFIA' improves accessibility to the spatio-temporal estimation capacity of the FIA Database by producing space-time indexed summaries of forest variables within user-defined population boundaries. Direct integration with other popular R packages (e.g., 'dplyr', 'tidyr', and 'sf') facilitates efficient space-time query and data summary, and supports common data representations and API design. The package implements design-based estimation procedures outlined by Bechtold & Patterson (2005) <doi:10.2737/SRS-GTR-80>, and has been validated against estimates and sampling errors produced by FIA 'EVALIDator'. Current development is focused on the implementation of spatially-enabled model-assisted estimators to improve population, change, and ratio estimates.
Author: Hunter Stanke [aut, cre], Andrew Finley [aut]
Maintainer: Hunter Stanke <stankehu@msu.edu>

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Package gamm4 updated to version 0.2-6 with previous version 0.2-5 dated 2017-07-25

Title: Generalized Additive Mixed Models using 'mgcv' and 'lme4'
Description: Estimate generalized additive mixed models via a version of function gamm() from 'mgcv', using 'lme4' for estimation.
Author: Simon Wood, Fabian Scheipl
Maintainer: Simon Wood <simon.wood@r-project.org>

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Package tradestatistics updated to version 1.0 with previous version 0.2.7 dated 2019-12-04

Title: Open Trade Statistics API Wrapper and Utility Program
Description: Access 'Open Trade Statistics' API from R to download international trade data.
Author: Mauricio Vargas [aut, cre, cph] (<https://orcid.org/0000-0003-1017-7574>), Joshua Kunst [ctb] (contributed to different parts of the pre-release code), Natalia de los Santos [ctb] (proposed improvements to default parameters), Elio Campitelli [ctb] (wrote client-side caching function), Emily Riederer [rev] (reviewed the package for rOpenSci, see https://github.com/ropensci/onboarding/issues/274), Mark Padgham [rev] (reviewed the package for rOpenSci, see https://github.com/ropensci/onboarding/issues/274), Amanda Dobbyn [rev] (reviewed an archived package that evolved into the current package for rOpenSci, see https://github.com/ropensci/onboarding/issues/217), Jorge Cimentada [rev] (reviewed an archived package that evolved into the current package for rOpenSci, see https://github.com/ropensci/onboarding/issues/217), UN Comtrade [dtc], The World Bank [dtc], Center for International Development at Harvard University [dtc], The Observatory of Economic Complexity [dtc]
Maintainer: Mauricio Vargas <mvargas@dcc.uchile.cl>

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New package smoothedLasso with initial version 1.0
Package: smoothedLasso
Type: Package
Title: Smoothed LASSO Regression via Nesterov Smoothing
Version: 1.0
Date: 2020-03-25
Author: Georg Hahn [aut,cre], Sharon M. Lutz [ctb], Nilanjana Laha [ctb], Christoph Lange [ctb]
Maintainer: Georg Hahn <ghahn@hsph.harvard.edu>
Description: We provide full functionality to compute smoothed LASSO regression estimates. For this, the LASSO objective function is first smoothed using Nesterov smoothing (see Y. Nesterov (2005) <doi:10.1007/s10107-004-0552-5>), resulting in a modified LASSO objective function with explicit gradients everywhere. The smoothed objective function and its gradient are used to minimize it via BFGS, and the obtained minimizer is returned. Using Nesterov smoothing, the smoothed LASSO objective function can be made arbitrarily close to the original (unsmoothed) one. In particular, the Nesterov approach has the advantage that it comes with explicit accuracy bounds, both on the L1/L2 difference of the unsmoothed to the smoothed LASSO objective function as well as on their respective minimizers. A progressive smoothing approach is provided which iteratively smoothes the LASSO, resulting in more stable regression estimates.
License: GPL (>= 2)
Imports: Rdpack
RdMacros: Rdpack
RoxygenNote: 6.1.1
NeedsCompilation: no
Packaged: 2020-04-03 16:30:20 UTC; acer
Repository: CRAN
Date/Publication: 2020-04-03 18:30:02 UTC

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Package fDMA updated to version 2.2.5 with previous version 2.2.4 dated 2018-09-29

Title: Dynamic Model Averaging and Dynamic Model Selection for Continuous Outcomes
Description: Allows to estimate dynamic model averaging, dynamic model selection and median probability model. The original methods are implemented, as well as, selected further modifications of these methods. In particular the user might choose between recursive moment estimation and exponentially moving average for variance updating. Inclusion probabilities might be modified in a way using 'Google Trends'. The code is written in a way which minimises the computational burden (which is quite an obstacle for dynamic model averaging if many variables are used). For example, this package allows for parallel computations and Occam's window approach. The package is designed in a way that is hoped to be especially useful in economics and finance. Main reference: Raftery, A.E., Karny, M., Ettler, P. (2010) <doi:10.1198/TECH.2009.08104>.
Author: Krzysztof Drachal [aut, cre] (Faculty of Economic Sciences, University of Warsaw, Poland)
Maintainer: Krzysztof Drachal <kdrachal@wne.uw.edu.pl>

Diff between fDMA versions 2.2.4 dated 2018-09-29 and 2.2.5 dated 2020-04-03

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New package Yamm with initial version 1.3.1
Package: Yamm
Title: Multivariate Methods Based on Projections and Related Concepts
Version: 1.3.1
Date: 2020-04-02
Authors@R: c(person("Fan", "Chen", role=c("aut"),email="fan.chen1018@gmail.com"), person("Guy", "Nason",role=c("aut", "cre"),email="g.nason@imperial.ac.uk"))
Depends: R (>= 3.0), depth, OjaNP, pcaPP, interp
Suggests: animation
Maintainer: Guy Nason <g.nason@imperial.ac.uk>
Description: Functionality to compute the projection median via several algorithms. This package also provides functions to plot different multivariate medians and multivariate quantiles in two-dimensional and three-dimensional data respectively. See Chen, F. and Nason, G.P. (2020) "A new method for computing the projection median, its influence curve and techniques for the production of projected quantile plots." PLOS One (accepted for publication).
License: GPL-2
NeedsCompilation: yes
Packaged: 2020-04-02 19:52:57 UTC; magpn
Author: Fan Chen [aut], Guy Nason [aut, cre]
Repository: CRAN
Date/Publication: 2020-04-03 16:30:02 UTC

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Package xptr updated to version 1.1.3 with previous version 1.1.2 dated 2019-12-09

Title: Manipulating External Pointer
Description: There is limited native support for external pointers in the R interface. This package provides some basic tools to verify, create and modify 'externalptr' objects.
Author: Randy Lai [aut, cre]
Maintainer: Randy Lai <randy.cs.lai@gmail.com>

Diff between xptr versions 1.1.2 dated 2019-12-09 and 1.1.3 dated 2020-04-03

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New package RCT with initial version 1.0.0
Package: RCT
Title: Assign Treatments, Power Calculations, Balances, Impact Evaluation of Experiments
Version: 1.0.0
Authors@R: person("Isidoro", "Garcia-Urquieta", email = "isidoro.gu@gmail.com", role =c("aut", "cre"))
Description: Assists in the whole process of designing and evaluating Randomized Control Trials. Robust treatment assignment by strata/blocks, that handles misfits; Power calculations of the minimum detectable treatment effect Balance tables of T-test of covariates; Balance Regression: (treatment ~ all x variables) with F-test of null model; Impact_evaluation: Impact evaluation regressions. This function gives you the option to include control_vars, fixed effect variables, cluster variables (for robust SE), multiple endogenous variables and multiple heterogeneous variables (to test treatment effect heterogeneity) summary_statistics: Function that creates a summary statistics table with statistics rank observations in n groups: Creates a factor variable with n groups. Each group has a min and max label attach to each category.
License: GPL-2
Encoding: UTF-8
LazyData: true
Imports: dplyr, purrr, glue, rlang, tidyr, stringr, MASS, pracma, lfe, broom, forcats, magrittr, ggplot2, tidyselect (>= 1.0.0)
Suggests: knitr, rmarkdown, testthat, qpdf
RoxygenNote: 7.0.2
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2020-04-03 05:46:37 UTC; Isidoro
Author: Isidoro Garcia-Urquieta [aut, cre]
Maintainer: Isidoro Garcia-Urquieta <isidoro.gu@gmail.com>
Repository: CRAN
Date/Publication: 2020-04-03 17:50:05 UTC

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Package mokken updated to version 3.0.0 with previous version 2.8.11 dated 2018-06-03

Title: Conducts Mokken Scale Analysis
Description: Contains functions for performing Mokken scale analysis on test and questionnaire data (e.g., Sijtsma and Van der Ark, 2017, <doi:10.1111/bmsp.12078>). It includes an automated item selection algorithm, and various checks of model assumptions.
Author: L. Andries van der Ark [aut, cre], Letty Koopman [aut], J. Hendrik Straat [ctb], Don van den Bergh [ctb]
Maintainer: L. Andries van der Ark <L.A.vanderArk@uva.nl>

Diff between mokken versions 2.8.11 dated 2018-06-03 and 3.0.0 dated 2020-04-03

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New package genscore with initial version 1.0.0
Package: genscore
Type: Package
Title: Generalized Score Matching Estimators
Version: 1.0.0
Author: Shiqing Yu, Lina Lin, Wally Gilks
Maintainer: Shiqing Yu <syu.phd@gmail.com>
Description: Implementation of the Generalized Score Matching estimator in Yu et al. (2019) <http://jmlr.org/papers/v20/18-278.html> for non-negative graphical models (truncated Gaussian, exponential square-root, gamma, a-b models) and univariate truncated Gaussian distributions. Also includes the original estimator for untruncated Gaussian graphical models from Lin et al. (2016) <doi:10.1214/16-EJS1126>, with the addition of a diagonal multiplier.
License: GPL-3
Encoding: UTF-8
LazyData: true
Suggests: Matrix, igraph, zoo, knitr, rmarkdown, cubature
Imports: Rdpack, utils, mvtnorm, tmvtnorm, stringr
URL: https://github.com/sqyu/genscore
BugReports: https://github.com/sqyu/genscore/issues
RdMacros: Rdpack
RoxygenNote: 7.1.0
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2020-04-02 22:04:45 UTC; shimizumasami
Repository: CRAN
Date/Publication: 2020-04-03 16:40:02 UTC

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New package GE with initial version 0.0.3
Package: GE
Type: Package
Title: General Equilibrium Modeling
Version: 0.0.3
Author: LI Wu <liwu@staff.shu.edu.cn>
Maintainer: LI Wu <liwu@staff.shu.edu.cn>
Depends: CGE, data.tree, DiagrammeR, graphics, stringr
Description: Some tools for developing general equilibrium models and some general equilibrium models. These models can be used for teaching economic theory and are built by the methods of new structural economics (see <https://www.nse.pku.edu.cn/> and LI Wu, 2019, General Equilibrium and Structural Dynamics: Perspectives of New Structural Economics. Beijing: Economic Science Press).
License: GPL-2 | GPL-3
Encoding: UTF-8
LazyData: true
NeedsCompilation: no
Packaged: 2020-04-03 01:22:37 UTC; Administrator
RoxygenNote: 7.1.0
Repository: CRAN
Date/Publication: 2020-04-03 17:40:02 UTC

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Package gdm updated to version 1.4.1 with previous version 1.4 dated 2020-02-05

Title: Generalized Dissimilarity Modeling
Description: A toolkit with functions to fit, plot, summarize, and apply Generalized Dissimilarity Models.
Author: Matthew C. Fitzpatrick, Karel Mokany, Glenn Manion, Matthew Lisk, Simon Ferrier, Diego Nieto-Lugilde
Maintainer: Matthew C. Fitzpatrick <mfitzpatrick@umces.edu>

Diff between gdm versions 1.4 dated 2020-02-05 and 1.4.1 dated 2020-04-03

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New package EventDetectGUI with initial version 0.3.0
Package: EventDetectGUI
Type: Package
Title: Graphical User Interface for the 'EventDetectR' Package
Version: 0.3.0
Authors@R: c( person("Sowmya","Chandrasekaran", role = c("aut","cre"), email = "sowzz.17@gmail.com"), person("Margarita", "Rebolledo", email="margarita.rebolledo@th-koeln.de", role=c("aut")), person("Frederik","Rehbach", role = c("aut"), email = "frederik.rehbach@th-koeln.de"), person("Steffen", "Moritz", email="steffen.moritz10@gmail.com", role=c("aut"), comment = c(ORCID = "0000-0002-0085-1804")), person("Paolo", "Aguilar", role = "ctb"), person("Andreas","Bodendorfer", role = "ctb"), person("Christian","Hoeffer", role = "ctb"), person("Akbar", "Shadakov", role = "ctb"))
Description: A graphical user interface for open source event detection.
Encoding: UTF-8
LazyData: true
Repository: CRAN
Depends: R (>= 3.1.0),
Imports: EventDetectR, shinyBS, shiny, shinydashboard, shinyjs, XML, plotly, tools, DT, stats, utils, ggplot2
Suggests: roxygen2, shinytest, testthat, devtools
License: GPL-3
RoxygenNote: 6.1.1
NeedsCompilation: no
Packaged: 2020-04-01 12:22:38 UTC; sowmya
Author: Sowmya Chandrasekaran [aut, cre], Margarita Rebolledo [aut], Frederik Rehbach [aut], Steffen Moritz [aut] (<https://orcid.org/0000-0002-0085-1804>), Paolo Aguilar [ctb], Andreas Bodendorfer [ctb], Christian Hoeffer [ctb], Akbar Shadakov [ctb]
Maintainer: Sowmya Chandrasekaran <sowzz.17@gmail.com>
Date/Publication: 2020-04-03 17:50:08 UTC

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Package tidycensus updated to version 0.9.9.2 with previous version 0.9.6 dated 2020-01-25

Title: Load US Census Boundary and Attribute Data as 'tidyverse' and 'sf'-Ready Data Frames
Description: An integrated R interface to the decennial US Census and American Community Survey APIs and the US Census Bureau's geographic boundary files. Allows R users to return Census and ACS data as tidyverse-ready data frames, and optionally returns a list-column with feature geometry for many geographies.
Author: Kyle Walker [aut, cre], Kris Eberwein [ctb], Matt Herman [ctb]
Maintainer: Kyle Walker <kyle.walker@tcu.edu>

Diff between tidycensus versions 0.9.6 dated 2020-01-25 and 0.9.9.2 dated 2020-04-03

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Package subniche updated to version 1.2 with previous version 1.1 dated 2020-03-28

Title: Within Outlying Mean Indexes: Refining the OMI Analysis
Description: Complementary indexes calculation to the Outlying Mean Index analysis to explore niche shift of a community and biological constraint within an Euclidean space, with graphical displays.
Author: Stephane Karasiewicz
Maintainer: Stephane Karasiewicz <skaraz.science@gmail.com>

Diff between subniche versions 1.1 dated 2020-03-28 and 1.2 dated 2020-04-03

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New package r2rtf with initial version 0.1.1
Package: r2rtf
Title: Easily Create Presentation-Ready Rich Text Format (RTF) Table and Figure
Version: 0.1.1
Authors@R: c( person("Yilong", "Zhang", email = "yilong.zhang@merck.com", role = c("aut", "cre")), person("Siruo", "Wang", email = "swang171@jhu.edu", role = "aut"), person("Simiao", "Ye", email = "simiao.ye1@merck.com", role = "aut"), person("Merck Sharp & Dohme Corp", role = "cph") )
Description: Create presentation-ready Rich Text Format (RTF) table and figure with flexible and customized format.
Depends: R (>= 3.5.0)
License: GPL-3
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.0.2
Suggests: knitr, rmarkdown, testthat, emmeans, dplyr, tidyverse, devtools
Imports: stringr, grDevices
NeedsCompilation: no
Packaged: 2020-03-29 16:03:32 UTC; zhanyilo
Author: Yilong Zhang [aut, cre], Siruo Wang [aut], Simiao Ye [aut], Merck Sharp & Dohme Corp [cph]
Maintainer: Yilong Zhang <yilong.zhang@merck.com>
Repository: CRAN
Date/Publication: 2020-04-03 15:50:02 UTC

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Package miscF updated to version 0.1-5 with previous version 0.1-4 dated 2018-02-16

Title: Miscellaneous Functions
Description: Various functions for random number generation, density estimation, classification, curve fitting, and spatial data analysis.
Author: Dai Feng
Maintainer: Dai Feng <daifeng.stat@gmail.com>

Diff between miscF versions 0.1-4 dated 2018-02-16 and 0.1-5 dated 2020-04-03

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Package miceRanger updated to version 1.3.5 with previous version 1.3.4 dated 2020-02-22

Title: Multiple Imputation by Chained Equations with Random Forests
Description: Multiple Imputation has been shown to be a flexible method to impute missing values by Van Buuren (2007) <doi:10.1177/0962280206074463>. Expanding on this, random forests have been shown to be an accurate model by Stekhoven and Buhlmann <arXiv:1105.0828> to impute missing values in datasets. They have the added benefits of returning out of bag error and variable importance estimates, as well as being simple to run in parallel.
Author: Sam Wilson [aut, cre]
Maintainer: Sam Wilson <samwilson303@gmail.com>

Diff between miceRanger versions 1.3.4 dated 2020-02-22 and 1.3.5 dated 2020-04-03

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Package logisticRR updated to version 0.3.0 with previous version 0.2.0 dated 2018-10-31

Title: Adjusted Relative Risk from Logistic Regression
Description: Adjusted odds ratio conditional on potential confounders can be directly obtained from logistic regression. However, those adjusted odds ratios have been widely incorrectly interpreted as a relative risk. As relative risk is often of interest in public health, we provide a simple code to return adjusted relative risks from logistic regression model under potential confounders.
Author: Youjin Lee
Maintainer: Youjin Lee <youjin.lee@pennmedicine.upenn.edu>

Diff between logisticRR versions 0.2.0 dated 2018-10-31 and 0.3.0 dated 2020-04-03

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Package lemon updated to version 0.4.4 with previous version 0.4.3 dated 2019-01-08

Title: Freshing Up your 'ggplot2' Plots
Description: Functions for working with legends and axis lines of 'ggplot2', facets that repeat axis lines on all panels, and some 'knitr' extensions.
Author: Stefan McKinnon Edwards [aut, ctb, cre] (<https://orcid.org/0000-0002-4628-8148>), Baptiste Auguie [ctb] (For g_legend and grid_arrange_shared_legend), Shaun Jackman [ctb] (For grid_arrange_shared_legend), Hadley Wickham [ctb] (ggplot2 functions), Winston Chang [ctb] (ggplot2 functions)
Maintainer: Stefan McKinnon Edwards <sme@iysik.com>

Diff between lemon versions 0.4.3 dated 2019-01-08 and 0.4.4 dated 2020-04-03

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New package klic with initial version 1.0.2
Package: klic
Title: Kernel Learning Integrative Clustering
Version: 1.0.2
Authors@R: c(person(given = "Alessandra", family = "Cabassi", email = "alessandra.cabassi@mrc-bsu.cam.ac.uk", role = c("aut", "cre"), comment = c(ORCID = "0000-0003-1605-652X")), person(given = "Paul DW", family = "Kirk", role = c("ths"), comment = c(ORCID = "0000-0002-5931-7489")), person(given = "Mehmet", family = "Gonen", role = c("ctb"), comment = c(ORCID = "0000-0002-2483-075X")))
Author: Alessandra Cabassi [aut, cre] (<https://orcid.org/0000-0003-1605-652X>), Paul DW Kirk [ths] (<https://orcid.org/0000-0002-5931-7489>), Mehmet Gonen [ctb] (<https://orcid.org/0000-0002-2483-075X>)
Description: Kernel Learning Integrative Clustering (KLIC) is an algorithm that allows to combine multiple kernels, each representing a different measure of the similarity between a set of observations. The contribution of each kernel on the final clustering is weighted according to the amount of information carried by it. As well as providing the functions required to perform the kernel-based clustering, this package also allows the user to simply give the data as input: the kernels are then built using consensus clustering. Different strategies to choose the best number of clusters are also available. For further details please see Cabassi and Kirk (2019) <arXiv:1904.07701>.
Depends: R (>= 3.5.0)
License: MIT + file LICENSE
URL: http://github.com/acabassi/klic
BugReports: http://github.com/acabassi/klic/issues
Encoding: UTF-8
LazyData: true
Imports: Matrix, cluster, gplots, wesanderson, coca, RColorBrewer, pheatmap, utils
Suggests: Rmosek, tikzDevice, mclust, grDevices, graphics, knitr
SystemRequirements: MOSEK (http://www.mosek.com) and MOSEK license.
RoxygenNote: 7.1.0
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2020-04-02 18:34:17 UTC; alessandracabassi
Maintainer: Alessandra Cabassi <alessandra.cabassi@mrc-bsu.cam.ac.uk>
Repository: CRAN
Date/Publication: 2020-04-03 16:00:22 UTC

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Package dynamac updated to version 0.1.11 with previous version 0.1.10 dated 2019-11-07

Title: Dynamic Simulation and Testing for Single-Equation ARDL Models
Description: While autoregressive distributed lag (ARDL) models allow for extremely flexible dynamics, interpreting substantive significance of complex lag structures remains difficult. This package is designed to assist users in dynamically simulating and plotting the results of various ARDL models. It also contains post-estimation diagnostics, including a test for cointegration when estimating the error-correction variant of the autoregressive distributed lag model (Pesaran, Shin, and Smith 2001 <doi:10.1002/jae.616>).
Author: Soren Jordan [aut, cre, cph], Andrew Q. Philips [aut]
Maintainer: Soren Jordan <sorenjordanpols@gmail.com>

Diff between dynamac versions 0.1.10 dated 2019-11-07 and 0.1.11 dated 2020-04-03

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Package dials updated to version 0.0.6 with previous version 0.0.5 dated 2020-04-01

Title: Tools for Creating Tuning Parameter Values
Description: Many models contain tuning parameters (i.e. parameters that cannot be directly estimated from the data). These tools can be used to define objects for creating, simulating, or validating values for such parameters.
Author: Max Kuhn [aut, cre], RStudio [cph]
Maintainer: Max Kuhn <max@rstudio.com>

Diff between dials versions 0.0.5 dated 2020-04-01 and 0.0.6 dated 2020-04-03

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New package datasailr with initial version 0.8.2
Package: datasailr
Type: Package
Title: Fast Row by Row Data Processing Tool, Using 'Sailr' Language
Version: 0.8.2
Date: 2020-04-02
Maintainer: Toshihiro Umehara <toshi@niceume.com>
Authors@R: c(person(given = "Toshihiro", family = "Umehara", role = c("aut", "cre"), email = "toshi@niceume.com"), person(given = "Troy", family = "Hanson", role = c("cph", "ctb"), comment = "uthash"), person(given = "Howard", family = "Hinnant", role = c("cph", "ctb"), comment = "date.h"), person(given = "Adrian", family = "Colomitchi", role = c("cph", "ctb"), comment = "date.h"), person(given = "Florian", family = "Dang", role = c("cph", "ctb"), comment = "date.h"), person(given = "Paul", family = "Thompson", role = c("cph", "ctb"), comment = "date.h"), person(given = "Tomasz", family = "Kamiński", role = c("cph", "ctb"), comment = "date.h"), person(given = "Nemanja", family = "Trifunovic", role = c("cph", "ctb"), comment = "utfcpp"), person(given = "Kim", family = "Grasman", role = c("cph", "ctb"), comment = "getopt_port"), person(given = "K.Kosako", role = c("cph", "ctb"), comment = "onigmo author"), person(given = "K.Takata", role = c("cph", "ctb"), comment = "onigmo author"), person(given = "Byte", role = c("cph", "ctb"), comment = "onigmo contributor"), person(given = "KUBO", family = "Takehiro", role = c("cph", "ctb"), comment = "onigmo contributor"), person(given = "Free Software Foundation, Inc", role = "cph"), person(given = "X Consortium", role = "cph"))
Description: A fast row by row data processing tool. You can write data manipulation code in 'Sailr' language which is specially intended for the data manipulation. The package uses 'libsailr' (C/C++ library) for its 'Sailr' code parsing and its execution.
Encoding: UTF-8
License: GPL (>= 3)
Biarch: true
Imports: Rcpp (>= 0.12.18)
Suggests: RUnit
LinkingTo: Rcpp
SystemRequirements: GNU make, C++11
NeedsCompilation: yes
Packaged: 2020-04-02 01:19:47 UTC; toshihiro
Author: Toshihiro Umehara [aut, cre], Troy Hanson [cph, ctb] (uthash), Howard Hinnant [cph, ctb] (date.h), Adrian Colomitchi [cph, ctb] (date.h), Florian Dang [cph, ctb] (date.h), Paul Thompson [cph, ctb] (date.h), Tomasz Kamiński [cph, ctb] (date.h), Nemanja Trifunovic [cph, ctb] (utfcpp), Kim Grasman [cph, ctb] (getopt_port), K.Kosako [cph, ctb] (onigmo author), K.Takata [cph, ctb] (onigmo author), Byte [cph, ctb] (onigmo contributor), KUBO Takehiro [cph, ctb] (onigmo contributor), Free Software Foundation, Inc [cph], X Consortium [cph]
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2020-04-03 15:50:05 UTC

More information about datasailr at CRAN
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Package spant updated to version 1.3.0 with previous version 1.2.1 dated 2020-03-15

Title: MR Spectroscopy Analysis Tools
Description: Tools for reading, visualising and processing Magnetic Resonance Spectroscopy data. <https://martin3141.github.io/spant/>.
Author: Martin Wilson [cre, aut], John Muschelli [ctb]
Maintainer: Martin Wilson <martin@pipegrep.co.uk>

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Package rotations updated to version 1.6.1 with previous version 1.6 dated 2020-03-28

Title: Working with Rotation Data
Description: Tools for working with rotational data, including simulation from the most commonly used distributions on SO(3), methods for different Bayes, mean and median type estimators for the central orientation of a sample, confidence/credible regions for the central orientation based on those estimators and a novel visualization technique for rotation data. Most recently, functions to identify potentially discordant (outlying) values have been added. References: Bingham, Melissa A. and Nordman, Dan J. and Vardeman, Steve B. (2009) <doi:10.1198/jasa.2009.ap08741>, Bingham, Melissa A and Vardeman, Stephen B and Nordman, Daniel J (2009) <doi:10.1214/09-BA423>, Bingham, Melissa A and Nordman, Daniel J and Vardeman, Stephen B (2010) <doi:10.1016/j.csda.2009.11.020>, Leon, C.A. and Masse, J.C. and Rivest, L.P. (2006) <doi:10.1016/j.jmva.2005.03.009>, Hartley, R and Aftab, K and Trumpf, J. (2011) <doi:10.1109/CVPR.2011.5995745>, Stanfill, Bryan and Genschel, Ulrike and Hofmann, Heike (2013) <doi:10.1080/00401706.2013.826145>, Maonton, Jonathan (2004) <doi:10.1109/ICARCV.2004.1469774>, Mardia, KV and Jupp, PE (2000, ISBN:9780471953333), Rancourt, D. and Rivest, L.P. and Asselin, J. (2000) <doi:10.1111/1467-9876.00180>, Chang, Ted and Rivest, Louis-Paul (2001) <doi:10.1214/aos/1009210690>, Fisher, Nicholas I. (1996, ISBN:0521568900).
Author: Bryan Stanfill [aut, cre], Heike Hofmann [aut], Ulrike Genschel [aut], Aymeric Stamm [ctb] (<https://orcid.org/0000-0002-8725-3654>), Luciano Selzer [ctb]
Maintainer: Bryan Stanfill <bstanfill2003@gmail.com>

Diff between rotations versions 1.6 dated 2020-03-28 and 1.6.1 dated 2020-04-03

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Package RcppSimdJson updated to version 0.0.4 with previous version 0.0.3 dated 2020-03-03

Title: 'Rcpp' Bindings for the 'simdjson' Header-Only Library for 'JSON' Parsing
Description: The 'JSON' format is ubiquitous for data interchange, and the 'simdjson' library written by Daniel Lemire (and many contributors) provides a high-performance parser for these files which by relying on parallel 'SIMD' instruction manages to parse these files as faster than disk speed. See the <arXiv:1902.08318> paper for more details about 'simdjson'. This package is at present only a very thin and incomplete wrapper and does not aim to replace the existing and excellent 'JSON' packages for R. But it does already validate orders of magnitude faster.
Author: Dirk Eddelbuettel
Maintainer: Dirk Eddelbuettel <edd@debian.org>

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New package plantecowrap with initial version 1.0.4
Package: plantecowrap
Type: Package
Title: Enhancing Capabilities of 'plantecophys'
Date: 2020-04-02
Version: 1.0.4
Authors@R: c(person("Joseph", "Stinziano", email = "josephstinziano@gmail.com", role = c("aut", "cre"), comment = c(ORCID = "0000-0002-7628-4201")), person("Demi", "Gamble", email = "Demi.Gamble@csiro.au", role = "aut"), person("Robert", "Sharwood", email = "robert.sharwood@anu.edu.au", role = "aut"), person("Warren", "Conaty", email = "Warren.Conaty.csiro.au", role = "aut"))
Maintainer: Joseph Stinziano <josephstinziano@gmail.com>
Description: Provides wrapping functions to add to capabilities to 'plantecophys' (Duursma, 2015, <doi:10.1371/journal.pone.0143346>). Key added capabilities include temperature responses of mesophyll conductance (gm, gmeso), apparent Michaelis-Menten constant for rubisco carboxylation in air (Km, Kcair),and photorespiratory CO2 compensation point (GammaStar) for fitting A-Ci or A-Cc curves for C3 plants (for temperature responses of gm, Km, & GammaStar, see Bernacchi et al., 2002, <doi:10.1104/pp.008250>; for theory on fitting A-Ci or A-Cc curves, see Farquhar et al., 1980; <doi:10.1007/BF00386231>, von Caemmerer, 2000, ISBN:064306379X; Ethier & Livingston, 2004 <doi:10.1111/j.1365-3040.2004.01140.x>; and Gu et al., 2010, <doi:10.1111/j.1365-3040.2010.02192.x>). Includes the ability to fit the Arrhenius and modified Arrhenius temperature response functions (see Medlyn et al., 2002, <doi:10.1046/j.1365-3040.2002.00891.x>) for maximum rubisco carboxylation rates (Vcmax) and maximum electron transport rates (Jmax) (see Farquhar et al., 1980; <doi:10.1007/BF00386231>).
URL: https://github.com/jstinzi/plantecowrap
BugReports: https://github.com/jstinzi/plantecowrap/issues
License: MIT + file LICENSE
Depends: R (>= 3.5.0), ggplot2 (>= 3.2.1), minpack.lm (>= 1.2-1), plantecophys (>= 1.4-4), tidyr (>= 1.0.0)
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.0.2
Suggests: knitr, rmarkdown, testthat
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2020-04-02 17:18:33 UTC; Joseph Stinziano
Author: Joseph Stinziano [aut, cre] (<https://orcid.org/0000-0002-7628-4201>), Demi Gamble [aut], Robert Sharwood [aut], Warren Conaty [aut]
Repository: CRAN
Date/Publication: 2020-04-03 14:10:13 UTC

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Package openblender updated to version 0.5.71 with previous version 0.5.7 dated 2020-03-28

Title: Request <https://openblender.io> API Services
Description: Interface to make HTTP requests to 'OpenBlender' API services. Go to <https://openblender.io> for more information.
Author: Open Blender Inc. [cph], Daniel V. Pinacho [aut, cre]
Maintainer: Daniel V. Pinacho <danielvpinacho@gmail.com>

Diff between openblender versions 0.5.7 dated 2020-03-28 and 0.5.71 dated 2020-04-03

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Package nosoi updated to version 1.0.2 with previous version 1.0.1 dated 2020-02-19

Title: A Forward Agent-Based Transmission Chain Simulator
Description: The aim of 'nosoi' (pronounced no.si) is to provide a flexible agent-based stochastic transmission chain/epidemic simulator (Lequime et al. bioRxiv 2020.03.03.973107). It is named after the daimones of plague, sickness and disease that escaped Pandora's jar in the Greek mythology. 'nosoi' is able to take into account the influence of multiple variable on the transmission process (e.g. dual-host systems (such as arboviruses), within-host viral dynamics, transportation, population structure), alone or taken together, to create complex but relatively intuitive epidemiological simulations.
Author: Sebastian Lequime [aut, cre] (<https://orcid.org/0000-0002-3140-0651>), Paul Bastide [aut] (<https://orcid.org/0000-0002-8084-9893>), Simon Dellicour [aut] (<https://orcid.org/0000-0001-9558-1052>), Philippe Lemey [aut] (<https://orcid.org/0000-0003-2826-5353>), Guy Baele [aut] (<https://orcid.org/0000-0002-1915-7732>)
Maintainer: Sebastian Lequime <sebastian.lequime@gmail.com>

Diff between nosoi versions 1.0.1 dated 2020-02-19 and 1.0.2 dated 2020-04-03

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Package jstor updated to version 0.3.8 with previous version 0.3.7 dated 2019-09-04

Title: Read Data from JSTOR/DfR
Description: Functions and helpers to import metadata, ngrams and full-texts delivered by Data for Research by JSTOR.
Author: Thomas Klebel [aut, cre] (<https://orcid.org/0000-0002-7331-4751>)
Maintainer: Thomas Klebel <t.klebel@hotmail.com>

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Package iCellR updated to version 1.4.0 with previous version 1.3.3 dated 2020-03-14

Title: Analyzing High-Throughput Single Cell Sequencing Data
Description: A toolkit that allows scientists to work with data from single cell sequencing technologies such as scRNA-seq, scVDJ-seq and CITE-Seq. Single (i) Cell R package ('iCellR') provides unprecedented flexibility at every step of the analysis pipeline, including normalization, clustering, dimensionality reduction, imputation, visualization, and so on. Users can design both unsupervised and supervised models to best suit their research. In addition, the toolkit provides 2D and 3D interactive visualizations, differential expression analysis, filters based on cells, genes and clusters, data merging, normalizing for dropouts, data imputation methods, correcting for batch differences, pathway analysis, tools to find marker genes for clusters and conditions, predict cell types and pseudotime analysis. See Khodadadi-Jamayran, et al (2020) <doi:10.1101/2020.03.31.019109> for more details.
Author: Alireza Khodadadi-Jamayran [aut, cre] (<https://orcid.org/0000-0003-2495-7504>), Joseph Pucella [aut, ctb] (<https://orcid.org/0000-0003-0875-8046>), Hua Zhou [aut, ctb], Nicole Doudican [aut, ctb] (<https://orcid.org/0000-0003-3827-9644>), John Carucci [aut, ctb] (<https://orcid.org/0000-0001-6817-9439>), Adriana Heguy [aut, ctb], Boris Reizis [aut, ctb] (<https://orcid.org/0000-0003-1140-7853>), Aristotelis Tsirigos [aut, ctb] (<https://orcid.org/0000-0002-7512-8477>)
Maintainer: Alireza Khodadadi-Jamayran <alireza.khodadadi.j@gmail.com>

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New package JoF with initial version 0.1.0
Package: JoF
Type: Package
Title: Modelling and Simulating Judgments of Frequency
Version: 0.1.0
Authors@R: c(person("Markus", "Burkhardt", email = "markus.burkhardt@psychologie.tu-chemnitz.de", role = c("aut", "cre")))
Maintainer: Markus Burkhardt <markus.burkhardt@psychologie.tu-chemnitz.de>
Description: In a typical experiment for the intuitive judgment of frequencies (JoF) different stimuli with different frequencies are presented. The participants consider these stimuli with a constant duration and give a judgment of frequency. These judgments can be simulated by formal models: PASS 1 and PASS 2 based on Sedlmeier (2002, ISBN:978-0198508632), MINERVA 2 baesd on Hintzman (1984) <doi:10.3758/BF03202365> and TODAM 2 based on Murdock, Smith & Bai (2001) <doi:10.1006/jmps.2000.1339>. The package provides an assessment of the frequency by determining the core aspects of these four models (attention, decay, and presented frequency) that can be compared to empirical results.
Depends: R (>= 3.1.0)
License: GPL-3
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.0.2
Suggests: testthat, knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2020-04-02 07:20:53 UTC; burma
Author: Markus Burkhardt [aut, cre]
Repository: CRAN
Date/Publication: 2020-04-03 14:10:36 UTC

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Package glue updated to version 1.4.0 with previous version 1.3.2 dated 2020-03-12

Title: Interpreted String Literals
Description: An implementation of interpreted string literals, inspired by Python's Literal String Interpolation <https://www.python.org/dev/peps/pep-0498/> and Docstrings <https://www.python.org/dev/peps/pep-0257/> and Julia's Triple-Quoted String Literals <https://docs.julialang.org/en/v1.3/manual/strings/#Triple-Quoted-String-Literals-1>.
Author: Jim Hester [aut, cre]
Maintainer: Jim Hester <james.f.hester@gmail.com>

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New package ExpertChoice with initial version 0.2.0
Package: ExpertChoice
Title: Design of Discrete Choice and Conjoint Analysis
Version: 0.2.0
Authors@R: person(given = "Jed", family = "Stephens", role = c("aut", "cre"), email = "STPJED001@myuct.ac.za", comment = c(ORCID = "0000-0002-0131-703X"))
Description: Supports designing efficient discrete choice experiments (DCEs). Experimental designs can be formed on the basis of orthogonal arrays or search methods for optimal designs (Federov or mixed integer programs). Various methods for converting these experimental designs into a discrete choice experiment. Many efficiency measures! Draws from literature of Kuhfeld (2010) and Street et. al (2005) <doi:10.1016/j.ijresmar.2005.09.003>.
ByteCompile: true
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
BugReports: https://github.com/JedStephens/ExpertChoice/issues
Depends: R (>= 3.6.0)
Imports: stats, far, dplyr, DoE.base, rlist, purrr
RoxygenNote: 7.1.0
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2020-04-03 14:11:56 UTC; Jed Stephens
Author: Jed Stephens [aut, cre] (<https://orcid.org/0000-0002-0131-703X>)
Maintainer: Jed Stephens <STPJED001@myuct.ac.za>
Repository: CRAN
Date/Publication: 2020-04-03 14:30:02 UTC

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New package DSI with initial version 1.0.0
Package: DSI
Type: Package
Title: 'DataSHIELD' Interface
Version: 1.0.0
Authors@R: c(person(given = "Yannick", family = "Marcon", role = c("aut", "cre"), email = "yannick.marcon@obiba.org", comment = c(ORCID = "0000-0003-0138-2023")), person(given = "Amadou", family = "Gaye", role = "ctb", comment = c(ORCID = "0000-0002-1180-2792")), person(given = "Paul", family = "Burton", role = "ctb"))
Description: 'DataSHIELD' is an infrastructure and series of R packages that enables the remote and 'non-disclosive' analysis of sensitive research data. This package defines the API that is to be implemented by 'DataSHIELD' compliant data repositories.
Depends: R (>= 3.1), methods, progress, R6
Suggests: testthat (>= 2.1.0)
License: LGPL (>= 2.1)
URL: http://datashield.ac.uk
BugReports: https://github.com/datashield/DSI
RoxygenNote: 7.0.2
Encoding: UTF-8
LazyData: true
Collate: 'DSObject.R' 'hidden.R' 'DSConnection.R' 'DSDriver.R' 'DSLoginBuilder.R' 'DSResult.R' 'datashield.aggregate.R' 'datashield.assign.R' 'datashield.connections.R' 'datashield.login.R' 'datashield.logout.R' 'datashield.status.R' 'datashield.symbol.R' 'datashield.workspace.R' 'rd.R' 'utils.R'
NeedsCompilation: no
Packaged: 2020-04-02 07:06:49 UTC; yannick
Author: Yannick Marcon [aut, cre] (<https://orcid.org/0000-0003-0138-2023>), Amadou Gaye [ctb] (<https://orcid.org/0000-0002-1180-2792>), Paul Burton [ctb]
Maintainer: Yannick Marcon <yannick.marcon@obiba.org>
Repository: CRAN
Date/Publication: 2020-04-03 14:20:05 UTC

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Package coveffectsplot updated to version 0.0.9 with previous version 0.0.5 dated 2020-02-06

Title: Produce Forest Plots to Visualize Covariate Effects
Description: Produce forest plots to visualize covariate effects using either the command line or an interactive 'Shiny' application.
Author: Samer Mouksassi [aut, cre] (<https://orcid.org/0000-0002-7152-6654>), Dean Attali [ctb]
Maintainer: Samer Mouksassi <samermouksassi@gmail.com>

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Package agRee updated to version 0.5-3 with previous version 0.5-2 dated 2018-07-08

Title: Various Methods for Measuring Agreement
Description: Bland-Altman plot and scatter plot with identity line for visualization and point and interval estimates for different metrics related to reproducibility/repeatability/agreement including the concordance correlation coefficient, intraclass correlation coefficient, within-subject coefficient of variation, smallest detectable difference, and mean normalized smallest detectable difference.
Author: Dai Feng
Maintainer: Dai Feng <daifeng.stat@gmail.com>

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Package sjmisc updated to version 2.8.4 with previous version 2.8.3 dated 2020-01-10

Title: Data and Variable Transformation Functions
Description: Collection of miscellaneous utility functions, supporting data transformation tasks like recoding, dichotomizing or grouping variables, setting and replacing missing values. The data transformation functions also support labelled data, and all integrate seamlessly into a 'tidyverse'-workflow.
Author: Daniel Lüdecke [aut, cre] (<https://orcid.org/0000-0002-8895-3206>), Iago Giné-Vázquez [ctb], Alexander Bartel [ctb] (<https://orcid.org/0000-0002-1280-6138>)
Maintainer: Daniel Lüdecke <d.luedecke@uke.de>

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Package auk updated to version 0.4.1 with previous version 0.4.0 dated 2019-09-23

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>

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Package ODEnetwork updated to version 1.3.2 with previous version 1.3.1 dated 2018-05-22

Title: Network of Differential Equations
Description: Simulates a network of ordinary differential equations of order two. The package provides an easy interface to construct networks. In addition you are able to define different external triggers to manipulate the trajectory. The method is described by Surmann, Ligges, and Weihs (2014) <doi:10.1109/ENERGYCON.2014.6850482>.
Author: Dirk Surmann [aut, cre] (<https://orcid.org/0000-0003-0873-137X>)
Maintainer: Dirk Surmann <surmann@statistik.tu-dortmund.de>

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New package infinitefactor with initial version 1.0
Package: infinitefactor
Type: Package
Title: Bayesian Infinite Factor Models
Version: 1.0
Date: 2020-03-30
Author: Evan Poworoznek
Maintainer: Evan Poworoznek <infinitefactorpackage@gmail.com>
Description: Sampler and post-processing functions for semi-parametric Bayesian infinite factor models, motivated by the Multiplicative Gamma Shrinkage Prior of Bhattacharya and Dunson (2011) <https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3419391/>. Contains component C++ functions for building samplers for linear and 2-way interaction factor models using the multiplicative gamma and Dirichlet-Laplace shrinkage priors. The package also contains post processing functions to return matrices that display rotational ambiguity to identifiability through successive application of orthogonalization procedures and resolution of column label and sign switching. This package was developed with the support of the National Institute of Environmental Health Sciences grant 1R01ES028804-01.
License: GPL-2
Imports: Rcpp (>= 1.0.2)
Depends: reshape2, ggplot2, stats, utils
LinkingTo: Rcpp, RcppArmadillo
NeedsCompilation: yes
Packaged: 2020-03-30 20:40:00 UTC; evan
Repository: CRAN
Date/Publication: 2020-04-03 13:00:02 UTC

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Package gdtools updated to version 0.2.2 with previous version 0.2.1 dated 2019-10-14

Title: Utilities for Graphical Rendering
Description: Useful tools for writing vector graphics devices.
Author: David Gohel [aut, cre], Hadley Wickham [aut], Lionel Henry [aut], Jeroen Ooms [aut] (<https://orcid.org/0000-0002-4035-0289>), Yixuan Qiu [ctb], R Core Team [cph] (Cairo code from X11 device), RStudio [cph]
Maintainer: David Gohel <david.gohel@ardata.fr>

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Package xslt updated to version 1.4 with previous version 1.3 dated 2017-11-18

Title: Extensible Style-Sheet Language Transformations
Description: An extension for the 'xml2' package to transform XML documents by applying an 'xslt' style-sheet.
Author: Jeroen Ooms [aut, cre] (<https://orcid.org/0000-0002-4035-0289>)
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>

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Package ImpactEffectsize updated to version 0.4.0 with previous version 0.3.2 dated 2020-02-03

Title: Calculation and Visualization of the Impact Effect Size Measure
Description: A non-parametric effect size measure capturing changes in central tendency or shape of data distributions. The package provides the necessary functions to calculate and plot the Impact effect size measure between two groups.
Author: Jorn Lotsch[aut,cre], Alfred Ultsch[aut]
Maintainer: Jorn Lotsch <j.loetsch@em.uni-frankfurt.de>

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Package bigchess updated to version 1.7.1 with previous version 1.7.0 dated 2020-01-31

Title: Read, Manipulate, Explore Chess PGN Files and R API to UCI Chess Engines
Description: Provides functions for reading *.PGN files with more than one game, including large files without copying it into RAM (using 'ff' package or 'RSQLite' package). Handle chess data and chess aggregated data, count figure moves statistics, create player profile, plot winning chances, browse openings. Set of functions of R API to communicate with UCI-protocol based chess engines.
Author: Wojciech Rosa
Maintainer: Wojciech Rosa <w.rosa@pollub.pl>

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Package Pareto updated to version 1.1.5 with previous version 1.1.3 dated 2020-02-13

Title: The Pareto and the Piecewise Pareto Distribution
Description: Utilities for the Pareto and piecewise Pareto distribution that are useful for reinsurance pricing. In particular, the package provides a non-trivial algorithm that can be used to match the expected losses of a tower of reinsurance layers with a layer-independent collective risk model. The theoretical background of the matching algorithm and most other methods are described in Ulrich Riegel (2018) <doi:10.1007/s13385-018-0177-3>.
Author: Ulrich Riegel [aut, cre]
Maintainer: Ulrich Riegel <ulrich.riegel@gmx.de>

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Package padr updated to version 0.5.1 with previous version 0.5.0 dated 2019-06-11

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

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Package mFLICA updated to version 0.1.1 with previous version 0.1.0 dated 2020-02-11

Title: Leadership-Inference Framework for Multivariate Time Series
Description: A leadership-inference framework for multivariate time series. The framework for multiple-faction-leadership inference from coordinated activities or 'mFLICA' uses a notion of a leader as an individual who initiates collective patterns that everyone in a group follows. Given a set of time series of individual activities, our goal is to identify periods of coordinated activity, find factions of coordination if more than one exist, as well as identify leaders of each faction. For each time step, the framework infers following relations between individual time series, then identifying a leader of each faction whom many individuals follow but it follows no one. A faction is defined as a group of individuals that everyone follows the same leader. 'mFLICA' reports following relations, leaders of factions, and members of each faction for each time step. Please see Chainarong Amornbunchornvej and Tanya Berger-Wolf (2018) <doi:10.1137/1.9781611975321.62> when referring to this package in publications.
Author: Chainarong Amornbunchornvej [aut, cre] (<https://orcid.org/0000-0003-3131-0370>)
Maintainer: Chainarong Amornbunchornvej <grandca@gmail.com>

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Package bipartite updated to version 2.15 with previous version 2.14 dated 2020-01-08

Title: Visualising Bipartite Networks and Calculating Some (Ecological) Indices
Description: Functions to visualise webs and calculate a series of indices commonly used to describe pattern in (ecological) webs. It focuses on webs consisting of only two levels (bipartite), e.g. pollination webs or predator-prey-webs. Visualisation is important to get an idea of what we are actually looking at, while the indices summarise different aspects of the web's topology.
Author: Carsten F. Dormann, Jochen Fruend and Bernd Gruber, with additional code from Stephen Beckett, Mariano Devoto, Gabriel Felix, Jose Iriondo, Tove Opsahl, Rafael Pinheiro, Rouven Strauss and Diego Vazquez, also based on C-code developed by Nils Bluethgen, Aaron Clauset/Rouven Strauss and Miguel Rodriguez-Girones
Maintainer: Carsten F. Dormann <carsten.dormann@biom.uni-freiburg.de>

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Package plsVarSel updated to version 0.9.6 with previous version 0.9.5 dated 2020-02-03

Title: Variable Selection in Partial Least Squares
Description: Interfaces and methods for variable selection in Partial Least Squares. The methods include filter methods, wrapper methods and embedded methods. Both regression and classification is supported.
Author: Kristian Hovde Liland, Tahir Mehmood, Solve Sæbø
Maintainer: Kristian Hovde Liland <kristian.liland@nmbu.no>

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Package checkdown updated to version 0.0.3 with previous version 0.0.2 dated 2020-03-18

Title: Check-Fields and Check-Boxes for 'rmarkdown'
Description: Creates auto checking check-fields and check-boxes for 'rmarkdown' html. It could be used in class, when teacher share materials and tasks, so student can solve some problems and check themselves. In contrast with the 'learnr' package the 'checkdown' package works without 'shiny'.
Author: George Moroz
Maintainer: George Moroz <agricolamz@gmail.com>

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Package timeperiodsR updated to version 0.6.2 with previous version 0.6.1 dated 2020-01-09

Title: Simple Definition Of Time Intervals
Description: Simple definition of time intervals for the current, previous, and next week, month, quarter and year.
Author: Alexey Seleznev [aut, cre]
Maintainer: Alexey Seleznev <selesnow@gmail.com>

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Package pubmedR updated to version 0.0.2 with previous version 0.0.1 dated 2020-03-20

Title: Gathering Metadata About Publications, Grants, Clinical Trials from 'PubMed' Database
Description: A set of tools to extract bibliographic content from 'PubMed' database using 'NCBI' REST API <https://www.ncbi.nlm.nih.gov/home/develop/api/>.
Author: Massimo Aria [aut, cre] (<https://orcid.org/0000-0002-8517-9411>)
Maintainer: Massimo Aria <massimo.aria@gmail.com>

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Package dirichletprocess updated to version 0.3.1.1 with previous version 0.3.1 dated 2019-12-11

Title: Build Dirichlet Process Objects for Bayesian Modelling
Description: Perform nonparametric Bayesian analysis using Dirichlet processes without the need to program the inference algorithms. Utilise included pre-built models or specify custom models and allow the 'dirichletprocess' package to handle the Markov chain Monte Carlo sampling. Our Dirichlet process objects can act as building blocks for a variety of statistical models including and not limited to: density estimation, clustering and prior distributions in hierarchical models. See Teh, Y. W. (2011) <https://www.stats.ox.ac.uk/~teh/research/npbayes/Teh2010a.pdf>, among many other sources.
Author: Gordon J. Ross [aut], Dean Markwick [aut, cre], Kees Mulder [ctb] (<https://orcid.org/0000-0002-5387-3812>)
Maintainer: Dean Markwick <dean.markwick@talk21.com>

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2019-07-22 0.1.1
2019-06-19 0.1.0

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Package eiCompare (with last version 2.1) was removed from CRAN

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2017-06-16 2.1
2017-03-07 1.9
2017-02-26 1.8
2016-09-06 1.7
2016-01-06 1.6

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Package DBHC (with last version 0.0.2) was removed from CRAN

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2018-04-13 0.0.2

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

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2019-05-04 1.0.1

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Package FLAME (with last version 1.0.0) was removed from CRAN

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2018-12-17 1.0.0

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Package DDPNA (with last version 0.2.4) was removed from CRAN

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2020-04-01 0.2.4
2020-02-12 0.2.3
2019-06-15 0.2.1

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Package ClinReport (with last version 0.9.1.14) was removed from CRAN

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2019-09-03 0.9.1.14
2019-08-07 0.9.1.13.1
2019-04-02 0.9.1.12
2019-03-12 0.9.1.11
2019-03-05 0.9.1.10
2019-02-27 0.9.1.8
2019-02-19 0.9.1.6
2019-02-08 0.9.1.1

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Package GENLIB (with last version 1.0.7) was removed from CRAN

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2020-02-28 1.0.7
2018-05-30 1.0.6
2015-04-21 1.0.4
2015-03-20 1.0.3
2014-12-04 1.0.2
2014-09-26 1.0.1
2014-09-22 1.0

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Package IPCAPS (with last version 1.1.5) was removed from CRAN

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2018-06-14 1.1.5

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Package DramaAnalysis (with last version 3.0.1) was removed from CRAN

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2020-01-13 3.0.1
2019-07-10 3.0.0

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Package DTAT (with last version 0.3-3) was removed from CRAN

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2019-06-26 0.3-3
2019-06-04 0.3-2
2019-02-20 0.3-1
2019-02-18 0.3-0

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Package BANOVA (with last version 1.1.6) was removed from CRAN

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2020-01-15 1.1.6
2020-01-10 1.1.5
2019-08-24 1.1.4
2019-07-21 1.1.3
2019-01-27 1.1.2
2018-01-22 1.1.1
2018-01-09 1.1.0
2017-11-05 1.0.0
2017-09-01 0.9.1
2017-07-08 0.9
2016-12-16 0.8
2016-08-25 0.7
2016-08-01 0.6
2016-04-03 0.5
2016-03-25 0.4
2014-06-29 0.2
2014-06-27 0.1

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Package BayesianFROC (with last version 0.2.2) was removed from CRAN

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2020-03-17 0.2.2
2020-01-19 0.2.1
2019-10-25 0.2.0
2019-08-02 0.1.5
2019-07-03 0.1.4
2019-06-11 0.1.3
2019-05-28 0.1.2
2019-05-09 0.1.1

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

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2019-12-03 0.1.1
2019-05-12 0.1.0
2019-01-19 0.0.3
2018-11-15 0.0.2

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Package survey updated to version 4.0 with previous version 3.37 dated 2020-01-21

Title: Analysis of Complex Survey Samples
Description: Summary statistics, two-sample tests, rank tests, generalised linear models, cumulative link models, Cox models, loglinear models, and general maximum pseudolikelihood estimation for multistage stratified, cluster-sampled, unequally weighted survey samples. Variances by Taylor series linearisation or replicate weights. Post-stratification, calibration, and raking. Two-phase subsampling designs. Graphics. PPS sampling without replacement. Principal components, factor analysis.
Author: Thomas Lumley
Maintainer: "Thomas Lumley" <t.lumley@auckland.ac.nz>

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Package robmixglm updated to version 1.0-3 with previous version 1.0-2 dated 2018-07-31

Title: Robust Generalized Linear Models (GLM) using Mixtures
Description: Robust generalized linear models (GLM) using a mixture method, as described in Beath (2018) <doi:10.1080/02664763.2017.1414164>. This assumes that the data are a mixture of standard observations, being a generalised linear model, and outlier observations from an overdispersed generalized linear model. The overdispersed linear model is obtained by including a normally distributed random effect in the linear predictor of the generalized linear model.
Author: Ken Beath [aut, cre]
Maintainer: Ken Beath <ken.beath@mq.edu.au>

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Package SignifReg updated to version 2.1.1 with previous version 2.1 dated 2019-06-26

Title: Consistent Significance Controlled Variable Selection in Linear Regression
Description: Provide consistent significance controlled variable selection procedure with different directions (forward, backward, stepwise) based on diverse criteria (AIC, BIC, adjusted r-square, and p-value). The algorithm selects a final model with only significant variables based on a correction choice of False Discovery Rate, Bonferroni, or no correction.
Author: Jongwook Kim, Adriano Zanin Zambom
Maintainer: Jongwook Kim <jongwook226@gmail.com>

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Package hts updated to version 6.0.0 with previous version 5.1.5 dated 2018-03-26

Title: Hierarchical and Grouped Time Series
Description: Provides methods for analysing and forecasting hierarchical and grouped time series. The available forecast methods include bottom-up, top-down, optimal combination reconciliation (Hyndman et al. 2011) <doi:10.1016/j.csda.2011.03.006>, and trace minimization reconciliation (Wickramasuriya et al. 2018) <doi:10.1080/01621459.2018.1448825>.
Author: Rob Hyndman [aut] (Package creator), Alan Lee [aut] (Fast computation using recursive methods), Earo Wang [aut, cre], Shanika Wickramasuriya [aut] (Reconciliation via trace minimization)
Maintainer: Earo Wang <earo.wang@gmail.com>

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Package DisImpact updated to version 0.0.7 with previous version 0.0.6 dated 2020-03-24

Title: Calculates Disproportionate Impact When Binary Success Data are Disaggregated by Subgroups
Description: Implements methods for calculating disproportionate impact: the percentage point gap, proportionality index, and the 80% index. California Community Colleges Chancellor's Office (2017). Percentage Point Gap Method. <https://www.cccco.edu/-/media/CCCCO-Website/About-Us/Divisions/Digital-Innovation-and-Infrastructure/Research/Files/PercentagePointGapMethod2017.ashx>. California Community Colleges Chancellor's Office (2014). Guidelines for Measuring Disproportionate Impact in Equity Plans. <https://www.cccco.edu/-/media/CCCCO-Website/About-Us/Divisions/Digital-Innovation-and-Infrastructure/Network-Operations/Accountability/Files/GUIDELINES-FOR-MEASURING-DISPROPORTIONATE-IMPACT-IN-EQUITY-PLANS.ashx>.
Author: Vinh Nguyen [aut, cre]
Maintainer: Vinh Nguyen <nguyenvq714@gmail.com>

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Package autocogs updated to version 0.1.3 with previous version 0.1.2 dated 2019-02-11

Title: Automatic Cognostic Summaries
Description: Automatically calculates cognostic groups for plot objects and list column plot objects. Results are returned in a nested data frame.
Author: Barret Schloerke [aut], Ryan Hafen [ths, cre]
Maintainer: Ryan Hafen <rhafen@gmail.com>

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