Sun, 14 Jun 2020

New package datos with initial version 0.3.0
Package: datos
Title: Traduce al Español Varios Conjuntos de Datos de Práctica
Version: 0.3.0
Authors@R: c(person(given = "Riva", family = "Quiroga", role = c("aut", "cre"), email = "riva.quiroga@uc.cl", comment = c(ORCID = "0000-0002-1147-4135")), person(given = "Edgar", family = "Ruiz", role = "aut", email = "edgararuiz@gmail.com"), person(given = "Mauricio", family = "Vargas", role = "aut", email = "mvargas@dcc.uchile.cl"), person(given = "Mauro", family = "Lepore", role = "aut", email = "maurolepore@gmail.com"), person(given = "Rayna", family = "Harris", role = "ctb", email = "rayna.harris@gmail.com"), person(given = "Daniela", family = "Vasquez", role = "ctb", email = "daniela.vazquez@gmail.com"))
Description: Provee una versión traducida de los siguientes conjuntos de datos: 'airlines', 'airports', 'AwardsManagers', 'babynames', 'Batting', 'diamonds', 'faithful', 'fueleconomy', 'Fielding', 'flights', 'gapminder', 'gss_cat', 'iris', 'Managers', 'mpg', 'mtcars', 'atmos', 'People, 'Pitching', 'planes', 'presidential', 'table1', 'table2', 'table3', 'table4a', 'table4b', 'table5', 'vehicles', 'weather', 'who'. English: It provides a Spanish translated version of the datasets listed above.
License: CC0
URL: https://github.com/cienciadedatos/datos
BugReports: https://github.com/cienciadedatos/datos/issues
Depends: R (>= 3.5.0)
Imports: babynames, dplyr, forcats, fueleconomy, gapminder, ggplot2, Lahman, nasaweather, nycflights13, rlang, tibble, tidyr, yaml
Suggests: covr, testthat (>= 2.1.0)
ByteCompile: true
Encoding: UTF-8
Language: es
LazyData: true
RoxygenNote: 7.1.0
NeedsCompilation: no
Packaged: 2020-06-13 22:24:09 UTC; ciruelo
Author: Riva Quiroga [aut, cre] (<https://orcid.org/0000-0002-1147-4135>), Edgar Ruiz [aut], Mauricio Vargas [aut], Mauro Lepore [aut], Rayna Harris [ctb], Daniela Vasquez [ctb]
Maintainer: Riva Quiroga <riva.quiroga@uc.cl>
Repository: CRAN
Date/Publication: 2020-06-15 00:10:02 UTC

More information about datos at CRAN
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Package ggfittext updated to version 0.9.0 with previous version 0.8.1 dated 2019-07-18

Title: Fit Text Inside a Box in 'ggplot2'
Description: Provides 'ggplot2' geoms to fit text into a box by growing, shrinking or wrapping the text.
Author: David Wilkins [aut, cre]
Maintainer: David Wilkins <david@wilkox.org>

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Package circlize updated to version 0.4.10 with previous version 0.4.9 dated 2020-04-30

Title: Circular Visualization
Description: Circular layout is an efficient way for the visualization of huge amounts of information. Here this package provides an implementation of circular layout generation in R as well as an enhancement of available software. The flexibility of the package is based on the usage of low-level graphics functions such that self-defined high-level graphics can be easily implemented by users for specific purposes. Together with the seamless connection between the powerful computational and visual environment in R, it gives users more convenience and freedom to design figures for better understanding complex patterns behind multiple dimensional data. The package is described in Gu et al. 2014 <doi:10.1093/bioinformatics/btu393>.
Author: Zuguang Gu
Maintainer: Zuguang Gu <z.gu@dkfz.de>

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Package MomTrunc updated to version 5.89 with previous version 5.87 dated 2020-04-12

Title: Moments of Folded and Doubly Truncated Multivariate Distributions
Description: It computes arbitrary products moments (mean vector and variance-covariance matrix), for some double truncated (and folded) multivariate distributions. These distributions belong to the family of selection elliptical distributions, which includes well known skewed distributions as the unified skew-t distribution (SUT) and its particular cases as the extended skew-t (EST), skew-t (ST) and the symmetric student-t (T) distribution. Analogous normal cases unified skew-normal (SUN), extended skew-normal (ESN), skew-normal (SN), and symmetric normal (N) are also included. Density, probabilities and random deviates are also offered for these members. References used for this package: Arellano-Valle, R. B. & Genton, M. G. (2005). On fundamental skew distributions. Journal of Multivariate Analysis, 96, 93-116. Galarza C.E., Matos L.A., Dey D.K. & Lachos V.H. (2019) On Moments of Folded and Truncated Multivariate Extended Skew-Normal Distributions. Technical report. ID 19-14. University of Connecticut. <https://stat.uconn.edu/tech-reports-2019/>.
Author: Christian E. Galarza, Raymond Kan and Victor H. Lachos
Maintainer: Christian E. Galarza <cgalarza88@gmail.com>

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Package rayimage updated to version 0.3.0 with previous version 0.2.7 dated 2020-04-12

Title: Image Processing for Simulated Cameras
Description: Uses convolution-based techniques to generate simulated camera bokeh, depth of field, and other camera effects, using an image and an optional depth map. Accepts both filename inputs and in-memory array representations of images and matrices. Includes functions to perform 2D convolutions, reorient and resize images/matrices, add image overlays, generate camera vignette effects, and add titles to images.
Author: Tyler Morgan-Wall
Maintainer: Tyler Morgan-Wall <tylermw@gmail.com>

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Package morphomap updated to version 1.2 with previous version 1.1 dated 2020-01-12

Title: Morphometric Maps, Bone Landmarking and Cross Sectional Geometry
Description: Extract cross sections from long bone meshes at specified intervals along the diaphysis. Calculate two and three-dimensional morphometric maps, cross-sectional geometric parameters, and semilandmarks on the periosteal and endosteal contours of each cross section.
Author: Antonio Profico [aut, cre], Luca Bondioli [aut], Pasquale Raia [aut], Julien Claude [ctb], Paul O'Higgins [aut], Damiano Marchi [aut]
Maintainer: Antonio Profico <antonio.profico@gmail.com>

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Package eNetXplorer updated to version 1.1.1 with previous version 1.1.0 dated 2019-09-20

Title: Quantitative Exploration of Elastic Net Families for Generalized Linear Models
Description: Provides a quantitative toolkit to explore elastic net families and to uncover correlates contributing to prediction under a cross-validation framework. Fits linear, binomial (logistic), multinomial and Cox regression models. Candia J and Tsang JS, BMC Bioinformatics (2019) 20:189 <doi:10.1186/s12859-019-2778-5>.
Author: Julian Candia and John S. Tsang
Maintainer: Julian Candia <julian.candia@nih.gov>

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Package mediationsens updated to version 0.0.2 with previous version 0.0.1 dated 2020-05-26

Title: Simulation-Based Sensitivity Analysis for Causal Mediation Studies
Description: Simulation-based sensitivity analysis for causal mediation studies. It numerically and graphically evaluates the sensitivity of causal mediation analysis results to the presence of unmeasured pretreatment confounding. The proposed method has primary advantages over existing methods. First, using an unmeasured pretreatment confounder conditional associations with the treatment, mediator, and outcome as sensitivity parameters, the method enables users to intuitively assess sensitivity in reference to prior knowledge about the strength of a potential unmeasured pretreatment confounder. Second, the method accurately reflects the influence of unmeasured pretreatment confounding on the efficiency of estimation of the causal effects. Third, the method can be implemented in different causal mediation analysis approaches, including regression-based, simulation-based, and propensity score-based methods. It is applicable to both randomized experiments and observational studies.
Author: Xu Qin and Fan Yang
Maintainer: Xu Qin <xuqin@pitt.edu>

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Package immunarch updated to version 0.6.5 with previous version 0.6.4 dated 2020-05-13

Title: Bioinformatics Analysis of T-Cell and B-Cell Immune Repertoires
Description: A comprehensive framework for bioinformatics exploratory analysis of bulk and single-cell T-cell receptor and antibody repertoires. It provides seamless data loading, analysis and visualisation for AIRR (Adaptive Immune Receptor Repertoire) data, both bulk immunosequencing (RepSeq) and single-cell sequencing (scRNAseq). It implements most of the widely used AIRR analysis methods, such as: clonality analysis, estimation of repertoire similarities in distribution of clonotypes and gene segments, repertoire diversity analysis, annotation of clonotypes using external immune receptor databases and clonotype tracking in vaccination and cancer studies. A successor to our previously published 'tcR' immunoinformatics package (Nazarov 2015) <doi:10.1186/s12859-015-0613-1>.
Author: Vadim I. Nazarov [aut, cre], Vasily O. Tsvetkov [aut], Eugene Rumynskiy [aut], Anna Lorenc [ctb], Daniel J. Moore [ctb], Victor Greiff [ctb], ImmunoMind [cph, fnd]
Maintainer: Vadim I. Nazarov <vdm.nazarov@gmail.com>

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Package gwsem updated to version 2.0.5 with previous version 0.1.17 dated 2020-03-27

Title: Genome-Wide Structural Equation Modeling
Description: Melds genome-wide association tests with structural equation modeling (SEM) using 'OpenMx'. This package contains low-level C/C++ code to rapidly read genetic data encoded in U.K. Biobank or 'plink' formats. Prebuilt modeling options include one and two factor models. Alternately, analyses may utilize arbitrary, user-provided SEMs. See Verhulst, Maes, & Neale (2017) <doi:10.1007/s10519-017-9842-6> for details. An updated manuscript is in preparation.
Author: Joshua N. Pritikin [aut, cre], Bradley Verhulst [cph], Gavin Band [cph], Yann Collet [cph], Facebook, Inc. [cph], Yuta Mori [cph], Shaun Purcell [cph], Christopher Chang [cph], Wojciech Mula [cph], Kim Walisch [cph]
Maintainer: Joshua N. Pritikin <jpritikin@pobox.com>

Diff between gwsem versions 0.1.17 dated 2020-03-27 and 2.0.5 dated 2020-06-14

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Package smoothedLasso updated to version 1.3 with previous version 1.2 dated 2020-06-01

Title: Smoothed LASSO Regression via Nesterov Smoothing
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.
Author: Georg Hahn [aut,cre], Sharon M. Lutz [ctb], Nilanjana Laha [ctb], Christoph Lange [ctb]
Maintainer: Georg Hahn <ghahn@hsph.harvard.edu>

Diff between smoothedLasso versions 1.2 dated 2020-06-01 and 1.3 dated 2020-06-14

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Package lpSolveAPI updated to version 5.5.2.0-17.7 with previous version 5.5.2.0-17.6 dated 2020-01-10

Title: R Interface to 'lp_solve' Version 5.5.2.0
Description: The lpSolveAPI package provides an R interface to 'lp_solve', a Mixed Integer Linear Programming (MILP) solver with support for pure linear, (mixed) integer/binary, semi-continuous and special ordered sets (SOS) models.
Author: lp_solve <http://lpsolve.sourceforge.net/> [aut], Kjell Konis [aut], Florian Schwendinger [aut, cre]
Maintainer: Florian Schwendinger <FlorianSchwendinger@gmx.at>

Diff between lpSolveAPI versions 5.5.2.0-17.6 dated 2020-01-10 and 5.5.2.0-17.7 dated 2020-06-14

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Package locStra updated to version 1.4 with previous version 1.3 dated 2020-02-26

Title: Fast Implementation of (Local) Population Stratification Methods
Description: Fast and fully sparse 'cpp' implementations to compute the genetic covariance matrix, the genomic relationship matrix, the Jaccard matrix, and the s-matrix of an input matrix. Full support for sparse matrices from the R-package 'Matrix'. Additionally, a 'cpp' implementation of the power method (von Mises iteration) algorithm to compute the largest eigenvector of a matrix is included, and a function to compute sliding windows.
Author: Georg Hahn [aut,cre], Sharon M. Lutz [ctb], Christoph Lange [ctb]
Maintainer: Georg Hahn <ghahn@hsph.harvard.edu>

Diff between locStra versions 1.3 dated 2020-02-26 and 1.4 dated 2020-06-14

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New package gretlR with initial version 0.1.0
Package: gretlR
Type: Package
Title: Knit-Engine for 'Gretl'
Version: 0.1.0
Author: Sagiru Mati [aut, cre]
Authors@R: c( person("Sagiru", "Mati", role = c("aut", "cre"), email = "smati@smati.com.ng"))
Maintainer: Sagiru Mati <smati@smati.com.ng>
Description: It allows running 'gretl' (<http://gretl.sourceforge.net/index.html>) program from R Markdown. 'gretl' ('Gnu' Regression, 'Econometrics', and Time-series Library) is a statistical software for Econometric analysis. This package serves as a 'gretl' Knit-Engine for 'knitr' package. Write all your 'gretl' commands in R Markdown chunk.
Depends: R (>= 3.2.3)
Imports: knitr (>= 1.20)
SystemRequirements: gretl (>= 1.9.4)
License: GPL
URL: https://github.com/sagirumati/gretlR/
BugReports: https://github.com/sagirumati/gretlR/issues
Encoding: UTF-8
VignetteBuilder: knitr
RoxygenNote: 7.1.0
NeedsCompilation: no
Packaged: 2020-06-09 18:55:32 UTC; SMATI
Repository: CRAN
LazyData: true
Date/Publication: 2020-06-14 16:10:02 UTC

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Package gRain updated to version 1.3-5 with previous version 1.3-4 dated 2020-02-20

Title: Graphical Independence Networks
Description: Probability propagation in graphical independence networks, also known as Bayesian networks or probabilistic expert systems.
Author: Søren Højsgaard <sorenh@math.aau.dk>
Maintainer: Søren Højsgaard <sorenh@math.aau.dk>

Diff between gRain versions 1.3-4 dated 2020-02-20 and 1.3-5 dated 2020-06-14

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New package gpindex with initial version 0.1.1
Package: gpindex
Title: Generalized Price and Quantity Indexes
Version: 0.1.1
Date: 2020-06-09
Authors@R: c( person(given = "Steve", family = "Martin", role = c("aut", "cre", "cph"), email = "stevemartin041@gmail.com") )
Description: A small package for calculating lots of different price indexes, and by extension quantity indexes. Provides tools to build and work with any type of generalized bilateral index (of which most price indexes are), along with a few important indexes that don't belong to the generalized family. Implements and extends many of the methods in Balk (2008, ISBN:978-1-107-40496-0) and ILO, IMF, OECD, Eurostat, UN, and World Bank (2004, ISBN:92-2-113699-X) for bilateral price indexes.
Depends: R (>= 4.0)
License: MIT + file LICENSE
Encoding: UTF-8
URL: https://github.com/marberts/gpindex
LazyData: true
NeedsCompilation: no
Packaged: 2020-06-09 18:54:22 UTC; steve
Author: Steve Martin [aut, cre, cph]
Maintainer: Steve Martin <stevemartin041@gmail.com>
Repository: CRAN
Date/Publication: 2020-06-14 16:20:07 UTC

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New package ggdist with initial version 2.1.1
Package: ggdist
Title: Visualizations of Distributions and Uncertainty
Version: 2.1.1
Date: 2020-06-09
Authors@R: c( person("Matthew", "Kay", role = c("aut", "cre"), email = "mjskay@umich.edu") )
Maintainer: Matthew Kay <mjskay@umich.edu>
Description: Provides primitives for visualizing distributions using 'ggplot2' that are particularly tuned for visualizing uncertainty in either a frequentist or Bayesian mode. Both analytical distributions (such as frequentist confidence distributions or Bayesian priors) and distributions represented as samples (such as bootstrap distributions or Bayesian posterior samples) are easily visualized. Visualization primitives include but are not limited to: points with multiple uncertainty intervals, eye plots (Spiegelhalter D., 1999) <doi:10.1111/1467-985X.00120>, density plots, gradient plots, dot plots (Wilkinson L., 1999) <doi:10.1080/00031305.1999.10474474>, quantile dot plots (Kay M., Kola T., Hullman J., Munson S., 2016) <doi:10.1145/2858036.2858558>, complementary cumulative distribution function barplots (Fernandes M., Walls L., Munson S., Hullman J., Kay M., 2018) <doi:10.1145/3173574.3173718>, and fit curves with multiple uncertainty ribbons.
Depends: R (>= 3.5.0)
Imports: plyr, dplyr (>= 0.8.0), tidyr (>= 1.0.0), ggplot2 (>= 3.3.0), purrr (>= 0.2.3), rlang (>= 0.3.0), scales, grid, forcats, HDInterval, tibble
Suggests: knitr, testthat, vdiffr (>= 0.3.0), svglite, broom (>= 0.4.3), modelr, cowplot, covr, gdtools, rmarkdown, ggrepel, RColorBrewer, png, pkgdown
License: GPL (>= 3)
Language: en-US
BugReports: https://github.com/mjskay/ggdist/issues/new
URL: http://mjskay.github.io/ggdist, https://github.com/mjskay/ggdist
VignetteBuilder: knitr
RoxygenNote: 7.1.0
LazyData: true
Encoding: UTF-8
Collate: "ggdist-package.R" "binning_methods.R" "data.R" "draw_key_slabinterval.R" "geom.R" "geom_slabinterval.R" "geom_dotsinterval.R" "geom_interval.R" "geom_lineribbon.R" "geom_pointinterval.R" "lkjcorr_marginal.R" "parse_dist.R" "point_interval.R" "scales.R" "stat.R" "stat_slabinterval.R" "stat_dist_slabinterval.R" "stat_sample_slabinterval.R" "stat_dotsinterval.R" "stat_pointinterval.R" "stat_interval.R" "stat_lineribbon.R" "student_t.R" "theme_ggdist.R" "tidy_format_translators.R" "util.R"
NeedsCompilation: no
Packaged: 2020-06-10 04:33:19 UTC; matth
Author: Matthew Kay [aut, cre]
Repository: CRAN
Date/Publication: 2020-06-14 16:30:08 UTC

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Package getLattes updated to version 0.1.1 with previous version 0.1.0 dated 2020-06-12

Title: Import and Process Data from the 'Lattes' Curriculum Platform
Description: Tool for import and process data from 'Lattes' curriculum platform (<http://lattes.cnpq.br/>). The Brazilian government keeps an extensive base of curricula for academics from all over the country, with over 5 million registrations. The academic life of the Brazilian researcher, or related to Brazilian universities, is documented in 'Lattes'. Some information that can be obtained: professional formation, research area, publications, academics advisories, projects, etc. 'getLattes' package allows work with 'Lattes' data exported to XML format.
Author: Roney Fraga Souza [aut, cre] (<https://orcid.org/0000-0001-5750-489X>), Winicius Sabino [aut]
Maintainer: Roney Fraga Souza <roneyfraga@gmail.com>

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Package clustree updated to version 0.4.3 with previous version 0.4.2 dated 2020-01-29

Title: Visualise Clusterings at Different Resolutions
Description: Deciding what resolution to use can be a difficult question when approaching a clustering analysis. One way to approach this problem is to look at how samples move as the number of clusters increases. This package allows you to produce clustering trees, a visualisation for interrogating clusterings as resolution increases.
Author: Luke Zappia [aut, cre] (<https://orcid.org/0000-0001-7744-8565>), Alicia Oshlack [aut] (<https://orcid.org/0000-0001-9788-5690>), Andrea Rau [ctb], Paul Hoffman [ctb] (<https://orcid.org/0000-0002-7693-8957>)
Maintainer: Luke Zappia <luke@lazappi.id.au>

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Package utile.tables updated to version 0.2.1 with previous version 0.2.0 dated 2020-05-01

Title: Build Tables for Publication
Description: A collection of functions to make building customized ready-to-export tables for publication purposes easier and creating summaries of large datasets for review a breeze.
Author: Eric Finnesgard [aut, cre], Jennifer Grauberger [aut]
Maintainer: Eric Finnesgard <efinite@outlook.com>

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Package Rmixmod updated to version 2.1.5 with previous version 2.1.4 dated 2020-05-30

Title: Classification with Mixture Modelling
Description: Interface of 'MIXMOD' software for supervised, unsupervised and semi-supervised classification with mixture modelling.
Author: Florent Langrognet [aut], Remi Lebret [aut], Christian Poli [aut], Serge Iovleff [aut], Benjamin Auder [aut], Parmeet Bhatia [ctb], Anwuli Echenim [ctb], Serge Iovleff [aut], Christophe Biernacki [ctb], Gilles Celeux [ctb], Gerard Govaert [ctb], Quentin Grimonprez [cre]
Maintainer: Quentin Grimonprez <quentin.grimonprez@inria.fr>

Diff between Rmixmod versions 2.1.4 dated 2020-05-30 and 2.1.5 dated 2020-06-14

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Package krige updated to version 0.5.5 with previous version 0.5.4 dated 2020-06-13

Title: Geospatial Kriging with Metropolis Sampling
Description: Estimates kriging models for geographical point-referenced data. Method is described in Monogan and Gill (2016) <doi:10.1017/psrm.2015.5>.
Author: Jason S. Byers [aut, cre], Le Bao [aut], James E. Monogan III [aut], Jamie Carson [aut], Jeff Gill [aut]
Maintainer: Jason S. Byers <jaybyers55@gmail.com>

Diff between krige versions 0.5.4 dated 2020-06-13 and 0.5.5 dated 2020-06-14

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Package iq updated to version 1.8 with previous version 1.7 dated 2020-05-26

Title: Protein Quantification in Mass Spectrometry-Based Proteomics
Description: An implementation of the maximal peptide ratio extraction module of the MaxLFQ algorithm by Cox et al. (2014) <doi:10.1074/mcp.M113.031591> in a complete pipeline for processing proteomics data in data-independent acquisition mode (Pham et al. 2020 <doi:10.1093/bioinformatics/btz961>). It offers additional options for protein quantification using the N most intense fragment ions, using all fragment ions, and a wrapper for the median polish algorithm by Tukey (1977, ISBN:0201076160).
Author: Thang Pham [aut, cre, cph, ctb] (<https://orcid.org/0000-0003-0333-2492>), Alex Henneman [ctb] (<https://orcid.org/0000-0002-3746-4410>)
Maintainer: Thang Pham <t.pham@amsterdamumc.nl>

Diff between iq versions 1.7 dated 2020-05-26 and 1.8 dated 2020-06-14

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Package GeneNet updated to version 1.2.15 with previous version 1.2.14 dated 2020-02-06

Title: Modeling and Inferring Gene Networks
Description: Analyzes gene expression (time series) data with focus on the inference of gene networks. In particular, GeneNet implements the methods of Schaefer and Strimmer (2005a,b,c) and Opgen-Rhein and Strimmer (2006, 2007) for learning large-scale gene association networks (including assignment of putative directions).
Author: Juliane Schaefer, Rainer Opgen-Rhein, and Korbinian Strimmer.
Maintainer: Korbinian Strimmer <strimmerlab@gmail.com>

Diff between GeneNet versions 1.2.14 dated 2020-02-06 and 1.2.15 dated 2020-06-14

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 8 files changed, 50 insertions(+), 30 deletions(-)

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Package amt updated to version 0.1.2 with previous version 0.1.1 dated 2020-04-28

Title: Animal Movement Tools
Description: Manage and analyze animal movement data. The functionality of 'amt' includes methods to calculate track statistics (e.g. step lengths, speed, or turning angles), prepare data for fitting habitat selection analyses (resource selection functions and step-selection functions <doi:10.1890/04-0953> and integrated step-selection functions <doi:10.1111/2041-210X.12528>), and simulation of space-use from fitted step-selection functions <doi:10.1002/ecs2.1771>.
Author: Johannes Signer [aut, cre], Bjoern Reineking [ctb], Brian Smith [ctb], Ulrike Schlaegel [ctb], Scott LaPoint [dtc]
Maintainer: Johannes Signer <jsigner@gwdg.de>

Diff between amt versions 0.1.1 dated 2020-04-28 and 0.1.2 dated 2020-06-14

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New package asciichartr with initial version 0.1.0
Package: asciichartr
Type: Package
Title: Lightweight ASCII Line Graphs
Version: 0.1.0
Author: Brian Lee Mayer
Maintainer: Brian <bleemayer@gmail.com>
Description: Create ASCII line graphs of a time series directly on your terminal in an easy way. There are some configurations you can add to make the plot the way you like. This project was inspired by the original 'asciichart' package by Igor Kroitor.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Imports: methods
RoxygenNote: 7.1.0
NeedsCompilation: no
Packaged: 2020-06-09 16:55:12 UTC; rstudio
Repository: CRAN
Date/Publication: 2020-06-14 15:10:02 UTC

More information about asciichartr at CRAN
Permanent link

New package AATtools with initial version 0.0.1
Package: AATtools
Type: Package
Title: Reliability and Scoring Routines for the Approach-Avoidance Task
Version: 0.0.1
Authors@R: person("Sercan", "Kahveci", email = "sercan.kahveci@sbg.ac.at", role = c("aut", "cre"))
Description: Compute approach bias scores using different scoring algorithms, compute bootstrapped and exact split-half reliability estimates, and compute confidence intervals for individual participant scores.
Depends: R (>= 3.6.0)
Imports: magrittr, dplyr, doParallel, foreach
License: GPL-3
Encoding: UTF-8
BugReports: https://github.com/Spiritspeak/AATtools/issues
LazyData: true
ByteCompile: true
RoxygenNote: 7.1.0
NeedsCompilation: no
Packaged: 2020-06-09 16:49:30 UTC; b1066151
Author: Sercan Kahveci [aut, cre]
Maintainer: Sercan Kahveci <sercan.kahveci@sbg.ac.at>
Repository: CRAN
Date/Publication: 2020-06-14 15:10:06 UTC

More information about AATtools at CRAN
Permanent link

Package xgboost updated to version 1.1.1.1 with previous version 1.0.0.2 dated 2020-03-25

Title: Extreme Gradient Boosting
Description: Extreme Gradient Boosting, which is an efficient implementation of the gradient boosting framework from Chen & Guestrin (2016) <doi:10.1145/2939672.2939785>. This package is its R interface. The package includes efficient linear model solver and tree learning algorithms. The package can automatically do parallel computation on a single machine which could be more than 10 times faster than existing gradient boosting packages. It supports various objective functions, including regression, classification and ranking. The package is made to be extensible, so that users are also allowed to define their own objectives easily.
Author: Tianqi Chen [aut], Tong He [aut, cre], Michael Benesty [aut], Vadim Khotilovich [aut], Yuan Tang [aut] (<https://orcid.org/0000-0001-5243-233X>), Hyunsu Cho [aut], Kailong Chen [aut], Rory Mitchell [aut], Ignacio Cano [aut], Tianyi Zhou [aut], Mu Li [aut], Junyuan Xie [aut], Min Lin [aut], Yifeng Geng [aut], Yutian Li [aut], XGBoost contributors [cph] (base XGBoost implementation)
Maintainer: Tong He <hetong007@gmail.com>

Diff between xgboost versions 1.0.0.2 dated 2020-03-25 and 1.1.1.1 dated 2020-06-14

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 172 files changed, 7260 insertions(+), 6030 deletions(-)

More information about xgboost at CRAN
Permanent link

New package tidygeoRSS with initial version 0.0.1
Package: tidygeoRSS
Type: Package
Title: Tidy GeoRSS
Version: 0.0.1
Author: Robert Myles McDonnell
Maintainer: Robert Myles McDonnell <robertmylesmcdonnell@gmail.com>
Description: In order to easily integrate geoRSS data into analysis, 'tidygeoRSS' parses 'geo' feeds and returns tidy simple features data frames.
URL: https://github.com/RobertMyles/tidygeoRSS
BugReports: https://github.com/RobertMyles/tidygeoRSS/issues
Encoding: UTF-8
License: MIT + file LICENSE
Depends: R (>= 3.1.0)
Imports: xml2 (>= 1.3.1), httr (>= 1.4.1), anytime (>= 0.3.7), dplyr (>= 1.0.0), tidyRSS (>= 2.0.2), jsonlite (>= 1.6.1), strex (>= 1.2.0), stringr (>= 1.4.0), magrittr (>= 1.5), purrr (>= 0.3.3), sf (>= 0.9.1), rlang (>= 0.4.6)
Suggests: httptest, knitr, rmarkdown, testthat (>= 2.1.0)
RoxygenNote: 7.1.0
NeedsCompilation: no
Packaged: 2020-06-09 14:13:06 UTC; f64k1s8
Repository: CRAN
Date/Publication: 2020-06-14 14:50:02 UTC

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New package semnova with initial version 0.1-5
Package: semnova
Type: Package
Title: Latent Repeated Measures ANOVA
Version: 0.1-5
Authors@R: c(person(given = "Benedikt", family = "Langenberg", role = c("aut", "cre"), email = "benedikt.langenberg@gmail.com"), person(given = "Axel", family = "Mayer", role = "ctb", email = "axel.mayer@rwth-aachen.de") )
Author: Benedikt Langenberg [aut, cre], Axel Mayer [ctb]
Imports: lavaan, Matrix, parallel, MASS, stats, methods
Suggests: testthat, knitr, rmarkdown
Depends: R (>= 3.4.0)
Description: Latent repeated measures ANOVA (L-RM-ANOVA) is a structural equation modeling based alternative to traditional repeated measures ANOVA. L-RM-ANOVA extends the latent growth components approach by Mayer et al. (2012) <doi:10.1080/10705511.2012.713242> and introduces latent variables to repeated measures analysis.
Maintainer: Benedikt Langenberg <benedikt.langenberg@gmail.com>
License: GPL (>= 2)
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.0
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2020-06-09 12:46:33 UTC; benedicens
Repository: CRAN
Date/Publication: 2020-06-14 14:50:06 UTC

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New package scoringutils with initial version 0.1.0
Package: scoringutils
Title: Utilities for Scoring and Assessing Predictions
Version: 0.1.0
Authors@R: c( person(given = "Nikos", family = "Bosse", role = c("aut", "cre"), email = "nikosbosse@gmail.com", comment = c(ORCID = "https://orcid.org/0000-0002-7750-5280")), person(given = "Sam Abbott", role = c("aut"), email = "contact@samabbott.co.uk", comment = c(ORCID = "0000-0001-8057-8037")), person("Joel", "Hellewell", email = "joel.hellewell@lshtm.ac.uk", role = c("ctb"), comment = c(ORCID = "0000-0003-2683-0849")), person(given = "Sophie Meakins", role = c("ctb"), email = "sophie.meakins@lshtm.ac.uk"), person("James", "Munday", email = "james.munday@lshtm.ac.uk", role = c("ctb")), person("Katharine", "Sherratt", email = "katharine.sherratt@lshtm.ac.uk", role = c("ctb")), person("Sebastian", "Funk", email = "sebastian.funk@lshtm.ac.uk", role = c("aut")))
Description: Combines a collection of metrics and proper scoring rules (Tilmann Gneiting & Adrian E Raftery (2007) <doi:10.1198/016214506000001437>) with an easy to use wrapper that can be used to automatically evaluate predictions. Apart from proper scoring rules functions are provided to assess bias, sharpness and calibration (Sebastian Funk, Anton Camacho, Adam J. Kucharski, Rachel Lowe, Rosalind M. Eggo, W. John Edmunds (2019) <doi:10.1371/journal.pcbi.1006785>) of forecasts. Several types of predictions can be evaluated: probabilistic forecasts (generally predictive samples generated by Markov Chain Monte Carlo procedures), quantile forecasts or point forecasts. Observed values and predictions can be either continuous, integer, or binary. Users can either choose to apply these rules separately in a vector / matrix format that can be flexibly used within other packages, or they can choose to do an automatic evaluation of their forecasts. This is implemented with 'data.table' and provides a consistent and very efficient framework for evaluating various types of predictions.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Imports: data.table, goftest, graphics, scoringRules, stats
Suggests: testthat, knitr, rmarkdown
RoxygenNote: 7.1.0
URL: https://github.com/epiforecasts/scoringutils
BugReports: https://github.com/epiforecasts/scoringutils/issues
VignetteBuilder: knitr
Depends: R (>= 2.10)
NeedsCompilation: no
Packaged: 2020-06-09 15:23:07 UTC; nikos
Author: Nikos Bosse [aut, cre] (<https://orcid.org/0000-0002-7750-5280>), Sam Abbott [aut] (<https://orcid.org/0000-0001-8057-8037>), Joel Hellewell [ctb] (<https://orcid.org/0000-0003-2683-0849>), Sophie Meakins [ctb], James Munday [ctb], Katharine Sherratt [ctb], Sebastian Funk [aut]
Maintainer: Nikos Bosse <nikosbosse@gmail.com>
Repository: CRAN
Date/Publication: 2020-06-14 15:00:03 UTC

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Package RVowpalWabbit updated to version 0.0.14 with previous version 0.0.13 dated 2019-02-22

Title: R Interface to the Vowpal Wabbit
Description: The 'Vowpal Wabbit' project is a fast out-of-core learning system sponsored by Microsoft Research (having started at Yahoo! Research) and written by John Langford along with a number of contributors. This R package does not include the distributed computing implementation of the cluster/ directory of the upstream sources. Use of the software as a network service is also not directly supported as the aim is a simpler direct call from R for validation and comparison. Note that this package contains an embedded older version of 'Vowpal Wabbit'. The package 'rvw' at the GitHub repo <https://github.com/eddelbuettel/rvw> can provide an alternative using an external 'Vowpal Wabbit' library installation.
Author: Dirk Eddelbuettel
Maintainer: Dirk Eddelbuettel <edd@debian.org>

Diff between RVowpalWabbit versions 0.0.13 dated 2019-02-22 and 0.0.14 dated 2020-06-14

 RVowpalWabbit-0.0.13/RVowpalWabbit/configure.in      |only
 RVowpalWabbit-0.0.14/RVowpalWabbit/ChangeLog         |   26 ++++
 RVowpalWabbit-0.0.14/RVowpalWabbit/DESCRIPTION       |   13 +-
 RVowpalWabbit-0.0.14/RVowpalWabbit/MD5               |   18 +--
 RVowpalWabbit-0.0.14/RVowpalWabbit/README.md         |   14 ++
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 11 files changed, 129 insertions(+), 123 deletions(-)

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New package Relectoral with initial version 0.1.0
Package: Relectoral
Type: Package
Title: Electoral Analysis
Version: 0.1.0
Author: Miguel Rodríguez Asensio
Maintainer: Miguel Rodríguez Asensio <miguel.rodriguezasensio@gmail.com>
Description: Functions to obtain an important number of electoral indicators described in the package, which can be divided into two large sections: The first would be the one containing the indicators of electoral disproportionality, such as, Rae index, Loosemore–Hanby index, etc. The second group is intended to study the dimensions of the party system vote, through the indicators of electoral fragmentation, polarization, volatility, etc. Moreover, multiple seat allocation simulations can also be performed based on different allocation systems, such as the D'Hondt method, Sainte-Laguë, etc. Finally, some of these functions have been built so that, if the user wishes, the data provided by the Spanish Ministry of Home Office for different electoral processes held in Spain can be obtained automatically. All the above will allow the users to carry out deep studies on the results obtained in any type of electoral process. The methods are described in: Oñate, Pablo and Ocaña, Francisco A. (1999, ISBN:9788474762815); Ruiz Rodríguez, Leticia M. and Otero Felipe, Patricia (2011, ISBN:9788474766226).
License: GPL-2
Encoding: UTF-8
Suggests: knitr
Imports: readxl, ggforce, ggplot2, xlsx, dplyr, sf, utils, stats, rmarkdown
LazyData: true
VignetteBuilder: knitr
RoxygenNote: 7.1.0
NeedsCompilation: no
Packaged: 2020-06-13 18:42:50 UTC; Miguel
Repository: CRAN
Date/Publication: 2020-06-14 14:20:02 UTC

More information about Relectoral at CRAN
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Package performance updated to version 0.4.7 with previous version 0.4.6 dated 2020-05-03

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

Diff between performance versions 0.4.6 dated 2020-05-03 and 0.4.7 dated 2020-06-14

 DESCRIPTION                                 |    6 
 MD5                                         |  176 ++++++-------
 NAMESPACE                                   |   79 +++++-
 NEWS.md                                     |   17 +
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 R/check_convergence.R                       |   32 +-
 R/check_itemscale.R                         |    6 
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 R/check_outliers.R                          |    2 
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 R/model_performance.bayesian.R              |    2 
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 R/model_performance.lm.R                    |   42 +++
 R/model_performance.rma.R                   |   20 +
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 R/performance_aicc.R                        |   32 ++
 R/performance_logloss.R                     |   15 +
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 R/performance_pcp.R                         |    5 
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 R/print-methods.R                           |   72 +----
 R/r2.R                                      |   40 +++
 R/r2_coxsnell.R                             |   33 ++
 R/r2_mcfadden.R                             |   33 ++
 R/r2_mckelvey.R                             |    2 
 R/r2_nagelkerke.R                           |   33 ++
 R/r2_nakagawa.R                             |    2 
 README.md                                   |   14 -
 build/partial.rdb                           |binary
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 man/check_zeroinflation.Rd                  |   76 ++---
 man/compare_performance.Rd                  |  160 ++++++------
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 man/figures/unnamed-chunk-13-1.png          |binary
 man/icc.Rd                                  |  278 ++++++++++-----------
 man/item_difficulty.Rd                      |   68 ++---
 man/item_intercor.Rd                        |   94 +++----
 man/item_reliability.Rd                     |   86 +++---
 man/item_split_half.Rd                      |   74 ++---
 man/looic.Rd                                |   48 +--
 man/model_performance.Rd                    |   82 +++---
 man/model_performance.lavaan.Rd             |  118 ++++----
 man/model_performance.lm.Rd                 |    4 
 man/model_performance.merMod.Rd             |   74 ++---
 man/model_performance.rma.Rd                |   90 +++---
 man/model_performance.stanreg.Rd            |  118 ++++----
 man/performance_accuracy.Rd                 |   96 +++----
 man/performance_aicc.Rd                     |   74 ++---
 man/performance_hosmer.Rd                   |   66 ++---
 man/performance_logloss.Rd                  |   72 ++---
 man/performance_lrt.Rd                      |   58 ++--
 man/performance_mse.Rd                      |   68 ++---
 man/performance_pcp.Rd                      |  122 ++++-----
 man/performance_rmse.Rd                     |   94 +++----
 man/performance_roc.Rd                      |  107 ++++----
 man/performance_rse.Rd                      |   52 +--
 man/performance_score.Rd                    |  130 ++++-----
 man/r2.Rd                                   |   88 +++---
 man/r2_bayes.Rd                             |  124 ++++-----
 man/r2_coxsnell.Rd                          |   74 ++---
 man/r2_efron.Rd                             |   68 ++---
 man/r2_kullback.Rd                          |   54 ++--
 man/r2_loo.Rd                               |   56 ++--
 man/r2_mcfadden.Rd                          |   66 ++---
 man/r2_mckelvey.Rd                          |   82 +++---
 man/r2_nagelkerke.Rd                        |   50 +--
 man/r2_nakagawa.Rd                          |   96 +++----
 man/r2_tjur.Rd                              |   56 ++--
 man/r2_xu.Rd                                |   58 ++--
 man/r2_zeroinflated.Rd                      |   80 +++---
 tests/testthat/test-model_performance.rma.R |    6 
 89 files changed, 3327 insertions(+), 2705 deletions(-)

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New package outsider.base with initial version 0.1.3
Package: outsider.base
Type: Package
Title: Base Package for 'Outsider'
Version: 0.1.3
Authors@R: c( person("Dom", "Bennett", role = c("aut", "cre"), email = "dominic.john.bennett@gmail.com", comment = c(ORCID = "0000-0003-2722-1359")), person("Hannes", "Hettling", role = "ctb", comment = c(ORCID = "0000-0003-4144-2238")), person("Daniele", "Silvestro", role = "ctb", comment = c(ORCID = "0000-0003-0100-0961")), person("Rutger", "Vos", role = "ctb", comment = c(ORCID = "0000-0001-9254-7318")), person("Alexandre", "Antonelli", role = "ctb", comment = c(ORCID = "0000-0003-1842-9297")), person("Anna", "Krystalli", role = "rev", email = "annakrystalli@googlemail.com"))
Maintainer: Dom Bennett <dominic.john.bennett@gmail.com>
Description: Base package for 'outsider' <https://github.com/ropensci/outsider>. The 'outsider' package and its sister packages enable the installation and running of external, command-line software within R. This base package is a key dependency of the user-facing 'outsider' package as it provides the utilities for interfacing between 'Docker' <https://www.docker.com> and R. It is intended that end-users of 'outsider' do not directly work with this base package.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.0
SystemRequirements: docker (>=18.0.0)
URL: https://docs.ropensci.org/outsider.base, https://github.com/ropensci/outsider.base
BugReports: https://github.com/ropensci/outsider.base/issues
Language: en-GB
Depends: R (>= 3.3.0)
Imports: utils (>= 3.1), crayon, devtools (>= 1.1), jsonlite (>= 1.1), sys (>= 2.1), yaml (>= 2.0), callr (>= 3.0.0), withr (>= 2.0), tibble, cli, praise
Suggests: ssh, testthat (>= 2.0)
NeedsCompilation: no
Packaged: 2020-06-13 21:41:46 UTC; domben
Author: Dom Bennett [aut, cre] (<https://orcid.org/0000-0003-2722-1359>), Hannes Hettling [ctb] (<https://orcid.org/0000-0003-4144-2238>), Daniele Silvestro [ctb] (<https://orcid.org/0000-0003-0100-0961>), Rutger Vos [ctb] (<https://orcid.org/0000-0001-9254-7318>), Alexandre Antonelli [ctb] (<https://orcid.org/0000-0003-1842-9297>), Anna Krystalli [rev]
Repository: CRAN
Date/Publication: 2020-06-14 14:40:13 UTC

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New package MetaClean with initial version 0.1.0
Package: MetaClean
Type: Package
Title: Detection of Low-Quality Peaks in Untargeted Metabolomics Data
Version: 0.1.0
Author: Kelsey Chetnik
Maintainer: Kelsey Chetnik <kchetnik73@gmail.com>
Description: Utilizes 12 peak quality metrics and 9 diverse machine learning algorithms to build a classifier for the automatic assessment of peak integration quality of peaks from untargeted metabolomics analyses. The 12 peak quality metrics were adapted from those defined in the following references: Zhang, W., & Zhao, P.X. (2014) <doi:10.1186/1471-2105-15-S11-S5> Toghi Eshghi, S., Auger, P., & Mathews, W.R. (2018) <doi:10.1186/s12014-018-9209-x>.
biocViews: S4Vectors
Imports: xcms, caret, reshape2, knitr, ggplot2, plotrix, tools, utils, klaR, fastAdaboost, rpart, randomForest, kernlab, BiocStyle, methods, graph, Rgraphviz
Depends: R (>= 3.5.0), MLmetrics
License: GPL-3
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.0
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2020-06-05 00:56:45 UTC; User
Repository: CRAN
Date/Publication: 2020-06-14 15:00:11 UTC

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Package infer updated to version 0.5.2 with previous version 0.5.1 dated 2019-11-19

Title: Tidy Statistical Inference
Description: The objective of this package is to perform inference using an expressive statistical grammar that coheres with the tidy design framework.
Author: Andrew Bray [aut, cre], Chester Ismay [aut], Evgeni Chasnovski [aut], Ben Baumer [aut], Mine Cetinkaya-Rundel [aut], Simon Couch [ctb], Ted Laderas [ctb], Nick Solomon [ctb], Johanna Hardin [ctb], Albert Y. Kim [ctb], Neal Fultz [ctb], Doug Friedman [ctb], Richie Cotton [ctb], Brian Fannin [ctb]
Maintainer: Andrew Bray <abray@reed.edu>

Diff between infer versions 0.5.1 dated 2019-11-19 and 0.5.2 dated 2020-06-14

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New package mdthemes with initial version 0.1.0
Package: mdthemes
Title: Markdown Themes for 'ggplot2'
Version: 0.1.0
Authors@R: person("Thomas", "Neitmann", role = c("aut", "cre", "cph"), email = "th.neitmann@gmail.com")
Description: A collection of 'ggplot2' themes that render text as markdown/HTML. This enables the creation of complex formatted plot labels, e.g. titles with individual words highlighted in different colors.
Depends: R (>= 3.5)
Imports: cowplot, hrbrthemes, ggplot2 (>= 3.3.0), ggtext, ggthemes, tvthemes
Suggests: glue
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.0
NeedsCompilation: no
Packaged: 2020-06-09 12:01:42 UTC; neitmant
Author: Thomas Neitmann [aut, cre, cph]
Maintainer: Thomas Neitmann <th.neitmann@gmail.com>
Repository: CRAN
Date/Publication: 2020-06-14 14:40:17 UTC

More information about mdthemes at CRAN
Permanent link

Package gRbase updated to version 1.8-6.6 with previous version 1.8-6.4 dated 2020-02-18

Title: A Package for Graphical Modelling in R
Description: The 'gRbase' package provides graphical modelling features used by e.g. the packages 'gRain', 'gRim' and 'gRc'. 'gRbase' contains data sets relevant for use in connection with graphical models (in particular all data sets used in the book Graphical Models with R (2012)). 'gRbase' implements graph algorithms including (i) maximum cardinality search (for marked and unmarked graphs). (ii) moralize. (iii) triangulate. (iv) junction tree. 'gRbase' facilitates array operations, 'gRbase' implements functions for testing for conditional independence. 'gRbase' illustrates how hierarchical log-linear models may be implemented and describes concept of graphical meta data. These features, however, are not maintained anymore and remains in 'gRbase' only because there exists a paper describing these facilities: A Common Platform for Graphical Models in R: The 'gRbase' Package, Journal of Statistical Software, Vol 14, No 17, 2005. NOTICE 'gRbase' requires that the packages graph, 'Rgraphviz' and 'RBGL' are installed from 'bioconductor'; for installation instructions please refer to the web page given below.
Author: Søren Højsgaard <sorenh@math.aau.dk>
Maintainer: Søren Højsgaard <sorenh@math.aau.dk>

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Package gofCopula updated to version 0.3-3 with previous version 0.3-2 dated 2020-03-26

Title: Goodness-of-Fit Tests for Copulae
Description: Several Goodness-of-Fit (GoF) tests for Copulae are provided. A new hybrid test, Zhang et al. (2016) <doi:10.1016/j.jeconom.2016.02.017> is implemented which supports all of the individual tests in the package, e.g. Genest et al. (2009) <doi:10.1016/j.insmatheco.2007.10.005>. Estimation methods for the margins are provided and all the tests support parameter estimation and predefined values. The parameters are estimated by pseudo maximum likelihood but if it fails the estimation switches automatically to inversion of Kendall's tau. For reproducibility of results, the functions support the definition of seeds. Also all the tests support automatized parallelization of the bootstrapping tasks. The package provides an interface to perform new GoF tests by submitting the test statistic.
Author: Ostap Okhrin <ostap.okhrin@tu-dresden.de>, Simon Trimborn <trimborn.econometrics@gmail.com>, Martin Waltz <martin.waltz@tu-dresden.de>
Maintainer: Simon Trimborn <trimborn.econometrics@gmail.com>

Diff between gofCopula versions 0.3-2 dated 2020-03-26 and 0.3-3 dated 2020-06-14

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Package FKF updated to version 0.1.7 with previous version 0.1.6 dated 2020-06-01

Title: Fast Kalman Filter
Description: This is a fast and flexible implementation of the Kalman filter, which can deal with NAs. It is entirely written in C and relies fully on linear algebra subroutines contained in BLAS and LAPACK. Due to the speed of the filter, the fitting of high-dimensional linear state space models to large datasets becomes possible. This package also contains a plot function for the visualization of the state vector and graphical diagnostics of the residuals.
Author: David Luethi [aut], Philipp Erb [aut], Simon Otziger [aut], Paul Smith [cre] (<https://orcid.org/0000-0002-0034-3412>)
Maintainer: Paul Smith <paul@waternumbers.co.uk>

Diff between FKF versions 0.1.6 dated 2020-06-01 and 0.1.7 dated 2020-06-14

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Package epiR updated to version 1.0-15 with previous version 1.0-14 dated 2020-03-13

Title: Tools for the Analysis of Epidemiological Data
Description: Tools for the analysis of epidemiological data. Contains functions for directly and indirectly adjusting measures of disease frequency, quantifying measures of association on the basis of single or multiple strata of count data presented in a contingency table, and computing confidence intervals around incidence risk and incidence rate estimates. Miscellaneous functions for use in meta-analysis, diagnostic test interpretation, and sample size calculations.
Author: Mark Stevenson <mark.stevenson1@unimelb.edu.au> with contributions from Telmo Nunes, Cord Heuer, Jonathon Marshall, Javier Sanchez, Ron Thornton, Jeno Reiczigel, Jim Robison-Cox, Paola Sebastiani, Peter Solymos, Kazuki Yoshida, Geoff Jones, Sarah Pirikahu, Simon Firestone, Ryan Kyle, Johann Popp, Mathew Jay and Charles Reynard.
Maintainer: Mark Stevenson <mark.stevenson1@unimelb.edu.au>

Diff between epiR versions 1.0-14 dated 2020-03-13 and 1.0-15 dated 2020-06-14

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New package DTAT with initial version 0.3-4
Package: DTAT
Type: Package
Title: Dose Titration Algorithm Tuning
Version: 0.3-4
Date: 2020-06-07
Authors@R: person("David C.", "Norris" , role = c("aut", "cre") , email = "david@precisionmethods.guru" )
Maintainer: David C. Norris <david@precisionmethods.guru>
Depends: R (>= 3.4.0), survival
Imports: km.ci, pomp, Hmisc, data.table, dplyr, r2d3, shiny, jsonlite, methods
Suggests: knitr, rmarkdown, lattice, latticeExtra, widgetframe, tidyr, RColorBrewer
Description: Dose Titration Algorithm Tuning (DTAT) is a methodologic framework allowing dose individualization to be conceived as a continuous learning process that begins in early-phase clinical trials and continues throughout drug development, on into clinical practice. This package includes code that researchers may use to reproduce or extend key results of the DTAT research programme, plus tools for trialists to design and simulate a '3+3/PC' dose-finding study. Please see Norris (2017) <doi:10.12688/f1000research.10624.3> and Norris (2017) <doi:10.1101/240846>.
URL: https://precisionmethods.guru/
License: MIT + file LICENSE
RoxygenNote: 7.1.0
VignetteBuilder: knitr, rmarkdown
Encoding: UTF-8
NeedsCompilation: no
Author: David C. Norris [aut, cre]
Packaged: 2020-06-08 13:34:38 UTC; david
Repository: CRAN
Date/Publication: 2020-06-14 14:50:19 UTC

More information about DTAT at CRAN
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Package bwsTools updated to version 1.1.1 with previous version 1.1.0 dated 2020-03-19

Title: Tools for Case 1 Best-Worst Scaling (MaxDiff) Designs
Description: Tools to design best-worst scaling designs (i.e., balanced incomplete block designs) and to analyze data from these designs, using aggregate and individual methods such as: difference scores, Louviere, Lings, Islam, Gudergan, & Flynn (2013) <doi:10.1016/j.ijresmar.2012.10.002>; analytical estimation, Lipovetsky & Conklin (2014) <doi:10.1016/j.jocm.2014.02.001>; empirical Bayes, Lipovetsky & Conklin (2015) <doi:10.1142/S1793536915500028>; Elo, Hollis (2018) <doi:10.3758/s13428-017-0898-2>; and network-based measures.
Author: Mark White [aut, cre]
Maintainer: Mark White <markhwhiteii@gmail.com>

Diff between bwsTools versions 1.1.0 dated 2020-03-19 and 1.1.1 dated 2020-06-14

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Package MODIS updated to version 1.2.0 with previous version 1.1.7 dated 2020-03-30

Title: Acquisition and Processing of MODIS Products
Description: Download and processing functionalities for the Moderate Resolution Imaging Spectroradiometer (MODIS). The package provides automated access to the global online data archives LP DAAC (<https://lpdaac.usgs.gov/>), LAADS (<https://ladsweb.modaps.eosdis.nasa.gov/>) and NSIDC (<https://nsidc.org/>) as well as processing capabilities such as file conversion, mosaicking, subsetting and time series filtering.
Author: Matteo Mattiuzzi [aut], Florian Detsch [cre, aut]
Maintainer: Florian Detsch <fdetsch@web.de>

Diff between MODIS versions 1.1.7 dated 2020-03-30 and 1.2.0 dated 2020-06-14

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 NAMESPACE                                                   |    1 
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Package ROCit updated to version 2.1.1 with previous version 1.1.1 dated 2019-01-30

Title: Performance Assessment of Binary Classifier with Visualization
Description: Sensitivity (or recall or true positive rate), false positive rate, specificity, precision (or positive predictive value), negative predictive value, misclassification rate, accuracy, F-score- these are popular metrics for assessing performance of binary classifier for certain threshold. These metrics are calculated at certain threshold values. Receiver operating characteristic (ROC) curve is a common tool for assessing overall diagnostic ability of the binary classifier. Unlike depending on a certain threshold, area under ROC curve (also known as AUC), is a summary statistic about how well a binary classifier performs overall for the classification task. ROCit package provides flexibility to easily evaluate threshold-bound metrics. Also, ROC curve, along with AUC, can be obtained using different methods, such as empirical, binormal and non-parametric. ROCit encompasses a wide variety of methods for constructing confidence interval of ROC curve and AUC. ROCit also features the option of constructing empirical gains table, which is a handy tool for direct marketing. The package offers options for commonly used visualization, such as, ROC curve, KS plot, lift plot. Along with in-built default graphics setting, there are rooms for manual tweak by providing the necessary values as function arguments. ROCit is a powerful tool offering a range of things, yet it is very easy to use.
Author: Md Riaz Ahmed Khan [aut, cre], Thomas Brandenburger [aut]
Maintainer: Md Riaz Ahmed Khan <mdriazahmed.khan@jacks.sdstate.edu>

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Package RestRserve updated to version 0.3.0 with previous version 0.2.2 dated 2020-04-12

Title: A Framework for Building HTTP API
Description: Allows to easily create high-performance full featured HTTP APIs from R functions. Provides high-level classes such as 'Request', 'Response', 'Application', 'Middleware' in order to streamline server side application development. Out of the box allows to serve requests using 'Rserve' package, but flexible enough to integrate with other HTTP servers such as 'httpuv'.
Author: Dmitriy Selivanov [aut, cre] (<https://orcid.org/0000-0001-5413-1506>), Artem Klevtsov [aut] (<https://orcid.org/0000-0003-0492-6647>), rexy.ai [cph, fnd]
Maintainer: Dmitriy Selivanov <ds@rexy.ai>

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Package lpirfs updated to version 0.1.9 with previous version 0.1.8 dated 2020-06-05

Title: Local Projections Impulse Response Functions
Description: Provides functions to estimate and plot linear as well as nonlinear impulse responses based on local projections by Jordà (2005) <doi:10.1257/0002828053828518>.
Author: Philipp Adämmer [aut, cre] (<https://orcid.org/0000-0003-3770-0097>), James P. LeSage [ctb], Mehmet Balcilar [ctb], Jon Danielsson [ctb]
Maintainer: Philipp Adämmer <adaemmer@hsu-hh.de>

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Package hystReet updated to version 0.0.2 with previous version 0.0.1 dated 2020-04-01

Title: Get Pedestrian Frequency Data from the 'Hystreet' Project
Description: An R API wrapper for the 'Hystreet' project <https://hystreet.com>. 'Hystreet' provides pedestrian counts in different cities in Germany.
Author: Johannes Friedrich [aut, cre]
Maintainer: Johannes Friedrich <Johannes.Friedrich@posteo.de>

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Package FunChisq updated to version 2.5.1 with previous version 2.5.0 dated 2020-04-24

Title: Model-Free Functional Chi-Squared and Exact Tests
Description: Statistical hypothesis testing methods for inferring model-free functional dependency using asymptotic chi-squared or exact distributions. Functional test statistics are asymmetric and functionally optimal, unique from other related statistics. Tests in this package reveal evidence for causality based on the causality-by-functionality principle. They include asymptotic functional chi-squared tests (Zhang & Song 2013) <arXiv:1311.2707> and an exact functional test (Zhong & Song 2019) <doi:10.1109/TCBB.2018.2809743>. The normalized functional chi-squared test was used by Best Performer 'NMSUSongLab' in HPN-DREAM (DREAM8) Breast Cancer Network Inference Challenges (Hill et al 2016) <doi:10.1038/nmeth.3773>. A function index (Zhong & Song 2019) <doi:10.1186/s12920-019-0565-9> (Kumar et al 2018) <doi:10.1109/BIBM.2018.8621502> derived from the functional test statistic offers a new effect size measure for the strength of functional dependency, a better alternative to conditional entropy in many aspects. For continuous data, these tests offer an advantage over regression analysis when a parametric functional form cannot be assumed; for categorical data, they provide a novel means to assess directional dependency not possible with symmetrical Pearson's chi-squared or Fisher's exact tests.
Author: Yang Zhang [aut], Hua Zhong [aut] (<https://orcid.org/0000-0003-1962-2603>), Hien Nguyen [aut] (<https://orcid.org/0000-0002-7237-4752>), Ruby Sharma [aut], Sajal Kumar [aut] (<https://orcid.org/0000-0003-0930-1582>), Joe Song [aut, cre] (<https://orcid.org/0000-0002-6883-6547>)
Maintainer: Joe Song <joemsong@cs.nmsu.edu>

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Package collections updated to version 0.3.3 with previous version 0.3.2 dated 2020-06-01

Title: High Performance Container Data Types
Description: Provides high performance container data types such as queues, stacks, deques, dicts and ordered dicts. Benchmarks <https://randy3k.github.io/collections/articles/benchmark.html> have shown that these containers are asymptotically more efficient than those offered by other packages.
Author: Randy Lai [aut, cre], Andrea Mazzoleni [cph] (tommy hash table library)
Maintainer: Randy Lai <randy.cs.lai@gmail.com>

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Package wikifacts updated to version 0.3.0 with previous version 0.2 dated 2020-05-13

Title: Generates Facts Sourced from the Wikipedia Main Page
Description: Displays random facts from the Wikipedia homepage.
Author: Keith McNulty [aut, cre] (<https://orcid.org/0000-0002-2332-1654>)
Maintainer: Keith McNulty <keith.mcnulty@gmail.com>

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Package quantities updated to version 0.1.5 with previous version 0.1.4 dated 2020-06-06

Title: Quantity Calculus for R Vectors
Description: Integration of the 'units' and 'errors' packages for a complete quantity calculus system for R vectors, matrices and arrays, with automatic propagation, conversion, derivation and simplification of magnitudes and uncertainties. Documentation about 'units' and 'errors' is provided in the papers by Pebesma, Mailund & Hiebert (2016, <doi:10.32614/RJ-2016-061>) and by Ucar, Pebesma & Azcorra (2018, <doi:10.32614/RJ-2018-075>), included in those packages as vignettes; see 'citation("quantities")' for details.
Author: Iñaki Ucar [aut, cph, cre] (<https://orcid.org/0000-0001-6403-5550>)
Maintainer: Iñaki Ucar <iucar@fedoraproject.org>

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Package metaSEM updated to version 1.2.4 with previous version 1.2.3.1 dated 2019-12-08

Title: Meta-Analysis using Structural Equation Modeling
Description: A collection of functions for conducting meta-analysis using a structural equation modeling (SEM) approach via the 'OpenMx' and 'lavaan' packages. It also implements various procedures to perform meta-analytic structural equation modeling on the correlation and covariance matrices.
Author: Mike Cheung [aut, cre] (<https://orcid.org/0000-0003-0113-0758>)
Maintainer: Mike Cheung <mikewlcheung@nus.edu.sg>

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Package gtsummary updated to version 1.3.2 with previous version 1.3.1 dated 2020-06-02

Title: Presentation-Ready Data Summary and Analytic Result Tables
Description: Creates presentation-ready tables summarizing data sets, regression models, and more. The code to create the tables is concise and highly customizable. Data frames can be summarized with any function, e.g. mean(), median(), even user-written functions. Regression models are summarized and include the reference rows for categorical variables. Common regression models, such as logistic regression and Cox proportional hazards regression, are automatically identified and the tables are pre-filled with appropriate column headers.
Author: Daniel D. Sjoberg [aut, cre] (<https://orcid.org/0000-0003-0862-2018>), Margie Hannum [aut] (<https://orcid.org/0000-0002-2953-0449>), Karissa Whiting [aut] (<https://orcid.org/0000-0002-4683-1868>), Emily C. Zabor [aut] (<https://orcid.org/0000-0002-1402-4498>), Michael Curry [ctb] (<https://orcid.org/0000-0002-0261-4044>), Esther Drill [ctb] (<https://orcid.org/0000-0002-3315-4538>), Jessica Flynn [ctb] (<https://orcid.org/0000-0001-8310-6684>), Stephanie Lobaugh [ctb]
Maintainer: Daniel D. Sjoberg <danield.sjoberg@gmail.com>

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Permanent link


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