Fri, 27 Nov 2020

Package DiceView updated to version 2.0-1 with previous version 2.0-0 dated 2020-07-03

Title: Methods for Visualization of Computer Experiments Design and Surrogate
Description: View 2D/3D sections, contour plots, mesh of excursion sets for computer experiments designs, surrogates or test functions.
Author: Yann Richet, Yves Deville, Clement Chevalier
Maintainer: Yann Richet <yann.richet@irsn.fr>

Diff between DiceView versions 2.0-0 dated 2020-07-03 and 2.0-1 dated 2020-11-27

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Package tbm updated to version 0.3-3 with previous version 0.3-2.1 dated 2020-04-01

Title: Transformation Boosting Machines
Description: Boosting the likelihood of conditional and shift transformation models as introduced in \doi{10.1007/s11222-019-09870-4}.
Author: Torsten Hothorn [aut, cre] (<https://orcid.org/0000-0001-8301-0471>)
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>

Diff between tbm versions 0.3-2.1 dated 2020-04-01 and 0.3-3 dated 2020-11-27

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Package gh updated to version 1.2.0 with previous version 1.1.0 dated 2020-01-24

Title: 'GitHub' 'API'
Description: Minimal client to access the 'GitHub' 'API'.
Author: Gábor Csárdi [cre, ctb], Jennifer Bryan [aut], Hadley Wickham [aut], RStudio [cph, fnd]
Maintainer: Gábor Csárdi <csardi.gabor@gmail.com>

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Package errorlocate updated to version 0.5.1 with previous version 0.4 dated 2020-09-29

Title: Locate Errors with Validation Rules
Description: Errors in data can be located and removed using validation rules from package 'validate'.
Author: Edwin de Jonge [aut, cre] (<https://orcid.org/0000-0002-6580-4718>), Mark van der Loo [aut]
Maintainer: Edwin de Jonge <edwindjonge@gmail.com>

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Package shotGroups updated to version 0.7.5.2 with previous version 0.7.5.1 dated 2019-07-14

Title: Analyze Shot Group Data
Description: Analyzes shooting data with respect to group shape, precision, and accuracy. This includes graphical methods, descriptive statistics, and inference tests using standard, but also non-parametric and robust statistical methods. Implements distributions for radial error in bivariate normal variables. Works with files exported by 'OnTarget PC/TDS', 'Silver Mountain' e-target, 'ShotMarker' e-target, or 'Taran', as well as with custom data files in text format. Supports inference from range statistics like extreme spread. Includes a set of web-based graphical user interfaces.
Author: Daniel Wollschlaeger
Maintainer: Daniel Wollschlaeger <dwoll@kuci.org>

Diff between shotGroups versions 0.7.5.1 dated 2019-07-14 and 0.7.5.2 dated 2020-11-27

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Package jpndistrict updated to version 0.3.8 with previous version 0.3.7 dated 2020-06-12

Title: Create Japanese Administration Area and Office Maps
Description: Utilizing the data that Japanese administration area provided by the National Land Numerical Information download service (<https://nlftp.mlit.go.jp/ksj/index.html>). This package provide map data is based on the Digital Map 25000 (Map Image) published by Geospatial Information Authority of Japan (Approval No.603FY2017 information usage <https://www.gsi.go.jp>).
Author: Shinya Uryu [aut, cre] (<https://orcid.org/0000-0002-0493-6186>), Geospatial Information Authority of Japan [dtc] (This package data sets, National Land numerical information by the Geographical Survey Institute with the approval of Geographical Survey Institute Head (Approval No.603FY2017 information usage))
Maintainer: Shinya Uryu <suika1127@gmail.com>

Diff between jpndistrict versions 0.3.7 dated 2020-06-12 and 0.3.8 dated 2020-11-27

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New package transx with initial version 0.0.1
Package: transx
Title: Transform Univariate Time Series
Version: 0.0.1
Authors@R: person(given = "Kostas", family = "Vasilopoulos", role = c("aut", "cre"), email = "k.vasilopoulo@gmail.com", comment = c(ORCID = "0000-0002-9769-6395"))
Description: Univariate time series operations that follow an opinionated design. The main principle of 'transx' is to keep the number of observations the same. Operations that reduce this number have to fill the observations gap.
License: GPL-3
Imports: rlang
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.1
URL: https://github.com/kvasilopoulos/transx
BugReports: https://github.com/kvasilopoulos/transx/issues
Suggests: dplyr, ggplot2, cli, testthat, knitr, DescTools, outliers, rmarkdown, mFilter, covr
VignetteBuilder: knitr
Language: en-US
Depends: R (>= 2.10)
NeedsCompilation: no
Packaged: 2020-11-26 15:04:28 UTC; T460p
Author: Kostas Vasilopoulos [aut, cre] (<https://orcid.org/0000-0002-9769-6395>)
Maintainer: Kostas Vasilopoulos <k.vasilopoulo@gmail.com>
Repository: CRAN
Date/Publication: 2020-11-27 11:40:02 UTC

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Package ShinyQuickStarter updated to version 1.0.2 with previous version 1.0.1 dated 2020-11-23

Title: 'RStudio' Addin for Quick Setup of ShinyDashboard Apps
Description: This 'RStudio' addin enables faster creation of the project structure and design of 'ShinyDashboard' apps. The graphical interface allows you to add certain code templates interactively. In addition to generating the basic project structure, the navigation in the app itself can also be defined or the app can be structured with modules.
Author: Leon Binder [cre, aut], Bernhard Bauer [ctb], Michael Scholz [ctb], Bernhard Daffner [ctb], Jörg Bauer [ctb]
Maintainer: Leon Binder <leon.binder@th-deg.de>

Diff between ShinyQuickStarter versions 1.0.1 dated 2020-11-23 and 1.0.2 dated 2020-11-27

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Package rAmCharts4 updated to version 1.2.0 with previous version 1.1.0 dated 2020-10-31

Title: Interface to the JavaScript Library 'amCharts 4'
Description: Creates JavaScript charts. The charts can be included in 'Shiny' apps and R markdown documents, or viewed from the R console and 'RStudio' viewer. Based on the JavaScript library 'amCharts 4' and the R packages 'htmlwidgets' and 'reactR'. Currently available types of chart are: vertical and horizontal bar chart, radial bar chart, stacked bar chart, vertical and horizontal Dumbbell chart, line chart, scatter chart, range area chart, gauge chart, and boxplot chart.
Author: Stéphane Laurent [aut, cre], Antanas Marcelionis [ctb, cph] ('amCharts' library (https://www.amcharts.com/)), Terence Eden [ctb, cph] ('SuperTinyIcons' library (https://github.com/edent/SuperTinyIcons/)), Tom Alexander [ctb, cph] ('regression-js' library (https://github.com/Tom-Alexander/regression-js))
Maintainer: Stéphane Laurent <laurent_step@outlook.fr>

Diff between rAmCharts4 versions 1.1.0 dated 2020-10-31 and 1.2.0 dated 2020-11-27

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New package oxcgrt with initial version 0.1.0
Package: oxcgrt
Type: Package
Title: An Interface to the Oxford COVID-19 Government Response Tracker API
Version: 0.1.0
Authors@R: person("Ernest", "Guevarra", comment = c(ORCID = "0000-0002-4887-4415"), email = "ernest@guevarra.io", role = c("aut", "cre"))
Description: The Oxford COVID-19 Government Response Tracker (OxCGRT) tracks and compares worldwide government responses to the COVID-19 pandemic rigorously and consistently. OxCGRT makes available systematic information in a consistent way, aiding those who require information have access to it efficiently for their purposes. This package facilitates access to the OxCGRT data via its API <https://covidtracker.bsg.ox.ac.uk/> and includes functions to calculate the various OxCGRT indices in R.
License: GPL-3
Depends: R (>= 2.10)
Imports: dplyr, jsonlite, tibble, magrittr, tidyr, countrycode, stringr
Suggests: curl, covr, testthat, spelling, rvest, xml2, knitr, rmarkdown
Encoding: UTF-8
Language: en-GB
LazyData: true
URL: https://como-ph.github.io/oxcgrt/, https://github.com/como-ph/oxcgrt
BugReports: https://github.com/como-ph/oxcgrt/issues
RoxygenNote: 7.1.1
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2020-11-26 13:51:08 UTC; ernest
Author: Ernest Guevarra [aut, cre] (<https://orcid.org/0000-0002-4887-4415>)
Maintainer: Ernest Guevarra <ernest@guevarra.io>
Repository: CRAN
Date/Publication: 2020-11-27 11:30:02 UTC

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Package matman updated to version 1.1.2 with previous version 1.1.1 dated 2020-11-23

Title: Material Management
Description: A set of functions, classes and methods for performing ABC and ABC/XYZ analyses, identifying overperforming, underperforming and constantly performing items, and plotting, analyzing as well as predicting the temporal development of items.
Author: Leon Binder [cre, aut], Bernhard Bauer [aut], Michael Scholz [aut]
Maintainer: Leon Binder <leon.binder@th-deg.de>

Diff between matman versions 1.1.1 dated 2020-11-23 and 1.1.2 dated 2020-11-27

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New package geodimension with initial version 1.0.0
Package: geodimension
Type: Package
Title: Definition of Geographic Dimensions
Version: 1.0.0
Authors@R: person(given = "Jose", family = "Samos", role = c("aut", "cre", "cph"), email = "jsamos@ugr.es", comment = c(ORCID = "0000-0002-4457-3439"))
Description: The geographic dimension plays a fundamental role in multidimensional systems. To define a geographic dimension in a star schema, we need a table with attributes corresponding to the levels of the dimension. Additionally, we will also need one or more geographic layers to represent the data using this dimension. The goal of this package is to support the definition of geographic dimensions from layers of geographic information related to each other. It makes it easy to define relationships between layers and obtain the necessary data from them.
License: MIT + file LICENSE
Encoding: UTF-8
Language: en-GB
LazyData: true
RoxygenNote: 7.1.1
Imports: dplyr, readr, tibble, tidyr, tidyselect, generics, sf, magrittr, rlang, pander
Suggests: testthat, knitr, rmarkdown
VignetteBuilder: knitr
Depends: R (>= 2.10)
NeedsCompilation: no
Packaged: 2020-11-26 16:10:46 UTC; jsamos
Author: Jose Samos [aut, cre, cph] (<https://orcid.org/0000-0002-4457-3439>)
Maintainer: Jose Samos <jsamos@ugr.es>
Repository: CRAN
Date/Publication: 2020-11-27 11:40:06 UTC

More information about geodimension at CRAN
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Package biglm updated to version 0.9-2.1 with previous version 0.9-2 dated 2020-05-26

Title: Bounded Memory Linear and Generalized Linear Models
Description: Regression for data too large to fit in memory.
Author: Thomas Lumley
Maintainer: Thomas Lumley <tlumley@u.washington.edu>

Diff between biglm versions 0.9-2 dated 2020-05-26 and 0.9-2.1 dated 2020-11-27

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More information about biglm at CRAN
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New package archeofrag with initial version 0.6.0
Package: archeofrag
Type: Package
Title: Refitting and Stratigraphic Analysis in Archeology
Version: 0.6.0
Date: 2020-11-24
Authors@R: person("Sebastien", "Plutniak", email = "sebastien.plutniak@posteo.net", role = c("aut", "cre"), comment = c(ORCID = "0000-0002-6674-3806"))
Author: Sebastien Plutniak [aut, cre] (<https://orcid.org/0000-0002-6674-3806>)
Maintainer: Sebastien Plutniak <sebastien.plutniak@posteo.net>
Description: Methods for the stratigraphic analysis of fragmented objects in archeology using "refitting" relationships between fragments scattered in stratigraphic layers. Graphs and graph theory are used to model archaeological observations. The package is mainly based on the 'igraph' package for graph analysis. Functions enable to 1) create, manipulate, and simulate fragmentation graphs, 2) measure the cohesion and admixture of stratigraphic layers, and 3) characterise the topology of a specific set of refitting relationships. An empirical dataset is also provided as an example.
License: GPL-2
Depends: RBGL, igraph
Imports: graphics, stats, grDevices, methods
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
URL: https://github.com/sebastien-plutniak/archeofrag
BugReports: https://github.com/sebastien-plutniak/archeofrag/issues
NeedsCompilation: no
Packaged: 2020-11-26 16:50:20 UTC; seb
Repository: CRAN
Date/Publication: 2020-11-27 11:40:10 UTC

More information about archeofrag at CRAN
Permanent link

Package rdhs (with last version 0.6.3) was removed from CRAN

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

2019-03-19 0.6.3
2019-02-28 0.6.2
2019-01-24 0.6.1

Permanent link
Package Qtools updated to version 1.5.3 with previous version 1.5.2 dated 2020-07-08

Title: Utilities for Quantiles
Description: Functions for unconditional and conditional quantiles. These include methods for transformation-based quantile regression, quantile-based measures of location, scale and shape, methods for quantiles of discrete variables, quantile-based multiple imputation, restricted quantile regression, and directional quantile classification. A vignette is given in Geraci (2016, The R Journal) <doi:10.32614/RJ-2016-037> and included in the package.
Author: Marco Geraci [aut, cph, cre] (<https://orcid.org/0000-0002-6311-8685>), Alessio Farcomeni [ctb] (Contributions to midrq code, <https://orcid.org/0000-0002-7104-5826>), Cinzia Viroli [ctb] (Contributions to dqc code, <https://orcid.org/0000-0002-3278-5266>)
Maintainer: Marco Geraci <marco.geraci@uniroma1.it>

Diff between Qtools versions 1.5.2 dated 2020-07-08 and 1.5.3 dated 2020-11-27

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More information about Qtools at CRAN
Permanent link

New package iNZightRegression with initial version 1.3.0
Package: iNZightRegression
Type: Package
Title: Tools for Exploring Regression Models with 'iNZight'
Version: 1.3.0
Authors@R: c( person("Tom", "Elliott", role = c("aut", "cre"), email = "tom.elliott@auckland.ac.nz", comment = c(ORCID = "0000-0002-7815-6318")), person("Simon", "Potter", role = c("aut")), person("David", "Banks", role = "aut"), person("Danny", "Chang", role = "ctb") )
Depends: R (>= 3.6)
Imports: car, dplyr, ggplot2, ggrepel, ggtext, graphics, grDevices, grid, iNZightPlots (>= 2.12), iNZightTools (>= 1.9), magrittr, multcomp, patchwork, stats, stats4, utils
Suggests: covr, survey, survival, testthat
Description: Provides a suite of functions to use with regression models, including summaries, residual plots, and factor comparisons. Used as part of the Model Fitting module of 'iNZight', a graphical user interface providing easy exploration and visualisation of data for students of statistics, available in both desktop and online versions.
BugReports: https://github.com/iNZightVIT/iNZightRegression/issues
Contact: inzight_support@stat.auckland.ac.nz
URL: http://inzight.nz
License: GPL-3
Encoding: UTF-8
RoxygenNote: 7.1.1
Language: en-GB
NeedsCompilation: no
Packaged: 2020-11-25 22:29:48 UTC; tom
Author: Tom Elliott [aut, cre] (<https://orcid.org/0000-0002-7815-6318>), Simon Potter [aut], David Banks [aut], Danny Chang [ctb]
Maintainer: Tom Elliott <tom.elliott@auckland.ac.nz>
Repository: CRAN
Date/Publication: 2020-11-27 10:40:02 UTC

More information about iNZightRegression at CRAN
Permanent link

New package IMEC with initial version 0.2.0
Package: IMEC
Title: Ising Model of Explanatory Coherence
Version: 0.2.0
Authors@R: c( person(given = "Maximilian", family = "Maier", role = c("aut", "cre"), email = "maximilianmaier0401@gmail.com"), person(given = "Noah", family = "van Dongen", role = c("ths"), email = "test@gmail.com"), person(given = "Denny", family = "Borsboom", role = c("ths"), email = "test@gmail.com"))
Description: Theories are one of the most important tools of science. Although psychologists discussed problems of theory in their discipline for a long time, weak theories are still widespread in most subfields. One possible reason for this is that psychologists lack the tools to systematically assess the quality of their theories. Previously a computational model for formal theory evaluation based on the concept of explanatory coherence was developed (Thagard, 1989, <doi:10.1017/S0140525X00057046>). However, there are possible improvements to this model and it is not available in software that psychologists typically use. Therefore, a new implementation of explanatory coherence based on the Ising model is available in this R-package.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.1
Imports: IsingSampler, igraph, qgraph
Suggests: testthat
NeedsCompilation: no
Packaged: 2020-11-25 16:13:47 UTC; Maximilian Maier
Author: Maximilian Maier [aut, cre], Noah van Dongen [ths], Denny Borsboom [ths]
Maintainer: Maximilian Maier <maximilianmaier0401@gmail.com>
Repository: CRAN
Date/Publication: 2020-11-27 10:10:03 UTC

More information about IMEC at CRAN
Permanent link

New package GPP with initial version 0.1
Package: GPP
Title: Gaussian Process Projection
Version: 0.1
Authors@R: c( person("Devin P.", "Brown", email = "devinpbrown96@gmail.com", role = "aut"), person("David", "Carlson", email = "carlson.david@wustl.edu", role = c("aut", "cre")))
Description: Estimates a counterfactual using Gaussian process projection. It takes a dataframe, creates missingness in the desired outcome variable and estimates counterfactual values based on all information in the dataframe. The package writes Stan code, checks it for convergence and adds artificial noise to prevent overfitting and returns a plot of actual values and estimated counterfactual values using r-base plot.
Depends: R (>= 3.5.0), methods, rstan, parallel
LazyData: true
Encoding: UTF-8
License: GPL (>= 2)
RoxygenNote: 7.1.1
NeedsCompilation: no
Packaged: 2020-11-25 14:58:45 UTC; david
Author: Devin P. Brown [aut], David Carlson [aut, cre]
Maintainer: David Carlson <carlson.david@wustl.edu>
Repository: CRAN
Date/Publication: 2020-11-27 10:20:06 UTC

More information about GPP at CRAN
Permanent link

Package ffscrapr updated to version 1.2.0 with previous version 1.1.0 dated 2020-11-16

Title: API Client for Fantasy Football League Platforms
Description: Helps access various Fantasy Football APIs by handling authentication and rate-limiting, forming appropriate calls, and returning tidy dataframes which can be easily connected to other data sources.
Author: Tan Ho [aut, cre]
Maintainer: Tan Ho <tan@tanho.ca>

Diff between ffscrapr versions 1.1.0 dated 2020-11-16 and 1.2.0 dated 2020-11-27

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 ffscrapr-1.2.0/ffscrapr/DESCRIPTION                                                                  |   16 
 ffscrapr-1.2.0/ffscrapr/MD5                                                                          |  285 ++++++----
 ffscrapr-1.2.0/ffscrapr/NAMESPACE                                                                    |   22 
 ffscrapr-1.2.0/ffscrapr/NEWS.md                                                                      |   23 
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 ffscrapr-1.2.0/ffscrapr/R/flea_connect.R                                                             |only
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 ffscrapr-1.2.0/ffscrapr/R/flea_scoring.R                                                             |only
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 ffscrapr-1.2.0/ffscrapr/R/mfl_api.R                                                                  |    2 
 ffscrapr-1.2.0/ffscrapr/R/mfl_playerscores.R                                                         |    3 
 ffscrapr-1.2.0/ffscrapr/R/mfl_schedule.R                                                             |    1 
 ffscrapr-1.2.0/ffscrapr/R/mfl_scoring.R                                                              |   12 
 ffscrapr-1.2.0/ffscrapr/R/mfl_userleagues.R                                                          |    4 
 ffscrapr-1.2.0/ffscrapr/R/sleeper_api.R                                                              |   23 
 ffscrapr-1.2.0/ffscrapr/R/sleeper_draftpicks.R                                                       |    2 
 ffscrapr-1.2.0/ffscrapr/R/sleeper_franchises.R                                                       |    2 
 ffscrapr-1.2.0/ffscrapr/R/sleeper_league.R                                                           |    6 
 ffscrapr-1.2.0/ffscrapr/R/sleeper_rosters.R                                                          |    4 
 ffscrapr-1.2.0/ffscrapr/R/sleeper_schedule.R                                                         |    2 
 ffscrapr-1.2.0/ffscrapr/R/sleeper_scoring.R                                                          |    2 
 ffscrapr-1.2.0/ffscrapr/R/sleeper_standings.R                                                        |   16 
 ffscrapr-1.2.0/ffscrapr/R/sleeper_starters.R                                                         |    2 
 ffscrapr-1.2.0/ffscrapr/R/sleeper_transactions.R                                                     |  214 ++++---
 ffscrapr-1.2.0/ffscrapr/R/sleeper_userleagues.R                                                      |   15 
 ffscrapr-1.2.0/ffscrapr/R/zzz.R                                                                      |   81 +-
 ffscrapr-1.2.0/ffscrapr/README.md                                                                    |   36 -
 ffscrapr-1.2.0/ffscrapr/build/vignette.rds                                                           |binary
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 ffscrapr-1.2.0/ffscrapr/inst/doc/mfl_basics.R                                                        |    8 
 ffscrapr-1.2.0/ffscrapr/inst/doc/mfl_basics.Rmd                                                      |   21 
 ffscrapr-1.2.0/ffscrapr/inst/doc/mfl_basics.html                                                     |  276 ++++-----
 ffscrapr-1.2.0/ffscrapr/inst/doc/mfl_getendpoint.R                                                   |    7 
 ffscrapr-1.2.0/ffscrapr/inst/doc/mfl_getendpoint.Rmd                                                 |   19 
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 ffscrapr-1.2.0/ffscrapr/inst/doc/sleeper_basics.R                                                    |   10 
 ffscrapr-1.2.0/ffscrapr/inst/doc/sleeper_basics.Rmd                                                  |   12 
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 ffscrapr-1.2.0/ffscrapr/man/dot-fn_choose_season.Rd                                                  |    2 
 ffscrapr-1.2.0/ffscrapr/man/dot-fn_drop_nulls.Rd                                                     |    2 
 ffscrapr-1.2.0/ffscrapr/man/dot-fn_set_ratelimit.Rd                                                  |    2 
 ffscrapr-1.2.0/ffscrapr/man/dot-fn_set_useragent.Rd                                                  |    2 
 ffscrapr-1.2.0/ffscrapr/man/dp_values.Rd                                                             |    2 
 ffscrapr-1.2.0/ffscrapr/man/ff_connect.Rd                                                            |    3 
 ffscrapr-1.2.0/ffscrapr/man/ff_draft.Rd                                                              |   13 
 ffscrapr-1.2.0/ffscrapr/man/ff_draftpicks.Rd                                                         |   18 
 ffscrapr-1.2.0/ffscrapr/man/ff_franchises.Rd                                                         |   16 
 ffscrapr-1.2.0/ffscrapr/man/ff_league.Rd                                                             |   16 
 ffscrapr-1.2.0/ffscrapr/man/ff_playerscores.Rd                                                       |   23 
 ffscrapr-1.2.0/ffscrapr/man/ff_rosters.Rd                                                            |   15 
 ffscrapr-1.2.0/ffscrapr/man/ff_schedule.Rd                                                           |   20 
 ffscrapr-1.2.0/ffscrapr/man/ff_scoring.Rd                                                            |   16 
 ffscrapr-1.2.0/ffscrapr/man/ff_standings.Rd                                                          |   20 
 ffscrapr-1.2.0/ffscrapr/man/ff_starters.Rd                                                           |   16 
 ffscrapr-1.2.0/ffscrapr/man/ff_transactions.Rd                                                       |   18 
 ffscrapr-1.2.0/ffscrapr/man/ff_userleagues.Rd                                                        |   13 
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 ffscrapr-1.2.0/ffscrapr/man/sleeper_getendpoint.Rd                                                   |    2 
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 ffscrapr-1.2.0/ffscrapr/tests/testthat/test-ff_draft.R                                               |    7 
 ffscrapr-1.2.0/ffscrapr/tests/testthat/test-ff_draftpicks.R                                          |   12 
 ffscrapr-1.2.0/ffscrapr/tests/testthat/test-ff_franchises.R                                          |    8 
 ffscrapr-1.2.0/ffscrapr/tests/testthat/test-ff_league.R                                              |    6 
 ffscrapr-1.2.0/ffscrapr/tests/testthat/test-ff_playerscores.R                                        |    6 
 ffscrapr-1.2.0/ffscrapr/tests/testthat/test-ff_rosters.R                                             |    6 
 ffscrapr-1.2.0/ffscrapr/tests/testthat/test-ff_schedule.R                                            |    7 
 ffscrapr-1.2.0/ffscrapr/tests/testthat/test-ff_scoring.R                                             |    6 
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 ffscrapr-1.2.0/ffscrapr/vignettes/sleeper_basics.Rmd                                                 |   12 
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New package arctools with initial version 1.0.0
Package: arctools
Type: Package
Title: Processing and Physical Activity Summaries of Minute Level Activity Data
Version: 1.0.0
Authors@R: c( person("Marta", "Karas", email = "marta.karass@gmail.com", role = c("aut", "cre"), comment = c(ORCID = "0000-0001-5889-3970")), person("Jacek", "Urbanek", role = c("aut"), comment = c(ORCID = "0000-0002-1890-8899")), person("Jennifer", "Schrack", role = c("aut"), comment = c(ORCID = "0000-0001-9244-9267")) )
Description: Provides functions to process minute level actigraphy-measured activity counts data and extract commonly used physical activity volume and fragmentation metrics.
License: GPL-3
Encoding: UTF-8
Depends: R (>= 2.10)
RoxygenNote: 7.1.1
LazyData: true
Suggests: testthat, data.table, dplyr, knitr, rmarkdown, ggplot2, covr
Imports: lubridate, runstats
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2020-11-26 05:01:10 UTC; martakaras
Author: Marta Karas [aut, cre] (<https://orcid.org/0000-0001-5889-3970>), Jacek Urbanek [aut] (<https://orcid.org/0000-0002-1890-8899>), Jennifer Schrack [aut] (<https://orcid.org/0000-0001-9244-9267>)
Maintainer: Marta Karas <marta.karass@gmail.com>
Repository: CRAN
Date/Publication: 2020-11-27 10:50:02 UTC

More information about arctools at CRAN
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Package radiant.data updated to version 1.3.12 with previous version 1.3.10 dated 2020-08-07

Title: Data Menu for Radiant: Business Analytics using R and Shiny
Description: The Radiant Data menu includes interfaces for loading, saving, viewing, visualizing, summarizing, transforming, and combining data. It also contains functionality to generate reproducible reports of the analyses conducted in the application.
Author: Vincent Nijs [aut, cre]
Maintainer: Vincent Nijs <radiant@rady.ucsd.edu>

Diff between radiant.data versions 1.3.10 dated 2020-08-07 and 1.3.12 dated 2020-11-27

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Package MatchIt updated to version 4.0.1 with previous version 4.0.0 dated 2020-11-14

Title: Nonparametric Preprocessing for Parametric Causal Inference
Description: Selects matched samples of the original treated and control groups with similar covariate distributions -- can be used to match exactly on covariates, to match on propensity scores, or perform a variety of other matching procedures. The package also implements a series of recommendations offered in Ho, Imai, King, and Stuart (2007) <DOI:10.1093/pan/mpl013>.
Author: Daniel Ho [aut] (<https://orcid.org/0000-0002-2195-5469>), Kosuke Imai [aut] (<https://orcid.org/0000-0002-2748-1022>), Gary King [aut] (<https://orcid.org/0000-0002-5327-7631>), Elizabeth Stuart [aut] (<https://orcid.org/0000-0002-9042-8611>), Alex Whitworth [ctb], Noah Greifer [ctb, cre, aut] (<https://orcid.org/0000-0003-3067-7154>)
Maintainer: Noah Greifer <noah.greifer@gmail.com>

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Thu, 26 Nov 2020

Package wflo updated to version 1.6 with previous version 1.5 dated 2020-04-22

Title: Data Set and Helper Functions for Wind Farm Layout Optimization Problems
Description: Provides a convenient data set, a set of helper functions, and a benchmark function for economically (profit) driven wind farm layout optimization. This enables researchers in the field of the NP-hard (non-deterministic polynomial-time hard) problem of wind farm layout optimization to focus on their optimization methodology contribution and also provides a realistic benchmark setting for comparability among contributions. See Croonenbroeck, Carsten & Hennecke, David (2020) <doi:10.1016/j.energy.2020.119244>.
Author: Carsten Croonenbroeck [aut, cre], David Hennecke [ctb]
Maintainer: Carsten Croonenbroeck <carsten.croonenbroeck@uni-rostock.de>

Diff between wflo versions 1.5 dated 2020-04-22 and 1.6 dated 2020-11-26

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Package psqn updated to version 0.1.4 with previous version 0.1.3 dated 2020-11-14

Title: Partially Separable Quasi-Newton
Description: Provides quasi-Newton methods to minimize partially separable functions. The methods are largely described by Nocedal and Wright (2006) <doi:10.1007/978-0-387-40065-5>.
Author: Benjamin Christoffersen [cre, aut]
Maintainer: Benjamin Christoffersen <boennecd@gmail.com>

Diff between psqn versions 0.1.3 dated 2020-11-14 and 0.1.4 dated 2020-11-26

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Package ppmSuite updated to version 0.1.1 with previous version 0.1.0 dated 2020-11-23

Title: A Collection of Models that Employ a Prior Distribution on Partitions
Description: Provides functions that fit hierarchical Gaussian and probit ordinal models. A (covariate dependent) product partition model is used as a prior. If a covariate dependent product partition model is selected, then all the options detailed in Page, G.L.; Quintana, F.A.; (2018) <doi:10.1007/s11222-017-9777-z> are available. In addition, a function that fits a Gaussian likelihood spatial product partition model that is detailed in Page, G.L.; Quintana, F.A.; (2016) <doi:10.1214/15-BA971> is also provided.
Author: Garritt L. Page [aut, cre, cph], S. McKay Curtis [ctb, cph], Radford M. Neal [ctb, cph]
Maintainer: Garritt L. Page <page@stat.byu.edu>

Diff between ppmSuite versions 0.1.0 dated 2020-11-23 and 0.1.1 dated 2020-11-26

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New package PDE with initial version 1.1.2
Package: PDE
Type: Package
Title: Extract Sentences and Tables from PDFs with User Interface
Version: 1.1.2
Authors@R: person(given = "Erik", family = "Stricker", email = "erik.stricker@gmx.com", role = c("aut", "cre"))
Author: Erik Stricker [aut, cre]
Maintainer: Erik Stricker <erik.stricker@gmx.com>
Description: The PDE (Pdf Data Extractor) allows the extraction of information and tables optionally based on search words from PDF (Portable Document Format) files and enables the visualization of the results, both by providing a convenient user-interface.
License: GPL-3 | file LICENSE
Encoding: UTF-8
LazyData: true
Imports: tcltk
Depends: tcltk2 (>= 1.2.11), R (>= 3.5)
SystemRequirements: XPDF (>=4.0)(https://www.xpdfreader.com/download.html)
RoxygenNote: 7.1.1
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2020-11-25 17:24:55 UTC; Erik
Repository: CRAN
Date/Publication: 2020-11-27 02:20:25 UTC

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Package mixIndependR updated to version 0.4.2 with previous version 0.4.0 dated 2020-11-25

Title: Genetics and Independence Testing of Mixed Genetic Panels
Description: Developed to deal with multi-locus genotype data, this package is especially designed for those panel which include different type of markers. Basic genetic parameters like allele frequency, genotype frequency, heterozygosity and Hardy-Weinberg test of mixed genetic data can be obtained. In addition, a new test for mutual independence which is compatible for mixed genetic data is developed in this package.
Author: Bing Song
Maintainer: Bing Song <bingsong@my.unthsc.edu>

Diff between mixIndependR versions 0.4.0 dated 2020-11-25 and 0.4.2 dated 2020-11-26

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Package extremis updated to version 1.2 with previous version 1.0 dated 2020-11-20

Title: Statistics of Extremes
Description: Conducts inference in statistical models for extreme values (de Carvalho et al (2012), <doi:10.1080/03610926.2012.709905>; de Carvalho and Davison (2014), <10.1080/01621459.2013.872651>; Einmahl et al (2016), <doi:10.1111/rssb.12099>).
Author: Miguel de Carvalho [aut, cre], Rodrigo Rubio [aut], Vianey Palacios [aut], Alejandro Jara [ctb], Tim Hanson [ctb]
Maintainer: Miguel de Carvalho <miguel.decarvalho@ed.ac.uk>

Diff between extremis versions 1.0 dated 2020-11-20 and 1.2 dated 2020-11-26

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Package CluMP updated to version 0.8.1 with previous version 0.8 dated 2020-02-17

Title: Clustering of Micro Panel Data
Description: Two-step feature-based clustering method designed for micro panel (longitudinal) data with the artificial panel data generator. See Sobisek, Stachova, Fojtik (2018) <arXiv:1807.05926>.
Author: Jan Fojtik [aut, cre], Anna Grishko [aut], Lukas Sobisek [aut, cph, rev]
Maintainer: Jan Fojtik <9afojtik@gmail.com>

Diff between CluMP versions 0.8 dated 2020-02-17 and 0.8.1 dated 2020-11-26

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New package campfin with initial version 1.0.4
Type: Package
Package: campfin
Title: Wrangle Campaign Finance Data
Version: 1.0.4
Authors@R: c(person(given = "Kiernan", family = "Nicholls", role = c("aut", "cre", "cph"), email = "kiernann@protonmail.com"), person(given = "Schuyler", family = "Erle", role = "cph", email = "schuyler@geocoder.us"))
Description: Explore and normalize American campaign finance data. Created by the Investigative Reporting Workshop to facilitate work on The Accountability Project, an effort to collect public data into a central, standard database that is more easily searched: <https://publicaccountability.org/>.
License: CC BY 4.0
URL: https://github.com/irworkshop/campfin
BugReports: https://github.com/irworkshop/campfin/issues
Depends: R (>= 3.2)
Imports: dplyr (>= 0.8.3), fs (>= 1.3.1), ggplot2 (>= 3.2.1), glue (>= 1.3.1), here (>= 0.1), httr (>= 1.4.1), lubridate (>= 1.7.4), magrittr (>= 1.5), purrr (>= 0.3.2), readr (>= 1.3.1), rlang (>= 0.4.0), scales (>= 1.0.0), stringdist (>= 0.9.5.2), stringr (>= 1.4.0), tibble (>= 2.1.3)
Suggests: covr (>= 3.3.2), knitr (>= 1.23), rmarkdown (>= 1.14), spelling (>= 2.1), testthat (>= 2.1.0), usethis (>= 1.6.0)
VignetteBuilder: knitr
Encoding: UTF-8
Language: en-US
LazyData: true
RoxygenNote: 7.1.1
NeedsCompilation: no
Packaged: 2020-11-25 02:52:35 UTC; kiernan
Author: Kiernan Nicholls [aut, cre, cph], Schuyler Erle [cph]
Maintainer: Kiernan Nicholls <kiernann@protonmail.com>
Repository: CRAN
Date/Publication: 2020-11-27 02:20:15 UTC

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Package bayes4psy updated to version 1.2.4 with previous version 1.2.3 dated 2020-02-20

Title: User Friendly Bayesian Data Analysis for Psychology
Description: Contains several Bayesian models for data analysis of psychological tests. A user friendly interface for these models should enable students and researchers to perform professional level Bayesian data analysis without advanced knowledge in programming and Bayesian statistics. This package is based on the Stan platform (Carpenter et el. 2017 <doi:10.18637/jss.v076.i01>).
Author: Jure Demšar [cre, aut], Grega Repovš [aut], Erik Štrumbelj [aut], Trustees of Columbia University [cph], John Kruschke [cph] (R/shared_functions.R - mcmc_hdi, src/stan_files/ttest.stan), Rasmus Baath [cph] (R/b_bootstrap.R)
Maintainer: Jure Demšar <jure.demsar@fri.uni-lj.si>

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Package word2vec updated to version 0.3.3 with previous version 0.3.2 dated 2020-10-10

Title: Distributed Representations of Words
Description: Learn vector representations of words by continuous bag of words and skip-gram implementations of the 'word2vec' algorithm. The techniques are detailed in the paper "Distributed Representations of Words and Phrases and their Compositionality" by Mikolov et al. (2013), available at <arXiv:1310.4546>.
Author: Jan Wijffels [aut, cre, cph] (R wrapper), BNOSAC [cph] (R wrapper), Max Fomichev [ctb, cph] (Code in src/word2vec)
Maintainer: Jan Wijffels <jwijffels@bnosac.be>

Diff between word2vec versions 0.3.2 dated 2020-10-10 and 0.3.3 dated 2020-11-26

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Package hereR updated to version 0.5.2 with previous version 0.5.1 dated 2020-10-20

Title: 'sf'-Based Interface to the 'HERE' REST APIs
Description: Interface to the 'HERE' REST APIs <https://developer.here.com/develop/rest-apis>: (1) geocode and autosuggest addresses or reverse geocode POIs using the 'Geocoder' API; (2) route directions, travel distance or time matrices and isolines using the 'Routing' API; (3) request real-time traffic flow and incident information from the 'Traffic' API; (4) find request public transport connections and nearby stations from the 'Public Transit' API; (5) request intermodal routes using the 'Intermodal Routing' API; (6) get weather forecasts, reports on current weather conditions, astronomical information and alerts at a specific location from the 'Destination Weather' API. Locations, routes and isolines are returned as 'sf' objects.
Author: Merlin Unterfinger [aut, cre] (<https://orcid.org/0000-0003-2020-2366>), Daniel Possenriede [ctb] (<https://orcid.org/0000-0002-6738-9845>)
Maintainer: Merlin Unterfinger <info@munterfinger.ch>

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Package bbsBayes updated to version 2.3.5.2020 with previous version 2.3.4.2020 dated 2020-10-22

Title: Hierarchical Bayesian Analysis of North American BBS Data
Description: The North American Breeding Bird Survey (BBS) is a long-running program that seeks to monitor the status and trends of the breeding birds in North America. Since its start in 1966, the BBS has accumulated over 50 years of data for over 500 species of North American Birds. Given the temporal and spatial structure of the data, hierarchical Bayesian models are used to assess the status and trends of these 500+ species of birds. 'bbsBayes' allows you to perform hierarchical Bayesian analysis of BBS data. You can run a full model analysis for one or more species that you choose, or you can take more control and specify how the data should be stratified, prepared for 'JAGS', or modelled. The functions provided here allow you to replicate analyses performed by the United State Geological Survey (USGS, see Link and Sauer (2011) <doi:10.1525/auk.2010.09220>) and Canadian Wildlife Service (CWS, see Smith and Edwards (2020) <doi:10.1101/2020.03.26.010215>).
Author: Brandon P.M. Edwards [aut, cre], Adam C. Smith [aut]
Maintainer: Brandon P.M. Edwards <edwardsb@uoguelph.ca>

Diff between bbsBayes versions 2.3.4.2020 dated 2020-10-22 and 2.3.5.2020 dated 2020-11-26

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Package idefix updated to version 1.0.1 with previous version 0.4.3 dated 2020-04-07

Title: Efficient Designs for Discrete Choice Experiments
Description: Generates efficient designs for discrete choice experiments based on the multinomial logit model, and individually adapted designs for the mixed multinomial logit model. The generated designs can be presented on screen and choice data can be gathered using a shiny application. Traets F, Sanchez G, and Vandebroek M (2020) <doi:10.18637/jss.v096.i03>.
Author: Frits Traets [aut, cre], Daniel Gil [ctb]
Maintainer: Frits Traets <frits.traets@kuleuven.be>

Diff between idefix versions 0.4.3 dated 2020-04-07 and 1.0.1 dated 2020-11-26

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New package gfiExtremes with initial version 1.0.0
Package: gfiExtremes
Type: Package
Title: Generalized Fiducial Inference for Extremes
Version: 1.0.0
Authors@R: c( person("Stéphane", "Laurent", role = c("aut", "cre"), email = "laurent_step@outlook.fr"), person("Jan", "Hannig", role = "aut"), person("Damian", "V. Wandler", role = "aut") )
Maintainer: Stéphane Laurent <laurent_step@outlook.fr>
Description: Fiducial framework to perform inference on the quantiles for a generalized Pareto distribution model and on the parameters of the Pareto exceedance distribution, assuming the exceedance threshold is a known or unknown parameter. Reference: Damian V. Wandler & Jan Hannig (2012) <doi:10.1007/s10687-011-0127-9>.
License: GPL (>= 2)
Depends: coda
Imports: Rcpp (>= 1.0.5), parallel, doParallel, foreach, stats
LinkingTo: Rcpp, BH, RcppArmadillo
Encoding: UTF-8
RoxygenNote: 7.1.1
URL: https://github.com/stla/gfiExtremes
BugReports: https://github.com/stla/gfiExtremes/issues
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2020-11-25 13:26:16 UTC; stla
Author: Stéphane Laurent [aut, cre], Jan Hannig [aut], Damian V. Wandler [aut]
Repository: CRAN
Date/Publication: 2020-11-26 16:30:02 UTC

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New package etrader with initial version 0.1.2
Package: etrader
Title: 'ETRADE' API Interface for R
Version: 0.1.2
Author: Tony Trevisan [aut, cre]
Authors@R: person(given = "Tony", family = "Trevisan", role = c("aut", "cre"), email = "anthonytrevisan@gmail.com")
Maintainer: Tony Trevisan <anthonytrevisan@gmail.com>
URL: https://tonytrevisan.github.io/etrader/
BugReports: https://github.com/tonytrevisan/etrader/issues
Description: Use R to interface with the 'ETRADE' API <https://developer.etrade.com/home>. Functions include authentication, trading, quote requests, account information, and option chains. A user will need an ETRADE brokerage account and 'ETRADE' API approval. See README for authentication process and examples.
License: GPL-3
Encoding: UTF-8
LazyData: true
Imports: magrittr, httr, urltools, dplyr, rvest, purrr, jsonlite
RoxygenNote: 7.1.1
Suggests: testthat
NeedsCompilation: no
Packaged: 2020-11-25 12:53:53 UTC; rstudio
Repository: CRAN
Date/Publication: 2020-11-26 16:20:02 UTC

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New package diathor with initial version 0.0.1
Package: diathor
Type: Package
Title: Calculate Ecological Information and Diatom Based Indices
Version: 0.0.1
Authors@R: c( person("María Mercedes", "Nicolosi Gelis", email = "mercedesnicolosi@ilpla.edu.ar", role = "aut", comment = c(ORCID = "0000-0001-6324-7930")), person("María Belén", "Sathicq", email = "mbelen@ilpla.edu.ar", role = "aut", comment = c(ORCID = "0000-0002-3534-8950")), person("Joaquín", "Cochero", email = "jcochero@ilpla.edu.ar", role = "cre", comment = c(ORCID = "0000-0003-3957-6819")))
Maintainer: Joaquín Cochero <jcochero@ilpla.edu.ar>
Description: Calculates ecological information and biotic indices for diatoms in a sample. It includes number/shape of chloroplasts diversity indices, size classes, ecological guilds, and multiple biotic indices. It outputs both a dataframe with all the results and plots of all the obtained data in a defined output folder. Sample data was taken from Nicolosi Gelis, Cochero & Gómez (2020, <doi:10.1016/j.ecolind.2019.105951>). The package uses the 'Diat.Barcode' database to calculate morphological and ecological information by Rimet & Couchez (2012, <doi:10.1051/kmae/2012018>), and calculates the DES index by Descy (1979, <http://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=PASCAL8060205402>), the EPID index by Dell'Uomo (1996, ISBN: 3950009002), the IDAP index by Prygiel & Coste (1993, <doi:10.1007/BF00028033>), the ID-CH index by Hürlimann & Niederhauser (2007, <https://www.bafu.admin.ch/bafu/fr/home/themes/eaux/publications/publications-eaux/methodes-analyse-appreciation-cours-eau-diatomees.html>), the IDP index by Gómez & Licursi (2001, <doi:10.1023/A:1011415209445>), the ILM index by Leclercq & Maquet (1987, <http://www.vliz.be/imisdocs/publications/286641.pdf>), the IPS index by Coste (1982, <https://www.oieau.org/eaudoc/notice/ETUDE-DES-METHODES-BIOLOGIQUES-DAPPRECIATION-QUANTITATIVE-DE-LA-QUALITE-DES-EAUX>), the LOBO index by Lobo, Callegaro, & Bender (2002, ISBN:9788585869908), the SLA by Sládeček (1986, <doi:10.1002/aheh.19860140519>), the TDI index by Kelly, & Whitton (1995, <doi:10.1007/BF00003802>), and the SPEAR(herbicide) index by Wood, Mitrovic, Lim, Warne, Dunlop, & Kefford (2019, <doi:10.1016/j.ecolind.2018.12.035>).
License: GNU General Public License
BugReports: https://github.com/jcochero/DiaThor/issues
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.1
Depends: R (>= 2.10), stringdist, vegan, ggplot2, tidyr
Suggests: knitr, rmarkdown
NeedsCompilation: no
Packaged: 2020-11-25 13:42:54 UTC; Juaco
Author: María Mercedes Nicolosi Gelis [aut] (<https://orcid.org/0000-0001-6324-7930>), María Belén Sathicq [aut] (<https://orcid.org/0000-0002-3534-8950>), Joaquín Cochero [cre] (<https://orcid.org/0000-0003-3957-6819>)
Repository: CRAN
Date/Publication: 2020-11-26 16:30:05 UTC

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New package affinitymatrix with initial version 0.1.0
Package: affinitymatrix
Title: Estimation of Affinity Matrix
Version: 0.1.0
Authors@R: person(given = "Edoardo", family = "Ciscato", role = c("aut", "cre"), email = "edoardo.ciscato@kuleuven.be", comment = c(ORCID = "0000-0002-9894-1778"))
Description: Tools to study sorting patterns in matching markets and to estimate the affinity matrix of both the bipartite one-to-one matching model without frictions and with Transferable Utility by 'Dupuy' and 'Galichon' (2014) <doi:10.1086/677191> and its 'unipartite' variant by 'Ciscato', 'Galichon' and 'Gousse' (2020) <doi:10.1086/704611>. It also contains all the necessary tools to implement the 'saliency' analysis, to run rank tests of the affinity matrix and to build tables and plots summarizing the findings.
License: GPL-3
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.1
Imports: stats, utils, grid, expm, MASS, Hmisc, ggplot2, ggrepel
Suggests: testthat
NeedsCompilation: no
Packaged: 2020-11-25 15:36:42 UTC; u0129287
Author: Edoardo Ciscato [aut, cre] (<https://orcid.org/0000-0002-9894-1778>)
Maintainer: Edoardo Ciscato <edoardo.ciscato@kuleuven.be>
Repository: CRAN
Date/Publication: 2020-11-26 17:00:02 UTC

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Package qrng updated to version 0.0-8 with previous version 0.0-7 dated 2019-09-09

Title: (Randomized) Quasi-Random Number Generators
Description: Functionality for generating (randomized) quasi-random numbers in high dimensions.
Author: Marius Hofert [aut, cre], Christiane Lemieux [aut]
Maintainer: Marius Hofert <marius.hofert@uwaterloo.ca>

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Package nse2r updated to version 0.1.3 with previous version 0.1.2 dated 2020-06-18

Title: Fetch Data from 'National Stock Exchange (India)'
Description: Fetch data related to stocks, index, futures & options from the 'NSE (National Stock Exchange, India)'. This package is community maintained and is not officially supported by 'NSE'. The accuracy of data is only as correct as provided on <https://www.nseindia.com>.
Author: Lokesh Kumar [aut], Aravind Hebbali [aut, cre], Lionel Pinto [ctb]
Maintainer: Aravind Hebbali <hebbali.aravind@gmail.com>

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Package move updated to version 4.0.6 with previous version 4.0.4 dated 2020-09-12

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

Diff between move versions 4.0.4 dated 2020-09-12 and 4.0.6 dated 2020-11-26

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Package march updated to version 3.3.2 with previous version 3.1 dated 2019-08-18

Title: Markov Chains
Description: Computation of various Markovian models for categorical data including homogeneous Markov chains of any order, MTD models, Hidden Markov models, and Double Chain Markov Models.
Author: Ogier Maitre and Kevin Emery, with contributions from Oliver Buschor and Andre Berchtold
Maintainer: Andre Berchtold <andre.berchtold@unil.ch>

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Package cellWise updated to version 2.2.2 with previous version 2.2.1 dated 2020-11-11

Title: Analyzing Data with Cellwise Outliers
Description: Tools for detecting cellwise outliers and robust methods to analyze data which may contain them. Contains the implementation of the algorithms described in Rousseeuw and Van den Bossche (2018) <doi:10.1080/00401706.2017.1340909> (open access) Hubert et al. (2019) <doi:10.1080/00401706.2018.1562989> (open access), Raymaekers and Rousseeuw (2019) <doi:10.1080/00401706.2019.1677270> (open access), Raymaekers and Rousseeuw (2020) <arXiv:2005.07946> (open access), Raymaekers and Rousseeuw (2020) <arXiv:1912.12446> (open access). Examples can be found in the vignettes: "DDC_examples", "MacroPCA_examples", "wrap_examples" and "transfo_examples".
Author: Jakob Raymaekers [aut, cre], Peter Rousseeuw [aut], Wannes Van den Bossche [ctb], Mia Hubert [ctb]
Maintainer: Jakob Raymaekers <jakob.raymaekers@kuleuven.be>

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Package biogrowth updated to version 0.1.2 with previous version 0.1.1 dated 2020-11-11

Title: Modelling of Microbial Growth
Description: Modelling of microbial growth under isothermal and dynamic conditions. Includes functions for model fitting and making prediction under isothermal and dynamic conditions using methods (algorithms & models) common in predictive microbiology (See Perez-Rodriguez and Valero (2012, ISBN:978-1-4614-5519-6)).
Author: Alberto Garre [aut, cre] (<https://orcid.org/0000-0002-4404-3550>), Jeroen Koomen [aut], Heidy den Besten [aut], Marcel Zwietering [aut]
Maintainer: Alberto Garre <garre.alberto@gmail.com>

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Package pisaRT updated to version 2.0.0 with previous version 1.0.0 dated 2020-07-01

Title: Small Example Response and Response Time Data from PISA 2018
Description: Scored responses and responses times from the Canadian subsample of the PISA 2018 assessment, accessible as the "Cognitive Item Data File" by OECD (2019) <https://www.oecd.org/pisa/data/2018database/>.
Author: Benjamin Becker [aut, cre], Esther Ulitzsch [ctb], Christoph Koenig [ctb]
Maintainer: Benjamin Becker <b.becker@iqb.hu-berlin.de>

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Package jstable updated to version 1.0.1 with previous version 1.0.0 dated 2020-11-01

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

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Package lori updated to version 2.2.1 with previous version 2.2.0 dated 2019-12-10

Title: Imputation of Count Data using Side Information
Description: Analysis, imputation, and multiple imputation of count data using covariates. LORI uses a log-linear model where main row and column effects are decomposed as regression terms on known covariates. A residual low-rank interaction term is also fitted. LORI returns estimates of covariate effects and interactions, as well as an imputed count table. The package also contains a multiple imputation procedure.
Author: Genevieve Robin [aut, cre]
Maintainer: Genevieve Robin <genevieve.robin@polytechnique.edu>

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Package ZOIP (with last version 0.1) was removed from CRAN

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2017-12-19 0.1

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2015-09-11 0.15

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2014-01-01 1.4
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2012-09-26 1.1
2012-08-22 1.0

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2014-04-09 1.0

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2016-12-14 1.0.1

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2019-08-02 0.1.0

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2020-09-12 3.0.0
2020-04-19 2.6.1
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2019-07-01 2.5.0
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Package cents (with last version 0.1-41) was removed from CRAN

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2014-08-26 0.1-41

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Package datasailr updated to version 0.8.7 with previous version 0.8.6 dated 2020-08-26

Title: Row by Row Data Processing Tool, Using 'DataSailr' Script
Description: A row by row data processing tool. You can write data processing code in 'DataSailr' script which is specially intended for data manipulation. The package uses 'libsailr' (C/C++ library) for its 'DataSailr' code parsing and its execution.
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), Jon Clayden [cph, ctb] (ore package), 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]
Maintainer: Toshihiro Umehara <toshi@niceume.com>

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Package PoissonBinomial updated to version 1.2.1 with previous version 1.2.0 dated 2020-11-25

Title: Efficient Computation of Ordinary and Generalized Poisson Binomial Distributions
Description: Efficient implementations of multiple exact and approximate methods as described in Hong (2013) <doi:10.1016/j.csda.2012.10.006>, Biscarri, Zhao & Brunner (2018) <doi:10.1016/j.csda.2018.01.007> and Zhang, Hong & Balakrishnan (2018) <doi:10.1080/00949655.2018.1440294> for computing the probability mass, cumulative distribution and quantile functions, as well as generating random numbers for both the ordinary and generalized Poisson binomial distribution.
Author: Florian Junge [aut, cre]
Maintainer: Florian Junge <florian.junge@h-da.de>

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New package NPMLEmix with initial version 1.1
Package: NPMLEmix
Type: Package
Title: Two-Groups Mixture Model with Covariates
Version: 1.1
Date: 2020-11-19
Depends: R (>= 3.0.1), Rmosek
Authors@R: c( person( "Nabarun", "Deb", email= "nd2560@columbia.edu", role = c("aut", "cre")), person("Sujayam", "Saha", email = "sujayam@berkeley.edu", role = "ctb"), person("Adityanand", "Guntuboyina", email = "aditya@stat.berkeley.edu", role = "ctb"), person("Bodhisattva", "Sen", email = "bodhi@stat.columbia.edu", role = "ctb") )
Maintainer: Nabarun Deb <nd2560@columbia.edu>
Description: We develop three procedures for estimation in a two-groups model with covariates. One of them is a nonparametric maximum likelihood estimation based approach when the signal distribution is an infinite Gaussian location mixture and the signal proportion is a logistic function of the available covariates. Two other functions - marg1() and marg2() have also been implemented for inference in the above framework. All these methods can be used for inference in multiple hypotheses testing. For more information, see the paper: Deb, Saha, Guntuboyina and Sen (2019),``Two-component Mixture Model in the Presence of Covariates'' <arXiv:1810.07897v2>.
License: GPL-2
Encoding: UTF-8
Author: Nabarun Deb [aut, cre], Sujayam Saha [ctb], Adityanand Guntuboyina [ctb], Bodhisattva Sen [ctb]
LazyData: true
RoxygenNote: 7.1.1
NeedsCompilation: no
SystemRequirements: MOSEK (http://www.mosek.com) and MOSEK license.
URL: https://github.com/NabarunD/NPMLEmix
Imports: R.utils, dplyr, spatstat, methods, latexpdf, Matrix, FDRreg, Rcpp, REBayes, CAMAN, progress, pbapply, Hmisc, pracma, mosaic
Packaged: 2020-11-25 03:40:50 UTC; Nabarun Deb
Repository: CRAN
Date/Publication: 2020-11-26 11:30:03 UTC

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New package LMoFit with initial version 0.1.6
Package: LMoFit
Type: Package
Title: Advanced L-Moment Fitting of Distributions
Version: 0.1.6
Authors@R: c(person("Mohanad", "Zaghloul", role = c("aut", "cre"), email = "mohanad.zaghloul@usask.ca"), person("Simon Michael", "Papalexiou", role = c("aut", "ths")), person("Amin", "Elshorbagy", role = c("aut", "ths")) )
Description: A complete framework for frequency analysis is provided by 'LMoFit'. It has functions related to the determination of sample L-moments as in Hosking, J.R.M. (1990) <doi:10.1111/j.2517-6161.1990.tb01775.x>, the fitting of various distributions as in Zaghloul et al. (2020) <doi:10.1016/j.advwatres.2020.103720> and Hosking, J.R.M. (2019) <https://CRAN.R-project.org/package=lmom>, besides plotting and manipulating L-space diagrams as in Papalexiou, S.M. & Koutsoyiannis, D. (2016) <doi:10.1016/j.advwatres.2016.05.005> for two-shape parametric distributions on the L-moment ratio diagram. Additionally, the quantile, probability density, and cumulative probability functions of various distributions are provided in a user-friendly manner.
Maintainer: Mohanad Zaghloul <mohanad.zaghloul@usask.ca>
Depends: R (>= 3.3)
Imports: lmom, pracma, stats, ggplot2, sf, utils
License: GPL-3
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.0
VignetteBuilder: knitr
Suggests: knitr, rmarkdown
NeedsCompilation: no
Packaged: 2020-11-24 19:02:28 UTC; maz743
Author: Mohanad Zaghloul [aut, cre], Simon Michael Papalexiou [aut, ths], Amin Elshorbagy [aut, ths]
Repository: CRAN
Date/Publication: 2020-11-26 11:10:02 UTC

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New package EwR with initial version 1.4
Package: EwR
Type: Package
Title: Econometrics with R
Version: 1.4
Authors@R: c( person("Selahattin", "Guris", email = "sguris@marmara.edu.tr", role = "aut"), person("Ebru", "Caglayan Akay", email = "winston@rstudio.com", role = "aut"), person("Burak", "Guris", email = "bguris@istanbul.edu.tr", role = "cre"))
Description: Function and data sets in the book entitled "R ile Temel Ekonometri", S.Guris, E.C.Akay, B. Guris(2020). The book published in Turkish. It is possible to makes Durbin two stage method for autocorrelation, generalized differencing method for correction autocorrelation, Hausman Test for identification and computes LM, LR and Wald test statistics for redundant variable by using the functions written in this package.
License: GPL (>= 2)
Depends: R (>= 3.5.0)
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.1
NeedsCompilation: no
Packaged: 2020-11-24 22:51:41 UTC; BVB
Author: Selahattin Guris [aut], Ebru Caglayan Akay [aut], Burak Guris [cre]
Maintainer: Burak Guris <bguris@istanbul.edu.tr>
Repository: CRAN
Date/Publication: 2020-11-26 11:20:05 UTC

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New package stevedata with initial version 0.1.0
Package: stevedata
Type: Package
Title: Steve's Toy Data for Teaching About a Variety of Methodological, Social, and Political Topics
Depends: R (>= 3.5.0)
Version: 0.1.0
Authors@R: person("Steve", "Miller", email = "steven.v.miller@gmail.com", role = c("aut", "cre"), comment = c(ORCID = "0000-0003-4072-6263"))
Maintainer: Steve Miller <steven.v.miller@gmail.com>
Description: This is an R package for all my toy data. Its main uses are for teaching. My students, and academics like me who teach the same topics I teach, should find this useful if their teaching workflow is also built around the R programming language.
License: GPL-2
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.1
URL: https://github.com/svmiller/stevedata
BugReports: https://github.com/svmiller/stevedata/issues/
Suggests: knitr, rmarkdown, tibble, tools, testthat
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2020-11-24 16:43:31 UTC; steve
Author: Steve Miller [aut, cre] (<https://orcid.org/0000-0003-4072-6263>)
Repository: CRAN
Date/Publication: 2020-11-26 10:50:03 UTC

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New package statswalesr with initial version 0.1.0
Package: statswalesr
Type: Package
Title: Easily Extract Data from 'StatsWales'
Version: 0.1.0
Authors@R: person( "Jamie", "Ralph", email = "jamesryanralph@outlook.com", role = c("aut", "cre") )
Description: Download data from 'StatsWales' into R. Removes the need for the user to write their own loops when parsing data from the 'StatsWales' API. Provides functions for datasets (<http://open.statswales.gov.wales/en-gb/dataset>) and metadata (<http://open.statswales.gov.wales/en-gb/discover/metadata>) endpoints.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Imports: jsonlite, curl, dplyr, rlang
RoxygenNote: 7.1.1
Suggests: testthat
NeedsCompilation: no
Packaged: 2020-11-24 17:22:12 UTC; james
Author: Jamie Ralph [aut, cre]
Maintainer: Jamie Ralph <jamesryanralph@outlook.com>
Repository: CRAN
Date/Publication: 2020-11-26 10:50:08 UTC

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Package mombf updated to version 3.0.1 with previous version 2.2.9 dated 2019-12-06

Title: Bayesian Model Selection and Averaging for Non-Local and Local Priors
Description: Bayesian model selection and averaging for regression and mixtures for non-local and selected local priors.
Author: David Rossell, John D. Cook, Donatello Telesca, P. Roebuck, Oriol Abril
Maintainer: David Rossell <rosselldavid@gmail.com>

Diff between mombf versions 2.2.9 dated 2019-12-06 and 3.0.1 dated 2020-11-26

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 34 files changed, 2619 insertions(+), 608 deletions(-)

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Package MediaNews updated to version 0.2.1 with previous version 0.2.0 dated 2020-11-24

Title: Media News Extraction for Text Analysis
Description: Extract textual data from different media channels through its source based on users choice of keywords. These data can be used to perform text analysis to identify patterns in respective media reporting. The media channels used in this package are print media. The data (or news) used are publicly available to consumers.
Author: Vatsal Aima [aut, cre]
Maintainer: Vatsal Aima <vaima75@hotmail.com>

Diff between MediaNews versions 0.2.0 dated 2020-11-24 and 0.2.1 dated 2020-11-26

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New package ifultools with initial version 2.0-19
Package: ifultools
Title: Insightful Research Tools
Version: 2.0-19
Authors@R: c(person(given = "William", family = "Constantine", role = "aut"), person(given = "Stephen", family = "Kaluzny", role = c("aut", "cre"), email = "spkaluzny@gmail.com"))
Depends: R (>= 3.0.2)
Imports: MASS, methods, splus2R (>= 1.2-0)
Description: Insightful Research Tools is a collection of signal processing, image processing, and time series modeling routines written in the C language for speed and efficency. The routines were originally developed at Insightful for use in S-PLUS.
License: GPL-2
Collate: it_mutils.R it_plot.R it_util.R it_calls.R package.R
Repository: CRAN
NeedsCompilation: yes
Packaged: 2020-11-26 02:15:46 UTC; spk
Author: William Constantine [aut], Stephen Kaluzny [aut, cre]
Maintainer: Stephen Kaluzny <spkaluzny@gmail.com>
Date/Publication: 2020-11-26 11:00:02 UTC

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New package geomnet with initial version 0.3.1
Package: geomnet
Type: Package
Title: Network Visualization in the 'ggplot2' Framework
Version: 0.3.1
Date: 2020-11-25
Authors@R: c( person("Sam", "Tyner", email = "sctyner90@gmail.com", role = c("aut", "cre")), person("Heike", "Hofmann", email = "hofmann@iastate.edu", role = c("aut", "ctb")), person("Nicholas", "Tierney", email = "nicholas.tierney@gmail.com", role = "ctb") )
Description: Network visualization in the 'ggplot2' framework. Network functionality is provided in a single 'ggplot2' layer by calling the geom 'net'. Layouts are calculated using the 'sna' package, example networks are included.
License: GPL (>= 2)
URL: https://github.com/sctyner/geomnet
BugReports: https://github.com/sctyner/geomnet/issues
LazyData: TRUE
Depends: R (>= 3.5), ggplot2 (>= 3.0.0)
Imports: sna, network, dplyr, tidyr, readr, plotly
Suggests: ggrepel, knitr, igraph, ggmap, spelling, rmarkdown
VignetteBuilder: knitr
Encoding: UTF-8
Language: en-US
RoxygenNote: 7.1.0
NeedsCompilation: no
Packaged: 2020-11-25 23:11:10 UTC; sctyner
Author: Sam Tyner [aut, cre], Heike Hofmann [aut, ctb], Nicholas Tierney [ctb]
Maintainer: Sam Tyner <sctyner90@gmail.com>
Repository: CRAN
Date/Publication: 2020-11-26 11:00:06 UTC

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Package geometries updated to version 0.2.0 with previous version 0.1.0 dated 2020-08-14

Title: Convert Between R Objects and Geometric Structures
Description: Geometry shapes in 'R' are typically represented by matrices (points, lines), with more complex shapes being lists of matrices (polygons). 'Geometries' will convert various 'R' objects into these shapes. Conversion functions are available at both the 'R' level, and through 'Rcpp'.
Author: David Cooley [aut, cre]
Maintainer: David Cooley <david.cooley.au@gmail.com>

Diff between geometries versions 0.1.0 dated 2020-08-14 and 0.2.0 dated 2020-11-26

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New package fdaoutlier with initial version 0.1.0
Package: fdaoutlier
Title: Outlier Detection Tools for Functional Data Analysis
Version: 0.1.0
Authors@R: c(person(given = "Oluwasegun Taiwo", family = "Ojo", role = c("aut", "cre", "cph"), email = "seguntaiwoojo@gmail.com", comment = c(ORCID = "0000-0001-9629-6990")), person(given = "Rosa Elvira", family = "Lillo", role = c("aut"), email = "lillo@est-econ.uc3m.es"), person(given = "Antonio", family = "Fernández Anta", role = c("aut", "fnd"), email = "antonio.fernandez@imdea.org"))
Description: A collection of functions for outlier detection in functional data analysis. Methods implemented include directional outlyingness, MS-plot, total variation depth, and sequential transformations among others.
License: GPL-3
URL: https://github.com/otsegun/fdaoutlier
Encoding: UTF-8
LazyData: true
Suggests: testthat (>= 2.1.0), covr, spelling
RoxygenNote: 7.1.1
Imports: MASS
Depends: R (>= 2.10)
Language: en-US
NeedsCompilation: yes
Packaged: 2020-11-24 14:46:41 UTC; statimatician
Author: Oluwasegun Taiwo Ojo [aut, cre, cph] (<https://orcid.org/0000-0001-9629-6990>), Rosa Elvira Lillo [aut], Antonio Fernández Anta [aut, fnd]
Maintainer: Oluwasegun Taiwo Ojo <seguntaiwoojo@gmail.com>
Repository: CRAN
Date/Publication: 2020-11-26 10:40:03 UTC

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Package LocalControl updated to version 1.1.2.2 with previous version 1.1.2.1 dated 2020-04-07

Title: Nonparametric Methods for Generating High Quality Comparative Effectiveness Evidence
Description: Implements novel nonparametric approaches to address biases and confounding when comparing treatments or exposures in observational studies of outcomes. While designed and appropriate for use in studies involving medicine and the life sciences, the package can be used in other situations involving outcomes with multiple confounders. The package implements a family of methods for non-parametric bias correction when comparing treatments in observational studies, including survival analysis settings, where competing risks and/or censoring may be present. The approach extends to bias-corrected personalized predictions of treatment outcome differences, and analysis of heterogeneity of treatment effect-sizes across patient subgroups. For further details, please see: Lauve NR, Nelson SJ, Young SS, Obenchain RL, Lambert CG. LocalControl: An R Package for Comparative Safety and Effectiveness Research. Journal of Statistical Software. 2020. p. 1–32. Available from <doi:10.18637/jss.v096.i04>.
Author: Nicolas R. Lauve [aut] (<https://orcid.org/0000-0002-9348-0319>), Stuart J. Nelson [aut] (<https://orcid.org/0000-0002-8756-0179>), S. Stanley Young [aut] (<https://orcid.org/0000-0001-9449-5478>), Robert L. Obenchain [aut] (<https://orcid.org/0000-0002-8395-1666>), Melania Pintilie [ctb], Martin Kutz [ctb], Christophe G. Lambert [aut, cre] (<https://orcid.org/0000-0003-1994-2893>)
Maintainer: Christophe G. Lambert <cglambert@unm.edu>

Diff between LocalControl versions 1.1.2.1 dated 2020-04-07 and 1.1.2.2 dated 2020-11-26

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New package mitre with initial version 0.1.1
Package: mitre
Type: Package
Title: Cybersecurity MITRE Standards Data and Digraphs
Version: 0.1.1
Authors@R: person("Humbert", "Costas", email = "humbert.costas@gmail.com", role = c("aut", "cre"))
Maintainer: Humbert Costas <humbert.costas@gmail.com>
Description: Extract, transform and load MITRE standards. This package gives you an approach to cybersecurity data sets. All data sets are build on runtime downloading raw data from MITRE public services. MITRE <https://www.mitre.org/> is a government-funded research organization based in Bedford and McLean. Current version includes Shield framework from: <https://github.com/MITRECND/mitrecnd.github.io/tree/master/_data>. Soon to be included other standards.
License: CC0
URL: https://github.com/motherhack3r/mitre
BugReports: https://github.com/motherhack3r/mitre/issues
Encoding: UTF-8
LazyData: true
Imports: visNetwork, dplyr, plyr, jsonlite, curl
RoxygenNote: 7.1.1
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2020-11-24 14:09:59 UTC; humbe
Author: Humbert Costas [aut, cre]
Repository: CRAN
Date/Publication: 2020-11-26 09:20:03 UTC

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Package jpmesh updated to version 2.0.0 with previous version 1.2.1 dated 2020-05-06

Title: Utilities for Japanese Mesh Code
Description: Helpful functions for using mesh code (80km to 125m) data in Japan. Visualize mesh code using 'ggplot2' and 'leaflet', etc.
Author: Shinya Uryu [aut, cre] (<https://orcid.org/0000-0002-0493-6186>)
Maintainer: Shinya Uryu <suika1127@gmail.com>

Diff between jpmesh versions 1.2.1 dated 2020-05-06 and 2.0.0 dated 2020-11-26

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 tests/testthat/test-neighborhood.R                                        |   34 
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Package BayesianFROC updated to version 0.4.0 with previous version 0.3.1 dated 2020-09-14

Title: FROC Analysis by Bayesian Approaches
Description: Execute BayesianFROC::fit_GUI_Shiny() (or fit_GUI_Shiny_MRMC()) for a graphical user interface via Shiny. Provides new methods for the so-called Free-response Receiver Operating Characteristic (FROC) analysis. The ultimate aim of FROC analysis is to compare observer performances, which means comparing characteristics, such as area under the curve (AUC) or figure of merit (FOM). In this package, we only use the notion of AUC for modality comparison, where by "modality", we mean imaging methods such as Magnetic Resonance Imaging (MRI), Computed Tomography (CT), Positron Emission Tomography (PET), ..., etc. So there is a problem that which imaging method is better to detect lesions from shadows in radiographs. To solve modality comparison issues, this package provides new methods using hierarchical Bayesian models proposed by the author of this package. Using this package, one can obtain at least one conclusion that which imaging methods are better for finding lesions in radiographs with the case of your data. Fitting FROC statistical models is sometimes not so good, it can easily confirm by drawing FROC curves and comparing these curves and the points constructed by False Positive fractions (FPFs) and True Positive Fractions (TPFs), we can validate the goodness of fit intuitively. Such validation is also implemented by the Chi square goodness of fit statistics in the Bayesian context which means that the parameter is not deterministic, thus by integrating it with the posterior predictive measure, we get a desired value. To compare modalities (imaging methods: MRI, CT, PET, ... , etc), we evaluate AUCs for each modality. FROC is developed by Dev Chakraborty, his FROC model in his 1989 paper relies on the maximal likelihood methodology. The author modified and provided the alternative Bayesian FROC model. Strictly speaking, his model does not coincide with models in this package. In FROC context, we means by multiple reader and multiple case (MRMC) the case of the number of reader or modality is two or more. The MRMC data is available for functions of this package. I hope that medical researchers use not only the frequentist method but also alternative Bayesian methods. In medical research, many problems are considered under only frequentist methods, such as the notion of p-values. But p-value is sometimes misunderstood. Bayesian methods provide very simple, direct, intuitive answer for research questions. Combining frequentist methods with Bayesian methods, we can obtain more reliable answer for research questions. Please execute the following R scripts from the R (R studio) console, demo(demo_MRMC, package = "BayesianFROC"); demo(demo_srsc, package = "BayesianFROC"); demo(demo_stan, package = "BayesianFROC"); demo(demo_drawcurves_srsc, package = "BayesianFROC"); demo_Bayesian_FROC(); demo_Bayesian_FROC_without_pause(). References: Dev Chakraborty (1989) <doi:10.1118/1.596358> Maximum likelihood analysis of free - response receiver operating characteristic (FROC) data. Pre-print: Issei Tsunoda; Bayesian Models for free-response receiver operating characteristic analysis.
Author: Issei Tsunoda [aut, cre]
Maintainer: Issei Tsunoda <tsunoda.issei1111@gmail.com>

Diff between BayesianFROC versions 0.3.1 dated 2020-09-14 and 0.4.0 dated 2020-11-26

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New package envir with initial version 0.1.0
Package: envir
Title: Manage R Environments Better
Version: 0.1.0
Authors@R: person(given = "Tomasz", family = "Kalinowski", role = c("aut", "cre"), email = "kalinowskit@gmail.com")
Description: Provides a small set of functions for managing R environments, with defaults designed to encourage usage patterns that scale well to larger code bases. It provides: import_from(), a flexible way to assign bindings that defaults to the current environment; include(), a vectorized alternative to base::source() that also default to the current environment; and attach_eval() and attach_source(), a way to evaluate expressions in attached environments. Together, these (and other) functions pair to provide a robust alternative to base::library() and base::source().
License: GPL-3
URL: https://t-kalinowski.github.io/envir/
BugReports: https://github.com/t-kalinowski/envir/issues
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.1
NeedsCompilation: no
Packaged: 2020-11-24 13:33:22 UTC; tomasz
Author: Tomasz Kalinowski [aut, cre]
Maintainer: Tomasz Kalinowski <kalinowskit@gmail.com>
Repository: CRAN
Date/Publication: 2020-11-26 09:00:02 UTC

More information about envir at CRAN
Permanent link

Package table1 updated to version 1.2.1 with previous version 1.2 dated 2020-03-23

Title: Tables of Descriptive Statistics in HTML
Description: Create HTML tables of descriptive statistics, as one would expect to see as the first table (i.e. "Table 1") in a medical/epidemiological journal article.
Author: Benjamin Rich [aut, cre, cph]
Maintainer: Benjamin Rich <mail@benjaminrich.net>

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Package matsbyname updated to version 0.4.16 with previous version 0.4.15 dated 2020-05-29

Title: An Implementation of Matrix Mathematics
Description: An implementation of matrix mathematics wherein operations are performed "by name."
Author: Matthew Heun [aut, cre] (<https://orcid.org/0000-0002-7438-214X>)
Maintainer: Matthew Heun <matthew.heun@me.com>

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Wed, 25 Nov 2020

Package sparklyr updated to version 1.5.0 with previous version 1.4.0 dated 2020-09-16

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

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Package bioseq updated to version 0.1.2 with previous version 0.1.1 dated 2020-07-26

Title: A Toolbox for Manipulating Biological Sequences
Description: Classes and functions to work with biological sequences (DNA, RNA and amino acid sequences). Implements S3 infrastructure to work with biological sequences as described in Keck (2020) <doi:10.1111/2041-210X.13490>. Provides a collection of functions to perform biological conversion among classes (transcription, translation) and basic operations on sequences (detection, selection and replacement based on positions or patterns). The package also provides functions to import and export sequences from and to other package formats.
Author: Francois Keck [aut, cre, cph] (<https://orcid.org/0000-0002-3323-4167>)
Maintainer: Francois Keck <francois.keck@gmail.com>

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Package rlang updated to version 0.4.9 with previous version 0.4.8 dated 2020-10-08

Title: Functions for Base Types and Core R and 'Tidyverse' Features
Description: A toolbox for working with base types, core R features like the condition system, and core 'Tidyverse' features like tidy evaluation.
Author: Lionel Henry [aut, cre], Hadley Wickham [aut], RStudio [cph]
Maintainer: Lionel Henry <lionel@rstudio.com>

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Package migrate updated to version 0.2.0 with previous version 0.1.0 dated 2020-11-24

Title: Create Credit State Migration (Transition) Matrices
Description: Tools to help convert credit risk data at two time points into traditional credit state migration (aka, "transition") matrices. At a higher level, 'migrate' is intended to help an analyst understand how risk moved in their credit portfolio over a time interval. References to this methodology include: 1. Schuermann, T. (2008) <doi:10.1002/9780470061596.risk0409>. 2. Perederiy, V. (2017) <arXiv:1708.00062>.
Author: Michael Thomas [aut, cre], Brad Lindblad [ctb]
Maintainer: Michael Thomas <mthomas@ketchbrookanalytics.com>

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Package IFP updated to version 0.2.4 with previous version 0.2.3 dated 2020-10-26

Title: Identifying Functional Polymorphisms
Description: A suite for identifying causal models using relative concordances and identifying causal polymorphisms in case-control genetic association data, especially with large controls re-sequenced data.
Author: Park L
Maintainer: Leeyoung Park <lypark@yonsei.ac.kr>

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Package epifitter updated to version 0.2.0 with previous version 0.1.0 dated 2020-10-29

Title: Analysis and Simulation of Plant Disease Progress Curves
Description: Analysis and visualization of plant disease progress curve data. Functions for fitting two-parameter population dynamics models (exponential, monomolecular, logistic and Gompertz) to proportion data for single or multiple epidemics using either linear or no-linear regression. Statistical and visual outputs are provided to aid in model selection. Synthetic curves can be simulated for any of the models given the parameters. See Laurence V. Madden, Gareth Hughes, and Frank van den Bosch (2007) <doi:10.1094/9780890545058> for further information on the methods.
Author: Kaique dos S. Alves [aut, cre] (<https://orcid.org/0000-0001-9187-0252>), Emerson M. Del Ponte [aut] (<https://orcid.org/0000-0003-4398-409X>)
Maintainer: Kaique dos S. Alves <kaiquedsalves@gmail.com>

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Package driveR updated to version 0.2.1 with previous version 0.2.0 dated 2020-11-19

Title: Prioritizing Cancer Driver Genes Using Genomics Data
Description: Cancer genomes contain large numbers of somatic alterations but few genes drive tumor development. Identifying cancer driver genes is critical for precision oncology. Most of current approaches either identify driver genes based on mutational recurrence or using estimated scores predicting the functional consequences of mutations. 'driveR' is a tool for personalized or batch analysis of genomic data for driver gene prioritization by combining genomic information and prior biological knowledge. As features, 'driveR' uses coding impact metaprediction scores, non-coding impact scores, somatic copy number alteration scores, hotspot gene/double-hit gene condition, 'phenolyzer' gene scores and memberships to cancer-related KEGG pathways. It uses these features to estimate cancer-type-specific probability for each gene of being a cancer driver using the related task of a multi-task learning classification model. The method is described in detail in Ulgen E, Sezerman OU. 2020. driveR: A Novel Method for Prioritizing Cancer Driver Genes Using Somatic Genomics Data. bioRxiv <doi:10.1101/2020.11.10.376707>.
Author: Ege Ulgen [aut, cre, cph] (<https://orcid.org/0000-0003-2090-3621>)
Maintainer: Ege Ulgen <egeulgen@gmail.com>

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Package EZtune updated to version 3.0.0 with previous version 2.0.0 dated 2019-06-29

Title: Tunes AdaBoost, Elastic Net, Support Vector Machines, and Gradient Boosting Machines
Description: Contains two functions that are intended to make tuning supervised learning methods easy. The eztune function uses a genetic algorithm or Hooke-Jeeves optimizer to find the best set of tuning parameters. The user can choose the optimizer, the learning method, and if optimization will be based on accuracy obtained through validation error, cross validation, or resubstitution. The function eztune.cv will compute a cross validated error rate. The purpose of eztune_cv is to provide a cross validated accuracy or MSE when resubstitution or validation data are used for optimization because error measures from both approaches can be misleading.
Author: Jill Lundell [aut, cre]
Maintainer: Jill Lundell <jflundell@gmail.com>

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Package GENEAread updated to version 2.0.9 with previous version 2.0.8 dated 2019-10-30

Title: Package for Reading Binary Files
Description: Functions and analytics for GENEA-compatible accelerometer data into R objects. See topic 'GENEAread' for an introduction to the package. See <https://www.activinsights.com/products/geneactiv/> for more details on the GENEActiv device.
Author: Zhou Fang [aut], Joss Langford [aut], Charles Sweetland [aut, cre]
Maintainer: Charles Sweetland <charles@sweetland-solutions.co.uk>

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Package bdpar updated to version 3.0.0 with previous version 2.0.0 dated 2020-02-20

Title: Big Data Preprocessing Architecture
Description: Provide a tool to easily build customized data flows to pre-process large volumes of information from different sources. To this end, 'bdpar' allows to (i) easily use and create new functionalities and (ii) develop new data source extractors according to the user needs. Additionally, the package provides by default a predefined data flow to extract and pre-process the most relevant information (tokens, dates, ... ) from some textual sources (SMS, Email, tweets, YouTube comments).
Author: Miguel Ferreiro-Díaz [aut, cre], David Ruano-Ordás [aut, ctr], Tomás R. Cotos-Yañez [aut, ctr], University of Vigo [cph]
Maintainer: Miguel Ferreiro-Díaz <miguel.ferreiro.diaz@gmail.com>

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Package renv updated to version 0.12.3 with previous version 0.12.2 dated 2020-11-04

Title: Project Environments
Description: A dependency management toolkit for R. Using 'renv', you can create and manage project-local R libraries, save the state of these libraries to a 'lockfile', and later restore your library as required. Together, these tools can help make your projects more isolated, portable, and reproducible.
Author: Kevin Ushey [aut, cre], RStudio [cph]
Maintainer: Kevin Ushey <kevin@rstudio.com>

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Package concorR updated to version 0.2.1 with previous version 0.2.0 dated 2020-06-03

Title: CONCOR and Supplemental Functions
Description: Contains the CONCOR (CONvergence of iterated CORrelations) algorithm and a series of supplemental functions for easy running, plotting, and blockmodeling. The CONCOR algorithm is used on social network data to identify network positions based off a definition of structural equivalence; see Breiger, Boorman, and Arabie (1975) <doi:10.1016/0022-2496(75)90028-0> and Wasserman and Faust's book Social Network Analysis: Methods and Applications (1994). This version allows multiple relationships for the same set of nodes and uses both incoming and outgoing ties to find positions.
Author: Tyme Suda [aut], Adrienne Traxler [cre] (<https://orcid.org/0000-0003-2725-0686>), Carter Butts [ctb] (Author of sna::plot.blockmodel(), adapted for plot_blk())
Maintainer: Adrienne Traxler <adrienne.traxler@wright.edu>

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Package qs updated to version 0.23.4 with previous version 0.23.3 dated 2020-10-05

Title: Quick Serialization of R Objects
Description: Provides functions for quickly writing and reading any R object to and from disk.
Author: Travers Ching [aut, cre, cph], Yann Collet [ctb, cph] (Yann Collet is the author of the bundled zstd, lz4 and xxHash code), Facebook, Inc. [cph] (Facebook is the copyright holder of the bundled zstd code), Reichardt Tino [ctb, cph] (Contributor/copyright holder of zstd bundled code), Skibinski Przemyslaw [ctb, cph] (Contributor/copyright holder of zstd bundled code), Mori Yuta [ctb, cph] (Contributor/copyright holder of zstd bundled code), Romain Francois [ctb, cph] (Derived example/tutorials for ALTREP structures), Francesc Alted [ctb, cph] (Shuffling routines derived from Blosc library), Bryce Chamberlain [ctb] (qsame, qload function contributor)
Maintainer: Travers Ching <traversc@gmail.com>

Diff between qs versions 0.23.3 dated 2020-10-05 and 0.23.4 dated 2020-11-25

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Package FDX updated to version 1.0.3 with previous version 1.0.2 dated 2020-09-02

Title: False Discovery Exceedance Controlling Multiple Testing Procedures
Description: Multiple testing procedures for heterogeneous and discrete tests as described in Döhler and Roquain (2019) <arXiv:1912.04607v1>. The main algorithms of the paper are available as continuous, discrete and weighted versions.
Author: Sebastian Döhler [aut], Florian Junge [aut, cre], Etienne Roquain [ctb]
Maintainer: Florian Junge <florian.junge@h-da.de>

Diff between FDX versions 1.0.2 dated 2020-09-02 and 1.0.3 dated 2020-11-25

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Package SymbolicDeterminants updated to version 1.2.0 with previous version 1.0.2 dated 2020-11-09

Title: Symbolic Representation of Matrix Determinant
Description: Creates a guide for writing the formula for the determinant of a square matrix (a detguide) as a function of the elements of the matrix and writes out that formula, the symbolic representation.
Author: William Fairweather [aut, cre]
Maintainer: William Fairweather <wrf343@flowervalleyconsulting.com>

Diff between SymbolicDeterminants versions 1.0.2 dated 2020-11-09 and 1.2.0 dated 2020-11-25

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Package staRdom updated to version 1.1.18 with previous version 1.1.14 dated 2020-07-28

Title: PARAFAC Analysis of EEMs from DOM
Description: This is a user-friendly way to run a parallel factor (PARAFAC) analysis (Harshman, 1971) <doi:10.1121/1.1977523> on excitation emission matrix (EEM) data from dissolved organic matter (DOM) samples (Murphy et al., 2013) <doi:10.1039/c3ay41160e>. The analysis includes profound methods for model validation. Some additional functions allow the calculation of absorbance slope parameters and create beautiful plots.
Author: Matthias Pucher [aut, cre], Daniel Graeber [aut, ctb], Stefan Preiner [ctb], Renata Pinto [ctb]
Maintainer: Matthias Pucher <matthias.pucher@wcl.ac.at>

Diff between staRdom versions 1.1.14 dated 2020-07-28 and 1.1.18 dated 2020-11-25

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New package twowaytests with initial version 1.0
Package: twowaytests
Type: Package
Title: Two-Way Tests in Independent Groups Designs
Version: 1.0
Date: 2020-11-24
Depends: R (>= 3.5.0)
Imports: onewaytests, stats, ggplot2, nortest, car
Author: Osman Dag [aut, cre], Sam Weerahandi [aut], Malwane Ananda [aut]
Maintainer: Osman Dag <osman.dag@outlook.com>
Description: Performs two-way tests in independent groups designs; Parametric Bootstrap based Generalized Test and Generalized Pivotal Quantity based Generalized Test (Weerahandi and Krishnamoorthy, 2019) <doi:10.1080/03610926.2017.1419264>. The package performs descriptive statistics and graphical approaches. Moreover, it assesses variance homogeneity and normality of data in each group via tests and plots. All 'twowaytests' functions are designed for two-way layout.
License: GPL (>= 2)
NeedsCompilation: no
Packaged: 2020-11-24 02:24:10 UTC; osmandag
Repository: CRAN
Date/Publication: 2020-11-25 14:10:02 UTC

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New package tvem with initial version 1.0-0
Package: tvem
Type: Package
Title: Time-Varying Effect Models
Version: 1.0-0
Date: 2020-11-09
Authors@R: c(person(given="John J.", family="Dziak", role = c("aut", "cre"), email = "dziakj1@gmail.com", comment = c(ORCID = "0000-0003-0762-5495")), person(given="Donna L.", family="Coffman", role = "aut",comment=c(ORCID="0000-0001-6305-6579")), person(given="Runze", family="Li", role = "aut",comment=c(ORCID="0000-0002-0154-2202")), person(given="Kaylee", family="Litson", role = "aut", comment=c(ORCID="0000-0003-1296-4811")))
VignetteBuilder: knitr
Depends: mgcv
Suggests: knitr, rmarkdown
Encoding: UTF-8
Copyright: 2020 by The Pennsylvania State University
Description: Fits time-varying effect models (TVEM). These are a kind of application of varying-coefficient models in the context of longitudinal data, allowing the strength of linear, logistic, or Poisson regression relationships to change over time. These models are described further in Tan, Shiyko, Li, Li & Dierker (2012) <doi:10.1037/a0025814>. We thank Kaylee Litson, Patricia Berglund, and Yajnaseni Chakraborti for their valuable help with testing the package and documentation. The development of this package was part of a research project supported by National Institutes of Health grants P50 DA039838 from the National Institute of Drug Abuse and 1R01 CA229542-01 from the National Cancer Institute and the NIH Office of Behavioral and Social Science Research. Content is solely the responsibility of the authors and does not necessarily represent the official views of the funding institutions mentioned above. This software is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.
License: GPL (>= 2)
RoxygenNote: 7.1.1
NeedsCompilation: no
Packaged: 2020-11-23 20:59:12 UTC; JJD
Author: John J. Dziak [aut, cre] (<https://orcid.org/0000-0003-0762-5495>), Donna L. Coffman [aut] (<https://orcid.org/0000-0001-6305-6579>), Runze Li [aut] (<https://orcid.org/0000-0002-0154-2202>), Kaylee Litson [aut] (<https://orcid.org/0000-0003-1296-4811>)
Maintainer: John J. Dziak <dziakj1@gmail.com>
Repository: CRAN
Date/Publication: 2020-11-25 14:10:05 UTC

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New package ResearchAssociate with initial version 0.0.1
Package: ResearchAssociate
Title: Retrieving Publications from PubMed Database Based on User Query
Version: 0.0.1
Authors@R: c(person("Mohamed", "Soudy", email = "MohmedSoudy2009@gmail.com", role=c("aut", "cre")), person("Ali", "Mostafa", email = "ali.mo.anwar@std.agr.cu.edu.eg", role = "aut"))
Author: Mohamed Soudy [aut, cre], Ali Mostafa [aut]
Maintainer: Mohamed Soudy <MohmedSoudy2009@gmail.com>
Description: Connects to Pubmed <https://pubmed.ncbi.nlm.nih.gov/> to retrieve publications related to user-defined search query.
License: GPL-3
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.1
Imports: rentrez
NeedsCompilation: no
Repository: CRAN
Packaged: 2020-11-24 10:29:15 UTC; RSH
Date/Publication: 2020-11-25 14:20:02 UTC

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New package DatastreamDSWS2R with initial version 1.7.9
Package: DatastreamDSWS2R
Type: Package
Title: Provides a Link Between the 'Refinitiv Datastream' System and R
Version: 1.7.9
Date: 2020-11-23
Author: Charles Cara
Maintainer: Charles Cara <charles.cara@absolute-strategy.com>
Description: Provides a set of functions and a class to connect, extract and upload information from the 'Refinitiv Datastream' database. This package uses the 'DSWS' API and server used by the 'Datastream DFO addin'. Details of this API on the 'DSWS' page of <https://developers.refinitiv.com/en>. Please report issues at <https://github.com/CharlesCara/DatastreamDSWS2R/issues>.
License: GPL-3
LazyData: TRUE
Imports: httr, jsonlite, stringi, stringr, xts, zoo, methods, foreach, dplyr
Suggests: testthat
RoxygenNote: 7.1.1
Collate: 'DatastreamDSWS2R.R' 'common.R' 'classConstructor.R' 'wrapper.R' 'UCTSUpload.R' 'cbindRobust.R' 'data.R'
Encoding: UTF-8
Depends: R (>= 2.10)
NeedsCompilation: no
Packaged: 2020-11-24 10:20:28 UTC; charlesc
Repository: CRAN
Date/Publication: 2020-11-25 14:20:04 UTC

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New package vindecodr with initial version 0.1.1
Package: vindecodr
Title: Provides an Interface to the Department of Transportation VIN Decoder
Version: 0.1.1
Authors@R: person(given = "Christopher", family = "Burch", role = c("aut", "cre"), email = "christopher.m.burch@gmail.com", comment = c(ORCID = "0000-0001-6934-3325"))
Description: Provides a programmatic interface in R for the US Department of Transportation (DOT) National Highway Transportation Safety Administration (NHTSA) vehicle identification number (VIN) API, located at <https://vpic.nhtsa.dot.gov/api/>. The API can decode up to 50 vehicle identification numbers in one call, and provides manufacturer information about the vehicles, including make, model, model year, and gross vehicle weight rating (GVWR).
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Depends: R (>= 4.0.0)
Imports: httr
Suggests: purrr, stringr
RoxygenNote: 7.1.1
NeedsCompilation: no
Packaged: 2020-11-23 20:44:05 UTC; chris
Author: Christopher Burch [aut, cre] (<https://orcid.org/0000-0001-6934-3325>)
Maintainer: Christopher Burch <christopher.m.burch@gmail.com>
Repository: CRAN
Date/Publication: 2020-11-25 14:00:03 UTC

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New package spfda with initial version 0.9.0
Package: spfda
Type: Package
Title: Function-on-Scalar Regression with Group-Bridge Penalty
Version: 0.9.0
License: MIT + file LICENSE
Authors@R: c( person("Zhengjia", "Wang", email = "dipterix.wang@gmail.com", role = c("aut", "cre"), comment = c(ORCID = "0000-0001-5629-1116")), person("Meng", "Li", email = "meng@rice.edu", role = c("aut"), comment = c(ORCID = "0000-0003-2123-2444")) )
Description: Implements a group-bridge penalized function-on-scalar regression model proposed by Wang et al. (2020) <arXiv:2006.10163>, to simultaneously estimate functional coefficient and recover the local sparsity.
URL: https://github.com/dipterix/spfda, https://dipterix.github.io/spfda/
BugReports: https://github.com/dipterix/spfda/issues
Imports: stats, splines, graphics, mathjaxr
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.1
RdMacros: mathjaxr
Language: en-US
NeedsCompilation: no
Packaged: 2020-11-23 18:20:27 UTC; beauchamplab
Author: Zhengjia Wang [aut, cre] (<https://orcid.org/0000-0001-5629-1116>), Meng Li [aut] (<https://orcid.org/0000-0003-2123-2444>)
Maintainer: Zhengjia Wang <dipterix.wang@gmail.com>
Repository: CRAN
Date/Publication: 2020-11-25 13:50:02 UTC

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New package reconstructKM with initial version 0.3.0
Package: reconstructKM
Type: Package
Title: Reconstruct Individual-Level Data from Published KM Plots
Version: 0.3.0
Authors@R: person("Ryan", "Sun", email = "ryansun.work@gmail.com", role = c("aut", "cre"))
Description: Functions for reconstructing individual-level data (time, status, arm) from Kaplan-MEIER curves published in academic journals (e.g. NEJM, JCO, JAMA). The individual-level data can be used for re-analysis, meta-analysis, methodology development, etc. This package was used to generate the data for commentary such as Sun, Rich, & Wei (2018) <doi:10.1056/NEJMc1808567>. Please see the vignette for a quickstart guide.
Encoding: UTF-8
LazyData: true
Depends: R (>= 3.5.0)
Imports: stats, dplyr, magrittr, survival, rlang, stats4, survminer
License: GPL-3
RoxygenNote: 7.1.1
Suggests: knitr, rmarkdown, testthat
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2020-11-23 17:14:00 UTC; rsun3
Author: Ryan Sun [aut, cre]
Maintainer: Ryan Sun <ryansun.work@gmail.com>
Repository: CRAN
Date/Publication: 2020-11-25 13:40:02 UTC

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New package GREMLINS with initial version 0.2.0
Package: GREMLINS
Type: Package
Title: Generalized Multipartite Networks
Version: 0.2.0
Authors@R: c( person(given = "Sophie", family = "Donnet", role = c("aut", "cre"), email = "sophie.donnet@inrae.fr", comment = c(ORCID = "0000-0003-4370-7316")), person(given = "Pierre", family = "Barbillon", role = c("aut"), email = "pierre.barbillon@agroparistech.fr",comment = c(ORCID = "0000-0002-7766-7693")) )
Description: We define generalized multipartite networks as the joint observation of several networks implying some common pre-specified groups of individuals. The aim is to fit an adapted version of the popular stochastic block model to multipartite networks, as described in Bar-hen, Barbillon and Donnet (2020) <arXiv:1807.10138>.
URL: https://demiperimetre.github.io/GREMLINS/
BugReports: https://github.com/demiperimetre/GREMLINS/issues
License: GPL-3
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.1
Suggests: testthat (>= 2.1.0), spelling, knitr, rmarkdown
Language: en-US
Imports: R6, parallel, grDevices, graphics, stats, utils, igraph, mclust, blockmodels, aricode, pbmcapply
Collate: 'GREMLINS_package.R' 'BMPOO.R' 'defineNetwork.R' 'multipartiteBM.R' 'VEMPOOVersion.R' 'multipartiteBMFixedModel.R' 'initializeVEM.R' 'plotMBM.R' 'searchVKPOOVersion.R' 'utils.R' 'compLikICL.R' 'extractClustersMBM.R' 'rMBM.R' 'comparClassif.R' 'MPEcoNetwork.R' 'predictMBM.R'
VignetteBuilder: knitr
Depends: R (>= 3.5.0)
NeedsCompilation: no
Packaged: 2020-11-23 18:18:19 UTC; sophie
Author: Sophie Donnet [aut, cre] (<https://orcid.org/0000-0003-4370-7316>), Pierre Barbillon [aut] (<https://orcid.org/0000-0002-7766-7693>)
Maintainer: Sophie Donnet <sophie.donnet@inrae.fr>
Repository: CRAN
Date/Publication: 2020-11-25 13:50:04 UTC

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New package DPQmpfr with initial version 0.3-0
Package: DPQmpfr
Title: DPQ (Density, Probability, Quantile) Distribution Computations using MPFR
Version: 0.3-0
Date: 2020-11-23
Authors@R: person("Martin","Maechler", role=c("aut","cre"), email="maechler@stat.math.ethz.ch", comment = c(ORCID = "0000-0002-8685-9910"))
Description: An extension to the 'DPQ' package with computations for 'DPQ' (Density (pdf), Probability (cdf) and Quantile) functions, where the functions here partly use the 'Rmpfr' package and hence the underlying 'MPFR' and 'GMP' C libraries.
Depends: R (>= 3.6.0)
Imports: DPQ (>= 0.4-2), Rmpfr, gmp, stats, graphics, methods, utils
Suggests: sfsmisc
License: GPL (>= 2)
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2020-11-23 09:55:15 UTC; maechler
Author: Martin Maechler [aut, cre] (<https://orcid.org/0000-0002-8685-9910>)
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Repository: CRAN
Date/Publication: 2020-11-25 13:40:05 UTC

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New package CME.assistant with initial version 1.1.0
Package: CME.assistant
Title: Reusable Assisting Functions for Child Mortality Estimation
Version: 1.1.0
Authors@R: person(given = "Yang", family = "Liu", role = c("aut", "cre"), email = "lyhello@gmail.com", comment = c(ORCID = "0000-0001-6557-6439"))
Description: Provide helper functions for UNICEF child mortality estimation.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Depends: R (>= 3.3.0), data.table (>= 1.12.0)
Imports: ggplot2 (>= 3.0.0), ggforce (>= 0.2.1.9000), here, scales, readr, readxl, xlsx, usethis, lubridate, stringr
RoxygenNote: 7.1.1
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2020-11-23 11:07:56 UTC; lyhel
Author: Yang Liu [aut, cre] (<https://orcid.org/0000-0001-6557-6439>)
Maintainer: Yang Liu <lyhello@gmail.com>
Repository: CRAN
Date/Publication: 2020-11-25 14:00:09 UTC

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New package chess with initial version 1.0.0
Package: chess
Title: Read, Write, Create and Explore Chess Games
Version: 1.0.0
Authors@R: person(given = "C.", family = "Lente", role = c("aut", "cre"), email = "clente@curso-r.com")
Description: This is an opinionated wrapper around the python-chess package. It allows users to read and write PGN files as well as create and explore game trees such as the ones seen in chess books.
License: GPL-3
URL: https://github.com/curso-r/chess
BugReports: https://github.com/curso-r/chess/issues
Depends: R (>= 2.10)
Imports: cli, magrittr, purrr, reticulate
Suggests: covr, graphics, knitr, png, rmarkdown, rsvg, testthat
VignetteBuilder: knitr
Config/reticulate: list( packages = list( list(package = "python-chess", pip = TRUE) ) )
Config/testthat/edition: 3
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.1
NeedsCompilation: no
Packaged: 2020-11-23 19:50:32 UTC; clente
Author: C. Lente [aut, cre]
Maintainer: C. Lente <clente@curso-r.com>
Repository: CRAN
Date/Publication: 2020-11-25 14:00:06 UTC

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Package model4you updated to version 0.9-6 with previous version 0.9-5 dated 2020-02-19

Title: Stratified and Personalised Models Based on Model-Based Trees and Forests
Description: Model-based trees for subgroup analyses in clinical trials and model-based forests for the estimation and prediction of personalised treatment effects (personalised models). Currently partitioning of linear models, lm(), generalised linear models, glm(), and Weibull models, survreg(), is supported. Advanced plotting functionality is supported for the trees and a test for parameter heterogeneity is provided for the personalised models. For details on model-based trees for subgroup analyses see Seibold, Zeileis and Hothorn (2016) <doi:10.1515/ijb-2015-0032>; for details on model-based forests for estimation of individual treatment effects see Seibold, Zeileis and Hothorn (2017) <doi:10.1177/0962280217693034>.
Author: Heidi Seibold [aut, cre], Achim Zeileis [aut], Torsten Hothorn [aut]
Maintainer: Heidi Seibold <heidi@seibold.co>

Diff between model4you versions 0.9-5 dated 2020-02-19 and 0.9-6 dated 2020-11-25

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Package metR updated to version 0.9.0 with previous version 0.8.0 dated 2020-10-25

Title: Tools for Easier Analysis of Meteorological Fields
Description: Many useful functions and extensions for dealing with meteorological data in the tidy data framework. Extends 'ggplot2' for better plotting of scalar and vector fields and provides commonly used analysis methods in the atmospheric sciences.
Author: Elio Campitelli [cre, aut] (<https://orcid.org/0000-0002-7742-9230>)
Maintainer: Elio Campitelli <elio.campitelli@cima.fcen.uba.ar>

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Package DMCfun updated to version 1.1.0 with previous version 0.15.0 dated 2020-09-20

Title: Diffusion Model of Conflict (DMC) in Reaction Time Tasks
Description: DMC model simulation detailed in Ulrich, R., Schroeter, H., Leuthold, H., & Birngruber, T. (2015). Automatic and controlled stimulus processing in conflict tasks: Superimposed diffusion processes and delta functions. Cognitive Psychology, 78, 148-174. Ulrich et al. (2015) <doi:10.1016/j.cogpsych.2015.02.005>. Decision processes within choice reaction-time (CRT) tasks are often modelled using evidence accumulation models (EAMs), a variation of which is the Diffusion Decision Model (DDM, for a review, see Ratcliff & McKoon, 2008). Ulrich et al. (2015) introduced a Diffusion Model for Conflict tasks (DMC). The DMC model combines common features from within standard diffusion models with the addition of superimposed controlled and automatic activation. The DMC model is used to explain distributional reaction time (and error rate) patterns in common behavioural conflict-like tasks (e.g., Flanker task, Simon task). This R-package implements the DMC model and provides functionality to fit the model to observed data.
Author: Mackenzie G. Ian [cre, aut]
Maintainer: Mackenzie G. Ian <ian.mackenzie@uni-tuebingen.de>

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Package rmdfiltr updated to version 0.1.3 with previous version 0.1.2 dated 2019-12-11

Title: 'Lua'-Filters for R Markdown
Description: A collection of 'Lua' filters that extend the functionality of R Markdown templates (e.g., count words or post-process citations).
Author: Frederik Aust [aut, cre] (<https://orcid.org/0000-0003-4900-788X>), Marius Barth [ctb]
Maintainer: Frederik Aust <frederik.aust@uni-koeln.de>

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Package rasciidoc updated to version 2.2.2 with previous version 2.2.1 dated 2020-11-18

Title: Create Reports Using R and 'asciidoc'
Description: Inspired by Karl Broman`s reader on using 'knitr' with 'asciidoc' (<http://kbroman.org/knitr_knutshell/pages/asciidoc.html>), this is merely a wrapper to 'knitr' and 'asciidoc'.
Author: Andreas Dominik Cullmann [aut, cre]
Maintainer: Andreas Dominik Cullmann <fvafrcu@mailbox.org>

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Package PoissonBinomial updated to version 1.2.0 with previous version 1.1.3 dated 2020-09-07

Title: Efficient Computation of Ordinary and Generalized Poisson Binomial Distributions
Description: Efficient implementations of multiple exact and approximate methods as described in Hong (2013) <doi:10.1016/j.csda.2012.10.006>, Biscarri, Zhao & Brunner (2018) <doi:10.1016/j.csda.2018.01.007> and Zhang, Hong & Balakrishnan (2018) <doi:10.1080/00949655.2018.1440294> for computing the probability mass, cumulative distribution and quantile functions, as well as generating random numbers for both the ordinary and generalized Poisson binomial distribution.
Author: Florian Junge [aut, cre]
Maintainer: Florian Junge <florian.junge@h-da.de>

Diff between PoissonBinomial versions 1.1.3 dated 2020-09-07 and 1.2.0 dated 2020-11-25

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Package partsm updated to version 1.1-3 with previous version 1.1-2 dated 2014-03-31

Title: Periodic Autoregressive Time Series Models
Description: Basic functions to fit and predict periodic autoregressive time series models. These models are discussed in the book P.H. Franses (1996) "Periodicity and Stochastic Trends in Economic Time Series", Oxford University Press. Data set analyzed in that book is also provided. NOTE: the package was orphaned during several years. It is now only maintained, but no major enhancements are expected, and the maintainer cannot provide any support.
Author: Javier Lopez-de-Lacalle [aut, cph], Matthieu Stigler [cre] (<https://orcid.org/0000-0002-6802-4290>)
Maintainer: Matthieu Stigler <Matthieu.Stigler@gmail.com>

Diff between partsm versions 1.1-2 dated 2014-03-31 and 1.1-3 dated 2020-11-25

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New package kim with initial version 0.1.11
Package: kim
Title: Functions for Behavioral Science Researchers
Version: 0.1.11
Authors@R: person(given = "Jin", family = "Kim", role = c("aut", "cre"), email = "jin.m.kim@yale.edu", comment = c(ORCID = "https://orcid.org/0000-0002-5013-3958"))
Description: Miscellaneous functions designed to facilitate and simplify analyses of experimental data. Examples include a function that plots sample means of groups in a factorial experimental design, a function that conducts robust regressions with bootstrapped samples, and a function that conducts mediation analyses.
License: GPL-3
URL: https://github.com/jinkim3/kim
BugReports: https://github.com/jinkim3/kim/issues
Imports: boot, car, data.table, dplyr, ggplot2, ggridges, lm.beta, mediation, moments, stats, utils, weights, WRS2
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.1
NeedsCompilation: no
Packaged: 2020-11-23 15:49:06 UTC; v
Author: Jin Kim [aut, cre] (<https://orcid.org/0000-0002-5013-3958>)
Maintainer: Jin Kim <jin.m.kim@yale.edu>
Repository: CRAN
Date/Publication: 2020-11-25 10:30:02 UTC

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New package htsr with initial version 1.0.4
Package: htsr
Type: Package
Title: Hydro-Meteo Time-Series
Version: 1.0.4
Date: 2020-11-23
Author: Pierre Chevallier [aut, cre]
Maintainer: Pierre Chevallier <pierre.chevallier@ird.fr>
Description: Functions for the management and treatment of hydrology and meteorology time-series stored in a 'Sqlite' data base.
License: GPL-2
Depends: R (>= 3.5.0)
Imports: dplyr, tibble, ggplot2, readr, stringr, purrr, lubridate, RSQLite, DBI, RODBC, zoo, utils, stats, WriteXLS, readxl, RColorBrewer, grDevices, directlabels, openair, raster, editData, shiny
Suggests: knitr, rmarkdown
Encoding: UTF-8
RoxygenNote: 7.1.1
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2020-11-23 14:02:51 UTC; pierre
Repository: CRAN
Date/Publication: 2020-11-25 10:20:02 UTC

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New package gfpop with initial version 1.0.0
Package: gfpop
Type: Package
Title: Graph-Constrained Functional Pruning Optimal Partitioning
Version: 1.0.0
Authors@R: c( person("Vincent", "Runge", email = "vincent.runge@univ-evry.fr", role = c("aut", "cre")), person("Toby", "Hocking", role = c("aut")), person("Guillem", "Rigaill", role = c("aut")), person("Gaetano", "Romano", role = c("aut")), person("Fatemeh", "Afghah", role = c("aut")), person("Paul", "Fearnhead", role = c("aut")), person("Michel", "Koskas", role = c("ctb")), person("Arnaud", "Liehrmann", role = c("ctb")))
Maintainer: Vincent Runge <vincent.runge@univ-evry.fr>
Description: Penalized parametric change-point detection by functional pruning dynamic programming algorithm. The successive means are constrained using a graph structure with edges of types null, up, down, std or abs. To each edge we can associate some additional properties: a minimal gap size, a penalty, some robust parameters (K,a). The user can also constrain the inferred means to lie between some minimal and maximal values. Data is modeled by a quadratic cost with possible use of a robust loss, biweight and Huber (see edge parameters K and a). Other losses are also available with log-linear representation or a log-log representation.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Imports: Rcpp (>= 1.0.0)
SystemRequirements: C++11
LinkingTo: Rcpp
RoxygenNote: 6.1.1
Depends: R (>= 3.5.0)
NeedsCompilation: yes
Packaged: 2020-11-23 15:24:26 UTC; vrunge
Author: Vincent Runge [aut, cre], Toby Hocking [aut], Guillem Rigaill [aut], Gaetano Romano [aut], Fatemeh Afghah [aut], Paul Fearnhead [aut], Michel Koskas [ctb], Arnaud Liehrmann [ctb]
Repository: CRAN
Date/Publication: 2020-11-25 10:30:05 UTC

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Package GE updated to version 0.1.6 with previous version 0.1.4 dated 2020-06-11

Title: General Equilibrium Modeling
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, ISBN: 9787521804225, General Equilibrium and Structural Dynamics: Perspectives of New Structural Economics. Beijing: Economic Science Press). The model form and mathematical methods can be traced back to von Neumann, J. (1945, A Model of General Economic Equilibrium. The Review of Economic Studies, 13. pp. 1-9) and Kemeny, J. G., O. Morgenstern and G. L. Thompson (1956, A Generalization of the von Neumann Model of an Expanding Economy, Econometrica, 24, pp. 115-135) et al. By the way, J. G. Kemeny is a co-inventor of the computer language BASIC.
Author: LI Wu <liwu@staff.shu.edu.cn>
Maintainer: LI Wu <liwu@staff.shu.edu.cn>

Diff between GE versions 0.1.4 dated 2020-06-11 and 0.1.6 dated 2020-11-25

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Package fflr updated to version 0.3.13 with previous version 0.3.12 dated 2020-11-06

Title: Collect ESPN Fantasy Football Data
Description: Format the raw data from the ESPN fantasy football API <https://fantasy.espn.com/apis/v3/games/ffl/> into tidy tables. Scrape data on public leagues, rosters, athletes, and matches.
Author: Kiernan Nicholls [aut, cre]
Maintainer: Kiernan Nicholls <kiernann@protonmail.com>

Diff between fflr versions 0.3.12 dated 2020-11-06 and 0.3.13 dated 2020-11-25

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 23 files changed, 672 insertions(+), 661 deletions(-)

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New package ezr with initial version 0.1.5
Package: ezr
Title: Easy Use of R via Shiny App for Basic Analyses of Experimental Data
Version: 0.1.5
Authors@R: person(given = "Jin", family = "Kim", role = c("aut", "cre"), email = "jin.m.kim@yale.edu", comment = c(ORCID = "https://orcid.org/0000-0002-5013-3958"))
Description: Runs a Shiny App in the local machine for basic statistical and graphical analyses. The point-and-click interface of Shiny App enables obtaining the same analysis outputs (e.g., plots and tables) more quickly, as compared with typing the required code in R, especially for users without much experience or expertise with coding. Examples of possible analyses include tabulating descriptive statistics for a variable, creating histograms by experimental groups, and creating a scatter plot and calculating the correlation between two variables.
License: GPL-3
URL: https://github.com/jinkim3/ezr
BugReports: https://github.com/jinkim3/ezr/issues
Imports: data.table, DT, ggplot2, ggridges, moments, shiny, shinydashboard, stats, weights
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.1
NeedsCompilation: no
Packaged: 2020-11-23 15:39:26 UTC; v
Author: Jin Kim [aut, cre] (<https://orcid.org/0000-0002-5013-3958>)
Maintainer: Jin Kim <jin.m.kim@yale.edu>
Repository: CRAN
Date/Publication: 2020-11-25 10:30:08 UTC

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New package EigenR with initial version 1.0.0
Package: EigenR
Type: Package
Title: Complex Matrix Algebra with 'Eigen'
Version: 1.0.0
Author: Stéphane Laurent
Maintainer: Stéphane Laurent <laurent_step@outlook.fr>
Description: Matrix algebra using the 'Eigen' C++ library: determinant, rank, inversion, kernel and image, QR decomposition, Cholesky decomposition, linear least-squares problems. Complex matrices are supported.
License: GPL-3
Imports: Rcpp (>= 1.0.5)
LinkingTo: Rcpp, RcppEigen
RoxygenNote: 7.1.1
Encoding: UTF-8
URL: https://github.com/stla/EigenR
BugReports: https://github.com/stla/EigenR/issues
NeedsCompilation: yes
Packaged: 2020-11-23 15:03:50 UTC; stla
Repository: CRAN
Date/Publication: 2020-11-25 10:20:05 UTC

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New package eatGADS with initial version 0.15.2
Package: eatGADS
Title: Data Management of Large Hierarchical Data
Version: 0.15.2
Authors@R: person("Benjamin", "Becker", email = "b.becker@iqb.hu-berlin.de", role = c("aut", "cre"))
Description: Import 'SPSS' data, handle and change 'SPSS' meta data, store and access large hierarchical data in 'SQLite' data bases.
Depends: R (>= 3.5.0)
Imports: eatDB (>= 0.4.1), haven (>= 2.1.0), plyr, eatTools (>= 0.1.3), tibble, data.table, hms
License: GPL (>= 2)
Encoding: UTF-8
LazyData: true
Suggests: testthat, knitr, rmarkdown, covr, tidyr (>= 1.1.0)
RoxygenNote: 7.1.1
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2020-11-23 16:09:59 UTC; beckerbz
Author: Benjamin Becker [aut, cre]
Maintainer: Benjamin Becker <b.becker@iqb.hu-berlin.de>
Repository: CRAN
Date/Publication: 2020-11-25 10:30:11 UTC

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New package wal with initial version 0.0.1
Package: wal
Type: Package
Title: Read and Write 'wal' Bitmap Image Files
Version: 0.0.1
Authors@R: person("Tim", "Schäfer", role = c("aut", "cre"), email = "ts+code@rcmd.org", comment = c(ORCID = "0000-0002-3683-8070"))
Maintainer: Tim Schäfer <ts+code@rcmd.org>
Description: Read bitmap images and textures in 'wal' file format.
License: GPL-2
Encoding: UTF-8
LazyData: true
URL: https://github.com/dfsp-spirit/wal
BugReports: https://github.com/dfsp-spirit/wal/issues
Imports: freesurferformats (>= 0.1.12), imager, jpeg, png, spacesXYZ
Suggests: knitr, rmarkdown, testthat (>= 2.1.0),
VignetteBuilder: knitr
RoxygenNote: 7.1.1
NeedsCompilation: no
Packaged: 2020-11-23 11:56:48 UTC; spirit
Author: Tim Schäfer [aut, cre] (<https://orcid.org/0000-0002-3683-8070>)
Repository: CRAN
Date/Publication: 2020-11-25 09:40:03 UTC

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New package Q7 with initial version 0.1.0
Package: Q7
Title: Types and Features for Object Oriented Programming
Version: 0.1.0
Authors@R: c(person("Siqi", "Zhang", email = "iqis.gnahz@gmail.com", role = c("aut", "cre"), comment = c(ORCID = "0000-0003-2617-5776")), person("Bayer HealthCare", role = c("fnd")))
Description: Construct message-passing style objects with types and features. Q7 types uses composition instead of inheritance in creating derived types, allowing defining any code segment as feature and associating any feature to any object. Compared to R6, Q7 is simpler and more flexible, and is more friendly in syntax.
License: GPL-3
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.1
Depends: magrittr
Suggests: knitr, rmarkdown, testthat
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2020-11-23 14:20:23 UTC; ELATI
Author: Siqi Zhang [aut, cre] (<https://orcid.org/0000-0003-2617-5776>), Bayer HealthCare [fnd]
Maintainer: Siqi Zhang <iqis.gnahz@gmail.com>
Repository: CRAN
Date/Publication: 2020-11-25 10:00:06 UTC

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New package pencal with initial version 0.1.1
Package: pencal
Title: Penalized Regression Calibration (PRC)
Version: 0.1.1
Authors@R: c(person(given = "Mirko", family = "Signorelli", role = c("aut", "cre", "cph"), email = "msignorelli.rpackages@gmail.com", comment = c(ORCID = "0000-0002-8102-3356")), person(given = "Pietro", family = "Spitali", role = "ctb", email = "p.spitali@lumc.nl"), person(given = "Roula", family = "Tsonaka", role = "ctb", email = "s.tsonaka@lumc.nl"))
Description: Computes the penalized regression calibration (PRC) method, that allows to predict survival using high-dimensional longitudinal predictors. PRC is described in Signorelli et al. (in review).
License: GPL-3
URL: https://mirkosignorelli.github.io/r
Depends: R (>= 4.0.0)
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.1
Imports: foreach, doParallel, glmnet, nlme, survival, MASS, survcomp, survivalROC, ptmixed, stats, dplyr
NeedsCompilation: no
Packaged: 2020-11-23 13:48:50 UTC; msignorelli
Author: Mirko Signorelli [aut, cre, cph] (<https://orcid.org/0000-0002-8102-3356>), Pietro Spitali [ctb], Roula Tsonaka [ctb]
Maintainer: Mirko Signorelli <msignorelli.rpackages@gmail.com>
Repository: CRAN
Date/Publication: 2020-11-25 10:00:02 UTC

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New package CFAcoop with initial version 0.1.0
Package: CFAcoop
Type: Package
Title: Colony Formation Assay: Taking into Account Cellular Cooperation
Version: 0.1.0
Authors@R: c( person("Daniel", "Samaga", email = "daniel.samaga@helmholtz-muenchen.de", role = c("cre","aut")), person("Nikko", "Brix", role = "aut"), person("Kirsten", "Lauber", role = "aut"), person("Horst", "Zitzelsberger", role = "aut"))
Maintainer: Daniel Samaga <daniel.samaga@helmholtz-muenchen.de>
Depends: R (>= 3.5.0)
URL: https://github.com/ZytoHMGU/CFAcoop
BugReports: https://github.com/ZytoHMGU/CFAcoop/issues
Description: Cellular cooperation compromises the plating efficiency-based analysis of clonogenic survival data. This tool provides functions that enable a robust analysis of colony formation assay (CFA) data in presence or absence of cellular cooperation. The implemented method has been described in Brix et al. (2020). (Brix, N., Samaga, D., Hennel, R. et al. "The clonogenic assay: robustness of plating efficiency-based analysis is strongly compromised by cellular cooperation." Radiat Oncol 15, 248 (2020). <doi:10.1186/s13014-020-01697-y>) Power regression for parameter estimation, calculation of survival fractions, uncertainty analysis and plotting functions are provided.
License: GPL-3
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.1
Imports: mvtnorm, Hmisc
Suggests: knitr, rmarkdown, testthat
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2020-11-23 07:56:30 UTC; daniel.samaga
Author: Daniel Samaga [cre, aut], Nikko Brix [aut], Kirsten Lauber [aut], Horst Zitzelsberger [aut]
Repository: CRAN
Date/Publication: 2020-11-25 09:30:02 UTC

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Package SBdecomp updated to version 1.1 with previous version 1.0 dated 2020-05-12

Title: Estimation of the Proportion of SB Explained by Confounders
Description: Uses parametric and nonparametric methods to quantify the proportion of the estimated selection bias (SB) explained by each observed confounder when estimating propensity score weighted treatment effects. Parast, L and Griffin, BA (2020). "Quantifying the Bias due to Observed Individual Confounders in Causal Treatment Effect Estimates". Statistics in Medicine, 39(18): 2447- 2476 <doi: 10.1002/sim.8549>.
Author: Layla Parast
Maintainer: Layla Parast <parast@rand.org>

Diff between SBdecomp versions 1.0 dated 2020-05-12 and 1.1 dated 2020-11-25

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Package yamlet updated to version 0.5.2 with previous version 0.5.1 dated 2020-11-24

Title: Versatile Curation of Table Metadata
Description: A file-based mechanism for documenting datasets. It reads and writes YAML-formatted metadata and applies it as data item attributes. Data and metadata are stored independently but can be coordinated by using similar file paths with different extensions. The 'yamlet' dialect is valid 'YAML', but some conventions are chosen to improve readability. Defaults and conventions can be over-ridden by the user. See ?yamlet and ?decorate.data.frame. See ?read_yamlet ?write_yamlet, and ?io_csv.
Author: Tim Bergsma
Maintainer: Tim Bergsma <bergsmat@gmail.com>

Diff between yamlet versions 0.5.1 dated 2020-11-24 and 0.5.2 dated 2020-11-25

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 4 files changed, 8 insertions(+), 8 deletions(-)

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Package ruler updated to version 0.2.4 with previous version 0.2.3 dated 2020-05-09

Title: Tidy Data Validation Reports
Description: Tools for creating data validation pipelines and tidy reports. This package offers a framework for exploring and validating data frame like objects using 'dplyr' grammar of data manipulation.
Author: Evgeni Chasnovski [aut, cre] (<https://orcid.org/0000-0002-1617-4019>)
Maintainer: Evgeni Chasnovski <evgeni.chasnovski@gmail.com>

Diff between ruler versions 0.2.3 dated 2020-05-09 and 0.2.4 dated 2020-11-25

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Package PROsetta updated to version 0.2.1 with previous version 0.2.0 dated 2020-09-20

Title: Linking Patient-Reported Outcomes Measures
Description: Perform scale linking to establish relationships between instruments that measure similar constructs according to the PROsetta Stone methodology, as in Choi, Schalet, Cook, & Cella (2014) <doi:10.1037/a0035768>.
Author: Seung W. Choi [aut, cre] (<https://orcid.org/0000-0003-4777-5420>), Sangdon Lim [aut] (<https://orcid.org/0000-0002-2988-014X>), Benjamin D. Schalet [ctb], Aaron J. Kaat [ctb], David Cella [ctb]
Maintainer: Seung W. Choi <schoi@austin.utexas.edu>

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Package inti updated to version 0.1.2 with previous version 0.1.1 dated 2020-11-17

Title: Tools and Statistical Procedures in Plant Science
Description: The 'inti' package is part of the 'inkaverse' project for developing different procedures and tools used in plant science and experimental designs. The mean aim of the package is to support researchers during the planning of experiments and data collection (tarpuy()), data analysis and graphics (yupana()) , and technical writing (rtciles()). Learn more about the 'inkaverse' project at <https://inkaverse.com/>.
Author: Flavio Lozano-Isla [aut, cre] (<https://orcid.org/0000-0002-0714-669X>)
Maintainer: Flavio Lozano-Isla <flavjack@gmail.com>

Diff between inti versions 0.1.1 dated 2020-11-17 and 0.1.2 dated 2020-11-25

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 inti-0.1.2/inti/R/H2cal.R                                                         |    1 
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Package CVEK updated to version 0.1-1 with previous version 0.1-0 dated 2020-11-23

Title: Cross-Validated Kernel Ensemble
Description: Implementation of Cross-Validated Kernel Ensemble (CVEK), a flexible modeling framework for robust nonlinear regression and hypothesis testing based on ensemble learning with kernel-ridge estimators (Jeremiah et al. (2017) <arXiv:1710.01406> and Wenying et al. (2018) <arXiv:1811.11025>). It allows user to conduct nonlinear regression with minimal assumption on the function form by aggregating nonlinear models generated from a diverse collection of kernel families. It also provides utilities to test for the estimated nonlinear effect under this ensemble estimator, using either the asymptotic or the bootstrap version of a generalized score test.
Author: Wenying Deng [aut, cre], Jeremiah Zhe Liu [ctb]
Maintainer: Wenying Deng <wdeng@g.harvard.edu>

Diff between CVEK versions 0.1-0 dated 2020-11-23 and 0.1-1 dated 2020-11-25

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Package getTBinR (with last version 0.7.1) was removed from CRAN

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

2020-06-11 0.7.1
2019-09-03 0.7.0
2019-06-05 0.6.1
2019-05-23 0.6.0
2019-01-23 0.5.7
2018-11-15 0.5.6
2018-09-28 0.5.5
2018-05-16 0.5.4
2018-03-10 0.5.3
2018-02-13 0.5.2
2018-01-26 0.5.1
2018-01-05 0.5.0

Permanent link
Package tryCatchLog updated to version 1.2.1 with previous version 1.1.6 dated 2019-11-06

Title: Advanced 'tryCatch()' and 'try()' Functions
Description: Advanced tryCatch() and try() functions for better error handling (logging, stack trace with source code references and support for post-mortem analysis via dump files).
Author: Juergen Altfeld [aut, cre, cph], Charles Epaillard [ctb], Brandon Bertelsen [ctb]
Maintainer: Juergen Altfeld <jaltfeld@altfeld-im.de>

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Package simstandard updated to version 0.6.0 with previous version 0.5.0 dated 2020-10-22

Title: Generate Standardized Data
Description: Creates simulated data from structural equation models with standardized loading. Data generation methods are described in Schneider (2013) <doi:10.1177/0734282913478046>.
Author: W. Joel Schneider [aut, cre] (<https://orcid.org/0000-0002-8393-5316>)
Maintainer: W. Joel Schneider <w.joel.schneider@gmail.com>

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Package mixIndependR updated to version 0.4.0 with previous version 0.3.0 dated 2020-10-07

Title: Genetics and Independence Testing of Mixed Genetic Panels
Description: Developed to deal with multi-locus genotype data, this package is especially designed for those panel which include different type of markers. Basic genetic parameters like allele frequency, genotype frequency, heterozygosity and Hardy-Weinberg test of mixed genetic data can be obtained. In addition, a new test for mutual independence which is compatible for mixed genetic data is developed in this package.
Author: Bing Song
Maintainer: Bing Song <bingsong@my.unthsc.edu>

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Package BayesSPsurv updated to version 0.1.1 with previous version 0.1.0 dated 2020-09-28

Title: Bayesian Spatial Split Population Survival Model
Description: Parametric spatial split-population (SP) survival models for clustered event processes. The models account for structural and spatial heterogeneity among “at risk” and “immune” populations, and incorporate time-varying covariates. This package currently implements Weibull, Exponential and Log-logistic forms for the duration component. It also includes functions for a series of diagnostic tests and plots to easily visualize spatial autocorrelation, convergence, and spatial effects. Users can create their own spatial weights matrix based on their units and adjacencies of interest, making the use of these models flexible and broadly applicable to a variety of research areas. Joo et al. (2020) <https://github.com/Nicolas-Schmidt/BayesSPsurv/blob/master/man/figures/SPcure.pdf> describe the estimators included in this package.
Author: Brandon L. Bolte [aut], Nicolas Schmidt [aut, cre], Sergio Bejar [aut], Bumba Mukherjee [aut], Minnie M. Joo [ctb], Nguyen K. Huynh [ctb]
Maintainer: Nicolas Schmidt <nschmidt@cienciassociales.edu.uy>

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Tue, 24 Nov 2020

New package wikifacts with initial version 0.4.1
Package: wikifacts
Type: Package
Title: Get Facts and Data from Wikipedia and Wikidata
Version: 0.4.1
Authors@R: c(person(given = "Keith", family = "McNulty", role = c("aut", "cre"), email = "keith.mcnulty@gmail.com", comment = c(ORCID = "0000-0002-2332-1654")), person(given = "Petr", family = "Kajzar", role = c("ctb"), email = "petr.kajzar@centrum.cz"))
Description: Query Wikidata and get facts from current and historic Wikipedia main pages.
License: CC0
Encoding: UTF-8
LazyData: true
Imports: curl, magrittr, rvest, utils, xml2
RoxygenNote: 7.1.1
Suggests: covr, testthat
NeedsCompilation: no
Packaged: 2020-11-24 10:48:30 UTC; keithmcnulty
Author: Keith McNulty [aut, cre] (<https://orcid.org/0000-0002-2332-1654>), Petr Kajzar [ctb]
Maintainer: Keith McNulty <keith.mcnulty@gmail.com>
Repository: CRAN
Date/Publication: 2020-11-24 16:20:02 UTC

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Package UKFE updated to version 0.1.1 with previous version 0.1.0 dated 2020-11-23

Title: UK Flood Estimation
Description: Functions to implement the methods of the Flood Estimation Handbook (FEH), associated updates and the revitalised flood hydrograph model (ReFH). Currently the packages uses NRFA peak flow dataset version 9. Aside from FEH functionality, further hydrological functions are available. Most of the methods implemented in this package are described in one or more of the following: "Flood Estimation Handbook", Centre for Ecology & Hydrology (1999, ISBN:0 948540 94 X). "Flood Estimation Handbook Supplementary Report No. 1", Kjeldsen (2007, ISBN:0 903741 15 7). "Regional Frequency Analysis - an approach based on L-moments", Hosking & Wallis (1997, ISBN: 978 0 521 01940 8). "Proposal of the ‘extreme rank plot’ for extreme value analysis: with an emphasis on flood frequency studies", Hammond (2019, <doi:10.2166/nh.2019.157>). "Making better use of local data in flood frequency estimation", Environment Agency (2017, ISBN: 978 1 84911 387 8). "Improving the FEH statistical procedures for flood frequency estimation", Environment Agency (2008, ISBN: 978 1 84432 920 5). "Low flow estimation in the United Kingdom", Institute of Hydrology (1992, ISBN 0 948540 45 1). Wallingford HydroSolutions, (2016, <http://software.hydrosolutions.co.uk/winfap4/Urban-Adjustment-Procedure-Technical-Note.pdf>). Data from the UK National River Flow Archive (<https://nrfa.ceh.ac.uk/>, terms and conditions: <https://nrfa.ceh.ac.uk/costs-terms-and-conditions>.
Author: Anthony Hammond
Maintainer: Anthony Hammond <agqhammond@gmail.com>

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Package scattermore updated to version 0.7 with previous version 0.6 dated 2020-03-06

Title: Scatterplots with More Points
Description: C-based conversion of large scatterplot data to rasters. Speeds up plotting of data with millions of points.
Author: Mirek Kratochvil [aut, cre] (<https://orcid.org/0000-0001-7356-4075>)
Maintainer: Mirek Kratochvil <exa.exa@gmail.com>

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Package microeco updated to version 0.3.1 with previous version 0.3.0 dated 2020-11-15

Title: Microbial Community Ecology Data Analysis
Description: A series of statistical and plotting approaches in microbial community ecology based on the R6 class. The classes are designed for data preprocessing, taxa abundance plotting, alpha diversity statistics, beta diversity statistics, differential abundance test and indicator taxon analysis, environmental data analysis, null model analysis, network analysis and functional analysis.
Author: Chi Liu [aut, cre], Minjie Yao [aut], Xiangzhen Li [aut], Paul J. McMurdie [ctb], Yang Cao [ctb], James Robert White [ctb], Stilianos Louca [cph], Nhu H. Nguyen [cph]
Maintainer: Chi Liu <liuchi0426@126.com>

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Package maxLik updated to version 1.4-6 with previous version 1.4-4 dated 2020-09-04

Title: Maximum Likelihood Estimation and Related Tools
Description: Functions for Maximum Likelihood (ML) estimation, non-linear optimization, and related tools. It includes a unified way to call different optimizers, and classes and methods to handle the results from the Maximum Likelihood viewpoint. It also includes a number of convenience tools for testing and developing your own models.
Author: Ott Toomet <otoomet@gmail.com>, Arne Henningsen <arne.henningsen@gmail.com>, with contributions from Spencer Graves and Yves Croissant
Maintainer: Ott Toomet <otoomet@gmail.com>

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Package broman updated to version 0.71-6 with previous version 0.70-4 dated 2020-05-22

Title: Karl Broman's R Code
Description: Miscellaneous R functions, including functions related to graphics (mostly for base graphics), permutation tests, running mean/median, and general utilities.
Author: Karl W Broman [aut, cre] (<https://orcid.org/0000-0002-4914-6671>), Aimee Teo Broman [ctb] (<https://orcid.org/0000-0003-3783-2807>)
Maintainer: Karl W Broman <broman@wisc.edu>

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Package betaper updated to version 1.1-2 with previous version 1.1-1 dated 2020-03-02

Title: Taxonomic Uncertainty on Multivariate Analyses of Ecological Data
Description: Permutational method to incorporate taxonomic uncertainty and some functions to assess its effects on parameters of some widely used multivariate methods in ecology, as explained in Cayuela et al. (2011) <doi:10.1111/j.1600-0587.2009.05899.x>.
Author: Luis Cayuela and Marcelino de la Cruz
Maintainer: Luis Cayuela <luis.cayuela@urjc.es>

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Package syuzhet updated to version 1.0.6 with previous version 1.0.4 dated 2017-12-14

Title: Extracts Sentiment and Sentiment-Derived Plot Arcs from Text
Description: Extracts sentiment and sentiment-derived plot arcs from text using a variety of sentiment dictionaries conveniently packaged for consumption by R users. Implemented dictionaries include "syuzhet" (default) developed in the Nebraska Literary Lab "afinn" developed by Finn Årup Nielsen, "bing" developed by Minqing Hu and Bing Liu, and "nrc" developed by Mohammad, Saif M. and Turney, Peter D. Applicable references are available in README.md and in the documentation for the "get_sentiment" function. The package also provides a hack for implementing Stanford's coreNLP sentiment parser. The package provides several methods for plot arc normalization.
Author: Matthew Jockers [aut, cre]
Maintainer: Matthew Jockers <mjockers@gmail.com>

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Package stochvol updated to version 3.0.3 with previous version 3.0.2 dated 2020-11-17

Title: Efficient Bayesian Inference for Stochastic Volatility (SV) Models
Description: Efficient algorithms for fully Bayesian estimation of stochastic volatility (SV) models with and without asymmetry (leverage) via Markov chain Monte Carlo (MCMC) methods. Methodological details are given in Kastner and Frühwirth-Schnatter (2014) <doi:10.1016/j.csda.2013.01.002> and Hosszejni and Kastner (2019) <doi:10.1007/978-3-030-30611-3_8>; the most common use cases are described in Kastner (2016) <doi:10.18637/jss.v069.i05> and the package vignette.
Author: Darjus Hosszejni [aut, cre] (<https://orcid.org/0000-0002-3803-691X>), Gregor Kastner [aut] (<https://orcid.org/0000-0002-8237-8271>)
Maintainer: Darjus Hosszejni <darjus.hosszejni@wu.ac.at>

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New package SpatialRegimes with initial version 0.2
Package: SpatialRegimes
Type: Package
Title: Spatial Constrained Clusterwise Regression
Version: 0.2
Date: 2020-11-23
Author: Francesco Vidoli, Roberto Benedetti
Maintainer: Francesco Vidoli <fvidoli@gmail.com>
Description: A collection of functions for estimating spatial regimes, aggregations of neighboring spatial units that are homogeneous in functional terms. The term spatial regime, therefore, should not be understood as a synonym for cluster. More precisely, the term cluster does not presuppose any functional relationship between the variables considered, while the term regime is linked to a regressive relationship underlying the spatial process. For more information, please see Postiglione, P., Andreano, M.S., Benedetti R. (2013) <doi:10.1007/s10614-012-9325-z> , Andreano, M.S., Benedetti, R., and Postiglione, P. (2017) <doi:10.1007/s11135-016-0415-1> , Bille', A.G., Benedetti, R., and Postiglione, P. (2017) <doi:10.1080/17421772.2017.1286373>.
Depends: spdep, quantreg, GWmodel, plm
Imports:
License: GPL (>= 2)
Suggests: R.rsp, utils
VignetteBuilder: R.rsp
NeedsCompilation: no
Packaged: 2020-11-23 16:25:28 UTC; Fra
Repository: CRAN
Date/Publication: 2020-11-24 15:40:02 UTC

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Package RobGARCHBoot updated to version 1.1.0 with previous version 1.0.1 dated 2020-05-13

Title: Robust Bootstrap Forecast Densities for GARCH Models
Description: Bootstrap forecast densities for GARCH (Generalized Autoregressive Conditional Heteroskedastic) returns and volatilities using the robust residual-based bootstrap procedure of Trucios, Hotta and Ruiz (2017) <DOI:10.1080/00949655.2017.1359601>.
Author: Carlos Trucios
Maintainer: Carlos Trucios <ctrucios@gmail.com>

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Package jti updated to version 0.5.2 with previous version 0.5.1 dated 2020-11-19

Title: Junction Tree Inference
Description: Minimal and memory efficient implementation of the junction tree algorithm using the Lauritzen-Spiegelhalter scheme; S. L. Lauritzen and D. J. Spiegelhalter (1988) <https://www.jstor.org/stable/2345762?seq=1>.
Author: Mads Lindskou [aut, cre]
Maintainer: Mads Lindskou <mads@math.aau.dk>

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Package jskm updated to version 0.4.2 with previous version 0.4.1 dated 2020-11-01

Title: Kaplan-Meier Plot with 'ggplot2'
Description: The function 'jskm()' creates publication quality Kaplan-Meier plot with at risk tables below. 'svyjskm()' provides plot for weighted Kaplan-Meier estimator.
Author: Jinseob Kim [aut, cre] (<https://orcid.org/0000-0002-9403-605X>), Zarathu [cph, fnd]
Maintainer: Jinseob Kim <jinseob2kim@gmail.com>

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Package corrr updated to version 0.4.3 with previous version 0.4.2 dated 2020-03-22

Title: Correlations in R
Description: A tool for exploring correlations. It makes it possible to easily perform routine tasks when exploring correlation matrices such as ignoring the diagonal, focusing on the correlations of certain variables against others, or rearranging and visualizing the matrix in terms of the strength of the correlations.
Author: Max Kuhn [aut, cre], Simon Jackson [aut], Jorge Cimentada [aut]
Maintainer: Max Kuhn <max@rstudio.com>

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Package corHMM updated to version 2.5 with previous version 2.4 dated 2020-10-01

Title: Hidden Markov Models of Character Evolution
Description: Fits hidden Markov models of discrete character evolution which allow different transition rate classes on different portions of a phylogeny. Beaulieu et al (2013) <doi:10.1093/sysbio/syt034>.
Author: Jeremy Beaulieu [aut, cre], Brian O'Meara [aut], Jeffrey Oliver [aut], James Boyko [aut]
Maintainer: Jeremy Beaulieu <jmbeauli@uark.edu>

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Package yamlet updated to version 0.5.1 with previous version 0.4.8 dated 2020-06-18

Title: Versatile Curation of Table Metadata
Description: A file-based mechanism for documenting datasets. It reads and writes YAML-formatted metadata and applies it as data item attributes. Data and metadata are stored independently but can be coordinated by using similar file paths with different extensions. The 'yamlet' dialect is valid 'YAML', but some conventions are chosen to improve readability. Defaults and conventions can be over-ridden by the user. See ?yamlet and ?decorate.data.frame. See ?read_yamlet ?write_yamlet, and ?io_csv.
Author: Tim Bergsma
Maintainer: Tim Bergsma <bergsmat@gmail.com>

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Package sparta updated to version 0.6.1 with previous version 0.6.0 dated 2020-11-09

Title: Sparse Tables
Description: Fast Multiplication and Marginalization of Sparse Tables.
Author: Mads Lindskou [aut, cre]
Maintainer: Mads Lindskou <mads@math.aau.dk>

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Package MediaNews updated to version 0.2.0 with previous version 0.1.0 dated 2020-02-09

Title: Media News Extraction for Text Analysis
Description: Extract textual data from different media channels through its source, based on users choice of keywords. These data can be used to perform text analysis to identify patterns in respective media reporting. The media channels used in this package are print media from India. The data (or news) used are publicly available to consumers.
Author: Vatsal Aima
Maintainer: Vatsal Aima <vaima75@hotmail.com>

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Package insight updated to version 0.11.0 with previous version 0.10.0 dated 2020-10-22

Title: Easy Access to Model Information for Various Model Objects
Description: A tool to provide an easy, intuitive and consistent access to information contained in various R models, like model formulas, model terms, information about random effects, data that was used to fit the model or data from response variables. 'insight' mainly revolves around two types of functions: Functions that find (the names of) information, starting with 'find_', and functions that get the underlying data, starting with 'get_'. The package has a consistent syntax and works with many different model objects, where otherwise functions to access these information are missing.
Author: Daniel Lüdecke [aut, cre] (<https://orcid.org/0000-0002-8895-3206>), Dominique Makowski [aut, ctb] (<https://orcid.org/0000-0001-5375-9967>), Indrajeet Patil [aut, ctb] (<https://orcid.org/0000-0003-1995-6531>), Philip Waggoner [aut, ctb] (<https://orcid.org/0000-0002-7825-7573>), Mattan S. Ben-Shachar [aut, ctb] (<https://orcid.org/0000-0002-4287-4801>)
Maintainer: Daniel Lüdecke <d.luedecke@uke.de>

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More information about insight at CRAN
Permanent link

Package fhircrackr updated to version 0.2.1 with previous version 0.2.0 dated 2020-10-19

Title: Handling HL7 FHIR Resources in R
Description: Useful tools for conveniently downloading FHIR resources in xml format and converting them to R data frames. The package uses FHIR-search to download bundles from a FHIR server, provides functions to save and read xml-files containing such bundles and allows flattening the bundles to data.frames using XPath expressions.
Author: Thomas Peschel [aut, cre], Julia Gantner [aut] (<https://orcid.org/0000-0003-1568-5893>), Jens Przybilla [aut], Frank Meineke [aut] (<https://orcid.org/0000-0002-9256-7543>)
Maintainer: Thomas Peschel <tpeschel@imise.uni-leipzig.de>

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Package diversitree updated to version 0.9-15 with previous version 0.9-14 dated 2020-09-04

Title: Comparative 'Phylogenetic' Analyses of Diversification
Description: Contains a number of comparative 'phylogenetic' methods, mostly focusing on analysing diversification and character evolution. Contains implementations of 'BiSSE' (Binary State 'Speciation' and Extinction) and its unresolved tree extensions, 'MuSSE' (Multiple State 'Speciation' and Extinction), 'QuaSSE', 'GeoSSE', and 'BiSSE-ness' Other included methods include Markov models of discrete and continuous trait evolution and constant rate 'speciation' and extinction.
Author: Richard G. FitzJohn [aut, cre], Emma Goldberg [aut], Karen Magnuson-Ford [aut], Roger Sidje [aut]
Maintainer: Richard G. FitzJohn <rich.fitzjohn@gmail.com>

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Permanent link

Package clam updated to version 2.3.7 with previous version 2.3.5 dated 2020-08-10

Title: Classical Age-Depth Modelling of Cores from Deposits
Description: Performs 'classical' age-depth modelling of dated sediment deposits - prior to applying more sophisticated techniques such as Bayesian age-depth modelling. Any radiocarbon dated depths are calibrated. Age-depth models are constructed by sampling repeatedly from the dated levels, each time drawing age-depth curves. Model types include linear interpolation, linear or polynomial regression, and a range of splines. See Blaauw (2010). <doi:10.1016/j.quageo.2010.01.002>.
Author: Maarten Blaauw [aut, cre], J. Andres Christen [ctb], Judith Esquivel Vazquez [ctb], Simon Goring [ctb]
Maintainer: Maarten Blaauw <maarten.blaauw@qub.ac.uk>

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More information about clam at CRAN
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Package anticlust updated to version 0.5.6 with previous version 0.5.3 dated 2020-09-25

Title: Subset Partitioning via Anticlustering
Description: The method of anticlustering partitions a pool of elements into groups (i.e., anticlusters) in such a way that the between-group similarity is maximized and -- at the same time -- the within-group heterogeneity is maximized. This reverses the logic of cluster analysis that strives for high within-group homogeneity and low similarity of the different groups. Computationally, anticlustering is accomplished by maximizing instead of minimizing a clustering objective function, such as the intra-cluster variance (used in k-means clustering) or the sum of pairwise distances within clusters. The function anticlustering() implements exact and heuristic anticlustering algorithms as described in Papenberg and Klau (2020; <doi:10.1037/met0000301>). The exact approach requires that the GNU linear programming kit (<https://www.gnu.org/software/glpk/glpk.html>) is available and the R package 'Rglpk' (<https://cran.R-project.org/package=Rglpk>) is installed. Some other functions are available to solve classical clustering problems. The function balanced_clustering() applies a cluster analysis under size constraints, i.e., creates equal-sized clusters. The function matching() can be used for (unrestricted, bipartite, or K-partite) matching. The function wce() can be used optimally solve the (weighted) cluster editing problem, also known as correlation clustering, clique partitioning problem or transitivity clustering.
Author: Martin Papenberg [aut, cre] (<https://orcid.org/0000-0002-9900-4268>), Meik Michalke [ctb] (centroid based clustering algorithm), Gunnar W. Klau [ths], Juliane V. Tkotz [ctb] (package logo)
Maintainer: Martin Papenberg <martin.papenberg@hhu.de>

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Package ivx updated to version 1.1.0 with previous version 1.0.0 dated 2019-05-04

Title: Robust Econometric Inference
Description: Drawing statistical inference on the coefficients of a short- or long-horizon predictive regression with persistent regressors by using the IVX method of Magdalinos and Phillips (2009) <doi:10.1017/S0266466608090154> and Kostakis, Magdalinos and Stamatogiannis (2015) <doi:10.1093/rfs/hhu139>.
Author: Kostas Vasilopoulos [cre, aut], Efthymios Pavlidis [aut]
Maintainer: Kostas Vasilopoulos <k.vasilopoulo@gmail.com>

Diff between ivx versions 1.0.0 dated 2019-05-04 and 1.1.0 dated 2020-11-24

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Package chickn updated to version 1.2.3 with previous version 1.2.2 dated 2020-11-12

Title: 'Compressive' Hierarchical Kernel Clustering Toolbox
Description: Routines for efficient cluster analysis of large scale data. This package implements the 'CHICKN' clustering algorithm (see 'Permiakova' 'et' 'al.' (2020) "'CHICKN': Extraction of 'peptide' 'chromatographic' 'elution' profiles from large scale mass 'spectrometry' data by means of 'Wasserstein' 'compressive' hierarchical cluster analysis"). Functions for data compression, hierarchical clustering and post processing are provided.
Author: Olga Permiakova [aut, cre], Romain Guibert [aut], Thomas Burger [aut]
Maintainer: Olga Permiakova <olga.permiakova@gmail.com>

Diff between chickn versions 1.2.2 dated 2020-11-12 and 1.2.3 dated 2020-11-24

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New package rwa with initial version 0.0.3
Package: rwa
Type: Package
Title: Perform a Relative Weights Analysis
Version: 0.0.3
Author: Martin Chan <martinchan53@gmail.com>
Maintainer: Martin Chan <martinchan53@gmail.com>
Description: Perform a Relative Weights Analysis (RWA) (a.k.a. Key Drivers Analysis) as per the method described in Tonidandel & LeBreton (2015) <DOI:10.1007/s10869-014-9351-z>, with its original roots in Johnson (2000) <DOI:10.1207/S15327906MBR3501_1>. In essence, RWA decomposes the total variance predicted in a regression model into weights that accurately reflect the proportional contribution of the predictor variables, which addresses the issue of multi-collinearity. In typical scenarios, RWA returns similar results to Shapley regression, but with a significant advantage on computational performance.
License: GPL-3
Encoding: UTF-8
LazyData: true
URL: https://github.com/martinctc/rwa
BugReports: https://github.com/martinctc/rwa/issues
RoxygenNote: 7.1.1
Imports: dplyr, magrittr, stats, tidyr, ggplot2
NeedsCompilation: no
Packaged: 2020-11-22 17:05:48 UTC; Martin Chan
Repository: CRAN
Date/Publication: 2020-11-24 12:10:02 UTC

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Package rosetta updated to version 0.3.1 with previous version 0.3.0 dated 2020-11-12

Title: Parallel Use of Statistical Packages in Teaching
Description: When teaching statistics, it can often be desirable to uncouple the content from specific software packages. To ease such efforts, the Rosetta Stats website (<https://rosettastats.com>) allows comparing analyses in different packages. This package is the companion to the Rosetta Stats website, aiming to provide functions that produce output that is similar to output from other statistical packages, thereby facilitating 'software-agnostic' teaching of statistics.
Author: Gjalt-Jorn Peters [aut, cre] (<https://orcid.org/0000-0002-0336-9589>), Ron Pat-El [ctb] (<https://orcid.org/0000-0002-4742-0163>), Peter Verboon [ctb] (<https://orcid.org/0000-0001-8656-0890>), Melissa Gordon Wolf [ctb] (<https://orcid.org/0000-0001-7677-0659>)
Maintainer: Gjalt-Jorn Peters <gjalt-jorn@userfriendlyscience.com>

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Package monoClust updated to version 1.2.0 with previous version 1.1.0 dated 2020-11-17

Title: Perform Monothetic Clustering with Extensions to Circular Data
Description: Implementation of the Monothetic Clustering algorithm (Chavent, 1998 <doi:10.1016/S0167-8655(98)00087-7>) on continuous data sets. A lot of extensions are included in the package, including applying Monothetic clustering on data sets with circular variables, visualizations with the results, and permutation and cross-validation based tests to support the decision on the number of clusters.
Author: Tan Tran [aut, cre] (<https://orcid.org/0000-0001-9881-6339>), Brian McGuire [aut], Mark Greenwood [aut] (<https://orcid.org/0000-0001-6933-1201>)
Maintainer: Tan Tran <vinhtantran@gmail.com>

Diff between monoClust versions 1.1.0 dated 2020-11-17 and 1.2.0 dated 2020-11-24

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New package mixcure with initial version 2.0
Encoding: UTF-8
Package: mixcure
Title: Mixture Cure Models
Version: 2.0
Authors@R: person("Yingwei", "Peng", role = c("aut", "cre"), email = "yingwei.peng@queensu.ca")
Description: Implementation of parametric and semiparametric mixture cure models based on existing R packages. See details of the models in Peng and Yu (2020) <ISBN: 9780367145576>.
Depends: R (>= 3.5.0), survival
Imports: boot, flexsurv, survey, gam, timereg
License: GPL-3
RoxygenNote: 7.1.0
NeedsCompilation: no
Packaged: 2020-11-17 03:10:05 UTC; Yingwei
Author: Yingwei Peng [aut, cre]
Maintainer: Yingwei Peng <yingwei.peng@queensu.ca>
Repository: CRAN
Date/Publication: 2020-11-24 12:20:02 UTC

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New package migrate with initial version 0.1.0
Package: migrate
Type: Package
Title: Create Credit State Migration (Transition) Matrices
Version: 0.1.0
Authors@R: c(person(given = "Michael", family = "Thomas", role = c("aut", "cre"), email = "mthomas@ketchbrookanalytics.com"), person(given = "Brad", family = "Lindblad", role = "ctb", email = "bradley.lindblad@gmail.com"))
Description: Tools to help convert credit risk data at two time points into traditional credit state migration (aka, "transition") matrices. At a higher level, 'migrate' is intended to help an analyst understand how risk moved in their credit portfolio over a time interval. References to this methodology include: 1. Schuermann, T. (2008) <doi:10.1002/9780470061596.risk0409>. 2. Perederiy, V. (2017) <arXiv:1708.00062>.
License: MIT + file LICENSE
URL: https://github.com/mthomas-ketchbrook/migrate
BugReports: https://github.com/mthomas-ketchbrook/migrate/issues
Encoding: UTF-8
LazyData: true
Suggests: testthat (>= 2.1.0), knitr, rmarkdown
Depends: R (>= 3.1)
Imports: dplyr (>= 1.0.2), tidyr (>= 1.1.0), crayon (>= 1.3.4), stringr (>= 1.4.0), tibble (>= 3.0.1), rlang, utils, magrittr
VignetteBuilder: knitr
Language: en-US
RoxygenNote: 7.1.1
NeedsCompilation: no
Packaged: 2020-11-22 23:33:20 UTC; 18602
Author: Michael Thomas [aut, cre], Brad Lindblad [ctb]
Maintainer: Michael Thomas <mthomas@ketchbrookanalytics.com>
Repository: CRAN
Date/Publication: 2020-11-24 12:40:03 UTC

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New package ennet with initial version 0.1.0
Package: ennet
Type: Package
Title: Utilities to Extract and Analyse Text Data from the Emergency Nutrition Network Forum
Version: 0.1.0
Authors@R: person(given = "Ernest", family = "Guevarra", email = "ernest@guevarra.io", role = c("aut", "cre"), comment = c(ORCID = "0000-0002-4887-4415"))
Description: The Emergency Nutrition Network or en-net forum is the go to online forum for field practitioners requiring prompt technical advice for operational challenges for which answers are not readily accessible in current guidelines. The questions and the corresponding answers raised within en-net can provide insight into what the key topics of discussion are within the nutrition sector. This package provides utility functions for the extraction, processing and analysis of text data from the online forum.
License: GPL-3
Depends: R (>= 2.10)
Imports: magrittr, rvest, xml2, tibble, dplyr, stringr, lubridate
Suggests: knitr, rmarkdown, DiagrammeR, testthat, spelling
Encoding: UTF-8
Language: en-GB
LazyData: true
RoxygenNote: 7.1.1
URL: https://github.com/katilingban/ennet
BugReports: https://github.com/katilingban/ennet/issues
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2020-11-22 18:25:45 UTC; ernest
Author: Ernest Guevarra [aut, cre] (<https://orcid.org/0000-0002-4887-4415>)
Maintainer: Ernest Guevarra <ernest@guevarra.io>
Repository: CRAN
Date/Publication: 2020-11-24 12:20:05 UTC

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Package covid19br updated to version 0.1.1 with previous version 0.1.0 dated 2020-09-29

Title: Brazilian COVID-19 Pandemic Data
Description: Set of functions to import COVID-19 pandemic data into R. The Brazilian COVID-19 data, obtained from the official Brazilian repository at <https://covid.saude.gov.br/>, is available at country, region, state, and city-levels. The package also downloads the world-level COVID-19 data from the John Hopkins University's repository.
Author: Fabio Demarqui [aut, cre], Cristiano Santos [aut], Matheus Costa [ctb]
Maintainer: Fabio Demarqui <fndemarqui@est.ufmg.br>

Diff between covid19br versions 0.1.0 dated 2020-09-29 and 0.1.1 dated 2020-11-24

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Package BAT updated to version 2.4.0 with previous version 2.3.0 dated 2020-10-28

Title: Biodiversity Assessment Tools
Description: Includes algorithms to assess alpha and beta diversity in all their dimensions (taxon, phylogenetic and functional diversity), whether communities are completely sampled or not. It allows performing a number of analyses based on either species identities or phylogenetic/functional trees or functional kernel n-dimensional hypervolumes depicting species relationships.
Author: Pedro Cardoso, Stefano Mammola, Francois Rigal, Jose Carlos Carvalho
Maintainer: Pedro Cardoso <pedro.cardoso@helsinki.fi>

Diff between BAT versions 2.3.0 dated 2020-10-28 and 2.4.0 dated 2020-11-24

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New package LPsmooth with initial version 0.1.3
Package: LPsmooth
Type: Package
Title: LP Smoothed Inference and Graphics
Version: 0.1.3
Author: Xiangyu Zhang <zhan6004@umn.edu>, Sara Algeri <salgeri@umn.edu>
Maintainer: Xiangyu Zhang <zhan6004@umn.edu>
Description: Classical tests of goodness-of-fit aim to validate the conformity of a postulated model to the data under study. In their standard formulation, however, they do not allow exploring how the hypothesized model deviates from the truth nor do they provide any insight into how the rejected model could be improved to better fit the data. To overcome these shortcomings, we establish a comprehensive framework for goodness-of-fit which naturally integrates modeling, estimation, inference and graphics. In this package, the deviance tests and comparison density plots are performed to conduct the LP smoothed inference, where the letter L denotes nonparametric methods based on quantiles and P stands for polynomials. Simulations methods are used to perform variance estimation, inference and post-selection adjustments. Algeri S. and Zhang X. (2020) <arXiv:2005.13011>.
Imports: LPGraph,LPBkg,truncnorm,nloptr,Hmisc,orthopolynom,polynom
License: GPL-3
LazyData: True
NeedsCompilation: no
Packaged: 2020-11-23 16:14:06 UTC; zxysmacbook
Repository: CRAN
Date/Publication: 2020-11-24 11:30:05 UTC

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New package eBsc with initial version 4.12
Package: eBsc
Type: Package
Title: "Empirical Bayes Smoothing Splines with Correlated Errors"
Version: 4.12
Date: 2020-11-08
Author: Francisco Rosales, Tatyana Krivobokova, Paulo Serra.
Description: Presents a statistical method that uses a recursive algorithm for signal extraction. The method handles a non-parametric estimation for the correlation of the errors. See "Serra", "Krivobokova" and "Rosales" (2018) <arXiv:1812.06948> for details.
License: GPL-2
Imports: Brobdingnag, parallel, nlme, Matrix, MASS, splines, Rcpp
LinkingTo: Rcpp, RcppArmadillo
NeedsCompilation: yes
Maintainer: John Barrera <johnkevinbarrera@gmail.com>
Packaged: 2020-11-24 06:58:41 UTC; john
Repository: CRAN
Date/Publication: 2020-11-24 11:30:02 UTC

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Package tipitaka updated to version 0.1.1 with previous version 0.1.0 dated 2020-09-22

Title: Data and Tools for Analyzing the Pali Canon
Description: Provides access to the complete Pali Canon, or Tipitaka, the canonical scripture for Theravadin Buddhists worldwide. Based on the Chattha Sangayana Tipitaka version 4 (Vipassana Research Institute, 1990).
Author: Dan Zigmond [aut, cre]
Maintainer: Dan Zigmond <djz@shmonk.com>

Diff between tipitaka versions 0.1.0 dated 2020-09-22 and 0.1.1 dated 2020-11-24

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Package starnet updated to version 0.0.6 with previous version 0.0.5 dated 2020-11-09

Title: Stacked Elastic Net
Description: Implements stacked elastic net regression (Rauschenberger 2020, <doi:10.1093/bioinformatics/btaa535>). The elastic net generalises ridge and lasso regularisation (Zou 2005, <doi:10.1111/j.1467-9868.2005.00503.x>). Instead of fixing or tuning the mixing parameter alpha, we combine multiple alpha by stacked generalisation (Wolpert 1992 <doi:10.1016/S0893-6080(05)80023-1>).
Author: Armin Rauschenberger [aut, cre]
Maintainer: Armin Rauschenberger <armin.rauschenberger@uni.lu>

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Package SDMtune updated to version 1.1.3 with previous version 1.1.2 dated 2020-10-02

Title: Species Distribution Model Selection
Description: User-friendly framework that enables the training and the evaluation of species distribution models (SDMs). The package implements functions for data driven variable selection and model tuning and includes numerous utilities to display the results. All the functions used to select variables or to tune model hyperparameters have an interactive real-time chart displayed in the 'RStudio' viewer pane during their execution.
Author: Sergio Vignali [aut, cre] (<https://orcid.org/0000-0002-3390-5442>), Arnaud Barras [aut] (<https://orcid.org/0000-0003-0850-6965>), Veronika Braunisch [aut] (<https://orcid.org/0000-0001-7035-4662>), Conservation Biology - University of Bern [fnd]
Maintainer: Sergio Vignali <sergio.vignali@iee.unibe.ch>

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Package otrimle updated to version 1.6 with previous version 1.3 dated 2019-09-24

Title: Robust Model-Based Clustering
Description: Performs robust cluster analysis allowing for outliers and noise that cannot be fitted by any cluster. The data are modelled by a mixture of Gaussian distributions and a noise component, which is an improper uniform distribution covering the whole Euclidean space. Parameters are estimated by (pseudo) maximum likelihood. This is fitted by a EM-type algorithm. See Coretto and Hennig (2016) <doi:10.1080/01621459.2015.1100996>, and Coretto and Hennig (2017) <https://jmlr.org/papers/v18/16-382.html>.
Author: Pietro Coretto [aut, cre], Christian Hennig [aut]
Maintainer: Pietro Coretto <pcoretto@unisa.it>

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Package BlockFeST updated to version 1.8 with previous version 1.6 dated 2018-05-06

Title: Bayesian Calculation of Region-Specific Fixation Index to Detect Local Adaptation
Description: An R implementation of an extension of the 'BayeScan' software (Foll, 2008) <DOI:10.1534/genetics.108.092221> for codominant markers, adding the option to group individual SNPs into pre-defined blocks. A typical application of this new approach is the identification of genomic regions, genes, or gene sets containing one or more SNPs that evolved under directional selection.
Author: Bastian Pfeifer
Maintainer: Bastian Pfeifer <bastianxpfeifer@gmail.com>

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Package smurf updated to version 1.0.7 with previous version 1.0.6 dated 2020-05-16

Title: Sparse Multi-Type Regularized Feature Modeling
Description: Implementation of the SMuRF algorithm of Devriendt et al. (2018) <arXiv:1810.03136> to fit generalized linear models (GLMs) with multiple types of predictors via regularized maximum likelihood.
Author: Tom Reynkens [aut, cre] (<https://orcid.org/0000-0002-5516-5107>), Sander Devriendt [aut], Katrien Antonio [aut]
Maintainer: Tom Reynkens <tomreynkens@hotmail.com>

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Package cubelyr updated to version 1.0.1 with previous version 1.0.0 dated 2020-02-29

Title: A Data Cube 'dplyr' Backend
Description: An implementation of a data cube extracted out of 'dplyr' for backward compatibility.
Author: Hadley Wickham [aut, cre], RStudio [cph]
Maintainer: Hadley Wickham <hadley@rstudio.com>

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Package survParamSim updated to version 0.1.3 with previous version 0.1.2 dated 2020-06-18

Title: Parametric Survival Simulation with Parameter Uncertainty
Description: Perform survival simulation with parametric survival model generated from 'survreg' function in 'survival' package. In each simulation coefficients are resampled from variance-covariance matrix of parameter estimates to capture uncertainty in model parameters. Prediction intervals of Kaplan-Meier estimates and hazard ratio of treatment effect can be further calculated using simulated survival data.
Author: Kenta Yoshida [aut, cre] (<https://orcid.org/0000-0003-4967-3831>), Laurent Claret [aut]
Maintainer: Kenta Yoshida <6.kurabupasu@gmail.com>

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Package SubtypeDrug updated to version 0.1.3 with previous version 0.1.2 dated 2020-09-24

Title: Prioritization of Candidate Cancer Subtype Specific Drugs
Description: A systematic biology tool was developed to prioritize cancer subtype-specific drugs by integrating genetic perturbation, drug action, biological pathway, and cancer subtype. The capabilities of this tool include inferring patient-specific subpathway activity profiles in the context of gene expression profiles with subtype labels, calculating differentially expressed subpathways based on cultured human cells treated with drugs in the 'cMap' (connectivity map) database, prioritizing cancer subtype specific drugs according to drug-disease reverse association score based on subpathway, and visualization of results (Castelo (2013) <doi:10.1186/1471-2105-14-7>; Han et al (2019) <doi:10.1093/bioinformatics/btz894>; Lamb and Justin (2006) <DOI:10.1126/science.1132939>).
Author: Xudong Han, Junwei Han, Chonghui Liu
Maintainer: Junwei Han <hanjunwei1981@163.com>

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Package finbif updated to version 0.3.1 with previous version 0.3.0 dated 2020-04-23

Title: Interface for the 'Finnish Biodiversity Information Facility' API
Description: A programmatic interface to the 'Finnish Biodiversity Information Facility' ('FinBIF') API (<https://api.laji.fi>). 'FinBIF' aggregates Finnish biodiversity data from multiple sources in a single open access portal for researchers, citizen scientists, industry and government. 'FinBIF' allows users of biodiversity information to find, access, combine and visualise data on Finnish plants, animals and microorganisms. The 'finbif' package makes the publicly available data in 'FinBIF' easily accessible to programmers. Biodiversity information is available on taxonomy and taxon occurrence. Occurrence data can be filtered by taxon, time, location and other variables. The data accessed are conveniently preformatted for subsequent analyses.
Author: LUOMUS - Finnish Museum of Natural History [cph], William Morris [aut, cre] (<https://orcid.org/0000-0002-8686-4154>)
Maintainer: William Morris <willi@mmorris.email>

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New package gwasforest with initial version 1.0.0
Package: gwasforest
Title: Make Forest Plot with GWAS Data
Version: 1.0.0
Authors@R: c( person("Yili", "Xu", email = "yilixu@usc.edu", role = c("aut", "cre")), person("Anqi", "Wang", email = "wanganqi@usc.edu", role = c("aut")))
Description: Extract and reform data from GWAS (genome-wide association study) results, and then make a single integrated forest plot containing multiple windows of which each shows the result of individual SNPs (or other items of interest).
URL: https://github.com/yilixu/gwasforest
BugReports: https://github.com/yilixu/gwasforest/issues
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.1
Imports: colorspace, data.table, dplyr, ggplot2, ggrepel, glue, utils
NeedsCompilation: no
Packaged: 2020-11-22 11:06:46 UTC; yilixu
Author: Yili Xu [aut, cre], Anqi Wang [aut]
Maintainer: Yili Xu <yilixu@usc.edu>
Repository: CRAN
Date/Publication: 2020-11-24 08:30:03 UTC

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New package aRbs with initial version 0.0.1
Package: aRbs
Title: Find Arbitrage Opportunities for Sports Matches
Version: 0.0.1
Authors@R: person("Andrew", "Little", email = "andrewlittlebristol@gmail.com", role = c("aut", "cre"))
Maintainer: Andrew Little <andrewlittlebristol@gmail.com>
Description: Money doesn't grow on trees. Arbitrage opportunities do. Find the best arbitrage opportunities (arbs) in sports matches through <https://www.oddschecker.com/>. This package allows the user to input the URLs of <https://www.oddschecker.com/> subdomains in order to find any opportunities for arbitrage. The majority of the functionality is implemented using the function \code{get_arbs()}. This function first finds all subdomains of the URL entered, then filters to only include those that look like event betting pages. Next, odds are scraped from the various bookmakers listed for that event, before returning combinations of bookmakers, odds or outcomes that could be used for arbitrage. Bets placed subsequently are done so at bettor's risk and we take no responsibility for losses that may occur from use of this package. Odds subject to instantaneous changes.
License: GPL-2
Imports: data.table, crayon, dplyr, progress, stringr, xml2, rvest, purrr, stats
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.0
NeedsCompilation: no
Packaged: 2020-11-21 17:24:14 UTC; alittle
Author: Andrew Little [aut, cre]
Repository: CRAN
Date/Publication: 2020-11-24 08:30:06 UTC

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Package SpatialVx updated to version 0.7-1 with previous version 0.7 dated 2020-09-01

Title: Spatial Forecast Verification
Description: Spatial forecast verification refers to verifying weather forecasts when the verification set (forecast and observations) is on a spatial field, usually a high-resolution gridded spatial field. Most of the functions here require the forecast and observed fields to be gridded and on the same grid. For a thorough review of most of the methods in this package, please see Gilleland et al. (2009) <doi: 10.1175/2009WAF2222269.1>.
Author: Eric Gilleland <EricG@ucar.edu>
Maintainer: Eric Gilleland <EricG@ucar.edu>

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Package rstanemax updated to version 0.1.3 with previous version 0.1.2 dated 2020-06-18

Title: Emax Model Analysis with 'Stan'
Description: Perform sigmoidal Emax model fit using 'Stan' in a formula notation, without writing 'Stan' model code.
Author: Kenta Yoshida [aut, cre] (<https://orcid.org/0000-0003-4967-3831>), Trustees of Columbia University [cph] (src/init.cpp, tools/make_cc.R, R/stanmodels.R)
Maintainer: Kenta Yoshida <6.kurabupasu@gmail.com>

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Package prioritizr updated to version 5.0.3 with previous version 5.0.2 dated 2020-07-30

Title: Systematic Conservation Prioritization in R
Description: Conservation prioritization using integer programming techniques. To solve large-scale problems, users should install the 'gurobi' optimizer (available from <https://www.gurobi.com/>).
Author: Jeffrey O Hanson [aut] (<https://orcid.org/0000-0002-4716-6134>), Richard Schuster [aut, cre] (<https://orcid.org/0000-0003-3191-7869>), Nina Morrell [aut], Matthew Strimas-Mackey [aut] (<https://orcid.org/0000-0001-8929-7776>), Matthew E Watts [aut], Peter Arcese [aut] (<https://orcid.org/0000-0002-8097-482X>), Joseph Bennett [aut] (<https://orcid.org/0000-0002-3901-9513>), Hugh P Possingham [aut] (<https://orcid.org/0000-0001-7755-996X>)
Maintainer: Richard Schuster <richard.schuster@glel.carleton.ca>

Diff between prioritizr versions 5.0.2 dated 2020-07-30 and 5.0.3 dated 2020-11-24

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Package nonmemica updated to version 0.9.7 with previous version 0.9.6 dated 2020-10-21

Title: Create and Evaluate NONMEM Models in a Project Context
Description: Systematically creates and modifies NONMEM(R) control streams. Harvests NONMEM output, builds run logs, creates derivative data, generates diagnostics. NONMEM (ICON Development Solutions <http://www.iconplc.com/>) is software for nonlinear mixed effects modeling. See 'package?nonmemica'.
Author: Tim Bergsma
Maintainer: Tim Bergsma <bergsmat@gmail.com>

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New package gwer with initial version 2.1
Package: gwer
Type: Package
Title: Geographically Weighted Elliptical Regression
Version: 2.1
Date: 2020-11-23
Author: Yuri A. Araujo, Francisco Jose A. Cysneiros and Audrey H. M. A. Cysneiros
Maintainer: Yuri A. Araujo <yada1@de.ufpe.br>
Description: Computes a elliptical regression model or a geographically weighted regression model with elliptical errors using Fisher's score algorithm. Provides diagnostic measures, residuals and analysis of variance. Cysneiros, F. J. A., Paula, G. A., and Galea, M. (2007) <doi:10.1016/j.spl.2007.01.012>.
Depends: R (>= 2.14), sp (>= 0.8-3), stats
Imports: maptools (>= 0.7-32), Matrix, methods, spData (>= 0.2.6.2), spdep, spgwr, utils, assertthat, glogis, graphics
Suggests: rgdal, parallel
NeedsCompilation: no
License: GPL (>= 2)
RoxygenNote: 7.1.1
Encoding: UTF-8
LazyData: true
Packaged: 2020-11-24 05:01:09 UTC; LoD_B
Repository: CRAN
Date/Publication: 2020-11-24 07:40:02 UTC

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Package extRemes updated to version 2.1 with previous version 2.0-12 dated 2020-05-03

Title: Extreme Value Analysis
Description: General functions for performing extreme value analysis. In particular, allows for inclusion of covariates into the parameters of the extreme-value distributions, as well as estimation through MLE, L-moments, generalized (penalized) MLE (GMLE), as well as Bayes. Inference methods include parametric normal approximation, profile-likelihood, Bayes, and bootstrapping. Some bivariate functionality and dependence checking (e.g., auto-tail dependence function plot, extremal index estimation) is also included. For a tutorial, see Gilleland and Katz (2016) <doi: 10.18637/jss.v072.i08> and for bootstrapping, please see Gilleland (2020) <doi: 10.1175/JTECH-D-20-0070.1>.
Author: Eric Gilleland
Maintainer: Eric Gilleland <ericg@ucar.edu>

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Package broom.helpers updated to version 1.1.0 with previous version 1.0.0 dated 2020-09-18

Title: Helpers for Model Coefficients Tibbles
Description: Provides suite of functions to work with regression model 'broom::tidy()' tibbles. The suite includes functions to group regression model terms by variable, insert reference and header rows for categorical variables, add variable labels, and more.
Author: Joseph Larmarange [aut, cre] (<https://orcid.org/0000-0001-7097-700X>), Daniel D. Sjoberg [aut] (<https://orcid.org/0000-0003-0862-2018>)
Maintainer: Joseph Larmarange <joseph@larmarange.net>

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Package boostmtree updated to version 1.5.0 with previous version 1.4.1 dated 2019-11-21

Title: Boosted Multivariate Trees for Longitudinal Data
Description: Implements Friedman's gradient descent boosting algorithm for modeling longitudinal response using multivariate tree base learners. Longitudinal response could be continuous, binary, nominal or ordinal. A time-covariate interaction effect is modeled using penalized B-splines (P-splines) with estimated adaptive smoothing parameter. Although the package is design for longitudinal data, it can handle cross-sectional data as well. Implementation details are provided in Pande et al. (2017), Mach Learn <DOI:10.1007/s10994-016-5597-1>.
Author: Hemant Ishwaran <hemant.ishwaran@gmail.com>, Amol Pande <amoljpande@gmail.com>
Maintainer: Udaya B. Kogalur <ubk@kogalur.com>

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Package baytrends updated to version 2.0.2 with previous version 1.2.1 dated 2020-03-31

Title: Long Term Water Quality Trend Analysis
Description: Enable users to evaluate long-term trends using a Generalized Additive Modeling (GAM) approach. The model development includes selecting a GAM structure to describe nonlinear seasonally-varying changes over time, incorporation of hydrologic variability via either a river flow or salinity, the use of an intervention to deal with method or laboratory changes suspected to impact data values, and representation of left- and interval-censored data. The approach has been applied to water quality data in the Chesapeake Bay, a major estuary on the east coast of the United States to provide insights to a range of management- and research-focused questions. Methodology described in Murphy (2019) <doi:10.1016/j.envsoft.2019.03.027>.
Author: Rebecca Murphy, Elgin Perry, Jennifer Keisman, Jon Harcum, Erik W Leppo
Maintainer: Erik W Leppo <Erik.Leppo@tetratech.com>

Diff between baytrends versions 1.2.1 dated 2020-03-31 and 2.0.2 dated 2020-11-24

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 baytrends-1.2.1/baytrends/man/pcodeColData.Rd                                                   |only
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 baytrends-2.0.2/baytrends/DESCRIPTION                                                           |   94 --
 baytrends-2.0.2/baytrends/MD5                                                                   |  440 +++-------
 baytrends-2.0.2/baytrends/NAMESPACE                                                             |  209 ----
 baytrends-2.0.2/baytrends/NEWS                                                                  |  218 ++++
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 baytrends-2.0.2/baytrends/R/chkParameter.R                                                      |    4 
 baytrends-2.0.2/baytrends/R/createResiduals.R                                                   |    5 
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 baytrends-2.0.2/baytrends/R/detrended.flow.R                                                    |    3 
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 baytrends-2.0.2/baytrends/R/layerAggregation.R                                                  |  377 ++++----
 baytrends-2.0.2/baytrends/R/loadData.R                                                          |    6 
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 baytrends-2.0.2/baytrends/man/baytrends.Rd                                                      |   49 -
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Package fastmatrix updated to version 0.3 with previous version 0.2-3571 dated 2020-10-10

Title: Fast Computation of some Matrices Useful in Statistics
Description: Small set of functions to fast computation of some matrices and operations useful in statistics.
Author: Felipe Osorio [aut, cre] (<https://orcid.org/0000-0002-4675-5201>), Alonso Ogueda [aut]
Maintainer: Felipe Osorio <felipe.osorios@usm.cl>

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Package funGp updated to version 0.2.1 with previous version 0.2.0 dated 2020-11-17

Title: Gaussian Process Models for Scalar and Functional Inputs
Description: Construction and smart selection of Gaussian process models with emphasis on treatment of functional inputs. This package offers: (i) flexible modeling of functional-input regression problems through the fairly general Gaussian process model; (ii) built-in dimension reduction for functional inputs; (iii) heuristic optimization of the structural parameters of the model (e.g., active inputs, kernel function, type of distance). Metamodeling background is provided in Betancourt et al. (2020) <doi:10.1016/j.ress.2020.106870>. The algorithm for structural parameter optimization is described in <https://hal.archives-ouvertes.fr/hal-02532713>.
Author: Jose Betancourt [cre, aut], François Bachoc [aut], Thierry Klein [aut], Deborah Idier [ctb], Jeremy Rohmer [ctb]
Maintainer: Jose Betancourt <djbetancourt@uninorte.edu.co>

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Mon, 23 Nov 2020

Package comperes updated to version 0.2.5 with previous version 0.2.4 dated 2020-05-09

Title: Manage Competition Results
Description: Tools for storing and managing competition results. Competition is understood as a set of games in which players gain some abstract scores. There are two ways for storing results: in long (one row per game-player) and wide (one row per game with fixed amount of players) formats. This package provides functions for creation and conversion between them. Also there are functions for computing their summary and Head-to-Head values for players. They leverage grammar of data manipulation from 'dplyr'.
Author: Evgeni Chasnovski [aut, cre] (<https://orcid.org/0000-0002-1617-4019>)
Maintainer: Evgeni Chasnovski <evgeni.chasnovski@gmail.com>

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Package sgpv updated to version 1.1.0 with previous version 1.0.0 dated 2020-07-06

Title: Calculate Second-Generation p-Values and Associated Measures
Description: Computation of second-generation p-values as described in Blume et al. (2018) <doi:10.1371/journal.pone.0188299> and Blume et al. (2019) <doi:10.1080/00031305.2018.1537893>. There are additional functions which provide power and type I error calculations, create graphs (particularly suited for large-scale inference usage), and a function to estimate false discovery rates based on second-generation p-value inference.
Author: Valerie Welty [aut, cre], Rebecca Irlmeier [aut], Thomas Stewart [aut], Robert Greevy, Jr. [aut], Lucy D'Agostino McGowan [aut], Jeffrey Blume [aut]
Maintainer: Valerie Welty <valerie.welty@vanderbilt.edu>

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Package rvinecopulib updated to version 0.5.5.1.0 with previous version 0.5.4.1.0 dated 2020-10-03

Title: High Performance Algorithms for Vine Copula Modeling
Description: Provides an interface to 'vinecopulib', a C++ library for vine copula modeling. The 'rvinecopulib' package implements the core features of the popular 'VineCopula' package, in particular inference algorithms for both vine copula and bivariate copula models. Advantages over 'VineCopula' are a sleeker and more modern API, improved performances, especially in high dimensions, nonparametric and multi-parameter families, and the ability to model discrete variables. The 'rvinecopulib' package includes 'vinecopulib' as header-only C++ library (currently version 0.5.5). Thus users do not need to install 'vinecopulib' itself in order to use 'rvinecopulib'. Since their initial releases, 'vinecopulib' is licensed under the MIT License, and 'rvinecopulib' is licensed under the GNU GPL version 3.
Author: Thomas Nagler [aut, cre], Thibault Vatter [aut]
Maintainer: Thomas Nagler <info@vinecopulib.org>

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Package nimble updated to version 0.10.1 with previous version 0.10.0 dated 2020-10-10

Title: MCMC, Particle Filtering, and Programmable Hierarchical Modeling
Description: A system for writing hierarchical statistical models largely compatible with 'BUGS' and 'JAGS', writing nimbleFunctions to operate models and do basic R-style math, and compiling both models and nimbleFunctions via custom-generated C++. 'NIMBLE' includes default methods for MCMC, Monte Carlo Expectation Maximization, and some other tools. The nimbleFunction system makes it easy to do things like implement new MCMC samplers from R, customize the assignment of samplers to different parts of a model from R, and compile the new samplers automatically via C++ alongside the samplers 'NIMBLE' provides. 'NIMBLE' extends the 'BUGS'/'JAGS' language by making it extensible: New distributions and functions can be added, including as calls to external compiled code. Although most people think of MCMC as the main goal of the 'BUGS'/'JAGS' language for writing models, one can use 'NIMBLE' for writing arbitrary other kinds of model-generic algorithms as well. A full User Manual is available at <https://r-nimble.org>.
Author: Perry de Valpine [aut], Christopher Paciorek [aut, cre], Daniel Turek [aut], Nick Michaud [aut], Cliff Anderson-Bergman [aut], Fritz Obermeyer [aut], Claudia Wehrhahn Cortes [aut] (Bayesian nonparametrics system), Abel Rodrìguez [aut] (Bayesian nonparametrics system), Duncan Temple Lang [aut] (packaging configuration), Sally Paganin [aut] (reversible jump MCMC), Jagadish Babu [ctb] (code for the compilation system for an early version of NIMBLE), Lauren Ponisio [ctb] (contributions to the cross-validation code), Peter Sujan [ctb] (multivariate t distribution code)
Maintainer: Christopher Paciorek <paciorek@stat.berkeley.edu>

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Package colorist updated to version 0.1.2 with previous version 0.1.1 dated 2020-08-13

Title: Coloring Wildlife Distributions in Space-Time
Description: Color and visualize wildlife distributions in space-time using raster data. In addition to enabling display of sequential change in distributions through the use of small multiples, 'colorist' provides functions for extracting several features of interest from a sequence of distributions and for visualizing those features using HCL (hue-chroma-luminance) color palettes. Resulting maps allow for "fair" visual comparison of intensity values (e.g., occurrence, abundance, or density) across space and time and can be used to address questions about where, when, and how consistently a species, group, or individual is likely to be found.
Author: Justin Schuetz [aut] (<https://orcid.org/0000-0002-6163-538X>), Matthew Strimas-Mackey [aut, cre] (<https://orcid.org/0000-0001-8929-7776>), Tom Auer [aut] (<https://orcid.org/0000-0001-8619-7147>)
Maintainer: Matthew Strimas-Mackey <mes335@cornell.edu>

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