Sun, 30 Aug 2020

Package ggalluvial updated to version 0.12.2 with previous version 0.12.1 dated 2020-08-10

Title: Alluvial Plots in 'ggplot2'
Description: Alluvial plots use variable-width ribbons and stacked bar plots to represent multi-dimensional or repeated-measures data with categorical or ordinal variables; see Riehmann, Hanfler, and Froehlich (2005) <doi:10.1109/INFVIS.2005.1532152> and Rosvall and Bergstrom (2010) <doi:10.1371/journal.pone.0008694>. Alluvial plots are statistical graphics in the sense of Wilkinson (2006) <doi:10.1007/0-387-28695-0>; they share elements with Sankey diagrams and parallel sets plots but are uniquely determined from the data and a small set of parameters. This package extends Wickham's (2010) <doi:10.1198/jcgs.2009.07098> layered grammar of graphics to generate alluvial plots from tidy data.
Author: Jason Cory Brunson [aut, cre]
Maintainer: Jason Cory Brunson <cornelioid@gmail.com>

Diff between ggalluvial versions 0.12.1 dated 2020-08-10 and 0.12.2 dated 2020-08-30

 DESCRIPTION                      |    8 ++++----
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 12 files changed, 119 insertions(+), 60 deletions(-)

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Package RcppCCTZ updated to version 0.2.9 with previous version 0.2.8 dated 2020-08-04

Title: 'Rcpp' Bindings for the 'CCTZ' Library
Description: 'Rcpp' Access to the 'CCTZ' timezone library is provided. 'CCTZ' is a C++ library for translating between absolute and civil times using the rules of a time zone. The 'CCTZ' source code, released under the Apache 2.0 License, is included in this package. See <https://github.com/google/cctz> for more details.
Author: Dirk Eddelbuettel
Maintainer: Dirk Eddelbuettel <edd@debian.org>

Diff between RcppCCTZ versions 0.2.8 dated 2020-08-04 and 0.2.9 dated 2020-08-30

 ChangeLog                     |   34 +++++++++++++++++++++++++++++++++-
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 12 files changed, 62 insertions(+), 32 deletions(-)

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Package soilassessment updated to version 0.2.1 with previous version 0.1.1 dated 2020-01-10

Title: Assessment Models for Agriculture Soil Conditions and Crop Suitability
Description: Soil assessment builds information for improved decision in soil management. It analyzes soil conditions with regard to agriculture crop suitability requirements [such as those given by FAO <http://www.fao.org/land-water/databases-and-software/crop-information/en/>] soil fertility classes, soil erosion models and soil salinity classification. Suitability requirements are for crops grouped into cereal crops, nuts, legumes, fruits, vegetables, industrial crops, and root crops.
Author: Christian Thine Omuto
Maintainer: Christian Thine Omuto <thineomuto@yahoo.com>

Diff between soilassessment versions 0.1.1 dated 2020-01-10 and 0.2.1 dated 2020-08-30

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Package sbtools updated to version 1.1.12 with previous version 1.1.11 dated 2020-04-20

Title: USGS ScienceBase Tools
Description: Tools for interacting with U.S. Geological Survey ScienceBase <https://www.sciencebase.gov> interfaces. ScienceBase is a data cataloging and collaborative data management platform. Functions included for querying ScienceBase, and creating and fetching datasets.
Author: David Blodgett [cre], Tim Kern [aut], Luke Winslow [aut], Scott Chamberlain [aut], Alison Appling [aut], Jordan Read [aut]
Maintainer: David Blodgett <dblodgett@usgs.gov>

Diff between sbtools versions 1.1.11 dated 2020-04-20 and 1.1.12 dated 2020-08-30

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 130 files changed, 5581 insertions(+), 5530 deletions(-)

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Package SWMPrExtension updated to version 1.1.6 with previous version 1.1.5 dated 2020-05-30

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

Diff between SWMPrExtension versions 1.1.5 dated 2020-05-30 and 1.1.6 dated 2020-08-30

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More information about SWMPrExtension at CRAN
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Package scorecard updated to version 0.3.1 with previous version 0.3.0 dated 2020-04-10

Title: Credit Risk Scorecard
Description: The `scorecard` package makes the development of credit risk scorecard easier and efficient by providing functions for some common tasks, such as data partition, variable selection, woe binning, scorecard scaling, performance evaluation and report generation. These functions can also used in the development of machine learning models. The references including: 1. Refaat, M. (2011, ISBN: 9781447511199). Credit Risk Scorecard: Development and Implementation Using SAS. 2. Siddiqi, N. (2006, ISBN: 9780471754510). Credit risk scorecards. Developing and Implementing Intelligent Credit Scoring.
Author: Shichen Xie [aut, cre]
Maintainer: Shichen Xie <xie@shichen.name>

Diff between scorecard versions 0.3.0 dated 2020-04-10 and 0.3.1 dated 2020-08-30

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Package saeME updated to version 1.2 with previous version 1.0.1 dated 2020-03-20

Title: Small Area Estimation with Measurement Error
Description: A set of functions and datasets implementation of small area estimation when auxiliary variable is measured with error. These functions provide a empirical best linear unbiased prediction (EBLUP) estimator and mean squared error (MSE) estimator of the EBLUP. These models were developed by Ybarra and Lohr (2008) <doi:10.1093/biomet/asn048>.
Author: Muhammad Rifqi Mubarak [aut, cre], Azka Ubaidillah [aut]
Maintainer: Muhammad Rifqi Mubarak <16.9304@stis.ac.id>

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Package RcppSMC updated to version 0.2.2 with previous version 0.2.1 dated 2018-03-18

Title: Rcpp Bindings for Sequential Monte Carlo
Description: R access to the Sequential Monte Carlo Template Classes by Johansen <doi:10.18637/jss.v030.i06> is provided. At present, four additional examples have been added, and the first example from the JSS paper has been extended. Further integration and extensions are planned.
Author: Dirk Eddelbuettel, Adam M. Johansen and Leah F. South
Maintainer: Dirk Eddelbuettel <edd@debian.org>

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Package ROI.plugin.glpk updated to version 1.0-0 with previous version 0.3-0 dated 2017-10-20

Title: 'ROI' Plug-in 'GLPK'
Description: Enhances the 'R' Optimization Infrastructure ('ROI') package by registering the free 'GLPK' solver. It allows for solving mixed integer linear programming ('MILP') problems as well as all variants/combinations of 'LP', 'IP'.
Author: Stefan Theussl [aut, cre]
Maintainer: Stefan Theussl <Stefan.Theussl@R-Project.org>

Diff between ROI.plugin.glpk versions 0.3-0 dated 2017-10-20 and 1.0-0 dated 2020-08-30

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Package ROI.plugin.ecos updated to version 1.0-0 with previous version 0.3-1 dated 2018-10-29

Title: 'ECOS' Plugin for the 'R' Optimization Infrastructure
Description: Enhances the 'R' Optimization Infrastructure ('ROI') package with the Embedded Conic Solver ('ECOS') for solving conic optimization problems.
Author: Florian Schwendinger [aut, cre]
Maintainer: Florian Schwendinger <FlorianSchwendinger@gmx.at>

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Package bit64 updated to version 4.0.5 with previous version 4.0.4 dated 2020-08-28

Title: A S3 Class for Vectors of 64bit Integers
Description: Package 'bit64' provides serializable S3 atomic 64bit (signed) integers. These are useful for handling database keys and exact counting in +-2^63. WARNING: do not use them as replacement for 32bit integers, integer64 are not supported for subscripting by R-core and they have different semantics when combined with double, e.g. integer64 + double => integer64. Class integer64 can be used in vectors, matrices, arrays and data.frames. Methods are available for coercion from and to logicals, integers, doubles, characters and factors as well as many elementwise and summary functions. Many fast algorithmic operations such as 'match' and 'order' support inter- active data exploration and manipulation and optionally leverage caching.
Author: Jens Oehlschlägel [aut, cre], Leonardo Silvestri [ctb]
Maintainer: Jens Oehlschlägel <Jens.Oehlschlaegel@truecluster.com>

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Package mizer updated to version 2.0.4 with previous version 2.0.3 dated 2020-07-28

Title: Multi-Species sIZE Spectrum Modelling in R
Description: A set of classes and methods to set up and run multi-species, trait based and community size spectrum ecological models, focused on the marine environment.
Author: Gustav Delius [cre, aut, cph] (<https://orcid.org/0000-0003-4092-8228>), Finlay Scott [aut, cph], Julia Blanchard [aut, cph] (<https://orcid.org/0000-0003-0532-4824>), Ken Andersen [aut, cph] (<https://orcid.org/0000-0002-8478-3430>), Richard Southwell [ctb, cph]
Maintainer: Gustav Delius <gustav.delius@york.ac.uk>

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Package mize updated to version 0.2.4 with previous version 0.2.3 dated 2019-12-05

Title: Unconstrained Numerical Optimization Algorithms
Description: Optimization algorithms implemented in R, including conjugate gradient (CG), Broyden-Fletcher-Goldfarb-Shanno (BFGS) and the limited memory BFGS (L-BFGS) methods. Most internal parameters can be set through the call interface. The solvers hold up quite well for higher-dimensional problems.
Author: James Melville [aut, cre]
Maintainer: James Melville <jlmelville@gmail.com>

Diff between mize versions 0.2.3 dated 2019-12-05 and 0.2.4 dated 2020-08-30

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Package ICEinfer updated to version 1.2 with previous version 1.1 dated 2018-06-24

Title: Incremental Cost-Effectiveness Inference using Two Unbiased Samples
Description: Given two unbiased samples of patient level data on cost and effectiveness for a pair of treatments, make head-to-head treatment comparisons by (i) generating the bivariate bootstrap resampling distribution of ICE uncertainty for a specified value of the shadow price of health, lambda, (ii) form the wedge-shaped ICE confidence region with specified confidence fraction within [0.50, 0.99] that is equivariant with respect to changes in lambda, (iii) color the bootstrap outcomes within the above confidence wedge with economic preferences from an ICE map with specified values of lambda, beta and gamma parameters, (iv) display VAGR and ALICE acceptability curves, and (v) illustrate variation in ICE preferences by displaying potentially non-linear indifference(iso-preference) curves from an ICE map with specified values of lambda, beta and either gamma or eta parameters.
Author: Bob Obenchain
Maintainer: Bob Obenchain <wizbob@att.net>

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Package chngpt updated to version 2020.8-29 with previous version 2020.5-21 dated 2020-05-22

Title: Estimation and Hypothesis Testing for Threshold Regression
Description: Threshold regression models are also called two-phase regression, broken-stick regression, split-point regression, structural change models, and regression kink models, with and without interaction terms. Methods for both continuous and discontinuous threshold models are included, but the support for the former is much greater. This package is described in Fong, Huang, Gilbert and Permar (2017) <DOI:10.1186/s12859-017-1863-x>.
Author: Youyi Fong [cre], Qianqian Chen [aut], Shuangcheng Hua [aut], Hyunju Son [aut], Adam Elder [aut], Tao Yang [aut], Zonglin He [aut]
Maintainer: Youyi Fong <youyifong@gmail.com>

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Package tidystats (with last version 0.4.1) was removed from CRAN

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

2020-06-15 0.4.1
2019-09-12 0.4
2019-01-02 0.3
2018-05-06 0.2
2017-10-29 0.1

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Package fedreporter (with last version 0.2.1) was removed from CRAN

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

2017-10-03 0.2.1

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Package gwsem updated to version 2.0.7 with previous version 2.0.5 dated 2020-06-14

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

Diff between gwsem versions 2.0.5 dated 2020-06-14 and 2.0.7 dated 2020-08-30

 gwsem-2.0.5/gwsem/build/vignette.rds              |only
 gwsem-2.0.5/gwsem/inst/doc                        |only
 gwsem-2.0.5/gwsem/vignettes                       |only
 gwsem-2.0.7/gwsem/DESCRIPTION                     |   13 -
 gwsem-2.0.7/gwsem/MD5                             |   90 ++-----
 gwsem-2.0.7/gwsem/NAMESPACE                       |    5 
 gwsem-2.0.7/gwsem/R/model.R                       |  100 +++++---
 gwsem-2.0.7/gwsem/R/report.R                      |  261 +++++++++++-----------
 gwsem-2.0.7/gwsem/README.md                       |    6 
 gwsem-2.0.7/gwsem/build/gwsem.pdf                 |binary
 gwsem-2.0.7/gwsem/man/GWAS.Rd                     |   12 -
 gwsem-2.0.7/gwsem/man/buildItem.Rd                |    5 
 gwsem-2.0.7/gwsem/man/buildOneFac.Rd              |    5 
 gwsem-2.0.7/gwsem/man/buildOneFacRes.Rd           |    5 
 gwsem-2.0.7/gwsem/man/buildTwoFac.Rd              |    5 
 gwsem-2.0.7/gwsem/man/isSuspicious.Rd             |   27 --
 gwsem-2.0.7/gwsem/man/loadResults.Rd              |   31 --
 gwsem-2.0.7/gwsem/man/loadSuspicious.Rd           |   14 -
 gwsem-2.0.7/gwsem/man/plot.gwsemResult.Rd         |    3 
 gwsem-2.0.7/gwsem/man/prepareComputePlan.Rd       |    5 
 gwsem-2.0.7/gwsem/man/signif.Rd                   |only
 gwsem-2.0.7/gwsem/man/signifGxE.Rd                |only
 gwsem-2.0.7/gwsem/src/LoadDataAPI.h               |   39 +--
 gwsem-2.0.7/gwsem/src/loader.cpp                  |  160 +++++++------
 gwsem-2.0.7/gwsem/src/openmx.h                    |   39 +++
 gwsem-2.0.7/gwsem/tests/testthat/test-covariate.R |   61 +++--
 gwsem-2.0.7/gwsem/tests/testthat/test-formats.R   |   18 -
 gwsem-2.0.7/gwsem/tests/testthat/test-gxe.R       |   13 -
 gwsem-2.0.7/gwsem/tests/testthat/test-model.R     |   13 -
 gwsem-2.0.7/gwsem/tests/testthat/test-rowFilter.R |only
 gwsem-2.0.7/gwsem/tools/test                      |    2 
 gwsem-2.0.7/gwsem/tools/travis/install-linux      |   24 +-
 gwsem-2.0.7/gwsem/tools/vignetter                 |    4 
 33 files changed, 535 insertions(+), 425 deletions(-)

More information about gwsem at CRAN
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