Sun, 14 Oct 2018

Package paran updated to version 1.5.2 with previous version 1.5.1 dated 2012-09-10

Title: Horn's Test of Principal Components/Factors
Description: An implementation of Horn's technique for numerically and graphically evaluating the components or factors retained in a principle components analysis (PCA) or common factor analysis (FA). Horn's method contrasts eigenvalues produced through a PCA or FA on a number of random data sets of uncorrelated variables with the same number of variables and observations as the experimental or observational data set to produce eigenvalues for components or factors that are adjusted for the sample error-induced inflation. Components with adjusted eigenvalues greater than one are retained. paran may also be used to conduct parallel analysis following Glorfeld's (1995) suggestions to reduce the likelihood of over-retention.
Author: Alexis Dinno <>
Maintainer: Alexis Dinno <>

Diff between paran versions 1.5.1 dated 2012-09-10 and 1.5.2 dated 2018-10-14

 paran-1.5.1/paran/paran-Ex.R   |only
 paran-1.5.2/paran/DESCRIPTION  |   31 ++++++++++---------------------
 paran-1.5.2/paran/MD5          |    9 ++++-----
 paran-1.5.2/paran/NAMESPACE    |    9 ++++++---
 paran-1.5.2/paran/R/paran.R    |    3 +--
 paran-1.5.2/paran/man/paran.Rd |    8 ++++----
 6 files changed, 25 insertions(+), 35 deletions(-)

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Package analytics updated to version 3.0 with previous version 2.0 dated 2017-06-14

Title: Regression Outlier Detection, Stationary Bootstrap, Testing Weak Stationarity, NA Imputation, and Other Tools for Data Analysis
Description: Current version includes outlier detection in a fitted linear model, stationary bootstrap using a truncated geometric distribution, a comprehensive test for weak stationarity, missing value imputation, column/rows sums/means by group, weighted biplots, and a heuristic to obtain a better initial configuration in non-metric MDS.
Author: Albert Dorador
Maintainer: Albert Dorador <>

Diff between analytics versions 2.0 dated 2017-06-14 and 3.0 dated 2018-10-14

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 analytics-3.0/analytics/R/tgsbootV1.R            |   13 +-
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 analytics-3.0/analytics/man/rowmean.Rd           |   35 +++--
 analytics-3.0/analytics/man/weakly.stationary.Rd |    8 +
 16 files changed, 140 insertions(+), 102 deletions(-)

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Package sjPlot updated to version 2.6.1 with previous version 2.6.0 dated 2018-08-23

Title: Data Visualization for Statistics in Social Science
Description: Collection of plotting and table output functions for data visualization. Results of various statistical analyses (that are commonly used in social sciences) can be visualized using this package, including simple and cross tabulated frequencies, histograms, box plots, (generalized) linear models, mixed effects models, principal component analysis and correlation matrices, cluster analyses, scatter plots, stacked scales, effects plots of regression models (including interaction terms) and much more. This package supports labelled data.
Author: Daniel Lüdecke [aut, cre] (<>), Carsten Schwemmer [ctb]
Maintainer: Daniel Lüdecke <>

Diff between sjPlot versions 2.6.0 dated 2018-08-23 and 2.6.1 dated 2018-10-14

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 sjPlot-2.6.1/sjPlot/R/html_print.R                       |   10 
 sjPlot-2.6.1/sjPlot/R/plot_diag_linear.R                 |   27 +
 sjPlot-2.6.1/sjPlot/R/plot_diag_stan.R                   |   11 
 sjPlot-2.6.1/sjPlot/R/plot_gpt.R                         |    2 
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 sjPlot-2.6.1/sjPlot/R/plot_scatter.R                     |    1 
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 sjPlot-2.6.1/sjPlot/build/partial.rdb                    |binary
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 sjPlot-2.6.1/sjPlot/inst/doc/tab_mixed.html              |   13 
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 sjPlot-2.6.1/sjPlot/inst/doc/table_css.html              |   28 +-
 sjPlot-2.6.1/sjPlot/man/plot_gpt.Rd                      |    2 
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 sjPlot-2.6.1/sjPlot/man/sjp.aov1.Rd                      |    2 
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 sjPlot-2.6.1/sjPlot/tests/testthat.R                     |    4 
 sjPlot-2.6.1/sjPlot/tests/testthat/test-plot_model_std.R |  129 ++++++---
 sjPlot-2.6.1/sjPlot/tests/testthat/test-sjp_grpfrq.R     |  109 ++++---
 sjPlot-2.6.1/sjPlot/tests/testthat/test-tab_model.R      |  127 ++++++---
 sjPlot-2.6.1/sjPlot/vignettes/plot_marginal_effects.Rmd  |   18 +
 sjPlot-2.6.1/sjPlot/vignettes/tab_bayes.Rmd              |    4 
 58 files changed, 864 insertions(+), 597 deletions(-)

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Package wTO updated to version 1.6.2 with previous version 1.6.1 dated 2018-06-28

Title: Computing Weighted Topological Overlaps (wTO) & Consensus wTO Network
Description: Computes the Weighted Topological Overlap with positive and negative signs (wTO) networks given a data frame containing the mRNA count/ expression/ abundance per sample, and a vector containing the interested nodes of interaction (a subset of the elements of the full data frame). It also computes the cut-off threshold or p-value based on the individuals bootstrap or the values reshuffle per individual. It also allows the construction of a consensus network, based on multiple wTO networks. The package includes a visualization tool for the networks. More about the methodology can be found at <arXiv:1711.04702>.
Author: Deisy Morselli Gysi, Andre Voigt, Tiago Miranda Fragoso, Eivind Almaas and Katja Nowick.
Maintainer: Deisy Morselli Gysi <>

Diff between wTO versions 1.6.1 dated 2018-06-28 and 1.6.2 dated 2018-10-14

 DESCRIPTION               |    8 ++++----
 MD5                       |   12 ++++++++----
 NAMESPACE                 |    1 +
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 inst/doc/wTOvignette.html |    4 ++--
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 9 files changed, 18 insertions(+), 12 deletions(-)

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Package GetDFPData updated to version 1.2 with previous version 1.0 dated 2018-08-28

Title: Reading Annual Financial Reports from Bovespa's DFP, FRE and FCA System
Description: Reads annual financial reports including assets, liabilities, dividends history, stockholder composition and much more from Bovespa's DFP, FRE and FCA systems <>. These are web based interfaces for all financial reports of companies traded at Bovespa. The package is specially designed for large scale data importation, keeping a tabular (long) structure for easier processing.
Author: Marcelo Perlin [aut, cre]
Maintainer: Marcelo Perlin <>

Diff between GetDFPData versions 1.0 dated 2018-08-28 and 1.2 dated 2018-10-14

 DESCRIPTION                               |    8 ++++----
 MD5                                       |   10 +++++-----                                   |    8 ++++++++
 R/gdfpd_read_dfp_zip_file.R               |   16 ++++++++++------
 R/gdfpd_read_fre_zip_file.R               |   15 ++++++++++++++-
 inst/doc/gdfpd-vignette-introduction.html |    4 ++--
 6 files changed, 43 insertions(+), 18 deletions(-)

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New package SAVER with initial version 1.1.1
Package: SAVER
Type: Package
Version: 1.1.1
Title: Single-Cell RNA-Seq Gene Expression Recovery
Description: An implementation of a regularized regression prediction and empirical Bayes method to recover the true gene expression profile in noisy and sparse single-cell RNA-seq data. See Huang M, et al (2018) <doi:10.1038/s41592-018-0033-z> for more details.
Authors@R: c( person("Mo", "Huang", email = "", role = c("aut", "cre")), person("Nancy", "Zhang", email = "", role = "aut"), person("Mingyao", "Li", email = "", role = "aut") )
Maintainer: Mo Huang <>
License: GPL-2
Encoding: UTF-8
LazyData: true
Depends: R (>= 3.0.1)
Imports: glmnet, foreach, methods, iterators, doParallel, Matrix
RoxygenNote: 6.1.0
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2018-09-27 18:16:18 UTC; mohuang
Author: Mo Huang [aut, cre], Nancy Zhang [aut], Mingyao Li [aut]
Repository: CRAN
Date/Publication: 2018-10-14 17:20:10 UTC

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New package rocsvm.path with initial version 0.1.0
Package: rocsvm.path
Type: Package
Title: The Entire Solution Paths for ROC-SVM
Version: 0.1.0
Authors@R: c(person("Seung Jun", "Shin", email = "", role = c("aut","cre")),person("Do Hyun", "Kim", email = "", role = c("aut")))
Description: We develop the entire solution paths for ROC-SVM presented by Rakotomamonjy. The ROC-SVM solution path algorithm greatly facilitates the tuning procedure for regularization parameter, lambda in ROC-SVM by avoiding grid search algorithm which may be computationally too intensive. For more information on the ROC-SVM, see the report in the ROC Analysis in AI workshop(ROCAI-2004) : Hernàndez-Orallo, José, et al. (2004) <doi:10.1145/1046456.1046489>.
Imports: quadprog, svmpath
Depends: R (>= 3.4.0)
License: GPL-2
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.0.1
NeedsCompilation: no
Maintainer: Seung Jun Shin <>
Packaged: 2018-10-07 00:50:22 UTC; KimDoHyun
Author: Seung Jun Shin [aut, cre], Do Hyun Kim [aut]
Repository: CRAN
Date/Publication: 2018-10-14 17:30:03 UTC

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New package PDFEstimator with initial version 0.1-0
Package: PDFEstimator
Version: 0.1-0
Date: 2018-09-24
Title: Nonparametric Probability Density Estimator
Author: Jenny Farmer <> and Donald Jacobs <djacobs1@uncc.ecu>
Maintainer: Jenny Farmer <>
Description: A nonparametric density estimator based on the maximum-entropy method. Accurately predicts a probability density function (PDF) for random data using a novel iterative scoring function to determine the best fit without overfitting to the sample.
License: GPL (>= 2)
NeedsCompilation: yes
Packaged: 2018-10-05 15:04:11 UTC; jenny
Repository: CRAN
Date/Publication: 2018-10-14 17:20:15 UTC

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New package nvmix with initial version 0.0-1
Package: nvmix
Version: 0.0-1
Encoding: UTF-8
Title: Multivariate Normal Variance Mixtures (Including Student's t Distribution for Non-Integer Degrees of Freedom)
Description: Functions for working with multivariate normal variance mixture distributions including evaluating their distribution functions, densities and random number generation.
Authors@R: c(person(given = "Marius", family = "Hofert", role = c("aut", "cre"), email = ""), person(given = "Erik", family = "Hintz", role = "aut", email = ""), person(given = "Christiane", family = "Lemieux", role = "aut", email = ""))
Author: Marius Hofert [aut, cre], Erik Hintz [aut], Christiane Lemieux [aut]
Maintainer: Marius Hofert <>
Depends: R (>= 3.2.0)
Imports: stats, methods, qrng
Suggests: knitr, RColorBrewer, lattice
License: GPL (>= 3) | file LICENCE
NeedsCompilation: yes
VignetteBuilder: knitr
Repository: CRAN
Date/Publication: 2018-10-14 17:20:03 UTC
Packaged: 2018-10-07 15:58:51 UTC; mhofert

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New package nprotreg with initial version 1.0.0
Package: nprotreg
Title: Nonparametric Rotations for Sphere-Sphere Regression
Version: 1.0.0
Authors@R: c( person(c("Charles","C."), "Taylor", email = "", role = c("aut")), person("Giovanni", "Lafratta", email = "", role = c("aut", "cre")), person("Stefania", "Fensore", email = "", role = c("aut")))
Description: Fits sphere-sphere regression models by estimating locally weighted rotations. Simulation of sphere-sphere data according to non-rigid rotation models. Provides methods for bias reduction applying iterative procedures within a Newton-Raphson learning scheme. Cross-validation is exploited to select smoothing parameters. See Marco Di Marzio, Agnese Panzera & Charles C. Taylor (2018) <doi:10.1080/01621459.2017.1421542>.
Depends: R (>= 3.3.0)
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
RoxygenNote: 5.0.1
Suggests: testthat
Imports: methods, expm, stats
NeedsCompilation: no
Packaged: 2018-10-05 11:52:07 UTC; giova
Author: Charles C. Taylor [aut], Giovanni Lafratta [aut, cre], Stefania Fensore [aut]
Maintainer: Giovanni Lafratta <>
Repository: CRAN
Date/Publication: 2018-10-14 17:20:06 UTC

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New package Immigrate with initial version 0.0.1
Package: Immigrate
Title: Iterative Max-Min Entropy Margin-Maximization with Interaction Terms for Feature Selection
Version: 0.0.1
Author: Ruzhang Zhao, Pengyu Hong, Jun S. Liu
Description: Based on large margin principle, this package performs feature selection methods: "IM4E"(Iterative Margin-Maximization under Max-Min Entropy Algorithm); "imIM4E"(imbalance Iterative Margin-Maximization under Max-Min Entropy Algorithm); "Immigrate"(Iterative Max-Min Entropy Margin-Maximization with Interaction Terms Algorithm); "Simba"(Iterative Search Margin Based Algorithm); "LFE"(Local Feature Extraction Algorithm). This package also performs prediction for the above feature selection methods.
Maintainer: Ruzhang Zhao<>
Depends: R (>= 3.0.0)
License: GPL (>= 2)
Encoding: UTF-8
LazyData: true
LinkingTo: Rcpp
Imports: Rcpp, pROC
NeedsCompilation: yes
Packaged: 2018-10-06 13:06:38 UTC; zhaoruzhang
Repository: CRAN
Date/Publication: 2018-10-14 17:20:18 UTC

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Package fuzzyreg updated to version 0.4 with previous version 0.3 dated 2018-06-07

Title: Fuzzy Linear Regression
Description: Estimators for fuzzy linear regression. The functions estimate parameters of fuzzy linear regression models with crisp or fuzzy independent variables (triangular fuzzy numbers are supported). Implements multiple methods for parameter estimation and algebraic operations with triangular fuzzy numbers. Includes functions for summarising, printing and plotting the model fit. Calculates predictions from the model and total error of fit. Diamond (1988) <doi:10.1016/0020-0255(88)90047-3>, Hung & Yang (2006) <doi:10.1016/j.fss.2006.08.004>, Lee & Tanaka (1999) <doi:10.15807/jorsj.42.98>, Nasrabadi, Nasrabadi & Nasrabady (2005) <doi:10.1016/j.amc.2004.02.008>, Tanaka, Hayashi & Watada (1989) <doi:10.1016/0377-2217(89)90431-1>.
Author: Pavel Skrabanek [aut, cph], Natalia Martinkova [aut, cre, cph]
Maintainer: Natalia Martinkova <>

Diff between fuzzyreg versions 0.3 dated 2018-06-07 and 0.4 dated 2018-10-14

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 MD5                          |   66 ++++++++------
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 36 files changed, 1083 insertions(+), 1039 deletions(-)

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New package classyfireR with initial version 0.1.1
Package: classyfireR
Type: Package
Title: R Interface to the ClassyFire RESTful API
Version: 0.1.1
Date: 2018-10-05
Authors@R: c( person("Tom", "Wilson", , "", c("aut", "cre")))
Description: Access to the ClassyFire RESTful API <>. Retrieve existing entity classifications and submit new entities for classification.
Depends: magrittr
Imports: httr, jsonlite, tibble, crayon, clisymbols
Suggests: testthat, covr, dplyr, purrr, tidyr
License: GPL (>= 3)
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.0
NeedsCompilation: no
Packaged: 2018-10-05 10:03:50 UTC; tom
Author: Tom Wilson [aut, cre]
Maintainer: Tom Wilson <>
Repository: CRAN
Date/Publication: 2018-10-14 17:10:02 UTC

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New package carbonate with initial version 0.1.0
Package: carbonate
Title: Interact with 'carbon.js'
Version: 0.1.0
Authors@R: person(given = "Jonathan", family = "Sidi", email = "", role = c("aut", "cre"), comment = c(ORCID = "0000-0002-4222-1819"))
Description: Create beautiful images of source code using 'carbon.js'<>.
Depends: R (>= 3.2.0)
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.0
Imports: R6, clipr, magick, wdman, RSelenium, utils, httr, rtweet, yaml
Suggests: testthat, covr, knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2018-10-05 15:43:20 UTC; yonis
Author: Jonathan Sidi [aut, cre] (<>)
Maintainer: Jonathan Sidi <>
Repository: CRAN
Date/Publication: 2018-10-14 17:10:05 UTC

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New package ssdtools with initial version 0.0.2
Package: ssdtools
Version: 0.0.2
Date: 2018-10-04
Title: Species Sensitivity Distributions
Description: Fits and plots species sensitivity distributions using maximum likelihood and information-theoretic-based model averaging.
Authors@R: c( person("Joe", "Thorley", email = "", role = c("aut", "cre", "ctr"), comment = c(ORCID = "0000-0002-7683-4592")), person("Carl", "Schwarz", role = c("aut", "ctr")), person("Ali", "Azizishirazi", email = "", role = "ctb"), person("Angeline", "Tillmanns", role = "ctb"), person("Stephanie", "Hazlitt", role = "ctb"), person("Province of British Columbia", role = "cph") )
License: Apache License (== 2.0) | file LICENSE
Depends: R (>= 3.4.0), graphics, stats, VGAM, ggplot2, fitdistrplus
Imports: actuar, checkr, dplyr, FAdist, grid, magrittr, plyr, pryr, purrr, tibble, scales
Suggests: covr, knitr, rmarkdown, testthat
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.0
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2018-10-05 02:20:52 UTC; joe
Author: Joe Thorley [aut, cre, ctr] (<>), Carl Schwarz [aut, ctr], Ali Azizishirazi [ctb], Angeline Tillmanns [ctb], Stephanie Hazlitt [ctb], Province of British Columbia [cph]
Maintainer: Joe Thorley <>
Repository: CRAN
Date/Publication: 2018-10-14 16:50:03 UTC

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New package scoper with initial version 0.1.0
Package: scoper
Type: Package
Version: 0.1.0
Date: 2018-10-04
Authors@R: c(person("Nima", "Nouri", role=c("aut", "cre"), email=""), person("Jason", "Vander Heiden", role=c("ctb"), email=""), person("Steven", "Kleinstein", role=c("aut", "cph"), email=""))
Title: Spectral Clustering-Based Method for Identifying B Cell Clones
Description: Provides a computational framework for unsupervised identification B cell clones from adaptive immune receptor repertoire sequencing (AIRR-Seq) datasets. This method is based on spectral clustering of the junction sequences of B cell receptors (BCRs, also referred to as Immunoglobulins, (Igs)) that share the same V gene, J gene and junction length.
License: CC BY-SA 4.0
LazyData: true
BuildVignettes: true
VignetteBuilder: knitr
Encoding: UTF-8
Depends: R (>= 3.1.2), ggplot2 (>= 2.0.0)
Imports: alakazam (>= 0.2.11), shazam (>= 0.1.10), doParallel, foreach, dplyr (>= 0.7.0), stringi, methods, stats, iterators, lazyeval
Suggests: knitr, rmarkdown, testthat
RoxygenNote: 6.1.0
Collate: 'Data.R' 'Scoper.R' 'Functions.R'
NeedsCompilation: no
Packaged: 2018-10-04 20:58:03 UTC; nima
Author: Nima Nouri [aut, cre], Jason Vander Heiden [ctb], Steven Kleinstein [aut, cph]
Maintainer: Nima Nouri <>
Repository: CRAN
Date/Publication: 2018-10-14 17:00:03 UTC

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New package pubchunks with initial version 0.1.0
Package: pubchunks
Title: Fetch Sections of XML Scholarly Articles
Description: Get chunks of XML scholarly articles without having to know how to work with XML. Custom mappers for each publisher and for each article section pull out the information you want. Works with outputs from package 'fulltext', 'xml2' package documents, and file paths to XML documents.
Version: 0.1.0
License: MIT + file LICENSE
Authors@R: c( person("Scott", "Chamberlain", role = c("aut", "cre"), email = "", comment = c(ORCID = "0000-0003-1444-9135")) )
Encoding: UTF-8
Language: en-US
Imports: xml2 (>= 1.1.1), data.table
Suggests: fulltext (>= 1.0.1), testthat
RoxygenNote: 6.1.0 Literature text-ming, literature, pdf, xml, publications, citations, full-text, TDM
NeedsCompilation: no
Packaged: 2018-10-04 20:07:53 UTC; sckott
Author: Scott Chamberlain [aut, cre] (<>)
Maintainer: Scott Chamberlain <>
Repository: CRAN
Date/Publication: 2018-10-14 16:50:07 UTC

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New package Omisc with initial version 0.1.0
Package: Omisc
Type: Package
Title: Univariate Bootstrapping and Other Things
Version: 0.1.0
Author: Patrick O'Keefe
Maintainer: Patrick O'Keefe <>
Description: Primarily devoted to implementing the Univariate Bootstrap (as well as the Traditional Bootstrap). In addition there are multiple functions for DeFries-Fulker behavioral genetics models. The univariate bootstrapping functions, DeFries-Fulker functions, regression and traditional bootstrapping functions form the original core. Additional features may come online later, however this software is a work in progress. For more information about univariate bootstrapping see: Lee and Rodgers (1998) and Beasley et al (2007) <>.
License: GPL-3
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.0.1
Imports: MASS, base, stats, psych
Suggests: lavaan
NeedsCompilation: no
Packaged: 2018-10-04 14:37:12 UTC; Patrick
Repository: CRAN
Date/Publication: 2018-10-14 16:50:12 UTC

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New package nasapower with initial version 1.0.1
Package: nasapower
Type: Package
Title: 'NASA' 'POWER' 'API' Client
Version: 1.0.1
Authors@R: c( person("Adam H.", "Sparks", role = c("aut", "cre"), email = "", comment = c(ORCID = "0000-0002-0061-8359")), person("Scott", "Chamberlain", role = "rev", email = "", comment = c(ORCID = "0000-0003-1444-9135")), person("Hazel", "Kavili", role = "rev"), person("Alison", "Boyer", role = "rev"))
Description: Client for 'NASA' 'POWER' global meteorology, surface solar energy and climatology data 'API'. 'POWER' (Prediction Of Worldwide Energy Resource) data are freely available global meteorology and surface solar energy climatology data for download with a resolution of 0.5 by 0.5 arc degree longitude and latitude and are funded through the 'NASA' Earth Science Directorate Applied Science Program. For more on the data themselves and a web-based data viewer and access, please see <>.
Depends: R (>= 3.2.0)
License: MIT + file LICENSE
Imports: APSIM, crul, curl, dplyr, lubridate, jsonlite, readr, tibble, utils
RoxygenNote: 6.1.0
Encoding: UTF-8
NeedsCompilation: no
Repository: CRAN
LazyData: TRUE
ByteCompile: TRUE
Suggests: covr, ggplot2, knitr, raster, rmarkdown, testthat, vcr
VignetteBuilder: knitr Tools NASA, meteorological-data, weather, global, weather, weather-data, meteorology, NASA-POWER, agroclimatology, earth-science, data-access
Packaged: 2018-10-04 08:49:44 UTC; adamsparks
Author: Adam H. Sparks [aut, cre] (<>), Scott Chamberlain [rev] (<>), Hazel Kavili [rev], Alison Boyer [rev]
Maintainer: Adam H. Sparks <>
Date/Publication: 2018-10-14 16:10:03 UTC

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New package jsonify with initial version 0.1.1
Package: jsonify
Type: Package
Title: Converts 'R' Objects to Javascript Object Notation (JSON)
Version: 0.1.1
Date: 2018-10-04
Authors@R: c( person("David", "Cooley", ,"", role = c("aut", "cre")) )
Description: Converts 'R' objects into Javascript Object Notation (JSON) using the 'rapidjsonr' library <>.
License: GPL (>= 2)
Imports: Rcpp (>= 0.12.18), rapidjsonr
LinkingTo: Rcpp, rapidjsonr
RoxygenNote: 6.1.0
Suggests: microbenchmark, jsonlite, testthat, covr
Encoding: UTF-8
NeedsCompilation: yes
Packaged: 2018-10-10 08:04:35 UTC; dave
Author: David Cooley [aut, cre]
Maintainer: David Cooley <>
Repository: CRAN
Date/Publication: 2018-10-14 16:20:03 UTC

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New package jjb with initial version 0.1.0
Package: jjb
Type: Package
Title: Balamuta Miscellaneous
Version: 0.1.0
Authors@R: c( person("James", "Balamuta", email = "", role = c("aut", "cre", "cph"), comment = c(ORCID = "0000-0003-2826-8458")) )
License: GPL (>= 2)
Description: Set of common functions used for manipulating colors, detecting and interacting with 'RStudio', modeling, formatting, determining users' operating system, feature scaling, and more!
RoxygenNote: 6.1.0
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2018-10-04 04:07:45 UTC; ronin
Author: James Balamuta [aut, cre, cph] (<>)
Maintainer: James Balamuta <>
Repository: CRAN
Date/Publication: 2018-10-14 16:30:02 UTC

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New package imputeR with initial version 2.1
Package: imputeR
Title: A General Multivariate Imputation Framework
Version: 2.1
Date: 2018-10-05
Authors@R: c( person("Steffen", "Moritz", email="", role=c("aut", "cre"), comment = c(ORCID = "0000-0002-0085-1804")),person("Lingbing", "Feng", role=c("aut")),person("Gen", "Nowak", role=c("ctb")),person("Alan. H.", "Welsh", role=c("ctb")),person("Terry. J.", "O'Neill", role=c("ctb")) )
Author: Steffen Moritz [aut, cre] (<>), Lingbing Feng [aut], Gen Nowak [ctb], Alan. H. Welsh [ctb], Terry. J. O'Neill [ctb]
Maintainer: Steffen Moritz <>
Description: Multivariate Expectation-Maximization (EM) based imputation framework that offers several different algorithms. These include regularisation methods like Lasso and Ridge regression, tree-based models and dimensionality reduction methods like PCA and PLS.
LazyData: yes
Type: Package
ByteCompile: TRUE
Repository: CRAN
Depends: R (>= 3.1.0),
Imports: stats, utils, graphics, reshape2
Suggests: testthat, rda, caret, glmnet, pls, Cubist, ridge, gbm, mboost, rpart, earth
License: GPL-3
RoxygenNote: 6.0.1
NeedsCompilation: no
Packaged: 2018-10-05 02:53:04 UTC; Steve
Date/Publication: 2018-10-14 16:40:02 UTC

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New package EZtune with initial version 1.0.0
Package: EZtune
Type: Package
Title: Tunes AdaBoost, Support Vector Machines, and Gradient Boosting Machines
Version: 1.0.0
Authors@R: person("Jill", "Lundell", email = "", role = c("aut", "cre"))
Maintainer: Jill Lundell <>
Description: Contains two functions that are intended to make tuning supervised learning methods easy. The eztune function uses a genetic algorithm or quasi-Newton-Raphson 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 resubstitution or cross-validation. The function will compute a cross-validated error rate. The purpose of is to provide a cross-validated accuracy when resubstitution is used for optimization because resubstitution typically produces an accuracy that is too high.
Depends: R (>= 3.1.0)
Imports: ada, e1071, GA, gbm, mlbench, parallel, doParallel
License: GPL-3
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.0
NeedsCompilation: no
Packaged: 2018-10-05 07:03:07 UTC; jflun
Author: Jill Lundell [aut, cre]
Repository: CRAN
Date/Publication: 2018-10-14 16:50:17 UTC

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Package vimp updated to version 1.1.4 with previous version 1.1.3 dated 2018-10-02

Title: Nonparametric Variable Importance
Description: Calculate point estimates of and valid confidence intervals for nonparametric variable importance measures in high and low dimensions, using flexible estimators of the underlying regression functions. For more information about the methods, please see Williamson et al. (2017) <>.
Author: Brian D. Williamson [aut, cre], Noah Simon [aut], Marco Carone [aut]
Maintainer: Brian D. Williamson <>

Diff between vimp versions 1.1.3 dated 2018-10-02 and 1.1.4 dated 2018-10-14

 DESCRIPTION                        |    6 +++---
 MD5                                |   14 +++++++-------
 R/average_vim.R                    |    1 +
 R/cv_vim.R                         |    4 +++-
 R/cv_vim_nodonsker.R               |    4 +++-
 inst/doc/introduction_to_vimp.html |   12 ++++++------
 man/cv_vim.Rd                      |    1 +
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 8 files changed, 25 insertions(+), 18 deletions(-)

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New package trelliscopejs with initial version 0.1.14
Package: trelliscopejs
Title: Create Interactive Trelliscope Displays
Version: 0.1.14
Authors@R: c( person("Ryan", "Hafen", email = "", role = c("aut", "cre")), person("Barret", "Schloerke", email = "", role = "aut") )
Description: Trelliscope is a scalable, flexible, interactive approach to visualizing data (Hafen, 2013 <doi:10.1109/LDAV.2013.6675164>). This package provides methods that make it easy to create a Trelliscope display specification for TrelliscopeJS. High-level functions are provided for creating displays from within 'dplyr' or 'ggplot2' workflows. Low-level functions are also provided for creating new interfaces.
Depends: R (>= 3.4.0)
License: BSD_3_clause + file LICENSE
Encoding: UTF-8
LazyData: true
Imports: dplyr, purrr, tidyr, grid, htmltools, DistributionUtils, grDevices, gtable, digest, jsonlite, ggplot2 (> 2.1.0), base64enc, htmlwidgets, graphics, progress, utils, knitr, webshot, autocogs, rlang
Suggests: rbokeh, plotly, Cairo, testthat, covr, gapminder, housingData, packagedocs
RoxygenNote: 6.1.0
VignetteBuilder: packagedocs
NeedsCompilation: no
Packaged: 2018-10-02 21:06:14 UTC; hafen
Author: Ryan Hafen [aut, cre], Barret Schloerke [aut]
Maintainer: Ryan Hafen <>
Repository: CRAN
Date/Publication: 2018-10-14 15:30:03 UTC

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New package ppgmmga with initial version 1.0
Package: ppgmmga
Version: 1.0
Date: 2018-10-02
Title: Projection Pursuit Based on Gaussian Mixtures and Evolutionary Algorithms
Description: Projection Pursuit (PP) algorithm for dimension reduction based on Gaussian Mixture Models (GMMs) for density estimation using Genetic Algorithms (GAs) to maximise an approximated negentropy index.
Authors@R: c(person("Alessio", "Serafini", role = c("aut", "cre"), comment = c(ORCID = "0000-0002-8579-5695"), email = ""), person("Luca", "Scrucca", role = c("aut"), comment = c(ORCID = "0000-0003-3826-0484"), email = ""))
Depends: R (>= 3.4)
Imports: Rcpp (>= 0.12.5), mclust (>= 5.0), GA (>= 3.1), ggplot2 (>= 2.2.1), ggthemes (>= 3.4.0), cli, crayon
LinkingTo: Rcpp, RcppArmadillo (>= 0.7)
Suggests: knitr (>= 1.8)
License: GPL (>= 2)
VignetteBuilder: knitr
ByteCompile: true
Repository: CRAN
NeedsCompilation: yes
LazyLoad: yes
Encoding: UTF-8
Packaged: 2018-10-02 11:15:28 UTC; alessioserafini
Author: Alessio Serafini [aut, cre] (<>), Luca Scrucca [aut] (<>)
Maintainer: Alessio Serafini <>
Date/Publication: 2018-10-14 15:30:08 UTC

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New package MLGL with initial version 0.5
Package: MLGL
Type: Package
Title: Multi-Layer Group-Lasso
Version: 0.5
Date: 2018-09-24
Authors@R: c(person("Quentin", "Grimonprez", role = c("aut", "cre"), email = ""), person("Samuel", "Blanck", role = "ctb"), person("Alain", "Celisse", role = "ths"), person("Guillemette", "Marot", role = "ths"), person("Yi","Yang", role = "ctb"), person("Hui","Zou", role = "ctb"))
Copyright: Inria
Description: It implements a new procedure of variable selection in the context of redundancy between explanatory variables, which holds true with high dimensional data (Grimonprez et al. (2018) <>).
License: GPL (>= 2)
Imports: gglasso, MASS, Matrix, fastcluster, FactoMineR
RoxygenNote: 6.1.0
Encoding: UTF-8
Author: Quentin Grimonprez [aut, cre], Samuel Blanck [ctb], Alain Celisse [ths], Guillemette Marot [ths], Yi Yang [ctb], Hui Zou [ctb]
Maintainer: Quentin Grimonprez <>
Repository: CRAN
Repository/R-Forge/Project: hcgglasso
Repository/R-Forge/Revision: 33
Repository/R-Forge/DateTimeStamp: 2018-10-03 07:11:50
Date/Publication: 2018-10-14 15:50:04 UTC
NeedsCompilation: no
Packaged: 2018-10-03 07:30:09 UTC; rforge

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New package MachineShop with initial version 0.1-1
Package: MachineShop
Type: Package
Title: Machine Learning Models and Tools
Version: 0.1-1
Date: 2018-10-02
Authors@R: person("Brian J", "Smith", email = "", role = c("aut", "cre"))
Author: Brian J Smith [aut, cre]
Maintainer: Brian J Smith <>
Description: Meta-package for statistical and machine learning with a common interface for model fitting, prediction, performance assessment, and presentation of results. Supports predictive modeling of numerical, categorical, and censored time-to-event outcomes and resample (bootstrap and cross-validation) estimation of model performance.
Imports: abind, foreach, ggplot2, Hmisc, irr, kernlab, magrittr, methods, MLmetrics, ModelMetrics, party, recipes, rsample, survival, survivalROC, utils
Suggests: C50, doParallel, gbm, glmnet, kableExtra, knitr, MASS, nnet, pls, randomForest, rmarkdown, rms, testthat
License: GPL-3
RoxygenNote: 6.1.0
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2018-10-02 19:09:28 UTC; bjsmith
Repository: CRAN
Date/Publication: 2018-10-14 15:30:19 UTC

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New package galgo with initial version 1.4
Package: galgo
Version: 1.4
Date: 2018-09-18
Title: Genetic Algorithms for Multivariate Statistical Models from Large-Scale Functional Genomics Data
Authors@R: c(person("Victor", "Trevino", role=c("aut","cre"), email=""), person("Francesco", "Falciani", role=c("aut"), email=""), person("Copyright (C) The R Core Team", role=c("cph","ctb")), person("Copyright (C) The R Foundation", role=c("cph","ctb")))
Author: Victor Trevino [aut, cre], Francesco Falciani [aut], Copyright (C) The R Core Team [cph, ctb], Copyright (C) The R Foundation [cph, ctb]
Maintainer: Victor Trevino <>
Description: Build multivariate predictive models from large datasets having far larger number of features than samples such as in functional genomics datasets. Trevino and Falciani (2006) <doi:10.1093/bioinformatics/btl074>.
License: GPL (>= 2)
LazyLoad: no
Depends: R (>= 3.0.0), R.oo
Imports: e1071, rpart, nnet, randomForest, MASS
NeedsCompilation: yes
Packaged: 2018-10-02 21:16:04 UTC; victortrevino
Repository: CRAN
Date/Publication: 2018-10-14 15:30:11 UTC

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Package RcppCCTZ updated to version 0.2.5 with previous version 0.2.4 dated 2018-10-06

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 <> for more details.
Author: Dirk Eddelbuettel
Maintainer: Dirk Eddelbuettel <>

Diff between RcppCCTZ versions 0.2.4 dated 2018-10-06 and 0.2.5 dated 2018-10-14

 ChangeLog                     |   34 ++++++++++++++++
 DESCRIPTION                   |    8 +--
 MD5                           |   18 ++++----
 R/RcppExports.R               |    8 +--
 inst/NEWS.Rd                  |   14 ++++++
 inst/unitTests/runit.Format.R |   21 +++++----
 inst/unitTests/runit.Parse.R  |   28 +++++++++----
 man/toTz.Rd                   |    6 +-
 src/RcppExports.cpp           |    8 +--
 src/utilities.cpp             |   89 +++++++++++++++++++++++++-----------------
 10 files changed, 157 insertions(+), 77 deletions(-)

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Package pricesensitivitymeter updated to version 0.3.3 with previous version 0.3.2 dated 2018-05-12

Title: Van Westendorp Price Sensitivity Meter Analysis
Description: An implementation of the van Westendorp Price Sensitivity Meter in R, which is a survey-based approach to analyze consumer price preferences and sensitivity (van Westendorp 1976, isbn:9789283100386).
Author: Max Alletsee [aut, cre]
Maintainer: Max Alletsee <>

Diff between pricesensitivitymeter versions 0.3.2 dated 2018-05-12 and 0.3.3 dated 2018-10-14

 DESCRIPTION                                  |    8 ++++----
 MD5                                          |   12 ++++++------
 NEWS                                         |    7 +++++++
 build/vignette.rds                           |binary
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 inst/doc/visualizing-psm-results.html        |   10 +++++-----
 tests/testthat/test_data_input.R             |    2 --
 7 files changed, 27 insertions(+), 22 deletions(-)

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Package touch updated to version 0.1-4 with previous version 0.1-3 dated 2016-12-17

Title: Tools of Utilization and Cost in Healthcare
Description: R implementation of the software tools developed in the H-CUP (Healthcare Cost and Utilization Project) <> and AHRQ (Agency for Healthcare Research and Quality) <>. It currently contains functions for mapping ICD-9 codes to the AHRQ comorbidity measures and translating ICD-9 (resp. ICD-10) codes to ICD-10 (resp. ICD-9) codes based on GEM (General Equivalence Mappings) from CMS (Centers for Medicare and Medicaid Services).
Author: Wenjie Wang [aut, cre] (<>), Yan Li [aut], Jun Yan [aut]
Maintainer: Wenjie Wang <>

Diff between touch versions 0.1-3 dated 2016-12-17 and 0.1-4 dated 2018-10-14

 touch-0.1-3/touch/ChangeLog                            |only
 touch-0.1-4/touch/DESCRIPTION                          |   56 ++++++------
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 touch-0.1-4/touch/inst/doc/codegen/drg-combination.txt |   64 ++++++-------
 touch-0.1-4/touch/inst/doc/codegen/formatcode.R        |   60 ++++++-------
 touch-0.1-4/touch/inst/doc/codegen/icd-combination.txt |   78 ++++++++---------
 touch-0.1-4/touch/man/cmbd.Rd                          |    7 -
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 29 files changed, 195 insertions(+), 176 deletions(-)

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