Fri, 03 Nov 2017

New package spew with initial version 1.3.0
Package: spew
Type: Package
Depends: R (>= 2.10)
Title: SPEW Framework for Generating Synthetic Ecosystems
Version: 1.3.0
Date: 2017-11-03
Author: Lee F. Richardson, Shannon Gallagher, Samuel L. Ventura, William F. Eddy
Maintainer: Lee F. Richardson <leerichardson2013@gmail.com>
Description: Tools for generating synthetic synthetic using the SPEW (Synthetic Populations and Ecosystems of the World) framework. We provide functions for the 'synthesis' step of the SPEW, which converts harmonized data into a synthetic ecosystem. We also provide functions for visualizing and summarizing synthetic ecosystems generated by SPEW. For details see Gallagher, S., Richardson, L.F., Ventura, S.L., Eddy W.F. (2017) <arXiv:1701.02383>.
License: GPL-3
URL: http://github.com/leerichardson/spew
BugReports: http://github.com/leerichardson/spew/issues
RoxygenNote: 6.0.1
VignetteBuilder: knitr
Suggests: testthat, knitr, rmarkdown, doParallel, foreach, stringdist, ggmap, rgeos, Rmpi, mipfp, quadprog, data.table, rgdal, ggplot2, reshape2, devtools, parallel
Imports: sp, maptools, plyr, methods
NeedsCompilation: no
Packaged: 2017-11-03 19:45:51 UTC; lee
Repository: CRAN
Date/Publication: 2017-11-03 23:28:38 UTC

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Package shapes updated to version 1.2.2 with previous version 1.2.1 dated 2017-09-22

Title: Statistical Shape Analysis
Description: Routines for the statistical analysis of landmark shapes, including Procrustes analysis, graphical displays, principal components analysis, permutation and bootstrap tests, thin-plate spline transformation grids and comparing covariance matrices. See Dryden, I.L. and Mardia, K.V. (2016). Statistical shape analysis, with Applications in R (2nd Edition), John Wiley and Sons.
Author: Ian L. Dryden
Maintainer: Ian Dryden <ian.dryden@nottingham.ac.uk>

Diff between shapes versions 1.2.1 dated 2017-09-22 and 1.2.2 dated 2017-11-03

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Package pool updated to version 0.1.3 with previous version 0.1.2 dated 2017-11-03

Title: Object Pooling
Description: Enables the creation of object pools, which make it less computationally expensive to fetch a new object. Currently the only supported pooled objects are 'DBI' connections.
Author: Barbara Borges [aut, cre], RStudio [cph]
Maintainer: Barbara Borges <barbara@rstudio.com>

Diff between pool versions 0.1.2 dated 2017-11-03 and 0.1.3 dated 2017-11-03

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New package PDN with initial version 0.1.0
Package: PDN
Type: Package
Title: Personalized Disease Network
Version: 0.1.0
Author: Javier Cabrera <xavier.cabrera@gmail.com>, Fei Wang <cherry8177@gmail.com>
Maintainer: Zhenbang Wang <bruce1edward@gmail.com>
Description: Building patient level networks for prediction of medical outcomes and draw the cluster of network. This package is based on paper Personalized disease networks for understanding and predicting cardiovascular diseases and other complex processes (See Cabrera et al. <http://circ.ahajournals.org/content/134/Suppl_1/A14957>).
License: GPL-2
Depends: R (>= 2.3.0)
Imports: survival, glmnet, ggplot2, network
LazyData: TRUE
RoxygenNote: 6.0.1
NeedsCompilation: no
Packaged: 2017-11-03 19:40:15 UTC; Bruce
VignetteBuilder: knitr
Suggests: knitr, rmarkdown
Repository: CRAN
Date/Publication: 2017-11-03 23:27:43 UTC

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Package mRMRe updated to version 2.0.7 with previous version 2.0.5 dated 2014-08-19

Title: Parallelized Minimum Redundancy, Maximum Relevance (mRMR) Ensemble Feature Selection
Description: Computes mutual information matrices from continuous, categorical and survival variables, as well as feature selection with minimum redundancy, maximum relevance (mRMR) and a new ensemble mRMR technique.
Author: Nicolas De Jay, Simon Papillon-Cavanagh, Catharina Olsen, Gianluca Bontempi, Benjamin Haibe-Kains
Maintainer: Benjamin Haibe-Kains <benjamin.haibe.kains@utoronto.ca>

Diff between mRMRe versions 2.0.5 dated 2014-08-19 and 2.0.7 dated 2017-11-03

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Package CTT updated to version 2.3 with previous version 2.1 dated 2014-02-25

Title: Classical Test Theory Functions
Description: A collection of common test and item analyses from a classical test theory (CTT) framework. Analyses can be applied to both dichotomous and polytomous data. Functions provide reliability analyses (alpha), item statistics, disctractor analyses, disattenuated correlations, scoring routines, and empirical ICCs.
Author: John T. Willse
Maintainer: John T. Willse <willse@uncg.edu>

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New package AnnuityRIR with initial version 1.0-0
Package: AnnuityRIR
Version: 1.0-0
Date: 2017-11-03
Title: Annuity Random Interest Rates
Authors@R: c(person("Salvador Cruz", "Rambaud", role = "aut", email = "scruz@ual.es"), person("Fabrizio", "Maturo", role = c("aut", "cre"), email = "f.maturo@unich.it"), person("Ana Maria", "Sanchez Perez", role = "aut", email = "amsanchez@ual.es"))
Depends: R (>= 3.2.5), mc2d
Imports: tseries, EnvStats, fitdistrplus, actuar, stats
Suggests: MASS
Description: Annuity Random Interest Rates proposes different techniques for the approximation of the present and final value of a unitary annuity-due or annuity-immediate considering interest rate as a random variable. Cruz Rambaud et al. (2017) <doi:10.1007/978-3-319-54819-7_16>. Cruz Rambaud et al. (2015) <doi:10.23755/rm.v28i1.25>.
License: GPL (>= 2)
URL: https://www.r-project.org
BugReports: https://github.com/fabriziomaturo/AnnuityRIR
RoxygenNote: 6.0.1
NeedsCompilation: no
Packaged: 2017-11-03 20:42:50 UTC; fabma
Author: Salvador Cruz Rambaud [aut], Fabrizio Maturo [aut, cre], Ana Maria Sanchez Perez [aut]
Maintainer: Fabrizio Maturo <f.maturo@unich.it>
Repository: CRAN
Date/Publication: 2017-11-03 23:27:44 UTC

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Package scoringRules updated to version 0.9.4 with previous version 0.9.3 dated 2017-08-10

Title: Scoring Rules for Parametric and Simulated Distribution Forecasts
Description: Dictionary-like reference for computing scoring rules in a wide range of situations. Covers both parametric forecast distributions (such as mixtures of Gaussians) and distributions generated via simulation.
Author: Alexander Jordan, Fabian Krueger, Sebastian Lerch
Maintainer: Fabian Krueger <Fabian.Krueger83@gmail.com>

Diff between scoringRules versions 0.9.3 dated 2017-08-10 and 0.9.4 dated 2017-11-03

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Package Metrics updated to version 0.1.3 with previous version 0.1.2 dated 2017-04-21

Title: Evaluation Metrics for Machine Learning
Description: An implementation of evaluation metrics in R that are commonly used in supervised machine learning. It implements metrics for regression, time series, binary classification, classification, and information retrieval problems. It has zero dependencies and a consistent, simple interface for all functions.
Author: Ben Hamner [aut, cph], Michael Frasco [aut, cre], Erin LeDell [ctb]
Maintainer: Michael Frasco <mfrasco6@gmail.com>

Diff between Metrics versions 0.1.2 dated 2017-04-21 and 0.1.3 dated 2017-11-03

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New package lcyanalysis with initial version 1.0.0
Type: Package
Package: lcyanalysis
Title: Stock Data Analysis Functions
Version: 1.0.0
Date: 2017-10-29
Description: Analysis of stock data ups and downs trend, the stock technical analysis indicators function have trend line, reversal pattern and market trend.
Author: Chun-Yu Liu [aut,cph], Shu-Nung Yao [rev,ths]
Maintainer: Chun-Yu Liu <john401528@gmail.com>
Depends: R (>= 3.3)
Imports: quantmod,TTR,stats,xts,zoo
License: GPL-3
NeedsCompilation: no
LazyData: true
Repository: CRAN
RoxygenNote: 6.0.1
Packaged: 2017-11-03 13:56:52 UTC; liuchunyu
Date/Publication: 2017-11-03 19:09:19 UTC

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New package spatialwarnings with initial version 1.0
Package: spatialwarnings
Type: Package
Title: Spatial Early Warning Signals of Ecosystem Degradation
Version: 1.0
Date: 2017-11-03
Author: Alain Danet, Alexandre Genin, Vishwesha Guttal, Sonia Kefi, Sabiha Majumder, Sumithra Sankaran, Florian Schneider
License: MIT + file LICENSE
Maintainer: Alexandre Genin <alexandre.genin@univ-montp2.fr>
Description: Tools to compute and assess significance of early-warnings signals (EWS) of ecosystem degradation on raster data sets. EWS are metrics derived from the observed spatial structure of an ecosystem -- e.g. spatial autocorrelation -- that increase before an ecosystem undergoes a non-linear transition (Kefi et al. (2014) <doi:10.1371/journal.pone.0092097>).
URL: https://github.com/spatial-ews/spatialwarnings
Depends: R (>= 3.0)
Imports: moments, Rcpp, ggplot2 (>= 1.0.0), plyr, VGAM, reshape2, tidyr, stats, utils, poweRlaw, parallel
Suggests: testthat, knitr
LinkingTo: Rcpp, RcppArmadillo
LazyData: true
RoxygenNote: 6.0.1
NeedsCompilation: yes
Packaged: 2017-11-03 13:29:43 UTC; alex
Repository: CRAN
Date/Publication: 2017-11-03 18:29:29 UTC

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Package rcongresso updated to version 0.2.1 with previous version 0.1.3 dated 2017-10-10

Title: Wraps the API for the Brazilian Chamber of Deputies
Description: Provides propositions, votings, deputies and parties data from Brazilian Chamber of Deputies <https://dadosabertos.camara.leg.br> in data frames.
Author: Paulo Vinícius Soares [aut, cre], Nazareno Andrade [aut], Laboratório Analytics (UFCG) [cph, fnd]
Maintainer: Paulo Vinícius Soares <paulo.soares@ccc.ufcg.edu.br>

Diff between rcongresso versions 0.1.3 dated 2017-10-10 and 0.2.1 dated 2017-11-03

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New package lslx with initial version 0.6.0
Package: lslx
Type: Package
Title: Semi-Confirmatory Structural Equation Modeling via Penalized Likelihood
Version: 0.6.0
Authors@R: c(person("Po-Hsien", "Huang", email = "psyphh@gmail.com", role = c("cre", "aut")), person("Wen-Hsin", "Hu", email = "loveakai@gmail.com", role = "aut"))
Description: Fits semi-confirmatory structural equation modeling (SEM) via penalized likelihood (PL) with lasso or minimax concave penalty (MCP) developed by Huang, Chen, and Weng (2017) <doi:10.1007/s11336-017-9566-9>.
License: GPL-3
Encoding: UTF-8
LazyData: true
Collate: lslxData.R lslxModel.R lslxFitting.R lslx.R lslx-initialize-method.R lslx-set-coefficient-method.R lslx-set-directed-method.R lslx-set-heterogeneity-method.R lslx-set-undirected-method.R RcppExports.R lslx-fit-method.R lslx-get-method.R lslx-extract-method.R lslx-test-method.R lslx-summarize-method.R lslx-plot-method.R
Depends: R (>= 3.1.0)
Imports: Rcpp, R6, ggplot2, lavaan
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
LinkingTo: Rcpp, RcppEigen
RoxygenNote: 6.0.1
URL: https://github.com/psyphh/lslx
BugReports: https://github.com/psyphh/lslx/issues
NeedsCompilation: yes
Packaged: 2017-11-03 14:28:25 UTC; psyphh
Author: Po-Hsien Huang [cre, aut], Wen-Hsin Hu [aut]
Maintainer: Po-Hsien Huang <psyphh@gmail.com>
Repository: CRAN
Date/Publication: 2017-11-03 18:40:27 UTC

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New package dief with initial version 1.1
Package: dief
Type: Package
Title: Metrics for Continuous Efficiency
Version: 1.1
Date: 2017-10-30
Author: Maribel Acosta
Maintainer: Maribel Acosta <maribel.acosta@kit.edu>
Description: An implementation of the metrics dief@t and dief@k to measure the diefficiency (or continuous efficiency) of incremental approaches, see Acosta, M., Vidal, M. E., & Sure-Vetter, Y. (2017) <doi:10.1007/978-3-319-68204-4_1>. The metrics dief@t and dief@k allow for measuring the diefficiency during an elapsed time period t or while k answers are produced, respectively. dief@t and dief@k rely on the computation of the area under the curve of answer traces, and thus capturing the answer rate concentration over a time interval.
License: MIT + file LICENSE
Imports: flux, fmsb, ggplot2, plyr, graphics, utils
LazyData: true
URL: https://github.com/maribelacosta/dief
BugReports: https://github.com/maribelacosta/dief/issues
RoxygenNote: 6.0.1
NeedsCompilation: no
Packaged: 2017-11-03 16:16:17 UTC; maribelacosta
Repository: CRAN
Date/Publication: 2017-11-03 18:49:24 UTC

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Package predatory updated to version 1.2 with previous version 1.1 dated 2017-01-12

Title: Tools for Detecting Predatory Publishers and Journals
Description: Allows the user to check and find (allegedly) predatory journals based on Beall's list available at <https://scholarlyoa.com/>. As part of a research project, the data from the website has been scraped with a web scraping script. The package includes a search function and direct access to this database of predatory journals. The use of this tool should facilitate the detection of predatory publications by researchers and librarians.
Author: Marcelo Perlin [aut, cre]
Maintainer: Marcelo Perlin <marceloperlin@gmail.com>

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Package topicmodels updated to version 0.2-7 with previous version 0.2-6 dated 2017-04-18

Title: Topic Models
Description: Provides an interface to the C code for Latent Dirichlet Allocation (LDA) models and Correlated Topics Models (CTM) by David M. Blei and co-authors and the C++ code for fitting LDA models using Gibbs sampling by Xuan-Hieu Phan and co-authors.
Author: Bettina Grün [aut, cre], Kurt Hornik [aut]
Maintainer: Bettina Grün <Bettina.Gruen@jku.at>

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Package SPAtest updated to version 2.0.2 with previous version 2.0.1 dated 2017-11-02

Title: Score Test Based on Saddlepoint Approximation
Description: Performs score test using saddlepoint approximation to estimate the null distribution.
Author: Rounak Dey, Seunggeun Lee
Maintainer: Rounak Dey <deyrnk@umich.edu>

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Package rplos updated to version 0.8.0 with previous version 0.6.4 dated 2016-11-23

Title: Interface to the Search 'API' for 'PLoS' Journals
Description: A programmatic interface to the 'SOLR' based search 'API' (<http://api.plos.org/>) provided by the Public Library of Science journals to search their articles. Functions are included for searching for articles, retrieving articles, making plots, doing 'faceted' searches, 'highlight' searches, and viewing results of 'highlighted' searches in a browser.
Author: Scott Chamberlain [aut, cre], Carl Boettiger [aut], Karthik Ram [aut]
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>

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Package rdwd updated to version 0.9.0 with previous version 0.8.0 dated 2017-06-09

Title: Select and Download Climate Data from 'DWD' (German Weather Service)
Description: Handle climate data from the 'DWD' ('Deutscher Wetterdienst', see <https://www.dwd.de/EN/climate_environment/cdc/cdc.html> for more information). Choose files with 'selectDWD()', download and process data sets with 'dataDWD()' and 'readDWD()'.
Author: Berry Boessenkool
Maintainer: Berry Boessenkool <berry-b@gmx.de>

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Package rdatacite updated to version 0.3.0 with previous version 0.1.0 dated 2016-02-11

Title: 'DataCite' Client for 'OAI-PMH' Methods and their Search API
Description: Client for the web service methods provided by 'DataCite' (<https://www.datacite.org/>), including functions to interface with their 'OAI-PMH' 'metadata' service, and a 'RESTful' search API. The API is backed by 'SOLR', allowing expressive queries, including faceting, statistics on variables, and 'more-like-this' queries.
Author: Scott Chamberlain [aut, cre]
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>

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Package openssl updated to version 0.9.8 with previous version 0.9.7 dated 2017-09-06

Title: Toolkit for Encryption, Signatures and Certificates Based on OpenSSL
Description: Bindings to OpenSSL libssl and libcrypto, plus custom SSH pubkey parsers. Supports RSA, DSA and EC curves P-256, P-384 and P-521. Cryptographic signatures can either be created and verified manually or via x509 certificates. AES can be used in cbc, ctr or gcm mode for symmetric encryption; RSA for asymmetric (public key) encryption or EC for Diffie Hellman. High-level envelope functions combine RSA and AES for encrypting arbitrary sized data. Other utilities include key generators, hash functions (md5, sha1, sha256, etc), base64 encoder, a secure random number generator, and 'bignum' math methods for manually performing crypto calculations on large multibyte integers.
Author: Jeroen Ooms [cre, aut], Oliver Keyes [ctb]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>

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Package movMF updated to version 0.2-2 with previous version 0.2-1 dated 2017-02-21

Title: Mixtures of von Mises-Fisher Distributions
Description: Fit and simulate mixtures of von Mises-Fisher distributions.
Author: Kurt Hornik [aut, cre], Bettina Grün [aut]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>

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Package magick updated to version 1.5 with previous version 1.4 dated 2017-10-05

Title: Advanced Graphics and Image-Processing in R
Description: Bindings to 'ImageMagick': the most comprehensive open-source image processing library available. Supports many common formats (png, jpeg, tiff, pdf, etc) and manipulations (rotate, scale, crop, trim, flip, blur, etc). All operations are vectorized via the Magick++ STL meaning they operate either on a single frame or a series of frames for working with layers, collages, or animation. In RStudio images are automatically previewed when printed to the console, resulting in an interactive editing environment. The latest version of the package includes a native graphics device for creating in-memory graphics or drawing onto images using pixel coordinates.
Author: Jeroen Ooms
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>

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Package convoSPAT updated to version 1.2.4 with previous version 1.2 dated 2017-04-12

Title: Convolution-Based Nonstationary Spatial Modeling
Description: Fits convolution-based nonstationary Gaussian process models to point-referenced spatial data. The nonstationary covariance function allows the user to specify the underlying correlation structure and which spatial dependence parameters should be allowed to vary over space: the anisotropy, nugget variance, and process variance. The parameters are estimated via maximum likelihood, using a local likelihood approach. Also provided are functions to fit stationary spatial models for comparison, calculate the Kriging predictor and standard errors, and create various plots to visualize nonstationarity.
Author: Mark D. Risser [aut, cre]
Maintainer: Mark D. Risser <markdrisser@gmail.com>

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Package influxdbr updated to version 0.14.0 with previous version 0.13.0 dated 2017-08-21

Title: R Interface to InfluxDB
Description: An R interface to the InfluxDB time series database <https://www.influxdata.com>. This package allows you to fetch and write time series data from/to an InfluxDB server. Additionally, handy wrappers for the Influx Query Language (IQL) to manage and explore a remote database are provided.
Author: Dominik Leutnant [aut, cre] (0000-0003-3293-2315)
Maintainer: Dominik Leutnant <leutnant@fh-muenster.de>

Diff between influxdbr versions 0.13.0 dated 2017-08-21 and 0.14.0 dated 2017-11-03

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Package tint updated to version 0.0.4 with previous version 0.0.3 dated 2016-10-15

Title: 'tint' is not 'Tufte'
Description: A 'tufte'-alike style for 'rmarkdown'.
Author: Dirk Eddelbuettel
Maintainer: Dirk Eddelbuettel <edd@debian.org>

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Package patternplot updated to version 0.2 with previous version 0.1 dated 2016-12-20

Title: Versatile Pie Charts, Bar Charts and Box Plots using Patterns, Colors and Images
Description: Creates aesthetically pleasing and informative pie charts, bar charts and box plots with colors, patterns, and images.
Author: Chunqiao Luo [aut, cre], Shasha Bai [aut]
Maintainer: Chunqiao Luo <chunqiaoluo@gmail.com>

Diff between patternplot versions 0.1 dated 2016-12-20 and 0.2 dated 2017-11-03

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Package moveVis updated to version 0.9.6 with previous version 0.9.5 dated 2017-08-21

Title: Movement Data Visualization
Description: Tools to visualize movement data (e.g. from GPS tracking) and temporal changes of environmental data (e.g. from remote sensing) by creating video animations.
Author: Jakob Schwalb-Willmann [aut, cre]
Maintainer: Jakob Schwalb-Willmann <movevis@schwalb-willmann.de>

Diff between moveVis versions 0.9.5 dated 2017-08-21 and 0.9.6 dated 2017-11-03

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Package GMSE updated to version 0.3.1.9 with previous version 0.3.1.8 dated 2017-11-02

Title: Generalised Management Strategy Evaluation Simulator
Description: Integrates game theory and ecological theory to construct social-ecological models that simulate the management of populations and stakeholder actions. These models build off of a previously developed management strategy evaluation (MSE) framework to simulate all aspects of management: population dynamics, manager observation of populations, manager decision making, and stakeholder responses to management decisions. The newly developed generalised management strategy evaluation (GMSE) framework uses genetic algorithms to mimic the decision-making process of managers and stakeholders under conditions of change, uncertainty, and conflict. Simulations can be run using gmse(), gmse_apply(), and gmse_gui() functions.
Author: A. Bradley Duthie [aut, cre] (0000-0001-8343-4995), Nils Bunnefeld [ctb, fnd] (0000-0002-1349-4463), Jeremy Cusack [ctb] (0000-0003-3004-1586), Isabel Jones [ctb] (0000-0002-8361-1370), Erlend Nilsen [ctb] (0000-0002-5119-8331), Rocio Pozo [ctb] (0000-0002-7546-8076), Sarobidy Rakotonarivo [ctb] (0000-0002-8032-1431), Bram Van Moorter [ctb] (0000-0002-3196-1993)
Maintainer: A. Bradley Duthie <brad.duthie@gmail.com>

Diff between GMSE versions 0.3.1.8 dated 2017-11-02 and 0.3.1.9 dated 2017-11-03

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Package dynRB updated to version 0.10 with previous version 0.9 dated 2016-10-24

Title: Dynamic Range Boxes
Description: Improves the concept of multivariate range boxes, which is highly susceptible for outliers and does not consider the distribution of the data. The package uses dynamic range boxes to overcome these problems.
Author: Manuela Schreyer <manuelalarissa.schreyer@sbg.ac.at>, Wolfgang Trutschnig <Wolfgang.Trutschnig@sbg.ac.at>, Robert R. Junker <Robert.Junker@sbg.ac.at>, Jonas Kuppler <Jonas.Kuppler@uni-duesseldorf.de>, Arne Bathke <Arne.Bathke@sbg.ac.at>
Maintainer: Manuela Schreyer <manuelalarissa.schreyer@sbg.ac.at>

Diff between dynRB versions 0.9 dated 2016-10-24 and 0.10 dated 2017-11-03

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New package validatetools with initial version 0.4.1
Package: validatetools
Title: Checking and Simplifying Validation Rule Sets
Version: 0.4.1
Authors@R: c( person("Edwin", "de Jonge", email = "edwindjonge@gmail.com", role = c("aut", "cre")) , person("Mark", "van der Loo", email = "mark.vanderloo@gmail.com",role = c("aut")) , person("Jacco", "Daalmans", role = c("ctb")) )
Description: Rule sets with validation rules may contain redundancies or contradictions. Functions for finding redundancies and problematic rules are provided, given a set a rules formulated with 'validate'.
Depends: validate
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
URL: https://github.com/data-cleaning/validatetools
BugReports: https://github.com/data-cleaning/validatetools/issues
Imports: methods, stats, utils, lpSolveAPI
Suggests: testthat, covr
RoxygenNote: 6.0.1
NeedsCompilation: no
Packaged: 2017-11-03 11:08:43 UTC; edwin
Author: Edwin de Jonge [aut, cre], Mark van der Loo [aut], Jacco Daalmans [ctb]
Maintainer: Edwin de Jonge <edwindjonge@gmail.com>
Repository: CRAN
Date/Publication: 2017-11-03 12:22:40 UTC

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Package ritis updated to version 0.7.0 with previous version 0.6.0 dated 2017-09-27

Title: Integrated Taxonomic Information System Client
Description: An interface to the Integrated Taxonomic Information System ('ITIS') (<https://www.itis.gov>). Includes functions to work with the 'ITIS' REST 'API' methods (<https://www.itis.gov/ws_description.html>), as well as the 'Solr' web service (<https://www.itis.gov/solr_documentation.html>).
Author: Scott Chamberlain [aut, cre]
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>

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Package pcr updated to version 1.0.1 with previous version 1.0.0 dated 2017-11-03

Title: Analyzing Real-Time Quantitative PCR Data
Description: Calculates the amplification efficiency and curves from real-time quantitative PCR (Polymerase Chain Reaction) data. Estimates the relative expression from PCR data using the double delta CT and the standard curve methods Livak & Schmittgen (2001) <doi:10.1006/meth.2001.1262>. Tests for statistical significance using two-group tests and linear regression Yuan et al. (2006) <doi: 10.1186/1471-2105-7-85>.
Author: Mahmoud Ahmed [aut, cre]
Maintainer: Mahmoud Ahmed <mahmoud.s.fahmy@students.kasralainy.edu.eg>

Diff between pcr versions 1.0.0 dated 2017-11-03 and 1.0.1 dated 2017-11-03

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Package lubridate updated to version 1.7.1 with previous version 1.7.0 dated 2017-10-29

Title: Make Dealing with Dates a Little Easier
Description: Functions to work with date-times and time-spans: fast and user friendly parsing of date-time data, extraction and updating of components of a date-time (years, months, days, hours, minutes, and seconds), algebraic manipulation on date-time and time-span objects. The 'lubridate' package has a consistent and memorable syntax that makes working with dates easy and fun. Parts of the 'CCTZ' source code, released under the Apache 2.0 License, are included in this package. See <https://github.com/google/cctz> for more details.
Author: Vitalie Spinu [aut, cre], Garrett Grolemund [aut], Hadley Wickham [aut], Ian Lyttle [ctb], Imanuel Constigan [ctb], Jason Law [ctb], Doug Mitarotonda [ctb], Joseph Larmarange [ctb], Jonathan Boiser [ctb], Chel Hee Lee [ctb]
Maintainer: Vitalie Spinu <spinuvit@gmail.com>

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Package kyotil updated to version 2017.10-31 with previous version 2017.6-1 dated 2017-05-31

Title: Utility Functions by Youyi, Krisz and Others
Description: A miscellaneous set of functions for printing, plotting, kernels, etc. Additional contributors are acknowledged on individual function help pages.
Author: Youyi Fong <youyifong@gmail.com>, Krisztian Sebestyen <ksebestyen@gmail.com>
Maintainer: Youyi Fong <youyifong@gmail.com>

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Package iprior updated to version 0.7.0 with previous version 0.6.5 dated 2017-06-11

Title: Regression Modelling using I-Priors
Description: Provides methods to perform and analyse I-prior regression models. Estimation is done either via direct optimisation of the log-likelihood or an EM algorithm.
Author: Haziq Jamil [aut, cre]
Maintainer: Haziq Jamil <haziq.jamil@gmail.com>

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Package hunspell updated to version 2.7 with previous version 2.6 dated 2017-06-28

Title: High-Performance Stemmer, Tokenizer, and Spell Checker for R
Description: A spell checker and morphological analyzer library designed for languages with rich morphology and complex word compounding or character encoding. The package can check and analyze individual words as well as search for incorrect words within a text, latex, html or xml document. Use the 'devtools' package to spell check R documentation with 'hunspell'.
Author: Jeroen Ooms
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>

Diff between hunspell versions 2.6 dated 2017-06-28 and 2.7 dated 2017-11-03

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Package clipr updated to version 0.4.0 with previous version 0.3.3 dated 2017-06-19

Title: Read and Write from the System Clipboard
Description: Simple utility functions to read from and write to the Windows, OS X, and X11 clipboards.
Author: Matthew Lincoln [aut, cre], Louis Maddox [ctb], Steve Simpson [ctb], Jennifer Bryan [ctb]
Maintainer: Matthew Lincoln <matthew.d.lincoln@gmail.com>

Diff between clipr versions 0.3.3 dated 2017-06-19 and 0.4.0 dated 2017-11-03

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Package blackbox updated to version 1.1.7 with previous version 1.1.2 dated 2017-09-05

Title: Black Box Optimization and Exploration of Parameter Space
Description: Performs prediction of a response function from simulated response values, allowing black-box optimization of functions estimated with some error. Includes a simple user interface for such applications, as well as more specialized functions designed to be called by the Migraine software (Rousset and Leblois, 2012 <doi:10.1093/molbev/MSR262>; Leblois et al., 2014 <doi:10.1093/molbev/msu212>; and see URL). The latter functions are used for prediction of likelihood surfaces and implied likelihood ratio confidence intervals, and for exploration of predictor space of the surface. Prediction of the response is based on ordinary Kriging (with residual error) of the input. Estimation of smoothing parameters is performed by generalized cross-validation.
Author: François Rousset [aut, cre, cph], Raphaël Leblois [ctb]
Maintainer: François Rousset <francois.rousset@umontpellier.fr>

Diff between blackbox versions 1.1.2 dated 2017-09-05 and 1.1.7 dated 2017-11-03

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Package bioset updated to version 0.2.0 with previous version 0.1.0 dated 2017-10-08

Title: Convert a Matrix of Raw Values into Nice and Tidy Data
Description: Functions to help dealing with raw data from measurements, like reading and transforming raw values organised in matrices, calculating and converting concentrations and calculating precision of duplicates / triplicates / ... . It is compatible with and building on top of 'tidyverse'-packages.
Author: Eike Christian Kühn [aut, cre]
Maintainer: Eike Christian Kühn <eike.kuehn@pixelwoelkchen.de>

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Package berryFunctions updated to version 1.16.0 with previous version 1.15.0 dated 2017-04-10

Title: Function Collection Related to Plotting and Hydrology
Description: Draw horizontal histograms, color scattered points by 3rd dimension, enhance date- and log-axis plots, zoom in X11 graphics, trace errors and warnings, use the unit hydrograph in a linear storage cascade, convert lists to data.frames and arrays, fit multiple functions.
Author: Berry Boessenkool
Maintainer: Berry Boessenkool <berry-b@gmx.de>

Diff between berryFunctions versions 1.15.0 dated 2017-04-10 and 1.16.0 dated 2017-11-03

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 man/seqPal.Rd                 |   20 -
 man/showPal.Rd                |    4 
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 man/smoothLines.Rd            |    4 
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 man/tableColVal.Rd            |   18 -
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 man/traceCall.Rd              |    6 
 man/truncMessage.Rd           |    7 
 man/tryStack.Rd               |   46 +-
 man/yearSample.Rd             |    2 
 vignettes/berryFunctions.Rmd  |  652 +++++++++++++++++++++---------------------
 194 files changed, 3479 insertions(+), 2937 deletions(-)

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Package adfExplorer updated to version 0.1.2 with previous version 0.1.1 dated 2017-10-30

Title: Import from and Export to Amiga Disk Files
Description: Amiga Disk Files (ADF) are virtual representations of 3.5 inch floppy disks for the Commodore Amiga. Most disk drives from other systems (including modern drives) are not able to read these disks. To be able to emulate this system, the ADF format was created. This package enables you to read ADF files and import and export files from and to such virtual DOS-formatted disks.
Author: Pepijn de Vries [aut, cre, dtc]
Maintainer: Pepijn de Vries <pepijn.devries@outlook.com>

Diff between adfExplorer versions 0.1.1 dated 2017-10-30 and 0.1.2 dated 2017-11-03

 DESCRIPTION                  |    8 
 MD5                          |   25 +-
 NAMESPACE                    |    1 
 NEWS                         |   14 +
 R/01genericSupport.r         |   67 ++++--
 R/02amigaDiskBasics.r        |   31 ++-
 R/04fileOperations.r         |  425 +++++++++++++++++++++++++++++++++++--------
 inst/doc/amigaDiskFiles.R    |    8 
 inst/doc/amigaDiskFiles.Rmd  |    6 
 inst/doc/amigaDiskFiles.html |   70 -------
 man/adf.file.exists.Rd       |only
 man/displayRawData.Rd        |    3 
 man/get.adf.file.Rd          |    3 
 vignettes/amigaDiskFiles.Rmd |    6 
 14 files changed, 474 insertions(+), 193 deletions(-)

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New package vmd with initial version 0.1.0
Package: vmd
Type: Package
Title: Variational Mode Decomposition
Version: 0.1.0
Date: 2017-10-26
Authors@R: c(person("Nicholas","Hamilton", ,"n.hamilton@unsw.edu.au", role = c("aut", "cre")), person("Michael","Ferry",,"m.ferry@unsw.edu.au",role = "aut"))
Author: Nicholas Hamilton [aut, cre], Michael Ferry [aut]
Maintainer: Nicholas Hamilton <n.hamilton@unsw.edu.au>
Description: A port and extension to the original 'Matlab' code made public by Dragomiretskiy and Zosso, for conducting Variational Mode Decomposition (VMD) as described within their 2013 publication (publication: <doi:10.1109/TSP.2013.2288675>, source: <https://goo.gl/fJH1d5>).
License: GPL-2
Encoding: UTF-8
LazyData: true
Imports: Rcpp (>= 0.12.12), ggplot2 (>= 2.1), magrittr, reshape2, scales, R6
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2017-11-03 07:18:24 UTC; nick
Repository: CRAN
Date/Publication: 2017-11-03 11:47:14 UTC

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New package StepReg with initial version 1.0.0
Package: StepReg
Type: Package
Title: Stepwise Regression Analysis
Version: 1.0.0
Date: 2017-10-30
Author: Junhui Li,Kun Cheng,Wenxin Liu
Maintainer: Junhui Li <junhuili@cau.edu.cn>
Description: Stepwise regression analysis for variable selection can be used to get the best candidate final regression model in univariate or multivariate regression analysis with the 'forward' and 'stepwise' steps. Procedure uses Akaike information criterion, the small-sample-size corrected version of Akaike information criterion, Bayesian information criterion, Hannan and Quinn information criterion, the corrected form of Hannan and Quinn information criterion, Schwarz criterion and significance levels as selection criteria, where the significance levels for entry and for stay are set to 0.15 as default. Multicollinearity detection in regression model are performed by checking tolerance value, which is set to 1e-7 as default. Continuous variables nested within class effect are also considered in this package.
License: GPL (>= 2)
Imports: Rcpp (>= 0.12.13)
LinkingTo: Rcpp,RcppEigen
Depends: R (>= 2.10)
NeedsCompilation: yes
Packaged: 2017-11-03 03:36:02 UTC; lenovo
Repository: CRAN
Date/Publication: 2017-11-03 10:17:07 UTC

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Package phylopath updated to version 1.0.0 with previous version 0.3.1 dated 2017-08-09

Title: Perform Phylogenetic Path Analysis
Description: A comprehensive and easy to use R implementation of confirmatory phylogenetic path analysis as described by Von Hardenberg and Gonzalez-Voyer (2012) <doi:10.1111/j.1558-5646.2012.01790.x>.
Author: Wouter van der Bijl [aut, cre]
Maintainer: Wouter van der Bijl <wouter.van.der.bijl@zoologi.su.se>

Diff between phylopath versions 0.3.1 dated 2017-08-09 and 1.0.0 dated 2017-11-03

 phylopath-0.3.1/phylopath/man/est_DAG_binary.Rd            |only
 phylopath-0.3.1/phylopath/man/phylo_path_binary.Rd         |only
 phylopath-1.0.0/phylopath/DESCRIPTION                      |   12 
 phylopath-1.0.0/phylopath/MD5                              |   75 +--
 phylopath-1.0.0/phylopath/NAMESPACE                        |   10 
 phylopath-1.0.0/phylopath/NEWS.md                          |   60 ++
 phylopath-1.0.0/phylopath/R/DAG.R                          |  147 +++---
 phylopath-1.0.0/phylopath/R/data_docs.R                    |   36 +
 phylopath-1.0.0/phylopath/R/internal.R                     |  192 ++++++--
 phylopath-1.0.0/phylopath/R/phylopath.R                    |  296 +++++--------
 phylopath-1.0.0/phylopath/R/print_and_plot.R               |  272 ++++++++---
 phylopath-1.0.0/phylopath/R/sysdata.rda                    |binary
 phylopath-1.0.0/phylopath/build/vignette.rds               |binary
 phylopath-1.0.0/phylopath/data/red_list.rda                |only
 phylopath-1.0.0/phylopath/data/red_list_tree.rda           |only
 phylopath-1.0.0/phylopath/inst/CITATION                    |   18 
 phylopath-1.0.0/phylopath/inst/doc/binary_models.R         |   53 +-
 phylopath-1.0.0/phylopath/inst/doc/binary_models.Rmd       |   75 +--
 phylopath-1.0.0/phylopath/inst/doc/binary_models.html      |  121 ++---
 phylopath-1.0.0/phylopath/inst/doc/intro_to_phylopath.R    |   51 +-
 phylopath-1.0.0/phylopath/inst/doc/intro_to_phylopath.Rmd  |  141 ++++--
 phylopath-1.0.0/phylopath/inst/doc/intro_to_phylopath.html |  227 +++++----
 phylopath-1.0.0/phylopath/man/DAG.Rd                       |   20 
 phylopath-1.0.0/phylopath/man/average.Rd                   |   18 
 phylopath-1.0.0/phylopath/man/average_DAGs.Rd              |   17 
 phylopath-1.0.0/phylopath/man/best.Rd                      |    5 
 phylopath-1.0.0/phylopath/man/choice.Rd                    |    7 
 phylopath-1.0.0/phylopath/man/cichlids.Rd                  |    4 
 phylopath-1.0.0/phylopath/man/cichlids_tree.Rd             |    6 
 phylopath-1.0.0/phylopath/man/coef_plot.Rd                 |   27 -
 phylopath-1.0.0/phylopath/man/define_model_set.Rd          |only
 phylopath-1.0.0/phylopath/man/est_DAG.Rd                   |   40 +
 phylopath-1.0.0/phylopath/man/phylo_path.Rd                |   63 ++
 phylopath-1.0.0/phylopath/man/plot.DAG.Rd                  |   32 +
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 phylopath-1.0.0/phylopath/man/plot_model_set.Rd            |   20 
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 phylopath-1.0.0/phylopath/vignettes/binary_models.Rmd      |   75 +--
 phylopath-1.0.0/phylopath/vignettes/intro_to_phylopath.Rmd |  141 ++++--
 42 files changed, 1413 insertions(+), 889 deletions(-)

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New package pcr with initial version 1.0.0
Package: pcr
Version: 1.0.0
Title: Analyzing Real-Time Quantitative PCR Data
Description: Calculates the amplification efficiency and curves from real-time quantitative PCR (Polymerase Chain Reaction) data. Estimates the relative expression from PCR data using the double delta CT and the standard curve methods Livak & Schmittgen (2001) <doi:10.1006/meth.2001.1262>. Tests for statistical significance using two-group tests and linear regression Yuan et al. (2006) <doi: 10.1186/1471-2105-7-85>.
Authors@R: person("Mahmoud", "Ahmded", email = "mahmoud.s.fahmy@students.kasralainy.edu.eg", role = c("aut", "cre"))
Maintainer: Mahmoud Ahmded <mahmoud.s.fahmy@students.kasralainy.edu.eg>
URL: https://github.com/MahShaaban/pcr
BugReports: https://github.com/MahShaaban/pcr/issues
Depends: R (>= 3.4.2)
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.0.1
Imports: devtools, magrittr, dplyr, tidyr, purrr, readr, ggplot2, broom
Suggests: testthat, knitr, rmarkdown, covr, cowplot
VignetteBuilder: knitr
License: GPL-3
NeedsCompilation: no
Packaged: 2017-11-03 01:12:43 UTC; MahShaaban
Author: Mahmoud Ahmded [aut, cre]
Repository: CRAN
Date/Publication: 2017-11-03 10:05:59 UTC

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Package ICRanks updated to version 1.1 with previous version 1.0 dated 2017-08-08

Title: Simultaneous Confidence Intervals for Ranks
Description: Algorithms to construct confidence intervals for the ranks of centers mu_1,...,mu_n based on an independent Gaussian sample using multiple testing techniques.
Author: Diaa Al Mohamad and Erik W. van Zwet and Jelle J. Goeman
Maintainer: Diaa Al Mohamad <diaa.almohamad@gmail.com>

Diff between ICRanks versions 1.0 dated 2017-08-08 and 1.1 dated 2017-11-03

 ICRanks-1.0/ICRanks/man/ICRanks-package.Rd   |only
 ICRanks-1.0/ICRanks/src/ICRanks_init.c       |only
 ICRanks-1.1/ICRanks/DESCRIPTION              |   10 ++--
 ICRanks-1.1/ICRanks/MD5                      |   12 ++---
 ICRanks-1.1/ICRanks/R/ic.ranks.R             |   58 ++++++++++++++-------------
 ICRanks-1.1/ICRanks/man/ic.ranks.Rd          |    8 +--
 ICRanks-1.1/ICRanks/src/PartitionByBlock.cpp |    5 +-
 ICRanks-1.1/ICRanks/src/RcppExports.cpp      |   11 +++++
 8 files changed, 59 insertions(+), 45 deletions(-)

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New package ripums with initial version 0.1.0
Package: ripums
Title: Read 'IPUMS' Extract Files
Version: 0.1.0
Authors@R: c( person("Greg Freedman Ellis", email = "gfellis@umn.edu", role = c("aut", "cre")), person("Derek Burk", role = "ctb"), person("Joe Grover", role = "ctb"), person("Minnesota Population Center", email = "ipums@umn.org", role = "cph") )
Contact: ipums@umn.org
URL: https://www.ipums.org, https://github.com/mnpopcenter/ripums
BugReports: https://github.com/mnpopcenter/ripums/issues
Description: An easy way to import census, survey and geographic data provided by 'IPUMS' into R plus tools to help use the associated metadata to make analysis easier. 'IPUMS' data describing 1.4 billion individuals drawn from over 750 censuses and surveys is available free of charge from our website <https://ipums.org>.
License: Mozilla Public License 2.0
Encoding: UTF-8
LazyData: true
Imports: dplyr (>= 0.7.0), haven, purrr, raster, readr, rlang, stringr, tibble, tidyr, xml2, Rcpp
RoxygenNote: 6.0.1
Suggests: DT, ggplot2, htmltools, knitr, rgdal, rmarkdown, rstudioapi, scales, sf, sp, shiny, testthat, covr
VignetteBuilder: knitr
LinkingTo: Rcpp
NeedsCompilation: yes
Packaged: 2017-11-02 19:31:56 UTC; gfellis
Author: Greg Freedman Ellis [aut, cre], Derek Burk [ctb], Joe Grover [ctb], Minnesota Population Center [cph]
Maintainer: Greg Freedman Ellis <gfellis@umn.edu>
Repository: CRAN
Date/Publication: 2017-11-03 09:33:52 UTC

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Package RcppAlgos updated to version 0.1.2 with previous version 0.1.0 dated 2017-10-26

Title: Tools for Combinatorics and Computational Mathematics
Description: Provides optimized functions implemented in C++ with 'Rcpp'. There is a generalized combinations function that is highly efficient (both speed and memory). There are optional contraint arguments that when employed, generate all combinations of a vector meeting a specific criteria (E.g. finding all combinations such that the sum is less than a bound). Additionally, there are various sieving functions that quickly generate essential components for problems common in computational mathematics (E.g. number of comprime elements, divisors, prime factorizations, and complete factorizations for many numbers as well as generating primes in a range).
Author: Joseph Wood
Maintainer: Joseph Wood <jwood000@gmail.com>

Diff between RcppAlgos versions 0.1.0 dated 2017-10-26 and 0.1.2 dated 2017-11-03

 DESCRIPTION                   |    6 -
 MD5                           |   22 +++---
 README.md                     |   28 ++++----
 man/comboGeneral.Rd           |    2 
 man/divisorsList.Rd           |    3 
 man/eulerPhiSieve.Rd          |    3 
 man/numDivisorSieve.Rd        |    3 
 man/primeFactorizationList.Rd |    3 
 man/primeSieve.Rd             |   15 +++-
 src/ComboContainer.cpp        |   72 +++++++++++----------
 src/DivisorSieveContainer.cpp |   22 +++---
 src/PrimesContainer.cpp       |  139 +++++++++++++++++++++++++-----------------
 12 files changed, 186 insertions(+), 132 deletions(-)

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Package PRIMsrc updated to version 0.7.5 with previous version 0.7.4 dated 2017-09-25

Title: PRIM Survival Regression Classification
Description: Performs a unified treatment of Bump Hunting by Patient Rule Induction Method (PRIM) in Survival, Regression and Classification settings (SRC). The current version is a development release that only implements the case of a survival response. New features will be added soon as they are available.
Author: Jean-Eudes Dazard [aut, cre], Michael Choe [ctb], Michael LeBlanc [ctb], Alberto Santana [ctb]
Maintainer: Jean-Eudes Dazard <jean-eudes.dazard@case.edu>

Diff between PRIMsrc versions 0.7.4 dated 2017-09-25 and 0.7.5 dated 2017-11-03

 PRIMsrc-0.7.4/PRIMsrc/inst/doc/PRIMsrc_0.7.4.pdf |only
 PRIMsrc-0.7.5/PRIMsrc/DESCRIPTION                |    8 +-
 PRIMsrc-0.7.5/PRIMsrc/MD5                        |   10 +--
 PRIMsrc-0.7.5/PRIMsrc/R/PRIMsrc.internal.r       |   65 ++++++++++++-----------
 PRIMsrc-0.7.5/PRIMsrc/README.md                  |   12 ++--
 PRIMsrc-0.7.5/PRIMsrc/inst/NEWS                  |   27 ++++++---
 PRIMsrc-0.7.5/PRIMsrc/inst/doc/PRIMsrc_0.7.5.pdf |only
 7 files changed, 69 insertions(+), 53 deletions(-)

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Package pool updated to version 0.1.2 with previous version 0.1.1 dated 2017-09-23

Title: Object Pooling
Description: Enables the creation of object pools, which make it less computationally expensive to fetch a new object. Currently the only supported pooled objects are 'DBI' connections.
Author: Barbara Borges [aut, cre], RStudio [cph]
Maintainer: Barbara Borges <barbara@rstudio.com>

Diff between pool versions 0.1.1 dated 2017-09-23 and 0.1.2 dated 2017-11-03

 DESCRIPTION                          |    8 +-
 MD5                                  |   41 +++++------
 NEWS.md                              |   32 ++++++--
 R/DBI-connection-transaction.R       |   13 +--
 R/DBI-connection.R                   |   44 +++++++++++
 R/DBI-object.R                       |   20 +++++
 R/DBI-pool.R                         |    6 -
 R/DBI.R                              |    4 -
 R/dbplyr.R                           |  129 ++++++++++++++++++++++++++++-------
 R/pool.R                             |   14 +--
 README.md                            |   33 ++++----
 man/DBI-connection-transaction.Rd    |    2 
 man/DBI-connection.Rd                |   45 ++++++++++++
 man/DBI-object.Rd                    |   21 +++++
 man/dbPool.Rd                        |    4 -
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 man/pool.Rd                          |    9 --
 man/poolWithTransaction.Rd           |    5 -
 tests/testthat/test-create-destroy.R |  106 +++++++++++++---------------
 tests/testthat/test-fetch.R          |    8 +-
 tests/testthat/test-release.R        |   24 ++++++
 tests/testthat/utils.R               |    8 --
 22 files changed, 397 insertions(+), 179 deletions(-)

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Package pense updated to version 1.0.8 with previous version 1.0.6 dated 2017-10-25

Title: Penalized Elastic Net S/MM-Estimator of Regression
Description: Robust penalized elastic net S and MM estimator for linear regression. The method is described in detail in Cohen Freue, G. V., Kepplinger, D., Salibian-Barrera, M., and Smucler, E. (2017) <https://gcohenfr.github.io/pdfs/PENSE_manuscript.pdf>.
Author: David Kepplinger [aut, cre], Derek Cho [aut], Matias Salibian-Barrera [aut], Gabriela Cohen Freue [aut]
Maintainer: David Kepplinger <david.kepplinger@gmail.com>

Diff between pense versions 1.0.6 dated 2017-10-25 and 1.0.8 dated 2017-11-03

 DESCRIPTION                   |    8 +--
 MD5                           |   53 +++++++++++-----------
 NEWS.md                       |    6 ++
 R/additional-options.R        |   20 --------
 R/build_lambda_grid.R         |    2 
 R/coef-methods.R              |    8 +--
 R/enpy.R                      |   22 +++++++++
 R/mscale.R                    |   19 ++++----
 R/pense.R                     |    7 ++-
 R/pense_coldwarm.R            |    4 +
 R/pensem.R                    |   31 ++++++++-----
 R/predict-methods.R           |    6 ++
 R/residuals-methods.R         |   12 ++++-
 TODO                          |only
 configure                     |   18 +++----
 configure.ac                  |    2 
 man/enpy.Rd                   |    9 +++
 man/initest_options.Rd        |   10 ----
 man/mscale.Rd                 |   10 ++--
 src/ENDal.cpp                 |    8 +--
 src/ElasticNet.cpp            |    2 
 src/IRWEN.cpp                 |    4 -
 src/InitialEstimator.cpp      |    6 +-
 src/Options.hpp               |   97 ++++++++++++++++++++++++++----------------
 src/Rinterface.cpp            |   55 +++++++++++++++++++++++
 src/Rinterface.hpp            |    8 +++
 src/autoconfig.win.h          |    4 -
 tests/testthat/test.enpy.rr.R |    4 -
 28 files changed, 281 insertions(+), 154 deletions(-)

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Package RcppOctave (with last version 0.18.1) was removed from CRAN

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

2015-10-06 0.18.1
2014-09-20 0.14.5
2014-03-10 0.14.1
2013-10-29 0.11.3
2013-10-22 0.11.2
2013-07-09 0.9.5
2013-05-13 0.9.1
2013-03-12 0.9
2012-12-17 0.8.12
2012-07-03 0.8.5

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