Sun, 11 Oct 2015

Package rivr updated to version 1.0 with previous version 0.9.2 dated 2015-04-01

Title: Steady and Unsteady Open-Channel Flow Computation
Description: A tool for undergraduate and graduate courses in open-channel hydraulics. Provides functions for computing normal and critical depths, steady-state water surface profiles (e.g. backwater curves) and unsteady flow computations (e.g. flood wave routing).
Author: Michael C Koohafkan [aut, cre]
Maintainer: Michael C Koohafkan <michael.koohafkan@gmail.com>

Diff between rivr versions 0.9.2 dated 2015-04-01 and 1.0 dated 2015-10-11

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Package PRIMsrc updated to version 0.6.2 with previous version 0.6.1 dated 2015-10-11

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 <jxd101@case.edu>

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Package HydeNet updated to version 0.10.0 with previous version 0.9.0 dated 2015-07-02

Title: Hybrid Bayesian Networks Using R and JAGS
Description: Facilities for easy implementation of hybrid Bayesian networks using R. Bayesian networks are directed acyclic graphs representing joint probability distributions, where each node represents a random variable and each edge represents conditionality. The full joint distribution is therefore factorized as a product of conditional densities, where each node is assumed to be independent of its non-descendents given information on its parent nodes. Since exact, closed-form algorithms are computationally burdensome for inference within hybrid networks that contain a combination of continuous and discrete nodes, particle-based approximation techniques like Markov Chain Monte Carlo are popular. We provide a user-friendly interface to constructing these networks and running inference using the 'rjags' package. Econometric analyses (maximum expected utility under competing policies, value of information) involving decision and utility nodes are also supported.
Author: Jarrod E. Dalton <daltonj@ccf.org> and Benjamin Nutter <benjamin.nutter@gmail.com>
Maintainer: Benjamin Nutter <benjamin.nutter@gmail.com>

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Package HAC updated to version 1.0-4 with previous version 1.0-3 dated 2015-05-12

Title: Estimation, Simulation and Visualization of Hierarchical Archimedean Copulae (HAC)
Description: Package provides the estimation of the structure and the parameters, sampling methods and structural plots of Hierarchical Archimedean Copulae (HAC).
Author: Ostap Okhrin <ostap.okhrin@tu-dresden.de> and Alexander Ristig <alexander.ristig@univie.ac.at>
Maintainer: Alexander Ristig <alexander.ristig@univie.ac.at>

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Package FWDselect updated to version 2.0.1 with previous version 2.0 dated 2015-05-17

Title: Selecting Variables in Regression Models
Description: A simple method to select the best model or best subset of variables using different types of data (binary, Gaussian or Poisson) and applying it in different contexts (parametric or non-parametric).
Author: Marta Sestelo [aut, cre], Nora M. Villanueva [aut], Javier Roca-Pardinas [aut]
Maintainer: Marta Sestelo <sestelo@uvigo.es>

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New package EloChoice with initial version 0.28
Package: EloChoice
Type: Package
Title: Preference Rating for Visual Stimuli Based on Elo Ratings
Version: 0.28
Date: 2015-10-11
Author: Christof Neumann
Maintainer: Christof Neumann <christofneumann1@gmail.com>
Description: Allows calculating global scores for characteristics of visual stimuli. Stimuli are presented as sequence of pairwise comparisons ('contests'), during each of which a rater expresses preference for one stimulus over the other. The algorithm for calculating global scores is based on Elo rating, which updates individual scores after each single pairwise contest. Elo rating is widely used to rank chess players according to their performance. Its core feature is that dyadic contests with expected outcomes lead to smaller changes of participants' scores than outcomes that were unexpected. As such, Elo rating is an efficient tool to rate individual stimuli when a large number of such stimuli are paired against each other in the context of experiments where the goal is to rank stimuli according to some characteristic of interest.
License: GPL (>= 2)
LinkingTo: Rcpp, RcppArmadillo
Imports: Rcpp
Suggests: xtable
Packaged: 2015-10-11 18:34:18 UTC; cn
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-10-12 00:41:44

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Package DescTools updated to version 0.99.14 with previous version 0.99.13 dated 2015-08-24

Title: Tools for Descriptive Statistics
Description: A collection of basic statistic functions and convenience wrappers for efficiently describing data. The author's intention was to create a toolbox, which facilitates the (notoriously time consuming) first descriptive tasks in data analysis, consisting of calculating descriptive statistics, drawing graphical summaries and reporting the results. The package contains furthermore functions to produce documents using MS Word (or PowerPoint) and functions to import data from Excel. Many of the included functions can be found scattered in other packages and other sources written partly by Titans of R. The reason for collecting them here, was primarily to have them consolidated in ONE instead of dozens of packages (which themselves might depend on other packages which are not needed at all), and to provide a common and consistent interface as far as function and arguments naming, NA handling, recycling rules etc. are concerned. Google style guides were used as naming rules (in absence of convincing alternatives). The 'camel style' was consequently applied to functions borrowed from contributed R packages as well.
Author: Andri Signorell. Includes R source code and/or documentation previously published by (in alphabetical order): Ken Aho, Nanina Anderegg, Tomas Aragon, Antti Arppe, Adrian Baddeley, Ben Bolker, Frederico Caeiro, Stephane Champely, Daniel Chessel, Leanne Chhay, Clint Cummins, Michael Dewey, Harold C. Doran, Stephane Dray, Charles Dupont, Dirk Eddelbuettel, Jeff Enos, Claus Ekstrom, Martin Elff, Richard W. Farebrother, John Fox, Michael Friendly, Tal Galili, Matthias Gamer, Joseph L. Gastwirth, Yulia R. Gel, Juergen Gross, Gabor Grothendieck, Frank E. Harrell Jr, Richard Heiberger, Michael Hoehle, Christian W. Hoffmann, Torsten Hothorn, Markus Huerzeler, Wallace W. Hui, Pete Hurd, Rob J. Hyndman, Pablo J. Villacorta Iglesias, Matthias Kohl, Mikko Korpela, Max Kuhn, Detlew Labes, Friederich Leisch, Jim Lemon, Dong Li, Martin Maechler, Arni Magnusson, Daniel Malter, George Marsaglia, John Marsaglia, Alina Matei, David Meyer, Weiwen Miao, Giovanni Millo, Yongyi Min, David Mitchell, Markus Naepflin, Daniel Navarro, Klaus Nordhausen, Derek Ogle, Hong Ooi, Nick Parsons, Sandrine Pavoine, Tony Plate, Roland Rapold, William Revelle, Tyler Rinker, Brian D. Ripley, Caroline Rodriguez, Venkatraman E. Seshan, Greg Snow, Michael Smithson, Werner A. Stahel, Mark Stevenson, Terry Therneau, Yves Tille, Adrian Trapletti, Kevin Ushey, Jeremy VanDerWal, Bill Venables, John Verzani, Gregory R. Warnes, Stefan Wellek, Rand R. Wilcox, Peter Wolf, Daniel Wollschlaeger, Thomas Yee, Achim Zeileis
Maintainer: Andri Signorell <andri@signorell.net>

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Package COMMUNAL updated to version 1.1.0 with previous version 1.0 dated 2015-02-11

Title: Robust Selection of Cluster Number K
Description: Facilitates optimal clustering of a data set. Provides a framework to run a wide range of clustering algorithms to determine the optimal number (k) of clusters in the data. Then analyzes the cluster assignments from each clustering algorithm to identify samples that repeatedly classify to the same group. We call these 'core clusters', providing a basis for later class discovery.
Author: Albert Chen [aut, cre], Timothy E Sweeney [aut], Olivier Gevaert [ths]
Maintainer: Albert Chen <acc2015@stanford.edu>

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Package blocksdesign updated to version 1.8 with previous version 1.7 dated 2015-08-21

Title: Nested Block Designs for Unstructured Treatments
Description: Nested block designs for unstructured treatment sets where blocks can be repeatedly nested and treatments can have different levels of replication. Blocks are optimized hierarchically from the top down with each set of nested blocks optimized within the levels of any existing higher-level blocks. Block sizes are equal if the number of blocks exactly divides the number of plots, otherwise they differ by at most one plot. The design output is a data table giving a randomised allocation of treatments to blocks together with a plan table showing treatments in blocks and a set of blocks-by-treatments incidence matrices, one for each blocks stratum.
Author: R. N. Edmondson
Maintainer: Rodney Edmondson <rodney.edmondson@gmail.com>

Diff between blocksdesign versions 1.7 dated 2015-08-21 and 1.8 dated 2015-10-11

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Package sets updated to version 1.0-16 with previous version 1.0-15 dated 2015-07-08

Title: Sets, Generalized Sets, Customizable Sets and Intervals
Description: Data structures and basic operations for ordinary sets, generalizations such as fuzzy sets, multisets, and fuzzy multisets, customizable sets, and intervals.
Author: David Meyer [aut, cre], Kurt Hornik [aut], Christian Buchta [ctb]
Maintainer: David Meyer <David.Meyer@R-project.org>

Diff between sets versions 1.0-15 dated 2015-07-08 and 1.0-16 dated 2015-10-11

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Package relations updated to version 0.6-6 with previous version 0.6-5 dated 2015-04-30

Title: Data Structures and Algorithms for Relations
Description: Data structures and algorithms for k-ary relations with arbitrary domains, featuring relational algebra, predicate functions, and fitters for consensus relations.
Author: David Meyer [aut], Kurt Hornik [aut, cre], Christian Buchta [ctb]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>

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Package viridis updated to version 0.3.1 with previous version 0.3 dated 2015-10-11

Title: Matplotlib Default Color Map
Description: Port of the new 'matplotlib' color maps ('viridis' - the default -, 'magma', 'plasma' and 'inferno') to 'R'. 'matplotlib' <http://matplotlib.org/> is a popular plotting library for 'python'. These color maps are designed in such a way that they will analytically be perfectly perceptually-uniform, both in regular form and also when converted to black-and-white. They are also designed to be perceived by readers with the most common form of color blindness.
Author: Simon Garnier [aut, cre], Noam Ross [ctb, cph] (Continuous scale), Bob Rudis [ctb, cph] (Combined scales)
Maintainer: Simon Garnier <garnier@njit.edu>

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New package tigris with initial version 0.1
Package: tigris
Type: Package
Title: Load Census TIGER/Line Shapefiles into R
Version: 0.1
Date: 2015-10-11
Authors@R: c( person(given="Kyle", family="Walker", email="kyle.walker@tcu.edu", role=c("aut", "cre")), person(given="Bob", family="Rudis", email="bob@rudis.net", role="ctb") )
Description: Download TIGER/Line shapefiles from the United States Census Bureau and load into R as Spatial DataFrames.
License: MIT + file LICENSE
LazyData: TRUE
Depends: R (>= 3.0.0)
Suggests: acs, testthat, dplyr, ggplot2, ggthemes, leaflet, knitr
Imports: stringr, magrittr, rgdal, rgeos, sp, utils, rappdirs, maptools, httr, uuid
NeedsCompilation: no
Packaged: 2015-10-11 15:28:46 UTC; KyleWalker
Author: Kyle Walker [aut, cre], Bob Rudis [ctb]
Maintainer: Kyle Walker <kyle.walker@tcu.edu>
Repository: CRAN
Date/Publication: 2015-10-11 18:45:36

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New package prettymapr with initial version 0.1.1
Package: prettymapr
Type: Package
Title: Scale Bar, North Arrow, and Pretty Margins in R
Version: 0.1.1
Date: 2015-10-11
Author: Dewey Dunnington <dewey@fishandwhistle.net>
Maintainer: Dewey Dunnington <dewey@fishandwhistle.net>
Description: Automates the process of creating a scale bar and north arrow in any package that uses base graphics to plot in R. Bounding box tools help find and manipulate extents. Finally, there is a function to automate the process of setting margins, plotting the map, scalebar, and north arrow, and resetting graphic parameters upon completion.
License: GPL-2
LazyData: TRUE
Imports: sp, rgdal, digest, rjson
Suggests: maptools, raster
NeedsCompilation: no
Packaged: 2015-10-11 15:47:54 UTC; dewey
Repository: CRAN
Date/Publication: 2015-10-11 18:45:33

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New package preprocomb with initial version 0.1.0
Package: preprocomb
Type: Package
Title: Tools for Preprocessing Combinations
Version: 0.1.0
Date: 2015-10-11
Author: Markus Vattulainen
Maintainer: Markus Vattulainen <markus.vattulainen@gmail.com>
Description: Preprocessing is often the most time-consuming phase in knowledge discovery and preprocessing transformations interdependent in unexpected ways. This package helps to make preprocessing faster and more effective. It provides an S4 framework for creating and testing preprocessing combinations for classification, clustering and outlier detection. The framework supports user-defined and domain-specific preprocessors and preprocessing phases. Default preprocessors can be used for low variance removal, missing value imputation, scaling, outlier removal, noise smoothing, feature selection and class imbalance correction.
License: GPL-2
Imports: DMwR, randomForest, caret, caretEnsemble, methods, clustertend, e1071, stats, utils
LazyData: TRUE
URL: https://github.com/mvattulainen/preprocomb
BugReports: https://github.com/mvattulainen/preprocomb/issues
Collate: '00Utils.R' '01DataClass.R' '02PhaseClass.R' '03BaseClass.R' '04GridClass.R' '05PredictionControlClass.R' '06PreProCombClass.R'
Suggests: kernlab
NeedsCompilation: no
Packaged: 2015-10-11 16:21:20 UTC; Markus
Repository: CRAN
Date/Publication: 2015-10-11 18:45:27

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Package gitter updated to version 1.1.1 with previous version 1.1 dated 2015-10-09

Title: Quantification of Pinned Microbial Cultures
Description: The goal of this package is to allow users to robustly and quickly grid and quantify sizes of pinned colonies in plate images. gitter works by first finding the grid of colonies from a preprocessed image and then locating the bounds of each colony separately. It includes several image pre-processing techniques, such as autorotation of plates, noise removal, contrast adjustment and image resizing.
Author: Omar Wagih, Leopold Parts
Maintainer: Omar Wagih <wagih@ebi.ac.uk>

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Package aoos updated to version 0.4.0 with previous version 0.3.0 dated 2015-08-06

Title: Another Object Orientation System
Description: Another implementation of object-orientation in R. It provides syntactic sugar for the S4 class system and two alternative new implementations. One is an experimental version built around S4 and the other one makes it more convenient to work with lists as objects.
Author: Sebastian Warnholz [aut, cre]
Maintainer: Sebastian Warnholz <wahani@gmail.com>

Diff between aoos versions 0.3.0 dated 2015-08-06 and 0.4.0 dated 2015-10-11

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New package sodium with initial version 0.1
Package: sodium
Type: Package
Title: A Modern and Easy-to-Use Crypto Library
Version: 0.1
Author: Jeroen Ooms
Maintainer: Jeroen Ooms <jeroen.ooms@stat.ucla.edu>
Description: Bindings to libsodium: a modern, easy-to-use software library for encryption, decryption, signatures, password hashing and more. Sodium uses curve25519, a state-of-the-art Diffie-Hellman function by Daniel Bernstein, which has become very popular after it was discovered that the NSA had backdoored Dual EC DRBG.
License: MIT + file LICENSE
URL: https://github.com/jeroenooms/sodium https://download.libsodium.org/doc/
BugReports: https://github.com/jeroenooms/sodium/issues
SystemRequirements: libsodium
NeedsCompilation: yes
Packaged: 2015-10-11 12:50:59 UTC; jeroen
Repository: CRAN
Date/Publication: 2015-10-11 17:09:18

More information about sodium at CRAN
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New package SACCR with initial version 1.0
Package: SACCR
Type: Package
Title: SA Counterparty Credit Risk under Basel III
Version: 1.0
Date: 2015-09-04
Author: Tasos Grivas
Maintainer: Tasos Grivas <info@openriskcalculator.com>
Description: Computes the Exposure-At-Default based on standardized approach of the Basel III Regulatory framework (SA-CCR). For the generation of the trades an object-oriented solution has been created.
License: GPL-3
Imports: methods
URL: www.openriskcalc.com
Collate: 'CalcAddon.R' 'CalcEAD.R' 'CalcPFE.R' 'CalcRC.R' 'Trade.R' 'Commodity.R' 'Credit.R' 'ExampleComm.R' 'ExampleCredit.R' 'ExampleFX.R' 'ExampleIRD.R' 'ExampleIRDCredit.R' 'FX.R' 'IRD.R' 'LoadSupervisoryData.R' 'runExampleCalcs.R'
NeedsCompilation: no
Packaged: 2015-10-11 14:33:34 UTC; tasos
Repository: CRAN
Date/Publication: 2015-10-11 16:58:34

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Package qdapRegex updated to version 0.5.1 with previous version 0.5.0 dated 2015-08-16

Title: Regular Expression Removal, Extraction, and Replacement Tools
Description: A collection of regular expression tools associated with the 'qdap' package that may be useful outside of the context of discourse analysis. Tools include removal/extraction/replacement of abbreviations, dates, dollar amounts, email addresses, hash tags, numbers, percentages, citations, person tags, phone numbers, times, and zip codes.
Author: Jason Gray [ctb], Tyler Rinker [aut, cre]
Maintainer: Tyler Rinker <tyler.rinker@gmail.com>

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Package matchingMarkets updated to version 0.1-7 with previous version 0.1-6 dated 2015-10-06

Title: Analysis of Stable Matchings
Description: Implements structural estimators to correct for the sample selection bias from observed outcomes in matching markets. This includes one-sided matching of agents into groups as well as two-sided matching of students to schools. The package also contains R code for three matching algorithms: the deferred-acceptance (or Gale-Shapley) algorithm for stable marriage and college admissions problems, the top-trading-cycles algorithm for house allocation and a partitioning linear programme for the roommates problem.
Author: Thilo Klein
Maintainer: Thilo Klein <thilo@klein.uk>

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Package liftr updated to version 0.3 with previous version 0.2 dated 2015-07-31

Title: Dockerize R Markdown Documents
Description: Dockerize R Markdown documents with support for Rabix.
Author: Miaozhu Li [ctb], Tengfei Yin [ctb], Nan Xiao [aut, cre]
Maintainer: Nan Xiao <nanx@uchicago.edu>

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Package subspace (with last version 1.0.3) was removed from CRAN

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

2015-10-03 1.0.3

Permanent link
Package viridis updated to version 0.3 with previous version 0.2.5 dated 2015-09-14

Title: Matplotlib Default Color Map
Description: Port of the new Matplotlib default color map ('viridis') to R. This color map is designed in such a way that it will analytically be perfectly perceptually-uniform, both in regular form and also when converted to black-and-white. It is also designed to be perceived by readers with the most common form of color blindness.
Author: Simon Garnier [aut, cre], Noam Ross [ctb, cph] (Continuous scale), Bob Rudis [ctb, cph] (Combined scales)
Maintainer: Simon Garnier <garnier@njit.edu>

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Package RNeo4j updated to version 1.6.0 with previous version 1.5.1 dated 2015-09-11

Title: Neo4j Driver for R
Description: Neo4j, a graph database, allows users to store their data as a property graph. A graph consists of nodes that are connected by relationships; both nodes and relationships can have properties, or key-value pairs. RNeo4j is Neo4j's R driver. It allows users to read and write data from and to Neo4j directly from their R environment by exposing an interface for interacting with nodes, relationships, paths, and more. Most notably, it allows users to retrieve Cypher query results as R data frames, where Cypher is Neo4j's graph query language. Visit <http://www.neo4j.com> to learn more about Neo4j.
Author: Nicole White
Maintainer: Nicole White <nicole@neo4j.com>

Diff between RNeo4j versions 1.5.1 dated 2015-09-11 and 1.6.0 dated 2015-10-11

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Package PRIMsrc updated to version 0.6.1 with previous version 0.6.0 dated 2015-09-16

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 <jxd101@case.edu>

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Package networkD3 updated to version 0.2.6 with previous version 0.2.4 dated 2015-10-02

Title: D3 JavaScript Network Graphs from R
Description: Creates 'D3' 'JavaScript' network, tree, dendrogram, and Sankey graphs from 'R'.
Author: Christopher Gandrud [aut, cre], J.J. Allaire [aut], Kenton Russell [aut], B.W. Lewis [ctb], Kevin Kuo [ctb], Charles Sese [ctb], Peter Ellis [ctb], Jonathan Owen [ctb], Jennifer Rogers [ctb]
Maintainer: Christopher Gandrud <christopher.gandrud@gmail.com>

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Package irlba updated to version 2.0.0 with previous version 1.0.3 dated 2014-01-25

Title: Fast Truncated SVD, PCA and Symmetric Eigendecomposition for Large Dense and Sparse Matrices
Description: Fast and memory efficient methods for truncated singular and eigenvalue decompositions and principal component analysis of large sparse or dense matrices.
Author: Jim Baglama and Lothar Reichel
Maintainer: Bryan W. Lewis <blewis@illposed.net>

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 irlba-2.0.0/irlba/inst/doc/irlba.Rnw   |  194 ++++++----
 irlba-2.0.0/irlba/inst/doc/irlba.pdf   |binary
 irlba-2.0.0/irlba/man/irlba.Rd         |  191 +++++++---
 irlba-2.0.0/irlba/man/partial_eigen.Rd |only
 irlba-2.0.0/irlba/tests/test.R         |   86 ++--
 irlba-2.0.0/irlba/vignettes/irlba.Rnw  |  194 ++++++----
 16 files changed, 850 insertions(+), 491 deletions(-)

More information about irlba at CRAN
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Package caret updated to version 6.0-57 with previous version 6.0-52 dated 2015-07-17

Title: Classification and Regression Training
Description: Misc functions for training and plotting classification and regression models.
Author: Max Kuhn. Contributions from Jed Wing, Steve Weston, Andre Williams, Chris Keefer, Allan Engelhardt, Tony Cooper, Zachary Mayer, Brenton Kenkel, the R Core Team, Michael Benesty, Reynald Lescarbeau, Andrew Ziem, Luca Scrucca, Yuan Tang and Can Candan.
Maintainer: Max Kuhn <Max.Kuhn@pfizer.com>

Diff between caret versions 6.0-52 dated 2015-07-17 and 6.0-57 dated 2015-10-11

 DESCRIPTION                         |   23 -
 MD5                                 |   73 +--
 NAMESPACE                           |    5 
 R/aaa.R                             |  417 ++++++++++--------
 R/adaptive.R                        |   14 
 R/confusionMatrix.R                 |    4 
 R/createDataPartition.R             |    1 
 R/createFolds.R                     |    3 
 R/createResample.R                  |    4 
 R/ggplot.R                          |   99 ++++
 R/lift.R                            |    1 
 R/misc.R                            |  101 +---
 R/modelLookup.R                     |   40 +
 R/preProcess.R                      |  817 ++++++++++++++++++++++++------------
 R/print.train.R                     |   75 ++-
 R/reg_sims.R                        |   15 
 R/rfe.R                             |   42 -
 R/train.default.R                   |   44 +
 R/trainControl.R                    |    4 
 R/updates.R                         |    4 
 R/varImp.R                          |  129 +----
 R/workflows.R                       |    7 
 build/vignette.rds                  |binary
 inst/NEWS.Rd                        |   28 +
 inst/doc/caret.pdf                  |binary
 inst/models/models.RData            |binary
 man/confusionMatrix.Rd              |    2 
 man/extractPrediction.Rd            |    2 
 man/plot.rfe.Rd                     |    2 
 man/plot.train.Rd                   |    2 
 man/postResample.Rd                 |    9 
 man/preProcess.Rd                   |   19 
 man/sensitivity.Rd                  |    2 
 man/train.Rd                        |    7 
 man/trainControl.Rd                 |   11 
 man/twoClassSim.Rd                  |   24 -
 tests/testthat/preProcess_methods.R |only
 vignettes/caret.Rnw                 |    2 
 38 files changed, 1248 insertions(+), 784 deletions(-)

More information about caret at CRAN
Permanent link


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