Fri, 30 Jan 2015

Package stylo updated to version 0.5.9 with previous version 0.5.8-2 dated 2014-10-19

Title: Functions for a Variety of Stylometric Analyses
Description: A number of functions, supplemented by GUI, to perform various analyses in the field of computational stylistics, authorship attribution, etc.
Author: Maciej Eder, Jan Rybicki, Mike Kestemont
Maintainer: Maciej Eder

Diff between stylo versions 0.5.8-2 dated 2014-10-19 and 0.5.9 dated 2015-01-30

 DESCRIPTION                |    8 ++++----
 MD5                        |   30 +++++++++++++++---------------
 NEWS                       |    9 +++++++++
 R/assign.plot.colors.R     |    2 +-
 R/classify.R               |    3 +--
 R/define.plot.area.R       |    2 +-
 R/draw.polygons.R          |    2 +-
 R/gui.classify.R           |   16 ++++++++--------
 R/gui.oppose.R             |    3 +--
 R/gui.stylo.R              |   16 ++++++++--------
 R/load.corpus.and.parse.R  |   10 ++++++----
 R/make.samples.R           |    2 +-
 R/oppose.R                 |    3 +--
 R/rolling.classify.r       |    1 -
 R/stylo.R                  |    3 +--
 R/stylo.default.settings.R |    6 ++----
 16 files changed, 60 insertions(+), 56 deletions(-)

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New package kissmig with initial version 1.0-3
Package: kissmig
Type: Package
Title: a Keep It Simple Species Migration Model
Version: 1.0-3
Date: 2014-12-09
Depends: raster, R (>= 2.15.0)
Authors@R: c( person("Michael P.", "Nobis", role = c("cre", "aut"), email = "michael.nobis@wsl.ch"), person("Signe", "Normand", role = "ctb"))
Author: Michael P. Nobis [cre, aut], Signe Normand [ctb]
Maintainer: Michael P. Nobis
Description: Simulating species migration and range dynamics under stable or changing environmental conditions based on a simple, raster-based, stochastic migration model. Providing accessibility for considering species migration in niche-based species distribution models.
License: GPL (>= 3)
URL: http://purl.oclc.org/wsl/kissmig
Packaged: 2014-12-09 12:18:20 UTC; nobis
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-01-30 22:40:57

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New package fitbitScraper with initial version 0.1.1
Package: fitbitScraper
Title: Scrapes Data From Fitbit.com
Version: 0.1.1
Author: Cory Nissen [aut, cre]
Maintainer: Cory Nissen
Description: Scrapes data from fitbit.com. This does not use the official API, but instead uses the API that the web dashboard uses to generate the graphs displayed on the dashboard after login at www.fitbit.com.
Depends: R (>= 3.0.0)
License: MIT + file LICENSE
LazyData: true
Imports: httr, stringr, RJSONIO
URL: https://github.com/corynissen/fitbitScraper
Packaged: 2015-01-24 23:28:43 UTC; c
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-01-30 22:56:39

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Package GSIF updated to version 0.4-4 with previous version 0.4-3 dated 2014-12-09

Title: Global Soil Information Facilities
Description: Global Soil Information Facilities - tools (standards and functions) and sample datasets for global soil mapping.
Author: Tomislav Hengl [cre, aut], Bas Kempen [ctb], Gerard Heuvelink [ctb], Brendan Malone [ctb]
Maintainer: Tomislav Hengl

Diff between GSIF versions 0.4-3 dated 2014-12-09 and 0.4-4 dated 2015-01-30

 DESCRIPTION            |   22 ++--
 MD5                    |   57 +++++-----
 NAMESPACE              |   11 --
 R/AAAA.R               |   14 +-
 R/AWCPTF.R             |    4 
 R/LRI.R                |only
 R/MaxEnt.R             |   19 +--
 R/RESTSoilGrids.R      |   63 ++++++------
 R/WPSworldgrids.R      |  141 +++++++++++++--------------
 R/as.data.frame.R      |   47 ++++-----
 R/as.geosamples.R      |  225 +++++++++++++++++++++----------------------
 R/extract.list.R       |  139 ++++++++++++++------------
 R/fit.regModel.R       |  127 +++++++++++++-----------
 R/fit.vgmModel.R       |   12 +-
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 31 files changed, 764 insertions(+), 676 deletions(-)

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New package EcoGenetics with initial version 1.0
Package: EcoGenetics
Type: Package
Title: Analysis of Phenotypic, Genotypic and Environmental Data
Version: 1.0
Date: 2015-01-13
Author: Leandro Roser, Juan Vilardi, Beatriz Saidman and Laura Ferreyra
Maintainer: Leandro Roser
Description: Analysis of phenotypic, genotypic, and environmental data with an object of class "ecogen", designed to make easy the integration of the available information from multiple sources. Extra functions are also included, such as conversion tools and processing methods for Landsat images.
License: GPL (>= 2)
LazyLoad: yes
Depends: R (>= 3.0), methods
Imports: adegenet, ggplot2, gstat, gstudio, hierfstat, party, raster, rgdal, rkt, sp, spdep, tcltk, vegan
Suggests: animation, ape, Geneland, seqinr
Collate: 'ZZZ.R' 'auxiliar.R' 'ecogen.definition.R' 'other.classes.R' 'coordinates.R' 'eco.2columns.R' 'eco.2geneland.R' 'eco.2genepop.R' 'eco.2gstudio.R' 'eco.2hierfstat.R' 'eco.NDVI.R' 'eco.NDVI.post.R' 'eco.R' 'eco.alfreq.R' 'eco.append.R' 'eco.association.R' 'eco.autocor.R' 'eco.boothet.R' 'eco.cbind.R' 'eco.char2num.R' 'eco.clear.R' 'eco.lmtree.R' 'eco.merge.R' 'eco.order.R' 'eco.pairtest.R' 'eco.post.geneland.R' 'eco.rarefact.R' 'eco.rbind.R' 'eco.remove.R' 'eco.rescale.R' 'eco.sortalleles.R' 'eco.subset.R' 'eco.theilsen.R' 'eco.variogram.R' 'environment.R' 'genotype.R' 'phenotype.R' 'structure.R' 'tab.R'
NeedsCompilation: no
Packaged: 2015-01-30 15:10:26 UTC; amadeus-PC
Repository: CRAN
Date/Publication: 2015-01-30 17:40:06

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Package copBasic updated to version 1.7.1 with previous version 1.7.0 dated 2015-01-03

Title: General Copula Theory and Many Utility Functions
Description: Extensive functions for copula computations and related mathematical operations are given that are oriented around the oft cited and fundamental copula theory described by Nelsen (2006), Joe (2015), and other selected works. The lower, upper, product, and select other copulas are implemented. Individual copula functional support is intentionally limited to keep the package focused on an API to general copula theory. Expressions available for an arbitrary copula include the diagonal of a copula, the survival copula, the dual of a copula, co-copula, and numerical copula density. Level curves (sets) are available. Horizontal and vertical copula sections and derivatives of such sections also are supported. The numerical derivatives of a copula are provided as well as inverses; functions for copula simulation thus are supported. Composition of copulas is provided: (1) composition of a single copula using two composition parameters, (2) composition of two copulas using two composition parameters, (3) composition of two copulas using four composition parameters, and (4) random variates of composited copulas. Characteristics of copulas include Kendall Tau, Spearman Rho, Gini Gamma, Blomqvist Beta, and Schweizer-Wolff Sigma, tail dependency, and tail order. Logical evaluators of positively/negatively quadrant dependency, left-tail decreasing, and right-tail increasing also are available. The Kullback-Leibler divergence and Vuong's Procedure to support inference are available. Quantile and median regression for V with respect to U and U with respect to V is available. Empirical copulas (EC) are supported. ECs are dependent on gridded data structures for which generation capability is provided. The derivatives of the EC grid are computable. Also, the inverses of the derivatives, which are the conditional QDFs of copula sections also are computable. Median and quantile regression of an EC also is supported along with support for EC simulation of V conditional on U.
Author: William Asquith
Maintainer: William Asquith

Diff between copBasic versions 1.7.0 dated 2015-01-03 and 1.7.1 dated 2015-01-30

 ChangeLog     |    4 ++++
 DESCRIPTION   |    8 ++++----
 MD5           |    6 +++---
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 4 files changed, 19 insertions(+), 14 deletions(-)

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Package shinyFiles updated to version 0.5.0 with previous version 0.4.0 dated 2014-09-23

Title: A server-side file system viewer for shiny
Description: Provides functionality for client-side navigation of the server side file system in shiny apps. In case the app is running locally this gives the user direct access to the file system without the need to "download" files to a temporary location.
Author: Thomas Lin Pedersen
Maintainer: Thomas Lin Pedersen

Diff between shinyFiles versions 0.4.0 dated 2014-09-23 and 0.5.0 dated 2015-01-30

 DESCRIPTION              |   10 +++----
 MD5                      |   22 ++++++++--------
 NAMESPACE                |    2 -
 inst/example/server.R    |    4 +-
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 inst/www/styles.css      |   14 +++++-----
 man/fileGetter.Rd        |    3 +-
 man/getVolumes.Rd        |    3 +-
 man/parseFilePaths.Rd    |    3 +-
 man/shinyFileChoose.Rd   |    3 +-
 man/shinyFilesButton.Rd  |    3 +-
 man/shinyFilesExample.Rd |    3 +-
 12 files changed, 95 insertions(+), 38 deletions(-)

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New package ppmlasso with initial version 1.1
Package: ppmlasso
Type: Package
Title: Point Process Models with LASSO Penalties
Version: 1.1
Date: 2015-01-30
Author: Ian Renner
Maintainer: Ian Renner
Description: Toolkit for fitting point process models with sequences of LASSO penalties ("regularisation paths"). Regularisation paths of Poisson point process models or area-interaction models can be fitted with LASSO, adaptive LASSO or elastic net penalties. A number of criteria are available to judge the bias-variance tradeoff.
License: GPL-3
Depends: R (>= 3.0.0), spatstat (>= 1.40-0)
Imports: methods
Packaged: 2015-01-30 12:20:07 UTC; Gwen
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-01-30 13:34:19

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Package mvoutlier updated to version 2.0.6 with previous version 2.0.5 dated 2014-06-23

Title: Multivariate outlier detection based on robust methods
Description: various methods for multivariate outlier detection.
Author: Peter Filzmoser and Moritz Gschwandtner
Maintainer: Peter Filzmoser

Diff between mvoutlier versions 2.0.5 dated 2014-06-23 and 2.0.6 dated 2015-01-30

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New package GOplot with initial version 1.0
Package: GOplot
Type: Package
Title: Visualization Of Functional Analysis Data
Version: 1.0
Date: 2015-01-27
Author: Wencke Walter, Fatima Sanchez-Cabo
Maintainer: Wencke Walter
Description: Implementation of multilayered visualizations for enhanced graphical representation of functional analysis data. It combines and integrates omics data derived from expression and functional annotation enrichment analyses. Its plotting functions have been developed with an hierarchical structure in mind: starting from a general overview to identify the most enriched categories (modified bar plot, bubble plot) to a more detailed one displaying different types of relevant information for the molecules in a given set of categories (circle plot, chord plot, cluster plot).
Depends: ggplot2, ggdendro, grid, gridExtra, RColorBrewer, R (>= 3.0.3)
License: GPL-2
Suggests: knitr
VignetteBuilder: knitr
LazyData: TRUE
NeedsCompilation: no
Packaged: 2015-01-30 08:12:02 UTC; wwalter
Repository: CRAN
Date/Publication: 2015-01-30 12:56:15

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Package npIntFactRep (with last version 1.0) was removed from CRAN

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

2015-01-21 1.0

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Package compLasso (with last version 0.0-1) was removed from CRAN

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

2015-01-21 0.0-1

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Package SmarterPoland updated to version 1.5 with previous version 1.2 dated 2013-03-18

Title: Tools for Accessing Various Datasets Developed by the Foundation SmarterPoland.pl
Description: Tools for accessing and processing datasets presented on the blog SmarterPoland.pl. Among all: functions for downloading data from eurostat database, coordinates from Google Maps and data from GUS (Central Statistical Office of Poland).
Author: Przemyslaw Biecek (Foundation SmarterPoland.pl)
Maintainer: Przemyslaw Biecek

Diff between SmarterPoland versions 1.2 dated 2013-03-18 and 1.5 dated 2015-01-30

 DESCRIPTION                  |   16 +++---
 MD5                          |   42 +++++++++++-------
 NAMESPACE                    |   13 ++++-
 R/BankDanychLokalnych.R      |only
 R/getEurostatDictionary.R    |    8 +--
 R/getEurostatRCV.R           |   31 ++++++-------
 R/getEurostatRaw.R           |   42 ++++++++++--------
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Package rockchalk updated to version 1.8.91 with previous version 1.8.86 dated 2014-08-13

Title: Regression Estimation and Presentation
Description: A collection of functions for ease of presentation and interpretation of regression analysis. These functions are used to produce the statistics lectures in http://pj.freefaculty.org/guides. There are functions to explore the effect (or lack thereof) from "mean centering," "residual centering", and standardization. The vignette "rockchalk" offers a fairly comprehensive overview. The vignette "Rstyle" has advice about coding in R. See the outreg function for a convenient way to generate regression models for reports. For nice, easy to use pictures, see plotSlopes, plotCurves, plotPlane. The package title "rockchalk" refers to our school motto, "Rock Chalk Jayhawk, Go K.U.".
Author: Paul E. Johnson
Maintainer: Paul E. Johnson

Diff between rockchalk versions 1.8.86 dated 2014-08-13 and 1.8.91 dated 2015-01-30

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New package randomizr with initial version 0.2.0
Package: randomizr
Title: Easy to Use Tools for Common Forms of Random Assignment
Version: 0.2.0
Authors@R: person("Alexander", "Coppock", role = c("aut", "cre"), email = "ac3242@columbia.edu")
Description: Generates random assignments for common experimental designs: simple, complete, blocked, and clustered.
Depends: R (>= 3.1.0)
License: GPL-3
LazyData: true
Packaged: 2015-01-29 21:46:41 UTC; Alex
Author: Alexander Coppock [aut, cre]
Maintainer: Alexander Coppock
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-01-30 08:53:39

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Package P2C2M updated to version 0.6 with previous version 0.5 dated 2014-10-24

Title: Posterior Predictive Checks of Coalescent Models
Description: P2C2M is an R package to conduct posterior predictive checks of coalescent models using gene and species trees generated by BEAST or *BEAST. The functionality of P2C2M can be extended via two third-party R packages that are available from the author websites only: genealogicalSorting (http://www.genealogicalsorting.org) and phybase (http://odyssey.bioinformatics.uga.edu/~lliu/phybase/). To use these optional packages, the installation of the Python libraries NumPy (>= 1.9.0) and DendroPy (= 3.12.0) is required.
Author: Michael Gruenstaeudl, Noah Reid
Maintainer: Michael Gruenstaeudl

Diff between P2C2M versions 0.5 dated 2014-10-24 and 0.6 dated 2015-01-30

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Package DiagrammeR updated to version 0.4 with previous version 0.1 dated 2015-01-09

Title: Create Diagrams and Flowcharts Using R
Description: With the DiagrammeR package, you can create diagrams and flowcharts using R. Markdown-like text is used to describe a diagram and, by doing this in R, we can also add some R code into the mix and integrate these diagrams in the R console, through R Markdown, and in shiny apps.
Author: knsv [aut, cph] (mermaid.js library in htmlwidgets/lib, http://github.com/knsv/mermaid/), Mike Bostock [aut, cph] (d3.js library in htmlwidgets/lib, http://d3js.org), Chris Pettitt [aut, cph] (dagre-d3.js library in htmlwidgets/lib, http://github.com/cpettitt/dagre-d3), mdaines [aut, cph] (viz.js library in htmlwidgets/lib, http://github.com/mdaines/viz.js/), Richard Iannone [aut, cre] (R interface)
Maintainer: Richard Iannone

Diff between DiagrammeR versions 0.1 dated 2015-01-09 and 0.4 dated 2015-01-30

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More information about DiagrammeR at CRAN
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Package dataRetrieval updated to version 2.1.1 with previous version 2.1.0 dated 2014-12-17

Title: Retrieval Functions for USGS and EPA Hydrologic and Water Quality Data
Description: Collection of functions to help retrieve U.S. Geological Survey (USGS) and U.S. Environmental Protection Agency (EPA) water quality and hydrology data from web services. USGS web services are discovered from the National Water Information Services (NWIS) tools found here: http://waterservices.usgs.gov/ Both EPA and USGS water quality data are obtained from the Water Quality Portal found here: http://www.waterqualitydata.us/portal.jsp
Author: Robert Hirsch [aut], Laura DeCicco [aut, cre], David Lorenz [aut]
Maintainer: Laura DeCicco

Diff between dataRetrieval versions 2.1.0 dated 2014-12-17 and 2.1.1 dated 2015-01-30

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 49 files changed, 302 insertions(+), 148 deletions(-)

More information about dataRetrieval at CRAN
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Package climdex.pcic updated to version 1.1-5 with previous version 1.1-4 dated 2014-11-19

Title: PCIC Implementation of Climdex Routines
Description: PCIC's implementation of Climdex routines for computation of extreme climate indices.
Author: David Bronaugh for the Pacific Climate Impacts Consortium
Maintainer: James Hiebert

Diff between climdex.pcic versions 1.1-4 dated 2014-11-19 and 1.1-5 dated 2015-01-30

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Package circlize updated to version 0.2.2 with previous version 0.2.1 dated 2015-01-08

Title: Circular Visualization in R
Description: This package implements circular visualization (http://circos.ca/) in R. Due to the natural born feature of R to draw statistical graphics, this package can provide a more general and flexible way to visualize huge information in a circular style.
Author: Zuguang Gu
Maintainer: Zuguang Gu

Diff between circlize versions 0.2.1 dated 2015-01-08 and 0.2.2 dated 2015-01-30

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More information about circlize at CRAN
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Package brewdata updated to version 0.4 with previous version 0.3 dated 2015-01-28

Title: Extracting Usable Data from the Grad Cafe Results Search
Description: Retrieves and parses graduate admissions survey data from the Grad Cafe website (http://thegradcafe.com).
Author: Nathan Welch
Maintainer: Nathan Welch

Diff between brewdata versions 0.3 dated 2015-01-28 and 0.4 dated 2015-01-30

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More information about brewdata at CRAN
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