Sun, 01 Mar 2015

New package PogromcyDanych with initial version 1.5
Package: PogromcyDanych
Type: Package
Title: PogromcyDanych / DataCrunchers is the Masive Online Open Course that Brings R and Statistics to the People
Version: 1.5
Date: 2015-02-05
Author: Przemyslaw Biecek
Maintainer: Przemyslaw Biecek
Description: The data sets used in the online course ,,PogromcyDanych''. You can process data in many ways. The course Data Crunchers will introduce you to this variety. For this reason we will work on datasets of different size (from several to several hundred thousand rows), with various level of complexity (from two to two thousand columns) and prepared in different formats (text data, quantitative data and qualitative data). All of these data sets were gathered in a single big package called PogromcyDanych to facilitate access to them. It contains all sorts of data sets such as data about offer prices of cars, results of opinion polls, information about changes in stock market indices, data about names given to newborn babies, ski jumping results or information about outcomes of breast cancer patients treatment.
LazyLoad: yes
LazyData: yes
License: GPL-3
Depends: R (>= 3.0), dplyr, SmarterPoland
Packaged: 2015-02-27 08:10:32 UTC; pbiecek
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-03-02 00:56:05

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Package MazamaSpatialUtils updated to version 0.2.2 with previous version 0.2.1 dated 2015-02-22

Title: Mazama Science Spatial Data Download and Utility Functions
Description: A suite of conversion scripts to create internally standardized spatial polygons dataframes. Utility scripts use these datasets to return values such as country, state, timezone, watershed, etc. associated with a set of longitude/latitude pairs. (They also make cool maps.)
Author: Jonathan Callahan [aut, cre], Will Leahy [aut], Henry Nguyen [aut]
Maintainer: Jonathan Callahan

Diff between MazamaSpatialUtils versions 0.2.1 dated 2015-02-22 and 0.2.2 dated 2015-03-01

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Package HiClimR updated to version 1.1.6 with previous version 1.1.5 dated 2014-11-13

Title: Hierarchical Climate Regionalization
Description: A tool for hierarchical climate regionalization applicable to any correlation-based clustering. It adds several features and a new clustering method (called, regional linkage) to hierarchical clustering in R (`hclust` function in `stats` library): regridding, coarsening spatial resolution, geographic masking, data filtering by thresholds, data preprocessing (detrending, standardization, and PCA), faster correlation function, hybrid hierarchical clustering, and cluster validation.
Author: Hamada S. Badr [aut, cre], Benjamin F. Zaitchik [aut], Amin K. Dezfuli [aut]
Maintainer: Hamada S. Badr

Diff between HiClimR versions 1.1.5 dated 2014-11-13 and 1.1.6 dated 2015-03-01

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Package ggthemes updated to version 2.1.2 with previous version 2.1.0 dated 2014-12-18

Title: Extra Themes, Scales and Geoms for `ggplot2`
Description: Some extra themes, geoms, and scales for `ggplot2`.
Author: Jeffrey B. Arnold [aut, cre], Gergely Daroczi [ctb], Bo Werth [ctb], Brian Weitzner [ctb], Joshua Kunst [ctb], Baptise Auguie [ctb], Justin Talbot [ctb] (Some code from the labeling package)
Maintainer: Jeffrey B. Arnold

Diff between ggthemes versions 2.1.0 dated 2014-12-18 and 2.1.2 dated 2015-03-01

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Package archivist updated to version 1.3 with previous version 1.2 dated 2014-11-29

Title: Tools for Storing, Restoring and Searching for R Objects
Description: Data exploration and modelling is a process in which a lot of data artifacts are produced. Artifacts like: subsets, data aggregates, plots, statistical models, different versions of data sets and different versions of results. The more projects we work with the more artifacts are produced and the harder it is to manage these artifacts. Archivist helps to store and manage artifacts created in R. Archivist allows you to store selected artifacts as a binary files together with their metadata and relations. Archivist allows to share artifacts with others, either through shared folder or github. Archivist allows to look for already created artifacts by using it's class, name, date of the creation or other properties. Makes it easy to restore such artifacts. Archivist allows to check if new artifact is the exact copy that was produced some time ago. That might be useful either for testing or caching.
Author: Przemyslaw Biecek [aut, cre], Marcin Kosinski [aut]
Maintainer: Przemyslaw Biecek

Diff between archivist versions 1.2 dated 2014-11-29 and 1.3 dated 2015-03-01

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Package XLConnect updated to version 0.2-11 with previous version 0.2-10 dated 2015-01-25

Title: Excel Connector for R
Description: Provides comprehensive functionality to read, write and format Excel data.
Author: Mirai Solutions GmbH [aut], Martin Studer [cre], The Apache Software Foundation [ctb, cph] (Apache POI, Apache Commons Codec), Stephen Colebourne [ctb, cph] (Joda-Time Java library)
Maintainer: Martin Studer

Diff between XLConnect versions 0.2-10 dated 2015-01-25 and 0.2-11 dated 2015-03-01

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Package BinNonNor updated to version 1.2 with previous version 1.1 dated 2015-02-01

Title: Data Generation with Binary and Continuous Non-Normal Components
Description: Generation of multiple binary and continuous non-normal variables simultaneously given the marginal characteristics and association structure based on the methodology proposed by Demirtas et al. (2012).
Author: Gul Inan, Hakan Demirtas
Maintainer: Gul Inan

Diff between BinNonNor versions 1.1 dated 2015-02-01 and 1.2 dated 2015-03-01

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Package biomonCore (with last version 1.3.50) was removed from CRAN

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

2015-02-23 1.3.50

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Package isingLenzMC updated to version 0.2.3 with previous version 0.2.1 dated 2014-05-18

Title: Monte Carlo for Classical Ising Model
Description: Classical Ising Model is a land mark system in statistical physics. Model explains physics of spin glasses and magnetic materials, but used in many different context for example phase transitions and neural systems. This package provides utilities to simulate one dimensional Ising Model with Metropolis and Glauber Monte Carlo with single flip dynamics in periodic boundary conditions.
Author: Mehmet Suzen
Maintainer: Mehmet Suzen

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Package R.utils updated to version 2.0.0 with previous version 1.34.0 dated 2014-10-08

Title: Various Programming Utilities
Description: Utility functions useful when programming and developing R packages.
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson

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Package PoisBinOrd updated to version 1.1 with previous version 1.0 dated 2015-02-03

Title: Data Generation with Poisson, Binary and Ordinal Components
Description: Generation of multiple count, binary and ordinal variables simultaneously given the marginal characteristics and association structure. Throughout the package, the word 'Poisson' is used to imply count data under the assumption of Poisson distribution.
Author: Gul Inan, Hakan Demirtas
Maintainer: Gul Inan

Diff between PoisBinOrd versions 1.0 dated 2015-02-03 and 1.1 dated 2015-03-01

 DESCRIPTION                   |    8 ++++----
 MD5                           |   14 +++++++-------
 R/gen.PoisBinOrd.R            |   26 +++++++++++++++-----------
 R/intermediate.corr.PP.R      |    6 ++++--
 man/PoisBinOrd-package.Rd     |    9 +++++----
 man/gen.PoisBinOrd.Rd         |   10 ++++++----
 man/intermediate.corr.P_BO.Rd |    4 ++--
 man/validation.bin.Rd         |    6 +++---
 8 files changed, 46 insertions(+), 37 deletions(-)

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New package PoisBinNonNor with initial version 1.0
Package: PoisBinNonNor
Type: Package
Title: Data Generation with Poisson, Binary and Continuous Components
Version: 1.0
Date: 2015-03-01
Author: Gul Inan, Hakan Demirtas
Maintainer: Gul Inan
Description: Generation of multiple count, binary and continuous variables simultaneously given the marginal characteristics and association structure. Throughout the package, the word 'Poisson' is used to imply count data under the assumption of Poisson distribution.
License: GPL (>= 2)
Depends: BB, corpcor, Matrix, mvtnorm
Packaged: 2015-02-28 22:36:52 UTC; arcelik
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-03-01 08:16:14

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New package haven with initial version 0.1.0
Package: haven
Version: 0.1.0
Title: Import SPSS, Stata and SAS Files
Description: Import foreign statistical formats into R via the ReadStat C library. Package includes preliminary support for writing Stata and SPSS formats.
License: MIT + file LICENSE
Authors@R: c( person("Hadley", "Wickham", , "hadley@rstudio.com", role = c("aut", "cre")), person("Evan", "Miller", , role = c("aut", "cph"), comment = "Author of included ReadStat code"), person("RStudio", role = "cph") )
Depends: R (>= 3.1.0)
Suggests: dplyr, testthat, knitr
LinkingTo: Rcpp, BH
Imports: Rcpp (>= 0.11.4)
LazyData: true
URL: https://github.com/hadley/haven, https://github.com/WizardMac/ReadStat
BugReports: https://github.com/hadley/haven/issues
VignetteBuilder: knitr
Packaged: 2015-02-28 19:15:59 UTC; hadley
Author: Hadley Wickham [aut, cre], Evan Miller [aut, cph] (Author of included ReadStat code), RStudio [cph]
Maintainer: Hadley Wickham
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-03-01 08:18:16

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Package gendata updated to version 1.1 with previous version 1.0 dated 2014-05-08

Title: Generate and Modify Synthetic Datasets
Description: Set of functions to create datasets using a correlation matrix.
Author: Francis Huang
Maintainer: Francis Huang

Diff between gendata versions 1.0 dated 2014-05-08 and 1.1 dated 2015-03-01

 DESCRIPTION            |   11 +++----
 MD5                    |   14 ++++----
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 man/dtrans.Rd          |    2 -
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 8 files changed, 67 insertions(+), 53 deletions(-)

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New package FinCovRegularization with initial version 1.0.0
Package: FinCovRegularization
Type: Package
Title: Covariance Matrix Estimation and Regularization for Finance
Version: 1.0.0
Authors@R: person("Yachen", "Yan", email = "yanyachen21@gmail.com", role = c("aut", "cre"))
Description: Estimation and regularization for covariance matrix of asset returns. For covariance matrix estimation, three major types of factor models are included: macroeconomic factor model, fundamental factor model and statistical factor model. For covariance matrix regularization, four regularized estimators are included: banding, tapering, hard-thresholding and soft-thresholding. The tuning parameters of these regularized estimators are selected via cross-validation.
URL: http://github.com/yanyachen/FinCovRegularization
BugReports: http://github.com/yanyachen/FinCovRegularization/issues
Depends: R (>= 2.10)
Imports: quadprog
License: GPL-2
LazyData: true
Packaged: 2015-03-01 08:47:42 UTC; Administrator
Author: Yachen Yan [aut, cre]
Maintainer: Yachen Yan
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-03-01 08:16:11

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New package emIRT with initial version 0.0.5
Package: emIRT
Type: Package
Title: EM Algorithms for Estimating Item Response Theory Models
Version: 0.0.5
Date: 2015-02-25
Author: Kosuke Imai , James Lo , Jonathan Olmsted
Maintainer: James Lo
Description: Various Expectation-Maximization (EM) algorithms are implemented for item response theory (IRT) models. The current implementation includes IRT models for binary and ordinal responses, along with dynamic and hierarchical IRT models with binary responses. The latter two models are derived and implemented using variational EM.
License: GPL (>= 2)
Depends: R (>= 2.10), pscl (>= 1.0.0), Rcpp (>= 0.10.6)
LinkingTo: Rcpp, RcppArmadillo
Packaged: 2015-03-01 08:03:35 UTC; ripley
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-03-01 09:03:50

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Package drat updated to version 0.0.2 with previous version 0.0.1 dated 2015-02-05

Title: Drat R Archive Template
Description: Creation and Use of R Repositories via two helper functions to insert packages into a repository, and to add repository information to the current R session. Two primary types of repositories are support: gh-pages at GitHub, as well as local repositories on either the same machine or a local network. Drat is a recursive acronym: Drat R Archive Template.
Author: Dirk Eddelbuettel
Maintainer: Dirk Eddelbuettel

Diff between drat versions 0.0.1 dated 2015-02-05 and 0.0.2 dated 2015-03-01

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 11 files changed, 166 insertions(+), 44 deletions(-)

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Package cqrReg updated to version 1.1 with previous version 1.0 dated 2014-11-27

Title: Quantile, Composite Quantile Regression and Regularized Versions
Description: Estimate quantile regression(QR) and composite quantile regression (cqr) and with adaptive lasso penalty using interior point (IP), majorize and minimize(MM), coordinate descent (CD), and alternating direction method of multipliers algorithms(ADMM).
Author: Jueyu Gao & Linglong Kong
Maintainer: Jueyu Gao

Diff between cqrReg versions 1.0 dated 2014-11-27 and 1.1 dated 2015-03-01

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 cqrReg-1.1/cqrReg/src/QRMM.cpp         |    2 -
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New package Conake with initial version 1.0
Encoding: UTF-8
Package: Conake
Type: Package
Title: Continuous Associated Kernel Estimation
Version: 1.0
Date: 2015-02-27
Author: W. E. Wansouwé, F. G. Libengué and C. C. Kokonendji
Maintainer: W. E. Wansouwé
Description: Continuous smoothing of probability density function on a compact or semi-infinite support is performed using four continuous associated kernels: extended beta, gamma, lognormal and reciprocal inverse Gaussian. The cross-validation technique is also implemented for bandwidth selection.
License: GPL (>= 2)
LazyLoad: yes
URL: www.r-project.org
Packaged: 2015-02-28 22:02:10 UTC; wansouwe
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-03-01 08:16:08

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Sat, 28 Feb 2015

New package wkb with initial version 0.1-0
Package: wkb
Type: Package
Title: Convert Between Spatial Objects and Well-Known Binary (WKB) Geometry
Version: 0.1-0
Imports: sp
Date: 2015-02-28
Author: TIBCO Software Inc.
Maintainer: Ian Cook
Description: Utility functions to convert between the Spatial classes specified by the package sp, and the well-known binary (WKB) representation for geometry specified by the Open Geospatial Consortium (OGC). Supports Spatial objects of class SpatialPoints, SpatialPointsDataFrame, SpatialLines, SpatialLinesDataFrame, SpatialPolygons, and SpatialPolygonsDataFrame. Supports WKB geometry types Point, LineString, Polygon, MultiPoint, MultiLineString, and MultiPolygon. Includes extensions to enable creation of maps with TIBCO Spotfire.
BugReports: https://github.com/ianmcook/wkb/issues
NeedsCompilation: no
License: BSD_3_clause + file LICENSE
Packaged: 2015-02-28 14:42:00 UTC; icook
Repository: CRAN
Date/Publication: 2015-02-28 17:45:05

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New package laketemps with initial version 0.5.1
Package: laketemps
Type: Package
Title: Lake Temperatures Collected by Situ and Satellite Methods from 1985-2009
Version: 0.5.1
Date: 2015-02-28
Author: Jordan S Read
Maintainer: Jordan S Read
Description: Lake temperature records, metadata, and climate drivers for 291 global lakes during the time period 1985-2009. Temperature observations were collected using satellite and in situ methods. Climatic drivers and geomorphometric characteristics were also compiled and are included for each lake. Data are part of the associated publication from the Global Lake Temperature Collaboration project (http://www.laketemperature.org). See citation('laketemps') for dataset attribution.
License: CC0
Copyright: This software is in the public domain because it contains materials that originally came from the United States Geological Survey, an agency of the United States Department of Interior. For more information, see the official USGS copyright policy at http://www.usgs.gov/visual-id/credit_usgs.html#copyright. Data are part of the associated publication. See citation('laketemps') for dataset attribution.
BugReports: https://github.com/USGS-R/laketemps/issues
Depends: R (>= 3.0),
Imports: dplyr, reshape2
LazyLoad: yes
LazyData: no
Packaged: 2015-02-28 14:16:47 UTC; jread
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-02-28 17:44:57

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Package timma updated to version 1.2.1 with previous version 1.2.0 dated 2015-01-11

Title: Target Inhibition Interaction using Maximization and Minimization Averaging
Description: Prediction and ranking of drug combinations based on their drug-target interaction profiles and single-drug sensitivities in a given cancer cell line or patient-derived sample.
Author: Liye He, Krister Wennerberg, Tero Aittokallio and Jing Tang
Maintainer: Jing Tang

Diff between timma versions 1.2.0 dated 2015-01-11 and 1.2.1 dated 2015-02-28

 DESCRIPTION                           |   17 +++-----
 MD5                                   |   70 +++++++++++++++++-----------------
 NAMESPACE                             |    1 
 R/binarizeDrugTargets.R               |    8 +--
 R/drawGraph.R                         |   70 ++++++++++++++++++----------------
 R/drugRank.R                          |   27 ++++++-------
 R/normalizeSensitivity.R              |    2 
 R/sffsBinary.R                        |    2 
 R/sffsCategory.R                      |    2 
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 build/vignette.rds                    |binary
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 inst/doc/timma.pdf                    |binary
 man/binarizeDrugTargets.Rd            |    2 
 man/drawGraph.Rd                      |    6 +-
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 37 files changed, 139 insertions(+), 144 deletions(-)

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New package joint.Cox with initial version 1.0
Package: joint.Cox
Type: Package
Title: Penalized Likelihood Estimation under the Joint Cox Models Between TTP and OS for Meta-Analysis
Version: 1.0
Date: 2015-02-28
Author: Takeshi Emura
Maintainer: Takeshi Emura
Description: Perform regression analyses under the joint Cox proportional hazards model between TTP and OS for meta-analysis. The method is applicable for meta-analysis combining several studies or for cluster survival data.
License: GPL-2
Packaged: 2015-02-28 08:35:35 UTC; user
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-02-28 12:17:50

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Package rSPACE updated to version 1.1.0 with previous version 1.0.4 dated 2015-01-06

Title: Spatially-Explicit Power Analysis for Conservation and Ecology
Description: Conducts a spatially-explicit, simulation-based power analysis for detecting trends in population abundance through occupancy-based modeling. Applicable for evaluating monitoring designs in conservation and ecological settings.
Author: Martha Ellis, Jake Ivan, Jody Tucker, Mike Schwartz
Maintainer: Martha Ellis

Diff between rSPACE versions 1.0.4 dated 2015-01-06 and 1.1.0 dated 2015-02-28

 DESCRIPTION              |    8 ++++----
 MD5                      |   34 +++++++++++++++++-----------------
 R/ClickyBox.r            |    6 ++----
 R/Create_Landscapes.r    |    8 ++++++--
 R/Encounter_history.R    |   12 +++++++-----
 R/PlottingFunctions.r    |   12 +++++++++---
 R/Test_Samples.r         |   29 +++++++----------------------
 R/Test_file.r            |   23 +++++++++++++++++------
 R/checkParameters.R      |   20 +++++++++++++++-----
 R/createGrid.R           |   47 ++++++++++++++++++++++++++++++++---------------
 man/create.landscapes.Rd |   12 +++++++-----
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 man/enter.parameters.Rd  |    6 ++++--
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 man/test_file.Rd         |    6 ++++--
 man/test_samples.Rd      |   35 ++++++++++++++++++++++++++++++-----
 18 files changed, 208 insertions(+), 111 deletions(-)

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Package hypervolume updated to version 1.2 with previous version 1.1.2 dated 2015-01-16

Title: High-Dimensional Kernel Density Estimation and Geometry Operations
Description: Estimates the shape and volume of high-dimensional datasets and performs set operations: intersection / overlap, union, unique components, inclusion test, and negative feature detection. Uses stochastic geometry approach to high-dimensional kernel density estimation. Builds n-dimensional convex hulls (polytopes). Can measure the n-dimensional ecological hypervolume and perform species distribution modeling.
Author: Benjamin Blonder
Maintainer: Benjamin Blonder

Diff between hypervolume versions 1.1.2 dated 2015-01-16 and 1.2 dated 2015-02-28

 DESCRIPTION                |   10 +++----
 MD5                        |   10 +++----
 NAMESPACE                  |   11 +++++++-
 R/hypervolume_plot.R       |   58 +++++++++++++++++++++++++++++++++++++++++++--
 man/hypervolume-package.Rd |   38 -----------------------------
 man/plot.Hypervolume.Rd    |   43 +++++++++++++++++++++++----------
 6 files changed, 107 insertions(+), 63 deletions(-)

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Package fields updated to version 8.2-1 with previous version 7.1 dated 2014-05-16

Title: Tools for Spatial Data
Description: Fields is for curve, surface and function fitting with an emphasis on splines, spatial data and spatial statistics. The major methods include cubic, and thin plate splines, Kriging and compact covariances for large data sets. The splines and Kriging methods are supporting by functions that can determine the smoothing parameter (nugget and sill variance) by cross validation and also by restricted maximum likelihood. For Kriging there is an easy to function that also estimates the correlation scale (range). A major feature is that any covariance function implemented in R and following a simple fields format can be used for spatial prediction. There are also many useful functions for plotting and working with spatial data as images. This package also contains an implementation of sparse matrix methods for large spatial data sets and currently requires the sparse matrix (spam) package. Use help(fields) to get started and for an overview. The fields source code is deliberately commented and provides useful explanations of numerical details in addition to the manual pages. The commented source code can be viewed by expanding the source code .tar.gz file and looking in R subdirectory.
Author: Douglas Nychka [aut, cre], Reinhard Furrer [aut], Stephan Sain [aut]
Maintainer: Douglas Nychka

Diff between fields versions 7.1 dated 2014-05-16 and 8.2-1 dated 2015-02-28

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Package ExtremeBounds updated to version 0.1.5 with previous version 0.1.4.2 dated 2014-11-18

Title: Extreme Bounds Analysis (EBA)
Description: An implementation of Extreme Bounds Analysis (EBA), a global sensitivity analysis that examines the robustness of determinants in regression models. The package supports both Leamer's and Sala-i-Martin's versions of EBA, and allows users to customize all aspects of the analysis.
Author: Marek Hlavac
Maintainer: Marek Hlavac

Diff between ExtremeBounds versions 0.1.4.2 dated 2014-11-18 and 0.1.5 dated 2015-02-28

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Fri, 27 Feb 2015

Package sidier updated to version 3.0.1 with previous version 3.0 dated 2014-11-18

Title: Substitution and Indel Distances to Infer Evolutionary Relationships
Description: Evolutionary reconstruction based on substitutions and insertion-deletion (indels) analyses in a distance-based framework.
Author: A. Jesus Muñoz Pajares
Maintainer: A.J. Muñoz-Pajares

Diff between sidier versions 3.0 dated 2014-11-18 and 3.0.1 dated 2015-02-27

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Package R.oo updated to version 1.19.0 with previous version 1.18.0 dated 2014-02-25

Title: R Object-Oriented Programming with or without References
Description: Methods and classes for object-oriented programming in R with or without references. Large effort has been made on making definition of methods as simple as possible with a minimum of maintenance for package developers. The package has been developed since 2001 and is now considered very stable. This is a cross-platform package implemented in pure R that defines standard S3 classes without any tricks.
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson

Diff between R.oo versions 1.18.0 dated 2014-02-25 and 1.19.0 dated 2015-02-27

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Package pwr updated to version 1.1-2 with previous version 1.1.1 dated 2009-10-26

Title: Basic Functions for Power Analysis
Description: Power analysis functions along the lines of Cohen (1988).
Author: Stephane Champely [aut], Claus Ekstrom [ctb], Peter Dalgaard [ctb], Jeffrey Gill [ctb], Helios De Rosario [cre]
Maintainer: Helios De Rosario

Diff between pwr versions 1.1.1 dated 2009-10-26 and 1.1-2 dated 2015-02-27

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Package MAMS updated to version 0.4 with previous version 0.3 dated 2014-05-07

Title: Designing Multi-Arm Multi-Stage Studies
Description: Designing multi-arm multi-stage studies with normal endpoints and known variance.
Author: Thomas Jaki and Dominic Magirr
Maintainer: Thomas Jaki

Diff between MAMS versions 0.3 dated 2014-05-07 and 0.4 dated 2015-02-27

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Package BDgraph updated to version 2.16 with previous version 2.15 dated 2015-01-23

Title: Graph Estimation Based on Birth-Death MCMC Approach
Description: A general framework to perform Bayesian structure learning in undirected graphical models. The main target is high-dimensional data analysis wherein either continuous or discrete variables.
Author: Abdolreza Mohammadi and Ernst Wit
Maintainer: Abdolreza Mohammadi

Diff between BDgraph versions 2.15 dated 2015-01-23 and 2.16 dated 2015-02-27

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New package GenForImp with initial version 1.0
Package: GenForImp
Type: Package
Title: The Forward Imputation: A Sequential Distance-Based Approach for Imputing Missing Data
Version: 1.0
Date: 2015-02-27
Author: Nadia Solaro, Alessandro Barbiero, Giancarlo Manzi, Pier Alda Ferrari
Maintainer: Alessandro Barbiero
Description: Two methods based on the Forward Imputation approach are implemented for the imputation of quantitative missing data. One method alternates Nearest Neighbour Imputation and Principal Component Analysis (function 'ForImp.PCA'), the other uses Nearest Neighbour Imputation with the Mahalanobis distance (function 'ForImp.Mahala').
License: GPL-3
Depends: mvtnorm, sn
Packaged: 2015-02-27 17:11:22 UTC; admin
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-02-27 19:31:42

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Package openNLP updated to version 0.2-4 with previous version 0.2-3 dated 2014-04-19

Title: Apache OpenNLP Tools Interface
Description: An interface to the Apache OpenNLP tools (version 1.5.3). The Apache OpenNLP library is a machine learning based toolkit for the processing of natural language text written in Java. It supports the most common NLP tasks, such as tokenization, sentence segmentation, part-of-speech tagging, named entity extraction, chunking, parsing, and coreference resolution. See for more information.
Author: Kurt Hornik [aut, cre]
Maintainer: Kurt Hornik

Diff between openNLP versions 0.2-3 dated 2014-04-19 and 0.2-4 dated 2015-02-27

 DESCRIPTION    |    8 +++++---
 MD5            |   14 +++++++-------
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 8 files changed, 28 insertions(+), 18 deletions(-)

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Package MicSim updated to version 1.0.7 with previous version 1.0.6 dated 2014-07-02

Title: Performing Continuous-Time Microsimulation
Description: This entry-level toolkit allows performing generic continuous-time microsimulation for a wide range of demograhic applications.
Author: Sabine Zinn
Maintainer: Sabine Zinn

Diff between MicSim versions 1.0.6 dated 2014-07-02 and 1.0.7 dated 2015-02-27

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Package RObsDat updated to version 15.02 with previous version 14.12 dated 2014-12-29

Title: Data Mangement for Hydrology and Beyond Using the Observations Data Model
Description: Data management in hydrology and other fields is facilitated with functions to enter and modify data in a database according to the Observations Data Model (ODM) standard by CUASHI (Consortium of Universities for the Advancement of Hydrologic Science). While this data model has been developed in hydrology, it is also useful for other fields. RObsDat helps in the setup of the database within one of the free database systems MariaDB, PostgreSQL or SQLite. It imports the controlled water vocabulary from the CUASHI web service and provides a smart interface between the analyst and the database: Already existing data entries are detected and duplicates avoided. The data import function converts different data table designs to make import simple. Cleaning and modifications of data are handled with a simple version control system. Variable and location names are treated in a user friendly way, accepting and processing multiple versions. When querying data from the database, it is stored in a spacetime objects within R for subsequent processing.
Author: Dominik Reusser
Maintainer: Dominik Reusser

Diff between RObsDat versions 14.12 dated 2014-12-29 and 15.02 dated 2015-02-27

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Package lcmm updated to version 1.7.2 with previous version 1.7.1 dated 2015-02-26

Title: Extended Mixed Models Using Latent Classes and Latent Processes
Description: Estimation of various extensions of the mixed models including latent class mixed models, joint latent latent class mixed models and mixed models for curvilinear univariate or multivariate longitudinal outcomes using a maximum likelihood estimation method.
Author: Cecile Proust-Lima, Viviane Philipps, Amadou Diakite and Benoit Liquet
Maintainer: Cecile Proust-Lima

Diff between lcmm versions 1.7.1 dated 2015-02-26 and 1.7.2 dated 2015-02-27

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Package NormPsy updated to version 1.0.3 with previous version 1.0.2 dated 2014-11-27

Title: Normalisation of Psychometric Tests
Description: Functions for normalizing psychometric test scores. The normalization aims at correcting the metrological properties of the psychometric tests such as the ceiling and floor effects and the curvilinearity (unequal interval scaling). Functions to compute and plot predictions in the natural scale of the psychometric test from the estimates of a linear mixed model estimated on the normalized scores are also provided.
Author: Cecile Proust-Lima, Viviane Philipps
Maintainer: Cecile Proust-Lima

Diff between NormPsy versions 1.0.2 dated 2014-11-27 and 1.0.3 dated 2015-02-27

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New package hsdar with initial version 0.1
Package: hsdar
Type: Package
Title: Manage, Analyse and Simulate Hyperspectral Data in R
Version: 0.1
Date: 2015-02-10
Author: Lukas W. Lehnert [cre, aut], Hanna Meyer [ctb], Joerg Bendix [ctb]
Maintainer: Lukas W. Lehnert
Depends: R (>= 2.10.0), sp, raster, rgdal, rootSolve, signal, methods
Description: Transformation of reflectance spectra, calculation of vegetation indices and red edge parameters, spectral resampling for hyperspectral remote sensing, simulation of reflectance and transmittance using PROSPECT and PROSAIL.
License: GPL
LazyLoad: yes
BuildVignettes: yes
Copyright: see file COPYRIGHTS
URL: http://lcrs.geographie.uni-marburg.de, http://teledetection.ipgp.jussieu.fr/prosail/
Packaged: 2015-02-27 08:50:23 UTC; lehnert
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-02-27 12:11:24

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Package FindIt updated to version 0.5 with previous version 0.4 dated 2015-02-07

Title: Finding Heterogeneous Treatment Effects
Description: The heterogeneous treatment effect estimation procedure proposed by Imai and Ratkovic (2013). The proposed method is applicable, for example, when selecting a small number of most (or least) efficacious treatments from a large number of alternative treatments as well as when identifying subsets of the population who benefit (or are harmed by) a treatment of interest. The method adapts the Support Vector Machine classifier by placing separate LASSO constraints over the pre-treatment parameters and causal heterogeneity parameters of interest. This allows for the qualitative distinction between causal and other parameters, thereby making the variable selection suitable for the exploration of causal heterogeneity. The package also contains the function, INT, which estimates the average marginal treatment effect, the average treatment combination effect, and the average marginal treatment interaction effect proposed by Egami and Imai (2015).
Author: Naoki Egami , Marc Ratkovic , Kosuke Imai ,
Maintainer: Naoki Egami

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Package CoxRidge updated to version 0.9.2 with previous version 0.9.1 dated 2013-06-26

Title: Cox Models with Dynamic Ridge Penalties
Description: A package for fitting Cox models with penalized ridge-type partial likelihood. The package includes functions for fitting simple Cox models with all covariates controlled by a ridge penalty. The weight of the penalty is optimised by using a REML type-algorithm. Models with time varying effects of the covariates can also be fitted. Some of the covariates may be allowed to be fixed and thus not controlled by the penalty. There are three different penalty functions, ridge, dynamic and weighted dynamic. Time varying effects can be fitted without the need of an expanded dataset.
Author: Aris Perperoglou
Maintainer: Aris Perperoglou

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Package x.ent (with last version 1.0.6) was removed from CRAN

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

2014-11-02 1.0.6
2014-08-20 0.0.4

Permanent link
Package userfriendlyscience updated to version 0.2-0 with previous version 0.1-2 dated 2014-04-22

Title: Quantitative Analysis Made Accessible
Description: Contains a number of functions that serve two goals: first, make R more accessible to people migrating from SPSS by adding a number of functions that behave roughly like their SPSS equivalents; and second, make a number of slightly more advanced functions more user friendly to relatively novice users.
Author: Gjalt-Jorn Peters
Maintainer: Gjalt-Jorn Peters

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Package spatstat updated to version 1.41-1 with previous version 1.40-0 dated 2014-12-31

Title: Spatial Point Pattern Analysis, Model-Fitting, Simulation, Tests
Description: Comprehensive toolbox for analysing spatial data, mainly Spatial Point Patterns, including multitype/marked points and spatial covariates, in any two-dimensional spatial region. Also supports three-dimensional point patterns, space-time point patterns in any number of dimensions, and point patterns on a linear network. Contains about 2000 functions for plotting spatial data, exploratory data analysis, model-fitting, simulation, spatial sampling, model diagnostics, and formal inference. Data types include point patterns, line segment patterns, spatial windows, pixel images, tessellations, and linear networks. Exploratory methods include quadrat counts, K-functions and their simulation envelopes, nearest neighbour distance and empty space statistics, Fry plots, pair correlation function, kernel smoothed intensity, relative risk estimation with cross-validated bandwidth selection, mark correlation functions, segregation indices, mark dependence diagnostics, and kernel estimates of covariate effects. Formal hypothesis tests of random pattern (chi-squared, Kolmogorov-Smirnov, Diggle-Cressie-Loosmore-Ford, Dao-Genton) and tests for covariate effects (Cox-Berman-Waller-Lawson, Kolmogorov-Smirnov) are also supported. Parametric models can be fitted to point pattern data using the functions ppm, kppm, slrm similar to glm. Types of models include Poisson, Gibbs, Cox and cluster point processes. Models may involve dependence on covariates, interpoint interaction, cluster formation and dependence on marks. Models are fitted by maximum likelihood, logistic regression, minimum contrast, and composite likelihood methods. Fitted point process models can be simulated, automatically. Formal hypothesis tests of a fitted model are supported (likelihood ratio test, analysis of deviance, Monte Carlo tests) along with basic tools for model selection (stepwise, AIC). Tools for validating the fitted model include simulation envelopes, residuals, residual plots and Q-Q plots, leverage and influence diagnostics, partial residuals, and added variable plots.
Author: Adrian Baddeley , Rolf Turner and Ege Rubak , with substantial contributions of code by Kasper Klitgaard Berthelsen; Abdollah Jalilian; Marie-Colette van Lieshout; Tuomas Rajala; Dominic Schuhmacher; and Rasmus Waagepetersen. Additional contributions by Q.W. Ang; S. Azaele; M. Baddeley; C. Beale; M. Bell; R. Bernhardt; T. Bendtsen; A. Bevan; B. Biggerstaff; L. Bischof; R. Bivand; J.M. Blanco Moreno; F. Bonneu; J. Burgos; S. Byers; Y.M. Chang; J.B. Chen; I. Chernayavsky; Y.C. Chin; B. Christensen; J.-F. Coeurjolly; R. Corria Ainslie; M. de la Cruz; P. Dalgaard; S. Das; P.J. Diggle; P. Donnelly; I. Dryden; S. Eglen; A. El-Gabbas; O. Flores; E.D. Ford; P. Forbes; S. Frank; J. Franklin; N. Funwi-Gabga; O. Garcia; A. Gault; M. Genton; S. Ghalandarayeshi; J. Gilbey; J. Goldstick; P. Grabarnik; C. Graf; U. Hahn; A. Hardegen; M.B. Hansen; M. Hazelton; J. Heikkinen; M. Hering; M. Herrmann; K. Hornik; P. Hunziker; R. Ihaka; A. Jammalamadaka; R. John-Chandran; D. Johnson; M. Khanmohammadi; P. Kovesi; M. Kuhn; J. Laake; F. Lavancier; T. Lawrence; R.A. Lamb; J. Lee; G.P. Leser; H.T. Li; G. Limitsios; A. Lister; B. Madin; J. Marcus; K. Marchikanti; R. Mark; J. Mateu; P. McCullagh; U. Mehlig; S. Meyer; X.C. Mi; L. De Middeleer; R.K. Milne; E. Miranda; J. Moller; E. Mudrak; G.M. Nair; N. Nava; L.S. Nielsen; F. Nunes; J.R. Nyengaard; J. Oehlschlaegel; T. Onkelinx; S. O'Riordan; E. Parilov; J. Picka; N. Picard; M. Porter; S. Protsiv; A. Raftery; S. Rakshit; P. Ramon; X. Raynaud, M. Reiter; I. Renner; T.O. Richardson; B.D. Ripley; E. Rosenbaum; B. Rowlingson; J. Rudokas; J. Rudge; C. Ryan; F. Safavimanesh; A. Sarkka; K. Schladitz; S. Schutte; B.T. Scott; G.C. Shen; V. Shcherbakov; I.-M. Sintorn; Y. Song; M. Spiess; M. Stevenson; K. Stucki; M. Sumner; P. Surovy; B. Taylor; T. Thorarinsdottir; B. Turlach; T. Tvedebrink; K. Ummer; M. Uppala; A. van Burgel; T. Verbeke; M. Vihtakari; A. Villers; F. Vinatier; S. Voss; H. Wang; H. Wendrock; J. Wild; C. Witthoft; S. Wong; M. Woringer; M.E. Zamboni and A. Zeileis.
Maintainer: Adrian Baddeley

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More information about spatstat at CRAN
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Package RcppEigen updated to version 0.3.2.4.0 with previous version 0.3.2.3.0 dated 2014-12-23

Title: Rcpp Integration for the Eigen Templated Linear Algebra Library
Description: R and Eigen integration using Rcpp. Eigen is a C++ template library for linear algebra: matrices, vectors, numerical solvers and related algorithms. It supports dense and sparse matrices on integer, floating point and complex numbers, decompositions of such matrices, and solutions of linear systems. Its performance on many algorithms is comparable with some of the best implementations based on Lapack and level-3 BLAS. The RcppEigen package includes the header files from the Eigen C++ template library (currently version 3.2.3). Thus users do not need to install Eigen itself in order to use RcppEigen. Since version 3.1.1, Eigen is licensed under the Mozilla Public License (version 2); earlier version were licensed under the GNU LGPL version 3 or later. RcppEigen (the Rcpp bindings/bridge to Eigen) is licensed under the GNU GPL version 2 or later, as is the rest of Rcpp.
Author: Douglas Bates, Romain Francois and Dirk Eddelbuettel; the authors of Eigen for the included version of Eigen
Maintainer: Dirk Eddelbuettel

Diff between RcppEigen versions 0.3.2.3.0 dated 2014-12-23 and 0.3.2.4.0 dated 2015-02-27

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 RcppEigen-0.3.2.4.0/RcppEigen/ChangeLog                                              |   24 +++
 RcppEigen-0.3.2.4.0/RcppEigen/DESCRIPTION                                            |   12 -
 RcppEigen-0.3.2.4.0/RcppEigen/MD5                                                    |   36 ++---
 RcppEigen-0.3.2.4.0/RcppEigen/R/RcppEigen.package.skeleton.R                         |   45 ++++--
 RcppEigen-0.3.2.4.0/RcppEigen/README.md                                              |   25 +--
 RcppEigen-0.3.2.4.0/RcppEigen/inst/NEWS.Rd                                           |   11 +
 RcppEigen-0.3.2.4.0/RcppEigen/inst/doc/RcppEigen-Introduction.pdf                    |binary
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Package mads updated to version 0.1.2 with previous version 0.1.1 dated 2014-12-23

Title: Multi-Analysis Distance Sampling
Description: Performs distance sampling analyses on a number of species accounting for unidentified sightings, model uncertainty and covariate uncertainty.
Author: Laura Marshall
Maintainer: Laura Marshall

Diff between mads versions 0.1.1 dated 2014-12-23 and 0.1.2 dated 2015-02-27

 DESCRIPTION                 |    8 ++++----
 MD5                         |   18 +++++++++---------
 NEWS                        |   11 +++++++++++
 R/calculate.dht.R           |    5 +++--
 R/check.bootstrap.options.r |    6 +++---
 R/check.ddf.models.R        |    1 -
 R/execute.multi.analysis.R  |    9 +++++----
 R/fit.ddf.models.R          |   19 ++++++++++---------
 R/mae.warning.R             |    6 +++---
 R/process.warnings.R        |    5 ++++-
 10 files changed, 52 insertions(+), 36 deletions(-)

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Permanent link

New package itsadug with initial version 0.8
Package: itsadug
Title: Interpreting Time Series and Autocorrelated Data Using GAMMs
Version: 0.8
Date: 2015-02-26
Authors@R: c( person("Jacolien", "van Rij", email="vanrij.jacolien@gmail.com", role = c("aut", "cre")),person("Martijn","Wieling", role = "aut"), person("R. Harald","Baayen", role = "aut"), person("Hedderik", "van Rijn", role = "aut"))
Description: GAMM (Generalized Additive Mixed Modeling; Lin & Zhang, 1999) as implemented in the R package mgcv (Wood, S.N., 2006; 2011) is a nonlinear regression analysis which is particularly useful for time course data such as EEG, pupil dilation, gaze data (eye tracking), and articulography recordings, but also for behavioral data such as reaction times and response data. As time course measures are sensitive to autocorrelation problems, GAMMs implements methods to reduce the autocorrelation problems. This package includes functions for the evaluation of GAMM models (e.g., model comparisons, determining regions of significance, inspection of autocorrelational structure in residuals) and interpreting of GAMMs (e.g., visualization of complex interactions, and contrasts).
License: GPL (>= 2)
LazyData: true
Depends: R (>= 2.10), mgcv (>= 1.8)
URL: http://github.com/vr-vr/itsadug
VignetteBuilder: knitr
Suggests: knitr, xtable, sp
Packaged: 2015-02-26 15:26:27 UTC; Jacolien
Author: Jacolien van Rij [aut, cre], Martijn Wieling [aut], R. Harald Baayen [aut], Hedderik van Rijn [aut]
Maintainer: Jacolien van Rij
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-02-27 06:57:09

More information about itsadug at CRAN
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Package geostatsp updated to version 1.2.1 with previous version 1.1.9 dated 2015-01-23

Title: Geostatistical Modelling with Likelihood and Bayes
Description: Geostatistical modelling facilities using Raster and SpatialPoints objects are provided. Non-Gaussian models are fit using INLA, and Gaussian geostatistical models use Maximum Likelihood Estimation..
Author: Patrick Brown [aut, cre], Robert Hijmans [ctb]
Maintainer: Patrick Brown

Diff between geostatsp versions 1.1.9 dated 2015-01-23 and 1.2.1 dated 2015-02-27

 geostatsp-1.1.9/geostatsp/src/maternLogLgr.c      |only
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 geostatsp-1.2.1/geostatsp/R/lgm.Raster.R          |    2 
 geostatsp-1.2.1/geostatsp/R/loglikGmrf.R          |  321 ++++++++--
 geostatsp-1.2.1/geostatsp/R/loglikLgm.R           |  675 ++++++++++++----------
 geostatsp-1.2.1/geostatsp/R/matern.R              |   17 
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 geostatsp-1.2.1/geostatsp/R/param.R               |   11 
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 geostatsp-1.2.1/geostatsp/data/datalist           |    4 
 geostatsp-1.2.1/geostatsp/data/murder.RData       |binary
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 geostatsp-1.2.1/geostatsp/man/maternGmrfPrec.Rd   |   10 
 geostatsp-1.2.1/geostatsp/man/murder.Rd           |  199 ++++++
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 geostatsp-1.2.1/geostatsp/man/stackRasterList.Rd  |   19 
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 42 files changed, 1635 insertions(+), 890 deletions(-)

More information about geostatsp at CRAN
Permanent link

Package DSsim updated to version 1.0.3 with previous version 1.0.2 dated 2014-12-23

Title: Distance Sampling Simulations
Description: Performs distance sampling simulations. It repeatedly generates instances of a user defined population within a given survey region, generates realisations of a survey design (currently these must be pre-generated using Distance software) and simulates the detection process. The data are then analysed so that the results can be compared for accuracy and precision across all replications. This will allow users to select survey designs which will give them the best accuracy and precision given their expectations about population distribution. Any uncertainty in population distribution or population parameters can be included by running the different survey designs for a number of different population descriptions. An example simulation can be found in the help file for make.simulation.
Author: Laura Marshall
Maintainer: Laura Marshall

Diff between DSsim versions 1.0.2 dated 2014-12-23 and 1.0.3 dated 2015-02-27

 DESCRIPTION                    |    8 +-
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 man/Density-class.Rd           |   16 ++--
 man/Region-class.Rd            |   11 +-
 man/make.density.Rd            |   10 ++
 man/make.simulation.Rd         |    2 
 20 files changed, 256 insertions(+), 156 deletions(-)

More information about DSsim at CRAN
Permanent link

Package bio3d updated to version 2.2-1 with previous version 2.1-3 dated 2014-10-27

Title: Biological Structure Analysis
Description: Utilities to process, organize and explore protein structure, sequence and dynamics data. Features include the ability to read and write structure, sequence and dynamic trajectory data, perform sequence and structure database searches, data summaries, atom selection, alignment, superposition, rigid core identification, clustering, torsion analysis, distance matrix analysis, structure and sequence conservation analysis, normal mode analysis, principal component analysis of heterogeneous structure data, and correlation network analysis from normal mode and molecular dynamics data. In addition, various utility functions are provided to enable the statistical and graphical power of the R environment to work with biological sequence and structural data. Please refer to the URLs below for more information.
Author: Barry Grant, Xin-Qiu Yao, Lars Skjaerven, Julien Ide
Maintainer: Barry Grant

Diff between bio3d versions 2.1-3 dated 2014-10-27 and 2.2-1 dated 2015-02-27

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Permanent link

Package Rcell (with last version 1.2-6) was removed from CRAN

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

2013-10-17 1.2-6

Permanent link

Thu, 26 Feb 2015

Package nortest updated to version 1.0-3 with previous version 1.0-2 dated 2012-05-30

Title: Tests for Normality
Description: Five omnibus tests for testing the composite hypothesis of normality.
Author: Juergen Gross [aut], Uwe Ligges [aut, cre]
Maintainer: Uwe Ligges

Diff between nortest versions 1.0-2 dated 2012-05-30 and 1.0-3 dated 2015-02-26

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New package mma with initial version 1.0-0
Package: mma
Type: Package
Title: Multiple Mediation Analysis
Version: 1.0-0
Date: 2015-02-18
Author: Qingzhao Yu
Maintainer: Qingzhao Yu
Depends: R (>= 2.14.1), gbm
Description: Used for general multiple mediation analysis. The analysis method is described in Yu et al. (2014).
License: GPL (>= 2)
URL: http://www.r-project.org, http://publichealth.lsuhsc.edu/Faculty_pages/qyu/index.html
Packaged: 2015-02-26 18:17:33 UTC; yu
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-02-26 20:16:55

More information about mma at CRAN
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Package gte updated to version 1.2-2 with previous version 1.2-1 dated 2014-01-06

Title: Generalized Turnbull's Estimator
Description: Generalized Turnbull's estimator proposed by Dehghan and Duchesne (2011).
Author: Mohammad Hossein Dehghan, Thierry Duchesne and Sophie Baillargeon
Maintainer: Thierry Duchesne

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Package amen updated to version 1.0 with previous version 0.999 dated 2014-03-01

Title: Additive and Multiplicative Effects Models for Networks and Relational Data
Description: Analysis of network and relational data using additive and multiplicative effects (AME) models. The basic model includes regression terms, the covariance structure of the social relations model (Warner, Kenny and Stoto (1979), Wong (1982)), and multiplicative factor models (Hoff(2009)). Four different link functions accommodate different relational data structures, including binary/network data (bin), normal relational data (nrm), ordinal relational data (ord) and data from fixed-rank nomination schemes (frn). Several of these link functions are discussed in Hoff, Fosdick, Volfovsky and Stovel (2013). Development of this software was supported in part by NICHD grant R01HD067509.
Author: Peter Hoff, Bailey Fosdick, Alex Volfovsky, Yanjun He
Maintainer: Peter Hoff

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More information about amen at CRAN
Permanent link

Package RcppArmadillo updated to version 0.4.650.1.1 with previous version 0.4.600.4.0 dated 2015-01-25

Title: Rcpp Integration for the Armadillo Templated Linear Algebra Library
Description: R and Armadillo integration using Rcpp Armadillo is a templated C++ linear algebra library (by Conrad Sanderson) that aims towards a good balance between speed and ease of use. Integer, floating point and complex numbers are supported, as well as a subset of trigonometric and statistics functions. Various matrix decompositions are provided through optional integration with LAPACK and ATLAS libraries. The RcppArmadillo package includes the header files from the templated Armadillo library. Thus users do not need to install Armadillo itself in order to use RcppArmadillo. Armadillo is licensed under the MPL 2.0, while RcppArmadillo (the Rcpp bindings/bridge to Armadillo) is licensed under the GNU GPL version 2 or later, as is the rest of Rcpp.
Author: Romain Francois, Dirk Eddelbuettel and Doug Bates
Maintainer: Dirk Eddelbuettel

Diff between RcppArmadillo versions 0.4.600.4.0 dated 2015-01-25 and 0.4.650.1.1 dated 2015-02-26

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Permanent link

Package PDQutils updated to version 0.1.1 with previous version 0.1.0 dated 2015-02-12

Title: PDQ Functions via Gram Charlier, Edgeworth, and Cornish Fisher Approximations
Description: A collection of tools for approximating the 'PDQ' functions (respectively, the cumulative distribution, density, and quantile) of probability distributions via classical expansions involving moments and cumulants.
Author: Steven E. Pav [aut, cre]
Maintainer: Steven E. Pav

Diff between PDQutils versions 0.1.0 dated 2015-02-12 and 0.1.1 dated 2015-02-26

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Package CNVassoc updated to version 2.1 with previous version 2.0.1 dated 2013-09-19

Title: Association Analysis of CNV Data and Imputed SNPs
Description: The CNVassoc package carries out analysis of common Copy Number Variants (CNVs) and imputed Single Nucleotide Polymorphisms (SNPs) in population-based studies. It includes tools for estimating association under a series of study designs (case-control, cohort, etc), using several dependent variables (class status, censored data, counts) as response, adjusting for covariates and considering various inheritance models. Moreover, it is possible to perform epistasis studies with pairs of CNVs or imputed SNPs. It has been optimized in order to make feasible the analyses of Genome Wide Association studies (GWAs) with hundreds of thousands of genetic variants (CNVs / imputed SNPs). Also, it incorporates functions for inferring copy number (CNV genotype calling). Various classes and methods for generic functions (print, summary, plot, anova, ...) have been created to facilitate the analysis.
Author: Juan R Gonzlez, Isaac Subirana
Maintainer: Isaac Subirana

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Package RcmdrPlugin.ROC updated to version 1.0-18 with previous version 1.0-17 dated 2014-12-20

Title: Rcmdr Receiver Operator Characteristic Plug-In PACKAGE
Description: Rcmdr GUI extension plug-in for Receiver Operator Characteristic tools from pROC and ROCR packages. Also it ads a Rcmdr GUI extension for Hosmer and Lemeshow GOF test from the package ResourceSelection.
Author: Daniel-Corneliu Leucuta [aut, cre], Mihaela Hedesiu [ctb], Andrei Achimas [ctb], Oana Almasan [ctb]
Maintainer: Daniel-Corneliu Leucuta

Diff between RcmdrPlugin.ROC versions 1.0-17 dated 2014-12-20 and 1.0-18 dated 2015-02-26

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Package ore updated to version 1.1.0 with previous version 1.0.6 dated 2015-01-01

Title: An R Interface to the Oniguruma Regular Expression Library
Description: Provides an alternative to R's built-in functionality for handling regular expressions, based on the Oniguruma library. It offers first-class compiled regex objects, partial matching and function-based substitutions, amongst other features.
Author: Jon Clayden, based on Onigmo by K. Kosako and K. Takata
Maintainer: Jon Clayden

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Package nlstools updated to version 1.0-1 with previous version 1.0-0 dated 2014-06-25

Title: Tools for Nonlinear Regression Analysis
Description: Several tools for assessing the quality of fit of a gaussian nonlinear model are provided.
Author: Florent Baty and Marie-Laure Delignette-Muller , with contributions from Sandrine Charles, Jean-Pierre Flandrois, and Christian Ritz
Maintainer: Florent Baty

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Package HardyWeinberg updated to version 1.5.5 with previous version 1.5.4 dated 2014-08-11

Title: Graphical Tests for Hardy-Weinberg Equilibrium
Description: Contains tools for exploring Hardy-Weinberg equilibrium for diallelic genetic marker data. All classical tests (chi-square, exact, likelihood-ratio and permutation tests) for Hardy-Weinberg equilibrium are included in the package, as well as functions for power computation and for the simulation of marker data under equilibrium and disequilibrium. Functions for testing equilibrium in the presence of missing data by using multiple imputation are also provided. Implements several graphics for exploring the equilibrium status of a large set of diallelic markers: ternary plots with acceptance regions, log-ratio plots and Q-Q plots.
Author: Jan Graffelman
Maintainer: Jan Graffelman

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Package FuzzyNumbers updated to version 0.4-1 with previous version 0.3-5 dated 2014-10-01

Title: Tools to Deal with Fuzzy Numbers
Description: S4 classes and methods to deal with fuzzy numbers. With them you can compute any arithmetic operations (e.g. by using the Zadeh extension principle), perform approximation of arbitrary FNs by trapezoidal and piecewise linear FNs, prepare plots of FNs for publications, calculate possibility and necessity values for comparisons, etc.
Author: Marek Gagolewski [aut, cre], Jan Caha [ctb]
Maintainer: Marek Gagolewski

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Package forecast updated to version 5.9 with previous version 5.8 dated 2015-01-06

Title: Forecasting Functions for Time Series and Linear Models
Description: Methods and tools for displaying and analysing univariate time series forecasts including exponential smoothing via state space models and automatic ARIMA modelling.
Author: Rob J Hyndman with contributions from George Athanasopoulos, Slava Razbash, Drew Schmidt, Zhenyu Zhou, Yousaf Khan, Christoph Bergmeir, Earo Wang
Maintainer: Rob J Hyndman

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Package exact2x2 updated to version 1.4.1 with previous version 1.4.0 dated 2014-08-25

Title: Exact Conditional Tests and Confidence Intervals for 2x2 tables
Description: Calculates Fisher's exact test, Blaker's exact test, or the exact McNemar's test with appropriate matching confidence intervals. Provides power and sample size calculations. Also gives melded confidence intervals for the binomial case.
Author: Michael P. Fay
Maintainer: Michael P. Fay

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New package CEoptim with initial version 1.0
Package: CEoptim
Type: Package
Title: Cross-Entropy R Package for Optimization
Version: 1.0
Date: 2015-02-28
Author: Tim Benham and Qibin Duan and Dirk P. Kroese and Benoit Liquet
Maintainer: Benoit Liquet
Depends: MASS, msm, stats
Description: Optimization solver based on the Cross-Entropy method.
License: GPL (>= 2.0)
Packaged: 2015-02-26 12:02:25 UTC; uqblique
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-02-26 16:46:44

More information about CEoptim at CRAN
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Package RODBC updated to version 1.3-11 with previous version 1.3-10 dated 2013-11-25

Title: ODBC Database Access
Description: An ODBC database interface.
Author: Brian Ripley [aut, cre], Michael Lapsley [aut] (1999 to Oct 2002)
Maintainer: Brian Ripley

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Package lcmm updated to version 1.7.1 with previous version 1.6.6 dated 2014-09-11

Title: Extended Mixed Models Using Latent Classes and Latent Processes
Description: Estimation of various extensions of the mixed models including latent class mixed models, joint latent latent class mixed models and mixed models for curvilinear univariate or multivariate longitudinal outcomes using a maximum likelihood estimation method.
Author: Cecile Proust-Lima, Viviane Philipps, Amadou Diakite and Benoit Liquet
Maintainer: Cecile Proust-Lima

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Package R2SWF updated to version 0.9 with previous version 0.8-2 dated 2014-12-19

Title: Convert R Graphics to Flash Animations
Description: Using the Ming library (http://www.libming.org/) to create Flash animations. Users can either use the SWF device swf() to generate SWF file directly through plotting functions like plot() and lines(), or convert images of other formats (SVG, PNG, JPEG) into SWF.
Author: Yixuan Qiu, Yihui Xie, Cameron Bracken and authors of included software. See file AUTHORS for details.
Maintainer: Yixuan Qiu

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Package polyCub updated to version 0.5-2 with previous version 0.5-1 dated 2014-10-24

Title: Cubature over Polygonal Domains
Description: The following methods for cubature (numerical integration) over polygonal domains are currently implemented: the two-dimensional midpoint rule as a simple wrapper around as.im.function() from package spatstat (Baddeley and Turner, 2005), the product Gauss cubature by Sommariva and Vianello (2007), an adaptive cubature for isotropic functions via line integrate() along the boundary (Meyer and Held, 2014), and quasi-exact methods specific to the integration of the bivariate Gaussian density over polygonal and circular domains (based on formulae from the Abramowitz and Stegun (1972) handbook). For cubature over simple hypercubes, the packages "cubature" and "R2Cuba" are more appropriate.
Author: Sebastian Meyer [aut, cre, trl], Leonhard Held [ths], Michael Hoehle [ths]
Maintainer: Sebastian Meyer

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Package multicool updated to version 0.1-5 with previous version 0.1-2 dated 2013-07-10

Title: Permutations of Multisets in Cool-Lex Order
Description: A set of tools to permute multisets without loops or hash tables and to generate integer partitions. The permutation functions are based on C code from Aaron Williams. Cool-lex order is similar to colexicographical order. The algorithm is described in Williams, A. Loopless Generation of Multiset Permutations by Prefix Shifts. SODA 2009, Symposium on Discrete Algorithms, New York, United States. The permutation code is distributed without restrictions. The code for stable and efficient computation of multinomial coefficients comes from Dave Barber. The code can be download from http://home.comcast.net/~tamivox/dave/multinomial/index.html and is distributed without conditions. The package also generates the integer partitions of a positive, non-zero integer n. The C++ code for this is based on Python code from Jerome Kelleher which can be found here http://jeromekelleher.net/partitions.php. The C++ code and Python code are distributed without conditions.
Author: James Curran, Aaron Williams, Jerome Kelleher, Dave Barber
Maintainer: James Curran

Diff between multicool versions 0.1-2 dated 2013-07-10 and 0.1-5 dated 2015-02-26

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Wed, 25 Feb 2015

New package SurvCorr with initial version 1.0
Package: SurvCorr
Type: Package
Title: Correlation of Bivariate Survival Times
Version: 1.0
Date: 2015-02-25
Author: Meinhard Ploner, Alexandra Kaider and Georg Heinze
Maintainer: Georg Heinze
Depends: R (>= 3.0.2)
Imports: survival, fields
Description: Estimates correlation coefficients with associated confidence limits for bivariate, partially censored survival times. Uses the iterative multiple imputation approach proposed by Schemper, Kaider, Wakounig and Heinze, Statistics in Medicine 2013. Provides a scatterplot function to visualize the bivariate distribution, either on the original time scale or as copula.
License: GPL
Packaged: 2015-02-25 16:02:48 UTC; Georg
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-02-26 02:18:35

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Package PRROC updated to version 1.1 with previous version 1.0 dated 2014-12-16

Title: Precision-Recall and ROC Curves for Weighted and Unweighted Data
Description: Computes the areas under the precision-recall (PR) and ROC curve for weighted (e.g., soft-labeled) and unweighted data. In contrast to other implementations, the interpolation between points of the PR curve is done by a non-linear piecewise function. In addition to the areas under the curves, the curves themselves can also be computed and plotted by a specific S3-method.
Author: Jan Grau and Jens Keilwagen
Maintainer: Jan Grau

Diff between PRROC versions 1.0 dated 2014-12-16 and 1.1 dated 2015-02-25

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Package hergm updated to version 2.2-0 with previous version 2.1-1 dated 2015-01-11

Title: Hierarchical Exponential-Family Random Graph Models
Description: Estimate and simulate hierarchical exponential-family random graph models with local dependence.
Author: Michael Schweinberger [aut, cre], Mark S. Handcock [ctb], Pamela Luna [ctb]
Maintainer: Michael Schweinberger

Diff between hergm versions 2.1-1 dated 2015-01-11 and 2.2-0 dated 2015-02-25

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Package frailtypack updated to version 2.7.4 with previous version 2.7.2 dated 2014-10-16

Title: General Frailty Models: Shared, Joint and Nested Frailty Models with Prediction
Description: Frailtypack fits several classes of frailty models using a penalized likelihood estimation on the hazard function but also a parametric estimation. 1) A shared frailty model (with gamma or log-normal frailty distribution) and Cox proportional hazard model. Clustered and recurrent survival times can be studied. 2) Additive frailty models for proportional hazard models with two correlated random effects (intercept random effect with random slope). 3) Nested frailty models for hierarchically clustered data (with 2 levels of clustering) by including two iid gamma random effects. 4) Joint frailty models in the context of joint modelling for recurrent events with terminal event for clustered data or not. Prediction values are available. Left-truncated (not for Joint model), right-censored data, interval-censored data (only for Cox proportional hazard and shared frailty model) and strata are allowed. In each model, the random effects have a gamma distribution, but you can switch to a log-normal in shared and joint models. Now, you can also consider time-varying covariates effects in Cox, shared and joint models. The package includes concordance measures for Cox proportional hazards models and for shared frailty models.
Author: Virginie Rondeau, Juan R. Gonzalez, Yassin Mazroui, Audrey Mauguen, Agnieszka Krol-Listwon, Amadou Diakite and Alexandre Laurent
Maintainer: Virginie Rondeau

Diff between frailtypack versions 2.7.2 dated 2014-10-16 and 2.7.4 dated 2015-02-25

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New package dplRCon with initial version 1.0
Package: dplRCon
Type: Package
Title: Concordance for Dendroclimatology
Version: 1.0
Date: 2015-01-16
Author: Maryann Pirie
Maintainer: M R Pirie
Description: The concordance method is a non-parametric method based on bootstrapping that is used to test the hypothesis that two subsets of time series are similar in terms of mean, variance or both. This method was developed to address a concern within dendroclimatology that young trees may produce a differing climate response to older more established trees. Details of this method are available in Pirie, M. (2013). The Climate of New Zealand reconstructed from kauri tree rings: Enhancement through the use of novel statistical methodology. PhD. Dissertation, School of Environment and Department of Statistics, University of Auckland, New Zealand. This package also produces a figure with 3 panels, each panel is for a different climate variable. An example of this figure in included in "On the influence of tree size on the climate - growth relationship of New Zealand kauri (Agathis australis): insights from annual, monthly and daily growth patterns. J Wunder, AM Fowler, ER Cook, M Pirie, SPJ McCloskey. Trees 27 (4), 937-948". For further R functions for loading your own dendroclimatology datasets and performing dendrochronology analysis refer to the R package "dplR: Dendrochronology Program Library in R". The concordance procedure is intended to add to the standard dendrochronology techniques provided in "dplR".
License: GPL
LazyLoad: yes
LazyData: yes
Depends: R (>= 2.10)
Packaged: 2015-02-25 20:43:10 UTC; piriem
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-02-26 01:56:47

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Package diseasemapping updated to version 1.1.7 with previous version 1.1.5 dated 2015-01-15

Title: Modelling Spatial Variation in Disease Risk for Areal Data
Description: Formatting of population and case data, calculation of Standardized Incidence Ratios, and fitting the BYM model using INLA.
Author: Patrick Brown
Maintainer: Patrick Brown

Diff between diseasemapping versions 1.1.5 dated 2015-01-15 and 1.1.7 dated 2015-02-25

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Package visreg updated to version 2.1-1 with previous version 2.1-0 dated 2014-11-27

Title: Visualization of Regression Models
Description: Provides a convenient interface for constructing plots to visualize the fit of regression models arising from a wide variety of models in R (lm, glm, coxph, rlm, gam, locfit, etc.)
Author: Patrick Breheny, Woodrow Burchett
Maintainer: Patrick Breheny

Diff between visreg versions 2.1-0 dated 2014-11-27 and 2.1-1 dated 2015-02-25

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Package survMisc updated to version 0.4.5 with previous version 0.4.4 dated 2015-01-06

Title: Miscellaneous Functions for Survival Data
Description: A collection of functions for analysis of survival data. These extend the methods available in the survival package.
Author: Chris Dardis
Maintainer: Chris Dardis

Diff between survMisc versions 0.4.4 dated 2015-01-06 and 0.4.5 dated 2015-02-25

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Package multitaper updated to version 1.0-11 with previous version 1.0-10 dated 2015-02-18

Title: Multitaper Spectral Analysis Tools
Description: Implements multitaper spectral analysis using discrete prolate spheroidal sequences (Slepians) and sine tapers. It includes an adaptive weighted multitaper spectral estimate, a coherence estimate, Thomson's Harmonic F-test, and complex demodulation. The Slepians sequences are generated efficiently using a tridiagonal matrix solution, and jackknifed confidence intervals are available for most estimates.
Author: Karim Rahim , Wesley S. Burr
Maintainer: Karim Rahim

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Package MuMIn updated to version 1.13.4 with previous version 1.12.1 dated 2014-12-17

Title: Multi-Model Inference
Description: Model selection and model averaging based on information criteria (AICc and alike).
Author: Kamil Bartoń
Maintainer: Kamil Bartoń

Diff between MuMIn versions 1.12.1 dated 2014-12-17 and 1.13.4 dated 2015-02-25

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Package bamboo (with last version 0.9.5) was removed from CRAN

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

2014-08-14 0.9.5

Permanent link
Package jvmr (with last version 2.11.2.1) was removed from CRAN

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

2014-08-30 2.11.2.1
2014-06-25 2.11.1.1
2013-07-16 1.0.4
2013-06-25 1.0.3

Permanent link
New package momentchi2 with initial version 0.1.0
Package: momentchi2
Title: Moment-Matching Methods for Weighted Sums of Chi-Squared Random Variables
Version: 0.1.0
Author: Dean Bodenham
Maintainer: Dean Bodenham
Description: A collection of moment-matching methods for computing the cumulative distribution function of a positively-weighted sum of chi-squared random variables. Methods include the Satterthwaite-Welch method, Hall-Buckley-Eagleson method, Wood's F method, and the Lindsay-Pilla-Basak method.
Depends: R (>= 3.1.2)
License: GPL-2 | GPL-3
LazyData: true
Packaged: 2015-02-25 10:34:38 UTC; dean
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-02-25 11:54:43

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Package BoolNet updated to version 2.1.1 with previous version 2.1.0 dated 2015-02-23

Title: Construction, Simulation and Analysis of Boolean Networks
Description: Provides methods to reconstruct and generate synchronous, asynchronous, probabilistic and temporal Boolean networks, and to analyze and visualize attractors in Boolean networks.
Author: Christoph Müssel [aut], Martin Hopfensitz [aut], Dao Zhou [aut], Hans A. Kestler [aut, cre], Armin Biere [ctb] (contributed PicoSAT code), Troy D. Hanson [ctb] (contributed uthash macros)
Maintainer: Hans A. Kestler

Diff between BoolNet versions 2.1.0 dated 2015-02-23 and 2.1.1 dated 2015-02-25

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Package SDD updated to version 1.2 with previous version 1.1 dated 2014-02-27

Title: Serial Dependence Diagrams
Description: Allows for computing (and by default plotting) different types of serial dependence diagrams.
Author: Luca Bagnato, Lucio De Capitani, Angelo Mazza and Antonio Punzo
Maintainer: Angelo Mazza

Diff between SDD versions 1.1 dated 2014-02-27 and 1.2 dated 2015-02-25

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Package lgcp updated to version 1.3-9 with previous version 1.3-8 dated 2015-02-04

Title: Log-Gaussian Cox Process
Description: Spatial and spatio-temporal modelling of point patterns using the log-Gaussian Cox process. Bayesian inference for spatial, spatiotemporal, multivariate and aggregated point processes using Markov chain Monte Carlo.
Author: B. M. Taylor, T. M. Davies, B. S. Rowlingson, P. J. Diggle. Additional code contributions from E. Pebesma.
Maintainer: Benjamin M. Taylor

Diff between lgcp versions 1.3-8 dated 2015-02-04 and 1.3-9 dated 2015-02-25

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Package FGSG updated to version 1.0.2 with previous version 1.0 dated 2014-04-13

Title: Feature Grouping and Selection Over an Undirected Graph
Description: Implement algorithms for feature grouping and selection over an undirected graph, solves problems like graph fused lasso, graph OSCAR and so on.
Author: Xiaotong Shen, Yiwen Sun, Julie Langou
Maintainer: Yiwen Sun

Diff between FGSG versions 1.0 dated 2014-04-13 and 1.0.2 dated 2015-02-25

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Package soilDB updated to version 1.5-2 with previous version 1.5 dated 2015-02-20

Title: Soil Database Interface
Description: A collection of functions for reading data from USDA-NCSS soil databases.
Author: D.E. Beaudette and J.M. Skovlin
Maintainer: D.E. Beaudette

Diff between soilDB versions 1.5 dated 2015-02-20 and 1.5-2 dated 2015-02-25

 DESCRIPTION                         |   15 -
 MD5                                 |   44 ++--
 NEWS                                |    3 
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 R/get_labpedon_data_from_NASIS_db.R |    4 
 R/get_site_data_from_NASIS_db.R     |    4 
 R/get_text_notes_from_NASIS_db.R    |    4 
 R/mapunit_geom_by_ll_bbox.R         |    2 
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Package sgt updated to version 1.1 with previous version 1.0 dated 2015-02-16

Title: Skewed Generalized T Distribution
Description: Density, distribution function, quantile function and random generation for the skewed generalized t distribution. This package also provides a function that can fit data to the skewed generalized t distribution using maximum likelihood estimation.
Author: Carter Davis
Maintainer: Carter Davis

Diff between sgt versions 1.0 dated 2015-02-16 and 1.1 dated 2015-02-25

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 7 files changed, 77 insertions(+), 93 deletions(-)

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Package R.matlab updated to version 3.2.0 with previous version 3.1.1 dated 2014-10-10

Title: Read and Write MAT Files and Call MATLAB from Within R
Description: Methods readMat() and writeMat() for reading and writing MAT files. For user with MATLAB v6 or newer installed (either locally or on a remote host), the package also provides methods for controlling MATLAB (trademark) via R and sending and retrieving data between R and MATLAB.
Author: Henrik Bengtsson [aut, cre, cph], Andy Jacobson [ctb] (Internal MAT v4 reader), Jason Riedy [ctb] (Support for reading compressed files (via 'Rcompression'), sparse matrices and UTF-encoded strings.)
Maintainer: Henrik Bengtsson

Diff between R.matlab versions 3.1.1 dated 2014-10-10 and 3.2.0 dated 2015-02-25

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Package npmv updated to version 2.2 with previous version 2.1 dated 2013-12-04

Title: Nonparametric Comparison of Multivariate Samples
Description: Performs analysis of one-way multivariate data, for small samples using Nonparametric techniques. Using approximations for ANOVA Type, Wilks' Lambda, Lawley Hotelling, and Bartlett Nanda Pillai Test statics, the package compares the multivariate distributions for a single explanatory variable. The comparison is also performed using a permutation test for each of the four test statistics. The package also performs an all-subsets algorithm regarding variables and regarding factor levels.
Author: Woodrow Burchett and Amanda Ellis
Maintainer: Amanda Ellis

Diff between npmv versions 2.1 dated 2013-12-04 and 2.2 dated 2015-02-25

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Package multiPIM updated to version 1.4-3 with previous version 1.4-1 dated 2014-04-14

Title: Variable Importance Analysis with Population Intervention Models
Description: Performs variable importance analysis using a causal inference approach. This is done by fitting Population Intervention Models. The default is to use a Targeted Maximum Likelihood Estimator (TMLE). The other available estimators are Inverse Probability of Censoring Weighted (IPCW), Double-Robust IPCW (DR-IPCW), and Graphical Computation (G-COMP) estimators. Inference can be obtained from the influence curve (plug-in) or by bootstrapping.
Author: Stephan Ritter , Alan Hubbard , Nicholas Jewell
Maintainer: Stephan Ritter

Diff between multiPIM versions 1.4-1 dated 2014-04-14 and 1.4-3 dated 2015-02-25

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 multiPIM-1.4-3/multiPIM/R/multiPIMboot.R |   15 +++++++--------
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Package lessR updated to version 3.2 with previous version 3.1.1 dated 2014-09-23

Title: Less Code, More Results
Description: Each function accomplishes the work of several or more standard R functions. For example, two function calls, Read() and CountAll(), read the data and generate descriptive statistics for all variables in the data frame, plus histograms and bar charts as appropriate. Other functions provide for descriptive statistics, a comprehensive regression analysis, analysis of variance and t-test, plotting, bar chart, histogram, box plot, density curves, calibrated power curve, reading multiple data formats with the same function and color themes. The function Help provides a help system that suggests specific analyses and functions. Variable labels are available. A confirmatory factor analysis of multiple indicator measurement models is also available as is a pedagogical routines for data simulation such as for the Central Limit Theorem.
Author: David W. Gerbing, School of Business Administration, Portland State University
Maintainer: David W. Gerbing

Diff between lessR versions 3.1.1 dated 2014-09-23 and 3.2 dated 2015-02-25

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 lessR-3.2/lessR/R/ANOVAz2.R        |   36 ++
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 45 files changed, 1179 insertions(+), 631 deletions(-)

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Package iqLearn updated to version 1.3 with previous version 1.2 dated 2014-03-04

Title: Interactive Q-Learning
Description: Estimate an optimal dynamic treatment regime using Interactive Q-learning.
Author: Kristin A. Linn, Eric B. Laber, Leonard A. Stefanski
Maintainer: Kristin A. Linn

Diff between iqLearn versions 1.2 dated 2014-03-04 and 1.3 dated 2015-02-25

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New package ihs with initial version 1.0
Package: ihs
Version: 1.0
Type: Package
Title: Inverse Hyperbolic Sine Distribution
Date: 2015-02-24
Author: Carter Davis
Maintainer: Carter Davis
Depends: R (>= 2.4.0), maxLik (>= 1.2-4)
Description: Density, distribution function, quantile function and random generation for the inverse hyperbolic sine distribution. This package also provides a function that can fit data to the inverse hyperbolic sine distribution using maximum likelihood estimation.
License: GPL (>= 3)
Repository: CRAN
Packaged: 2015-02-25 05:40:24 UTC; carterdavis
NeedsCompilation: no
Date/Publication: 2015-02-25 08:12:31

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New package GAabbreviate with initial version 1.0
Package: GAabbreviate
Type: Package
Version: 1.0
Date: 2015-02-25
Title: Abbreviating Questionnaires (or Other Measures) Using Genetic Algorithms
Description: The GAabbreviate uses Genetic Algorithms as an optimization tool to create abbreviated forms of lengthy questionnaires (or other measures) that maximally capture the variance in the original data of the long form of the measure.
Authors@R: c(person("Luca", "Scrucca", role = "aut"), person("Baljinder K.", "Sahdra", role = c("aut", "cre"), email = "baljinder.sahdra@acu.edu.au"))
Depends: R (>= 3.0), GA (>= 2.0), psych (>= 1.4.3)
License: GPL (>= 2)
ByteCompile: true
LazyLoad: yes
Author: Luca Scrucca [aut], Baljinder K. Sahdra [aut, cre]
Maintainer: Baljinder K. Sahdra
Packaged: 2015-02-25 06:41:06 UTC; basahdra
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-02-25 08:05:20

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Package dunn.test updated to version 1.2.3 with previous version 1.2.2 dated 2015-01-03

Title: Dunn's Test of Multiple Comparisons Using Rank Sums
Description: Computes Dunn's test (1964) for stochastic dominance and reports the results among multiple pairwise comparisons after a Kruskal-Wallis test for stochastic dominance among k groups (Kruskal and Wallis, 1952). The interpretation of stochastic dominance requires an assumption that the CDF of one group does not cross the CDF of the other. dunn.test makes k(k-1)/2 multiple pairwise comparisons based on Dunn's z-test-statistic approximations to the actual rank statistics. The null hypothesis for each pairwise comparison is that the probability of observing a randomly selected value from the first group that is larger than a randomly selected value from the second group equals one half; this null hypothesis corresponds to that of the Wilcoxon-Mann-Whitney rank-sum test. Like the rank-sum test, if the data can be assumed to be continuous, and the distributions are assumed identical except for a difference in location, Dunn's test may be understood as a test for median difference. dunn.test accounts for tied ranks.
Author: Alexis Dinno
Maintainer: Alexis Dinno

Diff between dunn.test versions 1.2.2 dated 2015-01-03 and 1.2.3 dated 2015-02-25

 DESCRIPTION      |   10 +++++-----
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New package BayesSummaryStatLM with initial version 1.0
Package: BayesSummaryStatLM
Type: Package
Title: MCMC Sampling of Bayesian Linear Models via Summary Statistics
Version: 1.0
Date: 2015-01-01
Author: Evgeny Savel'ev, Alexey Miroshnikov, Erin Conlon
Maintainer: Evgeny Savel'ev
Description: Methods for generating Markov Chain Monte Carlo (MCMC) posterior samples of Bayesian linear regression model parameters that require only summary statistics of data as input. Summary statistics are useful for systems with very limited amounts of physical memory. The package provides two functions: one function that computes summary statistics of data and one function that carries out the MCMC posterior sampling for Bayesian linear regression models where summary statistics are used as input. The function read.regress.data.ff utilizes the R package 'ff' to handle data sets that are too large to fit into a user's physical memory, by reading in data in chunks.
Depends: mvnfast, ff
License: GPL (>= 2)
Packaged: 2015-02-25 03:36:21 UTC; evgeny
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-02-25 08:05:16

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Tue, 24 Feb 2015

Package tRakt updated to version 0.9.0 with previous version 0.7.4 dated 2015-02-23

Title: Pull Data from 'trakt.tv'
Description: A wrapper for the trakt.tv APIv2 which uses httr and jsonlite to send non-OAuth2 requests and receive tidied data.
Author: Lukas Burk [aut, cre]
Maintainer: Lukas Burk

Diff between tRakt versions 0.7.4 dated 2015-02-23 and 0.9.0 dated 2015-02-24

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