Thu, 30 Oct 2014

Package qtl updated to version 1.34-17 with previous version 1.34-16 dated 2014-10-29

Title: Tools for analyzing QTL experiments
Description: Analysis of experimental crosses to identify genes (called quantitative trait loci, QTLs) contributing to variation in quantitative traits.
Author: Karl W Broman and Hao Wu, with ideas from Gary Churchill and Saunak Sen and contributions from Danny Arends, Timothee Flutre, Ritsert Jansen, Pjotr Prins, Lars Ronnegard, Rohan Shah, Laura Shannon, Quoc Tran, Aaron Wolen, and Brian Yandell
Maintainer: Karl W Broman

Diff between qtl versions 1.34-16 dated 2014-10-29 and 1.34-17 dated 2014-10-30

 DESCRIPTION                           |    8 ++---
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 inst/doc/rqtltour.pdf                 |binary
 src/mqmregression.cpp                 |    4 +-
 9 files changed, 75 insertions(+), 85 deletions(-)

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Package dynBiplotGUI updated to version 1.1.1 with previous version 1.1.0 dated 2014-06-27

Title: Full Interactive GUI for Dynamic Biplot in R
Description: A GUI to solve Dynamic Biplots, classic Biplot and HJ-biplot. Try matrices of 2-way and 3-way. Multilanguage.
Author: Jaime Egido [aut, cre]
Maintainer: Jaime Egido

Diff between dynBiplotGUI versions 1.1.0 dated 2014-06-27 and 1.1.1 dated 2014-10-30

 ChangeLog                   |   13 ++++
 DESCRIPTION                 |   18 +++---
 MD5                         |   14 ++---
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 8 files changed, 111 insertions(+), 67 deletions(-)

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Package BatchJobs updated to version 1.5 with previous version 1.4 dated 2014-09-24

Title: Batch computing with R.
Description: Provides Map, Reduce and Filter variants to generate jobs on batch computing systems like PBS/Torque, LSF, SLURM and Sun Grid Engine. Multicore and SSH systems are also supported. For further details see the project web page.
Author: Bernd Bischl , Michel Lang
Maintainer: Bernd Bischl

Diff between BatchJobs versions 1.4 dated 2014-09-24 and 1.5 dated 2014-10-30

 DESCRIPTION                         |   14 +++----
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 35 files changed, 159 insertions(+), 78 deletions(-)

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Package rNOMADS updated to version 2.0.4 with previous version 2.0.3 dated 2014-10-13

Title: An interface to the NOAA Operational Model Archive and Distribution System
Description: An interface to the National Oceanic and Atmospheric Administration's Operational Model Archive and Distribution System (NOMADS) that allows R users to quickly and efficiently download global and regional weather model data for processing. rNOMADS currently supports a variety of models ranging from global weather data to an altitude of 40 km, to high resolution regional weather models, to wave and sea ice models. It can also retrieve archived NOMADS models. rNOMADS can retrieve binary data in grib format as well as import ascii data directly into R by interfacing with the GrADS-DODS system.
Author: Daniel C. Bowman [aut, cre]
Maintainer: Daniel C. Bowman

Diff between rNOMADS versions 2.0.3 dated 2014-10-13 and 2.0.4 dated 2014-10-30

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 7 files changed, 54 insertions(+), 28 deletions(-)

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Package mapplots updated to version 1.5 with previous version 1.4 dated 2013-07-15

Title: Data Visualisation on Maps
Description: Create simple maps; add sub-plots like pie plots to a map or any other plot; format, plot and export gridded data. The package was developed for displaying fisheries data but most functions can be used for more generic data visualisation.
Author: Hans Gerritsen
Maintainer: Hans Gerritsen

Diff between mapplots versions 1.4 dated 2013-07-15 and 1.5 dated 2014-10-30

 DESCRIPTION             |    8 +++----
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New package genpathmox with initial version 0.1
Package: genpathmox
Title: Generalized PATHMOX Algorithm for PLS-PM, LS and LAD Regression
Version: 0.1
Authors@R: "Giuseppe Lamberti [aut, cre]"
Description: genpathmox provides a very interesting solution for handling segmentation variables in complex statistical methodology. It contains en extended version of the PATHMOX algorithm in the context of partial least square path modeling (Sanchez, 2009) including the F-block test (to detect the responsible latent endogenous equations of the difference), the F-coefficient (to detect the path coefficients responsible of the difference) and the invariance test (to realize a comparison between the sub-models' latent variables). Furthermore, the package contains a generalized version of the PATHMOX algorithm to approach different methodologies: linear regression and least absolute regression models.
Depends: R (>= 3.1.1),plspm, quantreg,mice,diagram, methods
License: GPL-3
LazyData: true
Packaged: 2014-10-30 14:37:42 UTC; giuseppelamberti
Author: "Giuseppe Lamberti" [aut, cre]
Maintainer: "Giuseppe Lamberti"
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-10-30 19:35:26

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Package BBmisc updated to version 1.8 with previous version 1.7 dated 2014-06-21

Title: Miscellaneous helper functions for B. Bischl.
Description: Miscellaneous helper functions for and from B. Bischl and some other guys at TU Dortmund, mainly for package development.
Author: Bernd Bischl [aut, cre], Michel Lang [aut], Jakob Bossek [aut], Daniel Horn [aut], Jakob Richter [aut]
Maintainer: Bernd Bischl

Diff between BBmisc versions 1.7 dated 2014-06-21 and 1.8 dated 2014-10-30

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Package Rcmdr updated to version 2.1-4 with previous version 2.1-3 dated 2014-10-09

Title: R Commander
Description: A platform-independent basic-statistics GUI (graphical user interface) for R, based on the tcltk package.
Author: John Fox [aut, cre], Milan Bouchet-Valat [aut], Liviu Andronic [ctb], Michael Ash [ctb], Theophilius Boye [ctb], Stefano Calza [ctb], Andy Chang [ctb], Philippe Grosjean [ctb], Richard Heiberger [ctb], Kosar Karimi Pour [ctb], G. Jay Kerns [ctb], Renaud Lancelot [ctb], Matthieu Lesnoff [ctb], Uwe Ligges [ctb], Samir Messad [ctb], Martin Maechler [ctb], Robert Muenchen [ctb], Duncan Murdoch [ctb], Erich Neuwirth [ctb], Dan Putler [ctb], Brian Ripley [ctb], Miroslav Ristic [ctb], Peter Wolf [ctb], Kevin Wright [ctb]
Maintainer: John Fox

Diff between Rcmdr versions 2.1-3 dated 2014-10-09 and 2.1-4 dated 2014-10-30

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 20 files changed, 12454 insertions(+), 10427 deletions(-)

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Package hglm updated to version 2.0-11 with previous version 2.0-9 dated 2014-09-27

Title: Hierarchical Generalized Linear Models
Description: This package fits hierarchical generalized linear models. It can be used for linear mixed models and generalized linear mixed models with random effects for a variety of links and a variety of distributions for both the outcomes and the random effects. Fixed effects can also be fitted in the dispersion part of the mean model.
Author: Xia Shen, Moudud Alam, Lars Ronnegard
Maintainer: Xia Shen

Diff between hglm versions 2.0-9 dated 2014-09-27 and 2.0-11 dated 2014-10-30

 hglm-2.0-11/hglm/ChangeLog                                 |   15 +
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Package surveillance updated to version 1.8-1 with previous version 1.8-0 dated 2014-06-17

Title: Temporal and Spatio-Temporal Modeling and Monitoring of Epidemic Phenomena
Description: A package implementing statistical methods for the modeling and change-point detection in time series of counts, proportions and categorical data, as well as for the modeling of continuous-time epidemic phenomena, e.g. discrete-space setups such as the spatially enriched Susceptible-Exposed-Infectious-Recovered (SEIR) models for surveillance data, or continuous-space point process data such as the occurrence of disease or earthquakes. Main focus is on outbreak detection in count data time series originating from public health surveillance of infectious diseases, but applications could just as well originate from environmetrics, reliability engineering, econometrics or social sciences. Currently the package contains implementations of typical outbreak detection procedures such as Farrington et al (1996), Noufaily et al (2012) or the negative binomial LR-CUSUM method described in Hoehle and Paul (2008). Furthermore, inference methods for the retrospective infectious disease model in Held et al (2005), Held et al (2006), Paul et al (2008) and Paul and Held (2011) are provided. A novel CUSUM approach combining logistic and multinomial logistic modelling is also included. Continuous self-exciting spatio-temporal point processes are modeled through additive-multiplicative conditional intensities as described in Höhle (2009) ("twinSIR", discrete space) and Meyer et al (2012) ("twinstim", continuous space). The package contains several real-world data sets, the ability to simulate outbreak data, visualize the results of the monitoring in temporal, spatial or spatio-temporal fashion. Note: The suggested package INLA is unfortunately not available from any mainstream repository - in case one wants to use the 'boda' algorithm one needs to manually install the INLA package as specified at http://www.r-inla.org/download.
Author: Michael Höhle [aut, cre, ths], Sebastian Meyer [aut], Michaela Paul [aut], Leonhard Held [ctb, ths], Thais Correa [ctb], Mathias Hofmann [ctb], Christian Lang [ctb], Juliane Manitz [ctb], Andrea Riebler [ctb], Daniel Sabanés Bové [ctb], Maëlle Salmon [ctb], Dirk Schumacher [ctb], Stefan Steiner [ctb], Mikko Virtanen [ctb], Valentin Wimmer [ctb], R Core Team [ctb] (A few code segments are modified versions of code from base R)
Maintainer: Michael Höhle

Diff between surveillance versions 1.8-0 dated 2014-06-17 and 1.8-1 dated 2014-10-30

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More information about surveillance at CRAN
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New package fPortfolio with initial version 3011.81
Package: fPortfolio
Title: Rmetrics - Portfolio Selection and Optimization
Date: 2014-10-30
Version: 3011.81
Author: Rmetrics Core Team, Diethelm Wuertz [aut], Tobias Setz [cre], Yohan Chalabi [ctb]
Maintainer: Tobias Setz
Description: Environment for teaching "Financial Engineering and Computational Finance".
Depends: R (>= 2.15.1), methods, timeDate, timeSeries, fBasics, fAssets
Imports: fCopulae, robustbase, MASS, Rglpk, slam, Rsymphony, Rsolnp, kernlab, quadprog, rneos
Suggests: Rsocp, Rnlminb2, Rdonlp2, dplR, bcp, fGarch, mvoutlier
Additional_repositories: http://r-forge.r-project.org/
Note: SEVERAL PARTS ARE STILL PRELIMINARY AND MAY BE CHANGED IN THE FUTURE. THIS TYPICALLY INCLUDES FUNCTION AND ARGUMENT NAMES, AS WELL AS DEFAULTS FOR ARGUMENTS AND RETURN VALUES.
LazyData: yes
License: GPL (>= 2)
URL: https://www.rmetrics.org
Packaged: 2014-10-30 14:13:59 UTC; Tobi
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-10-30 15:54:08

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Package RcppArmadillo updated to version 0.4.500.0 with previous version 0.4.450.1.0 dated 2014-09-22

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 0.4.450.1.0 dated 2014-09-22 and 0.4.500.0 dated 2014-10-30

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Package fAssets updated to version 3011.83 with previous version 3011.82 dated 2014-09-22

Title: Rmetrics - Analysing and Modelling Financial Assets
Description: Environment for teaching "Financial Engineering and Computational Finance".
Author: Rmetrics Core Team, Diethelm Wuertz [aut], Tobias Setz [cre], Yohan Chalabi [ctb]
Maintainer: Tobias Setz

Diff between fAssets versions 3011.82 dated 2014-09-22 and 3011.83 dated 2014-10-30

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Package etasFLP updated to version 1.1.1 with previous version 1.1.0 dated 2014-10-28

Title: Mixed FLP and ML Estimation of ETAS Space-Time Point Processes
Description: Estimation of the components of an ETAS model for earthquake description. Non-parametric background seismicity can be estimated through FLP (Forward Likelihood Predictive), while parametric components are estimated through maximum likelihood. The two estimation steps are alternated until convergence is obtained. For each event the probability of being a background event is estimated and used as a weight for declustering steps. Many options to control the estimation process are present. Some descriptive functions for earthquakes catalogs are present; also plot, print, summary, profile methods are defined for main output (objects of class "etasclass").
Author: Marcello Chiodi [aut, cre], Giada Adelfio [aut]
Maintainer: Marcello Chiodi

Diff between etasFLP versions 1.1.0 dated 2014-10-28 and 1.1.1 dated 2014-10-30

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Package sn updated to version 1.1-1 with previous version 1.1-0 dated 2014-08-04

Title: The skew-normal and skew-t distributions
Description: Define and manipulate probability distributions of the skew-normal family and some related ones (notably the skew-t family) and provide related statistical methods for data fitting and diagnostics, in the univariate and the multivariate case.
Author: Adelchi Azzalini
Maintainer: Adelchi Azzalini

Diff between sn versions 1.1-0 dated 2014-08-04 and 1.1-1 dated 2014-10-30

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New package PrevMap with initial version 1.0
Package: PrevMap
Type: Package
Title: PrevMap - an R package for prevalence mapping
Version: 1.0
Date: 2014-06-25
Author: Emanuele Giorgi, Peter J. Diggle
Maintainer: Emanuele Giorgi
Depends: geoR, maxLik, raster, pdist
Description: The PrevMap package provides functions for both likelihood-based and Bayesian analysis of spatially referenced prevalence data. 'PrevMap' is also an extension of the 'geoR' package which should be installed first together with the 'maxLik', 'raster' and 'pdist' packages.
LazyData: true
License: GPL (>= 2)
Packaged: 2014-10-30 09:40:57 UTC; giorgi
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-10-30 11:18:02

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Package MortalitySmooth updated to version 2.3.3 with previous version 2.3.2 dated 2013-12-28

Title: Smoothing and Forecasting Poisson Counts with P-Splines
Description: Smoothing one- and two-dimensional Poisson counts with P-splines specifically tailored to mortality data. Extra-Poisson variation can be accounted as well as forecasting. Collection of mortality data and a specific function for selecting those data by country, sex, age and years.
Author: Carlo G Camarda
Maintainer: Carlo G Camarda

Diff between MortalitySmooth versions 2.3.2 dated 2013-12-28 and 2.3.3 dated 2014-10-30

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New package webutils with initial version 0.2
Package: webutils
Type: Package
Title: Utility Functions for Web Applications
Version: 0.2
Date: 2014-10-29
Author: Jeroen Ooms
Maintainer: Jeroen Ooms
Description: Utility functions for developing web applications. Includes parsers for application/x-www-form-urlencoded as well as multipart/form-data and examples of using the parser with either httpuv or rhttpd.
License: MIT + file LICENSE
URL: https://github.com/jeroenooms/webutils
BugReports: https://github.com/jeroenooms/webutils/issues
Imports: tools, utils, jsonlite
Suggests: httpuv
Packaged: 2014-10-30 00:32:01 UTC; jeroen
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-10-30 07:46:54

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Package pollstR updated to version 1.1.1 with previous version 1.1.0 dated 2014-08-18

Title: R client for the Huffpost Pollster API
Description: An R interface to the Huffington Post Pollster API, which provides programmatic interface to political polls.
Author: Jeffrey B. Arnold [aut, cre], Thomas J. Leeper [aut]
Maintainer: Jeffrey B. Arnold

Diff between pollstR versions 1.1.0 dated 2014-08-18 and 1.1.1 dated 2014-10-30

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Package multicon updated to version 1.3 with previous version 1.2 dated 2014-04-19

Title: Multivariate Constructs
Description: This packages includes functions designed to examine relationships among multivariate constructs.
Author: Ryne A. Sherman
Maintainer: Ryne A. Sherman

Diff between multicon versions 1.2 dated 2014-04-19 and 1.3 dated 2014-10-30

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