Mon, 03 Nov 2014

Package SSN updated to version 1.1.4 with previous version 1.1.3 dated 2014-05-29

Title: Spatial Modeling on Stream Networks
Description: Geostatistical modeling for data on stream networks, including models based on in-stream distance. Models are created using moving average constructions. Spatial linear models, including covariates, can be fit with ML or REML. Mapping and other graphical functions are included.
Author: Jay Ver Hoef and Erin Peterson
Maintainer: Jay Ver Hoef

Diff between SSN versions 1.1.3 dated 2014-05-29 and 1.1.4 dated 2014-11-03

 DESCRIPTION               |    8 +-
 MD5                       |   31 +++++-----
 R/additive.function.jay.R |   17 +++--
 R/createDistMat.R         |    8 +-
 R/createSSN.R             |   18 +++++-
 R/createbinaryID.r        |   24 +++++---
 R/split.predictions.R     |  138 +++++++++++++++++++++++++++++++++++++++-------
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Permanent link

New package spareserver with initial version 1.0.0
Package: spareserver
Title: Client side load balancing
Version: 1.0.0
Authors@R: "Gabor Csardi [aut, cre]"
Description: Client size load balancing. Decide which server to connect to, based on previous response times, and configuration.
License: MIT + file LICENSE
LazyData: true
URL: https://github.com/metacran/spareserver
BugReports: https://github.com/metacran/spareserver/issues
Imports: assertthat, pingr, httr
Suggests: testthat
Depends: methods
Packaged: 2014-11-03 22:14:21 UTC; gaborcsardi
Author: "Gabor Csardi" [aut, cre]
Maintainer: "Gabor Csardi"
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-04 01:41:52

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New package snht with initial version 1.0
Package: snht
Type: Package
Title: Standard Normal Homogeneity Test
Version: 1.0
Date: 2014-09-23
Imports: MASS, zoo, plyr, reshape
Author: Josh Browning
Maintainer: Josh Browning
Description: Robust and non-robust SNHT tests for changepoint detection.
License: GPL-3
Packaged: 2014-11-03 18:00:50 UTC; jbrownin
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-04 01:13:15

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Package fslr updated to version 1.3 with previous version 1.1 dated 2014-07-31

Title: Wrapper functions for FSL (FMRIB Software Library) from Functional MRI of the Brain (FMRIB)
Description: Wrapper functions that interface with FSL (http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/), a powerful and commonly-used neuroimaging software, using system commands. The goal is to be able to interface with FSL completely in R, where you pass R nifti objects and the function executes an FSL command and returns an R nifti object if desired.
Author: John Muschelli
Maintainer: John Muschelli

Diff between fslr versions 1.1 dated 2014-07-31 and 1.3 dated 2014-11-03

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 97 files changed, 983 insertions(+), 243 deletions(-)

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New package TRSbook with initial version 1.0
Package: TRSbook
Type: Package
Title: Functions and Datasets to Accompany the Book "The R Software: Fundamentals of Programming and Statistical Analysis"
Version: 1.0
Date: 2014-02-04
Author: Lafaye de Micheaux Pierre, Drouilhet Remy, Liquet Benoit
Maintainer: P Lafaye de Micheaux
Description: Functions and datasets for the reader of the book "The R Software: Fundamentals of Programming and Statistical Analysis".
License: GPL (>= 2)
LazyLoad: yes
Depends: xtable, RColorBrewer, gdata, IndependenceTests
Packaged: 2014-11-03 22:16:07 UTC; lafaye
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-11-04 00:12:10

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Package HDPenReg updated to version 0.90 with previous version 0.89.9 dated 2014-09-08

Title: High-Dimensional Penalized Regression.
Description: This package contains algorithms for lasso and fused-lasso problems. It contains an implementation of the lars algorithm [1], for the lasso and fusion penalization and EM-based algorithms for (logistic) lasso and fused-lasso.
Author: Quentin Grimonprez [aut, cre], Serge Iovleff [ctb]
Maintainer: Quentin Grimonprez

Diff between HDPenReg versions 0.89.9 dated 2014-09-08 and 0.90 dated 2014-11-03

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 41 files changed, 354 insertions(+), 227 deletions(-)

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Package FME updated to version 1.3.2 with previous version 1.3.1 dated 2014-01-13

Title: A Flexible Modelling Environment for Inverse Modelling, Sensitivity, Identifiability, Monte Carlo Analysis.
Description: Provides functions to help in fitting models to data, to perform Monte Carlo, sensitivity and identifiability analysis. It is intended to work with models be written as a set of differential equations that are solved either by an integration routine from package deSolve, or a steady-state solver from package rootSolve. However, the methods can also be used with other types of functions.
Author: Karline Soetaert , Thomas Petzoldt
Maintainer: Karline Soetaert

Diff between FME versions 1.3.1 dated 2014-01-13 and 1.3.2 dated 2014-11-03

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 13 files changed, 93 insertions(+), 52 deletions(-)

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Package tm.plugin.webmining updated to version 1.2.2 with previous version 1.2 dated 2014-06-11

Title: Retrieve structured, textual data from various web sources
Description: tm.plugin.webmining facilitates text retrieval from feed formats like XML (RSS, ATOM) and JSON. Also direct retrieval from HTML is supported. As most (news) feeds only incorporate small fractions of the original text tm.plugin.webmining even retrieves and extracts the text of the original text source.
Author: Mario Annau [aut, cre]
Maintainer: Mario Annau

Diff between tm.plugin.webmining versions 1.2 dated 2014-06-11 and 1.2.2 dated 2014-11-03

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New package sdcTarget with initial version 0.9-11
Package: sdcTarget
Type: Package
Title: Statistical Disclosure Control Substitution Matrix Calculator
Author: Emmanuel Lazaridis [aut, cre]
Maintainer: Emmanuel Lazaridis
Depends: R (>= 2.10.0), methods, magic, foreach, parallel, doParallel, tuple (>= 0.4-02)
Description: Classes and methods to calculate and evaluate target matrices for statistical disclosure control.
License: CC BY-NC 4.0
Encoding: UTF-8
LazyLoad: no
URL: http://statistics.lazaridis.eu
Authors@R: c(person(given = "Emmanuel", family = "Lazaridis", email="emmanuel@lazaridis.eu", role = c("aut", "cre")))
Version: 0.9-11
Date: 2014-11-03
Packaged: 2014-11-03 11:02:40 UTC; james
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-03 15:16:24

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New package ScoreGGUM with initial version 1.0
Package: ScoreGGUM
Type: Package
Title: Score Persons Using the Generalized Graded Unfolding Model
Version: 1.0
Date: 2014-10-22
Author: David R. King and James S. Roberts
Maintainer: David R. King
Description: Estimate GGUM Person Parameters Using Pre-Calibrated Item Parameters and Binary or Graded Disagree-Agree Responses
License: GPL (>= 2)
LazyLoad: yes
Repository: CRAN
Packaged: 2014-11-03 09:12:43 UTC; Lab_User
NeedsCompilation: no
Date/Publication: 2014-11-03 14:56:45

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Package rsdmx updated to version 0.4-2 with previous version 0.4-1 dated 2014-09-02

Title: Tools for reading SDMX data and metadata
Description: rsdmx provides a set of classes and methods to read data and metadata documents exchanged through the Statistical Data and Metadata Exchange (SDMX) framework. The package currently focuses on the SDMX XML standard format (SDMX-ML).
Author: Emmanuel Blondel [aut, cre], Matthieu Stigler [ctb]
Maintainer: Emmanuel Blondel

Diff between rsdmx versions 0.4-1 dated 2014-09-02 and 0.4-2 dated 2014-11-03

 DESCRIPTION                                              |    8 
 MD5                                                      |   72 
 NAMESPACE                                                |    1 
 R/Class-SDMX.R                                           |   28 
 R/Class-SDMXHeader.R                                     |  182 
 R/SDMXCompactData-methods.R                              |    9 
 R/SDMXDataStructures-methods.R                           |   82 
 R/SDMXMessageGroup-methods.R                             |   56 
 R/readSDMX.R                                             |   85 
 README.md                                                |    2 
 inst/extdata/Example_Eurostat_2.0.xml                    |  100 
 inst/extdata/Example_Eurostat_2.1.xml                    |  138 
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 man/getVersion-methods.Rd                                |   54 
 man/readSDMX.Rd                                          |    6 
 man/rsdmx-package.Rd                                     |    4 
 man/version.SDMXSchema.Rd                                |   40 
 tests/testthat/test_MessageGroup.R                       |   12 
 38 files changed, 33632 insertions(+), 33565 deletions(-)

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Package pracma updated to version 1.7.7 with previous version 1.7.3 dated 2014-10-12

Title: Practical Numerical Math Functions
Description: Functions from numerical analysis and linear algebra, numerical optimization, differential equations, plus some special functions. Uses Matlab function names where appropriate to simplify porting.
Author: Hans Werner Borchers
Maintainer: Hans W. Borchers

Diff between pracma versions 1.7.3 dated 2014-10-12 and 1.7.7 dated 2014-11-03

 DESCRIPTION          |   12 -
 MD5                  |   49 +++---
 NEWS                 |   37 +++-
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 man/newtonRaphson.Rd |    5 
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 26 files changed, 1084 insertions(+), 467 deletions(-)

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Package PopGenome updated to version 2.1.0 with previous version 2.0.9 dated 2014-08-30

Title: An Efficient Swiss Army Knife for Population Genomic Analyses
Description: PopGenome is an R-package for Population Genetic & Genomic Analysis
Author: Bastian Pfeifer, Ulrich Wittelsbuerger
Maintainer: Bastian Pfeifer

Diff between PopGenome versions 2.0.9 dated 2014-08-30 and 2.1.0 dated 2014-11-03

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 MD5                                                   |   71 +++++----
 NAMESPACE                                             |    1 
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 R/PopGplot.R                                          |    4 
 R/calc_diversities.R                                  |    1 
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 R/concatenate.R                                       |   51 +++++-
 R/fstcalc.R                                           |    4 
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 R/get_data.R                                          |    6 
 R/get_segsites.R                                      |   12 +
 R/getsyn.R                                            |    2 
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 src/R2_C.c                                            |  132 +++++++++++++++---
 src/whopgenome/whopgen_codemat.cpp                    |   26 ++-
 38 files changed, 415 insertions(+), 142 deletions(-)

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New package MGL with initial version 1.0
Package: MGL
Type: Package
Title: Module Graphical Lasso
Version: 1.0
Date: 2014-11-01
Author: Safiye Celik
Maintainer: Safiye Celik
Description: An aggressive dimensionality reduction and network estimation technique for a high-dimensional Gaussian graphical model (GGM). Please refer to: Efficient Dimensionality Reduction for High-Dimensional Network Estimation, Safiye Celik, Benjamin A. Logsdon, Su-In Lee, Proceedings of The 31st International Conference on Machine Learning, 2014, p. 1953--1961.
License: GPL (>= 2)
URL: https://sites.google.com/a/cs.washington.edu/mgl/
Packaged: 2014-11-03 08:43:38 UTC; Administrator
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-11-03 13:39:58

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Package limSolve updated to version 1.5.5.1 with previous version 1.5.5 dated 2013-07-02

Title: Solving Linear Inverse Models
Description: Functions that (1.) Find the minimum/maximum of a linear or quadratic function: min or max (f(x)), where f(x) = ||Ax-b||^2 or f(x) = sum(ai*xi) subject to equality constraints Ex=f and/or inequality constraints Gx>=h. (2.) Sample an underdetermined- or overdetermined system Ex=f subject to Gx>=h, and if applicable Ax~=b. (3.) Solve a linear system Ax=B for the unknown x. Includes banded and tridiagonal linear systems. The package calls Fortran functions from LINPACK
Author: Karline Soetaert [aut, cre], Karel Van den Meersche [aut], Dick van Oevelen [aut], LAPACK authors [cph]
Maintainer: Karline Soetaert

Diff between limSolve versions 1.5.5 dated 2013-07-02 and 1.5.5.1 dated 2014-11-03

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Package BNSP updated to version 1.0.1 with previous version 1.0.0 dated 2014-10-10

Title: Bayesian Non- and Semi-parametric Model Fitting
Description: Markov chain Monte Carlo algorithms for non- and semi-parametric models
Author: Georgios Papageorgiou
Maintainer: Georgios Papageorgiou

Diff between BNSP versions 1.0.0 dated 2014-10-10 and 1.0.1 dated 2014-11-03

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 DESCRIPTION           |   11 ++-
 MD5                   |   21 ++++---
 NAMESPACE             |    2 
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 src/OneResLtnt.c      |  118 +++++++++++++++++++++++++---------------
 src/SpecOneRL.h       |   24 ++++----
 src/other.functions.h |  121 +++++++++++++++++++++++++++++++++--------
 src/pdfs.h            |    9 +++
 13 files changed, 344 insertions(+), 179 deletions(-)

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New package BayesTree with initial version 0.3-1.2
Package: BayesTree
Version: 0.3-1.2
Date: 2014-11-2
Title: Bayesian Additive Regression Trees
Author: Hugh Chipman , Robert McCulloch
Maintainer: Robert McCulloch
Imports: nnet
Description: Implementation of BART:Bayesian Additive Regression Trees, Chipman, George, McCulloch (2010)
License: GPL (>= 2)
URL: http://www.r-project.org, http://www.rob-mcculloch.org
Packaged: 2014-11-03 01:47:21 UTC; rem
Repository: CRAN
Date/Publication: 2014-11-03 02:50:56
NeedsCompilation: yes

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Package afex updated to version 0.12-135 with previous version 0.11-131 dated 2014-10-11

Title: Analysis of Factorial Experiments
Description: Provides convenience functions for analyzing factorial experiments using ANOVA or mixed models. ez.glm(), aov.car(), or aov4() allow convenient specification of between, within (i.e., repeated-measures), or mixed between-within (i.e., split-plot) ANOVAs for data in long format (i.e., one observation per row) aggregating more then one observation per individual and cell of the design. mixed() fits a mixed model using lme4::lmer() and computes p-values for all effects in the model using either Kenward-Roger approximation of degrees of freedom (LMM only), parametric bootstrap (LMMs and GLMMs) or likelihood ratio tests (LMMs and GLMMs). afex uses type 3 sums of squares as default (imitating commercial statistical software). compare.2.vectors() compares two vectors using a variety of tests (t, wilcoxon, and permutation).
Author: Henrik Singmann [aut, cre], Ben Bolker [aut], Søren Højsgaard [ctb], John Fox [ctb], Michael A. Lawrence [ctb], Ulf Mertens [ctb]
Maintainer: Henrik Singmann

Diff between afex versions 0.11-131 dated 2014-10-11 and 0.12-135 dated 2014-11-03

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 R/aov.car.R                           |    7 +++++++
 R/mixed.R                             |    4 +++-
 man/afex-package.Rd                   |    4 ++--
 tests/testthat/test-aov.car-bugs.R    |   15 ++++++++++++---
 tests/testthat/test-mixed-structure.R |   16 +++++++++++++---
 9 files changed, 84 insertions(+), 31 deletions(-)

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