Thu, 08 Dec 2011

Package yaml updated to version 2.1.1 with previous version 2.1.0 dated 2011-12-03

Title: Methods to convert R data to YAML and back
Description: This package implements the libyaml YAML parser and emitter (http://pyyaml.org/wiki/LibYAML) for R.
Author: Jeremy Stephens
Maintainer: Jeremy Stephens

Diff between yaml versions 2.1.0 dated 2011-12-03 and 2.1.1 dated 2011-12-08

 yaml-2.1.0/yaml/TODO                |only
 yaml-2.1.0/yaml/man/yaml-package.Rd |only
 yaml-2.1.1/yaml/DESCRIPTION         |    8 +--
 yaml-2.1.1/yaml/MD5                 |   11 ++--
 yaml-2.1.1/yaml/inst/CHANGELOG      |    5 ++
 yaml-2.1.1/yaml/src/Makevars        |only
 yaml-2.1.1/yaml/src/implicit.c      |   82 ++++++++++++++++++------------------
 yaml-2.1.1/yaml/src/r-ext.c         |   18 +++----
 8 files changed, 64 insertions(+), 60 deletions(-)

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New package ThresholdROC with initial version 1.0
Package: ThresholdROC
Type: Package
Title: Optimum threshold estimation based on cost function in a two and three state setting
Version: 1.0
Date: 2011-12-07
Author: Konstantina Skaltsa
Maintainer: Konstantina Skaltsa
Description: The ThresholdROC package provides point and interval estimations of the optimum threshold for continuous diagnostic tests (two and three states setting). The point estimation is based on the definition of a cost function which we opt to minimise. An analytical estimator exists for the binormal and trinormal model and the empirical one is used for all settings. The interval estimation is based on the Delta method variance estimator in a binormal parametric setting and on methods on non-linear equations for the trinormal setting. Bootstrap methods are also provided for the confidence intervals.
License: GPL (>= 2)
LazyLoad: yes
Packaged: 2011-12-07 23:48:20 UTC; KS
Repository: CRAN
Date/Publication: 2011-12-08 19:01:42

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Package spatialsegregation updated to version 2.34 with previous version 2.31 dated 2011-10-08

Title: Segregation measures for multitype spatial point patterns
Description: Summaries for measuring segregation/mingling in multitype spatial point patterns with graph based neighbourhood description. Included indices: Mingling, Shannon, Simpson (also the non-spatial) Included functionals: Mingling, Shannon, Simpson, ISAR, MCI. Included neighbourhoods: Geometric, k-nearest neighbours, Gabriel, Delaunay.
Author: Tuomas Rajala
Maintainer: Tuomas Rajala

Diff between spatialsegregation versions 2.31 dated 2011-10-08 and 2.34 dated 2011-12-08

 DESCRIPTION                              |   18 +++++------
 MD5                                      |   48 +++++++++++++++----------------
 NAMESPACE                                |    6 +++
 R/biomass.R                              |    3 +
 R/fun.R                                  |   26 +++++++++++-----
 R/isar.R                                 |    2 -
 R/mci.R                                  |    2 -
 R/mingling.R                             |    2 -
 R/shannon.R                              |    2 -
 R/simpson.R                              |    2 -
 change.log                               |    5 +++
 man/spatialsegregation-ISAR.Rd           |    4 +-
 man/spatialsegregation-biomass.Rd        |    6 +--
 man/spatialsegregation-exposurepps.Rd    |    2 -
 man/spatialsegregation-mingling.Rd       |    4 +-
 man/spatialsegregation-package.Rd        |    2 -
 man/spatialsegregation-segregationFun.Rd |    9 +++--
 man/spatialsegregation-shannon.Rd        |    2 -
 man/spatialsegregation-simpson.Rd        |    2 -
 src/Fun.cpp                              |   19 ++++++++++--
 src/Fun.h                                |    3 +
 src/Pp.cpp                               |   21 +++++++++++++
 src/Pp.h                                 |    8 ++++-
 src/biomass.cpp                          |    2 -
 toadd.txt                                |    2 +
 25 files changed, 134 insertions(+), 68 deletions(-)

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Package stringr updated to version 0.6 with previous version 0.5 dated 2011-06-30

Title: Make it easier to work with strings.
Description: stringr is a set of simple wrappers that make R's string functions more consistent, simpler and easier to use. It does this by ensuring that: function and argument names (and positions) are consistent, all functions deal with NA's and zero length character appropriately, and the output data structures from each function matches the input data structures of other functions.
Author: Hadley Wickham
Maintainer: Hadley Wickham

Diff between stringr versions 0.5 dated 2011-06-30 and 0.6 dated 2011-12-08

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 stringr-0.6/stringr/NAMESPACE                |   23 +++++------
 stringr-0.6/stringr/NEWS                     |    8 +++
 stringr-0.6/stringr/R/checks.r               |   10 ----
 stringr-0.6/stringr/R/count.r                |    7 ---
 stringr-0.6/stringr/R/detect.r               |    7 ++-
 stringr-0.6/stringr/R/extract.r              |   10 ----
 stringr-0.6/stringr/R/length.r               |    2 
 stringr-0.6/stringr/R/locate.r               |    9 ----
 stringr-0.6/stringr/R/match.r                |   35 +++++-----------
 stringr-0.6/stringr/R/modifiers.r            |   31 ++++++++++++++
 stringr-0.6/stringr/R/replace.r              |   10 ----
 stringr-0.6/stringr/R/sub.r                  |    6 +-
 stringr-0.6/stringr/R/vectorise.r            |    9 +++-
 stringr-0.6/stringr/R/wrap.r                 |    2 
 stringr-0.6/stringr/inst/tests/test-detect.r |    3 +
 stringr-0.6/stringr/man/fixed.Rd             |   28 +++++++------
 stringr-0.6/stringr/man/ignore.case.Rd       |   27 +++++++------
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 stringr-0.6/stringr/man/str_c.Rd             |   49 +++++++++++++----------
 stringr-0.6/stringr/man/str_count.Rd         |   47 +++++++++++++---------
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 stringr-0.6/stringr/man/str_dup.Rd           |   28 +++++++------
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 stringr-0.6/stringr/man/str_extract_all.Rd   |   41 ++++++++++++-------
 stringr-0.6/stringr/man/str_length.Rd        |   30 +++++++++-----
 stringr-0.6/stringr/man/str_locate.Rd        |   50 ++++++++++++++----------
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 stringr-0.6/stringr/man/str_match.Rd         |   44 +++++++++++----------
 stringr-0.6/stringr/man/str_match_all.Rd     |   39 ++++++++++--------
 stringr-0.6/stringr/man/str_pad.Rd           |   44 ++++++++++++---------
 stringr-0.6/stringr/man/str_replace.Rd       |   56 +++++++++++++++------------
 stringr-0.6/stringr/man/str_replace_all.Rd   |   55 +++++++++++++++-----------
 stringr-0.6/stringr/man/str_split.Rd         |   49 +++++++++++++----------
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 stringr-0.6/stringr/man/str_sub.Rd           |   56 +++++++++++++++------------
 stringr-0.6/stringr/man/str_sub_replace.Rd   |   50 ++++++++++++++----------
 stringr-0.6/stringr/man/str_trim.Rd          |   29 +++++++++----
 stringr-0.6/stringr/man/str_wrap.Rd          |   38 ++++++++++--------
 stringr-0.6/stringr/man/word.Rd              |   40 ++++++++++++-------
 44 files changed, 706 insertions(+), 505 deletions(-)

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Package RInside updated to version 0.2.5 with previous version 0.2.4 dated 2011-04-24

Title: C++ classes to embed R in C++ applications
Description: C++ classes to embed R in C++ applications The RInside packages makes it easier to have 'R inside' your C++ application by providing a few wrapper classes. As R itself is embedded into your application, a shared library build of R is required. This works on Linux, OS X and even on Windows provided you use the same tools used to build R itself. (NB: Windows versions curretly seg.fault and debugging help would be appreciated. An older version worked fine, but there may have been some Rcpp changes which caused this.) Numerous examples are provided in the three subdirectories the examples/ directory of the installed package: standard, mpi (for parallel computing) and qt (showing how to embed RInside inside a Qt application). Doxygen-generated documentation of the C++ classes is available at the RInside website as well.
Author: Dirk Eddelbuettel and Romain Francois
Maintainer: Dirk Eddelbuettel and Romain Francois

Diff between RInside versions 0.2.4 dated 2011-04-24 and 0.2.5 dated 2011-12-08

 RInside-0.2.4/RInside/COPYING                                           |only
 RInside-0.2.4/RInside/inst/examples/qt/qtdensity.cpp                    |only
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 RInside-0.2.5/RInside/ChangeLog                                         |   40 +
 RInside-0.2.5/RInside/DESCRIPTION                                       |   36 -
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 RInside-0.2.5/RInside/cleanup                                           |    2 
 RInside-0.2.5/RInside/doxyfile                                          |    7 
 RInside-0.2.5/RInside/inst/NEWS                                         |   19 
 RInside-0.2.5/RInside/inst/THANKS                                       |    1 
 RInside-0.2.5/RInside/inst/examples/standard/Makefile.win               |   10 
 RInside-0.2.5/RInside/inst/examples/standard/rinside_module_sample0.cpp |   12 
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 RInside-0.2.5/RInside/inst/include/RInsideAutoloads.h                   |   22 
 RInside-0.2.5/RInside/inst/include/RInsideCommon.h                      |   13 
 RInside-0.2.5/RInside/inst/include/RInsideEnvVars.h                     |   17 
 RInside-0.2.5/RInside/src/RInside.cpp                                   |  324 +++++-----
 19 files changed, 317 insertions(+), 186 deletions(-)

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Package regress updated to version 1.3-5 with previous version 1.3-4 dated 2011-12-04

Title: Gaussian linear models with linear covariance structure
Description: Functions to fit Gaussian linear model by maximising the residual log likelihood where the covariance structure can be written as a linear combination of known matrices. Can be used for multivariate models and random effects models. Easy straight forward manner to specify random effects models, including random interactions. Code now optimised to use Sherman Morrison Woodbury identities for matrix inversion in random effects models. We've added the abilty to fit models using any kernel as well as a function to return the mean and covariance of random effects conditional on the data (BLUPs).
Author: David Clifford and Peter McCullagh. Additional contributions by HJ Auinger.
Maintainer: David Clifford

Diff between regress versions 1.3-4 dated 2011-12-04 and 1.3-5 dated 2011-12-08

 DESCRIPTION           |    8 +-
 MD5                   |   11 +--
 R/BLUP.R              |    2 
 R/regress.R           |    9 ++
 man/regress.Rd        |    5 +
 tests/.Rhistory       |  159 ++++++++++++++++++++++++++++++++++++++++++++++++++
 tests/regress.tests.R |   11 +++
 tests/regressPaper.R  |only
 8 files changed, 192 insertions(+), 13 deletions(-)

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New package quantspec with initial version 0.1
Package: quantspec
Type: Package
Title: Quantile-based Spectral Analysis of Time Series
Version: 0.1
Date: 2011-12-08
Authors@R: c(person("Tobias","Kley", role = c("aut","cre"), email = "tobias.kley@ruhr-uni-bochum.de"))
Author: Tobias Kley
Maintainer: Tobias Kley
URL: http://www.ruhr-uni-bochum.de/mathematik3/team/kley.html
Depends: R (>= 2.12.0), quantreg, rje, tcltk, zoo
Suggests: FinTS
Description: Methods to determine, smooth and plot Laplace periodograms and rank-based Laplace periodograms for univariate time series.
License: GPL (>= 2)
Packaged: 2011-12-08 16:22:41 UTC; kley
Repository: CRAN
Date/Publication: 2011-12-08 20:09:16

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New package pgmm with initial version 1.0
Package: pgmm
Type: Package
Title: Parsimonious Gaussian mixture models
Version: 1.0
Date: 2011-12-06
Author: Paul McNicholas, Raju Jampani, Aaron McDaid, Brendan Murphy, Larry Banks
Maintainer: Paul McNicholas
Description: Carries out model-based clustering or classification using parsimonious Gaussian mixture models.
License: GPL (>= 2)
LazyLoad: yes
Packaged: 2011-12-08 18:40:04 UTC; paul
Repository: CRAN
Date/Publication: 2011-12-08 20:09:15

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Package nga updated to version 1.4-1 with previous version 1.4 dated 2011-12-05

Title: NGA Earthquake Ground Motion Prediction Equations
Description: This package implements the earthquake ground motion prediction equations developed as part of the Next Generation Attenuation of Ground Motions (NGA) project coordinated by the Pacific Earthquake Engineering Research Center (PEER) in 2008. The models implemented in this package are AS08 (Abrahamson & Silva, 2008), BA08 (Boore & Atkinson, 2008), CB08 (Campbell & Bozorgnia, 2008), and CY08 (Chiou & Youngs, 2008). This numerical implementation has been validated by comparing the results for 128,000 test cases against the results obtained using the Fortran implementation composed by David M. Boore and Kenneth W. Campbell. Users are encouraged to view U.S. Geological Survey Open-File Report 1296, entitled "Implementation of the Next Generation Attenuation (NGA) Ground-Motion Prediction Equations in Fortran and R," by J. Kaklamanos, D. M. Boore, E. M. Thompson, and K. W. Campbell (2010) for further details on these programs. More details (including a change log) are available at .
Author: James Kaklamanos and Eric M. Thompson
Maintainer: James Kaklamanos

Diff between nga versions 1.4 dated 2011-12-05 and 1.4-1 dated 2011-12-08

 DESCRIPTION         |    8 -
 MD5                 |   20 ++--
 man/KBflatfile.Rd   |  117 +++++++++++++-------------
 man/Sa.nga.Rd       |  228 +++++++++++++++++++++++++---------------------------
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 11 files changed, 272 insertions(+), 272 deletions(-)

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Package memisc updated to version 0.95-37 with previous version 0.95-35 dated 2011-11-07

Title: Tools for Management of Survey Data, Graphics, Programming, Statistics, and Simulation
Description: One of the aims of this package is to make life easier for useRs who deal with survey data sets. It provides an infrastructure for the management of survey data including value labels, definable missing values, recoding of variables, production of code books, and import of (subsets of) SPSS and Stata files. Further, it provides functionality to produce tables and data frames of arbitrary descriptive statistics and (almost) publication-ready tables of regression model estimates. Also some convenience tools for graphics, programming, and simulation are provided.
Author: Martin Elff
Maintainer: Martin Elff

Diff between memisc versions 0.95-35 dated 2011-11-07 and 0.95-37 dated 2011-12-08

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 R/mtable.R          |    4 +++-
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 inst/doc/anes48.pdf |binary
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 8 files changed, 19 insertions(+), 14 deletions(-)

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Package kml3d updated to version 0.7 with previous version 0.6 dated 2011-11-24

Title: K-means for joint Longitudinal data
Description: KmL3D is an implementation of k-means specificaly design to deal with joint longitudinal data (longitudinal data on several variable). It provide facilities to deal with missing value and propose a graphical interphace for chosing the correct number of clusters.
Author: Christophe Genolini
Maintainer: Christophe Genolini

Diff between kml3d versions 0.6 dated 2011-11-24 and 0.7 dated 2011-12-08

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Package googleVis updated to version 0.2.12 with previous version 0.2.11 dated 2011-11-17

Title: Interface between R and the Google Visualisation API
Description: googleVis provides an interface between R and the Google Visualisation API to create interactive charts. The functions of the package allow the user to visualise data stored in R data frames with the Google Visualisation API in a web browser, without uploading the data to Google. The output of a googleVis function is html code that contains the data and references to JavaScript functions hosted by Google. googleVis makes use of the internal R HTTP server to display the output locally, e.g. http://localhost/. A browser with Flash and Internet connection is required. Please visit the project web site for more information and examples.
Author: Markus Gesmann, Diego de Castillo
Maintainer: Markus Gesmann

Diff between googleVis versions 0.2.11 dated 2011-11-17 and 0.2.12 dated 2011-12-08

 DESCRIPTION              |    8 ++++----
 MD5                      |   14 +++++++-------
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 THANKS                   |    6 +++++-
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 8 files changed, 32 insertions(+), 20 deletions(-)

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Package editrules updated to version 2.0-1 with previous version 2.0-0 dated 2011-11-30

Title: R package for parsing and manipulating edit rules
Description: Facilitates reading and manipulating (multivariate) data restrictions (edit rules) on numerical and categorical data. Rules can be defined with common R syntax and parsed to an internal (matrix-like format). Rules can be manipulated with variable elimination and value substitution methods, allowing for feasibility checks and more. Data can be tested against the rules and erroneous fields can be found based on Fellegi and Holt's generalized principle and rules can be visualized with the igraph package.
Author: Edwin de Jonge, Mark van der Loo
Maintainer: Edwin de Jonge

Diff between editrules versions 2.0-0 dated 2011-11-30 and 2.0-1 dated 2011-12-08

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Package cubature updated to version 1.1-1 with previous version 1.1 dated 2011-11-22

Title: Adaptive multivariate integration over hypercubes
Description: Adaptive multivariate integration over hypercubes
Author: C code by Steven G. Johnson, R by Balasubramanian Narasimhan
Maintainer: Balasubramanian Narasimhan

Diff between cubature versions 1.1 dated 2011-11-22 and 1.1-1 dated 2011-12-08

 ChangeLog             |    4 ++++
 DESCRIPTION           |    9 ++++-----
 MD5                   |    8 ++++----
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 man/adaptIntegrate.Rd |    8 +++++++-
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Package colorout updated to version 0.9-9 with previous version 0.9-4 dated 2011-11-23

Title: Colorize R output on terminal emulators
Description: Colorize R output when it is running on a terminal emulator. There is no support for Graphical User Interfaces, such as Windows RGui, RStudio, RKward, JGR etc. The functions of this package only work if R is compiled for Unix systems and it is running interactively in a terminal emulator. The terminal must support Select Graphic Rendition (SGR, also known as ANSI escape codes or sequences). The package contains a C library with a function that replaces the default Rstd_WriteConsoleEx which, when enabled, is responsible for printing messages in the Console when R is running in interactive mode. Screenshot: http://www.lepem.ufc.br/jaa/R_color_output.png
Author: Jakson Aquino
Maintainer: Jakson Alves de Aquino

Diff between colorout versions 0.9-4 dated 2011-11-23 and 0.9-9 dated 2011-12-08

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Package blockrand updated to version 1.2 with previous version 1.1 dated 2008-02-03

Title: Randomization for block random clinical trials
Description: Create randomizations for block random clinical trials. Can also produce a pdf file of randomization cards.
Author: Greg Snow
Maintainer: Greg Snow

Diff between blockrand versions 1.1 dated 2008-02-03 and 1.2 dated 2011-12-08

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Package bamdit updated to version 1.1-1 with previous version 1.1 dated 2011-08-30

Title: Bayesian Meta-Analysis of diagnostic test data
Description: Bayesian meta-analysis of diagnostic test data based on a scale mixtures bivariate random-effects model. Summary statistics are based on pooled and predictive sensitivities and specificities. Model checking is used for diagnostic of random-effects' misfit and predictive data is used to assess models departures from observed data.
Author: Dr. Pablo Emilio Verde & Arnold Sykosch
Maintainer: Dr. Pablo Emilio Verde

Diff between bamdit versions 1.1 dated 2011-08-30 and 1.1-1 dated 2011-12-08

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More information about bamdit at CRAN
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