Fri, 10 Sep 2010

Package ROracleUI updated to version 1.2-0 with previous version 1.1-3 dated 2010-08-27

Title: Convenient Tools for Working with Oracle Databases
Description: Easy-to-use functions to explore Oracle databases and import data into R. User interface for the ROracle package.
Author: Arni Magnusson
Maintainer: Arni Magnusson

Diff between ROracleUI versions 1.1-3 dated 2010-08-27 and 1.2-0 dated 2010-09-10

 DESCRIPTION |    8 ++++----
 NEWS        |   11 +++++++++++
 R/sql.R     |   19 +++++++++----------
 man/sql.Rd  |   17 +++++++++++++----
 4 files changed, 37 insertions(+), 18 deletions(-)

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Package Metabonomic updated to version 3.4 with previous version 3.3.2 dated 2010-09-03

Title: GUI for Metabonomic Analysis
Description: Graphical User Interface for the Metabonomic Analysis (Baseline, Normalization, Peak Detection, PCA, PLS, Nearest Neigbourgt, Neural Network) developed to make easy this data analysis.
Author: Jose L. Izquierdo Instituto de Estudios Biofuncionales(U.C.M.).
Maintainer: Jose L. Izquierdo

Diff between Metabonomic versions 3.3.2 dated 2010-09-03 and 3.4 dated 2010-09-10

 DESCRIPTION  |    8 +++---
 R/Met.PCA.R  |   73 +++++++++++++++++++++++++++++++++++++++++++++++++++++------
 R/Met.PLS2.R |   39 +++++++++++++++++++++++++------
 3 files changed, 101 insertions(+), 19 deletions(-)

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Package Bchron updated to version 3.1.1 with previous version 3.1 dated 2010-01-14

Title: Bayesian chronologies via compound Poisson-Gamma processes.
Description: This package takes dating information to produce joint chronological reconstructions for age-depth data. The package allows for: radiocarbon and non-radiocarbon depths, thickness errors, outlying dates, multiple calibration curves, and event prediction. It also produces some pretty pictures, and writes all output to files to allow for further analysis (eg palaeoclimate reconstruction). There is a menu system for users, as well as a command line interface for advanced and/or batch processing.
Author: Andrew Parnell
Maintainer: Andrew Parnell

Diff between Bchron versions 3.1 dated 2010-01-14 and 3.1.1 dated 2010-09-10

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 Bchron-3.1.1/Bchron/NAMESPACE                  |    2 
 Bchron-3.1.1/Bchron/R/Bchron-internal.R        |only
 Bchron-3.1.1/Bchron/R/BchronMCMC.R             |  154 ++++---
 Bchron-3.1.1/Bchron/R/Bchroncalibrate.R        |  110 ++---
 Bchron-3.1.1/Bchron/R/Bchroncheck.R            |   50 +-
 Bchron-3.1.1/Bchron/R/Bchronconvergecheck.R    |  106 ++---
 Bchron-3.1.1/Bchron/R/Bchroncreatecalcurve.R   |  168 ++++----
 Bchron-3.1.1/Bchron/R/Bchronload.R             |  150 +++----
 Bchron-3.1.1/Bchron/R/Bchronmenu.R             |  484 ++++++++++++-------------
 Bchron-3.1.1/Bchron/R/Bchronplot.R             |  324 ++++++++--------
 Bchron-3.1.1/Bchron/R/Bchronplotevent.R        |  146 +++----
 Bchron-3.1.1/Bchron/R/Bchronpredict.R          |  124 +++---
 Bchron-3.1.1/Bchron/R/Bchronpredictevent.R     |  110 ++---
 Bchron-3.1.1/Bchron/R/Bchronproxyplot.R        |   46 +-
 Bchron-3.1.1/Bchron/R/hdr2.den.R               |   68 +--
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 Bchron-3.1.1/Bchron/src/predict.c              |   18 
 Bchron-3.1.1/Bchron/src/predictrand.c          |   18 
 Bchron-3.1.1/Bchron/src/use.c                  |   27 +
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 39 files changed, 1119 insertions(+), 1050 deletions(-)

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New package treemap with initial version 0.9
Package: treemap
Type: Package
Title: Treemap visualization
Version: 0.9
Date: 2010-09-08
Author: Martijn Tennekes
Maintainer: Martijn Tennekes
Description: With this package, different kind of treemaps can be generated such as comparison treemaps and density treemaps. Further, it is possible to show small multiples.
License: GPL-3
LazyLoad: yes
Depends: grid,RColorBrewer
Packaged: 2010-09-10 08:39:58 UTC; mtennekes
Repository: CRAN
Date/Publication: 2010-09-10 09:31:23

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Package gstat updated to version 0.9-70 with previous version 0.9-69 dated 2010-02-26

Title: geostatistical modelling, prediction and simulation
Description: variogram modelling; simple, ordinary and universal point or block (co)kriging, sequential Gaussian or indicator (co)simulation; variogram and variogram map plotting utility functions.
Author: Edzer Pebesma and others
Maintainer: Edzer Pebesma

Diff between gstat versions 0.9-69 dated 2010-02-26 and 0.9-70 dated 2010-09-10

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 gstat-0.9-70/gstat/src/meschach/maxint.c |    1 +
 gstat-0.9-70/gstat/src/random.c          |    3 +--
 gstat-0.9-70/gstat/src/version.h         |    6 +++---
 15 files changed, 43 insertions(+), 28 deletions(-)

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New package reshape2 with initial version 1.0
Package: reshape2
Type: Package
Title: Flexibly reshape data: a reboot of the reshape package.
Version: 1.0
Author: Hadley Wickham
Maintainer: Hadley Wickham
Description: Reshape lets you flexibly restructure and aggregate data using just two functions: melt and cast.
URL: http://had.co.nz/reshape
Imports: plyr (>= 1.2), stringr
License: MIT
LazyData: true
Collate: 'cast.r' 'data.r' 'formula.r' 'helper-colsplit.r' 'helper-guess-value.r' 'helper-margins.r' 'melt.r' 'recast.r' 'utils.r'
Packaged: 2010-09-09 23:52:19 UTC; hadley
Repository: CRAN
Date/Publication: 2010-09-10 07:28:07

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Package rainbow updated to version 2.2 with previous version 2.1 dated 2010-08-05

Title: Rainbow plots, bagplots and boxplots for functional data
Description: Functions and datasets for functional data display and outlier detection.
Author: Han Lin Shang and Rob J Hyndman
Maintainer: Han Lin Shang

Diff between rainbow versions 2.1 dated 2010-08-05 and 2.2 dated 2010-09-10

 CHANGELOG       |    5 +++++
 DESCRIPTION     |    8 ++++----
 R/lines.fds.r   |    4 ++--
 R/plot.fds.R    |    7 ++-----
 R/points.fds.r  |    4 ++--
 man/plot.fds.Rd |    7 ++++---
 6 files changed, 19 insertions(+), 16 deletions(-)

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Package plyr updated to version 1.2 with previous version 1.1 dated 2010-07-24

Title: Tools for splitting, applying and combining data
Description: plyr is a set of tools that solves a common set of problems: you need to break a big problem down into manageable pieces, operate on each pieces and then put all the pieces back together. For example, you might want to fit a model to each spatial location or time point in your study, summarise data by panels or collapse high-dimensional arrays to simpler summary statistics. The development of plyr has been generously supported by BD (Becton Dickinson).
Author: Hadley Wickham
Maintainer: Hadley Wickham

Diff between plyr versions 1.1 dated 2010-07-24 and 1.2 dated 2010-09-10

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 51 files changed, 384 insertions(+), 137 deletions(-)

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Package pbapply updated to version 1.0-2 with previous version 1.0-1 dated 2010-09-03

Title: Adding Progress Bar to '*apply' Functions
Description: A lightweight package that adds progress bar to vectorized R functions ('*apply'). The implenentation can easily be added to functions, where showing the progress is useful for the user (e.g. bootstrap).
Author: Peter Solymos
Maintainer: Peter Solymos

Diff between pbapply versions 1.0-1 dated 2010-09-03 and 1.0-2 dated 2010-09-10

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 pbapply-1.0-2/pbapply/R/unix/setpb.R       |    7 +---
 pbapply-1.0-2/pbapply/R/unix/startpb.R     |   12 ++------
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 pbapply-1.0-2/pbapply/R/windows/setpb.R    |    8 +----
 pbapply-1.0-2/pbapply/R/windows/startpb.R  |   15 +++-------
 pbapply-1.0-2/pbapply/R/zzz.R              |   20 +++-----------
 pbapply-1.0-2/pbapply/inst/ChangeLog       |    4 ++
 pbapply-1.0-2/pbapply/man/pboptions.Rd     |   41 ++++++++++++++++++-----------
 pbapply-1.0-2/pbapply/tests/tests.R        |   28 +++++++++++++++++++
 17 files changed, 96 insertions(+), 95 deletions(-)

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Package lokern updated to version 1.1-1 with previous version 1.0-9 dated 2010-03-02

Title: Kernel Regression Smoothing with Local or Global Plug-in Bandwidth
Description: Kernel regression smoothing with adaptive local or global plug-in bandwidth selection.
Author: Eva Herrmann (F77 & S original); Packaged for R and enhanced by Martin Maechler
Maintainer: Martin Maechler

Diff between lokern versions 1.0-9 dated 2010-03-02 and 1.1-1 dated 2010-09-10

 ChangeLog            |   30 +++-
 DESCRIPTION          |    9 -
 R/glkerns.R          |  119 ++++++++++------
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 tests/glk1.R         |    5 
 tests/glk1.Rout.save |  374 ++++++++++++++++++++++++++++++++-------------------
 tests/infloop-bug.R  |    5 
 tests/lok1.Rout.save |   55 ++++---
 13 files changed, 607 insertions(+), 273 deletions(-)

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Package geosphere updated to version 1.2-13 with previous version 1.2-10 dated 2010-08-28

Title: Spherical Trigonometry
Description: Spherical trigonometry for geographic applications
Author: Robert J. Hijmans, Ed Williams, Chris Vennes
Maintainer: Robert J. Hijmans

Diff between geosphere versions 1.2-10 dated 2010-08-28 and 1.2-13 dated 2010-09-10

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Package caret updated to version 4.62 with previous version 4.61 dated 2010-09-06

Title: Classification and Regression Training
Description: Misc functions for training and plotting classification and regression models
Author: Max Kuhn. Contributions from Jed Wing, Steve Weston, Andre Williams, Chris Keefer and Allan Engelhardt
Maintainer: Max Kuhn

Diff between caret versions 4.61 dated 2010-09-06 and 4.62 dated 2010-09-10

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Package Rcpp updated to version 0.8.6 with previous version 0.8.5 dated 2010-07-26

Title: Seamless R and C++ Integration
Description: The Rcpp package provides a C++ library which facilitates the integration of R and C++. R data types (SEXP) are matched to C++ objects in a class hierarchy. All R types are supported (vectors, functions, environment, etc ...) and each type is mapped to a dedicated class. For example, numeric vectors are represented as instances of the Rcpp::NumericVector class, environments are represented as instances of Rcpp::Environment, functions are represented as Rcpp::Function, etc ... The "Rcpp-introduction" vignette provides a good entry point to Rcpp. Conversion from C++ to R and back is driven by the templates Rcpp::wrap and Rcpp::as which are highly flexible and extensible, as documented in the "Rcpp-extending" vignette. Rcpp also provides Rcpp modules, a framework that allows exposing C++ functions and classes to the R level. The "Rcpp-modules" vignette details the current set of features of Rcpp-modules. Rcpp includes a concept called Rcpp sugar that brings many R functions into C++. Sugar takes advantage of lazy evaluation and expression templates to achieve great performance while exposing a syntax that is much nicer to use than the equivalent low-level loop code. The "Rcpp-sugar" vignette gives an overview of the feature. Several examples are included, and 773 unit tests in 366 unit test functions provide additional usage examples.
Author: Dirk Eddelbuettel and Romain Francois, with contributions by Simon Urbanek, David Reiss and Douglas Bates; based on code written during 2005 and 2006 by Dominick Samperi
Maintainer: Dirk Eddelbuettel and Romain Francois

Diff between Rcpp versions 0.8.5 dated 2010-07-26 and 0.8.6 dated 2010-09-10

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 Rcpp-0.8.6/Rcpp/inst/include/Rcpp/sugar/functions/seq_along.h      |    3 
 Rcpp-0.8.6/Rcpp/inst/include/Rcpp/sugar/functions/sum.h            |only
 Rcpp-0.8.6/Rcpp/inst/include/Rcpp/sugar/matrix/col.h               |    3 
 Rcpp-0.8.6/Rcpp/inst/include/Rcpp/sugar/matrix/diag.h              |    5 
 Rcpp-0.8.6/Rcpp/inst/include/Rcpp/sugar/matrix/lower_tri.h         |   10 
 Rcpp-0.8.6/Rcpp/inst/include/Rcpp/sugar/matrix/matrix_functions.h  |    1 
 Rcpp-0.8.6/Rcpp/inst/include/Rcpp/sugar/matrix/outer.h             |   15 
 Rcpp-0.8.6/Rcpp/inst/include/Rcpp/sugar/matrix/row.h               |    3 
 Rcpp-0.8.6/Rcpp/inst/include/Rcpp/sugar/matrix/upper_tri.h         |    5 
 Rcpp-0.8.6/Rcpp/inst/include/Rcpp/sugar/sugar.h                    |    2 
 Rcpp-0.8.6/Rcpp/inst/include/Rcpp/sugar/undoRmath.h                |only
 Rcpp-0.8.6/Rcpp/inst/include/Rcpp/traits/has_iterator.h            |   18 
 Rcpp-0.8.6/Rcpp/inst/include/Rcpp/vector/LazyVector.h              |only
 Rcpp-0.8.6/Rcpp/inst/include/Rcpp/vector/Matrix.h                  |   12 
 Rcpp-0.8.6/Rcpp/inst/include/Rcpp/vector/MatrixBase.h              |   83 ++-
 Rcpp-0.8.6/Rcpp/inst/include/Rcpp/vector/Vector.h                  |   52 +-
 Rcpp-0.8.6/Rcpp/inst/include/Rcpp/vector/VectorBase.h              |    5 
 Rcpp-0.8.6/Rcpp/inst/include/RcppCommon.h                          |    6 
 Rcpp-0.8.6/Rcpp/inst/skeleton/rcpp_hello_world.h                   |   11 
 Rcpp-0.8.6/Rcpp/inst/unitTests/runit.Vector.R                      |   27 +
 Rcpp-0.8.6/Rcpp/inst/unitTests/runit.stats.R                       |only
 Rcpp-0.8.6/Rcpp/inst/unitTests/runit.sugar.R                       |  215 +++++++-
 Rcpp-0.8.6/Rcpp/src/Date.cpp                                       |    2 
 Rcpp-0.8.6/Rcpp/src/Makevars                                       |    5 
 Rcpp-0.8.6/Rcpp/src/Module.cpp                                     |   12 
 Rcpp-0.8.6/Rcpp/src/RcppCommon.cpp                                 |    2 
 Rcpp-0.8.6/Rcpp/src/complex.cpp                                    |only
 74 files changed, 1039 insertions(+), 243 deletions(-)

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