Tue, 17 Jan 2012

Package RobLoxBioC updated to version 0.8.2 with previous version 0.8 dated 2011-01-21

Title: Infinitesimally robust estimators for preprocessing omics data
Description: Functions for the determination of optimally robust influence curves and estimators for preprocessing omics data, in particular gene expression data.
Author: Matthias Kohl
Maintainer: Matthias Kohl

Diff between RobLoxBioC versions 0.8 dated 2011-01-21 and 0.8.2 dated 2012-01-17

 DESCRIPTION                            |   23 ++--
 MD5                                    |only
 R/0AllGeneric.R                        |    4 
 RobLoxBioC-Ex.R                        |only
 man/0RobLoxBioC-package.Rd             |   10 +
 man/KolmogorovMinDist.Rd               |    2 
 man/SimStudies.Rd                      |    2 
 man/robloxbioc.Rd                      |    6 -
 tests/Examples/RobLoxBioC-Ex.Rout.save |  168 ++++++++++++++++++---------------
 9 files changed, 120 insertions(+), 95 deletions(-)

More information about RobLoxBioC at CRAN
Permanent link

Package yaml updated to version 2.1.2 with previous version 2.1.1 dated 2011-12-08

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 2.1.1 dated 2011-12-08 and 2.1.2 dated 2012-01-17

 DESCRIPTION                 |   11 ++++++-----
 MD5                         |   11 ++++++-----
 inst/CHANGELOG              |    3 +++
 src/r-ext.c                 |    1 +
 tests/test.yml              |only
 tests/yaml_load_file_test.R |   20 ++++++++++++--------
 tests/yaml_load_test.R      |    4 ++++
 7 files changed, 32 insertions(+), 18 deletions(-)

More information about yaml at CRAN
Permanent link

Package Rserve updated to version 0.6-7 with previous version 0.6-6 dated 2011-12-11

Title: Binary R server
Description: Rserve acts as a socket server (TCP/IP or local sockets) which allows binary requests to be sent to R. Every connection has a separate workspace and working directory. Client-side implementations are available for popular languages such as C/C++ and Java, allowing any application to use facilities of R without the need of linking to R code. Rserve supports remote connection, user authentication and file transfer. A simple R client is included in this package as well.
Author: Simon Urbanek
Maintainer: Simon Urbanek

Diff between Rserve versions 0.6-6 dated 2011-12-11 and 0.6-7 dated 2012-01-17

 DESCRIPTION                                |   21 +++----
 MD5                                        |   79 ++++++++++++++---------------
 NAMESPACE                                  |only
 NEWS                                       |   12 ++++
 R/conn.R                                   |   18 +++---
 clients/cxx/Rsrv.h                         |    4 -
 clients/java-new/JRI/test/Makefile         |    2 
 clients/java-new/REXP.java                 |    2 
 clients/java-new/REXPDouble.java           |    4 +
 clients/java-new/REXPFactor.java           |    4 +
 clients/java-new/REXPGenericVector.java    |   42 +++++++++++++++
 clients/java-new/REXPInteger.java          |    4 +
 clients/java-new/REXPJavaReference.java    |    2 
 clients/java-new/REXPList.java             |    8 ++
 clients/java-new/REXPLogical.java          |    4 +
 clients/java-new/REXPNull.java             |    1 
 clients/java-new/REXPRaw.java              |    4 +
 clients/java-new/REXPString.java           |    4 +
 clients/java-new/REXPSymbol.java           |    4 +
 clients/java-new/REngine.jar               |binary
 clients/java-new/Rserve.jar                |binary
 clients/java-new/Rserve/Rserve.jar         |binary
 src/Rserv.c                                |   14 ++---
 src/Rsrv.h                                 |    4 -
 src/client/cxx/Rsrv.h                      |    4 -
 src/client/java-new/JRI/test/Makefile      |    2 
 src/client/java-new/REXP.java              |    2 
 src/client/java-new/REXPDouble.java        |    4 +
 src/client/java-new/REXPFactor.java        |    4 +
 src/client/java-new/REXPGenericVector.java |   42 +++++++++++++++
 src/client/java-new/REXPInteger.java       |    4 +
 src/client/java-new/REXPJavaReference.java |    2 
 src/client/java-new/REXPList.java          |    8 ++
 src/client/java-new/REXPLogical.java       |    4 +
 src/client/java-new/REXPNull.java          |    1 
 src/client/java-new/REXPRaw.java           |    4 +
 src/client/java-new/REXPString.java        |    4 +
 src/client/java-new/REXPSymbol.java        |    4 +
 src/client/java-new/REngine.jar            |binary
 src/client/java-new/Rserve.jar             |binary
 src/client/java-new/Rserve/Rserve.jar      |binary
 41 files changed, 250 insertions(+), 76 deletions(-)

More information about Rserve at CRAN
Permanent link

Package RGtk2 updated to version 2.20.21 with previous version 2.20.19 dated 2011-10-04

Title: R bindings for Gtk 2.8.0 and above
Description: Facilities in the R language for programming graphical interfaces using Gtk, the Gimp Tool Kit.
Author: Michael Lawrence and Duncan Temple Lang
Maintainer: Michael Lawrence

Diff between RGtk2 versions 2.20.19 dated 2011-10-04 and 2.20.21 dated 2012-01-17

 RGtk2-2.20.19/RGtk2/aclocal.m4             |only
 RGtk2-2.20.19/RGtk2/inst/.Rhistory         |only
 RGtk2-2.20.21/RGtk2/DESCRIPTION            |    6 +-
 RGtk2-2.20.21/RGtk2/MD5                    |   29 +++++------
 RGtk2-2.20.21/RGtk2/R/gdkEnumDefs.R        |   73 +++++++++++++++--------------
 RGtk2-2.20.21/RGtk2/R/gobject.R            |   34 ++++++-------
 RGtk2-2.20.21/RGtk2/R/gtkManuals.R         |   67 +++++++++++++++++++++-----
 RGtk2-2.20.21/RGtk2/R/zzz.R                |   18 +++----
 RGtk2-2.20.21/RGtk2/demo/drawingArea.R     |    4 -
 RGtk2-2.20.21/RGtk2/inst/doc/.Rinstignore  |only
 RGtk2-2.20.21/RGtk2/inst/doc/overview2.pdf |binary
 RGtk2-2.20.21/RGtk2/man/GObject.Rd         |   14 ++---
 RGtk2-2.20.21/RGtk2/man/RGtkDataFrame.Rd   |   12 ++--
 RGtk2-2.20.21/RGtk2/man/RGtkObject.Rd      |    6 +-
 RGtk2-2.20.21/RGtk2/man/argInfo.Rd         |    2 
 RGtk2-2.20.21/RGtk2/man/enums-and-flags.Rd |   10 +--
 RGtk2-2.20.21/RGtk2/src/Makevars           |    2 
 RGtk2-2.20.21/RGtk2/src/gobject.c          |   13 ++---
 18 files changed, 165 insertions(+), 125 deletions(-)

More information about RGtk2 at CRAN
Permanent link

Package raster updated to version 1.9-64 with previous version 1.9-63 dated 2012-01-15

Title: Geographic analysis and modeling with raster data
Description: Reading, writing, manipulating, analyzing and modeling of gridded spatial data. The package implements basic and high-level functions, as well as map algebra. Processing of very large files is supported.
Author: Robert J. Hijmans & Jacob van Etten
Maintainer: Robert J. Hijmans

Diff between raster versions 1.9-63 dated 2012-01-15 and 1.9-64 dated 2012-01-17

 ChangeLog               |    5 +++++
 DESCRIPTION             |   10 +++++-----
 MD5                     |   16 ++++++++--------
 R/imageplot2.R          |   21 +++++++++++----------
 R/layerNames.R          |    6 ++++++
 R/overlay.R             |    2 +-
 R/projectRaster.R       |   20 +++++++++++++++-----
 inst/doc/functions.pdf  |binary
 inst/doc/rasterfile.pdf |binary
 9 files changed, 51 insertions(+), 29 deletions(-)

More information about raster at CRAN
Permanent link

Package flexsurv updated to version 0.1.3 with previous version 0.1.2 dated 2011-11-09

Title: Flexible parametric survival models
Description: Flexible parametric models for time-to-event data, including the Royston-Parmar spline model, generalized gamma and generalized F distributions. Easily extensible to fit user-defined parametric distributions.
Author: Christopher Jackson
Maintainer: Christopher Jackson

Diff between flexsurv versions 0.1.2 dated 2011-11-09 and 0.1.3 dated 2012-01-17

 DESCRIPTION              |   13 ++++++++-----
 MD5                      |   16 ++++++++--------
 R/GenF.R                 |   10 +++++-----
 R/GenGamma.R             |    8 ++++----
 R/Gompertz.R             |    2 +-
 R/flexsurvreg.R          |   25 ++++++++++++++++++++-----
 inst/NEWS                |   12 ++++++++++++
 man/flexsurv-package.Rd  |    6 +++---
 man/lines.flexsurvreg.Rd |    4 +++-
 9 files changed, 64 insertions(+), 32 deletions(-)

More information about flexsurv at CRAN
Permanent link

Package Maeswrap updated to version 1.4.9 with previous version 1.4.8 dated 2011-09-21

Title: Wrapper functions for MAESTRA/MAESPA.
Description: A bundle of functions for modifying MAESTRA/MAESPA input files, reading output files, and visualizing the stand in 3D. Handy for running sensitivity analyses, scenario analyses, etc.
Author: Remko Duursma
Maintainer: Remko Duursma

Diff between Maeswrap versions 1.4.8 dated 2011-09-21 and 1.4.9 dated 2012-01-17

 DESCRIPTION                     |    8 ++++----
 MD5                             |   23 ++++++++++++-----------
 NAMESPACE                       |only
 R/Openstand.R                   |    8 ++++----
 R/Plotstand.R                   |   24 +++++++++++++++---------
 R/plottree.R                    |    6 +++---
 R/readPAR.R                     |    2 +-
 R/readmet.R                     |    5 +++--
 R/runmaespa.R                   |    1 +
 data/maeswrapdefinitions.txt.gz |binary
 data/runfiletest.csv.gz         |binary
 man/Plotstand.Rd                |    4 +++-
 man/replacemetvar.Rd            |    6 ++++--
 13 files changed, 50 insertions(+), 37 deletions(-)

More information about Maeswrap at CRAN
Permanent link

Package car updated to version 2.0-12 with previous version 2.0-11 dated 2011-08-10

Title: Companion to Applied Regression
Description: This package accompanies J. Fox and S. Weisberg, An R Companion to Applied Regression, Second Edition, Sage, 2011.
Author: John Fox [aut, cre], Sanford Weisberg [aut], Douglas Bates [ctb], David Firth [ctb], Michael Friendly [ctb], Gregor Gorjanc [ctb], Spencer Graves [ctb], Richard Heiberger [ctb], Rafael Laboissiere [ctb], Georges Monette [ctb], Henric Nilsson [ctb], Derek Ogle [ctb], Brian Ripley [ctb], Achim Zeileis [ctb]
Maintainer: John Fox

Diff between car versions 2.0-11 dated 2011-08-10 and 2.0-12 dated 2012-01-17

 DESCRIPTION             |   42 ++++++++++-----
 MD5                     |  128 ++++++++++++++++++++++++------------------------
 NAMESPACE               |    4 +
 NEWS                    |   22 +++++++-
 R/Anova.R               |    8 ++-
 R/Ellipse.R             |   30 +++++++----
 R/compareCoefs.R        |   32 ++++++++----
 R/deltaMethod.R         |   12 ++--
 R/linearHypothesis.R    |   30 ++++-------
 data/AMSsurvey.rda      |binary
 data/Adler.rda          |binary
 data/Angell.rda         |binary
 data/Anscombe.rda       |binary
 data/Baumann.rda        |binary
 data/Bfox.rda           |binary
 data/Blackmoor.rda      |binary
 data/Burt.rda           |binary
 data/CanPop.rda         |binary
 data/Chile.rda          |binary
 data/Chirot.rda         |binary
 data/Cowles.rda         |binary
 data/Davis.rda          |binary
 data/DavisThin.rda      |binary
 data/Depredations.rda   |binary
 data/Duncan.rda         |binary
 data/Ericksen.rda       |binary
 data/Florida.rda        |binary
 data/Freedman.rda       |binary
 data/Friendly.rda       |binary
 data/Ginzberg.rda       |binary
 data/Greene.rda         |binary
 data/Guyer.rda          |binary
 data/Hartnagel.rda      |binary
 data/Highway1.rda       |binary
 data/Leinhardt.rda      |binary
 data/Mandel.rda         |binary
 data/Migration.rda      |binary
 data/Moore.rda          |binary
 data/Mroz.rda           |binary
 data/OBrienKaiser.rda   |binary
 data/Ornstein.rda       |binary
 data/Pottery.rda        |binary
 data/Prestige.rda       |binary
 data/Quartet.rda        |binary
 data/Robey.rda          |binary
 data/SLID.rda           |binary
 data/Sahlins.rda        |binary
 data/Salaries.rda       |binary
 data/Soils.rda          |binary
 data/States.rda         |binary
 data/Transact.rda       |binary
 data/UN.rda             |binary
 data/USPop.rda          |binary
 data/Vocab.rda          |binary
 data/WeightLoss.rda     |binary
 data/Womenlf.rda        |binary
 data/Wool.rda           |binary
 inst/CITATION           |    2 
 man/Anova.Rd            |   12 +++-
 man/Depredations.Rd     |    2 
 man/Ellipses.Rd         |   28 ++++++++--
 man/car-package.Rd      |    8 +--
 man/compareCoefs.Rd     |   10 +++
 man/deltaMethod.Rd      |    2 
 man/linearHypothesis.Rd |    9 ++-
 65 files changed, 234 insertions(+), 147 deletions(-)

More information about car at CRAN
Permanent link

Package bst updated to version 0.3-2 with previous version 0.3-1 dated 2011-06-24

Title: Gradient Boosting
Description: The package contains HingeBoost for binary and multi-class classification, with unequal misclassification costs for binary case. Functional gradient descent algorithm to optimize the hinge loss. The algorithm can fit linear and nonlinear classifiers.
Author: Zhu Wang
Maintainer: Zhu Wang

Diff between bst versions 0.3-1 dated 2011-06-24 and 0.3-2 dated 2012-01-17

 DESCRIPTION         |   19 +-
 MD5                 |only
 NAMESPACE           |    4 
 NEWS                |    8 +
 R/balanced.folds.R  |only
 R/bst.R             |   48 +++++-
 R/fpartial.R        |    7 -
 R/mada.R            |only
 R/mhinge.R          |   57 +++++---
 R/msvm.R            |  362 +++++++++++++++++++++++++++++-----------------------
 R/permute.rows.R    |only
 man/bst-internal.Rd |    2 
 man/cv.bst.Rd       |   10 -
 man/cv.mada.Rd      |only
 man/cv.mhinge.Rd    |only
 man/cv.msvm.Rd      |   25 +--
 man/mada.Rd         |only
 man/mhinge.Rd       |   17 +-
 man/msvm.Rd         |    7 -
 19 files changed, 334 insertions(+), 232 deletions(-)

More information about bst at CRAN
Permanent link

Package BoolNet updated to version 1.46 with previous version 1.45 dated 2011-11-22

Title: Generation, reconstruction, simulation and analysis of synchronous, asynchronous, and probabilistic Boolean networks
Description: Provides methods to reconstruct and generate synchronous, asynchronous, and probabilistic Boolean networks, and to analyze and visualize attractors in Boolean networks
Author: Christoph Müssel, Martin Hopfensitz, Dao Zhou, Hans Kestler
Maintainer: Hans Kestler

Diff between BoolNet versions 1.45 dated 2011-11-22 and 1.46 dated 2012-01-17

 DESCRIPTION                           |    8 ++++----
 MD5                                   |    8 ++++----
 inst/doc/BoolNet_package_vignette.pdf |binary
 man/BoolNet-package.Rd                |    4 ++--
 src/boolean_network.c                 |    3 +--
 5 files changed, 11 insertions(+), 12 deletions(-)

More information about BoolNet at CRAN
Permanent link

Package RMySQL updated to version 0.9-3 with previous version 0.9-0 dated 2012-01-14

Title: R interface to the MySQL database
Description: Database interface and MySQL driver for R. This version complies with the database interface definition as implemented in the package DBI 0.2-2.
Author: David A. James and Saikat DebRoy
Maintainer: Jeffrey Horner

Diff between RMySQL versions 0.9-0 dated 2012-01-14 and 0.9-3 dated 2012-01-17

 DESCRIPTION           |    8 +--
 MD5                   |   10 ++--
 R/zzz.R               |    4 -
 inst/doc/DBI.pdf      |binary
 tests/tests.R         |  120 ++++++++++++++++++++++----------------------------
 tests/tests.Rout.save |   30 ++----------
 6 files changed, 71 insertions(+), 101 deletions(-)

More information about RMySQL at CRAN
Permanent link

Package ifa updated to version 7.0 with previous version 6.0 dated 2011-02-24

Title: Independent Factor Analysis
Description: The package performes Independent Factor Analysis
Author: Cinzia Viroli
Maintainer: Cinzia Viroli

Diff between ifa versions 6.0 dated 2011-02-24 and 7.0 dated 2012-01-17

 ifa-6.0/ifa/README              |only
 ifa-7.0/ifa/DESCRIPTION         |    8 ++++----
 ifa-7.0/ifa/MD5                 |only
 ifa-7.0/ifa/R/firstlib.R        |only
 ifa-7.0/ifa/R/ifa.aic.R         |    4 ++--
 ifa-7.0/ifa/R/ifa.em.R          |    2 +-
 ifa-7.0/ifa/R/ifa.init.random.R |    4 ++--
 ifa-7.0/ifa/man/ifa.aic.Rd      |    2 +-
 ifa-7.0/ifa/man/ifa.bic.Rd      |    2 +-
 ifa-7.0/ifa/man/ifa.em.Rd       |    2 +-
 ifa-7.0/ifa/src/ifaem.f90       |    9 +++++++--
 11 files changed, 19 insertions(+), 14 deletions(-)

More information about ifa at CRAN
Permanent link

New package diseasemapping with initial version 0.6
Package: diseasemapping
Type: Package
Title: Calculate observed and expected disease incidence counts from a case file and population data.
Version: 0.6
Date: 2012-01-17
Depends: mgcv
Enhances: diseasemappingDevel, glmmBUGS, sp, spdep, INLA
Author: Patrick Brown
Maintainer: Lutong Zhou
Description: Some tools for calculating rates and Standardized Incidence Ratios from case and population data.
License: GPL
Packaged: 2012-01-17 15:50:43 UTC; patrick
Repository: CRAN
Date/Publication: 2012-01-17 16:48:24

More information about diseasemapping at CRAN
Permanent link

Package rngwell19937 updated to version 0.5-4 with previous version 0.5-3 dated 2009-08-16

Title: WELL19937a random number generator implemented with 53 bit output
Description: A stand-alone package for the random number generator WELL19937a by F. Panneton, P. L'Ecuyer and M. Matsumoto. The initialization algorithm allows to seed the generator with a vector of integers of an arbitrary length and uses MRG32k5a by P. L'Ecuyer to achieve good quality of the initialization. The output function may be set to provide numbers from the interval (0,1) with 53 (the default) or 32 random bits. WELL19937a is of similar type as Mersenne Twister and has the same period. WELL19937a is slightly slower than Mersenne Twister, but has better equidistribution and "bit-mixing" properties and faster recovery from states with prevailing zeros than Mersenne Twister. All WELL generators with orders 512, 1024, 19937 and 44497 can be found in randtoolbox package.
Author: Petr Savicky
Maintainer: Petr Savicky

Diff between rngwell19937 versions 0.5-3 dated 2009-08-16 and 0.5-4 dated 2012-01-17

 rngwell19937-0.5-3/rngwell19937/CHANGELOG                 |only
 rngwell19937-0.5-4/rngwell19937/ChangeLog                 |only
 rngwell19937-0.5-4/rngwell19937/DESCRIPTION               |    8 ++---
 rngwell19937-0.5-4/rngwell19937/MD5                       |only
 rngwell19937-0.5-4/rngwell19937/NAMESPACE                 |only
 rngwell19937-0.5-4/rngwell19937/R/init.R                  |    7 +++--
 rngwell19937-0.5-4/rngwell19937/R/validate.R              |    1 
 rngwell19937-0.5-4/rngwell19937/man/set.initialization.Rd |   10 ++++---
 rngwell19937-0.5-4/rngwell19937/man/set.resolution.Rd     |   13 +++++----
 rngwell19937-0.5-4/rngwell19937/man/set.vector.seed.Rd    |   19 ++++++++------
 rngwell19937-0.5-4/rngwell19937/man/well19937.validate.Rd |    5 ++-
 11 files changed, 37 insertions(+), 26 deletions(-)

More information about rngwell19937 at CRAN
Permanent link

Package rms updated to version 3.4-0 with previous version 3.3-3 dated 2011-12-12

Title: Regression Modeling Strategies
Description: Regression modeling, testing, estimation, validation, graphics, prediction, and typesetting by storing enhanced model design attributes in the fit. rms is a collection of 229 functions that assist with and streamline modeling. It also contains functions for binary and ordinal logistic regression models and the Buckley-James multiple regression model for right-censored responses, and implements penalized maximum likelihood estimation for logistic and ordinary linear models. rms works with almost any regression model, but it was especially written to work with binary or ordinal logistic regression, Cox regression, accelerated failure time models, ordinary linear models, the Buckley-James model, generalized least squares for serially or spatially correlated observations, generalized linear models, and quantile regression.
Author: Frank E Harrell Jr
Maintainer: Frank E Harrell Jr

Diff between rms versions 3.3-3 dated 2011-12-12 and 3.4-0 dated 2012-01-17

 DESCRIPTION         |   36 +++++++++++++++++++-----------------
 MD5                 |   32 +++++++++++++++++---------------
 NEWS                |    9 +++++++++
 R/Glm.s             |    3 ++-
 R/Gls.s             |    3 ++-
 R/Predict.s         |    3 ++-
 R/bj.s              |    3 ++-
 R/contrast.s        |   17 +++++++++++++++--
 R/cph.s             |    2 +-
 R/ols.s             |    3 ++-
 R/predictrms.s      |   22 ++++++++++++++++++----
 R/psm.s             |    8 ++++++--
 man/Predict.Rd      |   14 ++++++++++++--
 man/contrast.Rd     |   13 ++++++++++++-
 man/plot.Predict.Rd |   21 ++++++++++++++++++++-
 man/predictrms.Rd   |   13 +++++++------
 tests/Predict.s     |only
 tests/simult.s      |only
 18 files changed, 146 insertions(+), 56 deletions(-)

More information about rms at CRAN
Permanent link

Package rattle updated to version 2.6.16 with previous version 2.6.15 dated 2011-12-04

Title: Graphical user interface for data mining in R
Description: Rattle (the R Analytic Tool To Learn Easily) provides a Gnome (RGtk2) based interface to R functionality for data mining. The aim is to provide a simple and intuitive interface that allows a user to quickly load data from a CSV file (or via ODBC), transform and explore the data, build and evaluate models, and export models as PMML (predictive modelling markup language) or as scores. All of this with knowing little about R. All R commands are logged and commented through the log tab. Thus they are available to the user as a script file or as an aide for the user to learn R or to copy-and-paste directly into R itself. Rattle also exports a number of utility functions and the graphical user interface, invoked as rattle(), does not need to be run to deploy these.
Author: Graham Williams
Maintainer: Graham Williams

Diff between rattle versions 2.6.15 dated 2011-12-04 and 2.6.16 dated 2012-01-17

 rattle-2.6.15/rattle/inst/doc/Makefile                  |only
 rattle-2.6.15/rattle/man/overwritePackageFunction.Rd    |only
 rattle-2.6.16/rattle/DESCRIPTION                        |   34 +++++-----
 rattle-2.6.16/rattle/MD5                                |   37 +++++------
 rattle-2.6.16/rattle/NAMESPACE                          |    4 -
 rattle-2.6.16/rattle/R/associate.R                      |   27 +++++++-
 rattle-2.6.16/rattle/R/rattle.R                         |   53 +++++++++-------
 rattle-2.6.16/rattle/data/audit.RData                   |binary
 rattle-2.6.16/rattle/data/locationsAUS.RData            |binary
 rattle-2.6.16/rattle/data/weather.RData                 |binary
 rattle-2.6.16/rattle/data/weatherAUS.RData              |binary
 rattle-2.6.16/rattle/data/wine.RData                    |binary
 rattle-2.6.16/rattle/inst/CITATION                      |   24 ++++---
 rattle-2.6.16/rattle/inst/ChangeLog                     |   13 +++
 rattle-2.6.16/rattle/inst/doc/rattle.Rnw                |    5 +
 rattle-2.6.16/rattle/inst/doc/rattle.pdf                |binary
 rattle-2.6.16/rattle/inst/po/de/LC_MESSAGES/R-rattle.mo |binary
 rattle-2.6.16/rattle/inst/po/es/LC_MESSAGES/R-rattle.mo |binary
 rattle-2.6.16/rattle/inst/po/fr/LC_MESSAGES/R-rattle.mo |binary
 rattle-2.6.16/rattle/inst/po/ja/LC_MESSAGES/R-rattle.mo |binary
 rattle-2.6.16/rattle/vignettes                          |only
 21 files changed, 126 insertions(+), 71 deletions(-)

More information about rattle at CRAN
Permanent link

Package prettyR updated to version 2.0-3 with previous version 2.0-1 dated 2011-09-06

Title: Pretty descriptive stats.
Description: Functions for conventionally formatted descriptive stats, and to format R output as HTML.
Author: Jim Lemon , Philippe Grosjean
Maintainer: Jim Lemon

Diff between prettyR versions 2.0-1 dated 2011-09-06 and 2.0-3 dated 2012-01-17

 DESCRIPTION     |    8 ++++----
 MD5             |   16 ++++++++--------
 NEWS            |    9 +++++++++
 R/brkdn.R       |    7 ++++---
 R/describe.R    |   13 +++++++------
 R/freq.R        |    4 ++--
 R/truncString.R |    2 +-
 man/freq.Rd     |    3 ++-
 man/xtab.Rd     |    2 +-
 9 files changed, 38 insertions(+), 26 deletions(-)

More information about prettyR at CRAN
Permanent link

Package CORElearn updated to version 0.9.37 with previous version 0.9.36 dated 2012-01-03

Title: CORElearn - classification, regression, feature evaluation and ordinal evaluation
Description: CORElearn is machine learning suite ported to R from standalone C++ package. It contains several model learning techniques in classification and regression, for example classification and regression trees with optional constructive induction and models in the leafs, random forests, kNN, naive Bayes, and locally weighted regression. It is especially strong in feature evaluation algorithms where it contains several variants of Relief algorithm and many impurity based attribute evaluation functions, e.g., Gini, information gain, MDL, DKM, ... Its additional strength is ordEval algorithm and its visualization used for ordinal features and class. Several algorithms support parallel multithreaded execution via OpenMP. Windows binary versions supporting multithreading are available on package website, as CRAN uses different toolchain. The top level documentation is reachable through ?CORElearn.
Author: Marko Robnik-Sikonja , Petr Savicky
Maintainer: Marko Robnik-Sikonja

Diff between CORElearn versions 0.9.36 dated 2012-01-03 and 0.9.37 dated 2012-01-17

 ChangeLog                 |    1 
 DESCRIPTION               |   37 +++---
 MD5                       |  134 +++++++++++------------
 R/testCore.R              |   35 ++++--
 man/CORElearn-internal.Rd |  108 +++++++++---------
 man/classDataGen.Rd       |  264 +++++++++++++++++++++++-----------------------
 man/classPrototypes.Rd    |   88 +++++++--------
 man/getCoreModel.Rd       |  100 ++++++++---------
 man/ordDataGen.Rd         |  116 ++++++++++----------
 man/plot.CoreModel.Rd     |  222 +++++++++++++++++++-------------------
 man/plot.ordEval.Rd       |  218 ++++++++++++++++++-------------------
 man/preparePlot.Rd        |  122 ++++++++++-----------
 man/regDataGen.Rd         |  134 +++++++++++------------
 man/rfAttrEval.Rd         |  120 ++++++++++----------
 man/rfClustering.Rd       |   90 +++++++--------
 man/rfOutliers.Rd         |   86 +++++++-------
 man/rfProximity.Rd        |   86 +++++++-------
 man/testCore.Rd           |    4 
 src/Rconvert.cpp          |    1 
 src/binarize.cpp          |    1 
 src/binarizeReg.cpp       |    1 
 src/binnode.cpp           |    3 
 src/binnodeReg.cpp        |    3 
 src/binpart.cpp           |    2 
 src/bintree.cpp           |    3 
 src/bintreeReg.cpp        |    3 
 src/c45read.cpp           |    2 
 src/calibrate.cpp         |    1 
 src/constrct.cpp          |    5 
 src/constrctReg.cpp       |    1 
 src/cost.cpp              |   10 -
 src/dataStore.cpp         |    5 
 src/dataStore.h           |    1 
 src/error.cpp             |    1 
 src/estCommon.cpp         |    9 -
 src/estOrdAttr.cpp        |    4 
 src/estimator.cpp         |    3 
 src/estimatorReg.cpp      |    3 
 src/expr.cpp              |    5 
 src/exprReg.cpp           |    1 
 src/frontend.cpp          |   78 ++++---------
 src/frontend.h            |   18 ++-
 src/ftree.cpp             |    1 
 src/kdtree.cpp            |    1 
 src/mathutil.cpp          |    3 
 src/menu.cpp              |    8 -
 src/model.cpp             |    1 
 src/modelReg.cpp          |    1 
 src/mstring.cpp           |    1 
 src/new_new.cpp           |    2 
 src/nrutil.cpp            |    2 
 src/options.cpp           |    2 
 src/printUtil.cpp         |    2 
 src/prune.cpp             |    2 
 src/pruneReg.cpp          |    3 
 src/random.cpp            |    2 
 src/regtree.cpp           |    1 
 src/relieff.cpp           |   27 ++--
 src/rfRegularize.cpp      |    2 
 src/rfVisual.cpp          |    6 -
 src/rfVisualFront.cpp     |   10 -
 src/rndforest.cpp         |    1 
 src/rrelieff.cpp          |   11 +
 src/treenode.cpp          |    1 
 src/treenodeReg.cpp       |    1 
 src/trutil.cpp            |    1 
 src/trutilReg.cpp         |    1 
 src/utils.cpp             |    2 
 68 files changed, 1141 insertions(+), 1083 deletions(-)

More information about CORElearn at CRAN
Permanent link

Package triggr (with last version 0.2) was removed from CRAN

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

2011-04-12 0.2
2011-04-05 0.1

Permanent link
Package wnominate updated to version 0.98 with previous version 0.96 dated 2011-07-23

Title: WNOMINATE Roll Call Analysis Software.
Description: Estimates Poole and Rosenthal W-NOMINATE scores from roll call votes supplied though a 'rollcall' object from package 'pscl'.
Author: Keith Poole , Jeffrey Lewis , James Lo and Royce Carroll
Maintainer: Jeffrey Lewis

Diff between wnominate versions 0.96 dated 2011-07-23 and 0.98 dated 2012-01-17

 wnominate-0.96/wnominate/inst/doc/Sweave.sty            |only
 wnominate-0.96/wnominate/inst/doc/wnominate-UN4.eps     |only
 wnominate-0.96/wnominate/inst/doc/wnominate-five.eps    |only
 wnominate-0.96/wnominate/inst/doc/wnominate-four.eps    |only
 wnominate-0.96/wnominate/inst/doc/wnominate-random3.eps |only
 wnominate-0.96/wnominate/inst/notused.Rnw               |only
 wnominate-0.98/wnominate/DESCRIPTION                    |    8 ++++----
 wnominate-0.98/wnominate/HISTORY                        |   11 ++++++++++-
 wnominate-0.98/wnominate/MD5                            |only
 wnominate-0.98/wnominate/R/header.R                     |   12 ++++++------
 wnominate-0.98/wnominate/data/UN.csv.gz                 |binary
 wnominate-0.98/wnominate/inst/doc/wnominate.pdf         |binary
 wnominate-0.98/wnominate/man/plot.angles.Rd             |    5 ++---
 wnominate-0.98/wnominate/man/plot.coords.Rd             |    4 ++--
 wnominate-0.98/wnominate/man/plot.cutlines.Rd           |    4 ++--
 wnominate-0.98/wnominate/man/plot.nomObject.Rd          |    2 +-
 wnominate-0.98/wnominate/man/plot.scree.Rd              |    4 ++--
 wnominate-0.98/wnominate/man/summary.nomObject.Rd       |    2 +-
 wnominate-0.98/wnominate/src/wnominate.f90              |    8 ++++----
 19 files changed, 34 insertions(+), 26 deletions(-)

More information about wnominate at CRAN
Permanent link

Package pi0 updated to version 1.3-200 with previous version 1.3-190 dated 2011-10-17

Title: Estimating the proportion of true null hypotheses for FDR
Description: This package implements method(s) to (approximately unbiasedly) estimate the proportion of true null hypotheses, i.e., the pi0, when a very large number of hypotheses are simultaneously tested, especially for the purpose of (local) false discovery rate control for microarray data. It also contains functions to estimate the distribution of noncentrality parameters from a large number of parametric tests.
Author: Long Qu
Maintainer: Long Qu

Diff between pi0 versions 1.3-190 dated 2011-10-17 and 1.3-200 dated 2012-01-17

 pi0-1.3-190/pi0/R/zzz.R                    |only
 pi0-1.3-200/pi0/DESCRIPTION                |   12 +-
 pi0-1.3-200/pi0/MD5                        |  147 ++++++++++++++---------------
 pi0-1.3-200/pi0/NAMESPACE                  |   36 +++----
 pi0-1.3-200/pi0/R/cond.cdf.R               |    6 -
 pi0-1.3-200/pi0/R/dFsnc.mix.R              |    4 
 pi0-1.3-200/pi0/R/discTMix.R               |    2 
 pi0-1.3-200/pi0/R/dtn.mix.R                |    4 
 pi0-1.3-200/pi0/R/extrp.pi0.known.gam2.R   |    4 
 pi0-1.3-200/pi0/R/extrp.pi0.unknown.gam2.R |    4 
 pi0-1.3-200/pi0/R/laplace.nct.R            |    4 
 pi0-1.3-200/pi0/R/lfdr.R                   |   23 ++--
 pi0-1.3-200/pi0/R/momeff.nonzeromean.R     |    2 
 pi0-1.3-200/pi0/R/ncpest.helpers.R         |    3 
 pi0-1.3-200/pi0/R/nparncp.R                |   12 +-
 pi0-1.3-200/pi0/R/nparncpF.R               |   12 +-
 pi0-1.3-200/pi0/R/parncp.R                 |    6 -
 pi0-1.3-200/pi0/R/parncpF.R                |    6 -
 pi0-1.3-200/pi0/R/sparncp.R                |   17 +--
 pi0-1.3-200/pi0/R/sparncpF.R               |   17 +--
 pi0-1.3-200/pi0/ToDoList.txt               |    7 +
 pi0-1.3-200/pi0/man/CBUM.Rd                |    2 
 pi0-1.3-200/pi0/man/agjack.Rd              |    2 
 pi0-1.3-200/pi0/man/clean.cdf.Rd           |    2 
 pi0-1.3-200/pi0/man/coef.ncpest.Rd         |    6 -
 pi0-1.3-200/pi0/man/combn2R.Rd             |    2 
 pi0-1.3-200/pi0/man/cond.cdf.Rd            |    2 
 pi0-1.3-200/pi0/man/dncp.Rd                |    8 -
 pi0-1.3-200/pi0/man/dt.int2.Rd             |    2 
 pi0-1.3-200/pi0/man/dt.lap.Rd              |    2 
 pi0-1.3-200/pi0/man/dtn.mix.Rd             |   10 -
 pi0-1.3-200/pi0/man/extrp.pi0.master.Rd    |    2 
 pi0-1.3-200/pi0/man/fdr.Rd                 |    2 
 pi0-1.3-200/pi0/man/fitted.discTMix.Rd     |    6 -
 pi0-1.3-200/pi0/man/fitted.nparncp.Rd      |   20 +--
 pi0-1.3-200/pi0/man/geomean.Rd             |    2 
 pi0-1.3-200/pi0/man/gjack.Rd               |    2 
 pi0-1.3-200/pi0/man/grid.search.Rd         |    2 
 pi0-1.3-200/pi0/man/histf1.Rd              |    2 
 pi0-1.3-200/pi0/man/lastbin.Rd             |    2 
 pi0-1.3-200/pi0/man/lfdr.Rd                |   38 +++----
 pi0-1.3-200/pi0/man/loadOrInstall.Rd       |    2 
 pi0-1.3-200/pi0/man/logLik.ncpest.Rd       |    2 
 pi0-1.3-200/pi0/man/mTruncNorm.Rd          |    2 
 pi0-1.3-200/pi0/man/matrix.t.test.Rd       |    2 
 pi0-1.3-200/pi0/man/mdt.Rd                 |    6 -
 pi0-1.3-200/pi0/man/ncpest.Rd              |    6 -
 pi0-1.3-200/pi0/man/ncpest.iter.Rd         |    2 
 pi0-1.3-200/pi0/man/nparncp.Rd             |   38 ++-----
 pi0-1.3-200/pi0/man/parncp.Rd              |    4 
 pi0-1.3-200/pi0/man/pavaf1.Rd              |    2 
 pi0-1.3-200/pi0/man/pdf.dist.Rd            |    2 
 pi0-1.3-200/pi0/man/pi0-internal.Rd        |    6 -
 pi0-1.3-200/pi0/man/pi0-package.Rd         |   15 +-
 pi0-1.3-200/pi0/man/plot.extrpi0.Rd        |    2 
 pi0-1.3-200/pi0/man/plot.nparncp.Rd        |    8 -
 pi0-1.3-200/pi0/man/plot.parncp.Rd         |    6 -
 pi0-1.3-200/pi0/man/plot.sparncp.Rd        |    8 -
 pi0-1.3-200/pi0/man/plot.subex.Rd          |    2 
 pi0-1.3-200/pi0/man/plot.subt.Rd           |    2 
 pi0-1.3-200/pi0/man/print.extrpi0.Rd       |    2 
 pi0-1.3-200/pi0/man/print.subex.Rd         |    2 
 pi0-1.3-200/pi0/man/print.subt.Rd          |    2 
 pi0-1.3-200/pi0/man/pt.sad.Rd              |    2 
 pi0-1.3-200/pi0/man/reflection.Rd          |    2 
 pi0-1.3-200/pi0/man/sim.dat.Rd             |    2 
 pi0-1.3-200/pi0/man/sparncp.Rd             |    6 -
 pi0-1.3-200/pi0/man/subex.Rd               |    2 
 pi0-1.3-200/pi0/man/subt.Rd                |    2 
 pi0-1.3-200/pi0/man/summary.nparncp.Rd     |    6 -
 pi0-1.3-200/pi0/man/summary.parncp.Rd      |    6 -
 pi0-1.3-200/pi0/man/summary.sparncp.Rd     |    6 -
 pi0-1.3-200/pi0/man/varB.Rd                |    2 
 pi0-1.3-200/pi0/man/vcov.ncpest.Rd         |    2 
 pi0-1.3-200/pi0/man/znormix.Rd             |    2 
 75 files changed, 307 insertions(+), 300 deletions(-)

More information about pi0 at CRAN
Permanent link

New package knitr with initial version 0.1
Package: knitr
Type: Package
Title: A general-purpose package for dynamic report generation in R
Version: 0.1
Date: 2012-01-18
Authors@R: c(person("Hadley", "Wickham", email = "hadley@rice.edu", role = "ctb"), person("Ramnath", "Vaidyanathan", role = "ctb"), person("Yihui", "Xie", email = "xie@yihui.name", role = c("aut", "cre")))
Author: Yihui Xie
Maintainer: Yihui Xie
Description: This package provides a general-purpose tool for dynamic report generation in R, which can be used to deal with any type of (plain text) files, including Sweave and HTML. The patterns of code chunks and inline R expressions can be customized. R code is evaluated as if it were copied and pasted in an R terminal thanks to the evaluate package (e.g. we do not need to explicitly print() plots from ggplot2 or lattice). R code can be reformatted by the formatR package so that long lines are automatically wrapped, with indent and spaces being added, and comments being preserved. A simple caching mechanism is provided to cache results from computations for the first time and the computations will be skipped the next time. Almost all common graphics devices, including those in base R and add-on packages like Cairo, cairoDevice and tikzDevice, are built-in with this package and it is straightforward to switch between devices without writing any special functions. The width and height as well as alignment of plots in the output document can be specified in chunk options (the size of plots for graphics devices is still supported as usual). Multiple plots can be recorded in a single code chunk, and it is also allowed to rearrange plots to the end of a chunk or just keep the last plot. Warnings, messages and errors are written in the output document by default (can be turned off). Currently LaTeX, HTML and Markdown are supported, and other output formats can be supported by hook functions. The large collection of hooks in this package makes it possible for the user to control almost everything in the R code input and output. Hooks can be used either to format the output or to run a specified R code fragment before or after a code chunk. Most features are borrowed or inspired by Sweave, cacheSweave, pgfSweave, brew and decumar.
Depends: R (>= 2.14.1)
Imports: evaluate (>= 0.4), digest, formatR (>= 0.3-4), stringr, tools, highlight, utils
Suggests: testthat, rgl, tikzDevice (>= 0.6.2), XML
License: GPL
URL: http://yihui.github.com/knitr/
BugReports: https://github.com/yihui/knitr/issues
Collate: 'package.R' 'defaults.R' 'parser.R' 'cache.R' 'pattern.R' 'output.R' 'block.R' 'hooks.R' 'utils.R' 'plot.R' 'zzz.R' 'header.R' 'themes.R' 'eclipse.R'
Packaged: 2012-01-17 06:52:19 UTC; yihui
Repository: CRAN
Date/Publication: 2012-01-17 07:59:42

More information about knitr at CRAN
Permanent link

Package basicspace updated to version 0.05 with previous version 0.03 dated 2011-07-23

Title: A Package to Recover a Basic Space from Issue Scales
Description: Conducts Aldrich-McKelvey and Blackbox Scaling (SVD generalization with missing values)
Author: Keith Poole , Howard Rosenthal , Jeffrey Lewis , James Lo and Royce Carroll
Maintainer: Keith Poole

Diff between basicspace versions 0.03 dated 2011-07-23 and 0.05 dated 2012-01-17

 basicspace-0.03/basicspace/.Rapp.history                       |only
 basicspace-0.03/basicspace/inst/basicspace.Rnw                 |only
 basicspace-0.03/basicspace/inst/basicspace.bib                 |only
 basicspace-0.03/basicspace/inst/doc/Sweave.sty                 |only
 basicspace-0.03/basicspace/inst/doc/basicspace-aldmck_plot.eps |only
 basicspace-0.03/basicspace/inst/doc/basicspace-aldmck_plot.pdf |only
 basicspace-0.03/basicspace/inst/doc/basicspace-bbt.eps         |only
 basicspace-0.03/basicspace/inst/doc/basicspace-bbt.pdf         |only
 basicspace-0.03/basicspace/inst/doc/basicspace-eight.eps       |only
 basicspace-0.03/basicspace/inst/doc/basicspace-eight.pdf       |only
 basicspace-0.03/basicspace/inst/doc/basicspace-four.eps        |only
 basicspace-0.03/basicspace/inst/doc/basicspace-four.pdf        |only
 basicspace-0.03/basicspace/inst/doc/basicspace-nine.eps        |only
 basicspace-0.03/basicspace/inst/doc/basicspace-nine.pdf        |only
 basicspace-0.03/basicspace/inst/doc/basicspace-seven.eps       |only
 basicspace-0.03/basicspace/inst/doc/basicspace-seven.pdf       |only
 basicspace-0.03/basicspace/inst/doc/basicspace-six.eps         |only
 basicspace-0.03/basicspace/inst/doc/basicspace-six.pdf         |only
 basicspace-0.03/basicspace/inst/doc/basicspace.aux             |only
 basicspace-0.03/basicspace/inst/doc/basicspace.bbl             |only
 basicspace-0.03/basicspace/inst/doc/basicspace.log             |only
 basicspace-0.03/basicspace/inst/doc/basicspace.out             |only
 basicspace-0.03/basicspace/inst/doc/basicspace.synctex.gz      |only
 basicspace-0.03/basicspace/inst/doc/basicspace.tex             |only
 basicspace-0.03/basicspace/inst/doc/jss.bst                    |only
 basicspace-0.03/basicspace/inst/doc/jss.cls                    |only
 basicspace-0.03/basicspace/inst/doc/jss.dbj                    |only
 basicspace-0.03/basicspace/inst/doc/jss.drv                    |only
 basicspace-0.03/basicspace/inst/doc/jss.dtx                    |only
 basicspace-0.03/basicspace/inst/doc/jss.ins                    |only
 basicspace-0.03/basicspace/inst/doc/jss.pdf                    |only
 basicspace-0.05/basicspace/.Rinstignore                        |only
 basicspace-0.05/basicspace/DESCRIPTION                         |   10 
 basicspace-0.05/basicspace/HISTORY                             |    7 
 basicspace-0.05/basicspace/MD5                                 |only
 basicspace-0.05/basicspace/R/header.R                          |   13 
 basicspace-0.05/basicspace/data/.Rapp.history                  |  939 ++++++
 basicspace-0.05/basicspace/data/LC1980_bbt.rda                 |only
 basicspace-0.05/basicspace/inst/doc/basicspace.Rnw             | 1352 +++++-----
 basicspace-0.05/basicspace/inst/doc/basicspace.pdf             |binary
 basicspace-0.05/basicspace/man/LC1980_bbt.Rd                   |only
 basicspace-0.05/basicspace/man/blackbox_transpose.Rd           |   17 
 basicspace-0.05/basicspace/man/plot.AM.Rd                      |    2 
 basicspace-0.05/basicspace/man/plot.aldmck.Rd                  |    2 
 basicspace-0.05/basicspace/man/plot.aldmck_negative.Rd         |    2 
 basicspace-0.05/basicspace/man/plot.aldmck_positive.Rd         |    2 
 basicspace-0.05/basicspace/man/plot.blackbt.Rd                 |   18 
 basicspace-0.05/basicspace/man/plot.cdf.Rd                     |    2 
 basicspace-0.05/basicspace/man/plotcdf.blackbt.Rd              |   18 
 basicspace-0.05/basicspace/man/summary.aldmck.Rd               |    2 
 basicspace-0.05/basicspace/man/summary.blackbox.Rd             |    2 
 basicspace-0.05/basicspace/man/summary.blackbt.Rd              |   18 
 basicspace-0.05/basicspace/src/basicspace.f90                  |   20 
 53 files changed, 1603 insertions(+), 823 deletions(-)

More information about basicspace at CRAN
Permanent link


Built and running on Debian GNU/Linux using R, littler and blosxom. Styled with Bootstrap.