Wed, 30 Sep 2009

Package psych updated to version 1.0-80 with previous version 1.0-78 dated 2009-07-30

Author: William Revelle
Title: Procedures for Psychological, Psychometric, and Personality Research
Description: A number of routines for personality, psychometrics and experimental psychology. Functions are primarily for scale construction using factor analysis, cluster analysis and reliability analysis, although others provide basic descriptive statistics. Functions for simulating particular item and test structures are included. Several functions serve as a useful front end for structural equation modeling. For more information, see the personality-project.org/r webpage.

Diff between psych versions 1.0-78 dated 2009-07-30 and 1.0-80 dated 2009-09-30

 psych-1.0-78/psych/data/bifactor.rda.old.rda  |only
 psych-1.0-80/psych/CHANGES                    |   17 
 psych-1.0-80/psych/DESCRIPTION                |    8 
 psych-1.0-80/psych/NAMESPACE                  |   18 
 psych-1.0-80/psych/R/CTA_lrn.R                |only
 psych-1.0-80/psych/R/ICC.R                    |   55 
 psych-1.0-80/psych/R/ICLUST.R                 |    5 
 psych-1.0-80/psych/R/ICLUST.cluster.R         |    2 
 psych-1.0-80/psych/R/ICLUST.diagram.R         |only
 psych-1.0-80/psych/R/ICLUST.rgraph.R          |    4 
 psych-1.0-80/psych/R/cluster.cor.R            |   12 
 psych-1.0-80/psych/R/cluster.plot.R           |    3 
 psych-1.0-80/psych/R/describe.by.R            |   47 
 psych-1.0-80/psych/R/dia.rect.R               |only
 psych-1.0-80/psych/R/error.bars.R             |   18 
 psych-1.0-80/psych/R/error.bars.by.R          |   16 
 psych-1.0-80/psych/R/fa.R                     |   36 
 psych-1.0-80/psych/R/fa.diagram.R             |only
 psych-1.0-80/psych/R/fa.graph.R               |    4 
 psych-1.0-80/psych/R/fa.sort.R                |only
 psych-1.0-80/psych/R/factor.rotate.R          |    8 
 psych-1.0-80/psych/R/geometric.mean.R         |    4 
 psych-1.0-80/psych/R/harmonic.mean.R          |    2 
 psych-1.0-80/psych/R/omega.R                  |   11 
 psych-1.0-80/psych/R/omega.diagram.R          |only
 psych-1.0-80/psych/R/principal.R              |    2 
 psych-1.0-80/psych/R/print.psych.R            |   32 
 psych-1.0-80/psych/R/print.psych.fa.R         |    4 
 psych-1.0-80/psych/R/print.psych.iclust.R     |    6 
 psych-1.0-80/psych/R/read.clipboard.lower.R   |    5 
 psych-1.0-80/psych/R/schmid.R                 |   15 
 psych-1.0-80/psych/R/score.items.R            |    2 
 psych-1.0-80/psych/R/sim.structural.R         |   14 
 psych-1.0-80/psych/R/structure.diagram.R      |only
 psych-1.0-80/psych/R/test.psych.r             |   19 
 psych-1.0-80/psych/R/winsor.R                 |   36 
 psych-1.0-80/psych/data/Schmid.rda            |only
 psych-1.0-80/psych/inst/NEWS                  |    5 
 psych-1.0-80/psych/inst/doc/overview.Rnw      |   34 
 psych-1.0-80/psych/inst/doc/overview.pdf      |24384 ++++++++------------
 psych-1.0-80/psych/inst/doc/psych_for_sem.Rnw |   87 
 psych-1.0-80/psych/inst/doc/psych_for_sem.pdf |30627 +++++++-------------------
 psych-1.0-80/psych/man/00.psych-package.Rd    |    6 
 psych-1.0-80/psych/man/Harman.Rd              |    7 
 psych-1.0-80/psych/man/ICC.Rd                 |   19 
 psych-1.0-80/psych/man/Schmid.Leiman.Rd       |only
 psych-1.0-80/psych/man/bifactor.Rd            |    4 
 psych-1.0-80/psych/man/cluster.cor.Rd         |    2 
 psych-1.0-80/psych/man/cluster.plot.Rd        |    2 
 psych-1.0-80/psych/man/dia.rect.Rd            |only
 psych-1.0-80/psych/man/fa.Rd                  |    5 
 psych-1.0-80/psych/man/fa.graph.Rd            |   34 
 psych-1.0-80/psych/man/fa.sort.Rd             |only
 psych-1.0-80/psych/man/factor.rotate.Rd       |    2 
 psych-1.0-80/psych/man/geometric.mean.Rd      |    7 
 psych-1.0-80/psych/man/harmonic.mean.Rd       |    7 
 psych-1.0-80/psych/man/iclust.diagram.Rd      |only
 psych-1.0-80/psych/man/msq.Rd                 |    4 
 psych-1.0-80/psych/man/omega.Rd               |    7 
 psych-1.0-80/psych/man/omega.graph.Rd         |   14 
 psych-1.0-80/psych/man/principal.Rd           |    4 
 psych-1.0-80/psych/man/sim.Rd                 |    2 
 psych-1.0-80/psych/man/smc.Rd                 |    2 
 psych-1.0-80/psych/man/structure.graph.Rd     |   24 
 psych-1.0-80/psych/man/winsor.Rd              |   15 
 psych-1.0-80/psych/sort.rowcol.R              |only
 66 files changed, 19279 insertions(+), 36430 deletions(-)

More information about psych at CRAN
Permanent link

Package fExtremes updated to version 2100.77 with previous version 290.76 dated 2009-04-16

Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Rmetrics - Extreme Financial Market Data
Description: Environment for teaching "Financial Engineering and Computational Finance"

Diff between fExtremes versions 290.76 dated 2009-04-16 and 2100.77 dated 2009-09-30

 ChangeLog                                |   23 ----
 DESCRIPTION                              |   10 +-
 R/ExtremeIndex.R                         |    8 -
 R/GevFit.R                               |   18 +--
 R/GpdFit.R                               |  144 +++++++++++++++----------------
 inst/unitTests/runit.DataPreprocessing.R |    8 -
 6 files changed, 97 insertions(+), 114 deletions(-)

More information about fExtremes at CRAN
Permanent link

New package inlinedocs with initial version 1.0
Package: inlinedocs
Title: Convert inline comments to documentation
Type: Package
Version: 1.0
Date: 2009-07-29
Author: Toby Dylan Hocking
Maintainer: Toby Dylan Hocking
Description: Generates Rd files from R source code with comments, providing for quick, sustainable package development. The syntax keeps code and documentation close together, and is inspired by the Don't Repeat Yourself principle.
URL: http://inlinedocs.r-forge.r-project.org
License: GPL-3
LazyLoad: yes
Repository: CRAN
Repository/R-Forge/Project: inlinedocs
Repository/R-Forge/Revision: 38
Date/Publication: 2009-09-30 18:56:32
Packaged: 2009-09-21 20:17:30 UTC; rforge

More information about inlinedocs at CRAN
Permanent link

Package fAsianOptions updated to version 2100.76 with previous version 290.75 dated 2009-04-16

Author: Diethelm Wuertz and many others, see the SOURCE file
Title: EBM and Asian Option Valuation
Description: Environment for teaching "Financial Engineering and Computational Finance"

Diff between fAsianOptions versions 290.75 dated 2009-04-16 and 2100.76 dated 2009-09-30

 ChangeLog   |    9 ---------
 DESCRIPTION |   10 +++++-----
 2 files changed, 5 insertions(+), 14 deletions(-)

More information about fAsianOptions at CRAN
Permanent link

Package eba updated to version 1.5-5 with previous version 1.5-4 dated 2009-08-25

Author: Florian Wickelmaier
Title: Elimination-By-Aspects (EBA) Models
Description: Fitting and testing multi-attribute probabilistic choice models, especially the Bradley-Terry-Luce (BTL) model (Bradley & Terry, 1952; Luce, 1959), elimination-by-aspects (EBA) models (Tversky, 1972), and preference tree (Pretree) models (Tversky & Sattath, 1979).

Diff between eba versions 1.5-4 dated 2009-08-25 and 1.5-5 dated 2009-09-30

 ChangeLog   |    5 +++++
 DESCRIPTION |    8 ++++----
 R/strans.R  |   20 +++++++++++---------
 3 files changed, 20 insertions(+), 13 deletions(-)

More information about eba at CRAN
Permanent link

Package caret updated to version 4.24 with previous version 4.23 dated 2009-09-28

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

Diff between caret versions 4.23 dated 2009-09-28 and 4.24 dated 2009-09-30

 caret-4.23/caret/inst/doc/caretMisc.tex      |only
 caret-4.23/caret/inst/doc/caretSelection.tex |only
 caret-4.23/caret/inst/doc/caretTrain.tex     |only
 caret-4.23/caret/inst/doc/caretVarImp.tex    |only
 caret-4.24/caret/DESCRIPTION                 |   10 
 caret-4.24/caret/R/makeCubistFiles.R         |only
 caret-4.24/caret/R/rfe.R                     |   59 
 caret-4.24/caret/inst/CHANGES                |    7 
 caret-4.24/caret/inst/doc/caretMisc.pdf      |  767 +++---
 caret-4.24/caret/inst/doc/caretSelection.Rnw |    6 
 caret-4.24/caret/inst/doc/caretSelection.pdf | 3204 +++++++++++++--------------
 caret-4.24/caret/inst/doc/caretTrain.pdf     |binary
 caret-4.24/caret/inst/doc/caretVarImp.pdf    |binary
 caret-4.24/caret/man/lattice.rfe.Rd          |    8 
 caret-4.24/caret/man/rfe.Rd                  |    4 
 caret-4.24/caret/man/rfeControl.Rd           |    3 
 16 files changed, 2051 insertions(+), 2017 deletions(-)

More information about caret at CRAN
Permanent link

Package SuppDists updated to version 1.1-6 with previous version 1.1-4 dated 2009-06-18

Author: Bob Wheeler
Title: Supplementary distributions
Description: Ten distributions supplementing those built into R. Inverse Gauss, Kruskal-Wallis, Kendall's Tau, Friedman's chi squared, Spearman's rho, maximum F ratio, the Pearson product moment correlation coefficiant, Johnson distributions, normal scores and generalized hypergeometric distributions. In addition two random number generators of George Marsaglia are included.

Diff between SuppDists versions 1.1-4 dated 2009-06-18 and 1.1-6 dated 2009-09-30

 DESCRIPTION     |   10 +++++-----
 man/MWC1019.Rd  |    3 +--
 man/ziggurat.Rd |    5 +++--
 3 files changed, 9 insertions(+), 9 deletions(-)

More information about SuppDists at CRAN
Permanent link

New package RelativeRisk with initial version 1.0-1
Package: RelativeRisk
Version: 1.0-1
Date: 2009/09/29
Title: Relative Risk
Author: Bob Wheeler
Maintainer: Bob Wheeler
Description: Relative risk estimation for prospective and retrospective data.
License: GPL (>= 2)
URL: http://www.bobwheeler.com/statistics/
Packaged: 2009-09-29 21:03:46 UTC; Bob Wheeler
Repository: CRAN
Date/Publication: 2009-09-30 19:06:29

More information about RelativeRisk at CRAN
Permanent link

Package Epi updated to version 1.1.7 with previous version 1.1.2 dated 2009-09-06

Author: Bendix Carstensen, Martyn Plummer, Esa Laara, Michael Hills et. al.
Title: A package for statistical analysis in epidemiology.
Description: Functions for demographic and epidemiological analysis in the Lexis diagram, i.e. register and cohort follow-up data, including interval censored data and representation of multistate data. Also some useful functions for tabulation and plotting. Contains some epidemiological datasets.

Diff between Epi versions 1.1.2 dated 2009-09-06 and 1.1.7 dated 2009-09-30

 Epi-1.1.2/Epi/inst/doc/Follow-up.R   |only
 Epi-1.1.2/Epi/man/tbox.Rd            |only
 Epi-1.1.7/Epi/CHANGES                |   23 
 Epi-1.1.7/Epi/DESCRIPTION            |   10 
 Epi-1.1.7/Epi/NAMESPACE              |    7 
 Epi-1.1.7/Epi/R/MS.boxes.R           |  241 +++++--
 Epi-1.1.7/Epi/R/ci.cum.R             |   10 
 Epi-1.1.7/Epi/R/ci.lin.R             |    3 
 Epi-1.1.7/Epi/R/cutLexis.R           |   17 
 Epi-1.1.7/Epi/R/stack.Lexis.R        |    8 
 Epi-1.1.7/Epi/inst/doc/Follow-up.pdf | 1129 ++++++++++++++++++-----------------
 Epi-1.1.7/Epi/inst/doc/Rplots.pdf    |   64 +
 Epi-1.1.7/Epi/man/MS.boxes.Rd        |only
 Epi-1.1.7/Epi/man/ci.cum.Rd          |    7 
 Epi-1.1.7/Epi/man/ci.lin.Rd          |    9 
 Epi-1.1.7/Epi/man/mstate.Lexis.Rd    |    5 
 Epi-1.1.7/Epi/man/stack.Lexis.Rd     |    4 
 17 files changed, 903 insertions(+), 634 deletions(-)

More information about Epi at CRAN
Permanent link

Package AlgDesign updated to version 1.0-12 with previous version 1.0-10 dated 2009-06-18

Author: Bob Wheeler
Title: AlgDesign
Description: Algorithmic experimental designs. Calculates exact and approximate theory experimental designs for D,A, and I criteria. Very large designs may be created. Experimental designs may be blocked or blocked designs created from a candidate list, using several criteria. The blocking can be done when whole and within plot factors interact.

Diff between AlgDesign versions 1.0-10 dated 2009-06-18 and 1.0-12 dated 2009-09-30

 DESCRIPTION |   10 +++++-----
 R/Utility.R |    6 ++++--
 2 files changed, 9 insertions(+), 7 deletions(-)

More information about AlgDesign at CRAN
Permanent link

Package AICcmodavg updated to version 1.02 with previous version 1.01 dated 2009-09-04

Author: Marc J. Mazerolle . Special thanks to T. Ergon for the original idea of storing candidate models in a list.
Title: Model selection and multimodel inference based on (Q)AIC(c)
Description: This package includes functions to create model selection tables based on Akaike's information criterion (AIC) and the second-order AIC (AICc), as well as their quasi-likelihood counterparts (QAIC, QAICc). Tables are printed with delta AIC and Akaike weights. The package also includes functions to conduct model averaging (multimodel inference) for a given parameter of interest or predicted values. Other handy functions enable the computation of relative variable importance, evidence ratios, and confidence sets for the best model. The present version works with lm, glm, multinom, and lme object classes.

Diff between AICcmodavg versions 1.01 dated 2009-09-04 and 1.02 dated 2009-09-30

 AICcmodavg-1.01/AICcmodavg/R/print.aic.tab.R         |only
 AICcmodavg-1.02/AICcmodavg/DESCRIPTION               |   14 +-
 AICcmodavg-1.02/AICcmodavg/R/AICc.R                  |   24 +++-
 AICcmodavg-1.02/AICcmodavg/R/AICc.glm.R              |    9 +
 AICcmodavg-1.02/AICcmodavg/R/AICc.lme.R              |   14 +-
 AICcmodavg-1.02/AICcmodavg/R/AICc.mult.R             |only
 AICcmodavg-1.02/AICcmodavg/R/aictab.R                |   58 ++++++----
 AICcmodavg-1.02/AICcmodavg/R/aictab.mult.R           |only
 AICcmodavg-1.02/AICcmodavg/R/importance.R            |   21 ++-
 AICcmodavg-1.02/AICcmodavg/R/modavg.R                |  108 +++++++++++++------
 AICcmodavg-1.02/AICcmodavg/R/modavg.mult.R           |only
 AICcmodavg-1.02/AICcmodavg/inst                      |only
 AICcmodavg-1.02/AICcmodavg/man/AICc.Rd               |   28 ++--
 AICcmodavg-1.02/AICcmodavg/man/AICcmodavg-package.Rd |    7 -
 AICcmodavg-1.02/AICcmodavg/man/aictab.Rd             |   21 ++-
 AICcmodavg-1.02/AICcmodavg/man/confset.Rd            |   12 +-
 AICcmodavg-1.02/AICcmodavg/man/modavg.Rd             |   16 +-
 AICcmodavg-1.02/AICcmodavg/man/modavgpred.Rd         |    2 
 18 files changed, 224 insertions(+), 110 deletions(-)

More information about AICcmodavg at CRAN
Permanent link

Package ctv updated to version 0.5-4 with previous version 0.5-3 dated 2009-07-22

Author: Achim Zeileis, Kurt Hornik
Title: CRAN Task Views
Description: Server-side and client-side tools for task views to CRAN-style repositories

Diff between ctv versions 0.5-3 dated 2009-07-22 and 0.5-4 dated 2009-09-30

 DESCRIPTION                           |    8 
 R/ctv-server.R                        |    2 
 inst/ctv/Bayesian.ctv                 |    7 
 inst/ctv/ChemPhys.ctv                 |   12 
 inst/ctv/ClinicalTrials.ctv           |only
 inst/ctv/Cluster.ctv                  |   24 -
 inst/ctv/Econometrics.ctv             |   19 
 inst/ctv/Environmetrics.ctv           |  770 ++++++++++++++++------------------
 inst/ctv/ExperimentalDesign.ctv       |   53 +-
 inst/ctv/Finance.ctv                  |   18 
 inst/ctv/HighPerformanceComputing.ctv |   22 
 inst/ctv/MachineLearning.ctv          |    7 
 inst/ctv/MedicalImaging.ctv           |  301 ++++++-------
 inst/ctv/Multivariate.ctv             |   10 
 inst/ctv/Psychometrics.ctv            |   19 
 inst/ctv/Survival.ctv                 |  124 ++++-
 inst/ctv/TimeSeries.ctv               |   43 +
 inst/doc/ctv-howto.pdf                |binary
 18 files changed, 789 insertions(+), 650 deletions(-)

More information about ctv at CRAN
Permanent link

Tue, 29 Sep 2009

Package ttrTests updated to version 1.2 with previous version 1.1 dated 2009-09-03

Author: David St John
Title: Standard Backtests for Technical Trading Rules in Financial Data
Description: Four core functions evaluate the efficacy of a technical trading rule. Conditional return statistics, Bootstrap resampling statistics, Test for data snooping bias among parameter choices, and Robustness of parameter choices

Diff between ttrTests versions 1.1 dated 2009-09-03 and 1.2 dated 2009-09-29

 DESCRIPTION             |    8 ++++----
 R/dataSnoop.R           |    2 +-
 R/generateSample.R      |    9 +++++----
 R/nullModel.R           |    2 +-
 man/cReturns.Rd         |    2 +-
 man/dataSnoop.Rd        |    2 +-
 man/defaults.Rd         |    2 +-
 man/deleteNA.Rd         |    2 +-
 man/generateSample.Rd   |    8 +++++---
 man/indicator.Rd        |    2 +-
 man/macd4.Rd            |    2 +-
 man/nullModel.Rd        |    6 +++---
 man/paramPersist.Rd     |    4 ++--
 man/paramStats.Rd       |    2 +-
 man/position.Rd         |    2 +-
 man/returnStats.Rd      |    2 +-
 man/ttrTests-package.Rd |    7 ++++---
 17 files changed, 34 insertions(+), 30 deletions(-)

More information about ttrTests at CRAN
Permanent link

Package tileHMM updated to version 1.0-3 with previous version 1.0-2 dated 2008-08-20

Author: Peter Humburg
Title: Hidden Markov Models for ChIP-on-Chip Analysis
Description: This package provides methods and classes to build HMMs that are suitable for the analysis of ChIP-on-chip data. The provided parameter estimation methods include the Baum-Welch algorithm and Viterbi training as well as a combination of both.

Diff between tileHMM versions 1.0-2 dated 2008-08-20 and 1.0-3 dated 2009-09-29

 tileHMM-1.0-2/tileHMM/data/simChIP.txt       |only
 tileHMM-1.0-3/tileHMM/DESCRIPTION            |   18 +++++++++++-------
 tileHMM-1.0-3/tileHMM/R/utils.R              |   10 ++++++++--
 tileHMM-1.0-3/tileHMM/data/simChIP.rda       |only
 tileHMM-1.0-3/tileHMM/man/contHMM-class.Rd   |    4 ++--
 tileHMM-1.0-3/tileHMM/man/sampleObs.Rd       |    4 ++--
 tileHMM-1.0-3/tileHMM/man/states.Rd          |    2 +-
 tileHMM-1.0-3/tileHMM/man/tileHMM-package.Rd |    4 ++--
 8 files changed, 26 insertions(+), 16 deletions(-)

More information about tileHMM at CRAN
Permanent link

Package tikzDevice updated to version 0.4.8 with previous version 0.4.7 dated 2009-09-12

Author: Charlie Sharpsteen and Cameron Bracken
Title: A Device for R Graphics Output in PGF/TikZ Format
Description: The TikZ device enables LaTeX-ready output from R graphics functions. This is done by producing code that can be understood by the TikZ graphics language. All text in a graphic output with the tikz() function will can be typeset by LaTeX and therefore will match whatever fonts are currently used in the document. This also means that LaTeX mathematics can be typeset directly into labels and annotations! Graphics produced this way can also be annotated with custom TikZ commands.

Diff between tikzDevice versions 0.4.7 dated 2009-09-12 and 0.4.8 dated 2009-09-29

 DESCRIPTION                   |   10 
 README                        |    2 
 inst/doc/tikzDevice.Rnw       |    2 
 inst/doc/tikzDevice.pdf       | 4559 +++++++++++++++++++++++-------------------
 inst/doc/tikzDeviceMacros.tex |    2 
 5 files changed, 2577 insertions(+), 1998 deletions(-)

More information about tikzDevice at CRAN
Permanent link

Package statmod updated to version 1.4.1 with previous version 1.4.0 dated 2009-05-06

Author: Gordon Smyth with contributions from Yifang Hu and Peter Dunn
Title: Statistical Modeling
Description: Various statistical modeling functions including growth curve comparisons, limiting dilution analysis, mixed linear models, heteroscedastic regression, Tweedie family generalized linear models, the inverse-Gaussian distribution and Gauss quadrature.

Diff between statmod versions 1.4.0 dated 2009-05-06 and 1.4.1 dated 2009-09-29

 DESCRIPTION            |    8 ++--
 R/fitNBP.R             |   22 +++++++++--
 R/glmgam.R             |    4 +-
 R/invgauss.R           |   16 ++++----
 R/limdil.R             |   91 +++++++++++++++++++++++++++++++++++--------------
 inst/doc/changelog.txt |   10 +++++
 man/digammaf.Rd        |    2 -
 man/fitNBP.Rd          |    4 +-
 man/gauss.quad.Rd      |    2 -
 man/gauss.quad.prob.Rd |    2 -
 man/growthcurve.Rd     |    2 -
 man/invgauss.Rd        |    3 +
 man/logmdigamma.Rd     |    2 -
 man/power.Rd           |    2 -
 man/qresiduals.Rd      |    2 -
 man/sage.test.Rd       |    2 -
 man/tweedie.Rd         |    2 -
 17 files changed, 123 insertions(+), 53 deletions(-)

More information about statmod at CRAN
Permanent link

Package rmeta updated to version 2.16 with previous version 2.15 dated 2009-02-24

Author: Thomas Lumley
Title: Meta-analysis
Description: Functions for simple fixed and random effects meta-analysis for two-sample comparisons and cumulative meta-analyses. Draws standard summary plots, funnel plots, and computes summaries and tests for association and heterogeneity

Diff between rmeta versions 2.15 dated 2009-02-24 and 2.16 dated 2009-09-29

 Changes     |    2 ++
 DESCRIPTION |   16 +++++++++-------
 R/meta.R    |    4 ++--
 3 files changed, 13 insertions(+), 9 deletions(-)

More information about rmeta at CRAN
Permanent link

Package plink updated to version 1.2-1 with previous version 1.2-0 dated 2009-08-19

Author: Jonathan P. Weeks
Title: IRT Separate Calibration Linking Methods
Description: This package uses item response theory methods to compute linking constants and conduct chain linking of unidimensional or multidimensional tests for multiple groups under a common item design. The unidimensional methods include the Mean/Mean, Mean/Sigma, Haebara, and Stocking-Lord methods for dichotomous (1PL, 2PL and 3PL) and/or polytomous (graded response, partial credit/generalized partial credit, nominal, and multiple-choice model) items. The multidimensional methods include the Reckase-Martineau method and extensions of the Haebara and Stocking-Lord method using a single dilation parameter, multiple dilation parameters, or the Oshima, Davey, & Lee approach for multidimensional extensions of all the unidimensional dichotomous and polytomous item response models. The package also includes functions for importing item and/or ability parameters from common IRT software, conducting IRT true score and observed score equating, and ploting item response curves/surfaces, vector plots, and comparison plots for examining parameter drift.

Diff between plink versions 1.2-0 dated 2009-08-19 and 1.2-1 dated 2009-09-29

 DESCRIPTION           |   10 -
 R/classes.R           |    2 
 R/equate.R            |   62 +++++-
 R/plink.R             |  238 +++++++++++++------------
 R/plot.R              |  473 +++++++++++++++++++++++++++++++++++++++++++-------
 R/summary.R           |  116 ++++++++++--
 inst/NEWS             |   44 ++++
 man/as.weight.Rd      |    9 
 man/equate-methods.Rd |    2 
 man/link-class.Rd     |    4 
 man/plink-methods.Rd  |   70 ++++---
 man/plot.irt.prob.Rd  |   11 -
 12 files changed, 806 insertions(+), 235 deletions(-)

More information about plink at CRAN
Permanent link

New package psgp with initial version 0.2-7
Package: psgp
Version: 0.2-7
Title: Projected Spatial Gaussian Process methods for package intamap
Author: Ben Ingram , Remi Barillec
Maintainer: Jon Skoien , Remi Barillec , Edzer Pebesma
Depends: intamap
Description: implements projected sparse Gaussian process kriging for the intamap package
License: GPL (>= 2)
URL: http://www.intamap.org/
Packaged: 2009-09-29 11:36:00 UTC; jon
Repository: CRAN
Date/Publication: 2009-09-29 18:49:39

More information about psgp at CRAN
Permanent link

New package lda with initial version 1.1
Package: lda
Type: Package
Title: Collapsed Gibbs sampling methods for topic models.
Version: 1.1
Date: 2009-09-26
Author: Jonathan Chang
Maintainer: Jonathan Chang
Description: This package implements latent Dirichlet allocation (LDA) and related models. This includes (but is not limited to) sLDA, corrLDA, and the mixed-membership stochastic blockmodel. Inference for all of these models is implemented via a fast collapsed Gibbs sampler writtten in C. Utility functions for reading/writing data typically used in topic models, as well as tools for examining posterior distributions are also included.
License: LGPL
LazyLoad: yes
Suggests: Matrix, ggplot2
Packaged: 2009-09-29 05:04:56 UTC; jonchang
Repository: CRAN
Date/Publication: 2009-09-29 18:49:24

More information about lda at CRAN
Permanent link

Package hash updated to version 1.0 with previous version 0.40 dated 2009-09-05

Author: Christopher Brown
Title: Implements hash/associated arrays/dictionaries
Description: This package implements a data structure similar to hashes in Perl and dictionaries in Python but with a purposefully R flavor.

Diff between hash versions 0.40 dated 2009-09-05 and 1.0 dated 2009-09-29

 ChangeLog             |   14 ++++
 DESCRIPTION           |   12 +--
 R/Class-hash.R        |only
 R/format.R            |only
 R/get.R               |    4 +
 R/hash.R              |  167 --------------------------------------------------
 R/set.R               |    8 +-
 R/show.R              |   24 +------
 R/zzz.R               |   18 ++++-
 man/format.Rd         |only
 man/hash-accessors.Rd |    2 
 man/hash-class.Rd     |    2 
 man/hash-package.Rd   |    6 -
 13 files changed, 55 insertions(+), 202 deletions(-)

More information about hash at CRAN
Permanent link

Package fUtilities updated to version 2100.77 with previous version 290.76 dated 2009-04-16

Author: Diethelm Wuertz and many others. See the SOURCE file
Title: Function Utilities
Description: Environment for teaching "Financial Engineering and Computational Finance"

Diff between fUtilities versions 290.76 dated 2009-04-16 and 2100.77 dated 2009-09-29

 ChangeLog   |   23 -----------------------
 DESCRIPTION |   10 +++++-----
 2 files changed, 5 insertions(+), 28 deletions(-)

More information about fUtilities at CRAN
Permanent link

Package fUnitRoots updated to version 2100.76 with previous version 290.75 dated 2009-04-16

Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Trends and Unit Roots
Description: Environment for teaching "Financial Engineering and Computational Finance"

Diff between fUnitRoots versions 290.75 dated 2009-04-16 and 2100.76 dated 2009-09-29

 ChangeLog                 |    9 --
 DESCRIPTION               |   10 +-
 R/UnitrootTests.R         |    6 -
 R/UnitrootUrcaInterface.R |  170 +++++++++++++++++++++++-----------------------
 4 files changed, 93 insertions(+), 102 deletions(-)

More information about fUnitRoots at CRAN
Permanent link

Package fTrading updated to version 2100.76 with previous version 290.75 dated 2009-04-16

Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Technical Trading Analysis
Description: Environment for teaching "Financial Engineering and Computational Finance"

Diff between fTrading versions 290.75 dated 2009-04-16 and 2100.76 dated 2009-09-29

 ChangeLog                                |   10 +++-------
 DESCRIPTION                              |   10 +++++-----
 R/TechnicalAnalysis.R                    |    2 +-
 inst/unitTests/runit.BenchmarkAnalysis.R |   10 +++++-----
 inst/unitTests/runit.TechnicalAnalysis.R |   12 ++++++------
 man/TechnicalAnalysis.Rd                 |    2 +-
 6 files changed, 21 insertions(+), 25 deletions(-)

More information about fTrading at CRAN
Permanent link

Package fRegression updated to version 2100.76 with previous version 290.75 dated 2009-04-16

Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Regression Based Decision and Prediction
Description: Environment for teaching "Financial Engineering and Computational Finance"

Diff between fRegression versions 290.75 dated 2009-04-16 and 2100.76 dated 2009-09-29

 ChangeLog                       |   16 ----------------
 DESCRIPTION                     |   10 +++++-----
 R/regFit.R                      |    2 +-
 man/RegressionTestsInterface.Rd |    4 ++--
 4 files changed, 8 insertions(+), 24 deletions(-)

More information about fRegression at CRAN
Permanent link

Package fOptions updated to version 2100.76 with previous version 290.75 dated 2009-04-16

Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Basics of Option Valuation
Description: Environment for teaching "Financial Engineering and Computational Finance"

Diff between fOptions versions 290.75 dated 2009-04-16 and 2100.76 dated 2009-09-29

 ChangeLog               |   14 --
 DESCRIPTION             |   10 -
 R/HestonNandiGarchFit.R |  274 ++++++++++++++++++++++++------------------------
 3 files changed, 142 insertions(+), 156 deletions(-)

More information about fOptions at CRAN
Permanent link

Package fNonlinear updated to version 2100.76 with previous version 290.75 dated 2009-04-16

Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Nonlinear and Chaotic Time Series Modelling
Description: Environment for teaching "Financial Engineering and Computational Finance"

Diff between fNonlinear versions 290.75 dated 2009-04-16 and 2100.76 dated 2009-09-29

 ChangeLog       |   13 ---
 DESCRIPTION     |   10 +-
 R/NonLinTests.R |  222 ++++++++++++++++++++++++++++----------------------------
 3 files changed, 116 insertions(+), 129 deletions(-)

More information about fNonlinear at CRAN
Permanent link

Package fMultivar updated to version 2100.76 with previous version 290.75 dated 2009-04-16

Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Multivariate Market Analysis
Description: Environment for teaching "Financial Engineering and Computational Finance"

Diff between fMultivar versions 290.75 dated 2009-04-16 and 2100.76 dated 2009-09-29

 ChangeLog                     |    9 ---------
 DESCRIPTION                   |   10 +++++-----
 R/MultivariateDistributions.R |    2 +-
 3 files changed, 6 insertions(+), 15 deletions(-)

More information about fMultivar at CRAN
Permanent link

Package fImport updated to version 2100.77 with previous version 290.76 dated 2009-04-16

Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Rmetrics - Economic and Financial Data Import
Description: Environment for teaching "Financial Engineering and Computational Finance"

Diff between fImport versions 290.76 dated 2009-04-16 and 2100.77 dated 2009-09-29

 ChangeLog   |   49 +++++++++++++++----------------------------------
 DESCRIPTION |   10 +++++-----
 2 files changed, 20 insertions(+), 39 deletions(-)

More information about fImport at CRAN
Permanent link

Package fExoticOptions updated to version 2100.76 with previous version 290.75 dated 2009-04-16

Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Exotic Option Valuation
Description: Environment for teaching "Financial Engineering and Computational Finance"

Diff between fExoticOptions versions 290.75 dated 2009-04-16 and 2100.76 dated 2009-09-29

 ChangeLog   |    9 ---------
 DESCRIPTION |   10 +++++-----
 2 files changed, 5 insertions(+), 14 deletions(-)

More information about fExoticOptions at CRAN
Permanent link

Package fBonds updated to version 2100.75 with previous version 270.74 dated 2009-04-16

Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Bonds and Interest Rate Models
Description: Environment for teaching "Financial Engineering and Computational Finance"

Diff between fBonds versions 270.74 dated 2009-04-16 and 2100.75 dated 2009-09-29

 ChangeLog         |   14 --------------
 DESCRIPTION       |   10 +++++-----
 R/TermStructure.R |    4 ++--
 3 files changed, 7 insertions(+), 21 deletions(-)

More information about fBonds at CRAN
Permanent link

Package fArma updated to version 2100.76 with previous version 290.75 dated 2009-04-16

Author: Diethelm Wuertz and many others, see the SOURCE file
Title: ARMA Time Series Modelling
Description: Environment for teaching "Financial Engineering and Computational Finance"

Diff between fArma versions 290.75 dated 2009-04-16 and 2100.76 dated 2009-09-29

 ChangeLog                            |   13 -------------
 DESCRIPTION                          |   10 +++++-----
 R/armaFit.R                          |    2 +-
 inst/unitTests/runit.ArmaModelling.R |    2 +-
 man/ArmaInterface.Rd                 |    2 +-
 5 files changed, 8 insertions(+), 21 deletions(-)

More information about fArma at CRAN
Permanent link

Package coin updated to version 1.0-7 with previous version 1.0-6 dated 2009-09-08

Author: Torsten Hothorn, Kurt Hornik, Mark A. van de Wiel and Achim Zeileis
Title: Conditional Inference Procedures in a Permutation Test Framework
Description: Conditional inference procedures for the general independence problem including two-sample, K-sample (non-parametric ANOVA), correlation, censored, ordered and multivariate problems.

Diff between coin versions 1.0-6 dated 2009-09-08 and 1.0-7 dated 2009-09-29

 DESCRIPTION                      |    8 ++++----
 NEWS                             |    6 ++++++
 R/zAccess.R                      |   22 ++++++++++++++++++++++
 inst/doc/LegoCondInf.pdf         |binary
 inst/doc/MAXtest.pdf             |binary
 inst/doc/coin.pdf                |binary
 inst/doc/coin_implementation.pdf |binary
 man/IndependenceTest.Rd          |    2 +-
 man/NullDistribution-class.Rd    |    2 +-
 man/PermutationDistribution.Rd   |    9 ++++++---
 man/hohnloser.Rd                 |    2 +-
 tests/Examples/coin-Ex.Rout.save |   17 ++++++++++-------
 tests/bugfixes.R                 |   11 +++++++++++
 tests/bugfixes.Rout.save         |   15 +++++++++++++++
 tests/regtest_MTP.Rout.save      |   13 ++-----------
 15 files changed, 79 insertions(+), 28 deletions(-)

More information about coin at CRAN
Permanent link

Package clustTool updated to version 1.6.4 with previous version 1.6.1 dated 2009-01-21

Author: Matthias Templ
Title: GUI for clustering data with spatial information
Description: This package can be used for clustering data with spatial information. Try function GUIspatClust() to run the clustTool GUI.

Diff between clustTool versions 1.6.1 dated 2009-01-21 and 1.6.4 dated 2009-09-29

 .project                   |only
 DESCRIPTION                |   16 
 R/GUIspatClust.R           | 1110 +++++++++++++++++------------------
 R/clust.R                  | 1389 ++++++++++++++++++++++-----------------------
 R/clustPlot.R              |  314 +++++-----
 R/plotKola.background.R    |   48 -
 R/prepare.R                |  168 ++---
 R/print.clust.R            |   48 -
 R/zzz.R                    |   20 
 man/GUIspatClust.Rd        |   52 -
 man/clust.Rd               |  180 ++---
 man/clustPlot.Rd           |   81 +-
 man/clustTool-package.Rd   |   93 +--
 man/kola.background.Rd     |   78 +-
 man/plotKola.background.Rd |   53 -
 man/prepare.Rd             |  112 +--
 man/print.clust.Rd         |   40 -
 17 files changed, 1908 insertions(+), 1894 deletions(-)

More information about clustTool at CRAN
Permanent link

Package alr3 updated to version 1.1.12 with previous version 1.1.11 dated 2009-09-08

Author: Sanford Weisberg
Title: Methods and data to accompany Applied Linear Regression 3rd edition
Description: This library is a companion to the textbook S. Weisberg (2005), "Applied Linear Regression," 3rd edition, Wiley. It includes all the data sets discussed in the book (except one), and several few functions that are tailored to the methods discussed in the book. Ver. 1.0.3 corrects bugs in (1) weights for POD models; (2) use of 'subset' arguments with boot.case. Ver. 1.0.4 corrects a few bugs with overparameterized models. Ver. 1.0.5 changes one default argument. Ver 1.0.6 replaces the pure.error.anova function so it prints nicer and works with interactions. Ver 1.0.7 fixes a bug in residual.plots and adds an additional argument and adds a new function alrweb to access the website for the book in a browser. Ver 1.0.8 fixed a bug in delta.method for generalized linear models. Ver 1.0.9 fixes a bug with Yeo Johnson transformations. Ver 1.1.0 drops the conf.intervals function in favor of the confint function in stat, includes several minor bug fixes, and makes the package fully compatible with version 2.6.0 of R. 1.1.2 corrects a bug introduced in boot.case. Version 1.1.7 adds a namespace. Ver 1.1.8 fixes more bugs. Ver. 1.1.9 updated the delta.method to work with a user-supplied estimate of the variance matrix. 1.1.10 removed a conflict with another package. Data files lightly modified to make some data columns row labels.

Diff between alr3 versions 1.1.11 dated 2009-09-08 and 1.1.12 dated 2009-09-29

 alr3-1.1.11/alr3/data/anscombe.txt   |only
 alr3-1.1.11/alr3/data/longley.txt    |only
 alr3-1.1.11/alr3/man/anscombe.Rd     |only
 alr3-1.1.11/alr3/man/longley.Rd      |only
 alr3-1.1.12/alr3/DESCRIPTION         |   11 
 alr3-1.1.12/alr3/NAMESPACE           |    2 
 alr3-1.1.12/alr3/R/alr3.R            |    4 
 alr3-1.1.12/alr3/data/BigMac2003.txt |  140 ++++++------
 alr3-1.1.12/alr3/data/MWwords.txt    |  332 ++++++++++++++---------------
 alr3-1.1.12/alr3/data/UN1.txt        |    2 
 alr3-1.1.12/alr3/data/UN2.txt        |  388 +++++++++++++++++------------------
 alr3-1.1.12/alr3/data/UN3.txt        |  252 +++++++++++-----------
 alr3-1.1.12/alr3/data/brains.txt     |    2 
 alr3-1.1.12/alr3/data/cathedral.txt  |   52 ++--
 alr3-1.1.12/alr3/data/challeng.txt   |   48 ++--
 alr3-1.1.12/alr3/data/donner.txt     |  184 ++++++++--------
 alr3-1.1.12/alr3/data/drugcost.txt   |   60 ++---
 alr3-1.1.12/alr3/data/florida.txt    |  136 ++++++------
 alr3-1.1.12/alr3/data/galapagos.txt  |   60 ++---
 alr3-1.1.12/alr3/data/lakes.txt      |  140 ++++++------
 alr3-1.1.12/alr3/data/sleep1.txt     |  126 +++++------
 alr3-1.1.12/alr3/man/BigMac2003.Rd   |    6 
 alr3-1.1.12/alr3/man/MWwords.Rd      |    5 
 alr3-1.1.12/alr3/man/UN1.Rd          |    6 
 alr3-1.1.12/alr3/man/UN2.Rd          |    7 
 alr3-1.1.12/alr3/man/UN3.Rd          |    7 
 alr3-1.1.12/alr3/man/alrweb.Rd       |    9 
 alr3-1.1.12/alr3/man/brains.Rd       |    6 
 alr3-1.1.12/alr3/man/cathedral.Rd    |    6 
 alr3-1.1.12/alr3/man/challeng.Rd     |    3 
 alr3-1.1.12/alr3/man/donner.Rd       |    6 
 alr3-1.1.12/alr3/man/drugcost.Rd     |    6 
 alr3-1.1.12/alr3/man/florida.Rd      |    3 
 alr3-1.1.12/alr3/man/galapagos.Rd    |    6 
 alr3-1.1.12/alr3/man/lakes.Rd        |    5 
 alr3-1.1.12/alr3/man/sleep1.Rd       |    5 
 36 files changed, 1007 insertions(+), 1018 deletions(-)

More information about alr3 at CRAN
Permanent link

Package STAR updated to version 0.3-4 with previous version 0.3-2 dated 2009-08-24

Author: Christophe Pouzat
Title: Spike Train Analysis with R
Description: Functions to analyze neuronal spike trains from a single neuron or from several neurons recorded simultaneously.

Diff between STAR versions 0.3-2 dated 2009-08-24 and 0.3-4 dated 2009-09-29

 ChangeLog             |   20 ++++++++++++++++++--
 DESCRIPTION           |   10 +++++-----
 NAMESPACE             |    8 +++++++-
 R/sim.R               |only
 man/changeScale.Rd    |    4 +---
 man/gsslockedTrain.Rd |    2 +-
 man/gsspsth.Rd        |    4 ++--
 man/mkM2U.Rd          |   12 +++++-------
 man/plot.ssanova.Rd   |    3 +--
 man/thinProcess.Rd    |only
 10 files changed, 40 insertions(+), 23 deletions(-)

More information about STAR at CRAN
Permanent link

Package MLDS updated to version 0.2-3 with previous version 0.2-2 dated 2009-09-18

Author: Kenneth Knoblauch and Laurence T. Maloney, based in part on C code written by Laurence T. Maloney and J. N. Yang
Title: Maximum Likelihood Difference Scaling
Description: Difference scaling is a method for scaling perceived supra-threshold differences. The package contains functions that allow the user to design and run a difference scaling experiment, to fit the resulting data by maximum likelihood and test the internal validity of the estimated scale.

Diff between MLDS versions 0.2-2 dated 2009-09-18 and 0.2-3 dated 2009-09-29

 DESCRIPTION     |    8 ++++----
 R/Get6pts.R     |   17 +++++++++++++----
 R/simu.6pt.R    |    4 ++--
 inst/NEWS       |   10 ++++++++++
 man/Get6pts.Rd  |    7 ++++---
 man/lik6pt.Rd   |    2 +-
 man/simu.6pt.Rd |    7 ++++---
 7 files changed, 38 insertions(+), 17 deletions(-)

More information about MLDS at CRAN
Permanent link

Package plm updated to version 1.2-1 with previous version 1.2-0 dated 2009-09-23

Author: Yves Croissant , Giovanni Millo
Title: Linear Models for Panel Data
Description: A set of estimators and tests for panel data.

Diff between plm versions 1.2-0 dated 2009-09-23 and 1.2-1 dated 2009-09-29

 plm-1.2-0/plm/inst/doc/plm.R     |only
 plm-1.2-1/plm/DESCRIPTION        |   15 
 plm-1.2-1/plm/NAMESPACE          |   18 
 plm-1.2-1/plm/R/pfunctions.R     |   59 
 plm-1.2-1/plm/R/pht.R            |    3 
 plm-1.2-1/plm/R/plm.R            |    5 
 plm-1.2-1/plm/R/plm.data.R       |    8 
 plm-1.2-1/plm/R/plm.methods.R    |    2 
 plm-1.2-1/plm/THANKS             |only
 plm-1.2-1/plm/changelog          |   22 
 plm-1.2-1/plm/inst/doc/plm.pdf   | 2893 +++++++++++++++++++--------------------
 plm-1.2-1/plm/inst/doc/plm.rnw   |    2 
 plm-1.2-1/plm/man/pdata.frame.Rd |    2 
 plm-1.2-1/plm/man/pserie.Rd      |   44 
 14 files changed, 1567 insertions(+), 1506 deletions(-)

More information about plm at CRAN
Permanent link

Package meboot updated to version 1.0-1 with previous version 1.0-0 dated 2009-01-21

Author: Hrishikesh D. Vinod and Javier L\'opez-de-Lacalle
Title: Maximum Entropy Bootstrap for Time Series
Description: This package performs maximum entropy density based dependent data bootstrap. An algorithm is provided to create a population of time series (ensemble) without assuming stationarity. The reference paper (Vinod, H.D., 2004) explains how the algorithm satisfies the ergodic theorem and the central limit theorem.

Diff between meboot versions 1.0-0 dated 2009-01-21 and 1.0-1 dated 2009-09-29

 DESCRIPTION         |   29 +++++++++++++++++------------
 R/meboot.R          |    2 +-
 data/ullwan.rda     |binary
 inst/doc/meboot.pdf |binary
 4 files changed, 18 insertions(+), 13 deletions(-)

More information about meboot at CRAN
Permanent link

Mon, 28 Sep 2009

Package tlnise updated to version 1.1 with previous version 1.0-1 dated 2009-05-14

Author: S-PLUS original by Phil Everson; R port by Roger D. Peng
Title: Two-level normal independent sampling estimation
Description: Functions for two level normal models as described in Everson and Morris (2000). J. R. Statist. Soc. B, 62 prt 2, pp.399--412.

Diff between tlnise versions 1.0-1 dated 2009-05-14 and 1.1 dated 2009-09-28

 tlnise-1.0-1/tlnise/inst/LICENSE            |only
 tlnise-1.1/tlnise/DESCRIPTION               |   10 ++---
 tlnise-1.1/tlnise/LICENSE                   |only
 tlnise-1.1/tlnise/R/TLNise.mv1.R            |    7 ++-
 tlnise-1.1/tlnise/R/init.R                  |    5 --
 tlnise-1.1/tlnise/man/tlnise.Rd             |   13 +-----
 tlnise-1.1/tlnise/src/tlnisemv1.f           |    3 +
 tlnise-1.1/tlnise/tests/reg-tests.R         |    2 -
 tlnise-1.1/tlnise/tests/reg-tests.Rout.save |   56 +++++++++++++---------------
 9 files changed, 42 insertions(+), 54 deletions(-)

More information about tlnise at CRAN
Permanent link

Package flsa updated to version 1.03 with previous version 1.02 dated 2009-09-28

Author: Holger Hoefling
Title: Path algorithm for the general Fused Lasso Signal Approximator
Description: This package implements a path algorithm for the Fused Lasso Signal Approximator. For more details see the help files

Diff between flsa versions 1.02 dated 2009-09-28 and 1.03 dated 2009-09-28

 DESCRIPTION         |    6 +++---
 src/FLSA.cc         |    6 +++---
 src/flsaBackwards.h |    4 ++--
 3 files changed, 8 insertions(+), 8 deletions(-)

More information about flsa at CRAN
Permanent link

Package timeSeries updated to version 2100.84 with previous version 2100.83 dated 2009-04-20

Author: Diethelm Wuertz and Yohan Chalabi
Title: Rmetrics - Financial Time Series Objects
Description: Environment for teaching "Financial Engineering and Computational Finance"

Diff between timeSeries versions 2100.83 dated 2009-04-20 and 2100.84 dated 2009-09-28

 timeSeries-2100.83/timeSeries/R/colCum.R                                 |only
 timeSeries-2100.83/timeSeries/R/colStats.R                               |only
 timeSeries-2100.83/timeSeries/R/cumulated.R                              |only
 timeSeries-2100.83/timeSeries/R/daily.R                                  |only
 timeSeries-2100.83/timeSeries/R/description.R                            |only
 timeSeries-2100.83/timeSeries/R/drawdowns.R                              |only
 timeSeries-2100.83/timeSeries/R/dummy.R                                  |only
 timeSeries-2100.83/timeSeries/R/durations.R                              |only
 timeSeries-2100.83/timeSeries/R/is.R                                     |only
 timeSeries-2100.83/timeSeries/R/isUnivariate.R                           |only
 timeSeries-2100.83/timeSeries/R/methods-DataPart.R                       |only
 timeSeries-2100.83/timeSeries/R/methods-aggregate.R                      |only
 timeSeries-2100.83/timeSeries/R/methods-align.R                          |only
 timeSeries-2100.83/timeSeries/R/methods-apply.R                          |only
 timeSeries-2100.83/timeSeries/R/methods-attach.R                         |only
 timeSeries-2100.83/timeSeries/R/methods-bind.R                           |only
 timeSeries-2100.83/timeSeries/R/methods-comment.R                        |only
 timeSeries-2100.83/timeSeries/R/methods-dim.R                            |only
 timeSeries-2100.83/timeSeries/R/methods-finCenter.R                      |only
 timeSeries-2100.83/timeSeries/R/methods-head.R                           |only
 timeSeries-2100.83/timeSeries/R/methods-lag.R                            |only
 timeSeries-2100.83/timeSeries/R/methods-merge.R                          |only
 timeSeries-2100.83/timeSeries/R/methods-na.R                             |only
 timeSeries-2100.83/timeSeries/R/methods-outlier.R                        |only
 timeSeries-2100.83/timeSeries/R/methods-plot.R                           |only
 timeSeries-2100.83/timeSeries/R/methods-returns.R                        |only
 timeSeries-2100.83/timeSeries/R/methods-rowCum.R                         |only
 timeSeries-2100.83/timeSeries/R/methods-series.R                         |only
 timeSeries-2100.83/timeSeries/R/methods-str.R                            |only
 timeSeries-2100.83/timeSeries/R/methods-subset.R                         |only
 timeSeries-2100.83/timeSeries/R/methods-tail.R                           |only
 timeSeries-2100.83/timeSeries/R/methods-window.R                         |only
 timeSeries-2100.83/timeSeries/R/model.frame.R                            |only
 timeSeries-2100.83/timeSeries/R/monthly.R                                |only
 timeSeries-2100.83/timeSeries/R/order.R                                  |only
 timeSeries-2100.83/timeSeries/R/orderStatistics.R                        |only
 timeSeries-2100.83/timeSeries/R/periodical.R                             |only
 timeSeries-2100.83/timeSeries/R/rank.R                                   |only
 timeSeries-2100.83/timeSeries/R/readSeries.R                             |only
 timeSeries-2100.83/timeSeries/R/signalCounts.R                           |only
 timeSeries-2100.83/timeSeries/R/spreads.R                                |only
 timeSeries-2100.83/timeSeries/R/time.R                                   |only
 timeSeries-2100.83/timeSeries/R/turnpoints.R                             |only
 timeSeries-2100.83/timeSeries/data/LPP2005REC.csv                        |only
 timeSeries-2100.83/timeSeries/data/msft.dat.csv                          |only
 timeSeries-2100.83/timeSeries/data/usdchf.csv                            |only
 timeSeries-2100.83/timeSeries/man/apply.Rd                               |only
 timeSeries-2100.83/timeSeries/man/colCum.Rd                              |only
 timeSeries-2100.83/timeSeries/man/colStats.Rd                            |only
 timeSeries-2100.83/timeSeries/man/cumulated.Rd                           |only
 timeSeries-2100.83/timeSeries/man/daily.Rd                               |only
 timeSeries-2100.83/timeSeries/man/description.Rd                         |only
 timeSeries-2100.83/timeSeries/man/drawdowns.Rd                           |only
 timeSeries-2100.83/timeSeries/man/durations.Rd                           |only
 timeSeries-2100.83/timeSeries/man/finCenter.Rd                           |only
 timeSeries-2100.83/timeSeries/man/is.Rd                                  |only
 timeSeries-2100.83/timeSeries/man/isUnivariate.Rd                        |only
 timeSeries-2100.83/timeSeries/man/lag.Rd                                 |only
 timeSeries-2100.83/timeSeries/man/methods-DataPart.Rd                    |only
 timeSeries-2100.83/timeSeries/man/methods-aggregate.Rd                   |only
 timeSeries-2100.83/timeSeries/man/methods-align.Rd                       |only
 timeSeries-2100.83/timeSeries/man/methods-attach.Rd                      |only
 timeSeries-2100.83/timeSeries/man/methods-bind.Rd                        |only
 timeSeries-2100.83/timeSeries/man/methods-dim.Rd                         |only
 timeSeries-2100.83/timeSeries/man/methods-na.Rd                          |only
 timeSeries-2100.83/timeSeries/man/methods-plot.Rd                        |only
 timeSeries-2100.83/timeSeries/man/methods-returns.Rd                     |only
 timeSeries-2100.83/timeSeries/man/methods-rowCum.Rd                      |only
 timeSeries-2100.83/timeSeries/man/methods-str.Rd                         |only
 timeSeries-2100.83/timeSeries/man/methods-subset.Rd                      |only
 timeSeries-2100.83/timeSeries/man/model.frame.Rd                         |only
 timeSeries-2100.83/timeSeries/man/monthly.Rd                             |only
 timeSeries-2100.83/timeSeries/man/order.Rd                               |only
 timeSeries-2100.83/timeSeries/man/orderStatistics.Rd                     |only
 timeSeries-2100.83/timeSeries/man/rank.Rd                                |only
 timeSeries-2100.83/timeSeries/man/series.Rd                              |only
 timeSeries-2100.83/timeSeries/man/spreads.Rd                             |only
 timeSeries-2100.83/timeSeries/man/time.Rd                                |only
 timeSeries-2100.84/timeSeries/ChangeLog                                  |  267 +++----
 timeSeries-2100.84/timeSeries/DESCRIPTION                                |   12 
 timeSeries-2100.84/timeSeries/NAMESPACE                                  |  171 +---
 timeSeries-2100.84/timeSeries/R/AllClass.R                               |   56 +
 timeSeries-2100.84/timeSeries/R/AllGeneric.R                             |   82 +-
 timeSeries-2100.84/timeSeries/R/base-Extract.R                           |only
 timeSeries-2100.84/timeSeries/R/base-apply.R                             |only
 timeSeries-2100.84/timeSeries/R/base-attach.R                            |only
 timeSeries-2100.84/timeSeries/R/base-cbind.R                             |only
 timeSeries-2100.84/timeSeries/R/base-colCumsums.R                        |only
 timeSeries-2100.84/timeSeries/R/base-colSums.R                           |only
 timeSeries-2100.84/timeSeries/R/base-comment.R                           |only
 timeSeries-2100.84/timeSeries/R/base-diff.R                              |only
 timeSeries-2100.84/timeSeries/R/base-dim.R                               |only
 timeSeries-2100.84/timeSeries/R/base-merge.R                             |only
 timeSeries-2100.84/timeSeries/R/base-rank.R                              |only
 timeSeries-2100.84/timeSeries/R/base-rev.R                               |only
 timeSeries-2100.84/timeSeries/R/base-rowCumsums.R                        |only
 timeSeries-2100.84/timeSeries/R/base-sample.R                            |only
 timeSeries-2100.84/timeSeries/R/base-scale.R                             |only
 timeSeries-2100.84/timeSeries/R/base-sort.R                              |only
 timeSeries-2100.84/timeSeries/R/base-start.R                             |only
 timeSeries-2100.84/timeSeries/R/base-subset.R                            |only
 timeSeries-2100.84/timeSeries/R/base-t.R                                 |only
 timeSeries-2100.84/timeSeries/R/fin-align.R                              |only
 timeSeries-2100.84/timeSeries/R/fin-cumulated.R                          |only
 timeSeries-2100.84/timeSeries/R/fin-daily.R                              |only
 timeSeries-2100.84/timeSeries/R/fin-drawdowns.R                          |only
 timeSeries-2100.84/timeSeries/R/fin-durations.R                          |only
 timeSeries-2100.84/timeSeries/R/fin-monthly.R                            |only
 timeSeries-2100.84/timeSeries/R/fin-orderColnames.R                      |only
 timeSeries-2100.84/timeSeries/R/fin-orderStatistics.R                    |only
 timeSeries-2100.84/timeSeries/R/fin-periodical.R                         |only
 timeSeries-2100.84/timeSeries/R/fin-returns.R                            |only
 timeSeries-2100.84/timeSeries/R/fin-rollmean.R                           |only
 timeSeries-2100.84/timeSeries/R/fin-smooth.R                             |only
 timeSeries-2100.84/timeSeries/R/fin-splits.R                             |only
 timeSeries-2100.84/timeSeries/R/fin-spreads.R                            |only
 timeSeries-2100.84/timeSeries/R/fin-turnpoints.R                         |only
 timeSeries-2100.84/timeSeries/R/graphics-plot.R                          |only
 timeSeries-2100.84/timeSeries/R/methods-as.R                             |  323 +++++---
 timeSeries-2100.84/timeSeries/R/methods-is.R                             |only
 timeSeries-2100.84/timeSeries/R/methods-mathOps.R                        |  173 ++--
 timeSeries-2100.84/timeSeries/R/methods-show.R                           |  117 ++-
 timeSeries-2100.84/timeSeries/R/old2new.R                                |    9 
 timeSeries-2100.84/timeSeries/R/stats-aggregate.R                        |only
 timeSeries-2100.84/timeSeries/R/stats-filter.R                           |only
 timeSeries-2100.84/timeSeries/R/stats-lag.R                              |only
 timeSeries-2100.84/timeSeries/R/stats-model.frame.R                      |only
 timeSeries-2100.84/timeSeries/R/stats-na.contiguous.R                    |only
 timeSeries-2100.84/timeSeries/R/stats-na.omit.R                          |only
 timeSeries-2100.84/timeSeries/R/stats-window.R                           |only
 timeSeries-2100.84/timeSeries/R/timeSeries-description.R                 |only
 timeSeries-2100.84/timeSeries/R/timeSeries-dummy.R                       |only
 timeSeries-2100.84/timeSeries/R/timeSeries-finCenter.R                   |only
 timeSeries-2100.84/timeSeries/R/timeSeries-getDataPart.R                 |only
 timeSeries-2100.84/timeSeries/R/timeSeries-isOHLC.R                      |only
 timeSeries-2100.84/timeSeries/R/timeSeries-isRegular.R                   |only
 timeSeries-2100.84/timeSeries/R/timeSeries-isUnivariate.R                |only
 timeSeries-2100.84/timeSeries/R/timeSeries-readSeries.R                  |only
 timeSeries-2100.84/timeSeries/R/timeSeries-series.R                      |only
 timeSeries-2100.84/timeSeries/R/timeSeries-signalCounts.R                |only
 timeSeries-2100.84/timeSeries/R/timeSeries-time.R                        |only
 timeSeries-2100.84/timeSeries/R/timeSeries.R                             |  360 ++++++----
 timeSeries-2100.84/timeSeries/R/utils-head.R                             |only
 timeSeries-2100.84/timeSeries/R/utils-str.R                              |only
 timeSeries-2100.84/timeSeries/data/LPP2005REC.rda                        |only
 timeSeries-2100.84/timeSeries/data/USDCHF.rda                            |only
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.NA.R                  |   17 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.Omit.R                |   16 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.TimeSeriesClass.R     |   73 --
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.TimeSeriesCoercion.R  |   60 -
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.TimeSeriesData.R      |   39 -
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.TimeSeriesPositions.R |   23 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.aggregate.R           |    9 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.align.R               |   10 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.apply.R               |   10 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.as.R                  |    9 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.attach.R              |   23 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.bind.R                |   12 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.colCum.R              |   33 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.colStats.R            |   10 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.cor.R                 |   10 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.cumulated.R           |    9 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.daily.R               |    9 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.dim.R                 |    9 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.drawdowns.R           |    9 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.durations.R           |   12 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.lag.R                 |    9 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.mathOps.R             |    9 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.merge.R               |   25 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.methods-plot.R        |    9 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.methods-print.R       |    9 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.methods-summary.R     |    9 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.model.frame.R         |    9 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.monthly.R             |    9 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.na.contiguous.R       |only
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.order.R               |    9 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.periodical.R          |    9 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.rank.R                |    9 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.returns.R             |    9 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.rowCum.R              |    9 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.signalCounts.R        |   24 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.spreads.R             |    9 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.subset.R              |    9 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.time.R                |    9 
 timeSeries-2100.84/timeSeries/inst/unitTests/runit.timeSeries.R          |   14 
 timeSeries-2100.84/timeSeries/man/base-apply.Rd                          |only
 timeSeries-2100.84/timeSeries/man/base-attach.Rd                         |only
 timeSeries-2100.84/timeSeries/man/base-cbind.Rd                          |only
 timeSeries-2100.84/timeSeries/man/base-colCumsums.Rd                     |only
 timeSeries-2100.84/timeSeries/man/base-colSums.Rd                        |only
 timeSeries-2100.84/timeSeries/man/base-dim.Rd                            |only
 timeSeries-2100.84/timeSeries/man/base-rank.Rd                           |only
 timeSeries-2100.84/timeSeries/man/base-rowCumsums.Rd                     |only
 timeSeries-2100.84/timeSeries/man/base-subset.Rd                         |only
 timeSeries-2100.84/timeSeries/man/base-t.Rd                              |only
 timeSeries-2100.84/timeSeries/man/data.Rd                                |   34 
 timeSeries-2100.84/timeSeries/man/fin-align.Rd                           |only
 timeSeries-2100.84/timeSeries/man/fin-cumulated.Rd                       |only
 timeSeries-2100.84/timeSeries/man/fin-daily.Rd                           |only
 timeSeries-2100.84/timeSeries/man/fin-drawdowns.Rd                       |only
 timeSeries-2100.84/timeSeries/man/fin-durations.Rd                       |only
 timeSeries-2100.84/timeSeries/man/fin-monthly.Rd                         |only
 timeSeries-2100.84/timeSeries/man/fin-orderColnames.Rd                   |only
 timeSeries-2100.84/timeSeries/man/fin-orderStatistics.Rd                 |only
 timeSeries-2100.84/timeSeries/man/fin-returns.Rd                         |only
 timeSeries-2100.84/timeSeries/man/fin-spreads.Rd                         |only
 timeSeries-2100.84/timeSeries/man/graphics-plot.Rd                       |only
 timeSeries-2100.84/timeSeries/man/methods-as.Rd                          |   44 -
 timeSeries-2100.84/timeSeries/man/methods-base.Rd                        |   26 
 timeSeries-2100.84/timeSeries/man/methods-comment.Rd                     |   16 
 timeSeries-2100.84/timeSeries/man/methods-is.Rd                          |only
 timeSeries-2100.84/timeSeries/man/methods-mathOps.Rd                     |    7 
 timeSeries-2100.84/timeSeries/man/methods-show.Rd                        |   11 
 timeSeries-2100.84/timeSeries/man/methods-stats.Rd                       |   14 
 timeSeries-2100.84/timeSeries/man/stats-aggregate.Rd                     |only
 timeSeries-2100.84/timeSeries/man/stats-filter.Rd                        |only
 timeSeries-2100.84/timeSeries/man/stats-lag.Rd                           |only
 timeSeries-2100.84/timeSeries/man/stats-model.frame.Rd                   |only
 timeSeries-2100.84/timeSeries/man/stats-na.contiguous.Rd                 |only
 timeSeries-2100.84/timeSeries/man/stats-na.omit.Rd                       |only
 timeSeries-2100.84/timeSeries/man/timeSeries-description.Rd              |only
 timeSeries-2100.84/timeSeries/man/timeSeries-finCenter.Rd                |only
 timeSeries-2100.84/timeSeries/man/timeSeries-getDataPart.Rd              |only
 timeSeries-2100.84/timeSeries/man/timeSeries-isRegular.Rd                |only
 timeSeries-2100.84/timeSeries/man/timeSeries-isUnivariate.Rd             |only
 timeSeries-2100.84/timeSeries/man/timeSeries-series.Rd                   |only
 timeSeries-2100.84/timeSeries/man/timeSeries-time.Rd                     |only
 timeSeries-2100.84/timeSeries/man/timeSeries.Rd                          |   33 
 timeSeries-2100.84/timeSeries/man/utils-str.Rd                           |only
 229 files changed, 1142 insertions(+), 1213 deletions(-)

More information about timeSeries at CRAN
Permanent link

Package timeDate updated to version 2100.86 with previous version 290.85 dated 2009-04-16

Author: Diethelm Wuertz and Yohan Chalabi with contributions from Martin Maechler, Joe W. Byers, and others
Title: Rmetrics - Chronological and Calendarical Objects
Description: Environment for teaching "Financial Engineering and Computational Finance"

Diff between timeDate versions 290.85 dated 2009-04-16 and 2100.86 dated 2009-09-28

 timeDate-2100.86/timeDate/ChangeLog                          |  270 +++++++----
 timeDate-2100.86/timeDate/DESCRIPTION                        |   13 
 timeDate-2100.86/timeDate/NAMESPACE                          |   42 -
 timeDate-2100.86/timeDate/R/AllClass.R                       |only
 timeDate-2100.86/timeDate/R/AllGeneric.R                     |   17 
 timeDate-2100.86/timeDate/R/base-c.R                         |only
 timeDate-2100.86/timeDate/R/base-diff.R                      |only
 timeDate-2100.86/timeDate/R/base-difftimeDate.R              |only
 timeDate-2100.86/timeDate/R/base-format.R                    |only
 timeDate-2100.86/timeDate/R/base-length.R                    |only
 timeDate-2100.86/timeDate/R/base-rep.R                       |only
 timeDate-2100.86/timeDate/R/base-rev.R                       |only
 timeDate-2100.86/timeDate/R/base-round.R                     |only
 timeDate-2100.86/timeDate/R/base-sample.R                    |only
 timeDate-2100.86/timeDate/R/base-sort.R                      |only
 timeDate-2100.86/timeDate/R/base-subset.R                    |only
 timeDate-2100.86/timeDate/R/base-summary.R                   |only
 timeDate-2100.86/timeDate/R/base-unique.R                    |only
 timeDate-2100.86/timeDate/R/base-weekdays.R                  |only
 timeDate-2100.86/timeDate/R/calendar-Easter.R                |only
 timeDate-2100.86/timeDate/R/calendar-align.R                 |only
 timeDate-2100.86/timeDate/R/calendar-atoms.R                 |only
 timeDate-2100.86/timeDate/R/calendar-dayOfWeek.R             |only
 timeDate-2100.86/timeDate/R/calendar-dayOfYear.R             |only
 timeDate-2100.86/timeDate/R/calendar-endpoints.R             |only
 timeDate-2100.86/timeDate/R/calendar-firstDay.R              |only
 timeDate-2100.86/timeDate/R/calendar-isBizday.R              |only
 timeDate-2100.86/timeDate/R/calendar-isDaily.R               |only
 timeDate-2100.86/timeDate/R/calendar-isMonthly.R             |only
 timeDate-2100.86/timeDate/R/calendar-isQuarterly.R           |only
 timeDate-2100.86/timeDate/R/calendar-isRegular.R             |only
 timeDate-2100.86/timeDate/R/calendar-isWeekday.R             |only
 timeDate-2100.86/timeDate/R/calendar-julian.R                |only
 timeDate-2100.86/timeDate/R/calendar-months.R                |only
 timeDate-2100.86/timeDate/R/calendar-nDay.R                  |only
 timeDate-2100.86/timeDate/R/calendar-onOrAfter.R             |only
 timeDate-2100.86/timeDate/R/calendar-periods.R               |only
 timeDate-2100.86/timeDate/R/graphics-plot.R                  |only
 timeDate-2100.86/timeDate/R/holiday-Dates.R                  |only
 timeDate-2100.86/timeDate/R/holiday-Listing.R                |only
 timeDate-2100.86/timeDate/R/holiday-NERC.R                   |only
 timeDate-2100.86/timeDate/R/holiday-NYSE.R                   |only
 timeDate-2100.86/timeDate/R/holiday-TSX.R                    |only
 timeDate-2100.86/timeDate/R/holiday-ZURICH.R                 |only
 timeDate-2100.86/timeDate/R/holiday.R                        |   12 
 timeDate-2100.86/timeDate/R/methods-as.R                     |  105 ++--
 timeDate-2100.86/timeDate/R/methods-mathOps.R                |only
 timeDate-2100.86/timeDate/R/methods-show.R                   |   20 
 timeDate-2100.86/timeDate/R/options-RmetricsOptions.R        |only
 timeDate-2100.86/timeDate/R/options-currentYear.R            |only
 timeDate-2100.86/timeDate/R/options-myFinCenter.R            |only
 timeDate-2100.86/timeDate/R/options-myUnits.R                |only
 timeDate-2100.86/timeDate/R/stats-blockStart.R               |only
 timeDate-2100.86/timeDate/R/stats-frequency.R                |only
 timeDate-2100.86/timeDate/R/stats-kurtosis.R                 |only
 timeDate-2100.86/timeDate/R/stats-na.fail.R                  |only
 timeDate-2100.86/timeDate/R/stats-skewness.R                 |only
 timeDate-2100.86/timeDate/R/stats-start.R                    |only
 timeDate-2100.86/timeDate/R/stats-window.R                   |only
 timeDate-2100.86/timeDate/R/timeDate-Calendar.R              |only
 timeDate-2100.86/timeDate/R/timeDate-DaylightSavingTime.R    |only
 timeDate-2100.86/timeDate/R/timeDate-Sequence.R              |only
 timeDate-2100.86/timeDate/R/timeDate-Sys.timeDate.R          |only
 timeDate-2100.86/timeDate/R/timeDate-finCenter.R             |only
 timeDate-2100.86/timeDate/R/timeDate-generateDST.R           |only
 timeDate-2100.86/timeDate/R/timeDate-listFinCenter.R         |only
 timeDate-2100.86/timeDate/R/timeDate-midnightStandard.R      |only
 timeDate-2100.86/timeDate/R/timeDate-rulesFinCenter.R        |only
 timeDate-2100.86/timeDate/R/timeDate-whichFormat.R           |only
 timeDate-2100.86/timeDate/R/timeDate.R                       |  215 ++++++--
 timeDate-2100.86/timeDate/R/zzz.R                            |  129 +++++
 timeDate-2100.86/timeDate/man/base-c.Rd                      |only
 timeDate-2100.86/timeDate/man/base-diff.Rd                   |only
 timeDate-2100.86/timeDate/man/base-difftimeDate.Rd           |only
 timeDate-2100.86/timeDate/man/base-format.Rd                 |only
 timeDate-2100.86/timeDate/man/base-length.Rd                 |only
 timeDate-2100.86/timeDate/man/base-rep.Rd                    |only
 timeDate-2100.86/timeDate/man/base-rev.Rd                    |only
 timeDate-2100.86/timeDate/man/base-round.Rd                  |only
 timeDate-2100.86/timeDate/man/base-sample.Rd                 |only
 timeDate-2100.86/timeDate/man/base-sort.Rd                   |only
 timeDate-2100.86/timeDate/man/base-start.Rd                  |only
 timeDate-2100.86/timeDate/man/base-subset.Rd                 |only
 timeDate-2100.86/timeDate/man/base-summary.Rd                |only
 timeDate-2100.86/timeDate/man/base-unique.Rd                 |only
 timeDate-2100.86/timeDate/man/calendar-Easter.Rd             |only
 timeDate-2100.86/timeDate/man/calendar-align.Rd              |only
 timeDate-2100.86/timeDate/man/calendar-dayOfWeek.Rd          |only
 timeDate-2100.86/timeDate/man/calendar-dayOfYear.Rd          |only
 timeDate-2100.86/timeDate/man/calendar-firstDay.Rd           |only
 timeDate-2100.86/timeDate/man/calendar-isBizday.Rd           |only
 timeDate-2100.86/timeDate/man/calendar-isRegular.Rd          |only
 timeDate-2100.86/timeDate/man/calendar-isWeekday.Rd          |only
 timeDate-2100.86/timeDate/man/calendar-julian.Rd             |only
 timeDate-2100.86/timeDate/man/calendar-nDay.Rd               |only
 timeDate-2100.86/timeDate/man/calendar-onOrAfter.Rd          |only
 timeDate-2100.86/timeDate/man/calendar-periods.Rd            |only
 timeDate-2100.86/timeDate/man/class-timeDate.Rd              |   14 
 timeDate-2100.86/timeDate/man/graphics-plot.Rd               |only
 timeDate-2100.86/timeDate/man/holiday-Dates.Rd               |only
 timeDate-2100.86/timeDate/man/holiday-Listing.Rd             |only
 timeDate-2100.86/timeDate/man/holiday-NERC.Rd                |only
 timeDate-2100.86/timeDate/man/holiday-NYSE.Rd                |only
 timeDate-2100.86/timeDate/man/holiday-TSX.Rd                 |only
 timeDate-2100.86/timeDate/man/holiday-ZURICH.Rd              |only
 timeDate-2100.86/timeDate/man/methods-mathOps.Rd             |only
 timeDate-2100.86/timeDate/man/options-RmetricsOptions.Rd     |only
 timeDate-2100.86/timeDate/man/options-currentYear.Rd         |only
 timeDate-2100.86/timeDate/man/options-myFinCenter.Rd         |only
 timeDate-2100.86/timeDate/man/options-myUnits.Rd             |only
 timeDate-2100.86/timeDate/man/stats-blockStart.Rd            |only
 timeDate-2100.86/timeDate/man/stats-kurtosis.Rd              |only
 timeDate-2100.86/timeDate/man/stats-na-fail.Rd               |only
 timeDate-2100.86/timeDate/man/stats-skewness.Rd              |only
 timeDate-2100.86/timeDate/man/stats-window.Rd                |only
 timeDate-2100.86/timeDate/man/timeDate-Calendar.Rd           |only
 timeDate-2100.86/timeDate/man/timeDate-DaylightSavingTime.Rd |only
 timeDate-2100.86/timeDate/man/timeDate-Sequence.Rd           |only
 timeDate-2100.86/timeDate/man/timeDate-Sys.timeDate.Rd       |only
 timeDate-2100.86/timeDate/man/timeDate-finCenter.Rd          |only
 timeDate-2100.86/timeDate/man/timeDate-listFinCenter.Rd      |only
 timeDate-2100.86/timeDate/man/timeDate-midnightStandard.Rd   |only
 timeDate-2100.86/timeDate/man/timeDate-rulesFinCenter.Rd     |only
 timeDate-2100.86/timeDate/man/timeDate-whichFormat.Rd        |only
 timeDate-2100.86/timeDate/man/timeDate.Rd                    |   26 -
 timeDate-290.85/timeDate/R/DaylightSavingTime.R              |only
 timeDate-290.85/timeDate/R/Easter.R                          |only
 timeDate-290.85/timeDate/R/RmetricsOptions.R                 |only
 timeDate-290.85/timeDate/R/Sys.timeDate.R                    |only
 timeDate-290.85/timeDate/R/blockStart.R                      |only
 timeDate-290.85/timeDate/R/c.R                               |only
 timeDate-290.85/timeDate/R/class-timeDate.R                  |only
 timeDate-290.85/timeDate/R/currentYear.R                     |only
 timeDate-290.85/timeDate/R/dayOfWeek.R                       |only
 timeDate-290.85/timeDate/R/dayOfYear.R                       |only
 timeDate-290.85/timeDate/R/diff.R                            |only
 timeDate-290.85/timeDate/R/difftimeDate.R                    |only
 timeDate-290.85/timeDate/R/firstDay.R                        |only
 timeDate-290.85/timeDate/R/genDaylightSavingTime.R           |only
 timeDate-290.85/timeDate/R/holidayDate.R                     |only
 timeDate-290.85/timeDate/R/holidayNYSE.R                     |only
 timeDate-290.85/timeDate/R/holidayTSX.R                      |only
 timeDate-290.85/timeDate/R/holidayZURICH.R                   |only
 timeDate-290.85/timeDate/R/isBizday.R                        |only
 timeDate-290.85/timeDate/R/isWeekday.R                       |only
 timeDate-290.85/timeDate/R/julian.R                          |only
 timeDate-290.85/timeDate/R/kurtosis.R                        |only
 timeDate-290.85/timeDate/R/length.R                          |only
 timeDate-290.85/timeDate/R/listFinCenter.R                   |only
 timeDate-290.85/timeDate/R/listHolidays.R                    |only
 timeDate-290.85/timeDate/R/methods-Ops.R                     |only
 timeDate-290.85/timeDate/R/methods-align.R                   |only
 timeDate-290.85/timeDate/R/methods-atoms.R                   |only
 timeDate-290.85/timeDate/R/methods-finCenter.R               |only
 timeDate-290.85/timeDate/R/methods-format.R                  |only
 timeDate-290.85/timeDate/R/methods-julian.R                  |only
 timeDate-290.85/timeDate/R/methods-months.R                  |only
 timeDate-290.85/timeDate/R/methods-na.R                      |only
 timeDate-290.85/timeDate/R/methods-plot.R                    |only
 timeDate-290.85/timeDate/R/methods-summary.R                 |only
 timeDate-290.85/timeDate/R/midnightStandard.R                |only
 timeDate-290.85/timeDate/R/myFinCenter.R                     |only
 timeDate-290.85/timeDate/R/myUnits.R                         |only
 timeDate-290.85/timeDate/R/nDay.R                            |only
 timeDate-290.85/timeDate/R/onOrAfter.R                       |only
 timeDate-290.85/timeDate/R/periods.R                         |only
 timeDate-290.85/timeDate/R/rep.R                             |only
 timeDate-290.85/timeDate/R/rev.R                             |only
 timeDate-290.85/timeDate/R/round.R                           |only
 timeDate-290.85/timeDate/R/rulesFinCenter.R                  |only
 timeDate-290.85/timeDate/R/sample.R                          |only
 timeDate-290.85/timeDate/R/skewness.R                        |only
 timeDate-290.85/timeDate/R/sort.R                            |only
 timeDate-290.85/timeDate/R/start.R                           |only
 timeDate-290.85/timeDate/R/subset.R                          |only
 timeDate-290.85/timeDate/R/timeCalendar.R                    |only
 timeDate-290.85/timeDate/R/timeSequence.R                    |only
 timeDate-290.85/timeDate/R/unique.R                          |only
 timeDate-290.85/timeDate/R/whichFormat.R                     |only
 timeDate-290.85/timeDate/R/window.R                          |only
 timeDate-290.85/timeDate/inst/todo.txt                       |only
 timeDate-290.85/timeDate/man/DaylightSavingTime.Rd           |only
 timeDate-290.85/timeDate/man/Easter.Rd                       |only
 timeDate-290.85/timeDate/man/RmetricsOptions.Rd              |only
 timeDate-290.85/timeDate/man/Sys.timeDate.Rd                 |only
 timeDate-290.85/timeDate/man/align.Rd                        |only
 timeDate-290.85/timeDate/man/blockStart.Rd                   |only
 timeDate-290.85/timeDate/man/c.Rd                            |only
 timeDate-290.85/timeDate/man/currentYear.Rd                  |only
 timeDate-290.85/timeDate/man/dayOfWeek.Rd                    |only
 timeDate-290.85/timeDate/man/dayOfYear.Rd                    |only
 timeDate-290.85/timeDate/man/diff.Rd                         |only
 timeDate-290.85/timeDate/man/difftimeDate.Rd                 |only
 timeDate-290.85/timeDate/man/finCenter.Rd                    |only
 timeDate-290.85/timeDate/man/firstDay.Rd                     |only
 timeDate-290.85/timeDate/man/holidayDate.Rd                  |only
 timeDate-290.85/timeDate/man/holidayNYSE.Rd                  |only
 timeDate-290.85/timeDate/man/holidayTSX.Rd                   |only
 timeDate-290.85/timeDate/man/holidayZURICH.Rd                |only
 timeDate-290.85/timeDate/man/isBizday.Rd                     |only
 timeDate-290.85/timeDate/man/isWeekday.Rd                    |only
 timeDate-290.85/timeDate/man/julian.Rd                       |only
 timeDate-290.85/timeDate/man/kurtosis.Rd                     |only
 timeDate-290.85/timeDate/man/length.Rd                       |only
 timeDate-290.85/timeDate/man/listFinCenter.Rd                |only
 timeDate-290.85/timeDate/man/listHolidays.Rd                 |only
 timeDate-290.85/timeDate/man/methods-Ops.Rd                  |only
 timeDate-290.85/timeDate/man/methods-format.Rd               |only
 timeDate-290.85/timeDate/man/methods-na.Rd                   |only
 timeDate-290.85/timeDate/man/methods-plot.Rd                 |only
 timeDate-290.85/timeDate/man/methods-summary.Rd              |only
 timeDate-290.85/timeDate/man/midnightStandard.Rd             |only
 timeDate-290.85/timeDate/man/myFinCenter.Rd                  |only
 timeDate-290.85/timeDate/man/myUnits.Rd                      |only
 timeDate-290.85/timeDate/man/nDay.Rd                         |only
 timeDate-290.85/timeDate/man/onOrAfter.Rd                    |only
 timeDate-290.85/timeDate/man/periods.Rd                      |only
 timeDate-290.85/timeDate/man/rep.Rd                          |only
 timeDate-290.85/timeDate/man/rev.Rd                          |only
 timeDate-290.85/timeDate/man/round.Rd                        |only
 timeDate-290.85/timeDate/man/rulesFinCenter.Rd               |only
 timeDate-290.85/timeDate/man/sample.Rd                       |only
 timeDate-290.85/timeDate/man/skewness.Rd                     |only
 timeDate-290.85/timeDate/man/sort.Rd                         |only
 timeDate-290.85/timeDate/man/start.Rd                        |only
 timeDate-290.85/timeDate/man/subset.Rd                       |only
 timeDate-290.85/timeDate/man/timeCalendar.Rd                 |only
 timeDate-290.85/timeDate/man/timeSequence.Rd                 |only
 timeDate-290.85/timeDate/man/unique.Rd                       |only
 timeDate-290.85/timeDate/man/whichFormat.Rd                  |only
 timeDate-290.85/timeDate/man/window.Rd                       |only
 231 files changed, 590 insertions(+), 273 deletions(-)

More information about timeDate at CRAN
Permanent link

Package robust updated to version 0.3-9 with previous version 0.3-4 dated 2008-09-10

Author: Jiahui Wang, Ruben Zamar , Alfio Marazzi , Victor Yohai , Matias Salibian-Barrera , Ricardo Maronna , Eric Zivot , David Rocke , Doug Martin , Martin Maechler , Kjell Konis .
Title: Insightful Robust Library
Description: A package of robust methods.

Diff between robust versions 0.3-4 dated 2008-09-10 and 0.3-9 dated 2009-09-28

 robust-0.3-4/robust/R/donostah.q                     |only
 robust-0.3-4/robust/R/fastcov.q                      |only
 robust-0.3-4/robust/datasets/lawson.dat.txt          |only
 robust-0.3-4/robust/datasets/wagner.dat.txt          |only
 robust-0.3-4/robust/man/cov.Rd                       |only
 robust-0.3-4/robust/man/donostah.Rd                  |only
 robust-0.3-4/robust/man/fastcov.Rd                   |only
 robust-0.3-4/robust/meta                             |only
 robust-0.3-4/robust/src/ds11.f                       |only
 robust-0.3-4/robust/src/fastcov.c                    |only
 robust-0.3-9/robust/DESCRIPTION                      |   28 
 robust-0.3-9/robust/R/cov.q                          |  104 -
 robust-0.3-9/robust/R/covRob.control.q               |    5 
 robust-0.3-9/robust/R/covRob.q                       |   30 
 robust-0.3-9/robust/R/get.fit.models.database.q      |   59 
 robust-0.3-9/robust/R/glmRob.cubif.control.q         |    8 
 robust-0.3-9/robust/R/glmRob.q                       |   69 
 robust-0.3-9/robust/R/lmRob.eff0.q                   |   31 
 robust-0.3-9/robust/R/lmRob.effvy.q                  |   59 
 robust-0.3-9/robust/R/lmRob.fit.compute.q            | 1423 +++++++++----------
 robust-0.3-9/robust/R/lmRob.fit.q                    |   24 
 robust-0.3-9/robust/R/lmRob.lar.q                    |   13 
 robust-0.3-9/robust/R/lmRob.q                        |   62 
 robust-0.3-9/robust/R/lmRob.ucovcoef.q               |    8 
 robust-0.3-9/robust/R/lmRob.wfit.q                   |   46 
 robust-0.3-9/robust/R/plot.glmfm.q                   |  393 ++---
 robust-0.3-9/robust/R/print.summary.glmfm.q          |   68 
 robust-0.3-9/robust/R/update.lmRob.q                 |   23 
 robust-0.3-9/robust/R/weight.funs.q                  |   88 -
 robust-0.3-9/robust/datasets/README                  |only
 robust-0.3-9/robust/inst/datasets                    |only
 robust-0.3-9/robust/inst/tests_S                     |only
 robust-0.3-9/robust/man/ccov.Rd                      |only
 robust-0.3-9/robust/man/covRob.Rd                    |   14 
 robust-0.3-9/robust/man/covRob.control.Rd            |    2 
 robust-0.3-9/robust/man/covfmDistance2Plot.Rd        |   13 
 robust-0.3-9/robust/man/covfmEllipsesPlot.Rd         |    8 
 robust-0.3-9/robust/man/covfmScreePlot.Rd            |    8 
 robust-0.3-9/robust/man/covfmSqrtMDPlot.Rd           |   20 
 robust-0.3-9/robust/man/fit.models.Rd                |   10 
 robust-0.3-9/robust/man/glmRob.Rd                    |   10 
 robust-0.3-9/robust/man/glmRob.cubif.Rd              |   27 
 robust-0.3-9/robust/man/glmRob.cubif.null.Rd         |   12 
 robust-0.3-9/robust/man/key.Rd                       |    4 
 robust-0.3-9/robust/man/lmRob.Rd                     |   58 
 robust-0.3-9/robust/man/plot.covfm.Rd                |   18 
 robust-0.3-9/robust/man/plot.glmRob.Rd               |    2 
 robust-0.3-9/robust/man/plot.glmfm.Rd                |   46 
 robust-0.3-9/robust/man/plot.lmRob.Rd                |    2 
 robust-0.3-9/robust/man/plot.lmfm.Rd                 |    2 
 robust-0.3-9/robust/man/print.covfm.Rd               |   10 
 robust-0.3-9/robust/man/print.summary.covfm.Rd       |   24 
 robust-0.3-9/robust/man/step.lmRob.Rd                |   15 
 robust-0.3-9/robust/man/summary.covfm.Rd             |    7 
 robust-0.3-9/robust/man/update.lmRob.Rd              |   18 
 robust-0.3-9/robust/man/weight.funs.Rd               |   51 
 robust-0.3-9/robust/man/woodmod.dat.Rd               |   10 
 robust-0.3-9/robust/man/wt.carroll.Rd                |    5 
 robust-0.3-9/robust/robust.xcodeproj/project.pbxproj |   83 -
 robust-0.3-9/robust/src/lmrobbi.f                    |  453 +++---
 robust-0.3-9/robust/src/lmrobml.f                    |   32 
 robust-0.3-9/robust/src/lmrobmm.f                    |  403 ++---
 robust-0.3-9/robust/src/rb.c                         |   20 
 robust-0.3-9/robust/tests                            |only
 64 files changed, 2091 insertions(+), 1837 deletions(-)

More information about robust at CRAN
Permanent link

Package lpSolveAPI updated to version 5.5.0.15 with previous version 5.5.0.14 dated 2009-02-12

Author: lp_solve , Kjell Konis .
Title: Interface to lp_solve 5.5.0.15
Description: The lpSolveAPI package provides an R interface to the lp_solve library API - lp_solve is a Mixed Integer Linear Programming (MILP) solver with support for pure linear, (mixed) integer/binary, semi-continuous and special ordered sets (SOS) models.

Diff between lpSolveAPI versions 5.5.0.14 dated 2009-02-12 and 5.5.0.15 dated 2009-09-28

 DESCRIPTION                          |   26 +-
 inst/doc/lpSolveAPI.pdf              |   10 
 inst/include/commonlib.h             |    4 
 inst/include/lp_bit.h                |only
 inst/include/lp_lib.h                |   35 +--
 inst/include/lp_utils.h              |   18 -
 inst/include/myblas.h                |   34 +--
 lpSolveAPI.xcodeproj/project.pbxproj |    2 
 src/lp_MPS.c                         |  132 ++++++------
 src/lp_crash.c                       |  136 ++++++++++++
 src/lp_lib.c                         |  235 ++++++++++++++-------
 src/lp_matrix.c                      |  384 ++++++++++++++++++++++++++++-------
 src/lp_mipbb.c                       |   32 +-
 src/lp_params.c                      |   14 -
 src/lp_presolve.c                    |   28 +-
 src/lp_price.c                       |    4 
 src/lp_report.c                      |    5 
 src/lp_scale.c                       |   12 -
 src/lp_simplex.c                     |    4 
 src/lp_utils.c                       |   15 -
 src/lp_wlp.c                         |  134 +++++-------
 src/mmio.c                           |  107 ++++-----
 src/myblas.c                         |  174 ++++++++-------
 src/yacc_read.c                      |  223 ++++++++++----------
 24 files changed, 1106 insertions(+), 662 deletions(-)

More information about lpSolveAPI at CRAN
Permanent link

Package locpol updated to version 0.4-0 with previous version 0.2-0 dated 2007-12-18

Author: Jorge Luis Ojeda Cabrera,
Title: Kernel local polynomial regression
Description: Computes local polynomial estimators.

Diff between locpol versions 0.2-0 dated 2007-12-18 and 0.4-0 dated 2009-09-28

 DESCRIPTION            |   12 +
 INDEX                  |only
 R/locpol.R             |  296 ++++++++++++++++++++++++++++++++++++-------------
 README                 |   37 ++++--
 man/KernelChars.Rd     |   13 --
 man/PRDenEstC.Rd       |    2 
 man/bivLocPol.Rd       |only
 man/compKernVals.Rd    |    4 
 man/denCVBwSelC.Rd     |    3 
 man/equivKernel.Rd     |    4 
 man/locPolWeights.Rd   |    9 -
 man/locpol.Rd          |   43 +++----
 man/locpolSmoothers.Rd |   34 +++--
 man/pluginBw.Rd        |    2 
 man/regCVBwSelC.Rd     |    2 
 man/simpleSmoothers.Rd |    2 
 16 files changed, 317 insertions(+), 146 deletions(-)

More information about locpol at CRAN
Permanent link

New package flsa with initial version 1.02
Package: flsa
Type: Package
Title: Path algorithm for the general Fused Lasso Signal Approximator
Version: 1.02
Date: 2009-09-26
Author: Holger Hoefling
Maintainer: Holger Hoefling
Description: This package implements a path algorithm for the Fused Lasso Signal Approximator. For more details see the help files
License: GPL-2
Depends: R (>= 2.0.0)
Packaged: Mon Sep 28 00:54:25 2009; hhoeflin
Repository: CRAN
Date/Publication: 2009-09-28 10:35:20

More information about flsa at CRAN
Permanent link

New package intamap with initial version 1.2-18
Package: intamap
Version: 1.2-18
Date: 2009-09-28
Title: procedures for automated interpolation
Author: Edzer Pebesma , Jon Skoien and others
Maintainer: Edzer J. Pebesma
Depends: R (>= 2.5.0), sp (>= 0.9-0), gstat (>= 0.9-36), rgdal (>= 0.5.2), akima, automap, mvtnorm, MASS, evd, lattice
Enhances: psgp
Description: A package that provides classes and methods for automated spatial interpolation.
License: GPL (>= 2)
URL: http://www.intamap.org/
Packaged: 2009-09-28 11:58:53 UTC; skoien
Repository: CRAN
Date/Publication: 2009-09-28 13:36:44

More information about intamap at CRAN
Permanent link

Package fPortfolio updated to version 2100.78 with previous version 2100.77 dated 2009-04-20

Author: Rmetrics Core Team, Diethelm Wuertz
Title: Rmetrics - Portfolio Selection and Optimization
Description: Environment for teaching "Financial Engineering and Computational Finance"

Diff between fPortfolio versions 2100.77 dated 2009-04-20 and 2100.78 dated 2009-09-28

 fPortfolio-2100.77/fPortfolio/R/solveRsymphony.R                   |only
 fPortfolio-2100.77/fPortfolio/man/solveRsymphony.Rd                |only
 fPortfolio-2100.78/fPortfolio/CITATION                             |only
 fPortfolio-2100.78/fPortfolio/ChangeLog                            |  257 +------
 fPortfolio-2100.78/fPortfolio/DESCRIPTION                          |   19 
 fPortfolio-2100.78/fPortfolio/NAMESPACE                            |   89 --
 fPortfolio-2100.78/fPortfolio/R/covEstimator.R                     |  329 +++++++++-
 fPortfolio-2100.78/fPortfolio/R/efficientPortfolio.R               |    2 
 fPortfolio-2100.78/fPortfolio/R/frontierPlot.R                     |  130 ++-
 fPortfolio-2100.78/fPortfolio/R/solveRglpk.R                       |   57 -
 fPortfolio-2100.78/fPortfolio/R/solveRquadprog.R                   |    5 
 fPortfolio-2100.78/fPortfolio/R/solveRshortExact.R                 |    1 
 fPortfolio-2100.78/fPortfolio/R/zzz.R                              |    8 
 fPortfolio-2100.78/fPortfolio/inst/PortfolioOptimizationSample.pdf |only
 fPortfolio-2100.78/fPortfolio/man/frontierPlot.Rd                  |    6 
 fPortfolio-2100.78/fPortfolio/man/getPortfolio.Rd                  |   13 
 fPortfolio-2100.78/fPortfolio/man/getSpec.Rd                       |    3 
 fPortfolio-2100.78/fPortfolio/man/getVal.Rd                        |only
 18 files changed, 544 insertions(+), 375 deletions(-)

More information about fPortfolio at CRAN
Permanent link

Package fGarch updated to version 2100.79 with previous version 2100.78 dated 2009-04-20

Author: Diethelm Wuertz and Yohan Chalabi with contribution from Michal Miklovic, Chris Boudt, Pierre Chausse and others
Title: Rmetrics - Autoregressive Conditional Heteroskedastic Modelling
Description: Environment for teaching "Financial Engineering and Computational Finance"

Diff between fGarch versions 2100.78 dated 2009-04-20 and 2100.79 dated 2009-09-28

 fGarch-2100.78/fGarch/R/garchFit.R                           |only
 fGarch-2100.78/fGarch/R/garchFitControl.R                    |only
 fGarch-2100.78/fGarch/R/garchGradient.R                      |only
 fGarch-2100.78/fGarch/R/garchHessian.R                       |only
 fGarch-2100.78/fGarch/R/garchSim.R                           |only
 fGarch-2100.78/fGarch/R/garchSolver.R                        |only
 fGarch-2100.78/fGarch/R/garchSpec.R                          |only
 fGarch-2100.78/fGarch/R/garchStats.R                         |only
 fGarch-2100.78/fGarch/R/sged.R                               |only
 fGarch-2100.78/fGarch/R/snorm.R                              |only
 fGarch-2100.78/fGarch/R/sstd.R                               |only
 fGarch-2100.79/fGarch/ChangeLog                              |   95 ++++-
 fGarch-2100.79/fGarch/DESCRIPTION                            |   17 -
 fGarch-2100.79/fGarch/NAMESPACE                              |  101 +-----
 fGarch-2100.79/fGarch/R/dist-sged.R                          |only
 fGarch-2100.79/fGarch/R/dist-snig.R                          |only
 fGarch-2100.79/fGarch/R/dist-snorm.R                         |only
 fGarch-2100.79/fGarch/R/dist-sstd.R                          |only
 fGarch-2100.79/fGarch/R/fGarchEnv.R                          |   17 -
 fGarch-2100.79/fGarch/R/garch-Distribution.R                 |only
 fGarch-2100.79/fGarch/R/garch-FitFromFormula.R               |only
 fGarch-2100.79/fGarch/R/garch-FitFromSpec.R                  |only
 fGarch-2100.79/fGarch/R/garch-FitInternal.R                  |only
 fGarch-2100.79/fGarch/R/garch-GlobalVars.R                   |only
 fGarch-2100.79/fGarch/R/garch-Gradient.R                     |only
 fGarch-2100.79/fGarch/R/garch-Hessian.R                      |only
 fGarch-2100.79/fGarch/R/garch-Initialization.R               |only
 fGarch-2100.79/fGarch/R/garch-Sim.R                          |only
 fGarch-2100.79/fGarch/R/garch-Solver.R                       |only
 fGarch-2100.79/fGarch/R/garch-SolverControl.R                |only
 fGarch-2100.79/fGarch/R/garch-Spec.R                         |only
 fGarch-2100.79/fGarch/R/garch-Stats.R                        |only
 fGarch-2100.79/fGarch/R/loglik-aparch.R                      |only
 fGarch-2100.79/fGarch/R/loglik-egarch.R                      |only
 fGarch-2100.79/fGarch/R/loglik.R                             |only
 fGarch-2100.79/fGarch/R/methods-plot.R                       |   84 ++---
 fGarch-2100.79/fGarch/R/methods-predict.R                    |  183 +++++++++--
 fGarch-2100.79/fGarch/R/methods-show.R                       |   81 +++-
 fGarch-2100.79/fGarch/R/methods-summary.R                    |    4 
 fGarch-2100.79/fGarch/R/mgarch-FitFromFormula.R              |only
 fGarch-2100.79/fGarch/inst/unitTests/runit.formula-methods.R |    2 
 fGarch-2100.79/fGarch/man/class-fGARCH.Rd                    |    2 
 fGarch-2100.79/fGarch/man/garchFit.Rd                        |   18 -
 fGarch-2100.79/fGarch/man/garchSim.Rd                        |    2 
 fGarch-2100.79/fGarch/man/methods-predict.Rd                 |   79 +++-
 45 files changed, 454 insertions(+), 231 deletions(-)

More information about fGarch at CRAN
Permanent link

Package fCopulae updated to version 2100.77 with previous version 2100.76 dated 2009-04-20

Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Rmetrics - Dependence Structures with Copulas
Description: Environment for teaching "Financial Engineering and Computational Finance"

Diff between fCopulae versions 2100.76 dated 2009-04-20 and 2100.77 dated 2009-09-28

 ChangeLog            |   27 +++------------------------
 DESCRIPTION          |   12 ++++++------
 NAMESPACE            |    5 +++++
 R/mv-distributions.R |    2 +-
 4 files changed, 15 insertions(+), 31 deletions(-)

More information about fCopulae at CRAN
Permanent link

Package fBasics updated to version 2100.78 with previous version 2100.77 dated 2009-04-20

Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Rmetrics - Markets and Basic Statistics
Description: Environment for teaching "Financial Engineering and Computational Finance"

Diff between fBasics versions 2100.77 dated 2009-04-20 and 2100.78 dated 2009-09-28

 fBasics-2100.77/fBasics/R/Heaviside.R                             |only
 fBasics-2100.77/fBasics/R/HeavisideSlider.R                       |only
 fBasics-2100.77/fBasics/R/NormalityTests.R                        |only
 fBasics-2100.77/fBasics/R/Sys.putenv.R                            |only
 fBasics-2100.77/fBasics/R/acfPlot.R                               |only
 fBasics-2100.77/fBasics/R/akimaInterp.R                           |only
 fBasics-2100.77/fBasics/R/as.matrix.ts.R                          |only
 fBasics-2100.77/fBasics/R/baseMethods.R                           |only
 fBasics-2100.77/fBasics/R/basicStats.R                            |only
 fBasics-2100.77/fBasics/R/boxPlot.R                               |only
 fBasics-2100.77/fBasics/R/characterTable.R                        |only
 fBasics-2100.77/fBasics/R/colIds.R                                |only
 fBasics-2100.77/fBasics/R/colVec.R                                |only
 fBasics-2100.77/fBasics/R/colorLocator.R                          |only
 fBasics-2100.77/fBasics/R/colorPalette.R                          |only
 fBasics-2100.77/fBasics/R/colorTable.R                            |only
 fBasics-2100.77/fBasics/R/correlationTest.R                       |only
 fBasics-2100.77/fBasics/R/decor.R                                 |only
 fBasics-2100.77/fBasics/R/dist-ghSlider.R                         |only
 fBasics-2100.77/fBasics/R/dist-hypSlider.R                        |only
 fBasics-2100.77/fBasics/R/dist-nigShapeTriangle.R                 |only
 fBasics-2100.77/fBasics/R/dist-nigSlider.R                        |only
 fBasics-2100.77/fBasics/R/dist-stableSlider.R                     |only
 fBasics-2100.77/fBasics/R/distCheck.R                             |only
 fBasics-2100.77/fBasics/R/fDISTFIT.R                              |only
 fBasics-2100.77/fBasics/R/fHTEST.R                                |only
 fBasics-2100.77/fBasics/R/getS4.R                                 |only
 fBasics-2100.77/fBasics/R/gridVector.R                            |only
 fBasics-2100.77/fBasics/R/hilbert.R                               |only
 fBasics-2100.77/fBasics/R/histPlot.R                              |only
 fBasics-2100.77/fBasics/R/interactivePlot.R                       |only
 fBasics-2100.77/fBasics/R/inv.R                                   |only
 fBasics-2100.77/fBasics/R/jbALM.R                                 |only
 fBasics-2100.77/fBasics/R/jbLM.R                                  |only
 fBasics-2100.77/fBasics/R/jbTable.R                               |only
 fBasics-2100.77/fBasics/R/krigeInterp.R                           |only
 fBasics-2100.77/fBasics/R/kron.R                                  |only
 fBasics-2100.77/fBasics/R/ks2Test.R                               |only
 fBasics-2100.77/fBasics/R/lcg.R                                   |only
 fBasics-2100.77/fBasics/R/linearInterp.R                          |only
 fBasics-2100.77/fBasics/R/listDescription.R                       |only
 fBasics-2100.77/fBasics/R/listFunctions.R                         |only
 fBasics-2100.77/fBasics/R/listIndex.R                             |only
 fBasics-2100.77/fBasics/R/locationTest.R                          |only
 fBasics-2100.77/fBasics/R/matrixNorm.R                            |only
 fBasics-2100.77/fBasics/R/maxdd.R                                 |only
 fBasics-2100.77/fBasics/R/normalTest.R                            |only
 fBasics-2100.77/fBasics/R/pascal.R                                |only
 fBasics-2100.77/fBasics/R/pdl.R                                   |only
 fBasics-2100.77/fBasics/R/positiveDefinite.R                      |only
 fBasics-2100.77/fBasics/R/qqPlot.R                                |only
 fBasics-2100.77/fBasics/R/returnSeriesGUI.R                       |only
 fBasics-2100.77/fBasics/R/rgb.R                                   |only
 fBasics-2100.77/fBasics/R/rk.R                                    |only
 fBasics-2100.77/fBasics/R/rowStats.R                              |only
 fBasics-2100.77/fBasics/R/scaleTest.R                             |only
 fBasics-2100.77/fBasics/R/scalinglawPlot.R                        |only
 fBasics-2100.77/fBasics/R/seriesPlot.R                            |only
 fBasics-2100.77/fBasics/R/sliderMenu.R                            |only
 fBasics-2100.77/fBasics/R/stylizedFactsGUI.R                      |only
 fBasics-2100.77/fBasics/R/subPlot.R                               |only
 fBasics-2100.77/fBasics/R/subStars.R                              |only
 fBasics-2100.77/fBasics/R/symbolTable.R                           |only
 fBasics-2100.77/fBasics/R/tr.R                                    |only
 fBasics-2100.77/fBasics/R/triang.R                                |only
 fBasics-2100.77/fBasics/R/tslag.R                                 |only
 fBasics-2100.77/fBasics/R/unitTest.R                              |only
 fBasics-2100.77/fBasics/R/unitrootNA.R                            |only
 fBasics-2100.77/fBasics/R/varianceTest.R                          |only
 fBasics-2100.77/fBasics/R/vec.R                                   |only
 fBasics-2100.78/fBasics/ChangeLog                                 |   65 +-
 fBasics-2100.78/fBasics/DESCRIPTION                               |   12 
 fBasics-2100.78/fBasics/NAMESPACE                                 |  157 +-----
 fBasics-2100.78/fBasics/R/builtin-gelGMM.R                        |only
 fBasics-2100.78/fBasics/R/builtin-gmmGMM.R                        |only
 fBasics-2100.78/fBasics/R/builtin-sandwichGMM.R                   |only
 fBasics-2100.78/fBasics/R/color-Locator.R                         |only
 fBasics-2100.78/fBasics/R/color-Palettes.R                        |only
 fBasics-2100.78/fBasics/R/color-RGB.R                             |only
 fBasics-2100.78/fBasics/R/color-Table.R                           |only
 fBasics-2100.78/fBasics/R/dist-distCheck.R                        |only
 fBasics-2100.78/fBasics/R/dist-fDISTFIT.R                         |only
 fBasics-2100.78/fBasics/R/dist-ghMoments.R                        |only
 fBasics-2100.78/fBasics/R/dist-ghtMode.R                          |only
 fBasics-2100.78/fBasics/R/dist-nig.R                              |  156 +++---
 fBasics-2100.78/fBasics/R/dist-nigFit.R                           |  243 +++++++++-
 fBasics-2100.78/fBasics/R/dist-nigMode.R                          |only
 fBasics-2100.78/fBasics/R/dist-nigStats.R                         |only
 fBasics-2100.78/fBasics/R/dist-sgh.R                              |   20 
 fBasics-2100.78/fBasics/R/dist-snig.R                             |   48 +
 fBasics-2100.78/fBasics/R/dist-stable.R                           |   88 ---
 fBasics-2100.78/fBasics/R/dist-stableFit.R                        |   99 ++--
 fBasics-2100.78/fBasics/R/dist-stableMode.R                       |only
 fBasics-2100.78/fBasics/R/gui-HeavisideSlider.R                   |only
 fBasics-2100.78/fBasics/R/gui-ghSlider.R                          |only
 fBasics-2100.78/fBasics/R/gui-hypSlider.R                         |only
 fBasics-2100.78/fBasics/R/gui-nigSlider.R                         |only
 fBasics-2100.78/fBasics/R/gui-returnSeries.R                      |only
 fBasics-2100.78/fBasics/R/gui-sliderMenu.R                        |only
 fBasics-2100.78/fBasics/R/gui-stableSlider.R                      |only
 fBasics-2100.78/fBasics/R/gui-stylizedFacts.R                     |only
 fBasics-2100.78/fBasics/R/interp-akimaInterp.R                    |only
 fBasics-2100.78/fBasics/R/interp-krigeInterp.R                    |only
 fBasics-2100.78/fBasics/R/interp-linearInterp.R                   |only
 fBasics-2100.78/fBasics/R/lines-recessionLines.R                  |only
 fBasics-2100.78/fBasics/R/list-listDescription.R                  |only
 fBasics-2100.78/fBasics/R/list-listFunctions.R                    |only
 fBasics-2100.78/fBasics/R/list-listIndex.R                        |only
 fBasics-2100.78/fBasics/R/matrix-colVec.R                         |only
 fBasics-2100.78/fBasics/R/matrix-gridVector.R                     |only
 fBasics-2100.78/fBasics/R/matrix-hilbert.R                        |only
 fBasics-2100.78/fBasics/R/matrix-inv.R                            |only
 fBasics-2100.78/fBasics/R/matrix-kron.R                           |only
 fBasics-2100.78/fBasics/R/matrix-norm.R                           |only
 fBasics-2100.78/fBasics/R/matrix-pascal.R                         |only
 fBasics-2100.78/fBasics/R/matrix-pdl.R                            |only
 fBasics-2100.78/fBasics/R/matrix-posDefinite.R                    |only
 fBasics-2100.78/fBasics/R/matrix-rk.R                             |only
 fBasics-2100.78/fBasics/R/matrix-tr.R                             |only
 fBasics-2100.78/fBasics/R/matrix-triang.R                         |only
 fBasics-2100.78/fBasics/R/matrix-tslag.R                          |only
 fBasics-2100.78/fBasics/R/matrix-vech.R                           |only
 fBasics-2100.78/fBasics/R/plot-acfPlot.R                          |only
 fBasics-2100.78/fBasics/R/plot-boxPlot.R                          |only
 fBasics-2100.78/fBasics/R/plot-counts.R                           |only
 fBasics-2100.78/fBasics/R/plot-histPlot.R                         |only
 fBasics-2100.78/fBasics/R/plot-interactivePlot.R                  |only
 fBasics-2100.78/fBasics/R/plot-qqPlot.R                           |only
 fBasics-2100.78/fBasics/R/plot-scalinglawPlot.R                   |only
 fBasics-2100.78/fBasics/R/plot-seriesPlot.R                       |only
 fBasics-2100.78/fBasics/R/plot-subPlot.R                          |only
 fBasics-2100.78/fBasics/R/plot-subStars.R                         |only
 fBasics-2100.78/fBasics/R/plot-varpie.R                           |only
 fBasics-2100.78/fBasics/R/rand-lcg.R                              |only
 fBasics-2100.78/fBasics/R/stats-basicStats.R                      |only
 fBasics-2100.78/fBasics/R/stats-maxdd.R                           |only
 fBasics-2100.78/fBasics/R/stats-rowStats.R                        |only
 fBasics-2100.78/fBasics/R/test-NormalityTests.R                   |only
 fBasics-2100.78/fBasics/R/test-correlationTest.R                  |only
 fBasics-2100.78/fBasics/R/test-fHTEST.R                           |only
 fBasics-2100.78/fBasics/R/test-jbALM.R                            |only
 fBasics-2100.78/fBasics/R/test-jbLM.R                             |only
 fBasics-2100.78/fBasics/R/test-jbTable.R                          |only
 fBasics-2100.78/fBasics/R/test-ks2Test.R                          |only
 fBasics-2100.78/fBasics/R/test-locationTest.R                     |only
 fBasics-2100.78/fBasics/R/test-normalTest.R                       |only
 fBasics-2100.78/fBasics/R/test-scaleTest.R                        |only
 fBasics-2100.78/fBasics/R/test-varianceTest.R                     |only
 fBasics-2100.78/fBasics/R/utils-Heaviside.R                       |only
 fBasics-2100.78/fBasics/R/utils-Sys.putenv.R                      |only
 fBasics-2100.78/fBasics/R/utils-as.matrix.ts.R                    |only
 fBasics-2100.78/fBasics/R/utils-baseMethods.R                     |only
 fBasics-2100.78/fBasics/R/utils-characterTable.R                  |only
 fBasics-2100.78/fBasics/R/utils-colIds.R                          |only
 fBasics-2100.78/fBasics/R/utils-decor.R                           |only
 fBasics-2100.78/fBasics/R/utils-getS4.R                           |only
 fBasics-2100.78/fBasics/R/utils-symbolTable.R                     |only
 fBasics-2100.78/fBasics/R/utils-unitTest.R                        |only
 fBasics-2100.78/fBasics/R/utils-unitrootNA.R                      |only
 fBasics-2100.78/fBasics/inst/unitTests/runit.NormalityTests.R     |   86 +--
 fBasics-2100.78/fBasics/inst/unitTests/runit.ReturnSeriesBasics.R |   13 
 fBasics-2100.78/fBasics/inst/unitTests/runit.StylizedFacts.R      |   16 
 fBasics-2100.78/fBasics/man/00fBasics-package.Rd                  |   21 
 fBasics-2100.78/fBasics/man/correlationTest.Rd                    |    2 
 fBasics-2100.78/fBasics/man/dist-DistributionFits.Rd              |   28 -
 fBasics-2100.78/fBasics/man/dist-nigFit.Rd                        |   10 
 fBasics-2100.78/fBasics/src/nig.c                                 |   22 
 167 files changed, 642 insertions(+), 444 deletions(-)

More information about fBasics at CRAN
Permanent link

Package fAssets updated to version 2100.78 with previous version 2100.77 dated 2009-04-20

Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Rmetrics - Assets Selection and Modelling
Description: Environment for teaching "Financial Engineering and Computational Finance"

Diff between fAssets versions 2100.77 dated 2009-04-20 and 2100.78 dated 2009-09-28

 fAssets-2100.77/fAssets/R/builtin-mst.R            |only
 fAssets-2100.77/fAssets/R/builtin-robust.R         |only
 fAssets-2100.78/fAssets/ChangeLog                  |  140 ++---
 fAssets-2100.78/fAssets/DESCRIPTION                |   12 
 fAssets-2100.78/fAssets/NAMESPACE                  |  147 +----
 fAssets-2100.78/fAssets/R/assetsFit.R              |   20 
 fAssets-2100.78/fAssets/R/assetsMeanCov.R          |  524 +++++++++++++++++----
 fAssets-2100.78/fAssets/R/assetsTest.R             |   88 +--
 fAssets-2100.78/fAssets/R/builtin-DEoptim.R        |only
 fAssets-2100.78/fAssets/R/builtin-arwMvoutlier.R   |only
 fAssets-2100.78/fAssets/R/builtin-corpcor.R        |   39 +
 fAssets-2100.78/fAssets/R/builtin-corrgram.R       |   29 -
 fAssets-2100.78/fAssets/R/builtin-covRobust.R      |   77 +--
 fAssets-2100.78/fAssets/R/builtin-donostahRobust.R |only
 fAssets-2100.78/fAssets/R/builtin-energy.R         |   34 +
 fAssets-2100.78/fAssets/R/builtin-mstApe.R         |only
 fAssets-2100.78/fAssets/R/builtin-rmtTawny.R       |only
 fAssets-2100.78/fAssets/R/builtin-shrinkTawny.R    |only
 fAssets-2100.78/fAssets/man/assetsMeanCov.Rd       |    2 
 19 files changed, 704 insertions(+), 408 deletions(-)

More information about fAssets at CRAN
Permanent link

Package epicalc updated to version 2.9.2.3 with previous version 2.9.2.2 dated 2009-09-23

Author: Virasakdi Chongsuvivatwong
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.

Diff between epicalc versions 2.9.2.2 dated 2009-09-23 and 2.9.2.3 dated 2009-09-28

 DESCRIPTION |    8 +-
 R/epicalc.R |  234 ++++++++++++++++++++++++++++++++++--------------------------
 2 files changed, 140 insertions(+), 102 deletions(-)

More information about epicalc at CRAN
Permanent link

Package benchden updated to version 1.0.2 with previous version 1.0.1 dated 2008-01-23

Author: Thoralf Mildenberger, Henrike Weinert, Sebastian Tiemeyer
Title: 28 benchmark densities from Berlinet/Devroye (1994)
Description: Full implementation of the 28 distributions introduced as benchmarks for nonparametric density estimation by Berlinet and Devroye (1994). Includes densities, cdfs, quantile functions and generators for samples as well as additional information on features of the densities. Also contains the 4 histogram densities used in Rozenholc/Mildenberger/Gather (2009).

Diff between benchden versions 1.0.1 dated 2008-01-23 and 1.0.2 dated 2009-09-28

 benchden-1.0.1/benchden/R/berdev.r     |only
 benchden-1.0.2/benchden/DESCRIPTION    |   27 +++++++++++++++++----------
 benchden-1.0.2/benchden/NAMESPACE      |    3 ++-
 benchden-1.0.2/benchden/R/berdev.R     |only
 benchden-1.0.2/benchden/R/histo.R      |only
 benchden-1.0.2/benchden/R/qberdev.R    |   11 ++++-------
 benchden-1.0.2/benchden/man/bberdev.Rd |    2 +-
 benchden-1.0.2/benchden/man/bhisto.Rd  |only
 benchden-1.0.2/benchden/man/dberdev.Rd |    2 +-
 benchden-1.0.2/benchden/man/dhisto.Rd  |only
 benchden-1.0.2/benchden/man/histo.Rd   |only
 11 files changed, 25 insertions(+), 20 deletions(-)

More information about benchden at CRAN
Permanent link

Package WINRPACK updated to version 1.0-9 with previous version 1.0-8 dated 2009-01-26

Author: Jonathan M. Lees
Title: Read in WIN format data
Description: Reads in WIN pickfile and waveform file, prepares data for RSEIS

Diff between WINRPACK versions 1.0-8 dated 2009-01-26 and 1.0-9 dated 2009-09-28

 DESCRIPTION             |   10 +++++++---
 inst/doc/WIN2R.pdf      |binary
 man/WINRPACK-package.Rd |    2 +-
 src/Makevars.win        |only
 4 files changed, 8 insertions(+), 4 deletions(-)

More information about WINRPACK at CRAN
Permanent link

Package RcmdrPlugin.DoE updated to version 0.5-3 with previous version 0.5-2 dated 2009-09-25

Author: Ulrike Groemping
Title: R Commander Plugin for (industrial) Design of Experiments
Description: WARNING: This package is currently in beta status! The package provides a platform-independent GUI for design of experiments. It is implemented as a plugin to the R-Commander, which is a more general graphical user interface for statistics in R based on tcl/tk. DoE functionality can be accessed through the menu Design that is added to the R-Commander menus.

Diff between RcmdrPlugin.DoE versions 0.5-2 dated 2009-09-25 and 0.5-3 dated 2009-09-28

 DESCRIPTION       |   10 +++++-----
 R/Menu.oa.R       |   37 +++++++++++++++++++------------------
 R/menu.defaults.R |    2 +-
 inst/NEWS         |    6 ++++++
 4 files changed, 31 insertions(+), 24 deletions(-)

More information about RcmdrPlugin.DoE at CRAN
Permanent link

New package QCA3 with initial version 0.0-1
Package: QCA3
Type: Package
Title: Qualitative Comparative Analaysis with R
Version: 0.0-1
Date: 2009-09-28
Author: Ronggui HUANG
Maintainer: Ronggui HUANG
Imports: lpSolve
Suggests: QCA
Description: A set of functions is for Qulitative Comparative Analysis (QCA). It can be used for all three types of QCA.
License: BSD
LazyLoad: yes
LazyData: yes
URL: http://asrr.r-forge.r-project.org/
Repository: CRAN
Repository/R-Forge/Project: asrr
Repository/R-Forge/Revision: 39
Date/Publication: 2009-09-28 13:36:30
Packaged: 2009-09-26 20:11:29 UTC; rforge

More information about QCA3 at CRAN
Permanent link

Package OrdFacReg updated to version 1.0.1 with previous version 1.0.0 dated 2009-04-16

Author: Kaspar Rufibach
Title: Least squares, logistic, and Cox-regression with ordered predictors
Description: In biomedical studies, researchers are often interested in assessing the association between one or more ordinal explanatory variables and an outcome variable, at the same time adjusting for covariates of any type. The outcome variable may be continuous, binary, or represent censored survival times. In the absence of a precise knowledge of the response function, using monotonicity constraints on the ordinal variables improves efficiency in estimating parameters, especially when sample sizes are small. This package implements an active set algorithm that efficiently computes such estimators.

Diff between OrdFacReg versions 1.0.0 dated 2009-04-16 and 1.0.1 dated 2009-09-28

 CHANGES                  |    7 ++++++-
 DESCRIPTION              |    8 ++++----
 R/Abeta.R                |    2 +-
 R/LSEsubspace.R          |    2 +-
 R/constraintMats.R       |    2 +-
 R/coxDeriv.R             |    2 +-
 R/coxLoglik.R            |    2 +-
 R/coxSubspace.R          |    2 +-
 R/dummy.R                |    2 +-
 R/expandBeta.R           |    2 +-
 R/indexDummy.R           |    2 +-
 R/lmLSE.R                |    2 +-
 R/lmSS.R                 |    2 +-
 R/logRegDeriv.R          |    2 +-
 R/logRegLoglik.R         |    2 +-
 R/logRegSubspace.R       |    2 +-
 R/maxStep.R              |    2 +-
 R/ordFacReg.R            |   16 ++++++++++++----
 R/ordFacRegCox.R         |   16 ++++++++++++----
 R/phi_jl.R               |    2 +-
 R/prepareData.R          |   12 ++++++++++--
 R/setminus.R             |    2 +-
 R/shrinkBeta.R           |    2 +-
 man/internal.Rd          |    2 +-
 man/ordFacReg-package.Rd |    6 +++---
 man/ordFacReg.Rd         |   37 +++++++++++++++++++++++++++++--------
 man/ordFacRegCox.Rd      |   13 ++++++++-----
 man/prepareData.Rd       |    7 +++++--
 28 files changed, 108 insertions(+), 52 deletions(-)

More information about OrdFacReg at CRAN
Permanent link

Package KFAS updated to version 0.4.3 with previous version 0.4.2 dated 2009-09-28

Author: Jouni Lehtonen
Title: Multivariate Kalman filter and smoother, simulation smoother and forecasting
Description: Package KFAS provides functions for fast Kalman filtering, state and disturbance smoothing, forecasting and simulation of multivariate time-variant state space models. All functions can use exact diffuse initialisation when distributions of some or all elements of initial state vector are unknown. Filtering, state smoothing and simulation functions use sequential processing algorithm, which is faster than standard approach, and it also allows singularity of prediction error variance matrix.

Diff between KFAS versions 0.4.2 dated 2009-09-28 and 0.4.3 dated 2009-09-28

 DESCRIPTION         |   17 +++++++-------
 R/KFAS.R            |   62 +++++++++-------------------------------------------
 man/distsmoother.Rd |    9 ++++---
 man/ks.Rd           |   15 ++++--------
 man/simsmoother.Rd  |    2 -
 5 files changed, 31 insertions(+), 74 deletions(-)

More information about KFAS at CRAN
Permanent link

New package HMR with initial version 0.1.0
Package: HMR
Version: 0.1.0
Title: Flux estimation with static chamber data
Author: Asger R. Pedersen
Maintainer: Asger R. Pedersen
Description: Statistical analysis of static chamber concentration data for trace gas flux estimation
Encoding: latin1
License: GPL (>= 2)
Packaged: 2009-09-28 10:32:12 UTC; ARP
Repository: CRAN
Date/Publication: 2009-09-28 10:38:48

More information about HMR at CRAN
Permanent link

New package EQL with initial version 1.0-0
Package: EQL
Version: 1.0-0
Date: 2009-06-18
Title: Extended-Quasi-Likelihood-Function (EQL)
Depends: ttutils(>= 0.1-0)
Imports: lattice(>= 0.17-17)
Author: Thorn Thaler
Maintainer: Thorn Thaler
Description: Computation of the EQL for a given family of variance functions, Saddlepoint-approximations and related auxiliary functions (e.g. Hermite polynomials)
License: GPL-2
Packaged: Mon Sep 28 15:05:33 2009; thothal
Repository: CRAN
Date/Publication: 2009-09-28 13:36:19

More information about EQL at CRAN
Permanent link

Package urca updated to version 1.2-3 with previous version 1.2-2 dated 2009-01-11

Author: Bernhard Pfaff
Title: Unit root and cointegration tests for time series data
Description: Unit root and cointegration tests encountered in applied econometric analysis are implemented.

Diff between urca versions 1.2-2 dated 2009-01-11 and 1.2-3 dated 2009-09-28

 urca-1.2-2/urca/inst/McKinnonLicense.txt  |only
 urca-1.2-3/urca/DESCRIPTION               |   31 +++++++++++++++-------------
 urca-1.2-3/urca/R/methods-show.R          |    2 -
 urca-1.2-3/urca/R/ur-za.R                 |    2 -
 urca-1.2-3/urca/inst/ChangeLog            |   33 ++++++++++++++++++++----------
 urca-1.2-3/urca/inst/MacKinnonLicense.txt |only
 urca-1.2-3/urca/inst/book-ex/Rcode-1-3.R  |    3 +-
 urca-1.2-3/urca/inst/book-ex/ex2.tar.gz   |binary
 urca-1.2-3/urca/man/alphaols.Rd           |    2 -
 urca-1.2-3/urca/man/cajools.Rd            |    2 -
 urca-1.2-3/urca/man/cajorls.Rd            |    2 -
 11 files changed, 47 insertions(+), 30 deletions(-)

More information about urca at CRAN
Permanent link

New package ttutils with initial version 1.0-0
Package: ttutils
Version: 1.0-0
Date: 2009-06-18
Title: Utility functions
Author: Thorn Thaler
Maintainer: Thorn Thaler
Description: Contains some auxiliary functions.
License: GPL-2
Packaged: Sat Sep 26 17:38:42 2009; thothal
Repository: CRAN
Date/Publication: 2009-09-28 07:51:43

More information about ttutils at CRAN
Permanent link

Package spatialsegregation updated to version 2.11 with previous version 2.10 dated 2009-09-18

Author: Tuomas Rajala
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. Included neighbourhoods: Geometric, k-nearest neighbours, Gabriel, Delauney.

Diff between spatialsegregation versions 2.10 dated 2009-09-18 and 2.11 dated 2009-09-28

 DESCRIPTION      |    8 ++++----
 R/fun.R          |   32 +++++++++++++++++++++++---------
 R/isar.R         |    1 -
 change.log       |    4 ++++
 src/Fun.cpp      |    1 -
 src/Graph.cpp    |   12 +++++++++++-
 src/Graph.h      |    2 ++
 src/Pp.cpp       |   22 +++++++++++-----------
 src/Pp.h         |    1 +
 src/isar.cpp     |    4 ++--
 src/mingling.cpp |    2 +-
 src/rfun.cpp     |    8 +++++---
 src/shannon.cpp  |    2 +-
 13 files changed, 65 insertions(+), 34 deletions(-)

More information about spatialsegregation at CRAN
Permanent link

Package psyphy updated to version 0.1-3 with previous version 0.1-2 dated 2009-08-21

Author: Kenneth Knoblauch
Title: Functions for analyzing psychophysical data in R
Description: An assortment of functions that could be useful in analyzing data from pyschophysical experiments. It includes functions for calculating d' from several different experimental designs, links for m-alternative forced-choice (mafc) data to be used with the binomial family in glm (and possibly other contexts) and self-Start functions for estimating gamma values for CRT screen calibrations.

Diff between psyphy versions 0.1-2 dated 2009-08-21 and 0.1-3 dated 2009-09-28

 DESCRIPTION   |    8 ++++----
 R/dprime.SD.R |    1 +
 2 files changed, 5 insertions(+), 4 deletions(-)

More information about psyphy at CRAN
Permanent link

Package peperr updated to version 1.1-4 with previous version 1.1-3 dated 2009-04-23

Author: Christine Porzelius, Harald Binder
Title: Parallelised Estimation of Prediction Error
Description: Package peperr is designed for prediction error estimation through resampling techniques, possibly accelerated by parallel execution on a compute cluster. Newly developed model fitting routines can be easily incorporated.

Diff between peperr versions 1.1-3 dated 2009-04-23 and 1.1-4 dated 2009-09-28

 DESCRIPTION                      |   10 ++++-----
 NAMESPACE                        |    6 ++---
 R/complexity.ipec.rsf_mtry.R     |only
 R/fit.rsf_mtry.R                 |only
 R/peperr.R                       |   42 ++++++++++++++++++++++++++++++++-------
 R/predictProb.rsf.R              |only
 changeLog                        |   24 +++++++++++++---------
 changeLog.backup                 |only
 man/complexity.LASSO.Rd          |    2 -
 man/complexity.ipec.CoxBoost.Rd  |    2 -
 man/complexity.ipec.rsf_mtry.Rd  |only
 man/complexity.mincv.CoxBoost.Rd |    2 -
 man/fit.CoxBoost.Rd              |    2 -
 man/fit.LASSO.Rd                 |    2 -
 man/fit.coxph.Rd                 |    2 -
 man/fit.rsf_mtry.Rd              |only
 man/peperr.Rd                    |   10 ++++++---
 man/predictProb.rsf.Rd           |only
 18 files changed, 70 insertions(+), 34 deletions(-)

More information about peperr at CRAN
Permanent link

Package optmatch updated to version 0.6-0 with previous version 0.5-0 dated 2009-05-19

Author: Ben B. Hansen and Mark Fredrickson , with embedded Fortran code due to Dimitri P. Bertsekas and Paul Tseng
Title: Functions for optimal matching
Description: Functions for optimal matching, including full matching

Diff between optmatch versions 0.5-0 dated 2009-05-19 and 0.6-0 dated 2009-09-28

 optmatch-0.5-0/optmatch/inst/doc                                   |only
 optmatch-0.6-0/optmatch/DESCRIPTION                                |   16 
 optmatch-0.6-0/optmatch/NAMESPACE                                  |    7 
 optmatch-0.6-0/optmatch/NEWS                                       |only
 optmatch-0.6-0/optmatch/R/caliper.R                                |only
 optmatch-0.6-0/optmatch/R/fullmatch.R                              |   28 -
 optmatch-0.6-0/optmatch/R/fullmatchNumControlsHandling.R           |only
 optmatch-0.6-0/optmatch/R/matched.distances.R                      |    3 
 optmatch-0.6-0/optmatch/R/max.controls.cap.R                       |   15 
 optmatch-0.6-0/optmatch/R/mdist.R                                  |only
 optmatch-0.6-0/optmatch/R/moremethods.optmatch.R                   |   10 
 optmatch-0.6-0/optmatch/R/stratumStructure.R                       |    2 
 optmatch-0.6-0/optmatch/R/summary.optmatch.R                       |   36 +-
 optmatch-0.6-0/optmatch/ToDo                                       |   21 -
 optmatch-0.6-0/optmatch/demo/optmatch.r                            |   81 +++-
 optmatch-0.6-0/optmatch/man/caliper.Rd                             |only
 optmatch-0.6-0/optmatch/man/fullmatch.Rd                           |   74 ++--
 optmatch-0.6-0/optmatch/man/mahal.dist.Rd                          |   11 
 optmatch-0.6-0/optmatch/man/mdist.Rd                               |only
 optmatch-0.6-0/optmatch/man/min.controls.cap.Rd                    |    7 
 optmatch-0.6-0/optmatch/man/nuclearplants.Rd                       |    2 
 optmatch-0.6-0/optmatch/man/pairmatch.Rd                           |   42 +-
 optmatch-0.6-0/optmatch/man/pscore.dist.Rd                         |    5 
 optmatch-0.6-0/optmatch/man/relaxinfo.Rd                           |    4 
 optmatch-0.6-0/optmatch/tests/caliper.R                            |only
 optmatch-0.6-0/optmatch/tests/fullmatch-helpers.R                  |only
 optmatch-0.6-0/optmatch/tests/fullmatch-helpers.Rout.save          |only
 optmatch-0.6-0/optmatch/tests/maxcontrolscap-tests.R               |only
 optmatch-0.6-0/optmatch/tests/maxcontrolscap-tests.Rout.save       |only
 optmatch-0.6-0/optmatch/tests/mdist.R                              |only
 optmatch-0.6-0/optmatch/tests/moremethods.optmatch-tests.Rout.save |  174 +++++++++-
 optmatch-0.6-0/optmatch/tests/stratumStructure-tests.R             |    6 
 optmatch-0.6-0/optmatch/tests/stratumStructure-tests.Rout.save     |   54 ++-
 optmatch-0.6-0/optmatch/tests/summary.optmatch-tests.R             |   12 
 optmatch-0.6-0/optmatch/tests/summary.optmatch-tests.Rout.save     |   72 ++++
 35 files changed, 496 insertions(+), 186 deletions(-)

More information about optmatch at CRAN
Permanent link

Package hmm.discnp updated to version 0.1-0 with previous version 0.0-9 dated 2009-02-26

Author: Rolf Turner and Limin Liu.
Title: Hidden Markov models with discrete non-parametric observation distributions.
Description: Fits hidden Markov models with discrete non-parametric observation distributions to data sets. Simulates data from such models. Finds most probable underlying hidden states and most probable sequences of such states.

Diff between hmm.discnp versions 0.0-9 dated 2009-02-26 and 0.1-0 dated 2009-09-28

 hmm.discnp-0.0-9/hmm.discnp/R/tidyup.R                 |only
 hmm.discnp-0.0-9/hmm.discnp/inst/ChangeLog             |only
 hmm.discnp-0.1-0/hmm.discnp/ChangeLog                  |only
 hmm.discnp-0.1-0/hmm.discnp/DESCRIPTION                |   23 ++-
 hmm.discnp-0.1-0/hmm.discnp/INDEX                      |    4 
 hmm.discnp-0.1-0/hmm.discnp/R/First.R                  |    7 -
 hmm.discnp-0.1-0/hmm.discnp/R/RCS                      |only
 hmm.discnp-0.1-0/hmm.discnp/R/check.yval.R             |only
 hmm.discnp-0.1-0/hmm.discnp/R/ffun.R                   |   13 +-
 hmm.discnp-0.1-0/hmm.discnp/R/fitted.hmm.discnp.R      |only
 hmm.discnp-0.1-0/hmm.discnp/R/hmm.R                    |  108 ++++++++++-------
 hmm.discnp-0.1-0/hmm.discnp/R/mat2list.R               |only
 hmm.discnp-0.1-0/hmm.discnp/R/mps.R                    |   28 +++-
 hmm.discnp-0.1-0/hmm.discnp/R/pr.R                     |only
 hmm.discnp-0.1-0/hmm.discnp/R/recurse.R                |   10 -
 hmm.discnp-0.1-0/hmm.discnp/R/revise.ispd.R            |   39 ++++--
 hmm.discnp-0.1-0/hmm.discnp/R/revise.rho.R             |   12 -
 hmm.discnp-0.1-0/hmm.discnp/R/sim.hmm.R                |   34 +++--
 hmm.discnp-0.1-0/hmm.discnp/R/sp.R                     |only
 hmm.discnp-0.1-0/hmm.discnp/R/viterbi.R                |   48 ++++---
 hmm.discnp-0.1-0/hmm.discnp/inst/READ_ME               |    3 
 hmm.discnp-0.1-0/hmm.discnp/inst/Ratfor                |only
 hmm.discnp-0.1-0/hmm.discnp/man/fitted.hmm.discnp.Rd   |only
 hmm.discnp-0.1-0/hmm.discnp/man/hmm.Rd                 |   40 ++++--
 hmm.discnp-0.1-0/hmm.discnp/man/hmm.discnp-internal.Rd |   12 +
 hmm.discnp-0.1-0/hmm.discnp/man/mps.Rd                 |   58 ++++-----
 hmm.discnp-0.1-0/hmm.discnp/man/pr.Rd                  |only
 hmm.discnp-0.1-0/hmm.discnp/man/sim.hmm.Rd             |   46 ++++---
 hmm.discnp-0.1-0/hmm.discnp/man/sp.Rd                  |only
 hmm.discnp-0.1-0/hmm.discnp/man/viterbi.Rd             |   54 ++++----
 30 files changed, 332 insertions(+), 207 deletions(-)

More information about hmm.discnp at CRAN
Permanent link

Package caret updated to version 4.23 with previous version 4.20 dated 2009-08-25

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

Diff between caret versions 4.20 dated 2009-08-25 and 4.23 dated 2009-09-28

 caret-4.20/caret/R/makeCubistFiles.R         |only
 caret-4.23/caret/DESCRIPTION                 |   10 ++++++----
 caret-4.23/caret/R/createGrid.R              |    3 +++
 caret-4.23/caret/R/createModel.R             |    3 ++-
 caret-4.23/caret/R/misc.R                    |   21 ++++++++++++++-------
 caret-4.23/caret/R/predictionFunction.R      |    3 +--
 caret-4.23/caret/R/selection.R               |    3 ++-
 caret-4.23/caret/data/BloodBrain.RData       |binary
 caret-4.23/caret/data/cox2.RData             |binary
 caret-4.23/caret/data/mdrr.RData             |binary
 caret-4.23/caret/data/tecator.RData          |binary
 caret-4.23/caret/inst/CHANGES                |   25 +++++++++++++++++++------
 caret-4.23/caret/inst/doc/caretMisc.tex      |only
 caret-4.23/caret/inst/doc/caretSelection.tex |only
 caret-4.23/caret/inst/doc/caretTrain.tex     |only
 caret-4.23/caret/inst/doc/caretVarImp.tex    |only
 caret-4.23/caret/man/classDist.Rd            |    2 +-
 caret-4.23/caret/man/dotplot.varImp.train.Rd |    6 +++---
 caret-4.23/caret/man/format.bagEarth.Rd      |    3 +--
 caret-4.23/caret/man/knn3.Rd                 |    2 +-
 caret-4.23/caret/man/knnreg.Rd               |    2 +-
 caret-4.23/caret/man/lattice.Rd              |    4 ++--
 caret-4.23/caret/man/lattice.rfe.Rd          |    4 ++--
 caret-4.23/caret/man/plot.train.Rd           |    2 +-
 caret-4.23/caret/man/plot.varImp.train.Rd    |    2 +-
 caret-4.23/caret/man/plotObsVsPred.Rd        |    2 +-
 caret-4.23/caret/man/plsda.Rd                |    6 +++---
 caret-4.23/caret/man/predictors.Rd           |   12 ++++++------
 caret-4.23/caret/man/resampleHist.Rd         |    2 +-
 caret-4.23/caret/man/rfeFunctions.Rd         |    3 ++-
 30 files changed, 73 insertions(+), 47 deletions(-)

More information about caret at CRAN
Permanent link

Package VR updated to version 7.2-49 with previous version 7.2-48 dated 2009-08-05

Author: S original by Venables & Ripley. R port by Brian Ripley , following earlier work by Kurt Hornik and Albrecht Gebhardt.
Bundle: VR
Contains: MASS class nnet spatial

Diff between VR versions 7.2-48 dated 2009-08-05 and 7.2-49 dated 2009-09-28

 DESCRIPTION              |   10 +++++-----
 MASS/R/glmmPQL.R         |   12 ++++++------
 MASS/inst/scripts/ch12.R |    1 -
 MASS/man/confint.Rd      |    6 +++---
 4 files changed, 14 insertions(+), 15 deletions(-)

More information about VR at CRAN
Permanent link

Package RInside updated to version 0.1.1 with previous version 0.1.0 dated 2009-09-20

Author: Dirk Eddelbuettel
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 and OS X, but may not on Windows due to the way R is built on Windows. Several examples are provided in the examples/ directory of the installed package, and Doxygen-generated documentation of the C++ classes is included as well.

Diff between RInside versions 0.1.0 dated 2009-09-20 and 0.1.1 dated 2009-09-28

 DESCRIPTION                       |   18 ++++++-----
 inst/ChangeLog                    |   16 ++++++++++
 inst/THANKS                       |only
 inst/examples/Makefile            |   42 +++++++++++++++-----------
 inst/examples/rinside_sample0.cpp |   12 +++----
 inst/examples/rinside_sample1.cpp |   38 ++++++++++++------------
 inst/examples/rinside_sample2.cpp |   58 +++++++++++++++++++-----------------
 inst/examples/rinside_sample3.cpp |   38 ++++++++++++------------
 inst/examples/rinside_test0.cpp   |   16 +++++-----
 inst/examples/rinside_test1.cpp   |   12 +++----
 src/Makefile                      |   60 +++++++++++++++++---------------------
 11 files changed, 169 insertions(+), 141 deletions(-)

More information about RInside at CRAN
Permanent link

Package KFAS updated to version 0.4.2 with previous version 0.4.1 dated 2009-09-18

Author: Jouni Lehtonen
Title: Multivariate Kalman filter and smoother, simulation smoother and forecasting
Description: Package KFAS provides functions for fast Kalman filtering, state and disturbance smoothing, forecasting and simulation of multivariate time-variant state space models. All functions can use exact diffuse initialisation when distributions of some or all elements of initial state vector are unknown. Functions use sequential processing algorithm, which is faster than standard approach, and it also allows singularity of prediction error variance matrix.

Diff between KFAS versions 0.4.1 dated 2009-09-18 and 0.4.2 dated 2009-09-28

 DESCRIPTION         |   16 +++----
 NAMESPACE           |    2 
 R/KFAS.R            |   81 ++++++++++++++++++++++++-----------
 man/distsmoother.Rd |only
 src/distsmooth.f90  |only
 src/kf.f90          |    4 -
 src/ks.f90          |  118 +++++++++++++++++++++++++---------------------------
 7 files changed, 124 insertions(+), 97 deletions(-)

More information about KFAS at CRAN
Permanent link

Package BMN updated to version 1.01 with previous version 1.0 dated 2009-03-26

Author: Holger Hoefling
Title: The pseudo-likelihood method for pairwise binary markov networks
Description: This package implements approximate and exact methods for pairwise binary markov models. The exact method uses an implementation of the junction tree algorithm for binary graphical models. For more details see the help files

Diff between BMN versions 1.0 dated 2009-03-26 and 1.01 dated 2009-09-28

 DESCRIPTION      |    8 ++++----
 src/Makevars     |only
 src/Makevars.win |only
 3 files changed, 4 insertions(+), 4 deletions(-)

More information about BMN at CRAN
Permanent link

Fri, 25 Sep 2009

Package RcmdrPlugin.DoE updated to version 0.5-2 with previous version 0.5-1 dated 2009-09-24

Author: Ulrike Groemping
Title: R Commander Plugin for (industrial) Design of Experiments
Description: WARNING: This package is currently in beta status! The package provides a platform-independent GUI for design of experiments. It is implemented as a plugin to the R-Commander, which is a more general graphical user interface for statistics in R based on tcl/tk. DoE functionality can be accessed through the menu Design that is added to the R-Commander menus.

Diff between RcmdrPlugin.DoE versions 0.5-1 dated 2009-09-24 and 0.5-2 dated 2009-09-25

 DESCRIPTION               |   13 +++++++------
 inst/NEWS                 |    3 +++
 man/DoEGlossary.Rd        |    2 +-
 man/Menu.2level.Rd        |    2 +-
 man/Menu.Analyze.Rd       |    2 +-
 man/Menu.FrF2level.Rd     |    2 +-
 man/Menu.FrF2levelTab1.Rd |    4 ++--
 man/Menu.General.Rd       |    2 +-
 man/Menu.augmentlhs.Rd    |    2 +-
 man/Menu.facTab1.Rd       |    2 +-
 man/Menu.oaTab1.Rd        |    2 +-
 man/Menu.pb2levelTab1.Rd  |    2 +-
 12 files changed, 21 insertions(+), 17 deletions(-)

More information about RcmdrPlugin.DoE at CRAN
Permanent link

Package DoE.base updated to version 0.9-4 with previous version 0.9-3 dated 2009-09-18

Author: Ulrike Groemping
Title: Full factorials, orthogonal arrays and base utilities for DoE packages
Description: This package creates full factorial experimental designs and designs based on orthogonal arrays for (industrial) experiments. Additionally, it provides some utility functions used also by other DoE packages.

Diff between DoE.base versions 0.9-3 dated 2009-09-18 and 0.9-4 dated 2009-09-25

 DESCRIPTION      |    8 ++++----
 inst/NEWS        |    6 +++++-
 man/lm.design.Rd |    2 +-
 3 files changed, 10 insertions(+), 6 deletions(-)

More information about DoE.base at CRAN
Permanent link

Package OAIHarvester updated to version 0.0-6 with previous version 0.0-5 dated 2009-08-31

Author: Kurt Hornik
Title: Harvest Metadata Using OAI-PMH v2.0
Description: Harvest metadata using the Open Archives Initiative Protocol for Metadata Harvesting (OAI-PMH) version 2.0.

Diff between OAIHarvester versions 0.0-5 dated 2009-08-31 and 0.0-6 dated 2009-09-25

 DESCRIPTION       |    8 ++++----
 R/pmh.R           |    2 +-
 inst/doc/oaih.pdf |binary
 man/harvest.Rd    |    4 ++--
 man/verb.Rd       |    3 ++-
 5 files changed, 9 insertions(+), 8 deletions(-)

More information about OAIHarvester at CRAN
Permanent link

Package GWAF updated to version 1.1 with previous version 1.0 dated 2009-09-06

Author: Ming-Huei Chen and Qiong Yang
Title: Genome-Wide Association analyses with Family data
Description: Functions to test genetic associations between SNPs and a continuous/dichotomous trait using family data, and to make genome-wide p-value plot and QQ plot.

Diff between GWAF versions 1.0 dated 2009-09-06 and 1.1 dated 2009-09-25

 GWAF-1.0/GWAF/Read-and-delete-me                    |only
 GWAF-1.1/GWAF/COPYING                               |only
 GWAF-1.1/GWAF/DESCRIPTION                           |   10 
 GWAF-1.1/GWAF/GWAF/CONTENTS                         |   22 +
 GWAF-1.1/GWAF/GWAF/COPYING                          |only
 GWAF-1.1/GWAF/GWAF/DESCRIPTION                      |    8 
 GWAF-1.1/GWAF/GWAF/INDEX                            |   18 
 GWAF-1.1/GWAF/GWAF/Meta/Rd.rds                      |binary
 GWAF-1.1/GWAF/GWAF/Meta/hsearch.rds                 |binary
 GWAF-1.1/GWAF/GWAF/Meta/package.rds                 |binary
 GWAF-1.1/GWAF/GWAF/R/GWAF.rdb                       |binary
 GWAF-1.1/GWAF/GWAF/R/GWAF.rdx                       |binary
 GWAF-1.1/GWAF/GWAF/doc/UsingGWAF.pdf                |  364 ++++++++++----------
 GWAF-1.1/GWAF/GWAF/help/AnIndex                     |    3 
 GWAF-1.1/GWAF/GWAF/help/GWAF-package                |   16 
 GWAF-1.1/GWAF/GWAF/help/gee.lgst                    |   14 
 GWAF-1.1/GWAF/GWAF/help/gee.lgst.batch              |   55 +--
 GWAF-1.1/GWAF/GWAF/help/gee.lgst.batch.imputed      |only
 GWAF-1.1/GWAF/GWAF/help/gee.lgst.imputed            |only
 GWAF-1.1/GWAF/GWAF/help/lme.batch                   |    4 
 GWAF-1.1/GWAF/GWAF/help/lme.batch.imputed           |only
 GWAF-1.1/GWAF/GWAF/help/qq                          |    4 
 GWAF-1.1/GWAF/GWAF/html/00Index.html                |   12 
 GWAF-1.1/GWAF/GWAF/html/GWAF-package.html           |    8 
 GWAF-1.1/GWAF/GWAF/html/GWplot.html                 |    2 
 GWAF-1.1/GWAF/GWAF/html/gee.lgst.batch.html         |   18 
 GWAF-1.1/GWAF/GWAF/html/gee.lgst.batch.imputed.html |only
 GWAF-1.1/GWAF/GWAF/html/gee.lgst.html               |   10 
 GWAF-1.1/GWAF/GWAF/html/gee.lgst.imputed.html       |only
 GWAF-1.1/GWAF/GWAF/html/lme.batch.html              |    6 
 GWAF-1.1/GWAF/GWAF/html/lme.batch.imputed.html      |only
 GWAF-1.1/GWAF/GWAF/html/lmekin.html                 |    2 
 GWAF-1.1/GWAF/GWAF/html/qq.html                     |    4 
 GWAF-1.1/GWAF/GWAF/latex/GWAF-package.tex           |    6 
 GWAF-1.1/GWAF/GWAF/latex/gee.lgst.batch.imputed.tex |only
 GWAF-1.1/GWAF/GWAF/latex/gee.lgst.batch.tex         |   14 
 GWAF-1.1/GWAF/GWAF/latex/gee.lgst.imputed.tex       |only
 GWAF-1.1/GWAF/GWAF/latex/gee.lgst.tex               |    6 
 GWAF-1.1/GWAF/GWAF/latex/lme.batch.imputed.tex      |only
 GWAF-1.1/GWAF/GWAF/latex/lme.batch.tex              |    4 
 GWAF-1.1/GWAF/GWAF/latex/qq.tex                     |    2 
 GWAF-1.1/GWAF/GWAF/man/GWAF.Rd.gz                   |binary
 GWAF-1.1/GWAF/R/gee.lgst.R                          |   15 
 GWAF-1.1/GWAF/R/gee.lgst.batch.R                    |   39 +-
 GWAF-1.1/GWAF/R/gee.lgst.batch.imputed.R            |only
 GWAF-1.1/GWAF/R/gee.lgst.imputed.R                  |only
 GWAF-1.1/GWAF/R/lme.imputed.R                       |only
 GWAF-1.1/GWAF/inst/doc/UsingGWAF.pdf                |  364 ++++++++++----------
 GWAF-1.1/GWAF/man/GWAF-package.Rd                   |    6 
 GWAF-1.1/GWAF/man/gee.lgst.Rd                       |    6 
 GWAF-1.1/GWAF/man/gee.lgst.batch.Rd                 |   14 
 GWAF-1.1/GWAF/man/gee.lgst.batch.imputed.Rd         |only
 GWAF-1.1/GWAF/man/gee.lgst.imputed.Rd               |only
 GWAF-1.1/GWAF/man/lme.batch.Rd                      |    4 
 GWAF-1.1/GWAF/man/lme.batch.imputed.Rd              |only
 GWAF-1.1/GWAF/man/qq.Rd                             |   36 -
 56 files changed, 605 insertions(+), 491 deletions(-)

More information about GWAF at CRAN
Permanent link

Thu, 24 Sep 2009

Package mhsmm updated to version 0.3.1 with previous version 0.3.0 dated 2009-08-31

Author: Jared O'Connell , Soren Hojsgaard
Title: Parameter estimation and prediction for hidden Markov and semi-Markov models for data with multiple observation sequences.
Description: Parameter estimation and prediction for hidden Markov and semi-Markov models for data with multiple observation sequences. Suitable for equidistant time series data, with multivariate and/or missing data.

Diff between mhsmm versions 0.3.0 dated 2009-08-31 and 0.3.1 dated 2009-09-24

 ChangeLog                     |   10 +++++++---
 DESCRIPTION                   |    6 +++---
 R/hsmm_functions.R            |    1 +
 inst/doc/DHMM.pdf             |binary
 inst/doc/Rplots.pdf           |    4 ++--
 inst/doc/fig/dhmm-clsfig1.pdf |    4 ++--
 inst/doc/fig/dhmm-clsfig2.pdf |    4 ++--
 man/hsmmfit.Rd                |    2 +-
 man/hsmmspec.Rd               |   12 ++++++++++--
 man/reprocows.Rd              |   25 +++++++++++++++++++++++++
 10 files changed, 53 insertions(+), 15 deletions(-)

More information about mhsmm at CRAN
Permanent link

New package nlreg with initial version 1.1-3
Package: nlreg
Version: 1.1-3
Date: 2009-09-14
Title: Higher Order Inference for Nonlinear Heteroscedastic Models
Author: S original by Alessandra R. Brazzale and Ruggero Bellio . R port by Alessandra R. Brazzale , following earlier work by Douglas Bates.
Maintainer: Alessandra R. Brazzale
URL: http://www.r-project.org, http://statwww.epfl.ch/AA/
Description: Likelihood inference based on higher order approximations for nonlinear models with possibly non constant variance
Depends: R (>= 2.6.0), statmod, survival
Suggests: boot, cond, csampling, marg
License: GPL (>= 2)
LazyLoad: yes
LazyData: yes
Packaged: 2009-09-24 12:12:43 UTC; brazzale
Repository: CRAN
Date/Publication: 2009-09-24 20:13:41

More information about nlreg at CRAN
Permanent link

New package marg with initial version 1.1-3
Package: marg
Version: 1.1-3
Date: 2009-09-14
Title: Approximate marginal inference for regression-scale models
Author: S original by Alessandra R. Brazzale . R port by Alessandra R. Brazzale , following earlier work by Douglas Bates.
Maintainer: Alessandra R. Brazzale
Depends: R (>= 2.6.0), statmod, survival
Suggests: boot, cond, csampling, nlreg
Description: Likelihood inference based on higher order approximations for linear nonnormal regression models
License: GPL (>= 2)
URL: http://www.r-project.org, http://statwww.epfl.ch/AA/
LazyLoad: yes
LazyData: yes
Packaged: 2009-09-24 12:12:23 UTC; brazzale
Repository: CRAN
Date/Publication: 2009-09-24 20:13:23

More information about marg at CRAN
Permanent link

Package denstrip updated to version 1.4 with previous version 1.3 dated 2009-03-30

Author: Christopher Jackson
Title: Density strips and other methods for compactly illustrating distributions
Description: Graphical methods for compactly illustrating probability distributions, including density strips, density regions, sectioned density plots and varying width strips.

Diff between denstrip versions 1.3 dated 2009-03-30 and 1.4 dated 2009-09-24

 ChangeLog              |   12 ++++++++++++
 DESCRIPTION            |    8 ++++----
 R/denstrip.R           |   10 +++++-----
 inst/NEWS              |    8 ++++++++
 man/denstrip.Rd        |   24 +++++++++++++++++++++---
 man/denstrip.legend.Rd |    3 ++-
 6 files changed, 52 insertions(+), 13 deletions(-)

More information about denstrip at CRAN
Permanent link

New package csampling with initial version 1.1-3
Package: csampling
Version: 1.1-3
Date: 2009-09-14
Title: Functions for Conditional Simulation in Regression-Scale Models
Author: S original by Alessandra R. Brazzale . R port by Alessandra R. Brazzale .
Maintainer: Alessandra R. Brazzale
Depends: R (>= 2.6.0), marg, statmod, survival
Description: Monte Carlo conditional inference for the parameters of a linear nonnormal regression model
License: GPL (>= 2)
URL: http://www.r-project.org, http://statwww.epfl.ch/AA/
LazyLoad: yes
LazyData: yes
Packaged: 2009-09-24 19:24:48 UTC; hornik
Repository: CRAN
Date/Publication: 2009-09-24 20:13:15

More information about csampling at CRAN
Permanent link

New package cond with initial version 1.1-3
Package: cond
Version: 1.1-3
Date: 2009-09-14
Title: Approximate conditional inference for logistic and loglinear models
Author: S original by Alessandra R. Brazzale . R port by Alessandra R. Brazzale , following earlier work by Douglas Bates.
Maintainer: Alessandra R. Brazzale
Depends: R (>= 2.6.0), statmod, survival
Suggests: boot, csampling, marg, nlreg
Description: Higher order likelihood-based inference for logistic and loglinear models
License: GPL (>= 2)
URL: http://www.r-project.org, http://statwww.epfl.ch/AA/
LazyLoad: yes
LazyData: yes
Packaged: 2009-09-24 12:12:03 UTC; brazzale
Repository: CRAN
Date/Publication: 2009-09-24 20:13:08

More information about cond at CRAN
Permanent link

New package RcmdrPlugin.DoE with initial version 0.5-1
Package: RcmdrPlugin.DoE
Version: 0.5-1
Date: 2009-09-24
Title: R Commander Plugin for (industrial) Design of Experiments
Author: Ulrike Groemping
Maintainer: Ulrike Groemping
Depends: R (>= 2.8.0), tcltk, DoE.base (>= 0.9-3), FrF2 (>= 0.97-10), Rcmdr, DoE.wrapper (>= 0.6-2)
LazyLoad: no
Description: WARNING: This package is currently in beta status! This package provides a platform-independent GUI for design of experiments. It is implemented as a plugin to the R-Commander, which is a more general graphical user interface for statistics in R based on tcl/tk.
License: GPL (>= 2)
Encoding: latin1
URL: http://www.r-project.org, http://prof.tfh-berlin.de/groemping
Packaged: 2009-09-24 16:35:00 UTC; Grömping
Repository: CRAN
Date/Publication: 2009-09-24 20:12:57

More information about RcmdrPlugin.DoE at CRAN
Permanent link

Package OjaNP updated to version 0.9-3 with previous version 0.9-2 dated 2009-08-10

Author: Daniel Fischer, Jyrki Möttönen, Klaus Nordhausen, Daniel Vogel
Title: Multivariate Methods Based on the Oja Median and Related Concepts
Description: The package provides functions for the Oja median, Oja signs and ranks and methods based upon them.

Diff between OjaNP versions 0.9-2 dated 2009-08-10 and 0.9-3 dated 2009-09-24

 DESCRIPTION          |    8 ++++----
 man/OjaNP-package.Rd |    4 ++--
 man/ojaMedian.Rd     |    4 +++-
 man/ojaSign.Rd       |   15 ++++-----------
 4 files changed, 13 insertions(+), 18 deletions(-)

More information about OjaNP at CRAN
Permanent link

Package digest updated to version 0.4.1 with previous version 0.4.0 dated 2009-09-24

Author: Dirk Eddelbuettel with contributions by Antoine Lucas, Jarek Tuszynski, Henrik Bengtsson and Simon Urbanek
Title: Create cryptographic hash digests of R objects
Description: The digest package provides functions for the creation of `hash' digests of arbitrary R objects using the md5, sha-1, sha-256 and crc32 algorithms permitting easy comparison of R language objects. The md5 algorithm by Ron Rivest is specified in RFC 1321, the SHA-1 and SHA-256 algorithms are specified in FIPS-180-1 and FIPS-180-2, and the crc32 algorithm is described in ftp://ftp.rocksoft.com/cliens/rocksoft/papers/crc_v3.txt. For md5, sha-1 and sha-256, this packages uses small standalone C implementations that were provided by Christophe Devine. For crc32, code from the zlib library is used. Please note that this package is not meant to be deployed for cryptographic purposes for which more comprehensive (and widely tested) libraries such as OpenSSL should be used.

Diff between digest versions 0.4.0 dated 2009-09-24 and 0.4.1 dated 2009-09-24

 digest-0.4.0/digest/src/Makefile.win |only
 digest-0.4.1/digest/DESCRIPTION      |    6 +++---
 digest-0.4.1/digest/R/digest.R       |    2 +-
 digest-0.4.1/digest/inst/ChangeLog   |   11 +++++++++++
 digest-0.4.1/digest/man/digest.Rd    |    2 +-
 digest-0.4.1/digest/src/digest.c     |    4 ++--
 6 files changed, 18 insertions(+), 7 deletions(-)

More information about digest at CRAN
Permanent link

Package BAYSTAR updated to version 0.2-2 with previous version 0.1-2 dated 2008-08-08

Author: Cathy W. S. Chen, Edward M.H. Lin, F.C. Liu, and Richard Gerlach
Title: On Bayesian analysis of Threshold autoregressive model (BAYSTAR)
Description: The manuscript introduces the BAYSTAR package, which provides the functionality for Bayesian estimation in autoregressive threshold models.

Diff between BAYSTAR versions 0.1-2 dated 2008-08-08 and 0.2-2 dated 2009-09-24

 BAYSTAR-0.1-2/BAYSTAR/HISTORY         |only
 BAYSTAR-0.2-2/BAYSTAR/CHANGELOG       |    9 +
 BAYSTAR-0.2-2/BAYSTAR/DESCRIPTION     |   25 ++-
 BAYSTAR-0.2-2/BAYSTAR/R/BAYSTAR.R     |  246 ++++++++++++++++++++++++++++------
 BAYSTAR-0.2-2/BAYSTAR/R/TAR.summary.R |    4 
 BAYSTAR-0.2-2/BAYSTAR/man/BAYSTAR.Rd  |  119 ++++++++++++----
 6 files changed, 327 insertions(+), 76 deletions(-)

More information about BAYSTAR at CRAN
Permanent link

Package party updated to version 0.9-999 with previous version 0.9-998 dated 2009-06-17

Author: Torsten Hothorn, Kurt Hornik, Carolin Strobl and Achim Zeileis
Title: A Laboratory for Recursive Partytioning
Description: A computational toolbox for recursive partitioning. The core of the package is ctree(), an implementation of conditional inference trees which embed tree-structured regression models into a well defined theory of conditional inference procedures. This non-parametric class of regression trees is applicable to all kinds of regression problems, including nominal, ordinal, numeric, censored as well as multivariate response variables and arbitrary measurement scales of the covariates. Based on conditional inference trees, cforest() provides an implementation of Breiman's random forests. The function mob() implements an algorithm for recursive partitioning based on parametric models (e.g. linear models, GLMs or survival regression) employing parameter instability tests for split selection. Extensible functionality for visualizing tree-structured regression models is available.

Diff between party versions 0.9-998 dated 2009-06-17 and 0.9-999 dated 2009-09-24

 DESCRIPTION                          |    8 -
 NEWS                                 |    8 +
 inst/doc/MOB.pdf                     |   14 -
 inst/doc/party.pdf                   |binary
 man/BinaryTree-class.Rd              |    4 
 man/RandomForest-class.Rd            |    8 -
 man/Transformations.Rd               |    2 
 man/cforest.Rd                       |    2 
 man/ctree.Rd                         |    2 
 man/ctree_memory.Rd                  |    2 
 man/mob.Rd                           |   10 -
 man/panelfunctions.Rd                |    2 
 man/plot.BinaryTree.Rd               |    2 
 man/plot.mob.Rd                      |    3 
 src/Distributions.c                  |   47 ++++--
 src/Splits.c                         |    8 -
 tests/Examples/party-Ex.Rout.save    |  260 +++++++++++++++++++----------------
 tests/RandomForest-regtest.Rout.save |   90 ++++++------
 tests/bugfixes.Rout.save             |   12 -
 19 files changed, 278 insertions(+), 206 deletions(-)

More information about party at CRAN
Permanent link

Package mstate updated to version 0.2.2 with previous version 0.2.1 dated 2009-07-21

Author: Hein Putter, Liesbeth de Wreede, Marta Fiocco
Title: Data preparation, estimation and prediction in multi-state models
Description: Functions for data preparation, descriptives, hazard estimation and prediction with Aalen-Johansen or simulation in competing risks and multi-state models

Diff between mstate versions 0.2.1 dated 2009-07-21 and 0.2.2 dated 2009-09-24

 Changelog.txt         |   11 +++++++++++
 DESCRIPTION           |    8 ++++----
 R/msfit.R             |    2 +-
 inst/CITATION         |    1 +
 inst/doc/Rplots.pdf   |    6 +++---
 inst/doc/Tutorial.Rnw |    2 +-
 inst/doc/Tutorial.pdf |binary
 man/ebmt4.Rd          |    2 +-
 man/mstate-package.Rd |    4 ++--
 man/redrank.Rd        |   30 ++++++++++++++++++++----------
 10 files changed, 44 insertions(+), 22 deletions(-)

More information about mstate at CRAN
Permanent link

New package IQCC with initial version 1.0
Package: IQCC
Title: Improved Quality Control Charts
Version: 1.0
Date: 2009-09-21
Author: Daniela R. Recchia , Emanuel P. Barbosa
Maintainer: Emanuel P. Barbosa
Description: Builds statistical control charts with exact limits for univariate and multivariate cases.
License: GPL-2
Depends: qcc,MASS,micEcon
Packaged: 2009-09-24 01:52:15 UTC; Marcia
Repository: CRAN
Date/Publication: 2009-09-24 10:42:26

More information about IQCC at CRAN
Permanent link

Package frontier updated to version 0.995-6 with previous version 0.995-2 dated 2009-09-21

Author: Tim Coelli, Arne Henningsen
Title: Stochastic Frontier Analysis
Description: Maximum Likelihood Estimation of Stochastic Frontier Production and Cost Functions. Two specifications are available: the error components specification with time-varying efficiencies (Battese and Coelli, 1992) and a model specification in which the firm effects are directly influenced by a number of variables (Battese and Coelli, 1995).

Diff between frontier versions 0.995-2 dated 2009-09-21 and 0.995-6 dated 2009-09-24

 DESCRIPTION                  |   10 +++++-----
 INDEX                        |    1 +
 NEWS                         |   11 +++++++++++
 R/sfa.R                      |   10 +++++-----
 data/telecom.txt             |only
 man/telecom.Rd               |only
 tests/frontier41.Rout.save   |    8 --------
 tests/frontierTest.Rout.save |    8 --------
 tests/nestedModels.Rout.save |    8 --------
 tests/translogRay.Rout.save  |    8 --------
 10 files changed, 22 insertions(+), 42 deletions(-)

More information about frontier at CRAN
Permanent link

Package dirmult updated to version 0.1.2 with previous version 0.1.1 dated 2009-06-24

Author: Torben Tvedebrink
Title: Estimation in Dirichlet-Multinomial distribution.
Description: Estimate parameters in Dirichlet-Multinomial and compute profile log-likelihoods.

Diff between dirmult versions 0.1.1 dated 2009-06-24 and 0.1.2 dated 2009-09-24

 DESCRIPTION   |    8 ++++----
 NAMESPACE     |    1 +
 R/dirmult.R   |   17 +++++++++++++++++
 man/simPop.Rd |only
 4 files changed, 22 insertions(+), 4 deletions(-)

More information about dirmult at CRAN
Permanent link

Package sqldf updated to version 0-1.7 with previous version 0-1.5 dated 2009-06-07

Author: G. Grothendieck
Title: Perform SQL Selects on R Data Frames
Description: Manipulate R data frames using SQL.

Diff between sqldf versions 0-1.5 dated 2009-06-07 and 0-1.7 dated 2009-09-24

 DESCRIPTION         |    8 ++++----
 R/sqldf.R           |   17 +++++++++++++++--
 inst/NEWS           |   10 ++++++++++
 inst/THANKS         |    2 +-
 inst/TODO           |    9 ++++++---
 man/read.csv.sql.Rd |    5 +++++
 6 files changed, 41 insertions(+), 10 deletions(-)

More information about sqldf at CRAN
Permanent link

Package fishmethods updated to version 1.0-1 with previous version 0.0-1 dated 2009-01-15

Author: Gary A. Nelson
Title: Fisheries Methods and Models in R
Description: Fishery methods and models from Quinn and Deriso (1999), Haddon(2001) , and literature.

Diff between fishmethods versions 0.0-1 dated 2009-01-15 and 1.0-1 dated 2009-09-24

 fishmethods-0.0-1/fishmethods/R/depletM.R            |only
 fishmethods-0.0-1/fishmethods/lf_fluke_northeast.sas |only
 fishmethods-0.0-1/fishmethods/man/depletM.Rd         |only
 fishmethods-0.0-1/fishmethods/testmrfsssas.sas       |only
 fishmethods-1.0-1/fishmethods/DESCRIPTION            |   23 -
 fishmethods-1.0-1/fishmethods/INDEX                  |  157 +++++--
 fishmethods-1.0-1/fishmethods/R/LengthIncr.R         |only
 fishmethods-1.0-1/fishmethods/R/baglimit.R           |   24 -
 fishmethods-1.0-1/fishmethods/R/bheq1.R              |    2 
 fishmethods-1.0-1/fishmethods/R/bheq2.R              |    2 
 fishmethods-1.0-1/fishmethods/R/bhnoneq.R            |    6 
 fishmethods-1.0-1/fishmethods/R/catchpertrip.R       |   47 +-
 fishmethods-1.0-1/fishmethods/R/catchseries.R        |   28 -
 fishmethods-1.0-1/fishmethods/R/combinevar.R         |only
 fishmethods-1.0-1/fishmethods/R/deplet.R             |  413 +++++++++++--------
 fishmethods-1.0-1/fishmethods/R/extractMRFSS.R       |    2 
 fishmethods-1.0-1/fishmethods/R/irm_cr.R             |only
 fishmethods-1.0-1/fishmethods/R/irm_h.R              |only
 fishmethods-1.0-1/fishmethods/R/lengthfreq.R         |   21 
 fishmethods-1.0-1/fishmethods/R/pstrat.R             |   10 
 fishmethods-1.0-1/fishmethods/R/sbpr.R               |    3 
 fishmethods-1.0-1/fishmethods/R/surveyfit.R          |only
 fishmethods-1.0-1/fishmethods/R/surveyref.R          |only
 fishmethods-1.0-1/fishmethods/R/tag_model_avg.R      |only
 fishmethods-1.0-1/fishmethods/R/vblrt.R              |    2 
 fishmethods-1.0-1/fishmethods/data/Hoenig.rda        |only
 fishmethods-1.0-1/fishmethods/data/Jiang.rda         |only
 fishmethods-1.0-1/fishmethods/data/bonito.rda        |only
 fishmethods-1.0-1/fishmethods/data/wolffish.rda      |only
 fishmethods-1.0-1/fishmethods/data/yellowtail.rda    |only
 fishmethods-1.0-1/fishmethods/man/Hoenig.Rd          |only
 fishmethods-1.0-1/fishmethods/man/Jiang.Rd           |only
 fishmethods-1.0-1/fishmethods/man/LengthIncr.Rd      |only
 fishmethods-1.0-1/fishmethods/man/bonito.Rd          |only
 fishmethods-1.0-1/fishmethods/man/combinevar.Rd      |only
 fishmethods-1.0-1/fishmethods/man/deplet.Rd          |   29 -
 fishmethods-1.0-1/fishmethods/man/irm_cr.Rd          |only
 fishmethods-1.0-1/fishmethods/man/irm_h.Rd           |only
 fishmethods-1.0-1/fishmethods/man/surveyfit.Rd       |only
 fishmethods-1.0-1/fishmethods/man/surveyref.Rd       |only
 fishmethods-1.0-1/fishmethods/man/tag_model_avg.Rd   |only
 fishmethods-1.0-1/fishmethods/man/wolffish.Rd        |only
 fishmethods-1.0-1/fishmethods/man/yellowtail.Rd      |only
 43 files changed, 492 insertions(+), 277 deletions(-)

More information about fishmethods at CRAN
Permanent link

Package digest updated to version 0.4.0 with previous version 0.3.1 dated 2007-09-28

Author: Dirk Eddelbuettel with contributions by Antoine Lucas, Jarek Tuszynski, Henrik Bengtsson and Simon Urbanek
Title: Create cryptographic hash digests of R objects
Description: The digest package provides functions for the creation of `hash' digests of arbitrary R objects using the md5, sha-1, sha-256 and crc32 algorithms permitting easy comparison of R language objects. The md5 algorithm by Ron Rivest is specified in RFC 1321, the SHA-1 and SHA-256 algorithms are specified in FIPS-180-1 and FIPS-180-2, and the crc32 algorithm is described in ftp://ftp.rocksoft.com/cliens/rocksoft/papers/crc_v3.txt. For md5, sha-1 and sha-256, this packages uses small standalone C implementations that were provided by Christophe Devine. For crc32, code from the zlib library is used. Please note that this package is not meant to be deployed for cryptographic purposes for which more comprehensive (and widely tested) libraries such as OpenSSL should be used.

Diff between digest versions 0.3.1 dated 2007-09-28 and 0.4.0 dated 2009-09-24

 DESCRIPTION                |   36 +++++++++++++----------
 R/digest.R                 |   15 +++++----
 inst/ChangeLog             |   31 +++++++++++++++++---
 man/digest.Rd              |   68 +++++++++++++++++++++++++--------------------
 src/Makefile.win           |only
 src/digest.c               |   56 +++++++++++++++++++++++++++++++++----
 src/sha256.c               |only
 src/sha256.h               |only
 tests/digestTest.Rout.save |    6 +--
 9 files changed, 147 insertions(+), 65 deletions(-)

More information about digest at CRAN
Permanent link

Package MNP updated to version 2.6-1 with previous version 2.5-6 dated 2008-03-25

Author: Kosuke Imai , David A. van Dyk .
Title: R Package for Fitting the Multinomial Probit Model
Description: MNP is a publicly available R package that fits the Bayesian multinomial probit model via Markov chain Monte Carlo. The multinomial probit model is often used to analyze the discrete choices made by individuals recorded in survey data. Examples where the multinomial probit model may be useful include the analysis of product choice by consumers in market research and the analysis of candidate or party choice by voters in electoral studies. The MNP software can also fit the model with different choice sets for each individual, and complete or partial individual choice orderings of the available alternatives from the choice set. The estimation is based on the efficient marginal data augmentation algorithm that is developed by Imai and van Dyk (2005). ``A Bayesian Analysis of the Multinomial Probit Model Using the Data Augmentation,'' Journal of Econometrics, Vol. 124, No. 2 (February), pp. 311-334. Detailed examples are given in Imai and van Dyk (2005). ``MNP: R Package for Fitting the Multinomial Probit Model.'' Journal of Statistical Software, Vol. 14, No. 3 (May), pp. 1-32.

Diff between MNP versions 2.5-6 dated 2008-03-25 and 2.6-1 dated 2009-09-24

 DESCRIPTION |   50 +++++++++++++++++++++++++++-----------------------
 MNP.pdf     |only
 R/mnp.R     |   21 ++++++++++++++-------
 man/mnp.Rd  |   34 +++++++++++++++++++++-------------
 src/MNP.c   |   10 +++++++++-
 5 files changed, 71 insertions(+), 44 deletions(-)

More information about MNP at CRAN
Permanent link

Wed, 23 Sep 2009

Package plm updated to version 1.2-0 with previous version 1.1-4 dated 2009-06-07

Author: Yves Croissant , Giovanni Millo
Title: Linear models for panel data
Description: A set of estimators and tests for panel data

Diff between plm versions 1.1-4 dated 2009-06-07 and 1.2-0 dated 2009-09-23

 DESCRIPTION            |   10 
 NAMESPACE              |  184 -
 R/attributes.R         |   70 
 R/describe.R           |only
 R/divers.R             |   24 
 R/dynformula.R         |    5 
 R/ercomp.R             |   95 
 R/fixef.R              |    7 
 R/has.intercept.R      |only
 R/options.R            |    2 
 R/pFormula.R           |  237 -
 R/pcdtest.R            |  149 
 R/pfunctions.R         |  545 ++-
 R/pggls.R              |   12 
 R/pgmm.R               |   50 
 R/pht.R                |only
 R/plm.R                |  366 --
 R/plm.data.R           |    2 
 R/plm.methods.R        |   18 
 R/pserial.R            |   55 
 R/ptest.R              |   20 
 R/pvcm.R               |   38 
 changelog              |   20 
 inst/doc/bibliojss.bib |   15 
 inst/doc/plm.R         |only
 inst/doc/plm.pdf       | 7751 ++++++++++++++++++++++++-------------------------
 inst/doc/plm.rnw       |  253 +
 man/Produc.Rd          |    2 
 man/dynformula.Rd      |   57 
 man/ercomp.Rd          |   37 
 man/fixef.plm.Rd       |   12 
 man/pFormula.Rd        |only
 man/pdata.frame.Rd     |only
 man/pdim.Rd            |   29 
 man/pggls.Rd           |   22 
 man/pgmm.Rd            |   30 
 man/pht.Rd             |only
 man/phtest.Rd          |    2 
 man/plm.Rd             |    9 
 man/plm.data.Rd        |    6 
 man/pmodel.response.Rd |only
 man/pooltest.Rd        |    2 
 man/pserie.Rd          |only
 man/pvar.Rd            |   47 
 man/pvcm.Rd            |   30 
 man/pwtest.Rd          |    2 
 man/sargan.Rd          |    8 
 man/vcovHC.Rd          |   10 
 tests                  |only
 49 files changed, 5245 insertions(+), 4988 deletions(-)

More information about plm at CRAN
Permanent link

Package Formula updated to version 0.2-0 with previous version 0.1-3 dated 2009-02-13

Author: Yves Croissant, Achim Zeileis
Title: Extended Model Formulas
Description: Infrastructure for extended formulas with multiple parts on the right-hand side and/or multiple responses on the left-hand side.

Diff between Formula versions 0.1-3 dated 2009-02-13 and 0.2-0 dated 2009-09-23

 COPYRIGHTS                 |    2 
 DESCRIPTION                |   16 +
 NAMESPACE                  |   24 +-
 NEWS                       |   30 +++
 R/Formula.R                |  390 +++++++++++++++++++++++++++++++--------------
 inst/doc                   |only
 man/Formula.Rd             |  190 +++++++++++----------
 man/model.frame.Formula.Rd |only
 8 files changed, 429 insertions(+), 223 deletions(-)

More information about Formula at CRAN
Permanent link

Package AER updated to version 1.1-4 with previous version 1.1-3 dated 2009-05-21

Author: Christian Kleiber, Achim Zeileis
Title: Applied Econometrics with R
Description: Functions, data sets, examples, demos, and vignettes for the book Christian Kleiber and Achim Zeileis (2008), Applied Econometrics with R, Springer-Verlag, New York. ISBN 978-0-387-77316-2. (See the vignette for a package overview.)

Diff between AER versions 1.1-3 dated 2009-05-21 and 1.1-4 dated 2009-09-23

 DESCRIPTION                          |   12 +++---
 NEWS                                 |   10 +++++
 R/ivreg.R                            |   62 +++++++----------------------------
 inst/doc/AER.Rnw                     |    9 ++++-
 inst/doc/AER.pdf                     |binary
 inst/doc/Sweave-journals.pdf         |   12 +++---
 man/BenderlyZwick.Rd                 |    2 -
 man/CollegeDistance.Rd               |    2 -
 man/Greene2003.Rd                    |    4 +-
 man/GrowthDJ.Rd                      |    8 +---
 man/HousePrices.Rd                   |    2 -
 man/ManufactCosts.Rd                 |    2 -
 man/MotorCycles.Rd                   |    2 -
 man/OECDGas.Rd                       |    2 -
 man/OECDGrowth.Rd                    |    2 -
 man/PSID1976.Rd                      |    2 -
 man/RecreationDemand.Rd              |    2 -
 man/ResumeNames.Rd                   |    2 -
 man/STAR.Rd                          |    8 ++--
 man/ivreg.Rd                         |    2 -
 man/ivreg.fit.Rd                     |    6 +--
 man/summary.ivreg.Rd                 |    6 +--
 man/tobit.Rd                         |   12 +++---
 tests/Ch-Basics.Rout.save            |    4 +-
 tests/Ch-Intro.Rout.save             |   12 +++---
 tests/Ch-LinearRegression.Rout.save  |   39 ++++++----------------
 tests/Ch-Microeconometrics.Rout.save |    7 ++-
 tests/Ch-Programming.Rout.save       |    4 +-
 tests/Ch-TimeSeries.Rout.save        |    8 ++--
 tests/Ch-Validation.Rout.save        |    8 ++--
 tests/Rplots.pdf                     |only
 31 files changed, 113 insertions(+), 140 deletions(-)

More information about AER at CRAN
Permanent link

Package stringkernels updated to version 0.8.7 with previous version 0.8.6 dated 2009-08-21

Author: Martin Kober
Title: String Kernel Methods for kernlab
Description: Gapped and word-based string kernels for use with kernlab

Diff between stringkernels versions 0.8.6 dated 2009-08-21 and 0.8.7 dated 2009-09-23

 DESCRIPTION                 |    9 +++++----
 man/multigapweightkernel.Rd |   10 ++++++++--
 man/precomputed.Rd          |   12 +++++++++---
 3 files changed, 22 insertions(+), 9 deletions(-)

More information about stringkernels at CRAN
Permanent link

Package epicalc updated to version 2.9.2.2 with previous version 2.9.2.1 dated 2009-09-21

Author: Virasakdi Chongsuvivatwong
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.

Diff between epicalc versions 2.9.2.1 dated 2009-09-21 and 2.9.2.2 dated 2009-09-23

 DESCRIPTION |    8 ++++----
 R/epicalc.R |   55 ++++++++++++++++++++++++++++++++++++-------------------
 2 files changed, 40 insertions(+), 23 deletions(-)

More information about epicalc at CRAN
Permanent link

New package difR with initial version 1.0
Package: difR
Type: Package
Title: Some traditional methods to detect dichotomous differential item functionning (DIF) in psychometrics.
Version: 1.0
Date: 2009-09-21
Encoding: latin1
Author: Sebastien Beland (UQAM), David Magis (KU Leuven) and Gilles Raiche (UQAM)
Maintainer: Sebastien Beland
Depends: R (>= 2.8.0), lme4, ltm
Description: The difR package contains several traditional methods to detect DIF in dichotomously scored items. Both uniform and non-uniform DIF effects can be detected, with methods relying upon item response models or not. Some methods deal with more than one focal group.
License: file LICENSE
LazyLoad: yes
Packaged: 2009-09-23 18:39:19 UTC; Gilles Raîches
Repository: CRAN
Date/Publication: 2009-09-23 20:11:42

More information about difR at CRAN
Permanent link

Package pcalg updated to version 0.1-9 with previous version 0.1-8 dated 2009-03-06

Author: Markus Kalisch, Martin Maechler, Diego Colombo
Title: Estimation of CPDAG/PAG and causal inference
Description: Standard and robust estimation the equivalence class of a Directed Acyclic Graph (DAG) via the PC-Algorithm. The equivalence class is represented by its (unique) Completetd Partially Directed Acyclic Graph (CPDAG). The function pcSelect implements variable selection techniques based on the PC-algorithm. Furthermore, a PAG instead of a CPDAG can be estimated if latent variables and/or selection variables are assumed to be present. Functions for causal inference (using do-calculus of Judea Pearl) are provided for CPDAGs.

Diff between pcalg versions 0.1-8 dated 2009-03-06 and 0.1-9 dated 2009-09-23

 DESCRIPTION               |   28 -
 NAMESPACE                 |    9 
 R/pcalg.R                 |  946 +++++++++++++++++++++++++++++++++++++++++++++-
 inst/doc/Sweave-pcalg.pdf |binary
 man/compareGraphs.Rd      |    2 
 man/pcAlgo.Rd             |    8 
 man/pcalg-internal.Rd     |    6 
 man/plotAG.Rd             |only
 man/udag2pag.Rd           |only
 tests/test_udag2pag.R     |only
 10 files changed, 979 insertions(+), 20 deletions(-)

More information about pcalg at CRAN
Permanent link

Package nplplot updated to version 4.4 with previous version 4.3 dated 2009-06-16

Author: Nandita Mukhopadhyay , Daniel E. Weeks , Xinyu Tang
Title: Plotting non-parametric linkage results
Description: nplplot: Plots curves for non parametric linkage results contained within a file or a table; nplplot.multi: wrapper function for nplplot to graph multiple plot-data files, and save these in PDF or postscript format; nplplot.old: the old nplplot function that combined nplplot and nplplot.multi into one function, please use the other two functions instead.

Diff between nplplot versions 4.3 dated 2009-06-16 and 4.4 dated 2009-09-23

 DESCRIPTION       |    8 ++++----
 R/nplplot.multi.R |   15 +--------------
 2 files changed, 5 insertions(+), 18 deletions(-)

More information about nplplot at CRAN
Permanent link

Package mboost updated to version 1.1-3 with previous version 1.1-2 dated 2009-07-21

Author: Torsten Hothorn, Peter Buhlmann, Thomas Kneib, Matthias Schmid and Benjamin Hofner
Title: Model-Based Boosting
Description: Functional gradient descent algorithms (boosting) for optimizing general loss functions utilizing componentwise least squares, either of parametric linear form or smoothing splines, or regression trees as base learners for fitting generalized linear, additive and interaction models to potentially high-dimensional data.

Diff between mboost versions 1.1-2 dated 2009-07-21 and 1.1-3 dated 2009-09-23

 mboost-1.1-2/mboost/tests/codetools-checks.R             |only
 mboost-1.1-2/mboost/tests/codetools-checks.Rout.save     |only
 mboost-1.1-3/mboost/DESCRIPTION                          |    8 
 mboost-1.1-3/mboost/NEWS                                 |   42 +-
 mboost-1.1-3/mboost/R/crossvalidation.R                  |   15 
 mboost-1.1-3/mboost/R/family.R                           |    3 
 mboost-1.1-3/mboost/R/gamboost.R                         |    6 
 mboost-1.1-3/mboost/R/glmboost.R                         |   46 +-
 mboost-1.1-3/mboost/R/xsp.R                              |   46 +-
 mboost-1.1-3/mboost/benny.txt                            |only
 mboost-1.1-3/mboost/inst/CHANGES                         |   42 +-
 mboost-1.1-3/mboost/inst/Rplots.pdf                      |only
 mboost-1.1-3/mboost/inst/birds_Biometrics.Rout           |only
 mboost-1.1-3/mboost/inst/doc/SurvivalEnsembles.pdf       |binary
 mboost-1.1-3/mboost/inst/doc/mboost_illustrations.R      |only
 mboost-1.1-3/mboost/inst/doc/mboost_illustrations.bbl    |only
 mboost-1.1-3/mboost/inst/doc/mboost_illustrations.blg    |only
 mboost-1.1-3/mboost/inst/doc/mboost_illustrations.pdf    |binary
 mboost-1.1-3/mboost/man/baselearners.Rd                  |   15 
 mboost-1.1-3/mboost/man/blackboost.Rd                    |    6 
 mboost-1.1-3/mboost/man/methods.Rd                       |    3 
 mboost-1.1-3/mboost/tests/Examples/mboost-Ex.Rout.save   |  243 +++++++++------
 mboost-1.1-3/mboost/tests/bugfixes.Rout.save             |    7 
 mboost-1.1-3/mboost/tests/mboost_illustrations.Rout.save |   44 +-
 mboost-1.1-3/mboost/tests/regtest-blackboost.Rout.save   |   52 +--
 mboost-1.1-3/mboost/tests/regtest-gamboost.Rout.save     |    1 
 mboost-1.1-3/mboost/to_do_list.txt                       |    2 
 27 files changed, 349 insertions(+), 232 deletions(-)

More information about mboost at CRAN
Permanent link

Package integrOmics updated to version 2.4 with previous version 2.3 dated 2009-07-18

Author: Sebastien Dejean, Ignacio Gonzalez and Kim-Anh Le Cao
Title: Integrate Omics data project
Description: The package supplies two efficients methodologies: regularized CCA and sparse PLS to unravel relationships between two heterogeneous data sets of size (nxp) and (nxq) where the p and q variables are measured on the same samples or individuals n. These data may come from high throughput technologies, such as omics data (e.g. transcriptomics, metabolomics or proteomics data) that require an integrative or joint analysis. However, integrOmics can also be applied to any other large data sets where p+q>>n. rCCA is a regularized version of CCA to deal with the large number of variables. sPLS allows variable selection in a one step procedure and two frameworks are proposed: regression and canonical analysis. Numerous graphical outputs are provided to help interpreting the results.

Diff between integrOmics versions 2.3 dated 2009-07-18 and 2.4 dated 2009-09-23

 DESCRIPTION          |   10 +++++-----
 NAMESPACE            |   12 +++++++++++-
 R/plot3dIndiv.rcc.R  |only
 R/plot3dIndiv.spls.R |only
 R/plot3dVar.rcc.R    |only
 R/plot3dVar.spls.R   |only
 R/pls.R              |    4 ++--
 R/spls.R             |    8 +++++---
 R/valid.R            |   22 ++--------------------
 man/network.Rd       |   45 ++++++++++++++++++++++++---------------------
 man/plot3dIndiv.Rd   |only
 man/plot3dVar.Rd     |only
 man/pls.Rd           |    6 ++++--
 man/spls.Rd          |    4 +++-
 man/valid.Rd         |    7 +++++--
 15 files changed, 61 insertions(+), 57 deletions(-)

More information about integrOmics at CRAN
Permanent link

Package R.huge updated to version 0.1.9 with previous version 0.1.8 dated 2009-06-14

Author: Henrik Bengtsson
Title: Methods for accessing huge amounts of data [DEPRECATED]
Description: THIS PACKAGE HAS BEEN DEPRECATED. Do not start building new projects based on it. Cross-platform alternatives are the following packages: bigmemory (CRAN), ff (CRAN), BufferedMatrix (BioConductor). The main usage of it was inside the aroma.affymetrix package. (The package currently provides a class representing a matrix where the actual data is stored in a binary format on the local file system. This way the size limit of the data is set by the file system and not the memory.)

Diff between R.huge versions 0.1.8 dated 2009-06-14 and 0.1.9 dated 2009-09-23

 DESCRIPTION                            |   12 +++++++-----
 R/AbstractFileArray.R                  |   26 ++++++++++++++++++++++++--
 R/FileMatrix.R                         |    4 ----
 inst/NEWS                              |    7 +++++++
 man/AbstractFileArray.Rd               |    2 +-
 man/FileMatrix.Rd                      |    2 +-
 man/FileVector.Rd                      |    2 +-
 man/colnames.FileMatrix.Rd             |    1 -
 man/ncol.FileMatrix.Rd                 |    1 -
 man/nrow.FileMatrix.Rd                 |    1 -
 man/readAllValues.AbstractFileArray.Rd |    2 +-
 man/rownames.FileMatrix.Rd             |    1 -
 12 files changed, 42 insertions(+), 19 deletions(-)

More information about R.huge at CRAN
Permanent link

Package QCA updated to version 0.6-2 with previous version 0.6-1 dated 2009-09-22

Author: Adrian Dusa
Title: Qualitative Comparative Analysis
Description: Performs the Quine-McCluskey algorithm for Qualitative Comparative Analysis, both for bvQCA (binary-value QCA) and for mvQCA (multi-value QCA). In the classical approach it currently handles about 15 conditions and one outcome for binary data only, but since version 0.4-5 the package has an enhanced, faster function that obtains the same exact solutions with a substantially lower memory consumption, it handles even more causal conditions and it can be used for mvQCA as well. The next versions of this algorithm will be oriented towards fuzzy-set functions. Also, in the near future the current functions will deal with missing values in the data

Diff between QCA versions 0.6-1 dated 2009-09-22 and 0.6-2 dated 2009-09-23

 DESCRIPTION           |   29 +++++++++++-------------
 R/createString.R      |    2 -
 R/demoChart.R         |    1 
 R/eqmcc.R             |    3 --
 R/factorize.R         |   42 +++++------------------------------
 R/findPrimes.R        |   12 +++++++---
 R/findSubsets.R       |    1 
 R/qmcc.R              |    2 -
 R/writePrimeimp.R     |    2 -
 inst/CHANGES          |   60 +++++++++++++++++++++++++++++++-------------------
 man/QCA.package.Rd    |   18 ++++++---------
 man/allExpressions.Rd |    2 -
 man/createMatrix.Rd   |    2 -
 man/demoChart.Rd      |    6 ++---
 man/eqmcc.Rd          |   10 +++++---
 man/factorize.Rd      |    9 +++----
 man/findPrimes.Rd     |    3 --
 man/findSubsets.Rd    |    3 --
 man/qmcc.Rd           |    6 ++---
 man/solveChart.Rd     |    2 -
 man/truthTable.Rd     |    2 -
 21 files changed, 105 insertions(+), 112 deletions(-)

More information about QCA at CRAN
Permanent link

Package HyperbolicDist updated to version 0.6-2 with previous version 0.5-3 dated 2009-03-12

Author: David Scott
Title: The hyperbolic distribution
Description: This package provides functions for the hyperbolic and related distributions. Density, distribution and quantile functions and random number generation are provided for the hyperbolic distribution, the generalized hyperbolic distribution, the generalized inverse Gaussian distribution and the skew-Laplace distribution. Additional functionality is provided for the hyperbolic distribution, including fitting of the hyperbolic to data.

Diff between HyperbolicDist versions 0.5-3 dated 2009-03-12 and 0.6-2 dated 2009-09-23

 HyperbolicDist-0.5-3/HyperbolicDist/R/ghypMean.R             |only
 HyperbolicDist-0.5-3/HyperbolicDist/R/gigMean.R              |only
 HyperbolicDist-0.5-3/HyperbolicDist/R/hyperbMean.R           |only
 HyperbolicDist-0.5-3/HyperbolicDist/man/ghypMean.Rd          |only
 HyperbolicDist-0.5-3/HyperbolicDist/man/gigMean.Rd           |only
 HyperbolicDist-0.5-3/HyperbolicDist/man/hyperbMean.Rd        |only
 HyperbolicDist-0.6-2/HyperbolicDist/ChangeLog                |  152 +++++++----
 HyperbolicDist-0.6-2/HyperbolicDist/DESCRIPTION              |   13 
 HyperbolicDist-0.6-2/HyperbolicDist/NAMESPACE                |    4 
 HyperbolicDist-0.6-2/HyperbolicDist/R/besselRatio.R          |only
 HyperbolicDist-0.6-2/HyperbolicDist/R/ghypMeanVarMode.R      |only
 HyperbolicDist-0.6-2/HyperbolicDist/R/ghypMom.R              |only
 HyperbolicDist-0.6-2/HyperbolicDist/R/gigCheckPars.R         |only
 HyperbolicDist-0.6-2/HyperbolicDist/R/gigMeanVarMode.R       |only
 HyperbolicDist-0.6-2/HyperbolicDist/R/gigMom.R               |only
 HyperbolicDist-0.6-2/HyperbolicDist/R/hyperbMeanVarMode.R    |only
 HyperbolicDist-0.6-2/HyperbolicDist/R/is.wholenumber.R       |only
 HyperbolicDist-0.6-2/HyperbolicDist/R/momChangeAbout.R       |only
 HyperbolicDist-0.6-2/HyperbolicDist/R/momIntegrated.R        |only
 HyperbolicDist-0.6-2/HyperbolicDist/R/momRecursion.R         |only
 HyperbolicDist-0.6-2/HyperbolicDist/man/besselRatio.Rd       |only
 HyperbolicDist-0.6-2/HyperbolicDist/man/ghypMeanVarMode.Rd   |only
 HyperbolicDist-0.6-2/HyperbolicDist/man/ghypMom.Rd           |only
 HyperbolicDist-0.6-2/HyperbolicDist/man/gigCheckPars.Rd      |only
 HyperbolicDist-0.6-2/HyperbolicDist/man/gigMeanVarMode.Rd    |only
 HyperbolicDist-0.6-2/HyperbolicDist/man/gigMom.Rd            |only
 HyperbolicDist-0.6-2/HyperbolicDist/man/hyperbFit.Rd         |    4 
 HyperbolicDist-0.6-2/HyperbolicDist/man/hyperbMeanVarMode.Rd |only
 HyperbolicDist-0.6-2/HyperbolicDist/man/is.wholenumber.Rd    |only
 HyperbolicDist-0.6-2/HyperbolicDist/man/momChangeAbout.Rd    |only
 HyperbolicDist-0.6-2/HyperbolicDist/man/momIntegrated.Rd     |only
 HyperbolicDist-0.6-2/HyperbolicDist/man/momRecursion.Rd      |only
 HyperbolicDist-0.6-2/HyperbolicDist/man/safeIntegrate.Rd     |   10 
 HyperbolicDist-0.6-2/HyperbolicDist/tests                    |only
 34 files changed, 122 insertions(+), 61 deletions(-)

More information about HyperbolicDist at CRAN
Permanent link

Tue, 22 Sep 2009

Package survey updated to version 3.18 with previous version 3.17 dated 2009-09-18

Author: Thomas Lumley
Title: analysis of complex survey samples
Description: Summary statistics, generalised linear models, cumulative link models, Cox models, loglinear models, and general maximum pseudolikelihood estimation for multistage stratified, cluster-sampled, unequally weighted survey samples. Variances by Taylor series linearisation or replicate weights. Post-stratification, calibration, and raking. Two-phase subsampling designs. Graphics. Predictive margins by direct standardization. PPS sampling without replacement.

Diff between survey versions 3.17 dated 2009-09-18 and 3.18 dated 2009-09-22

 DESCRIPTION         |   22 +++---
 INDEX               |   10 +-
 R/multistage.R      |    2 
 R/surveyrep.R       |    2 
 R/svymi.R           |   15 ++--
 TODO                |    8 +-
 inst/NEWS           |    7 ++
 inst/doc/domain.pdf |binary
 inst/doc/epi.pdf    |binary
 inst/doc/phase1.pdf |  182 +++++++++++++++++++++++++---------------------------
 inst/doc/pps.pdf    |binary
 inst/doc/survey.pdf |binary
 man/svrepdesign.Rd  |    4 -
 13 files changed, 131 insertions(+), 121 deletions(-)

More information about survey at CRAN
Permanent link

New package nnclust with initial version 2.1
Package: nnclust
Type: Package
Title: Nearest-neighbour tools for clustering
Version: 2.1
Author: Thomas Lumley
Maintainer: Thomas Lumley
Description: Finds nearest neighours and the minimum spanning tree for large data sets, does clustering using the minimum spanning tree.
Suggests: hexbin
License: GPL-2
LazyLoad: yes
Packaged: 2009-09-22 19:18:33 UTC; tlumley
Repository: CRAN
Date/Publication: 2009-09-22 20:24:11

More information about nnclust at CRAN
Permanent link

Package impute updated to version 1.18.0 with previous version 1.16.0 dated 2009-05-10

Author: Trevor Hastie, Robert Tibshirani, Balasubramanian Narasimhan, Gilbert Chu
Title: impute: Imputation for microarray data
Description: Imputation for microarray data (currently KNN only)

Diff between impute versions 1.16.0 dated 2009-05-10 and 1.18.0 dated 2009-09-22

 DESCRIPTION       |    6 +++---
 R/allknnimp.R     |    2 +-
 man/impute.knn.Rd |    4 ++++
 man/khanmiss.Rd   |    2 --
 4 files changed, 8 insertions(+), 6 deletions(-)

More information about impute at CRAN
Permanent link

Package fields updated to version 6.01 with previous version 5.02 dated 2009-02-09

Author: Reinhard Furrer, Douglas Nychka and Stephen Sain
Title: Tools for spatial data
Description: Fields is for curve, surface and function fitting with an emphasis on splines, spatial data and spatial statistics. The major methods include cubic, robust, and thin plate splines, multivariate Kriging and Kriging for large data sets. A major feature is that any covariance function implemented in R can be used for spatial prediction. There are also many useful functions for plotting and working with spatial data as images. This package also contains an implementation of a sparse matrix methods for large data sets and currently requires the sparse matrix (spam) package for testing (but not for the standard spatial functions.) Use help(fields) to get started and for an overview.

Diff between fields versions 5.02 dated 2009-02-09 and 6.01 dated 2009-09-22

 DESCRIPTION                           |   34 -
 INDEX                                 |    9 
 R/BD.R                                |  104 +--
 R/COR.R                               |    5 
 R/D4transform.image.R                 |    6 
 R/Exponential.R                       |   27 
 R/Krig.Amatrix.R                      |   50 -
 R/Krig.R                              |  742 ++++++++++++--------------
 R/Krig.check.xY.R                     |  145 ++---
 R/Krig.coef.R                         |  184 ++----
 R/Krig.cor.Y.R                        |   27 
 R/Krig.df.to.lambda.R                 |    7 
 R/Krig.engine.default.R               |  308 +++++-----
 R/Krig.engine.fixed.R                 |  269 ++++-----
 R/Krig.engine.knots.R                 |  162 ++---
 R/Krig.fdf.R                          |    7 
 R/Krig.fgcv.R                         |   36 -
 R/Krig.fgcv.model.R                   |   16 
 R/Krig.fgcv.one.R                     |   21 
 R/Krig.find.REML.R                    |   22 
 R/Krig.find.gcvmin.R                  |   15 
 R/Krig.flplike.R                      |   36 -
 R/Krig.fs2hat.R                       |   27 
 R/Krig.ftrace.R                       |    7 
 R/Krig.make.W.R                       |   74 +-
 R/Krig.make.Wi.R                      |   43 -
 R/Krig.make.u.R                       |   89 +--
 R/Krig.null.function.R                |   27 
 R/Krig.parameters.R                   |   39 -
 R/Krig.replicates.R                   |   77 +-
 R/Krig.transform.xY.R                 |   55 -
 R/Krig.updateY.R                      |  167 ++---
 R/Krig.which.lambda.R                 |   97 +--
 R/Krig.ynew.R                         |  121 +---
 R/Matern.R                            |   54 -
 R/Matern.parameters.R                 |only
 R/RMprecip.R                          |  955 +++++++++++++++++-----------------
 R/RadialBasis.R                       |   30 -
 R/SUBSCRIPTING.spatial.design.R       |    5 
 R/Tps.R                               |   15 
 R/US.R                                |   17 
 R/W.family.R                          |  587 +++++++++-----------
 R/WD4.R                               |    5 
 R/WD42d.R                             |    5 
 R/WD42di.R                            |    5 
 R/WD4i.R                              |    5 
 R/WQS.R                               |    5 
 R/WQS.T.R                             |    5 
 R/WQS.basis.R                         |    7 
 R/WQS2d.R                             |    5 
 R/WQS2di.R                            |    5 
 R/WQSdi.R                             |    5 
 R/WQSi.R                              |    5 
 R/WQSi.T.R                            |    5 
 R/Wimage.cov.R                        |   62 +-
 R/Wimage.info.plot.R                  |   58 --
 R/Wimage.sim.R                        |   30 -
 R/Wtransform.R                        |   41 -
 R/Wtransform.cylinder.family.R        |  147 ++---
 R/Wtransform.image.R                  |   15 
 R/Wtransform.image.cov.R              |   65 --
 R/add.image.R                         |   56 -
 R/arrow.plot.R                        |    7 
 R/as.image.R                          |  183 ++----
 R/as.surface.R                        |   43 -
 R/bisection.search.R                  |    6 
 R/bplot.R                             |   10 
 R/bplot.obj.R                         |   58 +-
 R/bplot.xy.R                          |    8 
 R/cat.matrix.R                        |    5 
 R/cat.to.list.R                       |    5 
 R/ceiling2.R                          |    5 
 R/coef.Krig.R                         |    7 
 R/colorbar.plot.R                     |  113 +---
 R/conjugate.gradient.R                |   13 
 R/cover.design.R                      |   72 +-
 R/cubic.cov.R                         |   60 --
 R/describe.R                          |    5 
 R/describe.bplot.R                    |   25 
 R/diag.multiply.R                     |   47 -
 R/discretize.image.R                  |   92 +--
 R/double.exp.R                        |    9 
 R/drape.color.R                       |   62 --
 R/drape.plot.R                        |  104 +--
 R/draw.bplot.R                        |   10 
 R/draw.bplot.obj.R                    |   26 
 R/dyadic.2check.R                     |   36 -
 R/dyadic.check.R                      |   30 -
 R/evlpoly.R                           |   26 
 R/evlpoly2.R                          |   37 -
 R/exp.cov.R                           |   52 -
 R/exp.earth.cov.R                     |    5 
 R/exp.image.cov.R                     |    6 
 R/exp.simple.cov.R                    |   85 +--
 R/fast.1way.R                         |   51 -
 R/fastTps.R                           |   21 
 R/fields.color.picker.R               |   73 +-
 R/fields.convert.grid.R               |   35 -
 R/fields.derivative.poly.R            |   50 -
 R/fields.diagonalize.R                |   69 +-
 R/fields.duplicated.matrix.R          |    5 
 R/fields.mkpoly.R                     |   13 
 R/fields.rdist.near.R                 |   50 -
 R/fields.style.R                      |   11 
 R/fields.x.to.grid.R                  |   40 -
 R/find.upcross.R                      |    6 
 R/fitted.Krig.R                       |    7 
 R/flame.R                             |   47 -
 R/gauss.cov.R                         |    6 
 R/gcv.Krig.R                          |  189 ++----
 R/golden.section.search.R             |    9 
 R/grey.level.R                        |    6 
 R/image.plot.R                        |  250 +++-----
 R/image.plot.info.R                   |  142 ++---
 R/image.plot.plt.R                    |   26 
 R/image.smooth.R                      |  114 +---
 R/image2lz.R                          |  265 ++++-----
 R/in.poly.R                           |   59 +-
 R/interp.surface.R                    |  108 +--
 R/interp.surface.grid.R               |   23 
 R/krig.image.R                        |   14 
 R/krig.image.parameters.R             |   11 
 R/lonlat2xy.R                         |    5 
 R/mKrig.family.R                      |  449 +++++++++------
 R/make.surface.grid.R                 |   42 -
 R/matern.image.cov.R                  |   23 
 R/minimax.crit.R                      |    5 
 R/minitri.R                           |  104 +--
 R/ozone.R                             |   71 +-
 R/parse.grid.list.R                   |   72 +-
 R/periodic.cov.1d.R                   |    5 
 R/periodic.cov.cyl.R                  |    6 
 R/periodic.plane.3d.R                 |    6 
 R/plot.Krig.R                         |   39 -
 R/plot.Wimage.R                       |   50 -
 R/plot.krig.image.R                   |   17 
 R/plot.sim.krig.image.R               |    9 
 R/plot.spatial.design.R               |    6 
 R/plot.sreg.R                         |   85 +--
 R/plot.surface.R                      |   19 
 R/plot.vgram.matrix.R                 |   37 -
 R/poisson.cov.R                       |   27 
 R/poly.image.R                        |  131 ++--
 R/predict.Krig.R                      |  211 +++----
 R/predict.derivatives.Krig.R          |only
 R/predict.interp.surface.R            |    8 
 R/predict.krig.image.R                |    7 
 R/predict.se.Krig.R                   |  231 +++-----
 R/predict.se.KrigA.R                  |  224 +++----
 R/predict.se.R                        |    5 
 R/predict.se.mKrig.R                  |only
 R/predict.sreg.R                      |   18 
 R/predict.surface.R                   |  109 ++-
 R/predict.surface.se.R                |  142 ++---
 R/print.Krig.R                        |   30 -
 R/print.krig.image.R                  |    5 
 R/print.qsreg.R                       |    7 
 R/print.spatial.design.R              |    5 
 R/print.sreg.R                        |   62 +-
 R/print.summary.Krig.R                |   69 +-
 R/print.summary.krig.image.R          |    5 
 R/print.summary.spatial.design.R      |    6 
 R/print.summary.sreg.R                |   92 +--
 R/qr.q2ty.R                           |    5 
 R/qr.yq2.R                            |    5 
 R/qsreg.family.R                      |  279 ++++-----
 R/qsreg.trace.R                       |   44 -
 R/quilt.plot.R                        |   59 --
 R/rad.cov.R                           |  120 ++--
 R/rad.image.cov.R                     |    6 
 R/rad.simple.cov.R                    |   44 -
 R/radbas.constant.R                   |   38 -
 R/rat.diet.R                          |   36 -
 R/rdist.R                             |   12 
 R/rdist.earth.R                       |   34 -
 R/replace.args.function.R             |    5 
 R/residuals.Krig.R                    |    7 
 R/ribbon.plot.R                       |   35 -
 R/set.panel.R                         |    5 
 R/setup.image.smooth.R                |   21 
 R/sim.Krig.grid.R                     |  255 +++------
 R/sim.Krig.standard.R                 |  257 ++++-----
 R/sim.krig.image.R                    |    5 
 R/sim.rf.R                            |    5 
 R/smooth.2d.R                         |   15 
 R/spam_2lz.R                          |   91 +--
 R/splint.R                            |   71 +-
 R/sreg.family.R                       |  655 +++++++++--------------
 R/stationary.cov.R                    |  126 ++--
 R/stationary.image.cov.R              |   80 +-
 R/stationary.taper.cov.R              |  233 ++++----
 R/stats.R                             |    5 
 R/stats.bin.R                         |    5 
 R/stats.bplot.R                       |    6 
 R/stats.sim.krig.image.R              |    5 
 R/summary.Krig.R                      |   36 -
 R/summary.gcv.Krig.R                  |   13 
 R/summary.gcv.sreg.R                  |   53 -
 R/summary.krig.image.R                |    8 
 R/summary.ncdf.R                      |   28 
 R/summary.qsreg.R                     |   10 
 R/summary.spatial.design.R            |    8 
 R/summary.sreg.R                      |   46 -
 R/surface.Krig.R                      |   45 -
 R/surface.R                           |    7 
 R/surface.default.R                   |    7 
 R/surface.krig.image.R                |   10 
 R/surface.mKrig.R                     |   45 -
 R/surface.surface.R                   |    9 
 R/test.for.zero.R                     |   40 -
 R/tim.colors.R                        |   62 --
 R/transformx.R                        |    6 
 R/unscale.R                           |    5 
 R/vgram.R                             |   56 -
 R/vgram.matrix.R                      |  135 ++--
 R/wendland.family.R                   |  493 +++++++++++------
 R/world.R                             |  166 ++---
 R/xline.R                             |    5 
 R/yline.R                             |    5 
 R/zzz.R                               |   11 
 data/CO2.rda                          |only
 data/COmonthlyMet.rda                 |binary
 data/ozone2.rda                       |only
 man/CO.Rd                             |  150 +++++
 man/CO2.Rd                            |only
 man/Exponential.Rd                    |   64 +-
 man/Krig.Rd                           |   65 +-
 man/RMprecip.Rd                       |    3 
 man/Tps.Rd                            |   99 ++-
 man/Wendland.Rd                       |   86 ++-
 man/arrow.plot.Rd                     |    5 
 man/exp.cov.Rd                        |  359 ++++++------
 man/fields-internal.Rd                |    6 
 man/fields.Rd                         |   49 +
 man/fields.grid.Rd                    |only
 man/fields.hints.Rd                   |   41 +
 man/gcv.Krig.Rd                       |    4 
 man/grid.list.Rd                      |   30 -
 man/image.cov.Rd                      |    5 
 man/image.plot.Rd                     |   24 
 man/image2lz.Rd                       |  125 +++-
 man/mKrig.Rd                          |  186 ++++--
 man/predict.Krig.Rd                   |   20 
 man/predict.se.Krig.Rd                |   28 
 man/predict.surface.Rd                |   15 
 man/quilt.plot.Rd                     |   22 
 man/set.panel.Rd                      |    2 
 man/world.Rd                          |    8 
 src/derrb.f                           |only
 src/igpoly.f                          |only
 src/inpoly.f                          |   55 +
 src/mltdrb.f                          |    4 
 src/radfn2.f                          |only
 src/radfun.f                          |    5 
 tests/Krig.Z.test.Rout.save           |   20 
 tests/Krig.se.W.Rout.save             |   20 
 tests/Krig.se.grid.test.Rout.save     |   20 
 tests/Krig.se.test.Rout.save          |   20 
 tests/Krig.test.Rout.save             |   20 
 tests/Krig.test.W.Rout.save           |   20 
 tests/Tps.test.R                      |   64 ++
 tests/Tps.test.Rout.save              |only
 tests/Wend.test.R                     |    6 
 tests/Wend.test.Rout.save             |   20 
 tests/cov.test.R                      |only
 tests/cov.test.Rout.save              |only
 tests/derivative.test.R               |   40 +
 tests/derivative.test.Rout.save       |   25 
 tests/diag.multiply.test.Rout.save    |   20 
 tests/evlpoly.test.Rout.save          |   20 
 tests/mKrig.parameters.test.R         |only
 tests/mKrig.parameters.test.Rout.save |only
 tests/mKrig.se.test.R                 |only
 tests/mKrig.se.test.Rout.save         |only
 tests/mKrig.test.R                    |   46 +
 tests/mKrig.test.Rout.save            |   37 -
 tests/misc.test.Rout.save             |   20 
 tests/spam.test.R                     |    8 
 tests/spam.test.Rout.save             |   20 
 tests/sreg.test.R                     |    2 
 tests/sreg.test.R.save                |only
 tests/sreg.test.Rout.save             |   22 
 tests/vgram.test.Rout.save            |only
 283 files changed, 8011 insertions(+), 8447 deletions(-)

More information about fields at CRAN
Permanent link

Package phmm updated to version 0.6.1 with previous version 0.6 dated 2009-09-03

Author: Michael Donohue, Ronghui Xu
Title: Proportional Hazards Mixed-effects Model (PHMM)
Description: Fits proportional hazards model incorporating random effects using an EM agorithm using Markov Chain Monte Carlo at E-step.

Diff between phmm versions 0.6 dated 2009-09-03 and 0.6.1 dated 2009-09-22

 DESCRIPTION    |    6 +++---
 R/phmm.R       |    6 ++++--
 src/ludcmp.c   |    7 +++----
 src/myludcmp.c |    7 +++----
 4 files changed, 13 insertions(+), 13 deletions(-)

More information about phmm at CRAN
Permanent link

Package pomp updated to version 0.25-4 with previous version 0.24-7 dated 2009-06-24

Author: Aaron A. King, Edward L. Ionides, Carles Martinez Breto, Steve Ellner, Bruce Kendall
Title: Statistical inference for partially observed Markov processes
Description: Inference methods for partially-observed Markov processes

Diff between pomp versions 0.24-7 dated 2009-06-24 and 0.25-4 dated 2009-09-22

 DESCRIPTION                          |   10 
 NAMESPACE                            |    8 
 R/aaa.R                              |   10 
 R/mif.R                              |   73 +-
 R/pomp-methods.R                     |   66 ++
 R/slice.R                            |only
 R/trajmatch.R                        |only
 data/euler.sir.rda                   |binary
 data/ou2.rda                         |binary
 data/rw2.rda                         |binary
 data/verhulst.rda                    |only
 inst/ChangeLog                       |   52 +
 inst/doc/advanced_topics_in_pomp.pdf |binary
 inst/doc/intro_to_pomp.Rnw           |    1 
 inst/doc/intro_to_pomp.pdf           |binary
 man/mif.Rd                           |   12 
 man/pomp-methods.Rd                  |   14 
 man/slice.Rd                         |only
 man/trajmatch.Rd                     |only
 man/verhulst.Rd                      |only
 src/euler.c                          |   19 
 tests/logistic.Rout.save             |    5 
 tests/ou2-kalman.Rout.save           |    3 
 tests/ou2-mif.R                      |  157 +++--
 tests/ou2-mif.Rout.save              |  202 ++++---
 tests/ou2-nlf.R                      |   35 +
 tests/ou2-nlf.Rout.save              |  141 ++++-
 tests/ou2-simulate.Rout.save         |    7 
 tests/ou2-trajmatch.R                |only
 tests/ou2-trajmatch.Rout.save        |only
 tests/rw2.R                          |   98 +++
 tests/rw2.Rout.save                  |  354 ++++++++++---
 tests/sir.R                          |   11 
 tests/sir.Rout.save                  |  932 ++++++++++++++++++++++++++++++++++-
 34 files changed, 1880 insertions(+), 330 deletions(-)

More information about pomp at CRAN
Permanent link

New package desire with initial version 1.0.5
Package: desire
Version: 1.0.5
Title: Desirability functions
Description: Harrington and Derringer-Suich type desirability functions
Author: Heike Trautmann and Detlef Steuer and Olaf Mersmann
Maintainer: Olaf Mersmann
Depends: R (>= 2.9.0), loglognorm
License: GPL-2
URL: http://git.datensplitter.net/cgit/desire/
LazyData: yes
Date:
Packaged: 2009-09-22 14:10:14 UTC; olafm
Repository: CRAN
Date/Publication: 2009-09-22 14:52:40

More information about desire at CRAN
Permanent link

Package ape updated to version 2.3-3 with previous version 2.3-2 dated 2009-07-21

Author: Emmanuel Paradis, Ben Bolker, Julien Claude, Hoa Sien Cuong, Richard Desper, Benoit Durand, Julien Dutheil, Olivier Gascuel, Gangolf Jobb, Christoph Heibl, Daniel Lawson, Vincent Lefort, Pierre Legendre, Jim Lemon, Yvonnick Noel, Johan Nylander, Rainer Opgen-Rhein, Korbinian Strimmer, Damien de Vienne
Title: Analyses of Phylogenetics and Evolution
Description: ape provides functions for reading, writing, plotting, and manipulating phylogenetic trees, analyses of comparative data in a phylogenetic framework, analyses of diversification and macroevolution, computing distances from allelic and nucleotide data, reading nucleotide sequences, and several tools such as Mantel's test, computation of minimum spanning tree, the population parameter theta based on various approaches, nucleotide diversity, generalized skyline plots, estimation of absolute evolutionary rates and clock-like trees using mean path lengths, non-parametric rate smoothing and penalized likelihood. Phylogeny estimation can be done with the NJ, BIONJ, and ME methods.

Diff between ape versions 2.3-2 dated 2009-07-21 and 2.3-3 dated 2009-09-22

 ChangeLog            |   25 +++++++++++++++++++++++++
 DESCRIPTION          |    8 ++++----
 R/Cheverud.R         |    4 +++-
 R/DNA.R              |   12 ++++++++----
 R/compar.ou.R        |    4 +++-
 R/dist.topo.R        |    2 +-
 R/drop.tip.R         |    7 ++++---
 R/root.R             |   11 ++++++++---
 R/rtree.R            |    2 +-
 R/scales.R           |   41 +++++++++++++++++++++++++++++++++++------
 R/write.nexus.R      |    6 +++---
 R/zoom.R             |    4 ++--
 Thanks               |    7 ++++---
 inst/doc/MoranI.pdf  |binary
 man/add.scale.bar.Rd |   12 ++++++------
 man/dist.gene.Rd     |    2 +-
 man/read.nexus.Rd    |    2 +-
 man/yule.time.Rd     |    2 +-
 man/zoom.Rd          |    6 +++---
 src/nj.c             |    2 +-
 20 files changed, 114 insertions(+), 45 deletions(-)

More information about ape at CRAN
Permanent link

Package MLCM updated to version 0.0-3 with previous version 0.0-2 dated 2009-09-18

Author: Kenneth Knoblauch and Laurence T. Maloney
Title: Maximum Likelihood Conjoint Measurement
Description: Conjoint measurement is a psychophysical procedure in which stimulus pairs are presented that vary along 2 or more dimensions and the observer is required to compare the stimuli along one of them. This package contains functions to estimate the contribution of the n scales to the judgment by a maximum likelihood method under several hypotheses of how the perceptual dimensions interact.

Diff between MLCM versions 0.0-2 dated 2009-09-18 and 0.0-3 dated 2009-09-22

 DESCRIPTION          |    8 ++++----
 NAMESPACE            |    1 +
 R/plot.mlcm.df.R     |only
 data/BumpyGlossy.rda |binary
 data/GlossyBumpy.rda |binary
 inst/NEWS            |   11 ++++++++++-
 man/BumpyGlossy.Rd   |    2 ++
 man/mlcm.Rd          |   11 +++++++++++
 man/plot.mlcm.df.Rd  |only
 9 files changed, 28 insertions(+), 5 deletions(-)

More information about MLCM at CRAN
Permanent link

New package potts with initial version 0.3-4
Package: potts
Version: 0.3-4
Date: 2009-09-21
Title: Markov Chain Monte Carlo for Potts Models
Author: Charles J. Geyer .
Maintainer: Charles J. Geyer
Depends: R (>= 2.6.0)
Suggests: pooh (>= 0.2)
Description: the title says it all
License: GPL (>= 2)
URL: http://www.stat.umn.edu/geyer/mcmc/
Packaged: 2009-09-21 15:20:17 UTC; charlie
Repository: CRAN
Date/Publication: 2009-09-22 08:22:40

More information about potts at CRAN
Permanent link

New package pooh with initial version 0.2
Package: pooh
Version: 0.2
Date: 2009-09-20
Title: Partial Orders and Relations
Author: Charles J. Geyer .
Maintainer: Charles J. Geyer
Depends: R (>= 2.4.1)
Description: functions for computing closures of relations
License: X11
URL: http://www.stat.umn.edu/geyer/pooh/
Packaged: 2009-09-20 23:43:25 UTC; charlie
Repository: CRAN
Date/Publication: 2009-09-22 08:22:39

More information about pooh at CRAN
Permanent link

Package mefa updated to version 3.1-2 with previous version 3.1-0 dated 2009-06-17

Author: Peter Solymos
Title: Multivariate Data Handling in Ecology and Biogeography
Description: A framework package aimed to provide standardized computational environment for specialist work via object classes to represent the data coded by samples, taxa and segments (i.e. subpopulations, repeated measures). It supports easy processing of the data along with cross tabulation and relational data tables for samples and taxa. An object of class `mefa' is a project specific compendium of the data and can be easily used in further analyses. Methods are provided for extraction, aggregation, conversion, plotting, summary and reporting of `mefa' objects. Reports can be generated in plain text or LaTeX format. Vignette contains worked examples.

Diff between mefa versions 3.1-0 dated 2009-06-17 and 3.1-2 dated 2009-09-22

 mefa-3.1-0/mefa/R/dist2vec.R              |only
 mefa-3.1-0/mefa/R/inflate.R               |only
 mefa-3.1-0/mefa/man/dist2vec.Rd           |only
 mefa-3.1-2/mefa/DESCRIPTION               |   10 +++++-----
 mefa-3.1-2/mefa/R/as.data.frame.dist.R    |   12 +++++++++---
 mefa-3.1-2/mefa/R/fill.na.R               |    9 ++++++++-
 mefa-3.1-2/mefa/R/rep.data.frame.R        |only
 mefa-3.1-2/mefa/R/stcs.R                  |    3 ++-
 mefa-3.1-2/mefa/inst/ChangeLog            |   18 +++++++++++++++++-
 mefa-3.1-2/mefa/inst/doc/mefa.pdf         |binary
 mefa-3.1-2/mefa/man/as.data.frame.dist.Rd |only
 mefa-3.1-2/mefa/man/as.mefa.Rd            |   12 ++++++------
 mefa-3.1-2/mefa/man/dolina.Rd             |    2 +-
 mefa-3.1-2/mefa/man/fill.na.Rd            |    3 ++-
 mefa-3.1-2/mefa/man/inflate.Rd            |   18 ++++++++++--------
 mefa-3.1-2/mefa/man/mefaCrosstab.Rd       |    2 +-
 mefa-3.1-2/mefa/man/stcs.Rd               |    2 +-
 17 files changed, 62 insertions(+), 29 deletions(-)

More information about mefa at CRAN
Permanent link

Package mcmc updated to version 0.7-2 with previous version 0.6 dated 2009-04-14

Author: Charles J. Geyer .
Title: Markov Chain Monte Carlo
Description: functions for Markov chain Monte Carlo (MCMC).

Diff between mcmc versions 0.6 dated 2009-04-14 and 0.7-2 dated 2009-09-22

 mcmc-0.6/mcmc/inst/doc/logit.txt               |only
 mcmc-0.7-2/mcmc/ChangeLog                      |   25 +++++++++++
 mcmc-0.7-2/mcmc/DESCRIPTION                    |    8 +--
 mcmc-0.7-2/mcmc/NAMESPACE                      |    3 +
 mcmc-0.7-2/mcmc/R/metrop.R                     |    4 +
 mcmc-0.7-2/mcmc/R/temper.R                     |only
 mcmc-0.7-2/mcmc/data                           |only
 mcmc-0.7-2/mcmc/inst/doc/Makefile              |    5 +-
 mcmc-0.7-2/mcmc/inst/doc/demo.Rnw              |   12 ++---
 mcmc-0.7-2/mcmc/inst/doc/demo.pdf              |binary
 mcmc-0.7-2/mcmc/inst/doc/demo.tex              |   55 ++++++++++++-------------
 mcmc-0.7-2/mcmc/inst/doc/metrop.pdf            |binary
 mcmc-0.7-2/mcmc/inst/doc/temper.pdf            |only
 mcmc-0.7-2/mcmc/inst/doc/temper.tex            |only
 mcmc-0.7-2/mcmc/man/foo.Rd                     |only
 mcmc-0.7-2/mcmc/man/logit.Rd                   |only
 mcmc-0.7-2/mcmc/man/metrop.Rd                  |   31 +++++++++++++-
 mcmc-0.7-2/mcmc/man/temper.Rd                  |only
 mcmc-0.7-2/mcmc/src/getScalarInteger.c         |    6 +-
 mcmc-0.7-2/mcmc/src/getScalarLogical.c         |    6 +-
 mcmc-0.7-2/mcmc/src/metrop.c                   |   10 +---
 mcmc-0.7-2/mcmc/src/myutil.h                   |    4 -
 mcmc-0.7-2/mcmc/src/temper.c                   |only
 mcmc-0.7-2/mcmc/tests/initseq.Rout.save        |   10 +---
 mcmc-0.7-2/mcmc/tests/saveseed.R               |only
 mcmc-0.7-2/mcmc/tests/saveseed.Rout.save       |only
 mcmc-0.7-2/mcmc/tests/temp-par-witch.R         |only
 mcmc-0.7-2/mcmc/tests/temp-par-witch.Rout.save |only
 mcmc-0.7-2/mcmc/tests/temp-par.R               |only
 mcmc-0.7-2/mcmc/tests/temp-par.Rout.save       |only
 mcmc-0.7-2/mcmc/tests/temp-ser-witch.R         |only
 mcmc-0.7-2/mcmc/tests/temp-ser-witch.Rout.save |only
 mcmc-0.7-2/mcmc/tests/temp-ser.R               |only
 mcmc-0.7-2/mcmc/tests/temp-ser.Rout.save       |only
 34 files changed, 119 insertions(+), 60 deletions(-)

More information about mcmc at CRAN
Permanent link

Package klaR updated to version 0.6-0 with previous version 0.5-9 dated 2009-06-24

Author: Christian Roever, Nils Raabe, Karsten Luebke, Uwe Ligges, Gero Szepannek, Marc Zentgraf
Title: Classification and visualization
Description: Miscellaneous functions for classification and visualization developed at the Fakultaet Statistik, Technische Universitaet Dortmund

Diff between klaR versions 0.5-9 dated 2009-06-24 and 0.6-0 dated 2009-09-22

 Changes-ToDo         |    7 ++++++-
 DESCRIPTION          |    8 ++++----
 NAMESPACE            |    2 +-
 R/NaiveBayes.R       |    2 ++
 R/level_shardsplot.R |only
 R/rerange.R          |only
 R/shardsplot.R       |   51 +++++++++++++++++++++++++++++++--------------------
 man/NaiveBayes.Rd    |    2 +-
 man/locpvs.Rd        |    4 ++--
 man/pvs.Rd           |    6 +++---
 man/rda.Rd           |    2 +-
 man/rerange.Rd       |only
 man/shardsplot.Rd    |   39 ++++++++++++++++++++++++++++++++++++---
 13 files changed, 87 insertions(+), 36 deletions(-)

More information about klaR at CRAN
Permanent link

New package bdoc with initial version 1.0
Package: bdoc
Type: Package
Title: Bayesian Discrete Ordered Classification of DNA Barcodes
Version: 1.0
Date: 2009-08-31
Author: Michael Anderson
Maintainer: Michael Anderson
Description: This package contains a function that will classify DNA barcodes as well as a few test and reference data sets.
License: GPL (>= 2)
LazyLoad: yes
Packaged: Mon Sep 21 15:11:43 2009; Mike
Repository: CRAN
Date/Publication: 2009-09-22 08:22:22

More information about bdoc at CRAN
Permanent link

Package QCA updated to version 0.6-1 with previous version 0.6-0 dated 2009-09-21

Author: Adrian Dusa
Title: Qualitative Comparative Analysis
Description: Performs the Quine-McCluskey algorithm for Qualitative Comparative Analysis, as described in Ragin, Charles C. 1987 "The Comparative Method. Moving beyond qualitative and quantitative strategies", Berkeley: University of California Press. In the classical approach it currently handles about 15 conditions and one outcome, but since version 0.4-5 the package has an enhanced, faster function that obtains the same exact solutions with a substantially lower memory consumption, and it handles even more causal conditions. The next versions of this algorithm will be oriented towards fuzzy-set functions. Also, in the near future the current functions will deal with missing values in the data

Diff between QCA versions 0.6-0 dated 2009-09-21 and 0.6-1 dated 2009-09-22

 DESCRIPTION         |   14 +++++++-------
 R/eqmcc.R           |   25 ++++++++++++++++---------
 R/findPrimes.R      |    6 +++---
 R/findSubsets.R     |    6 +++---
 inst/CHANGES        |    9 ++++++++-
 man/QCA.package.Rd  |   16 +++++++++-------
 man/createString.Rd |    2 +-
 man/eqmcc.Rd        |    4 ++--
 man/findPrimes.Rd   |   21 +++++++++++++--------
 man/findSubsets.Rd  |   20 +++++++++++++-------
 10 files changed, 75 insertions(+), 48 deletions(-)

More information about QCA at CRAN
Permanent link

New package MCMChybridGP with initial version 2.1
Package: MCMChybridGP
Type: Package
Title: Hybrid Markov chain Monte Carlo using Gaussian Processes
Version: 2.1
Date: 2009-09-22
Author: Mark J. Fielding
Maintainer: Mark J. Fielding
Depends: MASS
Description: Hybrid Markov chain Monte Carlo (MCMC) to simulate from a multimodal target distribution. A Gaussian process approximation makes this possible when derivatives are unknown. The Package serves to minimize the number of function evaluations in Bayesian calibration of computer models using parallel tempering. It allows replacement of the true target distribution in high temperature chains, or complete replacement of the target. Methods used are described in, "Efficient MCMC schemes for Bayesian calibration of computer models", Fielding, Mark, Nott, David J. and Liong Shie-Yui (2009), in preparation. The authors gratefully acknowledge the support & contributions of the Singapore-Delft Water Alliance (SDWA). The research presented in this work was carried out as part of the SDWA's Multi-Objective Multi-Reservoir Management research programme (R-264-001-272).
License: GPL-2
LazyLoad: yes
Packaged: 2009-09-22 06:14:26 UTC; mark
Repository: CRAN
Date/Publication: 2009-09-22 08:22:06

More information about MCMChybridGP at CRAN
Permanent link

Mon, 21 Sep 2009

Package tripack updated to version 1.3-4 with previous version 1.3-3 dated 2009-06-16

Author: Fortran code by R. J. Renka. R functions by Albrecht Gebhardt . With contributions from Stephen Eglen , Sergei Zuyev and Denis White
Title: Triangulation of irregularly spaced data
Description: A constrained two-dimensional Delaunay triangulation package

Diff between tripack versions 1.3-3 dated 2009-06-16 and 1.3-4 dated 2009-09-21

 ChangeLog   |   27 +++++++++++++++------------
 DESCRIPTION |    6 +++---
 R/zzz.R     |    2 +-
 man/tri.Rd  |    2 +-
 src/awvor.f |only
 src/func.f  |only
 src/init.c  |   38 +++++++++++++++++++-------------------
 7 files changed, 39 insertions(+), 36 deletions(-)

More information about tripack at CRAN
Permanent link

Package sgeostat updated to version 1.0-23 with previous version 1.0-22 dated 2009-07-03

Author: S original by James J. Majure Iowa State University, R port + extensions by Albrecht Gebhardt
Title: An Object-oriented Framework for Geostatistical Modeling in S+
Description: An Object-oriented Framework for Geostatistical Modeling in S+

Diff between sgeostat versions 1.0-22 dated 2009-07-03 and 1.0-23 dated 2009-09-21

 ChangeLog         |   16 ++++++++--------
 DESCRIPTION       |    8 ++++----
 R/zzz.R           |    2 ++
 man/fit.trend.Rd  |    5 -----
 man/in.chull.Rd   |    4 ++--
 man/in.polygon.Rd |    4 ++--
 man/pair.Rd       |    2 +-
 7 files changed, 19 insertions(+), 22 deletions(-)

More information about sgeostat at CRAN
Permanent link

Package sdtoolkit updated to version 2.31 with previous version 2.3 dated 2009-07-18

Author: Benjamin P. Bryant
Title: Scenario Discovery Tools to Support Robust Decision Making
Description: Implements algorithms to help with scenario discovery - currently only modified version of the the Patient Rule Induction Method.

Diff between sdtoolkit versions 2.3 dated 2009-07-18 and 2.31 dated 2009-09-21

 DESCRIPTION               |    8 ++++----
 R/trajplot.r              |    4 ++--
 man/1sdtoolkit-package.Rd |   13 ++++++-------
 3 files changed, 12 insertions(+), 13 deletions(-)

More information about sdtoolkit at CRAN
Permanent link

New package phybase with initial version 1.1
Package: phybase
Type: Package
Title: Basic functions for phylogenetic analysis
Version: 1.1
Date: 2008-03-25
Author: Liang Liu
Maintainer: Liang Liu
Depends: Matrix, ape
Description: This package provides functions to read, write, manipulate, estimate, and summarize phylogenetic trees including species trees which contain not only the topology and branch lengths but also population sizes. The input/output functions can read tree files in which trees are presented in parenthetic format. The trees are read in as a string and then transformed to a matrix which describes the relationship of nodes and branch lengths. The nodes matrix provides an easy access for developers to further manipulate the tree, while the tree string provides interface with other phylogenetic R packages such as "ape". The input/output functions can also be used to change the format of tree files between NEXUS and PHYLIP. Some basic functions have already been established in the package for manipulating trees such as deleting and swapping nodes, rooting and unrooting trees, changing the root of the tree. The package also includes functions such as "consensus", "coaltime, "popsize", "treedist" for summarizing phylogenetic trees, calculating the coalescence time, population size, and tree distance. The function maxtree is built in the package to esimtate the species tree from multiple gene trees.
License: GPL (>= 2)
Packaged: Mon Sep 21 13:14:09 2009; liuliang
Repository: CRAN
Date/Publication: 2009-09-21 18:43:07

More information about phybase at CRAN
Permanent link

New package rWMBAT with initial version 1.0
Package: rWMBAT
Type: Package
Title: The William and Mary Bayesian Analysis Tool
Version: 1.0
Date: 2009-09-21
Author: Karl Kuschner, Qian Si and William Cooke, College of William and Mary, Dept. of Physics, 2009
Maintainer: Algorithm problem, email to , R code proble, email to, others, email to
Description: The package contain all the functions to get a resulting Bayesian network.
License: GPL (>= 2)
LazyLoad: yes
Packaged: Mon Sep 21 12:00:30 2009; Qian Si
Repository: CRAN
Date/Publication: 2009-09-21 18:43:22

More information about rWMBAT at CRAN
Permanent link

Package epicalc updated to version 2.9.2.1 with previous version 2.9.2.0 dated 2009-09-03

Author: Virasakdi Chongsuvivatwong
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.

Diff between epicalc versions 2.9.2.0 dated 2009-09-03 and 2.9.2.1 dated 2009-09-21

 DESCRIPTION          |    8 ++++----
 R/epicalc.R          |   34 +++++++++++++++++++++++++---------
 man/cc.rd            |    2 +-
 man/followup.plot.rd |    4 +++-
 4 files changed, 33 insertions(+), 15 deletions(-)

More information about epicalc at CRAN
Permanent link

Package earth updated to version 2.3-4 with previous version 2.3-2 dated 2009-03-23

Author: Stephen Milborrow derived from mda:mars by Trevor Hastie and Rob Tibshirani.
Title: Multivariate Adaptive Regression Spline Models
Description: Build regression models using the techniques in Friedman's papers "Fast MARS" and "Multivariate Adaptive Regression Splines". (The term "MARS" is copyrighted and thus not used in the name of the package.)

Diff between earth versions 2.3-2 dated 2009-03-23 and 2.3-4 dated 2009-09-21

 DESCRIPTION                         |    6 
 NEWS                                |    7 
 R/earth.R                           |    2 
 R/earth.glm.R                       |   34 
 R/plotd.R                           |    2 
 man/earth.Rd                        |  123 -
 man/evimp.Rd                        |    8 
 man/plotd.Rd                        |   13 
 man/plotmo.Rd                       |    2 
 src/tests/earth.times.bat           |    2 
 src/tests/test.earth.big.Rout.save  |  416 ++---
 src/tests/test.earth.cv.Rout.save   | 2534 ++++++++++++++++++------------------
 src/tests/test.earth.full.Rout.save | 1036 +++++++-------
 src/tests/test.earth.glm.R          |    9 
 src/tests/test.earth.glm.Rout.save  |   41 
 src/tests/test.earthc.mak           |    2 
 src/tests/test.plotmo.Rout.save     |    8 
 17 files changed, 2127 insertions(+), 2118 deletions(-)

More information about earth at CRAN
Permanent link

Package ash updated to version 1.0-12 with previous version 1.0-11 dated 2009-06-14

Author: S original by David W. Scott R port by Albrecht Gebhardt adopted to recent S-PLUS by Stephen Kaluzny
Title: David Scott's ASH routines
Description: David Scotts ASH routines

Diff between ash versions 1.0-11 dated 2009-06-14 and 1.0-12 dated 2009-09-21

 ChangeLog   |    8 ++++++--
 DESCRIPTION |    6 +++---
 R/zzz.R     |    2 +-
 3 files changed, 10 insertions(+), 6 deletions(-)

More information about ash at CRAN
Permanent link

Package akima updated to version 0.5-3 with previous version 0.5-2 dated 2009-06-14

Author: Fortran code by H. Akima R port by Albrecht Gebhardt aspline function by Thomas Petzoldt enhancements and corrections by Martin Maechler
Title: Interpolation of irregularly spaced data
Description: Linear or cubic spline interpolation for irregular gridded data

Diff between akima versions 0.5-2 dated 2009-06-14 and 0.5-3 dated 2009-09-21

 ChangeLog      |   30 +++++++++++++++++-------------
 DESCRIPTION    |    6 +++---
 R/zzz.R        |    2 +-
 man/interpp.Rd |    4 ++--
 4 files changed, 23 insertions(+), 19 deletions(-)

More information about akima at CRAN
Permanent link

Package frontier updated to version 0.995-2 with previous version 0.991-2 dated 2009-06-29

Author: Tim Coelli, Arne Henningsen
Title: Stochastic Frontier Analysis
Description: Maximum Likelihood Estimation of Stochastic Frontier Production and Cost Functions. Two specifications are available: the error components specification with time-varying efficiencies (Battese and Coelli, 1992) and a model specification in which the firm effects are directly influenced by a number of variables (Battese and Coelli, 1995).

Diff between frontier versions 0.991-2 dated 2009-06-29 and 0.995-2 dated 2009-09-21

 DESCRIPTION                  |   11 
 INDEX                        |    3 
 NAMESPACE                    |    2 
 NEWS                         |   44 
 R/efficiencies.frontier.R    |  147 
 R/elas.frontierQuad.R        |   10 
 R/frontier.R                 |  362 
 R/logLik.frontier.R          |   37 
 R/print.frontier.R           |    5 
 R/print.summary.frontier.R   |    6 
 R/residuals.frontier.R       |only
 R/sfa.R                      |only
 R/summary.frontier.R         |   27 
 man/coef.frontier.Rd         |   13 
 man/coef.summary.frontier.Rd |   11 
 man/efficiencies.frontier.Rd |   17 
 man/elas.frontierQuad.Rd     |    2 
 man/frontier.Rd              |  133 
 man/logLik.frontier.Rd       |   30 
 man/residuals.frontier.Rd    |only
 man/summary.frontier.Rd      |   45 
 man/vcov.frontier.Rd         |    9 
 src/front41.f                |  149 
 tests/frontier41.Rout.save   |    7 
 tests/frontierTest.R         |  646 
 tests/frontierTest.Rout.save |69097 +++++++++++++++++++++++++++++--------------
 tests/nestedModels.R         |   30 
 tests/nestedModels.Rout.save |   47 
 tests/translogRay.R          |    2 
 tests/translogRay.Rout.save  |  172 
 30 files changed, 48205 insertions(+), 22859 deletions(-)

More information about frontier at CRAN
Permanent link

Package qpcR updated to version 1.2-2 with previous version 1.2-1 dated 2009-08-13

Author: Andrej-Nikolai Spiess , Christian Ritz
Title: Modelling and analysis of real-time PCR data
Description: Model fitting, optimal model selection and calculation of various features that are essential in the analysis of quantitative real-time polymerase chain reaction (qPCR).

Diff between qpcR versions 1.2-1 dated 2009-08-13 and 1.2-2 dated 2009-09-21

 DESCRIPTION           |   10 +-
 NAMESPACE             |    2 
 R/PRESS.R             |   37 ++++-----
 R/curvemean.R         |   69 +++++++++++------
 R/expcomp.R           |   22 ++---
 R/modlist.R           |    2 
 R/pcrGOF.R            |   11 ++
 R/pcrbatch.R          |   16 ++--
 R/pcrboot.r           |    5 -
 R/pcrfit.r            |   61 +++++++++------
 R/pcropt2.r           |only
 R/pcrsim.r            |    4 -
 R/plot.pcrfit.R       |   13 ++-
 R/propagate.R         |  196 ++++++++++++++++++++++++++------------------------
 R/ratiocalc.r         |  149 +++++++++++++++++++-------------------
 R/rnls.r              |   20 +++--
 man/PRESS.Rd          |   25 +++---
 man/curvemean.Rd      |   22 +++--
 man/modlist.Rd        |    2 
 man/pcrGOF.Rd         |    6 +
 man/pcrbatch.Rd       |   10 +-
 man/pcrboot.rd        |    2 
 man/pcrfit.Rd         |   60 +++++++++++----
 man/pcropt2.rd        |only
 man/plot.pcrfit.Rd    |   15 ++-
 man/propagate.Rd      |  123 ++++++++++++++++---------------
 man/qpcR_functions.rd |   14 ---
 man/ratiocalc.Rd      |  113 +++++++++++++++-------------
 28 files changed, 568 insertions(+), 441 deletions(-)

More information about qpcR at CRAN
Permanent link

Package languageR updated to version 0.955 with previous version 0.953 dated 2008-09-06

Author: R. H. Baayen
Title: Data sets and functions with "Analyzing Linguistic Data: A practical introduction to statistics".
Description: Data sets exemplifying statistical methods, and some facilitatory utility functions used in "Analyzing Linguistic Data: A practical introduction to statistics using R", Cambridge University Press, 2008.

Diff between languageR versions 0.953 dated 2008-09-06 and 0.955 dated 2009-09-21

 languageR-0.953/languageR/Read-and-delete-me        |only
 languageR-0.955/languageR/DESCRIPTION               |   26 +++++++++++---------
 languageR-0.955/languageR/R/aovlmer.fnc.R           |   14 +++++++---
 languageR-0.955/languageR/R/lmerPlotInt.fnc.R       |   23 ++++++++++++++---
 languageR-0.955/languageR/R/plot.logistic.fit.fnc.R |    1 
 languageR-0.955/languageR/R/plotAll.fnc.R           |    6 ++--
 languageR-0.955/languageR/R/plotLMER.fnc.R          |   20 ++++++++++-----
 languageR-0.955/languageR/man/latinsquare.Rd        |    4 +--
 languageR-0.955/languageR/man/lmerPlotInt.fnc.Rd    |    6 +++-
 languageR-0.955/languageR/man/plotAll.fnc.Rd        |    3 +-
 languageR-0.955/languageR/man/plotLMER.fnc.Rd       |    6 +++-
 languageR-0.955/languageR/man/shadenormal.fnc.Rd    |    4 +--
 12 files changed, 77 insertions(+), 36 deletions(-)

More information about languageR at CRAN
Permanent link

New package gRapHD with initial version 0.1.0
Package: gRapHD
Version: 0.1.0
Date: 2009-09-15
Title: Efficient selection of undirected graphical models for high-dimensional datasets
Author: Gabriel Coelho Goncalves de Abreu , Rodrigo Labouriau , David Edwards .
Maintainer: Gabriel Coelho Goncalves de Abreu
Depends: R (>= 2.9.0), methods
Suggests: graph
Description: gRapHD is designed for efficient selection of high-dimensional undirected graphical models. The package provides tools for selecting trees, forests and decomposable models minimizing information criteria such as AIC or BIC, and for displaying the independence graphs of the models. It has also some useful tools for analysing graphical structures. It supports the use of discrete, continuous, or both types of variables.
License: GPL (>= 3)
Packaged: 2009-09-21 06:47:14 UTC; gaab
Repository: CRAN
Date/Publication: 2009-09-21 07:27:19

More information about gRapHD at CRAN
Permanent link

Package QCA updated to version 0.6-0 with previous version 0.5-4 dated 2009-07-01

Author: Adrian Dusa
Title: Qualitative Comparative Analysis
Description: Performs the Quine-McCluskey algorithm for Qualitative Comparative Analysis, as described in Ragin, Charles C. 1987 "The Comparative Method. Moving beyond qualitative and quantitative strategies", Berkeley: University of California Press. In the classical approach it currently handles about 15 conditions and one outcome, but since version 0.4-5 the package has an enhanced, faster function that obtains the same exact solutions with a substantially lower memory consumption, and it handles even more causal conditions. The next versions of this algorithm will be oriented towards multi-value and fuzzy-set functions. Also, in the near future the current functions will deal with missing values in the data

Diff between QCA versions 0.5-4 dated 2009-07-01 and 0.6-0 dated 2009-09-21

 QCA-0.5-4/QCA/man/prettyString.Rd |only
 QCA-0.6-0/QCA/DESCRIPTION         |    8 +-
 QCA-0.6-0/QCA/NAMESPACE           |    2 
 QCA-0.6-0/QCA/R/createString.R    |   30 ++++++-----
 QCA-0.6-0/QCA/R/demoChart.R       |    5 -
 QCA-0.6-0/QCA/R/eqmcc.R           |  102 ++++++++++++++++----------------------
 QCA-0.6-0/QCA/R/findPrimes.R      |    8 +-
 QCA-0.6-0/QCA/R/prettyString.R    |   27 ++--------
 QCA-0.6-0/QCA/R/qmcc.R            |   85 +++++++++++++++++--------------
 QCA-0.6-0/QCA/R/verifyQCA.R       |   12 ++--
 QCA-0.6-0/QCA/R/writePrimeimp.R   |   18 ++++--
 QCA-0.6-0/QCA/data/MV.tab         |only
 QCA-0.6-0/QCA/inst/CHANGES        |   36 +++++++++----
 QCA-0.6-0/QCA/inst/TODO           |    3 -
 QCA-0.6-0/QCA/man/MV.Rd           |only
 QCA-0.6-0/QCA/man/QCA-internal.Rd |   15 ++---
 QCA-0.6-0/QCA/man/QCA.package.Rd  |    4 -
 QCA-0.6-0/QCA/man/createString.Rd |    5 +
 QCA-0.6-0/QCA/man/demoChart.Rd    |    4 -
 QCA-0.6-0/QCA/man/eqmcc.Rd        |   36 +++++++------
 QCA-0.6-0/QCA/man/findPrimes.Rd   |    4 -
 QCA-0.6-0/QCA/man/qmcc.Rd         |    5 +
 22 files changed, 212 insertions(+), 197 deletions(-)

More information about QCA at CRAN
Permanent link

Package NeatMap updated to version 0.3.1 with previous version 0.2 dated 2009-05-15

Author: Satwik Rajaram and Yoshi Oono
Title: Non-clustered heatmap alternatives
Description: NeatMap is a package to create heatmap like plots in 2 and 3 dimensions, without the need for cluster analysis. Like the heatmap, the plots created by NeatMap display both a dimensionally reduced representation of the data as well as the data itself. They are intended to be used in conjunction with dimensional reduction techniques such as PCA.

Diff between NeatMap versions 0.2 dated 2009-05-15 and 0.3.1 dated 2009-09-21

 DESCRIPTION                 |    8 +--
 NAMESPACE                   |    2 
 R/CircularPlot.R            |   95 ++++++++++++++++++++++++++++----------------
 R/Heatmap1.R                |   12 +++--
 R/ProfilePlot3D.R           |   51 ++++++++++++++++++++---
 R/Stereo.R                  |only
 man/NeatMap-package.Rd      |   14 +++---
 man/circularmap.Rd          |    6 +-
 man/draw.dendrogram.Rd      |    2 
 man/heatmap1.Rd             |    6 +-
 man/nMDS.Rd                 |    2 
 man/profileplot3d.Rd        |    6 +-
 man/stereo.profileplot3d.Rd |only
 13 files changed, 138 insertions(+), 66 deletions(-)

More information about NeatMap at CRAN
Permanent link

New package DTDA with initial version 1.1
Package: DTDA
Type: Package
Title: Doubly truncated data analysis
Version: 1.1
Date: 2009-07-02
Author: Carla Moreira, Jacobo de U\~na-\'Alvarez and Rosa Crujeiras
Maintainer: Carla Moreira
Description: This package implements different algorithms for analyzing randomly truncated data, one-sided and two-sided (i.e. doubly) truncated data.
License: GPL-2
LazyLoad: yes
Packaged: Sun Sep 20 22:33:11 2009; Usuario
Repository: CRAN
Date/Publication: 2009-09-21 06:50:58

More information about DTDA at CRAN
Permanent link

New package CircSpatial with initial version 1.0
Package: CircSpatial
Type: Package
Title: Functions For Circular Spatial Data
Version: 1.0
Date: 2009-09-19
Author: Bill Morphet
Maintainer: Bill Morphet
Depends: R (>= 2.9.2), fields (>= 5.02), CircStats (>= 0.2-3), geoR (>= 1.6-25), RandomFields (>= 1.3.40), spam (>= 0.15-4), MASS (>= 7.2-48), sp (>= 0.9-43)
SystemRequirements: ActiveTcl (>= 8.5.5.0)
Description: The package is a collection of functions for color continuous high resolution images of circular spatial data, circular kriging, and simulation of circular random fields.
License: GPL-2 | GPL-3
Packaged: 2009-09-20 21:51:11 UTC; Bill
Repository: CRAN
Date/Publication: 2009-09-21 06:50:49

More information about CircSpatial at CRAN
Permanent link

Sun, 20 Sep 2009

Package RQDA updated to version 0.1-8 with previous version 0.1-7 dated 2009-04-28

Author: HUANG Ronggui
Title: R-based Qualitative Data Analysis
Description: R package for Qualitative Data Analysis. Current version only supports plain text.

Diff between RQDA versions 0.1-7 dated 2009-04-28 and 0.1-8 dated 2009-09-20

 RQDA-0.1-7/RQDA/R/AttributesWidge.R |only
 RQDA-0.1-7/RQDA/R/GUIHandler.R      |only
 RQDA-0.1-8/RQDA/ChangeLog           |  224 +++++++++-
 RQDA-0.1-8/RQDA/DESCRIPTION         |   14 
 RQDA-0.1-8/RQDA/NAMESPACE           |   11 
 RQDA-0.1-8/RQDA/R/Attributes.R      |  402 +++++++++++++++++++
 RQDA-0.1-8/RQDA/R/CaseButton.R      |  178 +++++---
 RQDA-0.1-8/RQDA/R/CaseFun.R         |   59 +-
 RQDA-0.1-8/RQDA/R/CodeCatButton.R   |  106 ++---
 RQDA-0.1-8/RQDA/R/CodesFun.R        |  737 ++++++++++++++++++++++--------------
 RQDA-0.1-8/RQDA/R/Coding_Buttons.R  |  556 +++++++++++++++------------
 RQDA-0.1-8/RQDA/R/FileButton.R      |   95 ++--
 RQDA-0.1-8/RQDA/R/FileCatButton.R   |   93 +++-
 RQDA-0.1-8/RQDA/R/FilesFun.R        |  369 ++++++++++++------
 RQDA-0.1-8/RQDA/R/Image.R           |only
 RQDA-0.1-8/RQDA/R/Journal.R         |   75 ++-
 RQDA-0.1-8/RQDA/R/ProjectButton.R   |   55 +-
 RQDA-0.1-8/RQDA/R/ProjectFun.R      |   86 +++-
 RQDA-0.1-8/RQDA/R/Setting.R         |  185 +++++----
 RQDA-0.1-8/RQDA/R/merger.R          |   59 +-
 RQDA-0.1-8/RQDA/R/root_gui.R        |  316 ++++++++++-----
 RQDA-0.1-8/RQDA/R/sysdata.rda       |binary
 RQDA-0.1-8/RQDA/R/utils.R           |  280 +++++++++----
 RQDA-0.1-8/RQDA/THANKS              |only
 RQDA-0.1-8/RQDA/TODO                |   11 
 RQDA-0.1-8/RQDA/inst                |only
 RQDA-0.1-8/RQDA/man/ExportCoding.Rd |only
 RQDA-0.1-8/RQDA/man/GetAttr.Rd      |    7 
 RQDA-0.1-8/RQDA/man/GetFileId.rd    |   11 
 RQDA-0.1-8/RQDA/man/Query.Rd        |only
 RQDA-0.1-8/RQDA/man/RQDA-package.Rd |    8 
 RQDA-0.1-8/RQDA/man/RQDAQuery.rd    |    6 
 RQDA-0.1-8/RQDA/man/SearchFiles.rd  |   10 
 RQDA-0.1-8/RQDA/man/gselect.list.rd |    7 
 RQDA-0.1-8/RQDA/man/retrieval.Rd    |    6 
 35 files changed, 2713 insertions(+), 1253 deletions(-)

More information about RQDA at CRAN
Permanent link

Package nFactors updated to version 2.3 with previous version 2.2 dated 2009-02-06

Author: Gilles Raiche (UQAM) and David Magis (KU Leuven)
Title: Parallel Analysis and Non Graphical Solutions to the Cattell Scree Test
Description: Indices, heuristics and strategies to help to determine the number of factors/components to retain: 1. Acceleration factor (af with or without Parallel Analysis); 2. Optimal Coordinates (noc with or without Parallel Analysis); 3. Parallel analysis (components, factors and bootstrap); 4. lambda > mean(lambda) (Kaiser, CFA and related); 5. Cattell-Nelson-Gorsuch (CNG); 6. Zoski and Jurs multiple regression (b, t and p); 7. Zoski and Jurs standard error of the regression coeffcient (sescree); 8. Nelson R2; 9. Bartlett khi-2; 10. Anderson khi-2; 11. Lawley khi-2 and 12. Bentler-Yuan khi-2.

Diff between nFactors versions 2.2 dated 2009-02-06 and 2.3 dated 2009-09-20

 nFactors-2.2/nFactors/PACKAGES                         |only
 nFactors-2.2/nFactors/PACKAGES.gz                      |only
 nFactors-2.3/nFactors/.R                               |only
 nFactors-2.3/nFactors/DESCRIPTION                      |   40 +++--
 nFactors-2.3/nFactors/NAMESPACE                        |   44 ++++-
 nFactors-2.3/nFactors/NEWS                             |only
 nFactors-2.3/nFactors/R/bentlerParameters.r            |only
 nFactors-2.3/nFactors/R/corFA.r                        |only
 nFactors-2.3/nFactors/R/eigenBootParallel.r            |only
 nFactors-2.3/nFactors/R/eigenComputes.r                |only
 nFactors-2.3/nFactors/R/eigenFrom.r                    |only
 nFactors-2.3/nFactors/R/generateStructure.r            |only
 nFactors-2.3/nFactors/R/iterativePrincipalAxis.r       |    5 
 nFactors-2.3/nFactors/R/makeCor.r                      |only
 nFactors-2.3/nFactors/R/moreStats.r                    |only
 nFactors-2.3/nFactors/R/nBartlett.r                    |only
 nFactors-2.3/nFactors/R/nBentler.r                     |only
 nFactors-2.3/nFactors/R/nCng.r                         |only
 nFactors-2.3/nFactors/R/nFactorsObjectMethods.r        |only
 nFactors-2.3/nFactors/R/nMreg.r                        |only
 nFactors-2.3/nFactors/R/nScree.R                       |   55 +++---
 nFactors-2.3/nFactors/R/nScreeObjectMethods.r          |only
 nFactors-2.3/nFactors/R/nSeScree.r                     |only
 nFactors-2.3/nFactors/R/parallel.R                     |   22 +-
 nFactors-2.3/nFactors/R/plotParallel.R                 |   29 ++-
 nFactors-2.3/nFactors/R/plotnScree.R                   |   31 ++-
 nFactors-2.3/nFactors/R/plotuScree.R                   |   18 +-
 nFactors-2.3/nFactors/R/principalAxis.r                |    7 
 nFactors-2.3/nFactors/R/rRecovery.r                    |    4 
 nFactors-2.3/nFactors/R/structureSim.r                 |only
 nFactors-2.3/nFactors/R/structureSimObjectMethods.r    |only
 nFactors-2.3/nFactors/inst                             |only
 nFactors-2.3/nFactors/man/bentlerParameters.rd         |only
 nFactors-2.3/nFactors/man/componentAxis.rd             |   32 ++--
 nFactors-2.3/nFactors/man/corFA.rd                     |only
 nFactors-2.3/nFactors/man/dFactors.Rd                  |   50 +++---
 nFactors-2.3/nFactors/man/diagReplace.rd               |   14 +
 nFactors-2.3/nFactors/man/eigenBootParallel.rd         |only
 nFactors-2.3/nFactors/man/eigenComputes.rd             |only
 nFactors-2.3/nFactors/man/eigenFrom.rd                 |only
 nFactors-2.3/nFactors/man/generateStructure.rd         |only
 nFactors-2.3/nFactors/man/iterativePrincipalAxis.rd    |   58 ++++---
 nFactors-2.3/nFactors/man/makeCor.rd                   |only
 nFactors-2.3/nFactors/man/moreStats.rd                 |only
 nFactors-2.3/nFactors/man/nBartlett.rd                 |only
 nFactors-2.3/nFactors/man/nBentler.rd                  |only
 nFactors-2.3/nFactors/man/nCng.rd                      |only
 nFactors-2.3/nFactors/man/nFactors-package.rd          |only
 nFactors-2.3/nFactors/man/nFactors-parameters.rd       |only
 nFactors-2.3/nFactors/man/nFactorsObjectMethods.rd     |only
 nFactors-2.3/nFactors/man/nMreg.rd                     |only
 nFactors-2.3/nFactors/man/nScree.Rd                    |  134 ++++++++---------
 nFactors-2.3/nFactors/man/nScreeObjectMethods.rd       |only
 nFactors-2.3/nFactors/man/nSeScree.rd                  |only
 nFactors-2.3/nFactors/man/parallel.Rd                  |   92 +++++------
 nFactors-2.3/nFactors/man/plotParallel.Rd              |   36 +++-
 nFactors-2.3/nFactors/man/plotnScree.Rd                |   20 +-
 nFactors-2.3/nFactors/man/plotuScree.Rd                |   35 ++--
 nFactors-2.3/nFactors/man/principalAxis.rd             |   34 ++--
 nFactors-2.3/nFactors/man/principalComponents.rd       |   23 ++
 nFactors-2.3/nFactors/man/rRecovery.rd                 |   45 +++--
 nFactors-2.3/nFactors/man/structureSim.rd              |only
 nFactors-2.3/nFactors/man/structureSimObjectMethods.rd |only
 nFactors-2.3/nFactors/vignette.R                       |only
 64 files changed, 485 insertions(+), 343 deletions(-)

More information about nFactors at CRAN
Permanent link

Package modTempEff updated to version 1.1 with previous version 1.0 dated 2009-07-18

Author: Vito M. R. Muggeo
Title: Modelling temperature effects using time series data
Description: Fits a Constrained Segmented Distributed Lag regression model to epidemiological time series of mortality, temperature, and other confounders.

Diff between modTempEff versions 1.0 dated 2009-07-18 and 1.1 dated 2009-09-20

 DESCRIPTION               |    8 ++++----
 NAMESPACE                 |only
 R/fit.control.R           |    4 ++--
 R/plot.modTempEff.R       |   12 ++++++------
 R/summary.modTempEff.R    |    8 ++++----
 R/tempeff.R               |    2 +-
 R/tempeff.fit.R           |   24 ++++++++++++------------
 man/fit.control.Rd        |    6 +++---
 man/modTempEff-package.Rd |   12 ++++++------
 man/tempeff.Rd            |   41 +++++++++++++++++++++++------------------
 10 files changed, 61 insertions(+), 56 deletions(-)

More information about modTempEff at CRAN
Permanent link

New package coxme with initial version 2.0
Title: Mixed Effects Cox Models.
Maintainer: Terry Therneau
Priority: optional
Package: coxme
Version: 2.0
Date: 2009-03-01
Depends: survival, bdsmatrix, R (>= 2.0.0)
LinkingTo: bdsmatrix
LazyData: Yes
LazyLoad: Yes
Author: Terry Therneau
Description: Cox proportional hazards models containing Gaussian random effects, also known as frailty models.
License: GPL-2
URL: http://r-forge.r-project.org
Packaged: 2009-09-14 11:04:31 UTC; therneau
Repository: CRAN
Date/Publication: 2009-09-20 20:07:34

More information about coxme at CRAN
Permanent link

Package condGEE updated to version 0.1-1 with previous version 0.1-0 dated 2009-09-06

Author: David Clement
Title: Parameter estimation in conditional GEE for recurrent event gap times
Description: Solves for the mean parameters, the variance parameter, and their asymptotic variance in a conditional GEE for recurrent event gap times, as described by Clement and Strawderman (2009) in the journal Biostatistics. Makes a parametric assumption for the length of the censored gap time.

Diff between condGEE versions 0.1-0 dated 2009-09-06 and 0.1-1 dated 2009-09-20

 DESCRIPTION   |   10 +++++-----
 data          |only
 demo          |only
 man/asthma.Rd |only
 4 files changed, 5 insertions(+), 5 deletions(-)

More information about condGEE at CRAN
Permanent link

New package bdsmatrix with initial version 1.0
Package: bdsmatrix
Title: Routines for Block Diagonal Symmetric matrices
Maintainer: Terry Therneau
Version: 1.0
Date: 2009-03-05
Depends: methods, R (>= 2.0.0)
LazyData: Yes
LazyLoad: Yes
Author: Terry Therneau
Description: This is a special case of sparse matrices, used by coxme and kinship
License: GPL-2
URL: http://r-forge.r-project.org
Collate: bdsmatrix.R gchol.R gchol.bdsmatrix.R as.matrix.bdsmatrix.R bdsBlock.R bdsI.R bdsmatrix.ibd.R bdsmatrix.reconcile.R diag.bdsmatrix.R listbdsmatrix.R multiply.bdsmatrix.R solve.bdsmatrix.R solve.gchol.R solve.gchol.bdsmatrix.R
Packaged: 2009-09-14 11:12:11 UTC; therneau
Repository: CRAN
Date/Publication: 2009-09-20 20:07:30

More information about bdsmatrix at CRAN
Permanent link

New package RInside with initial version 0.1.0
Package: RInside
Title: C++ classes to embed R in C++ applications
Version: 0.1.0
Date: $Date: 2009-01-07 20:00:52 -0600 (Wed, 07 Jan 2009) $
Author: Dirk Eddelbuettel
Maintainer: Dirk Eddelbuettel
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, a shared library build of R is required. This works on Linux and OS X, but not necessarily on Windows due to the way R is built on Windows.
Depends: R (>= 2.8.0), Rcpp
SystemRequirements: None
OS_type: unix
URL: http://dirk.eddelbuettel.com/code/rinside.html
License: GPL-2
Packaged: 2009-09-19 12:21:41 UTC; edd
Repository: CRAN
Date/Publication: 2009-09-20 19:35:13

More information about RInside at CRAN
Permanent link

New package CORElearn with initial version 0.9.22
Package: CORElearn
Title: CORElearn - classification, regression, feature evaluation and ordinal evaluation
Version: 0.9.22
Date: 2009-08-17
Author: Marko Robnik-Sikonja , Petr Savicky
Maintainer: Marko Robnik-Sikonja
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 decision 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. The top level documentation is reachable through ?CORElearn.
License: GPL
URL: http://lkm.fri.uni-lj.si/rmarko/software/
Packaged: 2009-09-20 19:06:04 UTC; rmarko
Repository: CRAN
Date/Publication: 2009-09-20 20:07:24

More information about CORElearn at CRAN
Permanent link

Sat, 19 Sep 2009

Package YourCast updated to version 1.1-3 with previous version 1.1-2 dated 2009-08-31

Author: Federico Girosi Gary King Jon Bischof
Title: YourCast
Description: YourCast makes time series cross-sectional forecasts with multiple cross-sections based on your assumptions. It allows a variety of smoothing assumptions based on similarities among the levels, trends, or interactions in the expected value of the dependent variable rather than the coefficients. YourCast implements ideas in the book Federico Girosi and Gary King. DEMOGRAPHIC FORECASTING. Princeton University Press, 2008; see http://gking.harvard.edu/files/smooth/

Diff between YourCast versions 1.1-2 dated 2009-08-31 and 1.1-3 dated 2009-09-19

 DESCRIPTION          |    8 ++++----
 R/plot.yourcast.R    |    6 +++---
 inst/doc/copyRd.Rout |    2 +-
 inst/doc/index.shtml |    2 +-
 man/yourprep.Rd      |    2 +-
 5 files changed, 10 insertions(+), 10 deletions(-)

More information about YourCast at CRAN
Permanent link

New package PearsonDS with initial version 0.90
Package: PearsonDS
Type: Package
Title: Pearson Distribution System
Version: 0.90
Date: 2009-09-18
Author: Martin Becker
Maintainer: Martin Becker
Description: Implementation of the Pearson distribution system, including full support for the (d,p,q,r)-family of functions for probability distributions and fitting via method of moments and maximum likelihood method.
Suggests: gsl
License: GPL (>= 2)
LazyLoad: yes
Packaged: Fri Sep 18 23:24:44 2009; mbecker
Repository: CRAN
Date/Publication: 2009-09-19 06:12:02

More information about PearsonDS at CRAN
Permanent link

Fri, 18 Sep 2009

Package tnet updated to version 0.1.2 with previous version 0.1.1 dated 2009-09-07

Author: Tore Opsahl
Title: tnet: Software for Analysis of Weighted, Two-mode, and Longitudinal networks
Description: R package to analyse weighted, two-mode, and longitudinal networks.

Diff between tnet versions 0.1.1 dated 2009-09-07 and 0.1.2 dated 2009-09-18

 DESCRIPTION                |    8 +-
 R/weighted_richclub_w.R    |  123 +++++++++++++++++----------------------------
 man/as.tnet.Rd             |    1 
 man/random_values.Rd       |    1 
 man/rg_tm.Rd               |    2 
 man/tnet-package.Rd        |    1 
 man/weighted_richclub_w.Rd |    2 
 7 files changed, 53 insertions(+), 85 deletions(-)

More information about tnet at CRAN
Permanent link

Package survey updated to version 3.17 with previous version 3.16 dated 2009-06-02

Author: Thomas Lumley
Title: analysis of complex survey samples
Description: Summary statistics, generalised linear models, Cox models, loglinear models, and general maximum pseudolikelihood estimation for multistage stratified, cluster-sampled, unequally weighted survey samples. Variances by Taylor series linearisation or replicate weights. Post-stratification, calibration, and raking. Two-phase designs. Graphics. Predictive margins by direct standardization. PPS sampling without replacement.

Diff between survey versions 3.16 dated 2009-06-02 and 3.17 dated 2009-09-18

 DESCRIPTION                   |    8 ++--
 NAMESPACE                     |    4 +-
 R/count.R                     |only
 R/multistage.R                |   10 ++---
 R/olr.R                       |   29 ++++++++++----
 R/pps.R                       |   10 ++---
 R/regtest.R                   |   54 +++++++++++++++++++++++++--
 R/survey.R                    |   42 ++++++++++++++++++++-
 R/surveyby.R                  |   13 ++++--
 R/surveygraph.R               |   10 ++---
 R/surveyrep.R                 |   71 +++++++++++++++++++++++++----------
 R/svymi.R                     |   34 ++++++++++++++++-
 THANKS                        |    4 +-
 inst/NEWS                     |   35 +++++++++++++++++
 inst/README                   |    2 -
 inst/doc/domain.pdf           |binary
 inst/doc/epi.pdf              |binary
 inst/doc/phase1.Rnw           |    6 +--
 inst/doc/phase1.pdf           |binary
 inst/doc/pps.Rnw              |   10 ++---
 inst/doc/pps.pdf              |binary
 inst/doc/survey.pdf           |binary
 man/pchisqsum.Rd              |    2 -
 man/regTermTest.Rd            |   26 ++++++++-----
 man/surveyoptions.Rd          |   12 ++++++
 man/svy.varcoef.Rd            |    4 --
 man/svyby.Rd                  |   26 +++++++++++--
 man/svydesign.Rd              |    4 +-
 man/svyglm.Rd                 |    8 +++-
 man/svyolr.Rd                 |    7 ++-
 man/svyplot.Rd                |    3 +
 man/with.svyimputationList.Rd |    7 ++-
 tests/DBIcheck.R              |    3 +
 tests/DBIcheck.Rout.save      |   19 +++++++--
 tests/api.Rout.save           |   20 +++++++---
 tests/check.Rout.save         |   12 +++++-
 tests/kalton.Rout.save        |   14 +++++--
 tests/lonely.psu.Rout.save    |   10 ++---
 tests/multistage.Rout.save    |   17 ++++++--
 tests/nwts-cch.Rout.save      |    8 ++--
 tests/pps.R                   |   26 +++++++++++++
 tests/pps.Rout.save           |   84 +++++++++++++++++++++++++++++++++++++++++-
 tests/rakecheck.Rout.save     |   16 ++++++--
 tests/regpredict.Rout.save    |   12 +++++-
 tests/twophase.Rout.save      |    4 +-
 45 files changed, 550 insertions(+), 136 deletions(-)

More information about survey at CRAN
Permanent link

Package splancs updated to version 2.01-25 with previous version 2.01-24 dated 2008-08-01

Author: Barry Rowlingson and Peter Diggle, adapted and packaged for R by Roger Bivand, pcp functions by Giovanni Petris, goodness of fit by Stephen Eglen
Title: Spatial and Space-Time Point Pattern Analysis
Description: Spatial and Space-Time Point Pattern Analysis Functions

Diff between splancs versions 2.01-24 dated 2008-08-01 and 2.01-25 dated 2009-09-18

 ChangeLog      |   12 ++++++++++++
 DESCRIPTION    |   16 +++++++++-------
 inst/ChangeLog |   12 ++++++++++++
 3 files changed, 33 insertions(+), 7 deletions(-)

More information about splancs at CRAN
Permanent link

Package spatialsegregation updated to version 2.10 with previous version 2.05 dated 2009-06-26

Author: Tuomas Rajala
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. Included neighbourhoods: Geometric, k-nearest neighbours, Gabriel, Delauney.

Diff between spatialsegregation versions 2.05 dated 2009-06-26 and 2.10 dated 2009-09-18

 .cproject                                |only
 .project                                 |   67 +++++++++++++
 DESCRIPTION                              |   12 +-
 R/fclass.R                               |   87 ++++++++---------
 R/fun.R                                  |  124 +++++++++++++++++-------
 R/isar.R                                 |  158 +++++++++++++++++++++----------
 R/isar_old.R                             |only
 R/mingling.R                             |  121 +++++++++++++++++------
 R/mingling_old.R                         |only
 R/modifiers.R                            |    2 
 R/shannon.R                              |   83 ++++++++++------
 R/shannon_old.R                          |only
 R/simpson.R                              |   70 ++++++++++---
 R/simpson_old.R                          |only
 change.log                               |   10 +
 man/spatialsegregation-ISAR.Rd           |   36 +++----
 man/spatialsegregation-helpers.Rd        |    6 -
 man/spatialsegregation-mingling.Rd       |   32 +++---
 man/spatialsegregation-package.Rd        |   22 ++--
 man/spatialsegregation-segregationFun.Rd |   74 ++++++--------
 man/spatialsegregation-shannon.Rd        |   26 ++---
 man/spatialsegregation-simpson.Rd        |   25 ++--
 src/isar.cpp                             |   54 ++++++++++
 src/isar.h                               |    2 
 24 files changed, 695 insertions(+), 316 deletions(-)

More information about spatialsegregation at CRAN
Permanent link

Package spatgraphs updated to version 2.27 with previous version 2.1 dated 2008-11-13

Author: Tuomas Rajala
Title: Graphs for spatial point patterns
Description: Graphs, graph visualization and graph component calculations, ment to be used as a tool in spatial point pattern analysis. See package 'spatstat' for more info about spatial point patterns.

Diff between spatgraphs versions 2.1 dated 2008-11-13 and 2.27 dated 2009-09-18

 spatgraphs-2.1/spatgraphs/R/graphtodxf.R                  |only
 spatgraphs-2.1/spatgraphs/R/sumfuns.R                     |only
 spatgraphs-2.27/spatgraphs/.Rbuildindex.12151             |only
 spatgraphs-2.27/spatgraphs/DESCRIPTION                    |   18 ++--
 spatgraphs-2.27/spatgraphs/R/adjacency.R                  |   10 +-
 spatgraphs-2.27/spatgraphs/R/class.R                      |   34 +++++--
 spatgraphs-2.27/spatgraphs/R/clustering.R                 |   13 +-
 spatgraphs-2.27/spatgraphs/R/edgelengths.R                |only
 spatgraphs-2.27/spatgraphs/R/mstoperations.R              |   30 ++++--
 spatgraphs-2.27/spatgraphs/R/plot.R                       |   63 +++++++++-----
 spatgraphs-2.27/spatgraphs/R/runif3d.R                    |   11 +-
 spatgraphs-2.27/spatgraphs/R/sg2dxf.R                     |only
 spatgraphs-2.27/spatgraphs/R/sg2igraph.R                  |only
 spatgraphs-2.27/spatgraphs/R/shortestPath.R               |   15 ++-
 spatgraphs-2.27/spatgraphs/R/spatgraph.R                  |   52 ++++++++---
 spatgraphs-2.27/spatgraphs/ToAdd.TXT0                     |    4 
 spatgraphs-2.27/spatgraphs/change.log                     |   25 +++++
 spatgraphs-2.27/spatgraphs/man/spatgraphs-cut.sg.Rd       |    4 
 spatgraphs-2.27/spatgraphs/man/spatgraphs-legacy.Rd       |only
 spatgraphs-2.27/spatgraphs/man/spatgraphs-mailer.Rd       |    5 -
 spatgraphs-2.27/spatgraphs/man/spatgraphs-other.Rd        |only
 spatgraphs-2.27/spatgraphs/man/spatgraphs-package.Rd      |    9 --
 spatgraphs-2.27/spatgraphs/man/spatgraphs-plot.sg.Rd      |    2 
 spatgraphs-2.27/spatgraphs/man/spatgraphs-print.sg.Rd     |    2 
 spatgraphs-2.27/spatgraphs/man/spatgraphs-sg.Rd           |    7 -
 spatgraphs-2.27/spatgraphs/man/spatgraphs-sg2igraph.Rd    |only
 spatgraphs-2.27/spatgraphs/man/spatgraphs-shake.Rd        |    1 
 spatgraphs-2.27/spatgraphs/man/spatgraphs-shortestPath.Rd |    6 -
 spatgraphs-2.27/spatgraphs/man/spatgraphs-spatcluster.Rd  |    2 
 spatgraphs-2.27/spatgraphs/man/spatgraphs-spatgraph.Rd    |   14 ++-
 spatgraphs-2.27/spatgraphs/src/Graph.cpp                  |   34 ++++---
 spatgraphs-2.27/spatgraphs/src/Graph.h                    |    2 
 spatgraphs-2.27/spatgraphs/src/Pp.h                       |    1 
 spatgraphs-2.27/spatgraphs/src/cutprune.cpp               |    7 +
 spatgraphs-2.27/spatgraphs/src/dists.cpp                  |   20 ++++
 spatgraphs-2.27/spatgraphs/src/dists.h                    |    1 
 spatgraphs-2.27/spatgraphs/src/rgraph.cpp                 |   27 +++---
 37 files changed, 271 insertions(+), 148 deletions(-)

More information about spatgraphs at CRAN
Permanent link

Package spam updated to version 0.15-5 with previous version 0.15-4 dated 2009-04-15

Author: Reinhard Furrer
Title: SPArse Matrix
Description: Set of function for sparse matrix algebra. Differences with SparseM/Matrix are: (1) we only support (essentially) one sparse matrix format, (2) based on transparent and simple structure(s), (3) tailored for MCMC calculations within GMRF. (4) S3 and S4 like-"compatible" ... and it is fast.

Diff between spam versions 0.15-4 dated 2009-04-15 and 0.15-5 dated 2009-09-18

 ChangeLog                        |    2 
 DESCRIPTION                      |   12 +--
 NAMESPACE                        |   10 ++
 R/apply.R                        |only
 R/definitions.R                  |   53 ++++++++++++--
 R/dist.R                         |   45 +++++++-----
 R/foreign.R                      |    6 +
 R/helper.R                       |only
 R/kronecker.R                    |    6 +
 R/plotting.R                     |    6 +
 R/profile.R                      |   13 ++-
 R/spam_solve.R                   |   12 ++-
 R/xybind.R                       |    6 +
 demo/article-jss.R               |   18 ++---
 demo/cholesky.R                  |    6 +
 demo/spam.R                      |    6 +
 demo/timing.R                    |    6 +
 inst/NEWS                        |   29 ++++++++
 man/SPAM.Rd                      |    6 +
 man/UScounties.Rd                |    6 +
 man/USprecip.Rd                  |    6 +
 man/adiag.Rd                     |only
 man/allequal.Rd                  |    6 +
 man/apply.Rd                     |only
 man/chol.Rd                      |    6 +
 man/complexity.Rd                |only
 man/det.Rd                       |    6 +
 man/diag.Rd                      |    6 +
 man/dim.Rd                       |    6 +
 man/display.Rd                   |    6 +
 man/foreign.Rd                   |    6 +
 man/history.spam.Rd              |    6 +
 man/image.Rd                     |    6 +
 man/import.Rd                    |    6 +
 man/isSymmetric.Rd               |    6 +
 man/kronecker.Rd                 |    6 +
 man/lu.tri.Rd                    |    6 +
 man/math.Rd                      |    6 +
 man/math2.Rd                     |    6 +
 man/nearestdist.Rd               |   30 ++++----
 man/operations.Rd                |    8 +-
 man/options.Rd                   |    6 +
 man/ordering.Rd                  |    6 +
 man/powerboost.Rd                |   11 +--
 man/print.Rd                     |    6 +
 man/rmvnorm.Rd                   |only
 man/solve.Rd                     |   14 ++-
 man/spam-class.Rd                |    6 +
 man/spam.chol.NgPeyton-class.Rd  |    6 +
 man/spam.creation.Rd             |    6 +
 man/spam.internal.Rd             |    6 +
 man/summary.Rd                   |    6 +
 man/todo.Rd                      |    6 +
 man/triplet.Rd                   |    6 +
 man/version.Rd                   |    6 +
 man/xybind.Rd                    |    6 +
 src/dist.f                       |  132 ++++++++++++-------------------------
 src/spamown.f                    |   59 +++++++++++++++-
 tests/demo_article-jss.R         |   20 +++--
 tests/demo_article-jss.Rout.save |   14 ++-
 tests/demo_cholesky.R            |    6 +
 tests/demo_cholesky.Rout.save    |   14 ++-
 tests/demo_spam.R                |    6 +
 tests/demo_spam.Rout.save        |   14 ++-
 tests/demo_timing.R              |    6 +
 tests/demo_timing.Rout.save      |   14 ++-
 tests/displays.R                 |    6 +
 tests/displays.Rout.save         |   14 ++-
 tests/dist.R                     |  139 +++++++++++++++------------------------
 tests/dist.Rout.save             |   19 ++---
 tests/foreign.R                  |    6 +
 tests/foreign.Rout.save          |    5 -
 tests/kronecker.R                |    6 +
 tests/kronecker.Rout.save        |   14 ++-
 tests/overall.R                  |    7 +
 tests/overall.Rout.save          |   14 ++-
 tests/solve.R                    |    6 +
 tests/solve.Rout.save            |   14 ++-
 tests/xybind.R                   |    6 +
 tests/xybind.Rout.save           |   14 ++-
 80 files changed, 620 insertions(+), 414 deletions(-)

More information about spam at CRAN
Permanent link

Package sp updated to version 0.9-44 with previous version 0.9-43 dated 2009-07-19

Author: Edzer J. Pebesma , Roger Bivand and others
Title: classes and methods for spatial data
Description: A package that provides classes and methods for spatial data. The classes document where the spatial location information resides, for 2D or 3D data. Utility functions are provided, e.g. for plotting data as maps, spatial selection, as well as methods for retrieving coordinates, for subsetting, print, summary, etc.

Diff between sp versions 0.9-43 dated 2009-07-19 and 0.9-44 dated 2009-09-18

 ChangeLog                           |   15 
 DESCRIPTION                         |    8 
 inst/ChangeLog                      |   15 
 inst/doc/sp.Rnw                     |   33 
 inst/doc/sp.pdf                     | 1690 ++++++++++++++++++------------------
 man/SpatialPointsDataFrame-class.Rd |    2 
 man/spplot.Rd                       |    2 
 7 files changed, 937 insertions(+), 828 deletions(-)

More information about sp at CRAN
Permanent link

Package seqinr updated to version 2.0-5 with previous version 2.0-4 dated 2009-07-01

Author: Delphine Charif and Jean R. Lobry and Anamaria Necsulea and Leonor Palmeira and Simon Penel
Title: Biological Sequences Retrieval and Analysis
Description: Exploratory data analysis and data visualization for biological sequence (DNA and protein) data. Include also utilities for sequence data management under the ACNUC system.

Diff between seqinr versions 2.0-4 dated 2009-07-01 and 2.0-5 dated 2009-09-18

 DESCRIPTION                            |   10 ++---
 R/circle.R                             |only
 R/col2alpha.R                          |only
 R/move.R                               |only
 R/plotPanels.R                         |only
 R/swap.R                               |only
 inst/abif/NGM_Bins.txt                 |only
 inst/abif/NGM_Pa.txt                   |only
 inst/abif/samplefsa2ps.fsa             |only
 inst/doc/src/appendix/releasenotes.rnw |   26 ++++++++++++++
 inst/doc/src/appendix/releasenotes.tex |   58 +++++++++++++++++++++++++++++++--
 inst/doc/src/config/book.bib           |   10 +++++
 man/circle.Rd                          |only
 man/col2alpha.Rd                       |only
 man/getAnnot.Rd                        |    2 -
 man/getTrans.Rd                        |    4 +-
 man/move.Rd                            |only
 man/plotPanels.Rd                      |only
 man/read.abif.Rd                       |   42 +++++++++++++++++++++--
 man/read.alignment.Rd                  |    5 +-
 man/readPanels.Rd                      |   28 ++-------------
 man/swap.Rd                            |only
 man/translate.Rd                       |    4 +-
 23 files changed, 147 insertions(+), 42 deletions(-)

More information about seqinr at CRAN
Permanent link

Package sdcMicro updated to version 2.6.1 with previous version 2.5.8 dated 2009-03-09

Author: Matthias Templ
Title: Statistical Disclosure Control methods for the generation of public- and scientific-use files.
Description: Data from statistical agencies and other institutions are mostly confidential. This package can be used for the generation of save (micro)data, i.e. for the generation of public- and scientific-use files.

Diff between sdcMicro versions 2.5.8 dated 2009-03-09 and 2.6.1 dated 2009-09-18

 DESCRIPTION                |   29 +++++++++------
 R/freqCalc.r               |   18 +++++++--
 R/pram.r                   |   52 ++++++++++++++++++++++++---
 R/sdcGUI.r                 |only
 R/swappNum.R               |    8 +++-
 R/zzz.R                    |    5 ++
 inst/doc/Rplots.pdf        |   86 +++++++++++++++++++++------------------------
 inst/doc/sdcMicroPaper.pdf |binary
 man/CASCrefmicrodata.Rd    |    3 +
 man/addNoise.Rd            |   39 +++++++++++++++-----
 man/casc1.Rd               |    2 -
 man/dRisk.Rd               |    4 +-
 man/dRiskRMD.Rd            |   24 ++++++++++--
 man/dUtility.Rd            |   17 ++++++--
 man/free1.Rd               |    3 +
 man/freqCalc.Rd            |   27 +++++++++++---
 man/indivRisk.Rd           |    8 ++--
 man/localSupp.Rd           |   17 +++++---
 man/localSupp2.Rd          |   25 ++++++++-----
 man/localSupp2Wrapper.Rd   |    8 +++-
 man/microData.Rd           |    2 -
 man/microaggregation.Rd    |   67 ++++++++++++++++++++++++++---------
 man/plot.indivRisk.Rd      |    9 ++++
 man/plotMicro.Rd           |   10 ++++-
 man/print.pram.Rd          |    7 +++
 man/sdcGUI.Rd              |only
 man/sdcMicro-package.Rd    |   49 ++++++++++++++++++-------
 man/summary.freqCalc.Rd    |    5 +-
 man/summary.micro.Rd       |   14 ++++---
 man/summary.pram.Rd        |    7 +++
 man/valTable.Rd            |    6 +++
 31 files changed, 399 insertions(+), 152 deletions(-)

More information about sdcMicro at CRAN
Permanent link

Package popbio updated to version 2.0 with previous version 1.1.11 dated 2008-12-11

Author: Chris Stubben, Brook Milligan, Patrick Nantel
Title: Construction and analysis of matrix population models
Description: Construct and analyze projection matrix models from a demography study of marked individuals classified by age or stage. The package covers methods described in Matrix Population Models by Caswell (2001) and Quantitative Conservation Biology by Morris and Doak (2002).

Diff between popbio versions 1.1.11 dated 2008-12-11 and 2.0 dated 2009-09-18

 DESCRIPTION                  |   14 ++++-
 R/LTRE.R                     |    2 
 R/damping.ratio.R            |only
 R/elasticity.R               |only
 R/fundamental.matrix.R       |   15 +++---
 R/generation.time.R          |   23 +++++----
 R/image2.R                   |   19 +++++---
 R/lambda.R                   |only
 R/lnorms.R                   |   11 ++--
 R/matplot2.R                 |only
 R/multiresultm.R             |    5 +-
 R/net.reproductive.rate.R    |   17 ++++---
 R/projection.matrix.R        |    2 
 R/reproductive.value.R       |only
 R/resample.R                 |only
 R/sensitivity.R              |only
 R/splitA.R                   |only
 R/stable.stage.R             |only
 R/stage.vector.plot.R        |    2 
 R/var2.R                     |only
 R/vitalsim.R                 |    6 +-
 data/calathea.rda            |binary
 data/hudsonia.R              |    2 
 data/teasel.R                |   27 ++---------
 data/tortoise.R              |  101 ++++++++++++++++++++-----------------------
 data/whale.R                 |   44 +-----------------
 demo/00Index                 |    1 
 demo/Caswell.R               |only
 demo/fillmore.R              |   49 +++++---------------
 inst/ChangeLog               |   45 +++++++++++++++++--
 man/01Introduction.Rd        |   10 ++--
 man/02Caswell.Rd             |   53 +++++++++++-----------
 man/LTRE.Rd                  |   50 +++------------------
 man/calathea.Rd              |   27 ++++-------
 man/damping.ratio.Rd         |only
 man/eigen.analysis.Rd        |   20 ++------
 man/elasticity.Rd            |only
 man/fundamental.matrix.Rd    |    8 ++-
 man/generation.time.Rd       |   22 +++++----
 man/hudsonia.Rd              |   13 ++---
 man/image2.Rd                |   35 +++++++-------
 man/lambda.Rd                |only
 man/lnorms.Rd                |   27 +++++------
 man/matplot2.Rd              |only
 man/mean.list.Rd             |    2 
 man/monkeyflower.Rd          |    7 +-
 man/multiresultm.Rd          |   10 ++--
 man/net.reproductive.rate.Rd |   20 +++++---
 man/pop.projection.Rd        |    6 +-
 man/reproductive.value.Rd    |only
 man/resample.Rd              |only
 man/sensitivity.Rd           |only
 man/splitA.Rd                |only
 man/stable.stage.Rd          |only
 man/stage.vector.plot.Rd     |    4 -
 man/teasel.Rd                |   48 +++-----------------
 man/tortoise.Rd              |   73 +++++++------------------------
 man/var2.Rd                  |only
 man/whale.Rd                 |   88 ++++---------------------------------
 59 files changed, 360 insertions(+), 548 deletions(-)

More information about popbio at CRAN
Permanent link

New package nparLD with initial version 1.0
Package: nparLD
Version: 1.0
Date: 2009-09-014
Title: Nonparametric Analysis of Longitudinal Data in Factorial Experiments
Author: Kimihiro Noguchi , Mahbub Latif , Karthinathan Thangavelu , Frank Konietschke , Yulia R. Gel , Edgar Brunner
Maintainer: Kimihiro Noguchi
Depends: R (>= 2.6.0), MASS
License: GPL (>= 2)
Description: The package "nparLD" is designed to perform nonparametric analysis of longitudinal data in factorial experiments. Longitudinal data are those which are collected from the same subjects over time, and they frequently arise in biological sciences. Nonparametric methods do not require assumptions on distributions of parameters, and are applicable to a variety of data types (continuous, discrete, purely ordinal, and dichotomous). Such methods are also robust with respect to outliers and for small sample sizes.
Packaged: Wed Sep 16 14:05:03 2009; KNoguchi
Repository: CRAN
Date/Publication: 2009-09-18 20:25:50

More information about nparLD at CRAN
Permanent link

New package pendensity with initial version 0.1.1
Package: pendensity
Type: Package
Title: Penalized density estimation
Version: 0.1.1
Date: 2009-09-10
Depends: R (>= 2.8.1), lattice, fda, mgcv
Author: Christian Schellhase
Maintainer: Christian Schellhase
Description: Estimating penalized (conditional) densities
License: GPL (>= 2)
LazyLoad: yes
Packaged: 2009-09-15 08:17:46 UTC; cschellhase
Repository: CRAN
Date/Publication: 2009-09-18 20:31:33

More information about pendensity at CRAN
Permanent link

New package nbpMatching with initial version 1.0
Package: nbpMatching
Type: Package
Title: functions for non-bipartite optimal matching
Version: 1.0
Date: 2009-09-18
Author: Bo Lu, Robert Greevy, Cole Beck
Maintainer: Cole Beck
Description: solves Mahalnobis distance matrices
License: GPL (>= 2)
LazyLoad: yes
Depends: methods
Packaged: 2009-09-18 19:36:05 UTC; beckca
Repository: CRAN
Date/Publication: 2009-09-18 20:47:04

More information about nbpMatching at CRAN
Permanent link

Package mice updated to version 2.1 with previous version 2.0 dated 2009-08-27

Author: Stef van Buuren & Karin Groothuis-Oudshoorn
Title: Multivariate Imputation by Chained Equations
Description: Multiple Imputation using Fully Conditional Specification

Diff between mice versions 2.0 dated 2009-08-27 and 2.1 dated 2009-09-18

 DESCRIPTION |   14 ++++----
 NAMESPACE   |    6 ++-
 R/mice.R    |  103 ++++++++++++++++++++++++++++++++++++------------------------
 R/zzz.R     |    5 +-
 inst/NEWS   |   60 +++++++++++++++++++---------------
 man/mids.Rd |    3 -
 man/pool.Rd |    5 +-
 7 files changed, 113 insertions(+), 83 deletions(-)

More information about mice at CRAN
Permanent link

Package metafor updated to version 0.5-4 with previous version 0.5-3 dated 2009-07-31

Author: Wolfgang Viechtbauer
Title: Meta-Analysis Package for R
Description: The metafor package consists of a collection of functions for conducting meta-analyses in R. Fixed- and random-effects models (with and without moderators) can be fitted via the general linear (mixed-effects) model. For 2x2 table data, the Mantel-Haenszel and Peto's method are also implemented.

Diff between metafor versions 0.5-3 dated 2009-07-31 and 0.5-4 dated 2009-09-18

 DESCRIPTION                |    8 
 NAMESPACE                  |    7 
 NEWS                       |   39 +-
 R/metafor.R                |  733 +++++++++++++++++++++++++++++++++++----------
 man/addpoly.default.Rd     |    8 
 man/addpoly.rma.Rd         |    6 
 man/anova.rma.uni.Rd       |only
 man/blup.rma.uni.Rd        |    2 
 man/cint.rma.uni.Rd        |    8 
 man/coef.rma.Rd            |    2 
 man/dat.bcg.Rd             |    8 
 man/escalc.Rd              |   13 
 man/fitstats.rma.Rd        |   11 
 man/fitted.rma.Rd          |    2 
 man/forest.default.Rd      |    8 
 man/forest.rma.Rd          |    4 
 man/fsn.Rd                 |   40 ++
 man/funnel.rma.Rd          |    2 
 man/hatvalues.rma.uni.Rd   |    2 
 man/influence.rma.uni.Rd   |    2 
 man/logLik.rma.Rd          |    2 
 man/plot.rma.uni.Rd        |    2 
 man/plot.rma.uni.infl.Rd   |    2 
 man/predict.rma.uni.Rd     |   10 
 man/print.anova.rma.uni.Rd |only
 man/print.fsn.Rd           |only
 man/print.ranktest.rma.Rd  |only
 man/print.regtest.rma.Rd   |only
 man/print.rma.uni.Rd       |    3 
 man/print.rma.uni.infl.Rd  |    4 
 man/qqnorm.rma.uni.Rd      |    6 
 man/radial.rma.Rd          |    6 
 man/ranktest.Rd            |   78 ----
 man/ranktest.rma.Rd        |only
 man/regtest.Rd             |only
 man/regtest.rma.Rd         |only
 man/residuals.rma.Rd       |    2 
 man/rma.uni.Rd             |   36 +-
 man/transf.Rd              |    6 
 man/trimfill.rma.uni.Rd    |    8 
 man/vcov.rma.Rd            |    2 
 41 files changed, 741 insertions(+), 331 deletions(-)

More information about metafor at CRAN
Permanent link

Package mediation updated to version 2.1 with previous version 2.0 dated 2009-07-18

Author: Luke Keele , Dustin Tingley , Teppei Yamamoto , Kosuke Imai
Title: R Package for Causal Mediation Analysis
Description: mediation is a publicly available R package that allows both parametric and nonparametric causal mediation analysis. It implements the methods and suggestions in Imai, Keele, and Yamamoto (2008) and Imai, Keele, Tingley (2009). In addition to the estimation of causal mediation effects, the software also allows researchers to conduct sensitivity analysis for certain parametric models.

Diff between mediation versions 2.0 dated 2009-07-18 and 2.1 dated 2009-09-18

 ChangeLog              |    1 +
 DESCRIPTION            |   10 +++++-----
 R/medsens.R            |   13 ++++++-------
 man/mediate.Rd         |    2 +-
 man/medsens.Rd         |    2 +-
 man/plot.medsens.Rd    |    3 ++-
 man/summary.mediate.Rd |    3 ++-
 man/summary.medsens.Rd |    3 ++-
 8 files changed, 20 insertions(+), 17 deletions(-)

More information about mediation at CRAN
Permanent link

Package maptools updated to version 0.7-26 with previous version 0.7-25 dated 2009-06-24

Author: Nicholas J. Lewin-Koh and Roger Bivand, contributions by Edzer J. Pebesma, Eric Archer, Adrian Baddeley, Hans-Jörg Bibiko, Stéphane Dray, David Forrest, Patrick Giraudoux, Duncan Golicher, Virgilio Gómez Rubio, Patrick Hausmann, Thomas Jagger, Sebastian P. Luque, Don MacQueen, Andrew Niccolai and Tom Short
Title: Tools for reading and handling spatial objects
Description: Set of tools for manipulating and reading geographic data, in particular ESRI shapefiles; C code used from shapelib. It includes binary access to GSHHS shoreline files. The package also provides interface wrappers for exchanging spatial objects with packages such as PBSmapping, spatstat, maps, RArcInfo, Stata tmap, WinBUGS, Mondrian, and others.

Diff between maptools versions 0.7-25 dated 2009-06-24 and 0.7-26 dated 2009-09-18

 ChangeLog                   |   11 +++++++++++
 DESCRIPTION                 |    8 ++++----
 inst/ChangeLog              |   11 +++++++++++
 man/GE_SpatialGrid.Rd       |    4 +++-
 man/Map2poly.Rd             |    2 +-
 man/SpatialLines2PolySet.Rd |    2 +-
 man/asciigrid.Rd            |    2 +-
 man/kmlLine.Rd              |    4 +++-
 man/kmlOverlay.Rd           |    3 ++-
 man/kmlPolygon.Rd           |    2 ++
 man/nowrapRecenter.Rd       |    2 +-
 11 files changed, 40 insertions(+), 11 deletions(-)

More information about maptools at CRAN
Permanent link

Package hdrcde updated to version 2.11 with previous version 2.10 dated 2009-08-19

Author: Rob J Hyndman with contributions from Jochen Einbeck and Matt Wand
Title: Highest density regions and conditional density estimation
Description: Computation of highest density regions in one and two dimensions, kernel estimation of univariate density functions conditional on one covariate, and multimodal regression.

Diff between hdrcde versions 2.10 dated 2009-08-19 and 2.11 dated 2009-09-18

 ChangeLog       |only
 DESCRIPTION     |   14 +++++++-------
 INDEX           |    1 +
 NAMESPACE       |    2 +-
 R/HDRbw.r       |only
 R/hdr.R         |    4 ++--
 R/hdr.boxplot.R |   14 +++-----------
 R/hdr.den.R     |   38 +++++++++++++++++++-------------------
 man/cde.Rd      |    2 +-
 man/hdr.Rd      |   10 +++++-----
 man/hdr.conf.Rd |    2 +-
 man/hdrbw.Rd    |only
 man/plot.cde.Rd |    2 +-
 13 files changed, 41 insertions(+), 48 deletions(-)

More information about hdrcde at CRAN
Permanent link

New package iGenomicViewer with initial version 2.4.2
Package: iGenomicViewer
Version: 2.4.2
Date: Sept 16, 2009
Title: Tool for sending interactive bioinformatic heatmaps with tool-tip content.
Author: Daniel P Gaile , Lori A. Shepherd , Lara Sucheston , Andrew Bruno , Kenneth F. Manly
Maintainer: Lori A. Shepherd
Depends: sendplot(>= 3.8.0)
biocViews: Software,Visualization,DataRepresentation,MultipleComparisons,Bioinformatics,Infrastructure,Genetics,Annotation, AssayTechnologies,AssayDomains
Description: A tool for visualizing data
License: GPL (>= 2)
URL: http://sphhp.buffalo.edu/biostat/research/software/igenomicviewer/index.php
Packaged: Wed Sep 16 08:34:57 2009; las65
Repository: CRAN
Date/Publication: 2009-09-18 20:25:05

More information about iGenomicViewer at CRAN
Permanent link

Package grImport updated to version 0.4-4 with previous version 0.4-3 dated 2009-04-21

Author: Paul Murrell and Richard Walton.
Title: Importing Vector Graphics
Description: Functions for converting, importing, and drawing PostScript pictures in R plots.

Diff between grImport versions 0.4-3 dated 2009-04-21 and 0.4-4 dated 2009-09-18

 DESCRIPTION          |    6 
 R/PostScript2RGML.R  |   22 
 inst/doc/changes.txt |    6 
 inst/doc/import.pdf  | 2126 +++++++++++++++++++++++++--------------------------
 4 files changed, 1080 insertions(+), 1080 deletions(-)

More information about grImport at CRAN
Permanent link

Package gnumeric updated to version 0.5-3 with previous version 0.5-2 dated 2009-09-03

Author: Karoly Antal .
Title: Read data from files readable by gnumeric
Description: Read data files readable by gnumeric into R. Can read whole sheet or a range, from several file formats, including the native format of gnumeric. Reading is done by using ssconvert (a file converter utility included in the gnumeric distribution http://projects.gnome.org/gnumeric/) to convert the requested part to CSV. From gnumeric files (but not other formats) can list sheet names and sheet sizes or read all sheets.

Diff between gnumeric versions 0.5-2 dated 2009-09-03 and 0.5-3 dated 2009-09-18

 DESCRIPTION                     |   14 +++--
 R/read.gnumeric.R               |  106 ++++++++++++++++++++++++++++++++++++++--
 changelog                       |only
 man/read.gnumeric.range.Rd      |    4 -
 man/read.gnumeric.sheet.Rd      |   38 +++++++++++---
 man/read.gnumeric.sheet.info.Rd |only
 man/read.gnumeric.sheets.Rd     |only
 7 files changed, 142 insertions(+), 20 deletions(-)

More information about gnumeric at CRAN
Permanent link

Package frbf updated to version 1.0.1 with previous version 1.0 dated 2009-09-09

Author: Fernando Martins
Title: Implementation of the "Flexible kernels for RBF network" algorithm
Description: Flexible kernerl for radial basis function network implementation.

Diff between frbf versions 1.0 dated 2009-09-09 and 1.0.1 dated 2009-09-18

 DESCRIPTION   |    8 ++++----
 R/1_classes.r |   43 ++++++++++---------------------------------
 R/2_common.r  |   53 ++++++++++++++++++++++++++++++++++++++++++-----------
 R/3_model.r   |   19 ++++++++-----------
 R/4_predict.r |   21 +++++++++++----------
 R/5_main.r    |    6 ++++++
 6 files changed, 81 insertions(+), 69 deletions(-)

More information about frbf at CRAN
Permanent link

Package forecast updated to version 2.01 with previous version 2.00 dated 2009-09-07

Author: Rob J Hyndman
Title: Forecasting functions for time series
Description: Methods and tools for displaying and analysing univariate time series forecasts including exponential smoothing via state space models and automatic ARIMA modelling.

Diff between forecast versions 2.00 dated 2009-09-07 and 2.01 dated 2009-09-18

 ChangeLog      |    4 ++++
 DESCRIPTION    |    8 ++++----
 R/forecast2.R  |   18 ++++++++++++++++--
 man/croston.Rd |    3 ++-
 4 files changed, 26 insertions(+), 7 deletions(-)

More information about forecast at CRAN
Permanent link

Package ensembleBMA updated to version 4.3.3 with previous version 4.3.2 dated 2009-09-09

Author: Chris Fraley, Adrian E. Raftery, J. McLean Sloughter, Tilmann Gneiting, University of Washington With contributions from Bobby Yuen and Michael Polokowski
Title: Probabilistic Forecasting using Ensembles and Bayesian Model Averaging
Description: Bayesian Model Averaging to create probabilistic forecasts from ensemble forecasts and weather observations.

Diff between ensembleBMA versions 4.3.2 dated 2009-09-09 and 4.3.3 dated 2009-09-18

 DESCRIPTION      |    8 ++++----
 R/fitBMAgamma0.R |    2 +-
 2 files changed, 5 insertions(+), 5 deletions(-)

More information about ensembleBMA at CRAN
Permanent link

Package dlnm updated to version 1.0.1 with previous version 0.4.1 dated 2009-08-04

Author: Antonio Gasparrini and Ben Armstrong
Title: Distributed Lag Non-linear Models
Description: The package dlnm contains functions to specify basis and cross-basis matrices in order to run distributed lag models and their non-linear extension, then to predict and graph the results for a fitted model.

Diff between dlnm versions 0.4.1 dated 2009-08-04 and 1.0.1 dated 2009-09-18

 dlnm-0.4.1/dlnm/inst/dlnmChangeLog        |only
 dlnm-1.0.1/dlnm/DESCRIPTION               |   11 
 dlnm-1.0.1/dlnm/NAMESPACE                 |    1 
 dlnm-1.0.1/dlnm/R/crossplot.R             |    2 
 dlnm-1.0.1/dlnm/R/crosspred.R             |   32 
 dlnm-1.0.1/dlnm/data                      |only
 dlnm-1.0.1/dlnm/inst/ChangeLog            |only
 dlnm-1.0.1/dlnm/inst/doc/Rplots.pdf       |37313 +++++++++++++--------------
 dlnm-1.0.1/dlnm/inst/doc/dlnmOverview.Rnw |  186 
 dlnm-1.0.1/dlnm/inst/doc/dlnmOverview.pdf |41458 ++++++++++++++----------------
 dlnm-1.0.1/dlnm/man/chicagoNMMAPS.Rd      |only
 dlnm-1.0.1/dlnm/man/crossbasis.Rd         |   17 
 dlnm-1.0.1/dlnm/man/crossplot.Rd          |   15 
 dlnm-1.0.1/dlnm/man/crosspred.Rd          |   24 
 dlnm-1.0.1/dlnm/man/dlnm-internal.Rd      |    4 
 dlnm-1.0.1/dlnm/man/dlnm-package.Rd       |    6 
 16 files changed, 39111 insertions(+), 39958 deletions(-)

More information about dlnm at CRAN
Permanent link

Package classInt updated to version 0.1-12 with previous version 0.1-11 dated 2009-05-29

Author: Roger Bivand , with contributions by Hisaji Ono and Richard Dunlap
Title: Choose univariate class intervals
Description: A package for choosing univariate class intervals for mapping or other graphics purposes

Diff between classInt versions 0.1-11 dated 2009-05-29 and 0.1-12 dated 2009-09-18

 ChangeLog             |    7 ++++++-
 DESCRIPTION           |    8 ++++----
 man/classIntervals.Rd |    2 +-
 man/findColours.Rd    |    2 +-
 4 files changed, 12 insertions(+), 7 deletions(-)

More information about classInt at CRAN
Permanent link

Package bear updated to version 2.4.1 with previous version 2.4.0 dated 2009-07-21

Author: Hsin-ya Lee, Yung-jin Lee ,
Title: Average bioequivalence and bioavailability data analysis tool
Description: An average bioequivalence (ABE) and bioavailability data analysis tool including sample size estimation, noncompartmental analysis (NCA), ANOVA (lm) for a standard RT/TR 2x2x2 crossover design and linear mixed effect model (lme of nlme) for a 2-treatment, 2-sequence, with 2 periods or more (i.e. 2x2x3/2x2x4) replicate design or a 2-treatment, 2-sequence, and 1-period parallel ABE study (2x2x1).

Diff between bear versions 2.4.0 dated 2009-07-21 and 2.4.1 dated 2009-09-18

 DESCRIPTION                  |   15 +++----
 R/BANOVA.r                   |   84 +++++++++++++++++++++++++++++++------------
 R/BANOVAoutput.r             |    2 -
 R/Multiplemenu.r             |    3 +
 R/NCAplot.r                  |    2 -
 R/Singlego.r                 |    3 +
 R/description_AIC.r          |    7 +--
 R/description_ARS.r          |    6 +--
 R/description_NCAcsv.r       |   12 +++---
 R/description_NCAinput.r     |   14 +++----
 R/description_TOST1_lnCmax.r |    2 -
 R/description_TOST_lnCmax.r  |    2 -
 R/description_TTT.r          |    4 +-
 R/description_import.r       |    2 -
 R/description_load.r         |    2 -
 R/description_plot.r         |   30 ++++++++-------
 R/description_size.r         |   10 ++---
 R/description_version.r      |   17 +++++---
 R/go.r                       |    3 +
 R/statmenu.r                 |    3 +
 R/zzz.R                      |    2 -
 21 files changed, 138 insertions(+), 87 deletions(-)

More information about bear at CRAN
Permanent link

Package bbmle updated to version 0.9.3 with previous version 0.9.0 dated 2009-02-05

Author: Ben Bolker ; based on stats4 by the R Development Core Team
Title: Tools for general maximum likelihood estimation
Description: Methods and functions for fitting maximum likelihood models in R. This package modifies and extends the mle classes in the stats4 package.

Diff between bbmle versions 0.9.0 dated 2009-02-05 and 0.9.3 dated 2009-09-18

 bbmle-0.9.0/bbmle/tests/binomtest1.Rout        |only
 bbmle-0.9.0/bbmle/tests/formulatest.Rout       |only
 bbmle-0.9.0/bbmle/tests/grtest1.Rout           |only
 bbmle-0.9.0/bbmle/tests/order.Rout             |only
 bbmle-0.9.3/bbmle/DESCRIPTION                  |   20 ++-
 bbmle-0.9.3/bbmle/NEWS                         |   21 +++
 bbmle-0.9.3/bbmle/R/dists.R                    |    9 +
 bbmle-0.9.3/bbmle/R/mle.R                      |  129 ++++++++++++---------
 bbmle-0.9.3/bbmle/R/predict.R                  |  148 ++++++++++++++++++-------
 bbmle-0.9.3/bbmle/TODO                         |   43 +++++--
 bbmle-0.9.3/bbmle/inst                         |only
 bbmle-0.9.3/bbmle/man/ICtab.Rd                 |    8 +
 bbmle-0.9.3/bbmle/man/mle-class.Rd             |    9 +
 bbmle-0.9.3/bbmle/man/mle2.Rd                  |    5 
 bbmle-0.9.3/bbmle/man/mle2.options.Rd          |    4 
 bbmle-0.9.3/bbmle/man/predict-methods.Rd       |   19 ++-
 bbmle-0.9.3/bbmle/man/sbinom.Rd                |   10 +
 bbmle-0.9.3/bbmle/tests/BIC.R                  |only
 bbmle-0.9.3/bbmle/tests/BIC.Rout.save          |only
 bbmle-0.9.3/bbmle/tests/binomtest1.Rout.save   |    9 -
 bbmle-0.9.3/bbmle/tests/formulatest.R          |    2 
 bbmle-0.9.3/bbmle/tests/formulatest.Rout.save  |   51 +++++---
 bbmle-0.9.3/bbmle/tests/glmcomp.R              |only
 bbmle-0.9.3/bbmle/tests/grtest1.Rout.save      |only
 bbmle-0.9.3/bbmle/tests/mortanal.Rout.save     |   17 +-
 bbmle-0.9.3/bbmle/tests/order.Rout.save        |only
 bbmle-0.9.3/bbmle/tests/predict.Rout.save      |only
 bbmle-0.9.3/bbmle/tests/test-relist1.Rout.save |   11 -
 bbmle-0.9.3/bbmle/tests/testbounds.Rout        |only
 bbmle-0.9.3/bbmle/tests/testbounds.Rout.save   |only
 bbmle-0.9.3/bbmle/tests/testparpred.R          |only
 bbmle-0.9.3/bbmle/tests/testparpred.Rout.save  |only
 32 files changed, 356 insertions(+), 159 deletions(-)

More information about bbmle at CRAN
Permanent link

Package ant updated to version 0.0-8 with previous version 0.0-6 dated 2009-09-08

Author: Romain Francois
Title: Version of ant specific to R
Description: Version of the ant apache build tool, with a few R specific tasks to ease use of ant within an R package

Diff between ant versions 0.0-6 dated 2009-09-08 and 0.0-8 dated 2009-09-18

 DESCRIPTION                                                   |    8 ++++----
 R/ant.R                                                       |    1 -
 inst/java_src/src/org/rproject/ant/AntRMainLoopCallbacks.java |    8 ++++----
 inst/java_src/src/org/rproject/ant/RTask.java                 |    1 +
 man/ant-package.Rd                                            |    4 ++--
 5 files changed, 11 insertions(+), 11 deletions(-)

More information about ant at CRAN
Permanent link

Package SGCS updated to version 1.3 with previous version 0.9 dated 2009-03-06

Author: Tuomas Rajala
Title: Spatial Graph based Clustering Summaries for spatial point patterns
Description: Graph based clustering summaries for spatial point patterns. Includes 4 functions: Connectivity function, Cumulative connectivity function and clustering function, plus the triplet intensity function T.

Diff between SGCS versions 0.9 dated 2009-03-06 and 1.3 dated 2009-09-18

 .cproject           |only
 .project            |   67 +++++++++++++++++++++++++++++++
 DESCRIPTION         |   19 +++++---
 R/Tfun.R            |only
 R/clustfun.R        |   33 +++++++++++----
 R/confun.R          |   41 ++++++++++++++++---
 R/cumconfun.R       |   40 ++++++++++++++++--
 R/fclass.R          |  110 ++++++++++++++++++++++++++--------------------------
 R/fun.R             |  108 +++++++++++++++++++++++++++++++--------------------
 R/fun_old.R         |only
 change.log          |   13 ++++++
 man/SGCS-funs.Rd    |   70 +++++++++++++++------------------
 man/SGCS-package.Rd |   14 +++---
 src/Fun.h           |    2 
 src/Tfun.cpp        |only
 src/Tfun.h          |only
 src/rfun.cpp        |    6 +-
 17 files changed, 354 insertions(+), 169 deletions(-)

More information about SGCS at CRAN
Permanent link

Package R.rsp updated to version 0.3.6 with previous version 0.3.4 dated 2008-03-07

Author: Henrik Bengtsson
Title: R Server Pages
Description: An R Server Page (RSP) is a document that contains both text in a format of choice (HTML, TeX, ...) as well as R source code within special tags. An RSP file can be translated into a so called R servlet, which is an R script that outputs the final document when sourced. This way documents in any format can be generated dynamically using R, e.g. automatic reports of statistical analysis. Utilizing an internal cross-platform web server, this package provides dynamic help pages in HTML. If other packages provide RSP help pages, these are automatically linked to in the RSP main menu.

Diff between R.rsp versions 0.3.4 dated 2008-03-07 and 0.3.6 dated 2009-09-18

 R.rsp-0.3.4/R.rsp/inst/HISTORY                  |only
 R.rsp-0.3.6/R.rsp/DESCRIPTION                   |   39 -
 R.rsp-0.3.6/R.rsp/R/000.R                       |   20 
 R.rsp-0.3.6/R.rsp/R/999.NonDocumentedObjects.R  |    6 
 R.rsp-0.3.6/R.rsp/R/999.package.R               |    2 
 R.rsp-0.3.6/R.rsp/R/compileRsp.R                |only
 R.rsp-0.3.6/R.rsp/R/dvips.R                     |only
 R.rsp-0.3.6/R.rsp/R/epsDev.R                    |only
 R.rsp-0.3.6/R.rsp/R/parseRsp.R                  |only
 R.rsp-0.3.6/R.rsp/R/ps2pdf.R                    |only
 R.rsp-0.3.6/R.rsp/R/rspCapture.R                |only
 R.rsp-0.3.6/R.rsp/R/rsptex.R                    |only
 R.rsp-0.3.6/R.rsp/R/sourceRsp.R                 |    6 
 R.rsp-0.3.6/R.rsp/R/translateRsp.R              |  669 +++++-------------------
 R.rsp-0.3.6/R.rsp/R/translateRspV1.R            |only
 R.rsp-0.3.6/R.rsp/R/zzz.R                       |    7 
 R.rsp-0.3.6/R.rsp/incl/vignettes/rtex.R         |    4 
 R.rsp-0.3.6/R.rsp/inst/NEWS                     |only
 R.rsp-0.3.6/R.rsp/inst/tcl/r-httpd.tcl          |    5 
 R.rsp-0.3.6/R.rsp/man/FileRspResponse.Rd        |    2 
 R.rsp-0.3.6/R.rsp/man/HtmlRspLanguage.Rd        |    2 
 R.rsp-0.3.6/R.rsp/man/HttpDaemon.Rd             |    2 
 R.rsp-0.3.6/R.rsp/man/HttpDaemonRspResponse.Rd  |    2 
 R.rsp-0.3.6/R.rsp/man/HttpRequest.Rd            |    2 
 R.rsp-0.3.6/R.rsp/man/Non-documented_objects.Rd |    6 
 R.rsp-0.3.6/R.rsp/man/R.rsp-package.Rd          |    2 
 R.rsp-0.3.6/R.rsp/man/RspLanguage.Rd            |    2 
 R.rsp-0.3.6/R.rsp/man/RspPage.Rd                |    2 
 R.rsp-0.3.6/R.rsp/man/RspResponse.Rd            |    2 
 R.rsp-0.3.6/R.rsp/man/parseRsp.Rd               |only
 R.rsp-0.3.6/R.rsp/man/rsptex.Rd                 |only
 R.rsp-0.3.6/R.rsp/man/sourceRsp.Rd              |    4 
 R.rsp-0.3.6/R.rsp/man/translateRsp.Rd           |   30 -
 R.rsp-0.3.6/R.rsp/man/translateRspV1.Rd         |only
 34 files changed, 229 insertions(+), 587 deletions(-)

More information about R.rsp at CRAN
Permanent link

Package R.cache updated to version 0.1.9 with previous version 0.1.8 dated 2009-09-08

Author: Henrik Bengtsson
Title: Fast and light-weight caching of objects
Description: Methods for memoization, that is, caching arbitrary R objects in persistent memory. Objects can be loaded and saved stratified on a set of hashing objects.

Diff between R.cache versions 0.1.8 dated 2009-09-08 and 0.1.9 dated 2009-09-18

 DESCRIPTION      |   10 ++++------
 R/loadCache.R    |   23 +++++++++++++++++++++--
 inst/NEWS        |   13 +++++++++++--
 man/loadCache.Rd |    4 +++-
 4 files changed, 39 insertions(+), 11 deletions(-)

More information about R.cache at CRAN
Permanent link

New package ORIClust with initial version 1.0-0
Package: ORIClust
Type: Package
Title: Order-restricted Information Criterion-based Clustering Algorithm
Version: 1.0-0
Date: 2009-09-10
Author: Tianqing Liu, Nan Lin, Ningzhong Shi and Baoxue Zhang
Maintainer: Tianqing Liu
Description: ORIClust is a user-friendly R-based software package for gene clustering. Clusters are given by genes matched to prespecified profiles across various ordered treatment groups. It is particularly useful for analyzing data obtained from short time-course or dose-response microarray experiments.
License: GPL-2
LazyLoad: yes
Packaged: 2009-09-16 02:42:05 UTC; yuan
Repository: CRAN
Date/Publication: 2009-09-18 20:18:19

More information about ORIClust at CRAN
Permanent link

Package Metabonomic updated to version 3.3 with previous version 3.2.1 dated 2009-07-02

Author: Jose L. Izquierdo Instituto de Estudios Biofuncionales(U.C.M.).
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.

Diff between Metabonomic versions 3.2.1 dated 2009-07-02 and 3.3 dated 2009-09-18

 DESCRIPTION                |   15 ++++++++-------
 R/Import.data.R            |   38 +++++++++++++++++++++++++++-----------
 R/Met.Aligm.R              |    2 +-
 R/Met.Binning.R            |    3 ++-
 R/Met.NN2.R                |    2 +-
 R/Met.PLS2.R               |   43 ++++++++++++++++++++++++++++++++++---------
 R/Met.kopls.R              |only
 R/Met.peak.detection.R     |    2 +-
 R/Metabonomic.R            |   42 ++++++++++++++++++++++++++++++++----------
 R/msc.biomarkers.fill.R    |only
 R/msc.peaks.align.R        |only
 R/msc.peaks.alignment.R    |only
 R/msc.peaks.clust.R        |only
 R/msc.peaks.find.R         |only
 inst/PROcess_1.8.0.zip     |only
 inst/Thumbs.db             |binary
 inst/kopls_1.0.3.zip       |only
 man/Met.kopls.Rd           |only
 man/msc.biomarkers.fill.Rd |only
 man/msc.peaks.align.Rd     |only
 man/msc.peaks.alignment.Rd |only
 man/msc.peaks.clust.Rd     |only
 man/msc.peaks.find.Rd      |only
 23 files changed, 106 insertions(+), 41 deletions(-)

More information about Metabonomic at CRAN
Permanent link

Package MLDS updated to version 0.2-2 with previous version 0.2-1 dated 2009-08-21

Author: Kenneth Knoblauch and Laurence T. Maloney, based in part on C code written by Laurence T. Maloney and J. N. Yang
Title: Maximum Likelihood Difference Scaling
Description: Difference scaling is a method for scaling perceived supra-threshold differences. The package contains functions that allow the user to design and run a difference scaling experiment, to fit the resulting data by maximum likelihood and test the internal validity of the estimated scale.

Diff between MLDS versions 0.2-1 dated 2009-08-21 and 0.2-2 dated 2009-09-18

 MLDS-0.2-1/MLDS/R/runSampleExperiment.R    |only
 MLDS-0.2-1/MLDS/man/DisplayOneTrial.Rd     |only
 MLDS-0.2-1/MLDS/man/runSampleExperiment.Rd |only
 MLDS-0.2-2/MLDS/DESCRIPTION                |    8 +--
 MLDS-0.2-2/MLDS/NAMESPACE                  |   36 +++++++++++++--
 MLDS-0.2-2/MLDS/R/as.mlds.df.R             |   33 ++++++++++----
 MLDS-0.2-2/MLDS/R/binom.diagnostics.R      |    4 -
 MLDS-0.2-2/MLDS/R/boot.mlds.R              |   20 +++++++-
 MLDS-0.2-2/MLDS/R/coef.mlds.R              |    6 ++
 MLDS-0.2-2/MLDS/R/fitted.mlds.R            |    4 +
 MLDS-0.2-2/MLDS/R/logLik.mlds.R            |   10 +++-
 MLDS-0.2-2/MLDS/R/mlds.R                   |   66 ++++++++++++++++++++++++-----
 MLDS-0.2-2/MLDS/R/plot.mlds.R              |   27 +++++++++++
 MLDS-0.2-2/MLDS/R/pmc.R                    |    4 -
 MLDS-0.2-2/MLDS/R/predict.mlds.R           |   11 ++++
 MLDS-0.2-2/MLDS/R/print.mlds.R             |    9 +++
 MLDS-0.2-2/MLDS/R/print.summary.mlds.R     |   25 ++++++++++
 MLDS-0.2-2/MLDS/R/rbind.mlds.df.R          |   11 ++++
 MLDS-0.2-2/MLDS/R/runQuadExperiment.R      |only
 MLDS-0.2-2/MLDS/R/runTriadExperiment.R     |only
 MLDS-0.2-2/MLDS/R/summary.mlds.R           |   19 ++++++++
 MLDS-0.2-2/MLDS/R/vcov.mlds.R              |    5 +-
 MLDS-0.2-2/MLDS/data/kktriad.rda           |only
 MLDS-0.2-2/MLDS/inst/NEWS                  |   16 +++++++
 MLDS-0.2-2/MLDS/man/DisplayOneQuad.Rd      |only
 MLDS-0.2-2/MLDS/man/as.mlds.df.Rd          |   17 +++----
 MLDS-0.2-2/MLDS/man/binom.diagnostics.Rd   |    3 -
 MLDS-0.2-2/MLDS/man/boot.mlds.Rd           |   14 +++---
 MLDS-0.2-2/MLDS/man/fitted.mlds.Rd         |    9 ++-
 MLDS-0.2-2/MLDS/man/kk.Rd                  |   25 +++++++---
 MLDS-0.2-2/MLDS/man/logLik.mlds.Rd         |    9 ++-
 MLDS-0.2-2/MLDS/man/mlds.Rd                |   31 ++++++++++---
 MLDS-0.2-2/MLDS/man/plot.mlds.Rd           |   12 ++++-
 MLDS-0.2-2/MLDS/man/predict.mlds.Rd        |   11 +++-
 MLDS-0.2-2/MLDS/man/print.mlds.Rd          |   11 +++-
 MLDS-0.2-2/MLDS/man/rbind.mlds.df.Rd       |   12 +++--
 MLDS-0.2-2/MLDS/man/runQuadExperiment.Rd   |only
 MLDS-0.2-2/MLDS/man/summary.mlds.Rd        |   14 ++++--
 38 files changed, 388 insertions(+), 94 deletions(-)

More information about MLDS at CRAN
Permanent link

Package MLCM updated to version 0.0-2 with previous version 0.0-1 dated 2009-09-09

Author: Kenneth Knoblauch and Laurence T. Maloney
Title: Maximum Likelihood Conjoint Measurement
Description: Conjoint measurement is a psychophysical procedure in which stimulus pairs are presented that vary along 2 or more dimensions and the observer is required to compare the stimuli along one of them. This package contains functions to estimate the contribution of the n scales to the judgment by a maximum likelihood method under several hypotheses of how the perceptual dimensions interact.

Diff between MLCM versions 0.0-1 dated 2009-09-09 and 0.0-2 dated 2009-09-18

 DESCRIPTION              |   10 +++++-----
 NAMESPACE                |    5 ++++-
 R/binom.diagnostics.R    |only
 R/boot.mlcm.R            |only
 R/fitted.mlcm.R          |only
 inst/NEWS                |only
 inst/ToDo                |    3 +--
 man/binom.diagnostics.Rd |only
 man/boot.mlcm.Rd         |only
 man/fitted.mlcm.Rd       |only
 10 files changed, 10 insertions(+), 8 deletions(-)

More information about MLCM at CRAN
Permanent link

Package MCPMod updated to version 1.0-4 with previous version 1.0-3 dated 2009-04-27

Author: Bjoern Bornkamp, Jose Pinheiro and Frank Bretz
Title: Design and Analysis of Dose-Finding Studies
Description: This package implements a methodology for the design and analysis of dose-response studies that combines aspects of multiple comparison procedures and modeling approaches (Bretz, Pinheiro and Branson, 2005, Biometrics 61, 738-748). The package provides tools for the analysis of dose finding trials as well as a variety of tools necessary to plan a trial to be conducted with the MCPMod methodology.

Diff between MCPMod versions 1.0-3 dated 2009-04-27 and 1.0-4 dated 2009-09-18

 ChangeLog             |   10 
 DESCRIPTION           |    8 
 R/analysisMM.R        |    3 
 inst/doc/MCPMod.pdf   | 2101 +++++++++++++++++++++++++-------------------------
 inst/doc/Rplots.pdf   |  750 ++++++++---------
 man/MCPMod-package.Rd |    4 
 6 files changed, 1456 insertions(+), 1420 deletions(-)

More information about MCPMod at CRAN
Permanent link

Package KFAS updated to version 0.4.1 with previous version 0.3.3 dated 2009-08-27

Author: Jouni Lehtonen
Title: Multivariate Kalman filter and smoother, simulation smoother and forecasting
Description: Package KFAS provides functions for fast Kalman filtering, smoothing, forecasting and simulation of multivariate time-variant state space models. All functions can use exact diffuse initialisation when distributions of some or all elements of initial state vector are unknown. Functions use sequential processing algorithm, which is faster than standard approach, and it also allows singularity of prediction error variance matrix.

Diff between KFAS versions 0.3.3 dated 2009-08-27 and 0.4.1 dated 2009-09-18

 KFAS-0.3.3/KFAS/man/estmiss.Rd |only
 KFAS-0.4.1/KFAS/DESCRIPTION    |   20 ++++----
 KFAS-0.4.1/KFAS/NAMESPACE      |    2 
 KFAS-0.4.1/KFAS/R/KFAS.R       |   87 ++++++++---------------------------
 KFAS-0.4.1/KFAS/man/kf.Rd      |    4 -
 KFAS-0.4.1/KFAS/src/kf.f90     |  100 +++++++++++++++++++----------------------
 6 files changed, 82 insertions(+), 131 deletions(-)

More information about KFAS at CRAN
Permanent link

New package LLdecomp with initial version 1.0
Package: LLdecomp
Type: Package
Title: Decomposes a set of variables into cliques and separators.
Version: 1.0
Date: 2009-05-12
Author: Corinne Dahinden
Maintainer: Corinne Dahinden
Description: Decomposes a set of variables into cliques and separators depending on their association which is measured using Random Forests.
Depends: randomForest,igraph, gRain
License: GPL
LazyLoad: yes
Packaged: 2009-09-18 07:40:33 UTC; kalisch
Repository: CRAN
Date/Publication: 2009-09-18 20:17:49

More information about LLdecomp at CRAN
Permanent link

Package GRASS updated to version 0.3-8 with previous version 0.3-7 dated 2008-03-12

Author: Roger Bivand
Title: Interface between GRASS 5.0 geographical information system and R
Description: Interface between GRASS 5.0 geographical information system and R, based on starting R from within the GRASS environment using values of environment variables set in the GISRC file. Interface examples should be run outside GRASS, others may be run within. Wrapper and helper functions are provided for a range of R functions to match the interface metadata structures.

Diff between GRASS versions 0.3-7 dated 2008-03-12 and 0.3-8 dated 2009-09-18

 DESCRIPTION         |   24 ++++++++++++++----------
 man/interp.new.G.Rd |    2 +-
 man/krige.G.Rd      |    2 +-
 3 files changed, 16 insertions(+), 12 deletions(-)

More information about GRASS at CRAN
Permanent link

Package FrF2 updated to version 0.97-10 with previous version 0.97-8 dated 2009-09-07

Author: Ulrike Groemping
Title: Fractional Factorial designs with 2-level factors
Description: This package creates regular and non-regular Fractional Factorial designs. Furthermore, analysis tools for Fractional Factorial designs with 2-level factors are offered (main effects and interaction plots for all factors simultaneously, cube plot for looking at the simultaneous effects of three factors, full or half normal plot, alias structure in a more readable format than with the built-in function alias). The package is currently subject to intensive development. While much of the intended functionality is already available, some changes and improvements are still to be expected. Suggestions are welcome.

Diff between FrF2 versions 0.97-8 dated 2009-09-07 and 0.97-10 dated 2009-09-18

 DESCRIPTION        |    8 ++++----
 R/FrF2.R           |    3 +++
 R/pb.R             |    3 +++
 inst/NEWS          |    7 +++++++
 man/utilitiesPB.Rd |    4 ++--
 5 files changed, 19 insertions(+), 6 deletions(-)

More information about FrF2 at CRAN
Permanent link

Package FRB updated to version 1.6 with previous version 1.4 dated 2009-05-13

Author: Ella Roelant, Stefan Van Aelst, Gert Willems
Title: Fast and Robust Bootstrap
Description: This package performs robust inference based on applying Fast and Robust Bootstrap on robust estimators. Available methods are multivariate regression, PCA and Hotelling tests.

Diff between FRB versions 1.4 dated 2009-05-13 and 1.6 dated 2009-09-18

 FRB-1.4/FRB/R/FRBHotellingMM.R         |only
 FRB-1.4/FRB/R/MMboottwosample.R        |only
 FRB-1.4/FRB/R/Sboottwosample.R         |only
 FRB-1.4/FRB/R/plotDiag.r               |only
 FRB-1.4/FRB/R/plotFRB.R                |only
 FRB-1.4/FRB/R/plotFRBconf.r            |only
 FRB-1.4/FRB/R/print.FRBhot.r           |only
 FRB-1.4/FRB/R/twosampleMM.R            |only
 FRB-1.4/FRB/R/twosampleS.R             |only
 FRB-1.4/FRB/man/MMboottwosample.Rd     |only
 FRB-1.4/FRB/man/Sboottwosample.Rd      |only
 FRB-1.4/FRB/man/twosampleMM.Rd         |only
 FRB-1.4/FRB/man/twosampleS.Rd          |only
 FRB-1.6/FRB/DESCRIPTION                |    8 -
 FRB-1.6/FRB/R/FRBhotellingMM.R         |only
 FRB-1.6/FRB/R/FRBhotellingS.R          |   20 +--
 FRB-1.6/FRB/R/FRBmultiregGS.R          |   17 ++
 FRB-1.6/FRB/R/FRBmultiregMM.R          |   17 ++
 FRB-1.6/FRB/R/FRBmultiregS.R           |   21 +++
 FRB-1.6/FRB/R/FRBpcaMM.R               |    2 
 FRB-1.6/FRB/R/FRBpcaS.R                |    5 
 FRB-1.6/FRB/R/GSboot_multireg.R        |  161 ++++++++++++++++++--------
 FRB-1.6/FRB/R/GSest_multireg.R         |   14 +-
 FRB-1.6/FRB/R/MMboot_multireg.R        |  199 ++++++++++++++++++++++-----------
 FRB-1.6/FRB/R/MMboot_twosample.r       |only
 FRB-1.6/FRB/R/MMest_loccov.R           |    6 
 FRB-1.6/FRB/R/MMest_multireg.R         |    7 -
 FRB-1.6/FRB/R/MMest_twosample.r        |only
 FRB-1.6/FRB/R/Sboot_multireg.R         |  172 ++++++++++++++++++++--------
 FRB-1.6/FRB/R/Sboot_twosample.r        |only
 FRB-1.6/FRB/R/Sest_loccov.R            |    8 -
 FRB-1.6/FRB/R/Sest_multireg.R          |    6 
 FRB-1.6/FRB/R/Sest_twosample.r         |only
 FRB-1.6/FRB/R/plotFRBhot.r             |only
 FRB-1.6/FRB/R/plotFRBhotDiag.r         |only
 FRB-1.6/FRB/R/plotFRBmultireg.r        |only
 FRB-1.6/FRB/R/plotFRBmultiregDiag.r    |only
 FRB-1.6/FRB/R/plotFRBpca.r             |   13 +-
 FRB-1.6/FRB/R/plotFRBpcaDiag.r         |only
 FRB-1.6/FRB/R/summary_FRBhot.r         |only
 FRB-1.6/FRB/R/summary_FRBmultireg.r    |  107 ++++++++++-------
 FRB-1.6/FRB/R/summary_FRBpca.r         |   17 +-
 FRB-1.6/FRB/man/FRBhotellingMM.Rd      |   57 +++++++--
 FRB-1.6/FRB/man/FRBhotellingS.Rd       |   53 +++++++-
 FRB-1.6/FRB/man/FRBmultiregGS.Rd       |   25 +++-
 FRB-1.6/FRB/man/FRBmultiregMM.Rd       |   28 +++-
 FRB-1.6/FRB/man/FRBmultiregS.Rd        |   25 +++-
 FRB-1.6/FRB/man/FRBpcaMM.Rd            |    4 
 FRB-1.6/FRB/man/FRBpcaS.Rd             |    4 
 FRB-1.6/FRB/man/GSboot_multireg.Rd     |   13 +-
 FRB-1.6/FRB/man/GSest_multireg.Rd      |    3 
 FRB-1.6/FRB/man/MMboot_multireg.Rd     |   13 ++
 FRB-1.6/FRB/man/MMboot_twosample.rd    |only
 FRB-1.6/FRB/man/MMest_loccov.Rd        |    6 
 FRB-1.6/FRB/man/MMest_multireg.Rd      |   16 ++
 FRB-1.6/FRB/man/MMest_twosample.rd     |only
 FRB-1.6/FRB/man/Sboot_multireg.Rd      |   14 ++
 FRB-1.6/FRB/man/Sboot_twosample.rd     |only
 FRB-1.6/FRB/man/Scontrol.Rd            |    2 
 FRB-1.6/FRB/man/Sest_loccov.Rd         |    3 
 FRB-1.6/FRB/man/Sest_multireg.Rd       |   14 ++
 FRB-1.6/FRB/man/Sest_twosample.rd      |only
 FRB-1.6/FRB/man/diagplot.rd            |only
 FRB-1.6/FRB/man/plot.FRBhot.Rd         |only
 FRB-1.6/FRB/man/plot.FRBmultireg.Rd    |   62 +++-------
 FRB-1.6/FRB/man/plot.FRBpca.Rd         |   31 ++++-
 FRB-1.6/FRB/man/print.FRBhot.Rd        |   11 -
 FRB-1.6/FRB/man/summary.FRBhot.rd      |only
 FRB-1.6/FRB/man/summary.FRBmultireg.Rd |   15 +-
 FRB-1.6/FRB/man/summary.FRBpca.Rd      |   11 -
 70 files changed, 851 insertions(+), 359 deletions(-)

More information about FRB at CRAN
Permanent link

New package FME with initial version 1.0
Package: FME
Version: 1.0
Title: A Flexible Modelling Environment for inverse modelling, sensitivity, identifiability, Monte Carlo analysis.
Author: Karline Soetaert , Thomas Petzoldt
Maintainer: Karline Soetaert
Depends: R (>= 2.6), deSolve, rootSolve, minpack.lm, MASS, coda
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.
License: GPL (>= 2)
LazyData: yes
Repository: CRAN
Repository/R-Forge/Project: fme
Repository/R-Forge/Revision: 77
Date/Publication: 2009-09-18 20:15:36
Packaged: 2009-09-02 20:12:12 UTC; rforge

More information about FME at CRAN
Permanent link

Package DoE.wrapper updated to version 0.6-2 with previous version 0.6-1 dated 2009-09-07

Author: Ulrike Groemping
Title: Wrapper package for design of experiments functionality
Description: This package creates various kinds of designs for (industrial) experiments. It uses, and sometimes enhances, design generation routines from other packages. Initially, response surface designs from package rsm and latin hypercube samples from package lhs have been implemented.

Diff between DoE.wrapper versions 0.6-1 dated 2009-09-07 and 0.6-2 dated 2009-09-18

 DESCRIPTION    |    8 ++++----
 R/bbd.design.R |    6 +++++-
 R/ccd.design.R |    4 ++++
 R/lhs.design.R |    3 +++
 inst/NEWS      |    7 +++++++
 5 files changed, 23 insertions(+), 5 deletions(-)

More information about DoE.wrapper at CRAN
Permanent link

Package DoE.base updated to version 0.9-3 with previous version 0.9-1 dated 2009-09-12

Author: Ulrike Groemping
Title: Full factorials, orthogonal arrays and base utilities for DoE packages
Description: This package creates full factorial experimental designs and designs based on orthogonal arrays for (industrial) experiments. Additionally, it provides some utility functions used also by other DoE packages.

Diff between DoE.base versions 0.9-1 dated 2009-09-12 and 0.9-3 dated 2009-09-18

 DESCRIPTION                |    8 ++++----
 R/add.response.R           |    8 ++++----
 R/fac.design.R             |    3 +++
 R/oa.design.R              |    7 +++++++
 R/param.design.R           |    4 +++-
 R/printandsummary.design.R |    3 ++-
 inst/NEWS                  |   11 ++++++++++-
 man/add.response.Rd        |    2 ++
 man/lm.design.Rd           |    2 +-
 9 files changed, 36 insertions(+), 12 deletions(-)

More information about DoE.base at CRAN
Permanent link

Package Design updated to version 2.3-0 with previous version 2.2-0 dated 2009-05-18

Author: Frank E Harrell Jr
Title: Design Package
Description: Regression modeling, testing, estimation, validation, graphics, prediction, and typesetting by storing enhanced model design attributes in the fit. Design is a collection of about 180 functions that assist and streamline modeling, especially for biostatistical and epidemiologic applications. It also contains new 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. Design works with almost any regression model, but it was especially written to work with logistic regression, Cox regression, accelerated failure time models, ordinary linear models, the Buckley-James model, and generalized least squares for serially or spatially correlated observations.

Diff between Design versions 2.2-0 dated 2009-05-18 and 2.3-0 dated 2009-09-18

 Design-2.2-0/Design/inst/copyright             |only
 Design-2.3-0/Design/DESCRIPTION                |   10 
 Design-2.3-0/Design/R/AFirst.lib.s             |    8 
 Design-2.3-0/Design/R/Design.Misc.s            |   56 -
 Design-2.3-0/Design/R/Design.s                 |   17 
 Design-2.3-0/Design/R/Design.trans.s           |    2 
 Design-2.3-0/Design/R/Varcov.s                 |only
 Design-2.3-0/Design/R/bj.s                     |   28 
 Design-2.3-0/Design/R/bootcov.s                |  630 +++++------
 Design-2.3-0/Design/R/calibrate.psm.s          |   16 
 Design-2.3-0/Design/R/contrast.s               |  205 ++-
 Design-2.3-0/Design/R/copyright.s              |only
 Design-2.3-0/Design/R/cph.s                    |   11 
 Design-2.3-0/Design/R/fastbw.s                 |    6 
 Design-2.3-0/Design/R/groupkm.s                |    4 
 Design-2.3-0/Design/R/latex.psm.s              |   35 
 Design-2.3-0/Design/R/lrm.fit.s                |   18 
 Design-2.3-0/Design/R/lrm.fit.strat.s          |    2 
 Design-2.3-0/Design/R/lrm.s                    |   18 
 Design-2.3-0/Design/R/matinv.s                 |    2 
 Design-2.3-0/Design/R/nomogram.Design.s        | 1388 ++++++++++++-------------
 Design-2.3-0/Design/R/ols.s                    |   14 
 Design-2.3-0/Design/R/predab.resample.s        |    8 
 Design-2.3-0/Design/R/psm.s                    |   16 
 Design-2.3-0/Design/R/residuals.cph.s          |    6 
 Design-2.3-0/Design/R/robcov.s                 |    3 
 Design-2.3-0/Design/R/survfit.cph.null.s       |    2 
 Design-2.3-0/Design/R/survfit.cph.s            |    6 
 Design-2.3-0/Design/R/val.prob.s               |    4 
 Design-2.3-0/Design/R/validate.psm.s           |    3 
 Design-2.3-0/Design/R/which.influence.s        |    9 
 Design-2.3-0/Design/man/Design-internal.Rd     |    6 
 Design-2.3-0/Design/man/Function.Rd            |   95 -
 Design-2.3-0/Design/man/anova.Design.Rd        |  324 ++---
 Design-2.3-0/Design/man/bootcov.Rd             |  477 ++++----
 Design-2.3-0/Design/man/contrast.Rd            |   95 +
 Design-2.3-0/Design/man/cph.Rd                 |   26 
 Design-2.3-0/Design/man/groupkm.Rd             |  126 +-
 Design-2.3-0/Design/man/hazard.ratio.plot.Rd   |  158 +-
 Design-2.3-0/Design/man/latex.cph.Rd           |   70 -
 Design-2.3-0/Design/man/nomogram.Rd            |    5 
 Design-2.3-0/Design/man/plot.Design.Rd         |  829 +++++++-------
 Design-2.3-0/Design/man/plot.xmean.ordinaly.Rd |  119 +-
 Design-2.3-0/Design/man/predab.resample.Rd     |  336 +++---
 Design-2.3-0/Design/man/predict.lrm.Rd         |    5 
 Design-2.3-0/Design/man/print.cph.Rd           |   45 
 Design-2.3-0/Design/man/print.cph.fit.Rd       |   55 
 Design-2.3-0/Design/man/residuals.lrm.Rd       |  305 ++---
 Design-2.3-0/Design/man/residuals.ols.Rd       |   60 -
 Design-2.3-0/Design/man/rm.impute.Rd           |  353 +++---
 Design-2.3-0/Design/man/summary.Design.Rd      |  291 ++---
 Design-2.3-0/Design/man/survplot.Rd            |  468 ++++----
 Design-2.3-0/Design/man/val.prob.Rd            |  639 +++++------
 Design-2.3-0/Design/man/validate.cph.Rd        |   41 
 Design-2.3-0/Design/man/vif.Rd                 |   38 
 55 files changed, 3760 insertions(+), 3733 deletions(-)

More information about Design at CRAN
Permanent link

Package BMA updated to version 3.12 with previous version 3.10 dated 2009-04-19

Author: Adrian Raftery , Jennifer Hoeting, Chris Volinsky, Ian Painter, Ka Yee Yeung
Title: Bayesian Model Averaging
Description: Package for Bayesian model averaging for linear models, generalizable linear models and survival models (cox regression).

Diff between BMA versions 3.10 dated 2009-04-19 and 3.12 dated 2009-09-18

 CHANGELOG           |    6 +
 DESCRIPTION         |   10 +--
 R/glib.R            |    4 -
 R/imageplot.bma.R   |  171 ++++++++++++++++++++++------------------------------
 man/summary.iBMA.Rd |    2 
 5 files changed, 87 insertions(+), 106 deletions(-)

More information about BMA at CRAN
Permanent link

New package COP with initial version 1.0
Package: COP
Type: Package
Title: Variables selection for index models via correlation pursuit
Version: 1.0
Date: 2009-09-17
Author: Wenxuan Zhong
Maintainer: Wenxuan Zhong
Depends: dr
Description: This is the package for selecting variables for index models via correlation pursuit.
License: GPL (>= 2)
URL: http://www.r-project.org
Packaged: Thu Sep 17 09:25:57 2009; wenxuan
Repository: CRAN
Date/Publication: 2009-09-18 20:14:55

More information about COP at CRAN
Permanent link

Package cclust updated to version 0.6-16 with previous version 0.6-15 dated 2009-01-06

Author: Evgenia Dimitriadou
Title: Convex Clustering Methods and Clustering Indexes
Description: Convex Clustering methods, including Kmeans algorithm, On-line Update algorithm (Hard Competitive Learning) and Neural Gas algorithm (Soft Competitive Learning) and calculation of several indexes for finding the number of clusters in a data set.

Diff between cclust versions 0.6-15 dated 2009-01-06 and 0.6-16 dated 2009-09-18

 DESCRIPTION     |   14 ++++++++------
 man/Rindexes.Rd |   10 +++++-----
 man/cclust.Rd   |    2 +-
 3 files changed, 14 insertions(+), 12 deletions(-)

More information about cclust at CRAN
Permanent link

Package bindata updated to version 0.9-15 with previous version 0.9-14 dated 2006-10-09

Author: Friedrich Leisch and Andreas Weingessel
Title: Generation of Artificial Binary Data
Description: Generation of correlated artificial binary data.

Diff between bindata versions 0.9-14 dated 2006-10-09 and 0.9-15 dated 2009-09-18

 DESCRIPTION               |    8 +++++---
 man/bincorr2commonprob.Rd |    2 +-
 man/check.commonprob.Rd   |    2 +-
 man/commonprob2sigma.Rd   |    6 +++---
 4 files changed, 10 insertions(+), 8 deletions(-)

More information about bindata at CRAN
Permanent link

Sun, 13 Sep 2009

Package dummies updated to version 1.05-1 with previous version 1.03 dated 2009-08-21

Author: Christopher Brown
Title: Create dummy/indicator variables flexibly and efficiently
Description: Expands factors, characters and other eligible classes into dummy/indicator variables.

Diff between dummies versions 1.03 dated 2009-08-21 and 1.05-1 dated 2009-09-13

 ChangeLog              |   32 +++++++++++++++---
 DESCRIPTION            |   10 ++---
 R/dummy.R              |   22 +++++++++---
 R/dummy.data.frame.R   |   22 ++++++++++--
 R/get.dummy.R          |    2 -
 R/which.dummy.R        |   11 ++++--
 TODO                   |only
 man/dummies-package.Rd |    6 +--
 man/dummy.Rd           |   86 ++++++++++++++++++++++++++++++++++---------------
 man/get.dummy.Rd       |   27 +++------------
 man/which.dummy.Rd     |    3 -
 11 files changed, 146 insertions(+), 75 deletions(-)

More information about dummies at CRAN
Permanent link

Package oce updated to version 0.1-77 with previous version 0.1-76 dated 2009-03-03

Author: Dan Kelley
Title: Analysis of Oceanographic data
Description: Supports the analysis of Oceanographic data, including ADP measurements, CTD measurements, sectional data, sea-level timeseries, coastline files, etc. Provides functions for calculating seawater properties such as potential temperature and density, as well as derived properties such as buoyancy frequency and dynamic height.

Diff between oce versions 0.1-76 dated 2009-03-03 and 0.1-77 dated 2009-09-13

 oce-0.1-76/oce/R/add.column.R                |only
 oce-0.1-76/oce/R/as.coastline.R              |only
 oce-0.1-76/oce/R/as.ctd.R                    |only
 oce-0.1-76/oce/R/as.sealevel.R               |only
 oce-0.1-76/oce/R/as.windrose.R               |only
 oce-0.1-76/oce/R/coriolis.R                  |only
 oce-0.1-76/oce/R/ctd.add.column.R            |only
 oce-0.1-76/oce/R/ctd.decimate.R              |only
 oce-0.1-76/oce/R/ctd.trim.R                  |only
 oce-0.1-76/oce/R/ctd.update.header.R         |only
 oce-0.1-76/oce/R/ctd.write.R                 |only
 oce-0.1-76/oce/R/decimate.R                  |only
 oce-0.1-76/oce/R/fill.gap.R                  |only
 oce-0.1-76/oce/R/gebco.colors.R              |only
 oce-0.1-76/oce/R/geod.dist.R                 |only
 oce-0.1-76/oce/R/gravity.R                   |only
 oce-0.1-76/oce/R/header.R                    |only
 oce-0.1-76/oce/R/interp.barnes.R             |only
 oce-0.1-76/oce/R/make.filter.R               |only
 oce-0.1-76/oce/R/make.section.R              |only
 oce-0.1-76/oce/R/oce.as.POSIXlt.R            |only
 oce-0.1-76/oce/R/oce.edit.R                  |only
 oce-0.1-76/oce/R/oce.write.table.R           |only
 oce-0.1-76/oce/R/plot.TS.R                   |only
 oce-0.1-76/oce/R/plot.coastline.R            |only
 oce-0.1-76/oce/R/plot.ctd.R                  |only
 oce-0.1-76/oce/R/plot.ctd.scan.R             |only
 oce-0.1-76/oce/R/plot.lobo.R                 |only
 oce-0.1-76/oce/R/plot.profile.R              |only
 oce-0.1-76/oce/R/plot.sealevel.R             |only
 oce-0.1-76/oce/R/plot.section.R              |only
 oce-0.1-76/oce/R/plot.tdr.R                  |only
 oce-0.1-76/oce/R/plot.tide.R                 |only
 oce-0.1-76/oce/R/plot.topo.R                 |only
 oce-0.1-76/oce/R/plot.windrose.R             |only
 oce-0.1-76/oce/R/predict.tide.R              |only
 oce-0.1-76/oce/R/processing.log.append.R     |only
 oce-0.1-76/oce/R/processing.log.item.R       |only
 oce-0.1-76/oce/R/processing.log.summary.R    |only
 oce-0.1-76/oce/R/read.coastline.R            |only
 oce-0.1-76/oce/R/read.ctd.R                  |only
 oce-0.1-76/oce/R/read.lobo.R                 |only
 oce-0.1-76/oce/R/read.oce.R                  |only
 oce-0.1-76/oce/R/read.sealevel.R             |only
 oce-0.1-76/oce/R/read.section.R              |only
 oce-0.1-76/oce/R/read.tdr.R                  |only
 oce-0.1-76/oce/R/read.topo.R                 |only
 oce-0.1-76/oce/R/section.grid.R              |only
 oce-0.1-76/oce/R/section.smooth.R            |only
 oce-0.1-76/oce/R/stickplot.R                 |only
 oce-0.1-76/oce/R/subset.oce.R                |only
 oce-0.1-76/oce/R/summary.coastline.R         |only
 oce-0.1-76/oce/R/summary.ctd.R               |only
 oce-0.1-76/oce/R/summary.lobo.R              |only
 oce-0.1-76/oce/R/summary.oce.R               |only
 oce-0.1-76/oce/R/summary.sealevel.R          |only
 oce-0.1-76/oce/R/summary.section.R           |only
 oce-0.1-76/oce/R/summary.tdr.R               |only
 oce-0.1-76/oce/R/summary.tide.R              |only
 oce-0.1-76/oce/R/summary.topo.R              |only
 oce-0.1-76/oce/R/summary.windrose.R          |only
 oce-0.1-76/oce/R/sw.N2.R                     |only
 oce-0.1-76/oce/R/sw.S.C.T.p.R                |only
 oce-0.1-76/oce/R/sw.S.T.rho.R                |only
 oce-0.1-76/oce/R/sw.T.S.rho.R                |only
 oce-0.1-76/oce/R/sw.T.freeze.R               |only
 oce-0.1-76/oce/R/sw.alpha.R                  |only
 oce-0.1-76/oce/R/sw.alpha.over.beta.R        |only
 oce-0.1-76/oce/R/sw.beta.R                   |only
 oce-0.1-76/oce/R/sw.conductivity.R           |only
 oce-0.1-76/oce/R/sw.depth.R                  |only
 oce-0.1-76/oce/R/sw.dynamic.height.R         |only
 oce-0.1-76/oce/R/sw.lapse.rate.R             |only
 oce-0.1-76/oce/R/sw.rho.R                    |only
 oce-0.1-76/oce/R/sw.sigma.R                  |only
 oce-0.1-76/oce/R/sw.sigma.t.R                |only
 oce-0.1-76/oce/R/sw.sigma.theta.R            |only
 oce-0.1-76/oce/R/sw.sound.speed.R            |only
 oce-0.1-76/oce/R/sw.specific.heat.R          |only
 oce-0.1-76/oce/R/sw.spice.R                  |only
 oce-0.1-76/oce/R/sw.theta.R                  |only
 oce-0.1-76/oce/R/sw.viscosity.R              |only
 oce-0.1-76/oce/R/tdr.patm.R                  |only
 oce-0.1-76/oce/R/tdr.trim.R                  |only
 oce-0.1-76/oce/R/tidem.astron.R              |only
 oce-0.1-76/oce/R/tidem.vuf.R                 |only
 oce-0.1-76/oce/R/undrift.time.R              |only
 oce-0.1-76/oce/data/tdr.rda                  |only
 oce-0.1-76/oce/inst/doc/Rplots.ps            |only
 oce-0.1-76/oce/inst/doc/oce-coastlinefig.eps |only
 oce-0.1-76/oce/inst/doc/oce-coastlinefig.pdf |only
 oce-0.1-76/oce/inst/doc/oce-sectionfig.eps   |only
 oce-0.1-76/oce/inst/doc/oce-sectionfig.pdf   |only
 oce-0.1-76/oce/inst/doc/oce-tidefig.eps      |only
 oce-0.1-76/oce/inst/doc/oce-tidefig.pdf      |only
 oce-0.1-76/oce/inst/doc/oce.R                |only
 oce-0.1-76/oce/man/ctd.write.Rd              |only
 oce-0.1-76/oce/man/gebco.colors.Rd           |only
 oce-0.1-76/oce/man/plot.tdr.Rd               |only
 oce-0.1-76/oce/man/plot.tide.Rd              |only
 oce-0.1-76/oce/man/predict.tide.Rd           |only
 oce-0.1-76/oce/man/read.tdr.Rd               |only
 oce-0.1-76/oce/man/summary.tdr.Rd            |only
 oce-0.1-76/oce/man/summary.tide.Rd           |only
 oce-0.1-76/oce/man/tdr.Rd                    |only
 oce-0.1-76/oce/man/tdr.patm.Rd               |only
 oce-0.1-76/oce/man/tdr.trim.Rd               |only
 oce-0.1-76/oce/src/geoddist.f                |only
 oce-0.1-76/oce/src/sw_alpha_over_beta.c      |only
 oce-0.1-76/oce/src/sw_beta.c                 |only
 oce-0.1-76/oce/src/sw_lapserate.c            |only
 oce-0.1-76/oce/src/sw_rho.c                  |only
 oce-0.1-76/oce/src/sw_salinity.c             |only
 oce-0.1-76/oce/src/sw_spice.c                |only
 oce-0.1-76/oce/src/sw_strho.c                |only
 oce-0.1-76/oce/src/sw_svel.c                 |only
 oce-0.1-76/oce/src/sw_theta.c                |only
 oce-0.1-76/oce/src/sw_tsrho.c                |only
 oce-0.1-76/oce/tests/tdr.dat                 |only
 oce-0.1-77/oce/DESCRIPTION                   |   19 
 oce-0.1-77/oce/NAMESPACE                     |   89 
 oce-0.1-77/oce/NEWS                          |   36 
 oce-0.1-77/oce/R/adp.R                       |only
 oce-0.1-77/oce/R/adv.R                       |only
 oce-0.1-77/oce/R/coastline.R                 |only
 oce-0.1-77/oce/R/ctd.R                       |only
 oce-0.1-77/oce/R/imagep.R                    |only
 oce-0.1-77/oce/R/lobo.R                      |only
 oce-0.1-77/oce/R/misc.R                      |  900 
 oce-0.1-77/oce/R/oce.R                       |only
 oce-0.1-77/oce/R/processing.log.R            |only
 oce-0.1-77/oce/R/pt.R                        |only
 oce-0.1-77/oce/R/sealevel.R                  |only
 oce-0.1-77/oce/R/section.R                   |only
 oce-0.1-77/oce/R/sw.R                        |only
 oce-0.1-77/oce/R/tidem.R                     |  374 
 oce-0.1-77/oce/R/topo.R                      |only
 oce-0.1-77/oce/R/windrose.R                  |only
 oce-0.1-77/oce/R/zzz.R                       |    5 
 oce-0.1-77/oce/data/adp.rda                  |only
 oce-0.1-77/oce/data/air.hal.rda              |only
 oce-0.1-77/oce/data/ctd.cnv                  |only
 oce-0.1-77/oce/data/ctd.raw.rda              |binary
 oce-0.1-77/oce/data/ctd.rda                  |binary
 oce-0.1-77/oce/data/lobo.rda                 |binary
 oce-0.1-77/oce/data/pt.rda                   |only
 oce-0.1-77/oce/data/sealevel.hal.rda         |binary
 oce-0.1-77/oce/data/sealevel.tuk.rda         |binary
 oce-0.1-77/oce/data/topo.maritimes.rda       |binary
 oce-0.1-77/oce/inst/doc/.gitignore           |only
 oce-0.1-77/oce/inst/doc/oce.Rnw              |  188 
 oce-0.1-77/oce/inst/doc/oce.pdf              |224871 ++++++++++++++-------------
 oce-0.1-77/oce/man/GMT.offset.from.tz.Rd     |only
 oce-0.1-77/oce/man/ad.beam.name.Rd           |only
 oce-0.1-77/oce/man/adp.Rd                    |only
 oce-0.1-77/oce/man/adp.beam.attenuate.Rd     |only
 oce-0.1-77/oce/man/adp.beam2xyz.Rd           |only
 oce-0.1-77/oce/man/adp.enu2other.Rd          |only
 oce-0.1-77/oce/man/adp.xyz2enu.Rd            |only
 oce-0.1-77/oce/man/adv.beam2xyz.Rd           |only
 oce-0.1-77/oce/man/adv.enu2other.Rd          |only
 oce-0.1-77/oce/man/adv.xyz2enu.Rd            |only
 oce-0.1-77/oce/man/air.hal.Rd                |only
 oce-0.1-77/oce/man/as.ctd.Rd                 |   20 
 oce-0.1-77/oce/man/as.sealevel.Rd            |   25 
 oce-0.1-77/oce/man/bcd2integer.Rd            |only
 oce-0.1-77/oce/man/byte2binary.Rd            |only
 oce-0.1-77/oce/man/coastline.hal.Rd          |    2 
 oce-0.1-77/oce/man/coastline.maritimes.Rd    |    2 
 oce-0.1-77/oce/man/ctd.Rd                    |   21 
 oce-0.1-77/oce/man/ctd.add.column.Rd         |   61 
 oce-0.1-77/oce/man/ctd.raw.Rd                |    2 
 oce-0.1-77/oce/man/decimate.Rd               |   14 
 oce-0.1-77/oce/man/draw.isopycnals.Rd        |only
 oce-0.1-77/oce/man/fill.gap.Rd               |   15 
 oce-0.1-77/oce/man/formatci.Rd               |only
 oce-0.1-77/oce/man/geod.dist.Rd              |   27 
 oce-0.1-77/oce/man/geod.xy.Rd                |only
 oce-0.1-77/oce/man/gravity.Rd                |    4 
 oce-0.1-77/oce/man/header.Rd                 |    2 
 oce-0.1-77/oce/man/imagep.Rd                 |only
 oce-0.1-77/oce/man/integer2ascii.Rd          |only
 oce-0.1-77/oce/man/lat.format.Rd             |    3 
 oce-0.1-77/oce/man/latlon.format.Rd          |    3 
 oce-0.1-77/oce/man/lobo.Rd                   |   25 
 oce-0.1-77/oce/man/lon.format.Rd             |    3 
 oce-0.1-77/oce/man/magic.Rd                  |   15 
 oce-0.1-77/oce/man/make.filter.Rd            |   39 
 oce-0.1-77/oce/man/make.section.Rd           |   20 
 oce-0.1-77/oce/man/match.bytes.Rd            |only
 oce-0.1-77/oce/man/matlab2POSIXt.Rd          |only
 oce-0.1-77/oce/man/matrix.smooth.Rd          |only
 oce-0.1-77/oce/man/oce.axis.POSIXct.Rd       |only
 oce-0.1-77/oce/man/oce.colors.Rd             |only
 oce-0.1-77/oce/man/oce.edit.Rd               |   12 
 oce-0.1-77/oce/man/oce.filter.Rd             |only
 oce-0.1-77/oce/man/oce.plot.sticks.Rd        |only
 oce-0.1-77/oce/man/oce.plot.ts.Rd            |only
 oce-0.1-77/oce/man/oce.smooth.Rd             |only
 oce-0.1-77/oce/man/parse.latlon.Rd           |    5 
 oce-0.1-77/oce/man/plot.TS.Rd                |   41 
 oce-0.1-77/oce/man/plot.adp.Rd               |only
 oce-0.1-77/oce/man/plot.adv.Rd               |only
 oce-0.1-77/oce/man/plot.coastline.Rd         |   34 
 oce-0.1-77/oce/man/plot.ctd.Rd               |   90 
 oce-0.1-77/oce/man/plot.ctd.scan.Rd          |   18 
 oce-0.1-77/oce/man/plot.lobo.Rd              |   33 
 oce-0.1-77/oce/man/plot.profile.Rd           |   39 
 oce-0.1-77/oce/man/plot.pt.Rd                |only
 oce-0.1-77/oce/man/plot.sealevel.Rd          |   70 
 oce-0.1-77/oce/man/plot.section.Rd           |   58 
 oce-0.1-77/oce/man/plot.tidem.Rd             |only
 oce-0.1-77/oce/man/plot.topo.Rd              |   33 
 oce-0.1-77/oce/man/plot.windrose.Rd          |    8 
 oce-0.1-77/oce/man/predict.tidem.Rd          |only
 oce-0.1-77/oce/man/processing.log.append.Rd  |    4 
 oce-0.1-77/oce/man/processing.log.summary.Rd |    2 
 oce-0.1-77/oce/man/pt.Rd                     |only
 oce-0.1-77/oce/man/pt.atm.Rd                 |only
 oce-0.1-77/oce/man/pt.trim.Rd                |only
 oce-0.1-77/oce/man/read.adp.Rd               |only
 oce-0.1-77/oce/man/read.adv.Rd               |only
 oce-0.1-77/oce/man/read.coastline.Rd         |    2 
 oce-0.1-77/oce/man/read.ctd.Rd               |   21 
 oce-0.1-77/oce/man/read.header.Rd            |only
 oce-0.1-77/oce/man/read.lobo.Rd              |   17 
 oce-0.1-77/oce/man/read.oce.Rd               |    6 
 oce-0.1-77/oce/man/read.pt.Rd                |only
 oce-0.1-77/oce/man/read.sealevel.Rd          |    9 
 oce-0.1-77/oce/man/read.section.Rd           |    2 
 oce-0.1-77/oce/man/resizable.label.Rd        |only
 oce-0.1-77/oce/man/sealevel.hal.Rd           |    8 
 oce-0.1-77/oce/man/sealevel.tuk.Rd           |   24 
 oce-0.1-77/oce/man/section.Rd                |    2 
 oce-0.1-77/oce/man/subset.oce.Rd             |   15 
 oce-0.1-77/oce/man/summary.adp.Rd            |only
 oce-0.1-77/oce/man/summary.adv.Rd            |only
 oce-0.1-77/oce/man/summary.coastline.Rd      |   19 
 oce-0.1-77/oce/man/summary.ctd.Rd            |   27 
 oce-0.1-77/oce/man/summary.lobo.Rd           |   36 
 oce-0.1-77/oce/man/summary.pt.Rd             |only
 oce-0.1-77/oce/man/summary.sealevel.Rd       |   29 
 oce-0.1-77/oce/man/summary.section.Rd        |   27 
 oce-0.1-77/oce/man/summary.tidem.Rd          |only
 oce-0.1-77/oce/man/summary.topo.Rd           |   18 
 oce-0.1-77/oce/man/summary.windrose.Rd       |   18 
 oce-0.1-77/oce/man/sw.depth.Rd               |   32 
 oce-0.1-77/oce/man/tidedata.Rd               |   30 
 oce-0.1-77/oce/man/tidem.Rd                  |   23 
 oce-0.1-77/oce/man/topo.maritimes.Rd         |    2 
 oce-0.1-77/oce/man/undrift.time.Rd           |    4 
 oce-0.1-77/oce/man/wind.Rd                   |    6 
 oce-0.1-77/oce/man/write.ctd.Rd              |only
 oce-0.1-77/oce/src/bitwise.c                 |only
 oce-0.1-77/oce/src/geod.c                    |only
 oce-0.1-77/oce/src/misc.c                    |only
 oce-0.1-77/oce/src/oce_filter.c              |only
 oce-0.1-77/oce/src/sw.c                      |only
 oce-0.1-77/oce/tests/eos.R                   |    5 
 oce-0.1-77/oce/tests/geod.R                  |    6 
 oce-0.1-77/oce/tests/misc.R                  |only
 oce-0.1-77/oce/tests/pt.dat                  |only
 oce-0.1-77/oce/tests/sealevel.R              |    3 
 263 files changed, 125585 insertions(+), 102038 deletions(-)

More information about oce at CRAN
Permanent link

Package pgirmess updated to version 1.4.0 with previous version 1.3.9 dated 2009-07-27

Author: Patrick Giraudoux
Title: Data analysis in ecology
Description: Miscellaneous functions for analysis and display of ecological and spatial data

Diff between pgirmess versions 1.3.9 dated 2009-07-27 and 1.4.0 dated 2009-09-13

 pgirmess-1.3.9/pgirmess/R/variogenv.r         |only
 pgirmess-1.3.9/pgirmess/man/plot.variogenv.Rd |only
 pgirmess-1.3.9/pgirmess/man/variogenv.Rd      |only
 pgirmess-1.4.0/pgirmess/DESCRIPTION           |    8 ++++----
 pgirmess-1.4.0/pgirmess/R/friedmanmc.R        |   10 +++-------
 pgirmess-1.4.0/pgirmess/man/distSeg.rd        |    2 +-
 pgirmess-1.4.0/pgirmess/man/friedmanmc.rd     |    2 +-
 pgirmess-1.4.0/pgirmess/man/shannonbio.Rd     |    2 +-
 8 files changed, 10 insertions(+), 14 deletions(-)

More information about pgirmess at CRAN
Permanent link

Package StatMatch updated to version 0.8 with previous version 0.7 dated 2009-06-18

Author: Marcello D'Orazio
Title: Statistical Matching
Description: This package provides some R functions to perform statistical matching between two data sources sharing a number of common variables. These functions can also be used to impute missing values in data sets through hot-deck methods.

Diff between StatMatch versions 0.7 dated 2009-06-18 and 0.8 dated 2009-09-13

 DESCRIPTION          |   14 +++++++-------
 R/NND.hotdeck.R      |   47 ++++++++++++++++++++++++-----------------------
 R/RANDwNND.hotdeck.R |   22 +++++++++++-----------
 man/create.fused.Rd  |    4 ++--
 4 files changed, 44 insertions(+), 43 deletions(-)

More information about StatMatch at CRAN
Permanent link

Sat, 12 Sep 2009

Package yaml updated to version 1.1.0 with previous version 1.0.2 dated 2009-08-26

Author: Jeremy Stephens
Title: Methods to convert R to YAML and back
Description: This package implements the Syck YAML parser by _why (formerly http://www.whytheluckystiff.net/syck) for R. There are also methods to convert R objects into YAML.

Diff between yaml versions 1.0.2 dated 2009-08-26 and 1.1.0 dated 2009-09-12

 COPYING                     |    2 
 DESCRIPTION                 |    8 -
 NAMESPACE                   |    2 
 R/as.yaml.R                 |   82 +++++++++++++----
 R/yaml.load_file.R          |only
 TODO                        |    3 
 inst/CHANGELOG              |    5 +
 man/as.yaml.Rd              |   15 ++-
 man/yaml-package.Rd         |   14 +-
 man/yaml.load.Rd            |   26 +++--
 src/yaml.c                  |  210 +++++++++++++++++++++++++++++---------------
 tests/as_yaml_test.R        |   37 +++++++
 tests/test_helper.r         |   14 +-
 tests/test_runner.r         |    3 
 tests/yaml_load_file_test.R |only
 tests/yaml_load_test.R      |   16 +++
 16 files changed, 318 insertions(+), 119 deletions(-)

More information about yaml at CRAN
Permanent link

New package tikzDevice with initial version 0.4.7
Package: tikzDevice
Type: Package
Title: A Device for R Graphics Output in PGF/TikZ Format
Version: 0.4.7
Date: 2009-07-23
Author: Charlie Sharpsteen and Cameron Bracken
Maintainer: The tikzDevice team:
Description: The TikZ device enables LaTeX-ready output from R graphics functions. This is done by producing code that can be understood by the TikZ graphics language. All text in a graphic output with the tikz() function will can be typeset by LaTeX and therefore will match whatever fonts are currently used in the document. This also means that LaTeX mathematics can be typeset directly into labels and annotations! Graphics produced this way can also be annotated with custom TikZ commands.
License: GPL (>= 2.0)
Depends: filehash
LazyLoad: yes
Repository: CRAN
Repository/R-Forge/Project: tikzdevice
Repository/R-Forge/Revision: 15
Date/Publication: 2009-09-12 12:18:53
Packaged: 2009-09-10 20:21:38 UTC; rforge

More information about tikzDevice at CRAN
Permanent link

Package svcR updated to version 1.6.2 with previous version 1.6.1 dated 2009-09-10

Author: Nicolas Turenne .
Title: svcR package
Description: svcR implements a support vector machine technique for clustering It includes choice between three kinds of kernel. Original cluster labeling and export of clusters. Format of data require 3 files: matrix, attributes, variables.

Diff between svcR versions 1.6.1 dated 2009-09-10 and 1.6.2 dated 2009-09-12

 DESCRIPTION |    9 +++++----
 1 file changed, 5 insertions(+), 4 deletions(-)

More information about svcR at CRAN
Permanent link

Package mgcv updated to version 1.5-6 with previous version 1.5-5 dated 2009-05-15

Author: Simon Wood
Title: GAMs with GCV/AIC/REML smoothness estimation and GAMMs by PQL
Description: Routines for GAMs and other generalized ridge regression with multiple smoothing parameter selection by GCV, REML or UBRE/AIC. Also GAMMs by REML or PQL. Includes a gam() function.

Diff between mgcv versions 1.5-5 dated 2009-05-15 and 1.5-6 dated 2009-09-12

 DESCRIPTION        |    6 -
 R/gam.fit3.r       |  295 ++++++++++++++++++++++++++++++++++++++++++++++++-
 R/gamm.r           |  251 ++----------------------------------------
 R/mgcv.r           |  249 ++++++++++++++++++++++++++++--------------
 R/smooth.r         |  307 ++++++++++++++++-----------------------------------
 changeLog          |   79 ++++++++++++-
 man/gam.Rd         |   72 ++++++++++--
 man/gam.control.Rd |    8 -
 man/gamObject.Rd   |    3 
 man/gamm.Rd        |   18 ++-
 man/magic.Rd       |    4 
 man/predict.gam.Rd |   45 +++++++
 man/smoothCon.Rd   |   18 ++-
 man/te.Rd          |   10 +
 po/R-de.po         |only
 po/R-mgcv.pot      |  314 +++++++++++++++++++++++++++++++++--------------------
 po/de.po           |only
 po/mgcv.pot        |   25 ++--
 18 files changed, 1006 insertions(+), 698 deletions(-)

More information about mgcv at CRAN
Permanent link

Package mc2d updated to version 0.1-6 with previous version 0.1-5 dated 2009-04-14

Author: Regis Pouillot , Marie Laure Delignette-Muller and Jean-Baptiste Denis
Title: Tools for Two-Dimensional Monte-Carlo Simulations
Description: Various distributions and utilities to ease the use of R to build and study Two-Dimensional Monte-Carlo simulations

Diff between mc2d versions 0.1-5 dated 2009-04-14 and 0.1-6 dated 2009-09-12

 DESCRIPTION               |   11 +--
 R/mccontrol.R             |    2 
 R/mcprobtree.R            |  147 +++++++++++++++++++++++++---------------------
 R/pert.R                  |    8 +-
 inst/NEWS                 |only
 inst/doc/docmcEnglish.pdf |binary
 man/mcprobtree.Rd         |   68 ++++++++++++---------
 7 files changed, 132 insertions(+), 104 deletions(-)

More information about mc2d at CRAN
Permanent link

Package gam updated to version 1.0.1 with previous version 1.0 dated 2008-05-29

Author: Trevor Hastie
Title: Generalized Additive Models
Description: Functions for fitting and working with generalized additive models, as described in chapter 7 of "Statistical Models in S" (Chambers and Hastie (eds), 1991), and "Generalized Additive Models" (Hastie and Tibshirani, 1990).

Diff between gam versions 1.0 dated 2008-05-29 and 1.0.1 dated 2009-09-12

 DESCRIPTION |   28 +++++++++++++++-------------
 man/gam.Rd  |    2 +-
 2 files changed, 16 insertions(+), 14 deletions(-)

More information about gam at CRAN
Permanent link

New package ftsa with initial version 1.0
Package: ftsa
Type: Package
Title: Functional time series analysis
Version: 1.0
Date: 2009-09-08
Depends: R (>= 2.6.0), forecast, rainbow, fds
Suggests: tseries
LazyLoad: yes
LazyData: yes
Author: Rob J Hyndman and Han Lin Shang
Maintainer: Han Lin Shang
Description: Functions for functional time series
License: GPL (>= 2)
URL: http://monashforecasting.com/index.php?title=R_packages
Packaged: 2009-09-12 12:27:14 UTC; Han
Repository: CRAN
Date/Publication: 2009-09-12 13:11:01

More information about ftsa at CRAN
Permanent link

Package bipartite updated to version 1.02 with previous version 1.00 dated 2009-08-06

Author: Carsten F. Dormann and Bernd Gruber, with additional code from Mariano Devoto, Jochen Fruend, Jose Iriondo and Diego Vazquez, also based on C-code developed by Nils Bluethgen and by Miguel Rodriguez-Girones.
Title: Visualising bipartite networks and calculating some ecological indices.
Description: Bipartite provides functions to viualise webs and calculate a series of indices commonly used to describe pattern in ecological webs. It focusses on webs consisting of only two trophic levels, e.g. pollination webs or predator-prey-webs. Visualisation is important to get an idea of what we are actually looking at, while the indices summarise different aspects of the webs topology.

Diff between bipartite versions 1.00 dated 2009-08-06 and 1.02 dated 2009-09-12

 bipartite-1.00/bipartite/matrix.cpp               |only
 bipartite-1.02/bipartite/DESCRIPTION              |    8 
 bipartite-1.02/bipartite/R/dfun.R                 |  182 ++++++-------------
 bipartite-1.02/bipartite/R/discrepancy.r          |    6 
 bipartite-1.02/bipartite/R/nested.r               |only
 bipartite-1.02/bipartite/R/networklevel.R         |    4 
 bipartite-1.02/bipartite/R/plotweb.R              |  203 +++++++++++++---------
 bipartite-1.02/bipartite/R/specieslevel.R         |    6 
 bipartite-1.02/bipartite/man/bipartite-package.Rd |   12 +
 bipartite-1.02/bipartite/man/compart.Rd           |   11 +
 bipartite-1.02/bipartite/man/dfun.Rd              |   11 -
 bipartite-1.02/bipartite/man/nested.Rd            |only
 bipartite-1.02/bipartite/man/plotweb.Rd           |  102 ++++++++---
 bipartite-1.02/bipartite/man/specieslevel.Rd      |    6 
 14 files changed, 304 insertions(+), 247 deletions(-)

More information about bipartite at CRAN
Permanent link

Package Rsac updated to version 0.1-8 with previous version 0.1-7 dated 2009-01-26

Author: Eric M. Thompson and Jonathan M. Lees
Title: Seismic analysis tools in R
Description: The functions in this package are mostly designed to reproduce the most commonly used functions in the LLNL software Seismic Analysis Code (SAC, http://www.llnl.gov/sac/). This includes reading standard binary SAC (and also SEGY) files, plotting arrays of seismic recordings (the "SAC" plotting style), filtering (highpass, lowpass, and bandpass IIR filters), integration, and differentiation.

Diff between Rsac versions 0.1-7 dated 2009-01-26 and 0.1-8 dated 2009-09-12

 Rsac-0.1-7/Rsac/R/plot.rsac.R        |only
 Rsac-0.1-8/Rsac/DESCRIPTION          |   22 ++++++++++++----------
 Rsac-0.1-8/Rsac/R/GET.seis.R         |   19 +++----------------
 Rsac-0.1-8/Rsac/R/rsac.methods.R     |only
 Rsac-0.1-8/Rsac/R/rsac.skeleton.R    |only
 Rsac-0.1-8/Rsac/R/spect.R            |   33 ++++++++++++++++++++++++---------
 Rsac-0.1-8/Rsac/inst                 |only
 Rsac-0.1-8/Rsac/man/GET.seis.Rd      |   13 +++++--------
 Rsac-0.1-8/Rsac/man/NumCalculus.Rd   |    4 ++--
 Rsac-0.1-8/Rsac/man/fstart.Rd        |    2 +-
 Rsac-0.1-8/Rsac/man/gcp.Rd           |    6 ++----
 Rsac-0.1-8/Rsac/man/getunits.Rd      |   12 ++++++++----
 Rsac-0.1-8/Rsac/man/iir.Rd           |    4 ++--
 Rsac-0.1-8/Rsac/man/julian.Rd        |   12 ++++--------
 Rsac-0.1-8/Rsac/man/mul.Rd           |    4 ++--
 Rsac-0.1-8/Rsac/man/parseFN2STA.Rd   |    5 +----
 Rsac-0.1-8/Rsac/man/rotate.Rd        |    4 ++--
 Rsac-0.1-8/Rsac/man/rsac.Rd          |    7 +++++--
 Rsac-0.1-8/Rsac/man/rsac.methods.Rd  |    6 ++++--
 Rsac-0.1-8/Rsac/man/rsac.skeleton.Rd |only
 Rsac-0.1-8/Rsac/man/rtrend.Rd        |   20 ++++++++++++++++++--
 Rsac-0.1-8/Rsac/man/section.Rd       |    4 ++--
 Rsac-0.1-8/Rsac/man/spect.Rd         |   11 ++++++-----
 Rsac-0.1-8/Rsac/man/srosa.Rd         |    2 +-
 Rsac-0.1-8/Rsac/man/sumatra.Rd       |    2 +-
 Rsac-0.1-8/Rsac/man/sync.Rd          |    6 ++----
 Rsac-0.1-8/Rsac/man/taper.Rd         |   15 ++++++++++++---
 27 files changed, 119 insertions(+), 94 deletions(-)

More information about Rsac at CRAN
Permanent link

Package ICSNP updated to version 1.0-5 with previous version 1.0-4 dated 2009-05-27

Author: Klaus Nordhausen, Seija Sirkia, Hannu Oja, David E. Tyler
Title: Tools for Multivariate Nonparametrics
Description: Tools for multivariate nonparametrics, as location tests based on marginal ranks, spatial median and spatial signs computation, Hotelling's T-test, estimates of shape

Diff between ICSNP versions 1.0-4 dated 2009-05-27 and 1.0-5 dated 2009-09-12

 DESCRIPTION             |    8 ++++----
 R/ind.ctest.R           |    5 +++--
 R/rank.ictest.R         |    2 +-
 R/spatial.median.R      |    1 -
 R/spatial.median.step.R |   15 ++++++++++-----
 inst/CHANGES            |    6 ++++++
 man/ICSNP-package.Rd    |    4 ++--
 man/rank.ictest.Rd      |    2 +-
 8 files changed, 27 insertions(+), 16 deletions(-)

More information about ICSNP at CRAN
Permanent link

Package DoE.base updated to version 0.9-1 with previous version 0.9 dated 2009-09-07

Author: Ulrike Groemping
Title: Full factorials, orthogonal arrays and base utilities for DoE packages
Description: This package creates full factorial experimental designs and designs based on orthogonal arrays for (industrial) experiments. Additionally, it provides some utility functions used also by other DoE packages.

Diff between DoE.base versions 0.9 dated 2009-09-07 and 0.9-1 dated 2009-09-12

 DESCRIPTION                 |   10 ++--
 NAMESPACE                   |    6 +-
 R/SN.R                      |only
 R/printandsummary.design.R  |   93 +++++++++++++++++++++++++++++++++-----------
 inst/NEWS                   |    6 ++
 man/SN.Rd                   |only
 man/class-design-methods.Rd |   78 ++++++++++++++++++++++++++++++++++++
 7 files changed, 162 insertions(+), 31 deletions(-)

More information about DoE.base at CRAN
Permanent link

Thu, 10 Sep 2009

Package wordnet updated to version 0.1-5 with previous version 0.1-4 dated 2009-06-25

Author: Ingo Feinerer, Kurt Hornik
Title: WordNet Interface
Description: An interface to WordNet using the Jawbone Java API to WordNet. WordNet is an on-line lexical reference system developed by the Cognitive Science Laboratory at Princeton University. Its design is inspired by current psycholinguistic theories of human lexical memory. English nouns, verbs, adjectives and adverbs are organized into synonym sets, each representing one underlying lexical concept. Different relations link the synonym sets.

Diff between wordnet versions 0.1-4 dated 2009-06-25 and 0.1-5 dated 2009-09-10

 wordnet-0.1-4/wordnet/inst/doc/wordnet.tex |only
 wordnet-0.1-5/wordnet/DESCRIPTION          |    8 ++++----
 wordnet-0.1-5/wordnet/inst/CITATION        |    2 +-
 wordnet-0.1-5/wordnet/inst/doc/wordnet.pdf |binary
 4 files changed, 5 insertions(+), 5 deletions(-)

More information about wordnet at CRAN
Permanent link

Package tseries updated to version 0.10-20 with previous version 0.10-19 dated 2009-08-31

Author: Compiled by Adrian Trapletti
Title: Time series analysis and computational finance
Description: Package for time series analysis and computational finance

Diff between tseries versions 0.10-19 dated 2009-08-31 and 0.10-20 dated 2009-09-10

 ChangeLog     |    6 ++++++
 DESCRIPTION   |    8 ++++----
 inst/CITATION |    4 ++--
 3 files changed, 12 insertions(+), 6 deletions(-)

More information about tseries at CRAN
Permanent link

Package tm updated to version 0.5 with previous version 0.4 dated 2009-07-01

Author: Ingo Feinerer
Title: Text Mining Package
Description: A framework for text mining applications within R.

Diff between tm versions 0.4 dated 2009-07-01 and 0.5 dated 2009-09-10

 tm-0.4/tm/R/AAA.R                                      |only
 tm-0.4/tm/R/aobjects.R                                 |only
 tm-0.4/tm/inst/texts/cars.csv                          |only
 tm-0.4/tm/inst/texts/gmane.comp.lang.r.general.mbox    |only
 tm-0.4/tm/inst/texts/gmane.comp.lang.r.general.mbox.gz |only
 tm-0.4/tm/inst/texts/gmane.comp.lang.r.gr.rdf          |only
 tm-0.4/tm/inst/texts/html                              |only
 tm-0.4/tm/inst/texts/newsgroup                         |only
 tm-0.4/tm/inst/texts/pdf                               |only
 tm-0.4/tm/inst/texts/rcv1                              |only
 tm-0.4/tm/inst/texts/rcv1.xml                          |only
 tm-0.4/tm/inst/texts/reut21578                         |only
 tm-0.4/tm/inst/texts/reut21578.xml                     |only
 tm-0.4/tm/inst/texts/reut21578.xml.gz                  |only
 tm-0.4/tm/man/Corpus-class.Rd                          |only
 tm-0.4/tm/man/DataframeSource-class.Rd                 |only
 tm-0.4/tm/man/Dictionary-class.Rd                      |only
 tm-0.4/tm/man/DirSource-class.Rd                       |only
 tm-0.4/tm/man/DublinCore-methods.Rd                    |only
 tm-0.4/tm/man/FunctionGenerator-class.Rd               |only
 tm-0.4/tm/man/GmaneSource-class.Rd                     |only
 tm-0.4/tm/man/IN-methods.Rd                            |only
 tm-0.4/tm/man/MetaDataNode-class.Rd                    |only
 tm-0.4/tm/man/NewsgroupDocument-class.Rd               |only
 tm-0.4/tm/man/PCorpus-class.Rd                         |only
 tm-0.4/tm/man/PlainTextDocument-class.Rd               |only
 tm-0.4/tm/man/RCV1Document-class.Rd                    |only
 tm-0.4/tm/man/Reuters21578Document-class.Rd            |only
 tm-0.4/tm/man/Source-class.Rd                          |only
 tm-0.4/tm/man/StructuredTextDocument-class.Rd          |only
 tm-0.4/tm/man/TextDocument-class.Rd                    |only
 tm-0.4/tm/man/TextRepository-class.Rd                  |only
 tm-0.4/tm/man/URISource-class.Rd                       |only
 tm-0.4/tm/man/VCorpus-class.Rd                         |only
 tm-0.4/tm/man/VectorSource-class.Rd                    |only
 tm-0.4/tm/man/WeightFunction-class.Rd                  |only
 tm-0.4/tm/man/XMLSource-class.Rd                       |only
 tm-0.4/tm/man/XMLTextDocument-class.Rd                 |only
 tm-0.4/tm/man/activateCluster.Rd                       |only
 tm-0.4/tm/man/appendElem.Rd                            |only
 tm-0.4/tm/man/asPlain.Rd                               |only
 tm-0.4/tm/man/c-methods.Rd                             |only
 tm-0.4/tm/man/completeStems.Rd                         |only
 tm-0.4/tm/man/convertMboxEml.Rd                        |only
 tm-0.4/tm/man/convertRCV1Plain.Rd                      |only
 tm-0.4/tm/man/convertReut21578XMLPlain.Rd              |only
 tm-0.4/tm/man/deactivateCluster.Rd                     |only
 tm-0.4/tm/man/dissimilarity-methods.Rd                 |only
 tm-0.4/tm/man/eoi-methods.Rd                           |only
 tm-0.4/tm/man/getElem-methods.Rd                       |only
 tm-0.4/tm/man/length-methods.Rd                        |only
 tm-0.4/tm/man/pGetElem-methods.Rd                      |only
 tm-0.4/tm/man/readHTML.Rd                              |only
 tm-0.4/tm/man/readNewsgroup.Rd                         |only
 tm-0.4/tm/man/removeCitation.Rd                        |only
 tm-0.4/tm/man/removeMultipart.Rd                       |only
 tm-0.4/tm/man/removeSignature.Rd                       |only
 tm-0.4/tm/man/replacePatterns.Rd                       |only
 tm-0.4/tm/man/show-methods.Rd                          |only
 tm-0.4/tm/man/stemDoc.Rd                               |only
 tm-0.4/tm/man/stepNext-methods.Rd                      |only
 tm-0.4/tm/man/subset-methods.Rd                        |only
 tm-0.4/tm/man/summary-methods.Rd                       |only
 tm-0.4/tm/man/tmFilter-methods.Rd                      |only
 tm-0.4/tm/man/tmIndex-methods.Rd                       |only
 tm-0.4/tm/man/tmIntersect.Rd                           |only
 tm-0.4/tm/man/tmMap-methods.Rd                         |only
 tm-0.4/tm/man/tmReduce.Rd                              |only
 tm-0.4/tm/man/tmTolower.Rd                             |only
 tm-0.4/tm/man/writeCorpus-methods.Rd                   |only
 tm-0.5/tm/DESCRIPTION                                  |   13 
 tm-0.5/tm/NAMESPACE                                    |  247 ++---
 tm-0.5/tm/R/chunks.R                                   |    2 
 tm-0.5/tm/R/cluster.R                                  |    4 
 tm-0.5/tm/R/complete.R                                 |    4 
 tm-0.5/tm/R/corpus.R                                   |  737 +++++------------
 tm-0.5/tm/R/dictionary.R                               |    7 
 tm-0.5/tm/R/doc.R                                      |   82 +
 tm-0.5/tm/R/filter.R                                   |   49 -
 tm-0.5/tm/R/fungen.R                                   |   15 
 tm-0.5/tm/R/matrix.R                                   |   67 -
 tm-0.5/tm/R/meta.R                                     |  267 +++---
 tm-0.5/tm/R/preprocess.R                               |   40 
 tm-0.5/tm/R/reader.R                                   |  251 +----
 tm-0.5/tm/R/source.R                                   |  216 +---
 tm-0.5/tm/R/textrepo.R                                 |   64 -
 tm-0.5/tm/R/transform.R                                |  267 ++----
 tm-0.5/tm/R/weight.R                                   |   19 
 tm-0.5/tm/data/acq.rda                                 |binary
 tm-0.5/tm/data/crude.rda                               |binary
 tm-0.5/tm/inst/CITATION                                |   10 
 tm-0.5/tm/inst/NEWS                                    |   37 
 tm-0.5/tm/inst/doc/extensions.Rnw                      |  102 +-
 tm-0.5/tm/inst/doc/extensions.pdf                      |binary
 tm-0.5/tm/inst/doc/tm.Rnw                              |  164 +--
 tm-0.5/tm/inst/doc/tm.pdf                              |binary
 tm-0.5/tm/inst/texts/loremipsum.txt                    |only
 tm-0.5/tm/inst/texts/rcv1_2330.xml                     |only
 tm-0.5/tm/inst/texts/reuters-21578.xml                 |only
 tm-0.5/tm/man/DataframeSource.Rd                       |   10 
 tm-0.5/tm/man/Dictionary.Rd                            |    5 
 tm-0.5/tm/man/DirSource.Rd                             |   20 
 tm-0.5/tm/man/FunctionGenerator.Rd                     |   16 
 tm-0.5/tm/man/GmaneSource.Rd                           |   15 
 tm-0.5/tm/man/PCorpus.Rd                               |   49 -
 tm-0.5/tm/man/PlainTextDocument.Rd                     |only
 tm-0.5/tm/man/RCV1Document.Rd                          |only
 tm-0.5/tm/man/Reuters21578Document.Rd                  |only
 tm-0.5/tm/man/ReutersSource.Rd                         |   31 
 tm-0.5/tm/man/Source.Rd                                |only
 tm-0.5/tm/man/TextDocument.Rd                          |only
 tm-0.5/tm/man/TextRepository.Rd                        |   20 
 tm-0.5/tm/man/URISource.Rd                             |   29 
 tm-0.5/tm/man/VCorpus.Rd                               |   55 -
 tm-0.5/tm/man/VectorSource.Rd                          |   23 
 tm-0.5/tm/man/WeightFunction.Rd                        |   19 
 tm-0.5/tm/man/XMLSource.Rd                             |   20 
 tm-0.5/tm/man/acq.Rd                                   |    6 
 tm-0.5/tm/man/as.PlainTextDocument.Rd                  |only
 tm-0.5/tm/man/cluster.Rd                               |only
 tm-0.5/tm/man/combine.Rd                               |only
 tm-0.5/tm/man/convert_UTF_8.Rd                         |only
 tm-0.5/tm/man/crude.Rd                                 |    6 
 tm-0.5/tm/man/dissimilarity.Rd                         |only
 tm-0.5/tm/man/findFreqTerms.Rd                         |    8 
 tm-0.5/tm/man/getFilters.Rd                            |    6 
 tm-0.5/tm/man/getReaders.Rd                            |    5 
 tm-0.5/tm/man/getSources.Rd                            |    5 
 tm-0.5/tm/man/getTransformations.Rd                    |    6 
 tm-0.5/tm/man/inspect.Rd                               |    4 
 tm-0.5/tm/man/makeChunks.Rd                            |    1 
 tm-0.5/tm/man/materialize.Rd                           |    6 
 tm-0.5/tm/man/matrix.Rd                                |   11 
 tm-0.5/tm/man/meta.Rd                                  |   92 +-
 tm-0.5/tm/man/plot.Rd                                  |   12 
 tm-0.5/tm/man/preprocessReut21578XML.Rd                |   23 
 tm-0.5/tm/man/prescindMeta.Rd                          |   19 
 tm-0.5/tm/man/readDOC.Rd                               |   14 
 tm-0.5/tm/man/readGmane.Rd                             |   14 
 tm-0.5/tm/man/readPDF.Rd                               |   18 
 tm-0.5/tm/man/readPlain.Rd                             |   10 
 tm-0.5/tm/man/readRCV1.Rd                              |   15 
 tm-0.5/tm/man/readReut21578XML.Rd                      |   15 
 tm-0.5/tm/man/readTabular.Rd                           |   30 
 tm-0.5/tm/man/readXML.Rd                               |   38 
 tm-0.5/tm/man/removeNumbers.Rd                         |   26 
 tm-0.5/tm/man/removePunctuation.Rd                     |   25 
 tm-0.5/tm/man/removeSparseTerms.Rd                     |    9 
 tm-0.5/tm/man/removeWords.Rd                           |   27 
 tm-0.5/tm/man/sFilter.Rd                               |   15 
 tm-0.5/tm/man/searchFullText.Rd                        |   29 
 tm-0.5/tm/man/stemCompletion.Rd                        |only
 tm-0.5/tm/man/stemDocument.Rd                          |only
 tm-0.5/tm/man/stopwords.Rd                             |   10 
 tm-0.5/tm/man/stripWhitespace.Rd                       |   29 
 tm-0.5/tm/man/termFreq.Rd                              |   49 -
 tm-0.5/tm/man/tm_filter.Rd                             |only
 tm-0.5/tm/man/tm_intersect.Rd                          |only
 tm-0.5/tm/man/tm_map.Rd                                |only
 tm-0.5/tm/man/tm_reduce.Rd                             |only
 tm-0.5/tm/man/weightBin.Rd                             |    4 
 tm-0.5/tm/man/weightTf.Rd                              |    6 
 tm-0.5/tm/man/weightTfIdf.Rd                           |    6 
 tm-0.5/tm/man/writeCorpus.Rd                           |only
 tm-0.5/tm/src/lazyTmMap.c                              |    2 
 165 files changed, 1615 insertions(+), 1962 deletions(-)

More information about tm at CRAN
Permanent link

New package tm.plugin.mail with initial version 0.0-1
Package: tm.plugin.mail
Title: Text Mining E-Mail Plug-In
Version: 0.0-1
Date: 2009-09-10
Author: Ingo Feinerer
Maintainer: Ingo Feinerer
Enhances: tm (>= 0.5)
Imports: tm (>= 0.5)
Description: A plug-in for the tm text mining framework providing mail handling functionality.
License: GPL-2
Packaged: 2009-09-10 19:39:22 UTC; hornik
Repository: CRAN
Date/Publication: 2009-09-10 19:52:47

More information about tm.plugin.mail at CRAN
Permanent link

Package slam updated to version 0.1-5 with previous version 0.1-4 dated 2009-08-26

Author: Kurt Hornik, David Meyer, Christian Buchta
Title: Sparse Lightweight Arrays and Matrices
Description: Data structures and algorithms for sparse arrays and matrices, based on index arrays and simple triplet representations, respectively.

Diff between slam versions 0.1-4 dated 2009-08-26 and 0.1-5 dated 2009-09-10

 DESCRIPTION |    8 ++++----
 R/matrix.R  |   22 ++++++++++++++++------
 2 files changed, 20 insertions(+), 10 deletions(-)

More information about slam at CRAN
Permanent link

Package qtl updated to version 1.13-7 with previous version 1.12-26 dated 2009-07-01

Author: Karl W Broman and Hao Wu, with ideas from Gary Churchill and Saunak Sen and contributions from Brian Yandell
Title: Tools for analyzing QTL experiments
Description: Analysis of experimental crosses to identify genes (called quantitative trait loci, QTLs) contributing to variation in quantitative traits.

Diff between qtl versions 1.12-26 dated 2009-07-01 and 1.13-7 dated 2009-09-10

 DESCRIPTION                |    8 +--
 INDEX                      |    4 +
 R/addqtl.R                 |   28 +++++++++---
 R/fitqtl.R                 |  103 ++++++++++++++++++++++++++++++++-------------
 R/makeqtl.R                |   12 ++++-
 R/plot.R                   |    6 +-
 R/read.cross.mm.R          |    8 +--
 R/refineqtl.R              |   11 +++-
 R/scanone.R                |   62 +++++++++++++++++++++++++--
 R/scanqtl.R                |   11 +++-
 R/scantwo.R                |   64 +++++++++++++++++++++++++++
 R/summary.scantwo.R        |   89 ++++++++++++++++++++++++++++++++++++++
 R/util.R                   |   47 +++++++++++---------
 inst/README.txt            |   18 +++----
 inst/STATUS.txt            |   44 +++++++++++++++++++
 inst/TODO.txt              |    6 --
 man/a.starting.point.Rd    |   78 +++++++++++++++++-----------------
 man/add.cim.covar.Rd       |   12 ++---
 man/add.threshold.Rd       |   24 +++++-----
 man/addcovarint.Rd         |   12 ++---
 man/addint.Rd              |   12 ++---
 man/addpair.Rd             |   42 +++++++++---------
 man/addqtl.Rd              |   20 ++++----
 man/addtoqtl.Rd            |   12 ++---
 man/argmax.geno.Rd         |    6 +-
 man/arithscan.Rd           |    6 +-
 man/arithscanperm.Rd       |    8 +--
 man/badorder.Rd            |    6 +-
 man/bayesint.Rd            |   14 +++---
 man/bristle3.Rd            |    8 +--
 man/bristleX.Rd            |    8 +--
 man/c.cross.Rd             |    4 -
 man/c.scanone.Rd           |   14 +++---
 man/c.scanoneperm.Rd       |   12 ++---
 man/c.scantwo.Rd           |only
 man/c.scantwoperm.Rd       |   12 ++---
 man/calc.errorlod.Rd       |   12 ++---
 man/calc.genoprob.Rd       |    8 +--
 man/calc.penalties.Rd      |   16 +++---
 man/cbind.scanoneperm.Rd   |   14 +++---
 man/checkAlleles.Rd        |    6 +-
 man/chrlen.Rd              |    4 -
 man/chrnames.Rd            |    4 -
 man/cim.Rd                 |   12 ++---
 man/clean.cross.Rd         |   10 ++--
 man/clean.scantwo.Rd       |    8 +--
 man/comparecrosses.Rd      |    6 +-
 man/comparegeno.Rd         |    4 -
 man/compareorder.Rd        |    6 +-
 man/condense.scantwo.Rd    |   12 ++---
 man/convert.scanone.Rd     |    4 -
 man/convert.scantwo.Rd     |    6 +-
 man/convert2sa.Rd          |    4 -
 man/countXO.Rd             |    4 -
 man/drop.markers.Rd        |    8 +--
 man/drop.nullmarkers.Rd    |    8 +--
 man/dropfromqtl.Rd         |   10 ++--
 man/effectplot.Rd          |    4 -
 man/effectscan.Rd          |   10 ++--
 man/est.map.Rd             |    6 +-
 man/est.rf.Rd              |    6 +-
 man/fake.4way.Rd           |   12 ++---
 man/fake.bc.Rd             |   12 ++---
 man/fake.f2.Rd             |   14 +++---
 man/fill.geno.Rd           |   18 +++----
 man/find.flanking.Rd       |    6 +-
 man/find.marker.Rd         |    8 +--
 man/find.markerpos.Rd      |    6 +-
 man/find.pheno.Rd          |    2 
 man/find.pseudomarker.Rd   |    8 +--
 man/findDupMarkers.Rd      |    6 +-
 man/fitqtl.Rd              |   16 +++---
 man/fitstahl.Rd            |    4 -
 man/formLinkageGroups.Rd   |    6 +-
 man/geno.crosstab.Rd       |    6 +-
 man/geno.image.Rd          |    6 +-
 man/geno.table.Rd          |    6 +-
 man/hyper.Rd               |    8 +--
 man/jittermap.Rd           |   10 ++--
 man/listeria.Rd            |    8 +--
 man/locateXO.Rd            |only
 man/lodint.Rd              |   12 ++---
 man/makeqtl.Rd             |   18 +++----
 man/map10.Rd               |    4 -
 man/markernames.Rd         |    4 -
 man/max.scanone.Rd         |    8 +--
 man/max.scantwo.Rd         |   12 ++---
 man/movemarker.Rd          |    6 +-
 man/nchr.Rd                |   16 +++---
 man/nind.Rd                |   14 +++---
 man/nmar.Rd                |   16 +++---
 man/nmissing.Rd            |    6 +-
 man/nphe.Rd                |   14 +++---
 man/ntyped.Rd              |    6 +-
 man/orderMarkers.Rd        |   12 ++---
 man/plot.cross.Rd          |   12 ++---
 man/plot.errorlod.Rd       |   10 ++--
 man/plot.geno.Rd           |   10 ++--
 man/plot.info.Rd           |   12 ++---
 man/plot.map.Rd            |    2 
 man/plot.missing.Rd        |    4 -
 man/plot.pheno.Rd          |    6 +-
 man/plot.pxg.Rd            |    8 +--
 man/plot.qtl.Rd            |    8 +--
 man/plot.rf.Rd             |    6 +-
 man/plot.scanone.Rd        |   10 ++--
 man/plot.scanoneboot.Rd    |    8 +--
 man/plot.scanoneperm.Rd    |    8 +--
 man/plot.scantwo.Rd        |   18 +++----
 man/plot.scantwoperm.Rd    |    8 +--
 man/plotLodProfile.Rd      |    8 +--
 man/plotModel.Rd           |    4 -
 man/pull.geno.Rd           |    4 -
 man/pull.map.Rd            |    4 -
 man/pull.pheno.Rd          |    4 -
 man/qtl-internal.Rd        |    4 -
 man/qtlversion.Rd          |    1 
 man/read.cross.Rd          |   18 ++++---
 man/readMWril.Rd           |    6 +-
 man/refineqtl.Rd           |   18 +++----
 man/reorderqtl.Rd          |    8 +--
 man/replace.map.Rd         |    4 -
 man/replacemap.scanone.Rd  |    8 +--
 man/replacemap.scantwo.Rd  |    8 +--
 man/replaceqtl.Rd          |   14 +++---
 man/ripple.Rd              |    8 +--
 man/scanone.Rd             |   20 ++++----
 man/scanoneboot.Rd         |   14 +++---
 man/scanqtl.Rd             |    6 +-
 man/scantwo.Rd             |   32 ++++++-------
 man/sim.cross.Rd           |   14 +++---
 man/sim.geno.Rd            |    6 +-
 man/sim.map.Rd             |    4 -
 man/simFounderSnps.Rd      |    2 
 man/stepwiseqtl.Rd         |   24 +++++-----
 man/strip.partials.Rd      |    4 -
 man/subset.cross.Rd        |    4 -
 man/subset.map.Rd          |    2 
 man/subset.scanone.Rd      |    8 +--
 man/subset.scanoneperm.Rd  |   12 ++---
 man/subset.scantwo.Rd      |    8 +--
 man/subset.scantwoperm.Rd  |   11 ++--
 man/summary.cross.Rd       |   14 +++---
 man/summary.fitqtl.Rd      |    8 +--
 man/summary.map.Rd         |    6 +-
 man/summary.qtl.Rd         |    4 -
 man/summary.ripple.Rd      |    8 +--
 man/summary.scanone.Rd     |   20 ++++----
 man/summary.scanoneboot.Rd |    8 +--
 man/summary.scanoneperm.Rd |   14 +++---
 man/summary.scantwo.Rd     |   16 +++---
 man/summary.scantwo.old.Rd |   14 +++---
 man/summary.scantwoperm.Rd |   10 ++--
 man/switch.order.Rd        |   10 ++--
 man/top.errorlod.Rd        |    4 -
 man/totmar.Rd              |   16 +++---
 man/tryallpositions.Rd     |   12 ++---
 man/write.cross.Rd         |    6 +-
 man/xaxisloc.scanone.Rd    |   18 +++----
 159 files changed, 1134 insertions(+), 809 deletions(-)

More information about qtl at CRAN
Permanent link

Package polynom updated to version 1.3-6 with previous version 1.3-5 dated 2009-02-05

Author: S original by Bill Venables . Packaged for R by Kurt Hornik and Martin Maechler .
Title: A collection of functions to implement a class for univariate polynomial manipulations
Description: A collection of functions to implement a class for univariate polynomial manipulations.

Diff between polynom versions 1.3-5 dated 2009-02-05 and 1.3-6 dated 2009-09-10

 ChangeLog        |    4 ++++
 DESCRIPTION      |   18 ++++++++++--------
 inst/CITATION    |    6 +++---
 man/poly.orth.Rd |    2 +-
 4 files changed, 18 insertions(+), 12 deletions(-)

More information about polynom at CRAN
Permanent link

Package oz updated to version 1.0-18 with previous version 1.0-17 dated 2009-02-05

Author: S original by Bill Venables . R port by Kurt Hornik .
Title: Plot the Australian coastline and states
Description: Functions for plotting Australia's coastline and state boundaries.

Diff between oz versions 1.0-17 dated 2009-02-05 and 1.0-18 dated 2009-09-10

 ChangeLog        |    6 ++++++
 DESCRIPTION      |   14 ++++++++------
 inst/CITATION    |    4 ++--
 man/oz-states.Rd |    2 +-
 4 files changed, 17 insertions(+), 9 deletions(-)

More information about oz at CRAN
Permanent link

Package lsa updated to version 0.63-1 with previous version 0.63 dated 2009-08-21

Author: Fridolin Wild
Title: Latent Semantic Analysis
Description: The basic idea of latent semantic analysis (LSA) is, that text do have a higher order (=latent semantic) structure which, however, is obscured by word usage (e.g. through the use of synonyms or polysemy). By using conceptual indices that are derived statistically via a truncated singular value decomposition (a two-mode factor analysis) over a given document-term matrix, this variability problem can be overcome.

Diff between lsa versions 0.63 dated 2009-08-21 and 0.63-1 dated 2009-09-10

 DESCRIPTION       |    8 ++++----
 R/textmatrix.R    |   12 ++++++------
 tests/lsa-tests.R |    7 +++----
 3 files changed, 13 insertions(+), 14 deletions(-)

More information about lsa at CRAN
Permanent link

Package date updated to version 1.2-28 with previous version 1.2-27 dated 2009-02-05

Author: Terry Therneau . R port by Thomas Lumley , Kjetil Halvorsen , and Kurt Hornik .
Title: Functions for handling dates
Description: Functions for handling dates.

Diff between date versions 1.2-27 dated 2009-02-05 and 1.2-28 dated 2009-09-10

 ChangeLog     |    6 ++++++
 DESCRIPTION   |   13 ++++++++-----
 inst/CITATION |    8 ++++----
 3 files changed, 18 insertions(+), 9 deletions(-)

More information about date at CRAN
Permanent link

Package clue updated to version 0.3-31 with previous version 0.3-30 dated 2009-08-31

Author: Kurt Hornik, with contributions from Walter Boehm
Title: Cluster ensembles
Description: CLUster Ensembles

Diff between clue versions 0.3-30 dated 2009-08-31 and 0.3-31 dated 2009-09-10

 DESCRIPTION   |    8 ++++----
 inst/CITATION |    4 ++--
 2 files changed, 6 insertions(+), 6 deletions(-)

More information about clue at CRAN
Permanent link

Package chron updated to version 2.3-31 with previous version 2.3-30 dated 2009-02-18

Author: S original by David James , R port by Kurt Hornik .
Title: Chronological objects which can handle dates and times
Description: Chronological objects which can handle dates and times

Diff between chron versions 2.3-30 dated 2009-02-18 and 2.3-31 dated 2009-09-10

 ChangeLog     |    6 ++++++
 DESCRIPTION   |   12 +++++++-----
 inst/CITATION |    4 ++--
 man/chron.Rd  |    2 +-
 4 files changed, 16 insertions(+), 8 deletions(-)

More information about chron at CRAN
Permanent link

New package Geneclust with initial version 1.0.0
Package: Geneclust
Title: Simulation and analysis of spatial structure of population genetics data
Version: 1.0.0
Author: Sophie Ancelet
Description: Simulation and analysis of spatial structure of population genetics data
Depends: deldir, fields, spatial
Maintainer: Sophie Ancelet , Gilles Guillot
URL: http://www.sophie-ancelet.com/
License: GPL
Packaged: 2009-09-10 14:29:17 UTC; gilles
Repository: CRAN
Date/Publication: 2009-09-10 18:32:59

More information about Geneclust at CRAN
Permanent link

Package svcR updated to version 1.6.1 with previous version 1.4.2 dated 2009-05-06

Author: Nicolas Turenne .
Title: svcR package
Description: svcR implements a support vector machine technique for clustering It includes choice between three kinds of kernel. Original cluster labeling and export of clusters. Format of data require 3 files: matrix, attributes, variables.

Diff between svcR versions 1.4.2 dated 2009-05-06 and 1.6.1 dated 2009-09-10

 svcR-1.4.2/svcR/data/iris_att.txt             |only
 svcR-1.4.2/svcR/data/iris_mat.txt             |only
 svcR-1.4.2/svcR/data/iris_var.txt             |only
 svcR-1.4.2/svcR/man/findModelCluster-class.Rd |only
 svcR-1.4.2/svcR/man/findModelCluster.Rd       |only
 svcR-1.4.2/svcR/man/iris_att.Rd               |only
 svcR-1.4.2/svcR/man/iris_mat.Rd               |only
 svcR-1.4.2/svcR/man/iris_var.Rd               |only
 svcR-1.6.1/svcR/DESCRIPTION                   |    8 
 svcR-1.6.1/svcR/NAMESPACE                     |   20 +-
 svcR-1.6.1/svcR/R/classes.R                   |   91 ++++++++--
 svcR-1.6.1/svcR/R/display.R                   |  128 ++++++++++++--
 svcR-1.6.1/svcR/R/eval.R                      |   16 -
 svcR-1.6.1/svcR/R/labelling.R                 |   20 +-
 svcR-1.6.1/svcR/R/model.R                     |   12 -
 svcR-1.6.1/svcR/R/svcR.R                      |  228 +++++++++++++++-----------
 svcR-1.6.1/svcR/data/term_att.txt             |only
 svcR-1.6.1/svcR/data/term_mat.txt             |only
 svcR-1.6.1/svcR/data/term_var.txt             |only
 svcR-1.6.1/svcR/man/ClusterEval-class.Rd      |    2 
 svcR-1.6.1/svcR/man/ClusterEval.Rd            |   26 +-
 svcR-1.6.1/svcR/man/Display.Rd                |   49 ++++-
 svcR-1.6.1/svcR/man/Labelling-class.Rd        |   14 -
 svcR-1.6.1/svcR/man/Labelling.Rd              |   34 +--
 svcR-1.6.1/svcR/man/ModelSV-class.Rd          |    7 
 svcR-1.6.1/svcR/man/ModelSV.Rd                |   14 -
 svcR-1.6.1/svcR/man/findSvcModel-class.Rd     |only
 svcR-1.6.1/svcR/man/findSvcModel.Rd           |only
 svcR-1.6.1/svcR/man/kernelMatrix-class.Rd     |    4 
 svcR-1.6.1/svcR/man/kernelMatrix.Rd           |   10 -
 svcR-1.6.1/svcR/man/term_att.Rd               |only
 svcR-1.6.1/svcR/man/term_mat.Rd               |only
 svcR-1.6.1/svcR/man/term_var.Rd               |only
 svcR-1.6.1/svcR/src/svcR.c                    |    2 
 34 files changed, 462 insertions(+), 223 deletions(-)

More information about svcR at CRAN
Permanent link

Package multcomp updated to version 1.1-2 with previous version 1.1-1 dated 2009-07-18

Author: Torsten Hothorn, Frank Bretz and Peter Westfall with contributions by Richard M. Heiberger and Andre Schuetzenmeister
Title: Simultaneous Inference in General Parametric Models
Description: Simultaneous tests and confidence intervals for general linear hypotheses in parametric models, including linear, generalized linear, linear mixed effects, and survival models.

Diff between multcomp versions 1.1-1 dated 2009-07-18 and 1.1-2 dated 2009-09-10

 multcomp-1.1-1/multcomp/inst/doc/generalsiminf.bbl           |only
 multcomp-1.1-1/multcomp/inst/doc/generalsiminf.blg           |only
 multcomp-1.1-2/multcomp/DESCRIPTION                          |   10 
 multcomp-1.1-2/multcomp/NEWS                                 |    9 
 multcomp-1.1-2/multcomp/R/glht.R                             |   14 
 multcomp-1.1-2/multcomp/R/helpers.R                          |   11 
 multcomp-1.1-2/multcomp/R/mcp.R                              |  162 +
 multcomp-1.1-2/multcomp/R/plot.R                             |    9 
 multcomp-1.1-2/multcomp/inst/CHANGES                         |    9 
 multcomp-1.1-2/multcomp/inst/doc/chfls1.pdf                  |binary
 multcomp-1.1-2/multcomp/inst/doc/generalsiminf.pdf           | 1020 +++++------
 multcomp-1.1-2/multcomp/inst/doc/multcomp-examples.pdf       |binary
 multcomp-1.1-2/multcomp/man/glht.Rd                          |    6 
 multcomp-1.1-2/multcomp/man/methods.Rd                       |    3 
 multcomp-1.1-2/multcomp/man/modelparm.Rd                     |    4 
 multcomp-1.1-2/multcomp/tests/Examples/multcomp-Ex.Rout.save |    7 
 16 files changed, 733 insertions(+), 531 deletions(-)

More information about multcomp at CRAN
Permanent link

Package ipred updated to version 0.8-8 with previous version 0.8-7 dated 2009-03-28

Author: Andrea Peters and Torsten Hothorn
Title: Improved Predictors
Description: Improved predictive models by indirect classification and bagging for classification, regression and survival problems as well as resampling based estimators of prediction error.

Diff between ipred versions 0.8-7 dated 2009-03-28 and 0.8-8 dated 2009-09-10

 CHANGES                     |    6 +++++-
 DESCRIPTION                 |    8 ++++----
 inst/doc/ipred-examples.pdf |binary
 man/bagging.Rd              |    2 +-
 4 files changed, 10 insertions(+), 6 deletions(-)

More information about ipred at CRAN
Permanent link

Package bigmemory updated to version 3.11 with previous version 3.10 dated 2009-07-18

Author: Michael J. Kane and John W. Emerson
Title: Manage massive matrices in R using C++, with support for shared memory and memory-mapped files.
Description: Use C++ to create, store, access, and manipulate massive matrices. Matrices may optionally be allocated to shared memory and/or may use memory-mapped files.

Diff between bigmemory versions 3.10 dated 2009-07-18 and 3.11 dated 2009-09-10

 bigmemory-3.10/bigmemory/configure.Rout                |only
 bigmemory-3.10/bigmemory/src/BigMatrix.h               |only
 bigmemory-3.10/bigmemory/src/BigMatrixAccessor.hpp     |only
 bigmemory-3.10/bigmemory/src/BigMemoryDefines.h        |only
 bigmemory-3.10/bigmemory/src/BigMemoryMutex.cpp        |only
 bigmemory-3.10/bigmemory/src/BigMemoryMutex.h          |only
 bigmemory-3.10/bigmemory/src/CUserMutex.cpp            |only
 bigmemory-3.10/bigmemory/src/Cbigmemory.cpp            |only
 bigmemory-3.10/bigmemory/src/CbigmemoryLib.cpp         |only
 bigmemory-3.10/bigmemory/src/Makevars.darwin           |only
 bigmemory-3.10/bigmemory/src/Makevars.linux            |only
 bigmemory-3.10/bigmemory/src/Makevars.win              |only
 bigmemory-3.10/bigmemory/src/SharedCounter.h           |only
 bigmemory-3.10/bigmemory/src/TODO.txt                  |only
 bigmemory-3.10/bigmemory/src/bigmemoryutils.cpp        |only
 bigmemory-3.10/bigmemory/src/isna.hpp                  |only
 bigmemory-3.10/bigmemory/src/tab2space.pl              |only
 bigmemory-3.10/bigmemory/src/util.h                    |only
 bigmemory-3.11/bigmemory/DESCRIPTION                   |    8 
 bigmemory-3.11/bigmemory/cleanup                       |    1 
 bigmemory-3.11/bigmemory/configure.R                   |   19 +
 bigmemory-3.11/bigmemory/configure.win                 |only
 bigmemory-3.11/bigmemory/include/BigMatrix.h           |only
 bigmemory-3.11/bigmemory/include/BigMatrixAccessor.hpp |only
 bigmemory-3.11/bigmemory/include/SharedCounter.h       |only
 bigmemory-3.11/bigmemory/include/bigmemoryDefines.h    |only
 bigmemory-3.11/bigmemory/include/bigmemoryMutex.h      |only
 bigmemory-3.11/bigmemory/include/isna.hpp              |only
 bigmemory-3.11/bigmemory/include/util.h                |only
 bigmemory-3.11/bigmemory/man/big.matrix.Rd             |   32 +--
 bigmemory-3.11/bigmemory/man/biglm.big.matrix.Rd       |    7 
 bigmemory-3.11/bigmemory/man/bigmemory-package.Rd      |   29 +-
 bigmemory-3.11/bigmemory/man/rw.mutex.Rd               |    6 
 bigmemory-3.11/bigmemory/man/write.big.matrix.Rd       |   12 -
 bigmemory-3.11/bigmemory/src/BigMatrix.cpp             |  178 ++++-------------
 bigmemory-3.11/bigmemory/src/SharedCounter.cpp         |    8 
 bigmemory-3.11/bigmemory/src/UserMutex.cpp             |only
 bigmemory-3.11/bigmemory/src/bigmemory.cpp             |only
 bigmemory-3.11/bigmemory/src/bigmemoryLib.cpp          |only
 bigmemory-3.11/bigmemory/src/bigmemoryMutex.cpp        |only
 bigmemory-3.11/bigmemory/src/bigmemoryUtils.cpp        |only
 bigmemory-3.11/bigmemory/src/util.cpp                  |    8 
 42 files changed, 126 insertions(+), 182 deletions(-)

More information about bigmemory at CRAN
Permanent link

Package aroma.core updated to version 1.2.0 with previous version 1.1.2 dated 2009-06-16

Author: Henrik Bengtsson
Title: Support package for aroma.affymetrix et al.
Description: This package is a private support package for aroma.affymetrix et al. The methods and classes of this package are independent of platform. Its API is in alpha and beta stage.

Diff between aroma.core versions 1.1.2 dated 2009-06-16 and 1.2.0 dated 2009-09-10

 DESCRIPTION                                                                    |   23 -
 R/009.setup.R                                                                  |    6 
 R/AromaPlatform.R                                                              |    6 
 R/AromaPlatformInterface.R                                                     |  151 +++++++++
 R/AromaTabularBinaryFile.R                                                     |    4 
 R/AromaTransform.R                                                             |    2 
 R/AromaUnitChromosomeTabularBinaryFile.R                                       |    8 
 R/AromaUnitFracBCnBinarySet.R                                                  |    5 
 R/AromaUnitSignalBinaryFile.R                                                  |   20 -
 R/AromaUnitTabularBinaryFile.R                                                 |   25 +
 R/AromaUnitTotalCnBinarySet.R                                                  |    5 
 R/AromaUnitTypesFile.R                                                         |only
 R/Interface.R                                                                  |   23 +
 R/RawGenomicSignals.R                                                          |   31 +
 R/RawGenomicSignals.segmentByCBS.R                                             |    4 
 R/RawGenomicSignals.segmentByGLAD.R                                            |   10 
 R/RawGenomicSignals.segmentByHaarSeg.R                                         |    4 
 R/RawSequenceReads.EXTRAS.R                                                    |only
 R/RawSequenceReads.R                                                           |only
 R/SegmentedGenomicSignalsInterface.COLS.R                                      |only
 R/SegmentedGenomicSignalsInterface.R                                           |  156 +++++++---
 R/UnitAnnotationDataFile.R                                                     |only
 R/UnitNamesFile.R                                                              |  115 -------
 R/UnitTypesFile.R                                                              |only
 R/fitGenotypeCone.matrix.R                                                     |    2 
 R/fitMultiDimensionalCone.matrix.R                                             |    2 
 R/matrixBlockPolish.matrix.R                                                   |    2 
 R/private.patchSmoothScatter.R                                                 |only
 R/serialize,patch.R                                                            |    2 
 incl/999.missingdocs.txt                                                       |   25 +
 incl/RawGenomicSignals.SEG.Rex                                                 |   13 
 inst/NEWS                                                                      |   52 +++
 inst/testScripts/system/RawGenomicSignals/test20090628,binSmoothing.Rex        |only
 inst/testScripts/system/RawGenomicSignals/test20090628,binSmoothingByState.Rex |only
 man/AromaCellTabularBinaryFile.Rd                                              |    4 
 man/AromaMicroarrayDataFile.Rd                                                 |    2 
 man/AromaMicroarrayDataSet.Rd                                                  |    2 
 man/AromaMicroarrayDataSetTuple.Rd                                             |    2 
 man/AromaMicroarrayTabularBinaryFile.Rd                                        |    4 
 man/AromaPlatform.Rd                                                           |    4 
 man/AromaTabularBinaryFile.Rd                                                  |    4 
 man/AromaTabularBinarySet.Rd                                                   |    2 
 man/AromaTransform.Rd                                                          |    2 
 man/AromaUnitCallFile.Rd                                                       |    6 
 man/AromaUnitCallSet.Rd                                                        |    2 
 man/AromaUnitFracBCnBinaryFile.Rd                                              |    6 
 man/AromaUnitFracBCnBinarySet.Rd                                               |    2 
 man/AromaUnitGenotypeCallFile.Rd                                               |    6 
 man/AromaUnitGenotypeCallSet.Rd                                                |    2 
 man/AromaUnitSignalBinaryFile.Rd                                               |    7 
 man/AromaUnitSignalBinarySet.Rd                                                |    2 
 man/AromaUnitTabularBinaryFile.Rd                                              |    5 
 man/AromaUnitTotalCnBinaryFile.Rd                                              |    6 
 man/AromaUnitTotalCnBinarySet.Rd                                               |    2 
 man/AromaUnitTypesFile.Rd                                                      |only
 man/Explorer.Rd                                                                |    2 
 man/Interface.Rd                                                               |    2 
 man/Non-documented_objects.Rd                                                  |   40 ++
 man/RawAlleleBFractions.Rd                                                     |    4 
 man/RawCopyNumbers.Rd                                                          |    4 
 man/RawGenomicSignals.Rd                                                       |    7 
 man/RawMirroredAlleleBFractions.Rd                                             |    4 
 man/RawSequenceReads.Rd                                                        |only
 man/SegmentedAlleleBFractions.Rd                                               |    6 
 man/SegmentedCopyNumbers.Rd                                                    |    6 
 man/SegmentedGenomicSignalsInterface.Rd                                        |    2 
 man/UnitAnnotationDataFile.Rd                                                  |only
 man/UnitNamesFile.Rd                                                           |   17 -
 man/UnitTypesFile.Rd                                                           |only
 man/allocate.AromaTabularBinaryFile.Rd                                         |    2 
 man/aroma.core-package.Rd                                                      |    2 
 man/matrixBlockPolish.matrix.Rd                                                |    2 
 man/segmentByCBS.RawGenomicSignals.Rd                                          |   17 -
 man/segmentByGLAD.RawGenomicSignals.Rd                                         |    6 
 man/segmentByHaarSeg.RawGenomicSignals.Rd                                      |    4 
 75 files changed, 623 insertions(+), 272 deletions(-)

More information about aroma.core at CRAN
Permanent link

Package GOSim updated to version 1.2 with previous version 1.1.5.4 dated 2008-12-04

Author: Holger Froehlich , contributions by Tim Beissbarth
Title: Computation of functional similarities between GO terms and gene products; GO enrichement analysis
Description: This package implements several functions useful for computing similarities between GO terms and gene products based on their GO annotation. Moreover it allows for computing a GO enrichment analysis

Diff between GOSim versions 1.1.5.4 dated 2008-12-04 and 1.2 dated 2009-09-10

 GOSim-1.1.5.4/GOSim/data/ICsBPflyall.rda         |only
 GOSim-1.1.5.4/GOSim/data/ICsBPmalariaall.rda     |only
 GOSim-1.1.5.4/GOSim/data/ICsBPmouseall.rda       |only
 GOSim-1.1.5.4/GOSim/data/ICsBPratall.rda         |only
 GOSim-1.1.5.4/GOSim/data/ICsBPyeastall.rda       |only
 GOSim-1.1.5.4/GOSim/data/ICsCCflyall.rda         |only
 GOSim-1.1.5.4/GOSim/data/ICsCCmalariaall.rda     |only
 GOSim-1.1.5.4/GOSim/data/ICsCCmouseall.rda       |only
 GOSim-1.1.5.4/GOSim/data/ICsCCratall.rda         |only
 GOSim-1.1.5.4/GOSim/data/ICsCCyeastall.rda       |only
 GOSim-1.1.5.4/GOSim/data/ICsMFflyall.rda         |only
 GOSim-1.1.5.4/GOSim/data/ICsMFmalariaall.rda     |only
 GOSim-1.1.5.4/GOSim/data/ICsMFmouseall.rda       |only
 GOSim-1.1.5.4/GOSim/data/ICsMFratall.rda         |only
 GOSim-1.1.5.4/GOSim/data/ICsMFyeastall.rda       |only
 GOSim-1.2/GOSim/.project                         |only
 GOSim-1.2/GOSim/DESCRIPTION                      |   26 
 GOSim-1.2/GOSim/NAMESPACE                        |    5 
 GOSim-1.2/GOSim/R/geneSimilarity.R               |    2 
 GOSim-1.2/GOSim/R/general.R                      |   22 
 GOSim-1.2/GOSim/R/normalize.kernel.R             |   24 
 GOSim-1.2/GOSim/R/pca.R                          |   12 
 GOSim-1.2/GOSim/R/termSimilarity.R               |   29 
 GOSim-1.2/GOSim/data/ICsBPhumanall.rda           |binary
 GOSim-1.2/GOSim/data/ICsCChumanall.rda           |binary
 GOSim-1.2/GOSim/data/ICsMFhumanall.rda           |binary
 GOSim-1.2/GOSim/inst/doc/GOSim.Rnw               |   12 
 GOSim-1.2/GOSim/inst/doc/GOSim.pdf               | 2634 +++----
 GOSim-1.2/GOSim/inst/doc/references.bib          | 8349 +++++++++++------------
 GOSim-1.2/GOSim/man/IC.Rd                        |    4 
 GOSim-1.2/GOSim/man/calc.diffusion.kernel.Rd     |    2 
 GOSim-1.2/GOSim/man/getGeneFeaturesPrototypes.Rd |    7 
 GOSim-1.2/GOSim/man/getGeneSim.Rd                |    4 
 GOSim-1.2/GOSim/man/getGeneSimPrototypes.Rd      |    4 
 GOSim-1.2/GOSim/man/getTermSim.Rd                |   15 
 GOSim-1.2/GOSim/man/selectPrototypes.Rd          |   28 
 GOSim-1.2/GOSim/man/setEvidenceLevel.Rd          |   11 
 GOSim-1.2/GOSim/man/setOntology.Rd               |    2 
 38 files changed, 5628 insertions(+), 5564 deletions(-)

More information about GOSim at CRAN
Permanent link

New package maticce with initial version 0.9-2
Package: maticce
Type: Package
Title: Mapping Transitions in Continuous Character Evolution
Version: 0.9-2
Date: 2009-9-8
Depends: ouch, ape
Enhances: ouch
Suggests: geiger
Author: Andrew Hipp , with contributions from Marcial Escudero
Maintainer: Andrew Hipp
Description: Tools for an information-theoretic approach to estimating the probability of continuous character transitions on phylogenetic trees
License: GPL
URL: http://mattice.R-forge.R-project.org
Revision: 1
Repository: CRAN
Repository/R-Forge/Project: mattice
Repository/R-Forge/Revision: 230
Date/Publication: 2009-09-10 09:52:33
Packaged: 2009-09-09 20:20:26 UTC; rforge

More information about maticce at CRAN
Permanent link

Package bestglm updated to version 0.13 with previous version 0.10 dated 2009-08-27

Author: A.I. McLeod and Changjiang Xu
Title: Best Subset GLM
Description: Best subset glm using AIC, BIC, EBIC, BICq or Cross-Validation. For the normal case, the 'leaps' is used. Otherwise, a slower exhaustive search. The 'xtable' package is needed for vignette 'SimExperimentBICq.Rnw' accompanying this package.

Diff between bestglm versions 0.10 dated 2009-08-27 and 0.13 dated 2009-09-10

 bestglm-0.10/bestglm/inst/BICqSimulation.R                |only
 bestglm-0.10/bestglm/inst/SimBICq.R                       |only
 bestglm-0.10/bestglm/inst/SimBICqRmpi.R                   |only
 bestglm-0.10/bestglm/inst/doc/SimExperimentBICq.dvi       |only
 bestglm-0.10/bestglm/inst/doc/bestglm-plotCVHTF-repeat.ps |only
 bestglm-0.10/bestglm/inst/doc/bestglm.dvi                 |only
 bestglm-0.10/bestglm/inst/tb1.dat                         |only
 bestglm-0.10/bestglm/inst/tb2.dat                         |only
 bestglm-0.10/bestglm/inst/tb3.dat                         |only
 bestglm-0.10/bestglm/inst/tb4.dat                         |only
 bestglm-0.13/bestglm/DESCRIPTION                          |    8 
 bestglm-0.13/bestglm/inst/doc/Rplots.pdf                  |    4 
 bestglm-0.13/bestglm/inst/doc/SimExperimentBICq.Rnw       |    9 
 bestglm-0.13/bestglm/inst/doc/SimExperimentBICq.pdf       | 1033 +-
 bestglm-0.13/bestglm/inst/doc/bestglm.Rnw                 |  146 
 bestglm-0.13/bestglm/inst/doc/bestglm.bib                 |   11 
 bestglm-0.13/bestglm/inst/doc/bestglm.pdf                 | 6344 ++++++--------
 bestglm-0.13/bestglm/man/bestglm-package.Rd               |  150 
 bestglm-0.13/bestglm/man/bestglm.Rd                       |  482 -
 19 files changed, 3982 insertions(+), 4205 deletions(-)

More information about bestglm at CRAN
Permanent link

Package aroma.affymetrix updated to version 1.2.0 with previous version 1.1.1 dated 2009-06-29

Author: Henrik Bengtsson , Ken Simpson , Elizabeth Purdom , Mark Robinson
Title: Analysis of large Affymetrix microarray data sets
Description: This package implements classes for files and sets of files for various Affymetrix file formats, e.g. AffymetrixCdfFile, AffymetrixCelFile, and AffymetrixCelSet. These are designed to be memory efficient but still being fast. The idea is to keep all data on file and only read data into memory when needed. Clever caching mechanisms are used to minimize the overhead of data IO. All of the above is hidden in the package API and for the developer (and the end user), the data is queried as if it lives in memory. With this design it is only the diskspace that limits what number of arrays can be analyzed.

Diff between aroma.affymetrix versions 1.1.1 dated 2009-06-29 and 1.2.0 dated 2009-09-10

 DESCRIPTION                                                                                         |   26 ++--
 R/999.package.R                                                                                     |   54 +-------
 R/AbstractProbeSequenceNormalization.R                                                              |   24 +++
 R/AdditiveCovariatesNormalization.R                                                                 |    6 
 R/AffymetrixCdfFile.R                                                                               |   21 ++-
 R/AffymetrixCdfFile.getAlleleProbePairs.R                                                           |    1 
 R/AffymetrixCdfFile.getAlleleProbePairs3.R                                                          |    1 
 R/AffymetrixCdfFile.getSubsetOfCellIndices.R                                                        |    2 
 R/AffymetrixCdfFile.getSubsetOfUnits.R                                                              |    2 
 R/AffymetrixCdfFile.getUnitGroupCellMap.R                                                           |    2 
 R/AffymetrixCelFile.BG.R                                                                            |    2 
 R/AffymetrixCelFile.PLOT.R                                                                          |   24 ---
 R/AffymetrixCelFile.R                                                                               |    8 +
 R/AffymetrixCelSet.BG.R                                                                             |   11 +
 R/AffymetrixCelSet.R                                                                                |   64 +++-------
 R/AffymetrixCelSet.convertToUnique.R                                                                |    3 
 R/AffymetrixCelSetTuple.R                                                                           |    8 +
 R/AffymetrixCnChpFile.R                                                                             |    8 +
 R/AffymetrixCnChpSet.R                                                                              |   45 +------
 R/AffymetrixCsvGenomeInformation.R                                                                  |    7 -
 R/AffymetrixFile.R                                                                                  |    4 
 R/AffymetrixFileSet.R                                                                               |    2 
 R/AffymetrixPlatform.R                                                                              |    6 
 R/AffymetrixProbeTabFile.R                                                                          |    8 -
 R/AffymetrixTabularFile.R                                                                           |    8 -
 R/AffymetrixTsvFile.R                                                                               |    8 -
 R/AllelicCrosstalkCalibration.R                                                                     |   13 --
 R/AromaChipTypeAnnotationFile.R                                                                     |    7 -
 R/AromaUnitTabularBinaryFile.AFFX.R                                                                 |    2 
 R/ArrayExplorer.R                                                                                   |    6 
 R/ChipEffectFile.R                                                                                  |    2 
 R/ChromosomalModel.R                                                                                |    7 +
 R/CnagCfhFile.R                                                                                     |    9 -
 R/CnagCfhSet.R                                                                                      |   53 ++------
 R/CopyNumberSegmentationModel.plot.R                                                                |   12 +
 R/DChipCdfBinFile.R                                                                                 |    2 
 R/DChipDcpFile.R                                                                                    |    2 
 R/DChipDcpSet.R                                                                                     |   52 +-------
 R/DChipGenomeInformation.R                                                                          |    7 -
 R/DChipSnpInformation.R                                                                             |    7 -
 R/FirmaModel.R                                                                                      |   11 -
 R/FragmentEquivalentClassNormalization.R                                                            |    9 -
 R/FragmentLengthNormalization.R                                                                     |    6 
 R/GcContentNormalization2.plotCovariateEffects.R                                                    |    4 
 R/GenomeInformation.R                                                                               |   18 ++
 R/Model.R                                                                                           |    1 
 R/MultiArrayUnitModel.R                                                                             |    1 
 R/ParameterCelFile.R                                                                                |    2 
 R/ProbeLevelModel.fit.R                                                                             |    2 
 R/QualityAssessmentModel.R                                                                          |   10 +
 R/ReseqCrosstalkCalibration.R                                                                       |    6 
 R/ScaleNormalization.R                                                                              |    9 -
 R/ScaleNormalization3.R                                                                             |    3 
 R/SingleArrayUnitModel.R                                                                            |    1 
 R/SnpInformation.R                                                                                  |    9 -
 R/TransformReport.R                                                                                 |    7 +
 R/UflSnpInformation.R                                                                               |    8 -
 R/UgpGenomeInformation.R                                                                            |    7 -
 R/UnitTypeScaleNormalization.R                                                                      |    3 
 R/doCRMA.R                                                                                          |    4 
 R/plotBoxplotStats.list.R                                                                           |    4 
 R/readCfhHeader.R                                                                                   |   14 +-
 R/readCfhUnits.R                                                                                    |    4 
 R/readCfnHeader.R                                                                                   |   10 -
 R/readCfnUnits.R                                                                                    |    6 
 incl/999.missingdocs.txt                                                                            |   15 ++
 inst/CITATION                                                                                       |   37 +++++
 inst/NEWS                                                                                           |   53 +++++++-
 inst/testScripts/replication/chipTypes/Hs_PromPR_v02/test20081209,MatNormalization,MAT.R            |   32 ++++-
 inst/testScripts/system/chipTypes/Cytogenetics_Array                                                |only
 inst/testScripts/system/chipTypes/GenomeWideSNP_6/test20080730,6.0,BPN,alleleSpecific.R             |    6 
 inst/testScripts/system/chipTypes/GenomeWideSNP_6/test20080827,6.0,CRMAv2.R                         |    2 
 inst/testScripts/system/chipTypes/GenomeWideSNP_6/test20090901,6.0,CRMAv2,ASCN,TumorBoost.R         |only
 inst/testScripts/system/chipTypes/Mapping10K_Xba142/test20080510,10K,CN,alleleSpecific.R            |    2 
 inst/testScripts/system/chipTypes/Mapping10K_Xba142/test20090813,10K,SN.R                           |only
 inst/testScripts/system/chipTypes/Mapping250K_Nsp,Sty/test20090117,250K,TumorNormal,ASCN,pairy.R    |    4 
 inst/testScripts/system/chipTypes/Mapping50K_Hind240,Xba240/test20080730,100K,BPN,alleleSpecific.R  |    6 
 inst/testScripts/system/chipTypes/Mapping50K_Hind240,Xba240/test20080819,100K,BPNz,alleleSpecific.R |    6 
 man/AbstractProbeSequenceNormalization.Rd                                                           |    2 
 man/AdditiveCovariatesNormalization.Rd                                                              |    2 
 man/AffineCnPlm.Rd                                                                                  |    2 
 man/AffinePlm.Rd                                                                                    |    2 
 man/AffineSnpPlm.Rd                                                                                 |    2 
 man/AffymetrixCdfFile.Rd                                                                            |   30 +++-
 man/AffymetrixCelFile.Rd                                                                            |    5 
 man/AffymetrixCelSet.Rd                                                                             |    6 
 man/AffymetrixCelSetReporter.Rd                                                                     |    2 
 man/AffymetrixCelSetTuple.Rd                                                                        |    2 
 man/AffymetrixCnChpSet.Rd                                                                           |    4 
 man/AffymetrixFile.Rd                                                                               |    8 -
 man/AffymetrixFileSet.Rd                                                                            |    6 
 man/AffymetrixFileSetReporter.Rd                                                                    |    2 
 man/AffymetrixProbeTabFile.Rd                                                                       |    5 
 man/AlleleSummation.Rd                                                                              |    2 
 man/AllelicCrosstalkCalibration.Rd                                                                  |    2 
 man/AromaChipTypeAnnotationFile.Rd                                                                  |    4 
 man/ArrayExplorer.Rd                                                                                |    2 
 man/AvgCnPlm.Rd                                                                                     |    2 
 man/AvgPlm.Rd                                                                                       |    2 
 man/AvgSnpPlm.Rd                                                                                    |    2 
 man/BackgroundCorrection.Rd                                                                         |    2 
 man/BaseCountNormalization.Rd                                                                       |    2 
 man/BasePositionNormalization.Rd                                                                    |    2 
 man/CbsModel.Rd                                                                                     |    2 
 man/ChipEffectFile.Rd                                                                               |    6 
 man/ChipEffectGroupMerge.Rd                                                                         |    2 
 man/ChipEffectSet.Rd                                                                                |    6 
 man/ChipEffectTransform.Rd                                                                          |    2 
 man/ChromosomalModel.Rd                                                                             |    2 
 man/ChromosomeExplorer.Rd                                                                           |    2 
 man/CnChipEffectFile.Rd                                                                             |    6 
 man/CnChipEffectSet.Rd                                                                              |    6 
 man/CnProbeAffinityFile.Rd                                                                          |    6 
 man/CnagCfhFile.Rd                                                                                  |    4 
 man/CnagCfhSet.Rd                                                                                   |    2 
 man/CopyNumberChromosomalModel.Rd                                                                   |    2 
 man/CopyNumberSegmentationModel.Rd                                                                  |    2 
 man/CrlmmParametersFile.Rd                                                                          |    6 
 man/CrlmmParametersSet.Rd                                                                           |    2 
 man/DChipCdfBinFile.Rd                                                                              |   17 +-
 man/DChipDcpFile.Rd                                                                                 |    6 
 man/DChipDcpSet.Rd                                                                                  |    5 
 man/DChipGenomeInformation.Rd                                                                       |    5 
 man/DChipQuantileNormalization.Rd                                                                   |    2 
 man/DChipSnpInformation.Rd                                                                          |    5 
 man/ExonChipEffectFile.Rd                                                                           |    6 
 man/ExonChipEffectSet.Rd                                                                            |    6 
 man/ExonProbeAffinityFile.Rd                                                                        |    6 
 man/ExonRmaPlm.Rd                                                                                   |    2 
 man/FirmaFile.Rd                                                                                    |    6 
 man/FirmaModel.Rd                                                                                   |    2 
 man/FirmaSet.Rd                                                                                     |    6 
 man/FragmentEquivalentClassNormalization.Rd                                                         |    5 
 man/FragmentLengthNormalization.Rd                                                                  |    2 
 man/GcContentNormalization.Rd                                                                       |    2 
 man/GcContentNormalization2.Rd                                                                      |    2 
 man/GcRmaBackgroundCorrection.Rd                                                                    |    2 
 man/GenericReporter.Rd                                                                              |    2 
 man/GenomeInformation.Rd                                                                            |    6 
 man/GladModel.Rd                                                                                    |    2 
 man/HaarSegModel.Rd                                                                                 |    2 
 man/HetLogAddCnPlm.Rd                                                                               |    2 
 man/HetLogAddPlm.Rd                                                                                 |    2 
 man/HetLogAddSnpPlm.Rd                                                                              |    2 
 man/LimmaBackgroundCorrection.Rd                                                                    |    2 
 man/LinearModelProbeSequenceNormalization.Rd                                                        |    2 
 man/MatNormalization.Rd                                                                             |    2 
 man/MatSmoothing.Rd                                                                                 |    2 
 man/MbeiCnPlm.Rd                                                                                    |    2 
 man/MbeiPlm.Rd                                                                                      |    2 
 man/MbeiSnpPlm.Rd                                                                                   |    2 
 man/Model.Rd                                                                                        |    2 
 man/MultiArrayUnitModel.Rd                                                                          |    2 
 man/Non-documented_objects.Rd                                                                       |   12 +
 man/NormExpBackgroundCorrection.Rd                                                                  |    2 
 man/OpticalBackgroundCorrection.Rd                                                                  |    2 
 man/ParameterCelFile.Rd                                                                             |    8 -
 man/ParameterCelSet.Rd                                                                              |    6 
 man/ProbeAffinityFile.Rd                                                                            |    6 
 man/ProbeLevelModel.Rd                                                                              |    2 
 man/ProbeLevelTransform.Rd                                                                          |    2 
 man/ProbeLevelTransform3.Rd                                                                         |    2 
 man/QualityAssessmentFile.Rd                                                                        |    6 
 man/QualityAssessmentModel.Rd                                                                       |    2 
 man/QualityAssessmentSet.Rd                                                                         |    6 
 man/QuantileNormalization.Rd                                                                        |    2 
 man/RawCopyNumberModel.Rd                                                                           |    2 
 man/ReseqCrosstalkCalibration.Rd                                                                    |    2 
 man/ResidualFile.Rd                                                                                 |    6 
 man/ResidualSet.Rd                                                                                  |    6 
 man/RmaBackgroundCorrection.Rd                                                                      |    2 
 man/RmaCnPlm.Rd                                                                                     |    2 
 man/RmaPlm.Rd                                                                                       |    2 
 man/RmaSnpPlm.Rd                                                                                    |    2 
 man/ScaleNormalization.Rd                                                                           |    5 
 man/ScaleNormalization3.Rd                                                                          |    5 
 man/SingleArrayUnitModel.Rd                                                                         |    2 
 man/SmoothMultiarrayModel.Rd                                                                        |    2 
 man/SmoothRmaModel.Rd                                                                               |    2 
 man/SnpChipEffectFile.Rd                                                                            |    6 
 man/SnpChipEffectGroupMerge.Rd                                                                      |    2 
 man/SnpChipEffectSet.Rd                                                                             |    6 
 man/SnpInformation.Rd                                                                               |    5 
 man/SnpProbeAffinityFile.Rd                                                                         |    6 
 man/SpatialReporter.Rd                                                                              |    2 
 man/TransformReport.Rd                                                                              |    3 
 man/UgpGenomeInformation.Rd                                                                         |    5 
 man/UnitModel.Rd                                                                                    |    2 
 man/UnitTypeScaleNormalization.Rd                                                                   |    5 
 man/WeightsFile.Rd                                                                                  |    6 
 man/WeightsSet.Rd                                                                                   |    6 
 man/allocateFromCdf.AromaUnitTabularBinaryFile.Rd                                                   |    2 
 man/aroma.affymetrix-package.Rd                                                                     |   54 +-------
 man/convert.AffymetrixCdfFile.Rd                                                                    |    2 
 man/findByChipType.AffymetrixCdfFile.Rd                                                             |    1 
 man/fit.FirmaModel.Rd                                                                               |    7 -
 man/fit.ProbeLevelModel.Rd                                                                          |    2 
 man/fromFile.AffymetrixCdfFile.Rd                                                                   |    1 
 man/getAlleleProbePairs.AffymetrixCdfFile.Rd                                                        |    1 
 man/getAlleleProbePairs3.AffymetrixCdfFile.Rd                                                       |    1 
 man/getCdf.Model.Rd                                                                                 |    1 
 man/getUnitTypes.AffymetrixCdfFile.Rd                                                               |    1 
 man/getWeights.QualityAssessmentModel.Rd                                                            |   10 +
 man/image270.AffymetrixCelFile.Rd                                                                   |    3 
 man/plotBoxplotStats.list.Rd                                                                        |    4 
 man/readUnits.CnagCfhFile.Rd                                                                        |    1 
 man/readUnits.MultiArrayUnitModel.Rd                                                                |    1 
 man/readUnits.SingleArrayUnitModel.Rd                                                               |    1 
 man/smoothScatterMvsA.AffymetrixCelFile.Rd                                                          |    2 
 209 files changed, 715 insertions(+), 673 deletions(-)

More information about aroma.affymetrix at CRAN
Permanent link

Package R.utils updated to version 1.2.0 with previous version 1.1.7 dated 2009-06-08

Author: Henrik Bengtsson
Title: Various programming utilities
Description: This package provides utility classes and methods useful when programming in R and developing R packages.

Diff between R.utils versions 1.1.7 dated 2009-06-08 and 1.2.0 dated 2009-09-10

 R.utils-1.1.7/R.utils/R/beta                         |only
 R.utils-1.1.7/R.utils/R/devel                        |only
 R.utils-1.2.0/R.utils/DESCRIPTION                    |   10 +--
 R.utils-1.2.0/R.utils/R/Arguments.R                  |   13 +++-
 R.utils-1.2.0/R.utils/R/Settings.R                   |    7 +-
 R.utils-1.2.0/R.utils/R/Sys.setenv.patch.R           |    2 
 R.utils-1.2.0/R.utils/R/callHooks.R                  |    2 
 R.utils-1.2.0/R.utils/R/copyFile.R                   |    2 
 R.utils-1.2.0/R.utils/R/countLines.R                 |    2 
 R.utils-1.2.0/R.utils/R/deviceUtils.R                |   10 +--
 R.utils-1.2.0/R.utils/R/dimNA.R                      |only
 R.utils-1.2.0/R.utils/R/fileAccess.R                 |    2 
 R.utils-1.2.0/R.utils/R/getParent.R                  |   53 ++++++++++++-------
 R.utils-1.2.0/R.utils/R/isPackageLoaded.R            |    5 -
 R.utils-1.2.0/R.utils/R/patchCode.R                  |    2 
 R.utils-1.2.0/R.utils/R/readWindowsShortcut.R        |   22 +++----
 R.utils-1.2.0/R.utils/R/toCamelCase.R                |    2 
 R.utils-1.2.0/R.utils/R/touchFile.R                  |    2 
 R.utils-1.2.0/R.utils/R/writeBinFragments.R          |    3 -
 R.utils-1.2.0/R.utils/incl/displayCode.Rex           |    4 -
 R.utils-1.2.0/R.utils/inst/NEWS                      |   16 +++++
 R.utils-1.2.0/R.utils/man/Arguments.Rd               |    2 
 R.utils-1.2.0/R.utils/man/Assert.Rd                  |    2 
 R.utils-1.2.0/R.utils/man/FileProgressBar.Rd         |    2 
 R.utils-1.2.0/R.utils/man/Java.Rd                    |    2 
 R.utils-1.2.0/R.utils/man/LComments.Rd               |    2 
 R.utils-1.2.0/R.utils/man/MultiVerbose.Rd            |    2 
 R.utils-1.2.0/R.utils/man/NullVerbose.Rd             |    2 
 R.utils-1.2.0/R.utils/man/Options.Rd                 |    2 
 R.utils-1.2.0/R.utils/man/ProgressBar.Rd             |    2 
 R.utils-1.2.0/R.utils/man/Settings.Rd                |    2 
 R.utils-1.2.0/R.utils/man/SmartComments.Rd           |    2 
 R.utils-1.2.0/R.utils/man/Sys.setenv.Rd              |only
 R.utils-1.2.0/R.utils/man/System.Rd                  |    2 
 R.utils-1.2.0/R.utils/man/TextStatusBar.Rd           |    2 
 R.utils-1.2.0/R.utils/man/VComments.Rd               |    2 
 R.utils-1.2.0/R.utils/man/Verbose.Rd                 |    2 
 R.utils-1.2.0/R.utils/man/callHooks.Rd               |    1 
 R.utils-1.2.0/R.utils/man/callHooks.function.Rd      |    1 
 R.utils-1.2.0/R.utils/man/copyFile.Rd                |    2 
 R.utils-1.2.0/R.utils/man/devList.Rd                 |    2 
 R.utils-1.2.0/R.utils/man/devOff.Rd                  |    4 -
 R.utils-1.2.0/R.utils/man/devSet.Rd                  |    4 -
 R.utils-1.2.0/R.utils/man/dimNALT_-.Rd               |only
 R.utils-1.2.0/R.utils/man/displayCode.Rd             |    4 -
 R.utils-1.2.0/R.utils/man/getCharacters.Arguments.Rd |    6 +-
 R.utils-1.2.0/R.utils/man/isPackageLoaded.Rd         |    5 -
 R.utils-1.2.0/R.utils/man/loadAnywhere.Settings.Rd   |    2 
 R.utils-1.2.0/R.utils/man/patchCode.Rd               |    2 
 R.utils-1.2.0/R.utils/man/promptAndSave.Settings.Rd  |    3 -
 R.utils-1.2.0/R.utils/man/saveAnywhere.Settings.Rd   |    2 
 R.utils-1.2.0/R.utils/man/toCamelCase.Rd             |    2 
 R.utils-1.2.0/R.utils/man/writeBinFragments.Rd       |    3 -
 53 files changed, 132 insertions(+), 100 deletions(-)

More information about R.utils at CRAN
Permanent link

Package R.oo updated to version 1.5.0 with previous version 1.4.8 dated 2009-06-08

Author: Henrik Bengtsson
Title: R object-oriented programming with or without references
Description: Methods and classes for object-oriented programming in R with or without references. Large effort has been made on making definition of methods as simple as possible with a minimum of maintenance for package developers. The package has been developed since 2001 and is now considered very stable. This is a cross-platform package implemented in pure R that defines standard S3 classes without any tricks.

Diff between R.oo versions 1.4.8 dated 2009-06-08 and 1.5.0 dated 2009-09-10

 DESCRIPTION                                   |   10 +-
 R/050.Object.R                                |   95 +++++++++++++++++++++++++-
 R/999.NonDocumentedObjects.R                  |    1 
 R/BasicObject.R                               |    8 --
 R/Class.misc.R                                |    2 
 R/Exception.R                                 |   12 +--
 R/Package.R                                   |    8 +-
 R/Rdoc.R                                      |    3 
 R/classRepresentation.misc.R                  |   11 ---
 R/getName.environment.R                       |    2 
 R/throw.default.R                             |    2 
 inst/NEWS                                     |    8 ++
 man/Class.Rd                                  |    2 
 man/Exception.Rd                              |    4 -
 man/InternalErrorException.Rd                 |    2 
 man/Non-documented_objects.Rd                 |    1 
 man/Object.Rd                                 |    1 
 man/Package.Rd                                |    2 
 man/R.oo-package.Rd                           |    2 
 man/RccViolationException.Rd                  |    2 
 man/Rdoc.Rd                                   |    2 
 man/RdocException.Rd                          |    2 
 man/declaration.Rdoc.Rd                       |    1 
 man/equals.BasicObject.Rd                     |    2 
 man/getContents.Package.Rd                    |    2 
 man/getFields.BasicObject.Rd                  |    2 
 man/getInternalAddress.Object.Rd              |    2 
 man/getKnownSubclasses.classRepresentation.Rd |    4 -
 man/getLastException.Exception.Rd             |    2 
 man/getName.environment.Rd                    |    2 
 man/getPosition.Package.Rd                    |    2 
 man/getRdDeclaration.Class.Rd                 |    1 
 man/getRdHierarchy.Class.Rd                   |    1 
 man/getStackTrace.Exception.Rd                |    4 -
 man/getSuperclasses.classRepresentation.Rd    |    4 -
 man/hasField.BasicObject.Rd                   |    2 
 man/hierarchy.Rdoc.Rd                         |    1 
 man/isLoaded.Package.Rd                       |    2 
 man/methodsInheritedFrom.Rdoc.Rd              |    1 
 man/objectSize.BasicObject.Rd                 |    2 
 man/objectSize.Object.Rd                      |    2 
 man/printStackTrace.Exception.Rd              |    2 
 man/registerFinalizer.Object.Rd               |only
 man/throw.Exception.Rd                        |    2 
 man/throw.Rd                                  |    2 
 man/update.Package.Rd                         |    2 
 46 files changed, 148 insertions(+), 81 deletions(-)

More information about R.oo at CRAN
Permanent link

Wed, 09 Sep 2009

Package ensembleBMA updated to version 4.3.2 with previous version 4.3.1 dated 2009-09-07

Author: Chris Fraley, Adrian E. Raftery, J. McLean Sloughter, Tilmann Gneiting, University of Washington With contributions from Bobby Yuen and Michael Polokowski
Title: Probabilistic Forecasting using Ensembles and Bayesian Model Averaging
Description: Bayesian Model Averaging to create probabilistic forecasts from ensemble forecasts and weather observations.

Diff between ensembleBMA versions 4.3.1 dated 2009-09-07 and 4.3.2 dated 2009-09-09

 CHANGELOG        |    3 +--
 DESCRIPTION      |    8 ++++----
 R/fitBMAgamma0.R |   23 ++++++++++++++++-------
 3 files changed, 21 insertions(+), 13 deletions(-)

More information about ensembleBMA at CRAN
Permanent link

Package dti updated to version 0.8-1 with previous version 0.8-0 dated 2009-04-15

Author: Karsten Tabelow Joerg Polzehl
Title: DTI/DWI Analysis
Description: Diffusion Weighted Imaging is a Magnetic Resonance Imaging modality, that measures diffusion of water in tissues like the human brain. The package contains R-functions to process diffusion-weighted data in the context of the diffusion tensor model (DTI). This includes the calculation of anisotropy measures and, most important, the implementation of our structural adaptive smoothing algorithm as described in K. Tabelow, J. Polzehl, V. Spokoiny, and H.U. Voss, Diffusion Tensor Imaging: Structural Adaptive Smoothing, Neuroimage 39(4), 1763-1773 (2008).

Diff between dti versions 0.8-0 dated 2009-04-15 and 0.8-1 dated 2009-09-09

 DESCRIPTION   |   10 +++++-----
 inst/CITATION |only
 2 files changed, 5 insertions(+), 5 deletions(-)

More information about dti at CRAN
Permanent link

New package RPMM with initial version 1.0
Package: RPMM
Type: Package
Title: Recursively Partitioned Mixture Model
Version: 1.0
Date: 2008-09-08
Author: E. Andres Houseman, Sc.D.
Maintainer: E. Andres Houseman
Depends: R (>= 2.3.1), cluster
Description: Recursively Partitioned Mixture Model for Beta and Gaussian Mixtures. This is a model-based clustering algorithm that returns a hierarchy of classes, similar to hierarchical clustering, but also similar to finite mixture models.
License: GPL (>= 2)
Packaged: Wed Sep 9 13:45:58 2009; ahousema
Repository: CRAN
Date/Publication: 2009-09-09 20:11:51

More information about RPMM at CRAN
Permanent link

Package survival updated to version 2.35-7 with previous version 2.35-6 dated 2009-09-07

Author: Terry Therneau, original R port by Thomas Lumley
Title: Survival analysis, including penalised likelihood.
Description: survival analysis: descriptive statistics, two-sample tests, parametric accelerated failure models, Cox model. Delayed entry (truncation) allowed for all models; interval censoring for parametric models. Case-cohort designs.

Diff between survival versions 2.35-6 dated 2009-09-07 and 2.35-7 dated 2009-09-09

 DESCRIPTION                 |    8 +++-----
 Notes                       |only
 R/aareg.taper.S             |    2 +-
 R/agexact.fit.S             |    2 +-
 R/agreg.fit.S               |    2 +-
 R/cluster.S                 |    2 +-
 R/coxpenal.df.S             |    2 +-
 R/coxph.fit.S               |    2 +-
 R/coxph.rvar.S              |    2 +-
 R/coxph.wtest.S             |    2 +-
 R/dsurvreg.S                |    2 +-
 R/frailty.S                 |    2 +-
 R/frailty.brent.S           |    2 +-
 R/frailty.controlaic.S      |    2 +-
 R/frailty.controldf.S       |    2 +-
 R/frailty.controlgam.S      |    2 +-
 R/frailty.controlgauss.S    |    2 +-
 R/frailty.gammacon.S        |    2 +-
 R/is.na.coxph.penalty.S     |    2 +-
 R/labels.survreg.S          |    2 +-
 R/lines.aareg.S             |    2 +-
 R/lines.survfit.coxph.S     |    2 +-
 R/plot.aareg.S              |    2 +-
 R/plot.survfit.S            |    2 +-
 R/points.survfit.S          |    2 +-
 R/predict.survreg.penal.S   |    2 +-
 R/print.cox.zph.S           |    2 +-
 R/print.coxph.S             |    2 +-
 R/print.coxph.null.S        |    2 +-
 R/print.coxph.penal.S       |    2 +-
 R/print.ratetable.S         |    2 +-
 R/print.summary.survfit.S   |    2 +-
 R/print.summary.survreg.S   |    2 +-
 R/print.survdiff.S          |    2 +-
 R/print.survexp.S           |    2 +-
 R/print.survreg.S           |    2 +-
 R/print.survreg.penal.S     |    2 +-
 R/residuals.survreg.penal.S |    2 +-
 R/ridge.S                   |    2 +-
 R/strata.S                  |    2 +-
 R/summary.ratetable.S       |    2 +-
 R/summary.survreg.S         |    2 +-
 R/survdiff.S                |    2 +-
 R/survdiff.fit.S            |    2 +-
 R/survexp.cfit.S            |    2 +-
 R/survreg.old.S             |    2 +-
 R/tcut.S                    |    2 +-
 R/untangle.specials.S       |    2 +-
 man/coxph.Rd                |    1 -
 src/agexact.c               |    2 +-
 src/agscore.c               |    2 +-
 src/agsurv1.c               |    2 +-
 src/agsurv2.c               |    2 +-
 src/chinv3.c                |    2 +-
 src/cholesky3.c             |    2 +-
 src/chsolve2.c              |    2 +-
 src/chsolve3.c              |    2 +-
 src/coxfit2.c               |    2 +-
 src/coxmart.c               |    2 +-
 src/coxph_wtest.c           |    2 +-
 src/coxscho.c               |    2 +-
 src/pyears2.c               |    2 +-
 src/pystep.c                |    2 +-
 src/survConcordance.c       |    2 +-
 src/survdiff2.c             |    2 +-
 src/survfit4.c              |    2 +-
 66 files changed, 66 insertions(+), 69 deletions(-)

More information about survival at CRAN
Permanent link

Package maxstat updated to version 0.7-13 with previous version 0.7-12 dated 2008-08-31

Author: Torsten Hothorn
Title: Maximally Selected Rank Statistics
Description: Maximally selected rank statistics with several p-value approximations.

Diff between maxstat versions 0.7-12 dated 2008-08-31 and 0.7-13 dated 2009-09-09

 CHANGES              |    6 +++++-
 DESCRIPTION          |   15 +++++++++------
 R/maxstat.R          |    2 +-
 inst/doc/maxstat.pdf |binary
 man/maxstat.test.Rd  |    2 +-
 5 files changed, 16 insertions(+), 9 deletions(-)

More information about maxstat at CRAN
Permanent link

Package frbf updated to version 1.0 with previous version 0.9 dated 2009-09-03

Author: Fernando Martins
Title: Implementation of the "Flexible kernels for RBF network" algorithm
Description: Flexible kernerl for radial basis function network implementation.

Diff between frbf versions 0.9 dated 2009-09-03 and 1.0 dated 2009-09-09

 DESCRIPTION                        |    8 ++++----
 man/accuracy.Rd                    |    2 +-
 man/adjustKernelClusters.Rd        |    2 +-
 man/buildClassification.Rd         |    2 +-
 man/buildDistanceTable.Rd          |    2 +-
 man/class_configuration.Rd         |    1 +
 man/class_distance.Rd              |    1 +
 man/class_kernels.Rd               |    1 +
 man/classificationDistanceTable.Rd |    2 +-
 man/distances.Rd                   |    2 +-
 man/findLambda.Rd                  |    2 +-
 man/findS.Rd                       |    2 +-
 man/frbf.Rd                        |    4 ++--
 man/initS.Rd                       |    2 +-
 man/predict.RemoraModel.Rd         |    4 ++--
 man/print.RemoraConfiguration.Rd   |    2 +-
 man/print.RemoraKernels.Rd         |    2 +-
 man/print.RemoraModel.Rd           |    2 +-
 man/remora-package.Rd              |    6 +++---
 man/remora.classify.Rd             |    2 +-
 man/remora.model.Rd                |    2 +-
 man/remora.predict.Rd              |    2 +-
 man/remoraConfiguration.Rd         |    2 +-
 man/remoraDistance.Rd              |    2 +-
 man/remoraKernels.Rd               |    2 +-
 man/remoraKernelsKmeans.Rd         |    2 +-
 man/remoraModel.Rd                 |    2 +-
 man/train.Rd                       |    2 +-
 28 files changed, 35 insertions(+), 32 deletions(-)

More information about frbf at CRAN
Permanent link

Package spcosa updated to version 0.1-5 with previous version 0.1-4 dated 2009-07-01

Author: D.J.J. Walvoort, D.J. Brus, and J.J. de Gruijter
Title: Spatial Coverage Sampling And Random Sampling From Compact Geographical Strata
Description: Spatial coverage sampling and random sampling from compact geographical strata created by k-means.

Diff between spcosa versions 0.1-4 dated 2009-07-01 and 0.1-5 dated 2009-09-09

 DESCRIPTION                                     |   11 
 NEWS                                            |    7 
 R/method_plot-CompactStratification.R           |    4 
 demo/farmsumSCS.R                               |    2 
 inst/doc/spcosa.pdf                             | 2470 +++++++++++++-----------
 man/CompactStratification-class.Rd              |    8 
 man/CompactStratificationEqualArea-class.Rd     |    4 
 man/CompactStratificationPriorPoints-class.Rd   |    6 
 man/SamplingPattern-class.Rd                    |    4 
 man/SamplingPatternCentroids-class.Rd           |    2 
 man/SamplingPatternPriorPoints-class.Rd         |    2 
 man/SamplingPatternPurposive-class.Rd           |    2 
 man/SamplingPatternRandom-class.Rd              |    2 
 man/SamplingPatternRandomComposite-class.Rd     |    4 
 man/SamplingPatternRandomSamplingUnits-class.Rd |    2 
 man/stratify-methods.Rd                         |    8 
 tests/unitTests/runit_estimate.R                |    2 
 17 files changed, 1452 insertions(+), 1088 deletions(-)

More information about spcosa at CRAN
Permanent link

Package gWidgetstcltk updated to version 0.0-30 with previous version 0.0-26 dated 2009-02-10

Author: John Verzani
Title: Toolkit implementation of gWidgets for tcltk package
Description: Port of gWidgets API to the tcltk package. Requires TK 8.5 or greater for the tile (ttk)widgets http://www.tcl.tk/software/tcltk/8.5.tml. This is default on Windows. Under linux, it must be installed. Under Mac OS X (10.5) it must be upgraded. See www.tcl.tk to download source. Under the Mac it compiles and installs cleanly.

Diff between gWidgetstcltk versions 0.0-26 dated 2009-02-10 and 0.0-30 dated 2009-09-09

 ChangeLog                         |  299 ++++++++++++++++++++++++++++++++++++++
 DESCRIPTION                       |   17 +-
 NEWS                              |   30 +++
 R/aaaGenerics.R                   |   39 +++-
 R/common.R                        |   77 +++++++++
 R/gbutton.R                       |   83 +++-------
 R/gcheckbox.R                     |   21 ++
 R/gcheckboxgroup.R                |   13 +
 R/gdf.R                           |   23 ++
 R/gdialogs.R                      |   22 +-
 R/gdroplist.R                     |    2 
 R/gedit.R                         |   52 +++++-
 R/gfile.R                         |    2 
 R/gframe.R                        |   13 +
 R/ggroup.R                        |    7 
 R/gimage.R                        |  139 ++++++++++-------
 R/glabel.R                        |   17 --
 R/glayout.R                       |    2 
 R/gpanedgroup.R                   |    2 
 R/gradio.R                        |   16 ++
 R/gslider.R                       |   46 +++++
 R/gspinbutton.R                   |   39 ++++
 R/gtable.R                        |   83 +++++-----
 R/gtext.R                         |    9 -
 R/gtoolbar.R                      |   13 -
 R/tcltkFuns.R                     |    2 
 R/zzz.R                           |    2 
 TODO.txt                          |   58 +++++++
 man/gWidgetstcltk-undocumented.Rd |    8 +
 29 files changed, 909 insertions(+), 227 deletions(-)

More information about gWidgetstcltk at CRAN
Permanent link

Package gWidgets updated to version 0.0-37 with previous version 0.0-36 dated 2009-09-09

Author: John Verzani. Based on the iwidgets code of Simon Urbanek and suggestions by Simon Urbanek, Philippe Grosjean and Michael Lawrence
Title: gWidgets API for building toolkit-independent, interactive GUIs
Description: gWidgets provides a toolkit-independent API for building interactive GUIs. Atleast one of the gWidgetsXXX packages, such as gWidgetstcltk, needs to be installed. Some icons are on loan from the scigraphica project http://scigraphica.sourceforge.net.

Diff between gWidgets versions 0.0-36 dated 2009-09-09 and 0.0-37 dated 2009-09-09

 ChangeLog                  |    5 
 DESCRIPTION                |    6 
 NEWS                       |    4 
 inst/doc/addingToolkit.pdf |binary
 inst/doc/gWidgets.pdf      |  694 ++++++++++++++++++++++-----------------------
 inst/tests/ex-containers.R |    2 
 inst/tests/ex-gdialogs.R   |    5 
 7 files changed, 364 insertions(+), 352 deletions(-)

More information about gWidgets at CRAN
Permanent link

Package rgl updated to version 0.87 with previous version 0.84 dated 2009-03-15

Author: Daniel Adler , Duncan Murdoch
Title: 3D visualization device system (OpenGL)
Description: 3D visualization device (OpenGL)

Diff between rgl versions 0.84 dated 2009-03-15 and 0.87 dated 2009-09-09

 rgl-0.84/rgl/src/math.cpp          |only
 rgl-0.84/rgl/src/math.h            |only
 rgl-0.87/rgl/DESCRIPTION           |   11 ++++++-----
 rgl-0.87/rgl/NAMESPACE             |    6 ++++--
 rgl-0.87/rgl/R/addNormals.mesh3d.R |only
 rgl-0.87/rgl/R/cylinder3d.R        |only
 rgl-0.87/rgl/R/enum.R              |    2 +-
 rgl-0.87/rgl/R/material.R          |    8 +++++---
 rgl-0.87/rgl/R/scene.R             |    9 ++++-----
 rgl-0.87/rgl/R/shapelist3d.R       |   11 ++++++++---
 rgl-0.87/rgl/R/zzz.R               |    4 ++--
 rgl-0.87/rgl/inst/NEWS             |   20 ++++++++++++++++++--
 rgl-0.87/rgl/man/addNormals.Rd     |only
 rgl-0.87/rgl/man/cylinder3d.Rd     |only
 rgl-0.87/rgl/man/ellipse3d.Rd      |    2 +-
 rgl-0.87/rgl/man/material.Rd       |    2 +-
 rgl-0.87/rgl/man/mesh3d.Rd         |    3 ++-
 rgl-0.87/rgl/man/par3dinterp.Rd    |    2 +-
 rgl-0.87/rgl/man/r3d.Rd            |    2 +-
 rgl-0.87/rgl/man/rgl.bringtotop.Rd |    4 +++-
 rgl-0.87/rgl/man/texts.Rd          |    2 +-
 rgl-0.87/rgl/man/viewpoint.Rd      |    6 +++++-
 rgl-0.87/rgl/src/BBoxDeco.hpp      |    2 +-
 rgl-0.87/rgl/src/Background.cpp    |   25 ++++++++++++++++++-------
 rgl-0.87/rgl/src/Color.cpp         |    1 +
 rgl-0.87/rgl/src/Light.hpp         |    2 +-
 rgl-0.87/rgl/src/RenderContext.hpp |    2 +-
 rgl-0.87/rgl/src/String.cpp        |    1 +
 rgl-0.87/rgl/src/Texture.cpp       |    1 +
 rgl-0.87/rgl/src/Viewpoint.cpp     |    8 ++++++--
 rgl-0.87/rgl/src/geom.cpp          |   14 +++++++++++---
 rgl-0.87/rgl/src/geom.hpp          |    4 +++-
 rgl-0.87/rgl/src/par3d.cpp         |    2 +-
 rgl-0.87/rgl/src/pixmap.cpp        |    3 ++-
 rgl-0.87/rgl/src/rglmath.cpp       |only
 rgl-0.87/rgl/src/rglmath.h         |only
 rgl-0.87/rgl/src/rglview.cpp       |    4 ++--
 rgl-0.87/rgl/src/scene.cpp         |    4 ++--
 rgl-0.87/rgl/src/x11gui.cpp        |    7 ++++++-
 39 files changed, 120 insertions(+), 54 deletions(-)

More information about rgl at CRAN
Permanent link

Package gWidgetsRGtk2 updated to version 0.0-54 with previous version 0.0-53 dated 2009-08-01

Author: Michael Lawrence, John Verzani
Title: Toolkit implementation of gWidgets for RGtk2
Description: Port of gWidgets API to RGtk2

Diff between gWidgetsRGtk2 versions 0.0-53 dated 2009-08-01 and 0.0-54 dated 2009-09-09

 ChangeLog                         |   13 +++++++++++
 DESCRIPTION                       |    6 ++---
 NEWS                              |    9 +++++++
 R/gfile.R                         |   20 ++++++++++-------
 R/gslider.R                       |   43 ++++++++++++++++++++++++++++++++++++++
 R/gspinbutton.R                   |   40 +++++++++++++++++++++++++++++++++++
 TODO.txt                          |only
 man/gWidgetsRGtk2-undocumented.Rd |    4 +++
 svn-commit.2.tmp                  |only
 svn-commit.tmp                    |only
 10 files changed, 124 insertions(+), 11 deletions(-)

More information about gWidgetsRGtk2 at CRAN
Permanent link

Package gWidgets updated to version 0.0-36 with previous version 0.0-35 dated 2009-03-13

Author: John Verzani. Based on the iwidgets code of Simon Urbanek and suggestions by Simon Urbanek, Philippe Grosjean and Michael Lawrence
Title: gWidgets API for building toolkit-independent, interactive GUIs
Description: gWidgets provides a toolkit-independent API for building interactive GUIs. Atleast one of the gWidgetsXXX packages, such as gWidgetstcltk, needs to be installed. Some icons are on loan from the scigraphica project http://scigraphica.sourceforge.net.

Diff between gWidgets versions 0.0-35 dated 2009-03-13 and 0.0-36 dated 2009-09-09

 gWidgets-0.0-35/gWidgets/inst/doc/gWidgets.pdf.3.mine           |only
 gWidgets-0.0-35/gWidgets/inst/doc/gWidgets.pdf.mine             |only
 gWidgets-0.0-36/gWidgets/DESCRIPTION                            |    6 
 gWidgets-0.0-36/gWidgets/NEWS                                   |only
 gWidgets-0.0-36/gWidgets/inst/doc/addingToolkit.pdf             |binary
 gWidgets-0.0-36/gWidgets/inst/doc/draft.R                       |only
 gWidgets-0.0-36/gWidgets/inst/doc/gWidgets.R                    |only
 gWidgets-0.0-36/gWidgets/inst/doc/gWidgets.pdf                  | 5408 +++++-----
 gWidgets-0.0-36/gWidgets/inst/doc/gWidgets.toc                  |only
 gWidgets-0.0-36/gWidgets/inst/doc/gWidgetsImplementatations.ods |only
 gWidgets-0.0-36/gWidgets/inst/doc/gWidgetsImplementatations.xls |only
 gWidgets-0.0-36/gWidgets/inst/doc/testit.R                      |only
 gWidgets-0.0-36/gWidgets/inst/tests/test-gbutton.R              |only
 gWidgets-0.0-36/gWidgets/inst/tests/test-gcalendar.R            |only
 gWidgets-0.0-36/gWidgets/inst/tests/test-gcheckbox.R            |only
 gWidgets-0.0-36/gWidgets/inst/tests/test-gcheckboxgroup.R       |only
 gWidgets-0.0-36/gWidgets/inst/tests/test-gcombobox.R            |only
 gWidgets-0.0-36/gWidgets/inst/tests/test-gedit.R                |only
 gWidgets-0.0-36/gWidgets/inst/tests/test-gimage.R               |only
 gWidgets-0.0-36/gWidgets/inst/tests/test-glabel.R               |only
 gWidgets-0.0-36/gWidgets/inst/tests/test-gradio.R               |only
 gWidgets-0.0-36/gWidgets/man/gWidgets-handlers.Rd               |    2 
 gWidgets-0.0-36/gWidgets/man/gformlayout.Rd                     |    2 
 gWidgets-0.0-36/gWidgets/man/ggenericwidget.Rd                  |    2 
 gWidgets-0.0-36/gWidgets/man/gslider.Rd                         |    5 
 25 files changed, 2862 insertions(+), 2563 deletions(-)

More information about gWidgets at CRAN
Permanent link

Package ez updated to version 1.4 with previous version 1.3 dated 2009-05-20

Author: Michael A. Lawrence
Title: Easy analysis and visualization of factorial experiments.
Description: This package facilitates easy analysis of factorial experiments, including purely within-Ss designs (a.k.a. "repeated measures"), purely between-Ss designs, and mixed within-and-between-Ss designs. The functions in this package provide easy access to descriptive statistics, ANOVA, permutation tests, and visualization of results.

Diff between ez versions 1.3 dated 2009-05-20 and 1.4 dated 2009-09-09

 ez-1.3/ez/R/ezLev.R         |only
 ez-1.3/ez/man/ezLev.Rd      |only
 ez-1.4/ez/CHANGES           |   10 ++++++++++
 ez-1.4/ez/DESCRIPTION       |   12 ++++++------
 ez-1.4/ez/NAMESPACE         |    2 +-
 ez-1.4/ez/R/ez-internal.R   |   39 +++++++++++++++++++++++----------------
 ez-1.4/ez/R/ezANOVA.R       |    6 ++++++
 ez-1.4/ez/R/ezPlot.R        |   19 ++++++++++++++++++-
 ez-1.4/ez/man/ez-package.Rd |    3 +--
 ez-1.4/ez/man/ezANOVA.Rd    |    2 +-
 ez-1.4/ez/man/ezPlot.Rd     |   27 ++++++++++++++++++++++++++-
 ez-1.4/ez/man/ezStats.Rd    |    2 +-
 12 files changed, 93 insertions(+), 29 deletions(-)

More information about ez at CRAN
Permanent link

New package MLCM with initial version 0.0-1
Package: MLCM
Type: Package
Title: Maximum Likelihood Conjoint Measurement
Version: 0.0-1
Date: 2009-09-08
Author: Kenneth Knoblauch and Laurence T. Maloney
Maintainer: Ken Knoblauch
Depends: R (>= 2.9), graphics, stats, utils, base
Description: Conjoint measurement is a psychophysical procedure in which stimulus pairs are presented that vary along n > 2 dimensions and the observer is required to compare the stimuli along one of them. This package contains functions to estimate the contribution of the n scales to the judgment by a maximum likelihood method under several hypotheses of how the perceptual dimensions interact.
License: GPL
LazyLoad: yes
LazyData: yes
Packaged: 2009-09-08 20:25:51 UTC; knoblauch
Repository: CRAN
Date/Publication: 2009-09-09 07:25:48

More information about MLCM at CRAN
Permanent link

New package CircNNTSR with initial version 0.1
Package: CircNNTSR
Type: Package
Title: CircNNTSR: An R package for the statistical analysis of circular data using nonnegative trigonometric sums (NNTS) models
Version: 0.1
Date: 2009-08-31
Author: Juan Jose Fernandez-Duran and Maria Mercedes Gregorio-Dominguez
Maintainer: Maria Mercedes Gregorio-Dominguez
Description: Functions for the analysis of circular data using distributions based on Nonnegative Trigonometric Sums (NNTS). Functions for calculation of densities and distributions, the estimation of parameters, plotting and more
Depends: stats
License: GPL (>= 2)
LazyLoad: yes
Packaged: 2009-09-08 20:17:53 UTC; Administradorequipo
Repository: CRAN
Date/Publication: 2009-09-09 07:25:39

More information about CircNNTSR at CRAN
Permanent link

Package Bhat updated to version 0.9-09 with previous version 0.9-08 dated 2006-02-08

Author: Georg Luebeck
Title: General likelihood exploration
Description: Functions for MLE, MCMC, CIs (originally in Fortran)

Diff between Bhat versions 0.9-08 dated 2006-02-08 and 0.9-09 dated 2009-09-09

 .DS_Store   |only
 DESCRIPTION |    9 +++++----
 2 files changed, 5 insertions(+), 4 deletions(-)

More information about Bhat at CRAN
Permanent link

Tue, 08 Sep 2009

Package hypergeo updated to version 1.2-1 with previous version 1.1-8 dated 2008-08-22

Author: Robin K. S. Hankin
Title: The hypergeometric function
Description: The hypergeometric function, hypergeo(), for complex numbers

Diff between hypergeo versions 1.1-8 dated 2008-08-22 and 1.2-1 dated 2009-09-08

 DESCRIPTION             |   13 ++++---
 INDEX                   |    2 -
 R/hypergeo.R            |   85 ++++++++++++++++++++++++++++++++++++++++--------
 man/genhypergeo.Rd      |    4 +-
 man/hypergeo-package.Rd |    8 +++-
 man/hypergeo.Rd         |    8 +++-
 man/i15.3.6.Rd          |   11 +++++-
 man/is.nonpos.Rd        |    6 ++-
 8 files changed, 110 insertions(+), 27 deletions(-)

More information about hypergeo at CRAN
Permanent link

Package hyperdirichlet updated to version 1.3-0 with previous version 1.1-8 dated 2009-04-15

Author: Robin K.S. Hankin
Title: A generalization of the Dirichlet distribution
Description: A suite of routines for the hyperdirichlet distribution

Diff between hyperdirichlet versions 1.1-8 dated 2009-04-15 and 1.3-0 dated 2009-09-08

 DESCRIPTION                   |    6 
 R/hyperdirichlet.R            |  236 
 inst/doc/correspondence.Rnw   |   14 
 inst/doc/correspondence.bbl   |only
 inst/doc/correspondence.blg   |only
 inst/doc/correspondence.pdf   |binary
 inst/doc/hyperdirichlet.Rnw   |  473 
 inst/doc/hyperdirichlet.bib   |   16 
 inst/doc/hyperdirichlet.pdf   |172177 ++++++++++++++++++++++++++++++++++++++++--
 inst/doc/vig.Rdata            |only
 man/Arith.Rd                  |   18 
 man/B.Rd                      |   24 
 man/bernoulli.Rd              |    3 
 man/binmat.Rd                 |    6 
 man/dhyperdirichlet.Rd        |   10 
 man/dirichlet.Rd              |   46 
 man/e_to_p.Rd                 |    6 
 man/fitz.Rd                   |only
 man/head.Rd                   |   14 
 man/hyperdirichlet-package.Rd |    2 
 man/hyperdirichlet.Rd         |    7 
 man/justpairs.Rd              |    2 
 man/matrix_to_HD.Rd           |    3 
 man/maximum_likelihood.Rd     |   56 
 man/paircomp.Rd               |    2 
 man/params.Rd                 |    5 
 man/paulino.Rd                |    2 
 man/pnames.Rd                 |    4 
 man/print.Rd                  |    8 
 man/uniform.Rd                |    6 
 man/volleyball.Rd             |    4 
 31 files changed, 165507 insertions(+), 7643 deletions(-)

More information about hyperdirichlet at CRAN
Permanent link

Package emu updated to version 4.1 with previous version 4.0 dated 2008-08-07

Author: Jonathan Harrington and others, IPS LMU Muenchen & IPDS CAU Kiel
Title: Interface to the Emu Speech Database System
Description: Provides an interface to the Emu speech database system and many special purpose functions for display and analysis of speech data.

Diff between emu versions 4.0 dated 2008-08-07 and 4.1 dated 2009-09-08

 emu-4.0/emu/R/trackdatacalc.S          |only
 emu-4.0/emu/man/arith.trackdata.Rd     |only
 emu-4.1/emu/DESCRIPTION                |   36 -
 emu-4.1/emu/R/AAoptions.S              |  213 +++++++
 emu-4.1/emu/R/Firstlib.S               |  103 +--
 emu-4.1/emu/R/MethodEPG.S              |   16 
 emu-4.1/emu/R/apply.S                  |  104 +--
 emu-4.1/emu/R/bark.S                   |   52 -
 emu-4.1/emu/R/buildtrack.S             |   90 +--
 emu-4.1/emu/R/classplot.R              |   74 +-
 emu-4.1/emu/R/dct.S                    |   82 +-
 emu-4.1/emu/R/dimtrackdata.S           |   30 -
 emu-4.1/emu/R/dtime.S                  |    4 
 emu-4.1/emu/R/emu.track.S              |  914 ++++++++++++++++++---------------
 emu-4.1/emu/R/emusegs.S                |   46 -
 emu-4.1/emu/R/end.emusegs.S            |   12 
 emu-4.1/emu/R/generics.S               |only
 emu-4.1/emu/R/makelab.S                |  122 ++--
 emu-4.1/emu/R/palate.S                 |  100 +--
 emu-4.1/emu/R/plafit.S                 |   72 +-
 emu-4.1/emu/R/spectralclass.S          |  418 +++++++--------
 emu-4.1/emu/R/start.trackdata.S        |   24 
 emu-4.1/emu/R/trackdata.class.S        |  338 ++++++------
 emu-4.1/emu/R/trackinfo.S              |   19 
 emu-4.1/emu/R/tracktimes.S             |   42 -
 emu-4.1/emu/R/trapply.R                |   63 --
 emu-4.1/emu/man/by.trackdata.Rd        |    4 
 emu-4.1/emu/man/classplot.Rd           |   28 -
 emu-4.1/emu/man/coutts.rms.Rd          |   18 
 emu-4.1/emu/man/dbnorm.Rd              |   94 +--
 emu-4.1/emu/man/dim.trackdata.Rd       |    6 
 emu-4.1/emu/man/dorfric.vl.Rd          |   42 -
 emu-4.1/emu/man/dur.emusegs.Rd         |    5 
 emu-4.1/emu/man/dur.trackdata.Rd       |only
 emu-4.1/emu/man/emu.defaultpaths.Rd    |only
 emu-4.1/emu/man/emu.query.Rd           |  115 ++--
 emu-4.1/emu/man/emu.track.Rd           |  187 +++---
 emu-4.1/emu/man/emu.version.Rd         |   18 
 emu-4.1/emu/man/emulink.Rd             |only
 emu-4.1/emu/man/fr.Rd                  |   18 
 emu-4.1/emu/man/fr.dft.Rd              |   22 
 emu-4.1/emu/man/fr.l.Rd                |   18 
 emu-4.1/emu/man/fr.sp.Rd               |   18 
 emu-4.1/emu/man/frames.Rd              |only
 emu-4.1/emu/man/freqtoint.Rd           |   98 +--
 emu-4.1/emu/man/is.spectral.Rd         |   76 +-
 emu-4.1/emu/man/mu.colour.Rd           |  162 ++---
 emu-4.1/emu/man/rad.Rd                 |   70 +-
 emu-4.1/emu/man/segmentlist.Rd         |   10 
 emu-4.1/emu/man/shift.Rd               |   80 +-
 emu-4.1/emu/man/stops.Rd               |   26 
 emu-4.1/emu/man/stops.bark.Rd          |   32 -
 emu-4.1/emu/man/stops.dct.Rd           |   18 
 emu-4.1/emu/man/stops.dft.Rd           |   26 
 emu-4.1/emu/man/stops.l.Rd             |   18 
 emu-4.1/emu/man/stops.sp.Rd            |   24 
 emu-4.1/emu/man/stopsvow.Rd            |   18 
 emu-4.1/emu/man/stopsvow.fm.Rd         |   20 
 emu-4.1/emu/man/stopsvow.l.Rd          |   18 
 emu-4.1/emu/man/trackdata.Rd           |   41 +
 emu-4.1/emu/man/trackfreq.Rd           |   82 +-
 emu-4.1/emu/man/trapply.Rd             |    8 
 emu-4.1/emu/man/write.trackdata.Rd     |    2 
 emu-4.1/emu/man/write.trackdata.get.Rd |only
 64 files changed, 2361 insertions(+), 2035 deletions(-)

More information about emu at CRAN
Permanent link

Package coin updated to version 1.0-6 with previous version 1.0-5 dated 2009-06-04

Author: Torsten Hothorn, Kurt Hornik, Mark A. van de Wiel and Achim Zeileis
Title: Conditional Inference Procedures in a Permutation Test Framework
Description: Conditional inference procedures for the general independence problem including two-sample, K-sample (non-parametric ANOVA), correlation, censored, ordered and multivariate problems.

Diff between coin versions 1.0-5 dated 2009-06-04 and 1.0-6 dated 2009-09-08

 DESCRIPTION                                                                             |    8 
 NEWS                                                                                    |    7 
 R/ExactDistributions.R                                                                  |    2 
 inst/doc/LegoCondInf.pdf                                                                |binary
 inst/doc/MAXtest.pdf                                                                    |binary
 inst/doc/coin.pdf                                                                       |binary
 inst/doc/coin_implementation.pdf                                                        |binary
 inst/documentation/html/Classes_8c-source.html                                          |   16 
 inst/documentation/html/Classes_8c.html                                                 |   18 
 inst/documentation/html/Classes_8c__incl.map                                            |    8 
 inst/documentation/html/Classes_8c__incl.md5                                            |    2 
 inst/documentation/html/Classes_8c__incl.png                                            |binary
 inst/documentation/html/Classes_8h-source.html                                          |   16 
 inst/documentation/html/Classes_8h.html                                                 |   18 
 inst/documentation/html/Classes_8h__dep__incl.map                                       |    8 
 inst/documentation/html/Classes_8h__dep__incl.md5                                       |    2 
 inst/documentation/html/Classes_8h__dep__incl.png                                       |binary
 inst/documentation/html/Helpers_8c-source.html                                          |   16 
 inst/documentation/html/Helpers_8c.html                                                 |   24 
 inst/documentation/html/Helpers_8c_140f9859faf864060c8a8ae129bc0190_cgraph.map          |   12 
 inst/documentation/html/Helpers_8c_140f9859faf864060c8a8ae129bc0190_cgraph.md5          |    2 
 inst/documentation/html/Helpers_8c_140f9859faf864060c8a8ae129bc0190_cgraph.png          |binary
 inst/documentation/html/Helpers_8c_7c6b9e02fb5bcf919c7823d497cab062_cgraph.map          |    2 
 inst/documentation/html/Helpers_8c_7c6b9e02fb5bcf919c7823d497cab062_cgraph.md5          |    2 
 inst/documentation/html/Helpers_8c_7c6b9e02fb5bcf919c7823d497cab062_cgraph.png          |binary
 inst/documentation/html/Helpers_8c__incl.map                                            |    8 
 inst/documentation/html/Helpers_8c__incl.md5                                            |    2 
 inst/documentation/html/Helpers_8c__incl.png                                            |binary
 inst/documentation/html/Helpers_8c_c97588ec77f215433b2933e5632f810d_cgraph.map          |    6 
 inst/documentation/html/Helpers_8c_c97588ec77f215433b2933e5632f810d_cgraph.md5          |    2 
 inst/documentation/html/Helpers_8c_c97588ec77f215433b2933e5632f810d_cgraph.png          |binary
 inst/documentation/html/Helpers_8h-source.html                                          |   16 
 inst/documentation/html/Helpers_8h.html                                                 |   18 
 inst/documentation/html/Helpers_8h__dep__incl.map                                       |    8 
 inst/documentation/html/Helpers_8h__dep__incl.md5                                       |    2 
 inst/documentation/html/Helpers_8h__dep__incl.png                                       |binary
 inst/documentation/html/LinearStatistic_8c-source.html                                  |   16 
 inst/documentation/html/LinearStatistic_8c.html                                         |   30 
 inst/documentation/html/LinearStatistic_8c_58fff8082d3ab197994a21a10c422353_cgraph.map  |    8 
 inst/documentation/html/LinearStatistic_8c_58fff8082d3ab197994a21a10c422353_cgraph.md5  |    2 
 inst/documentation/html/LinearStatistic_8c_58fff8082d3ab197994a21a10c422353_cgraph.png  |binary
 inst/documentation/html/LinearStatistic_8c_6216ea560644c08002fb32756ae67dcc_cgraph.map  |    6 
 inst/documentation/html/LinearStatistic_8c_6216ea560644c08002fb32756ae67dcc_cgraph.md5  |    2 
 inst/documentation/html/LinearStatistic_8c_6216ea560644c08002fb32756ae67dcc_cgraph.png  |binary
 inst/documentation/html/LinearStatistic_8c_732bfc8e1797d8953482aa31f9b43e5f_cgraph.map  |    6 
 inst/documentation/html/LinearStatistic_8c_732bfc8e1797d8953482aa31f9b43e5f_cgraph.md5  |    2 
 inst/documentation/html/LinearStatistic_8c_732bfc8e1797d8953482aa31f9b43e5f_cgraph.png  |binary
 inst/documentation/html/LinearStatistic_8c_94a0805ea258af79d426c095feee399a_cgraph.map  |    2 
 inst/documentation/html/LinearStatistic_8c_94a0805ea258af79d426c095feee399a_cgraph.md5  |    2 
 inst/documentation/html/LinearStatistic_8c_94a0805ea258af79d426c095feee399a_cgraph.png  |binary
 inst/documentation/html/LinearStatistic_8c_95f5ed4c75d42e2e98ed09c9c9d48ff5_cgraph.map  |    6 
 inst/documentation/html/LinearStatistic_8c_95f5ed4c75d42e2e98ed09c9c9d48ff5_cgraph.md5  |    2 
 inst/documentation/html/LinearStatistic_8c_95f5ed4c75d42e2e98ed09c9c9d48ff5_cgraph.png  |binary
 inst/documentation/html/LinearStatistic_8c__incl.map                                    |    8 
 inst/documentation/html/LinearStatistic_8c__incl.md5                                    |    2 
 inst/documentation/html/LinearStatistic_8c__incl.png                                    |binary
 inst/documentation/html/LinearStatistic_8c_be383bcae17e8b3a1d5740ec16a9817a_cgraph.map  |    6 
 inst/documentation/html/LinearStatistic_8c_be383bcae17e8b3a1d5740ec16a9817a_cgraph.md5  |    2 
 inst/documentation/html/LinearStatistic_8c_be383bcae17e8b3a1d5740ec16a9817a_cgraph.png  |binary
 inst/documentation/html/LinearStatistic_8h-source.html                                  |   16 
 inst/documentation/html/LinearStatistic_8h.html                                         |   18 
 inst/documentation/html/LinearStatistic_8h__dep__incl.map                               |    8 
 inst/documentation/html/LinearStatistic_8h__dep__incl.md5                               |    2 
 inst/documentation/html/LinearStatistic_8h__dep__incl.png                               |binary
 inst/documentation/html/StreitbergRoehmel_8c-source.html                                |   16 
 inst/documentation/html/StreitbergRoehmel_8c.html                                       |   16 
 inst/documentation/html/StreitbergRoehmel_8c__incl.md5                                  |    2 
 inst/documentation/html/StreitbergRoehmel_8c__incl.png                                  |binary
 inst/documentation/html/annotated.html                                                  |   12 
 inst/documentation/html/classes.html                                                    |   12 
 inst/documentation/html/coin__common_8h-source.html                                     |   16 
 inst/documentation/html/coin__common_8h.html                                            |   20 
 inst/documentation/html/coin__common_8h__dep__incl.map                                  |    6 
 inst/documentation/html/coin__common_8h__dep__incl.md5                                  |    2 
 inst/documentation/html/coin__common_8h__dep__incl.png                                  |binary
 inst/documentation/html/coin__common_8h__incl.map                                       |    6 
 inst/documentation/html/coin__common_8h__incl.md5                                       |    2 
 inst/documentation/html/coin__common_8h__incl.png                                       |binary
 inst/documentation/html/dir_551893842a8579748e8cac726fc2aaac.html                       |   12 
 inst/documentation/html/dir_551893842a8579748e8cac726fc2aaac_dep.map                    |    2 
 inst/documentation/html/dir_551893842a8579748e8cac726fc2aaac_dep.png                    |binary
 inst/documentation/html/dirs.html                                                       |   10 
 inst/documentation/html/doxygen.css                                                     |  666 ++++------
 inst/documentation/html/files.html                                                      |   10 
 inst/documentation/html/functions.html                                                  |   12 
 inst/documentation/html/functions_vars.html                                             |   12 
 inst/documentation/html/globals.html                                                    |   10 
 inst/documentation/html/globals_func.html                                               |   10 
 inst/documentation/html/globals_vars.html                                               |   10 
 inst/documentation/html/graph_legend.dot                                                |   38 
 inst/documentation/html/graph_legend.html                                               |   12 
 inst/documentation/html/graph_legend.png                                                |binary
 inst/documentation/html/main.html                                                       |   10 
 inst/documentation/html/structcelW-members.html                                         |   12 
 inst/documentation/html/structcelW.html                                                 |   28 
 inst/documentation/html/tabs.css                                                        |    7 
 inst/documentation/html/vandeWiel_8c-source.html                                        |   16 
 inst/documentation/html/vandeWiel_8c.html                                               |   24 
 inst/documentation/html/vandeWiel_8c_03d7f636d17008a6fbe230458a92ddba_cgraph.map        |    2 
 inst/documentation/html/vandeWiel_8c_03d7f636d17008a6fbe230458a92ddba_cgraph.md5        |    2 
 inst/documentation/html/vandeWiel_8c_03d7f636d17008a6fbe230458a92ddba_cgraph.png        |binary
 inst/documentation/html/vandeWiel_8c_59f513c0ee260be89ad37daacf49e7e8_cgraph.map        |    6 
 inst/documentation/html/vandeWiel_8c_59f513c0ee260be89ad37daacf49e7e8_cgraph.md5        |    2 
 inst/documentation/html/vandeWiel_8c_59f513c0ee260be89ad37daacf49e7e8_cgraph.png        |binary
 inst/documentation/html/vandeWiel_8c__incl.md5                                          |    2 
 inst/documentation/html/vandeWiel_8c__incl.png                                          |binary
 inst/documentation/html/vandeWiel_8c_a50657b564a35ab41b3e3e50e62c51b1_cgraph.map        |   24 
 inst/documentation/html/vandeWiel_8c_a50657b564a35ab41b3e3e50e62c51b1_cgraph.md5        |    2 
 inst/documentation/html/vandeWiel_8c_a50657b564a35ab41b3e3e50e62c51b1_cgraph.png        |binary
 inst/documentation/html/vandeWiel_8c_fb521caca26031c6fa9e92450685f5d1_cgraph.map        |   10 
 inst/documentation/html/vandeWiel_8c_fb521caca26031c6fa9e92450685f5d1_cgraph.md5        |    2 
 inst/documentation/html/vandeWiel_8c_fb521caca26031c6fa9e92450685f5d1_cgraph.png        |binary
 inst/documentation/latex/Classes_8c.tex                                                 |    8 
 inst/documentation/latex/Classes_8c__incl.eps                                           |  240 +--
 inst/documentation/latex/Classes_8c__incl.md5                                           |    2 
 inst/documentation/latex/Classes_8c__incl.pdf                                           |binary
 inst/documentation/latex/Classes_8h.tex                                                 |    6 
 inst/documentation/latex/Classes_8h__dep__incl.eps                                      |   88 -
 inst/documentation/latex/Classes_8h__dep__incl.md5                                      |    2 
 inst/documentation/latex/Classes_8h__dep__incl.pdf                                      |binary
 inst/documentation/latex/Helpers_8c.tex                                                 |   16 
 inst/documentation/latex/Helpers_8c_140f9859faf864060c8a8ae129bc0190_cgraph.eps         |  262 +--
 inst/documentation/latex/Helpers_8c_140f9859faf864060c8a8ae129bc0190_cgraph.md5         |    2 
 inst/documentation/latex/Helpers_8c_140f9859faf864060c8a8ae129bc0190_cgraph.pdf         |  282 ++--
 inst/documentation/latex/Helpers_8c_7c6b9e02fb5bcf919c7823d497cab062_cgraph.eps         |   68 -
 inst/documentation/latex/Helpers_8c_7c6b9e02fb5bcf919c7823d497cab062_cgraph.md5         |    2 
 inst/documentation/latex/Helpers_8c_7c6b9e02fb5bcf919c7823d497cab062_cgraph.pdf         |  219 ++-
 inst/documentation/latex/Helpers_8c__incl.eps                                           |  240 +--
 inst/documentation/latex/Helpers_8c__incl.md5                                           |    2 
 inst/documentation/latex/Helpers_8c__incl.pdf                                           |binary
 inst/documentation/latex/Helpers_8c_c97588ec77f215433b2933e5632f810d_cgraph.eps         |  144 +-
 inst/documentation/latex/Helpers_8c_c97588ec77f215433b2933e5632f810d_cgraph.md5         |    2 
 inst/documentation/latex/Helpers_8c_c97588ec77f215433b2933e5632f810d_cgraph.pdf         |binary
 inst/documentation/latex/Helpers_8h.tex                                                 |    4 
 inst/documentation/latex/Helpers_8h__dep__incl.eps                                      |   88 -
 inst/documentation/latex/Helpers_8h__dep__incl.md5                                      |    2 
 inst/documentation/latex/Helpers_8h__dep__incl.pdf                                      |binary
 inst/documentation/latex/LinearStatistic_8c.tex                                         |   20 
 inst/documentation/latex/LinearStatistic_8c_58fff8082d3ab197994a21a10c422353_cgraph.eps |  182 +-
 inst/documentation/latex/LinearStatistic_8c_58fff8082d3ab197994a21a10c422353_cgraph.md5 |    2 
 inst/documentation/latex/LinearStatistic_8c_58fff8082d3ab197994a21a10c422353_cgraph.pdf |binary
 inst/documentation/latex/LinearStatistic_8c_6216ea560644c08002fb32756ae67dcc_cgraph.eps |  144 +-
 inst/documentation/latex/LinearStatistic_8c_6216ea560644c08002fb32756ae67dcc_cgraph.md5 |    2 
 inst/documentation/latex/LinearStatistic_8c_6216ea560644c08002fb32756ae67dcc_cgraph.pdf |binary
 inst/documentation/latex/LinearStatistic_8c_732bfc8e1797d8953482aa31f9b43e5f_cgraph.eps |  144 +-
 inst/documentation/latex/LinearStatistic_8c_732bfc8e1797d8953482aa31f9b43e5f_cgraph.md5 |    2 
 inst/documentation/latex/LinearStatistic_8c_732bfc8e1797d8953482aa31f9b43e5f_cgraph.pdf |  232 ++-
 inst/documentation/latex/LinearStatistic_8c_94a0805ea258af79d426c095feee399a_cgraph.eps |   68 -
 inst/documentation/latex/LinearStatistic_8c_94a0805ea258af79d426c095feee399a_cgraph.md5 |    2 
 inst/documentation/latex/LinearStatistic_8c_94a0805ea258af79d426c095feee399a_cgraph.pdf |binary
 inst/documentation/latex/LinearStatistic_8c_95f5ed4c75d42e2e98ed09c9c9d48ff5_cgraph.eps |  144 +-
 inst/documentation/latex/LinearStatistic_8c_95f5ed4c75d42e2e98ed09c9c9d48ff5_cgraph.md5 |    2 
 inst/documentation/latex/LinearStatistic_8c_95f5ed4c75d42e2e98ed09c9c9d48ff5_cgraph.pdf |binary
 inst/documentation/latex/LinearStatistic_8c__incl.eps                                   |  240 +--
 inst/documentation/latex/LinearStatistic_8c__incl.md5                                   |    2 
 inst/documentation/latex/LinearStatistic_8c__incl.pdf                                   |binary
 inst/documentation/latex/LinearStatistic_8c_be383bcae17e8b3a1d5740ec16a9817a_cgraph.eps |  144 +-
 inst/documentation/latex/LinearStatistic_8c_be383bcae17e8b3a1d5740ec16a9817a_cgraph.md5 |    2 
 inst/documentation/latex/LinearStatistic_8c_be383bcae17e8b3a1d5740ec16a9817a_cgraph.pdf |binary
 inst/documentation/latex/LinearStatistic_8h.tex                                         |    2 
 inst/documentation/latex/LinearStatistic_8h__dep__incl.eps                              |   88 -
 inst/documentation/latex/LinearStatistic_8h__dep__incl.md5                              |    2 
 inst/documentation/latex/LinearStatistic_8h__dep__incl.pdf                              |binary
 inst/documentation/latex/StreitbergRoehmel_8c.tex                                       |    4 
 inst/documentation/latex/StreitbergRoehmel_8c__incl.eps                                 |   94 -
 inst/documentation/latex/StreitbergRoehmel_8c__incl.md5                                 |    2 
 inst/documentation/latex/StreitbergRoehmel_8c__incl.pdf                                 |binary
 inst/documentation/latex/coin__common_8h__dep__incl.eps                                 |   72 -
 inst/documentation/latex/coin__common_8h__dep__incl.md5                                 |    2 
 inst/documentation/latex/coin__common_8h__dep__incl.pdf                                 |binary
 inst/documentation/latex/coin__common_8h__incl.eps                                      |  212 +--
 inst/documentation/latex/coin__common_8h__incl.md5                                      |    2 
 inst/documentation/latex/coin__common_8h__incl.pdf                                      |binary
 inst/documentation/latex/dir_551893842a8579748e8cac726fc2aaac_dep.eps                   |    4 
 inst/documentation/latex/dir_551893842a8579748e8cac726fc2aaac_dep.pdf                   |  182 +-
 inst/documentation/latex/doxygen.sty                                                    |   12 
 inst/documentation/latex/refman.tex                                                     |    4 
 inst/documentation/latex/structcelW.tex                                                 |   28 
 inst/documentation/latex/vandeWiel_8c.tex                                               |   26 
 inst/documentation/latex/vandeWiel_8c_03d7f636d17008a6fbe230458a92ddba_cgraph.eps       |   68 -
 inst/documentation/latex/vandeWiel_8c_03d7f636d17008a6fbe230458a92ddba_cgraph.md5       |    2 
 inst/documentation/latex/vandeWiel_8c_03d7f636d17008a6fbe230458a92ddba_cgraph.pdf       |binary
 inst/documentation/latex/vandeWiel_8c_59f513c0ee260be89ad37daacf49e7e8_cgraph.eps       |  144 +-
 inst/documentation/latex/vandeWiel_8c_59f513c0ee260be89ad37daacf49e7e8_cgraph.md5       |    2 
 inst/documentation/latex/vandeWiel_8c_59f513c0ee260be89ad37daacf49e7e8_cgraph.pdf       |binary
 inst/documentation/latex/vandeWiel_8c__incl.eps                                         |   94 -
 inst/documentation/latex/vandeWiel_8c__incl.md5                                         |    2 
 inst/documentation/latex/vandeWiel_8c__incl.pdf                                         |binary
 inst/documentation/latex/vandeWiel_8c_a50657b564a35ab41b3e3e50e62c51b1_cgraph.eps       |  512 +++----
 inst/documentation/latex/vandeWiel_8c_a50657b564a35ab41b3e3e50e62c51b1_cgraph.md5       |    2 
 inst/documentation/latex/vandeWiel_8c_a50657b564a35ab41b3e3e50e62c51b1_cgraph.pdf       |binary
 inst/documentation/latex/vandeWiel_8c_fb521caca26031c6fa9e92450685f5d1_cgraph.eps       |  220 +--
 inst/documentation/latex/vandeWiel_8c_fb521caca26031c6fa9e92450685f5d1_cgraph.md5       |    2 
 inst/documentation/latex/vandeWiel_8c_fb521caca26031c6fa9e92450685f5d1_cgraph.pdf       |binary
 inst/documentation/man/man3/Classes.c.3                                                 |    2 
 inst/documentation/man/man3/Classes.h.3                                                 |    2 
 inst/documentation/man/man3/Helpers.c.3                                                 |    2 
 inst/documentation/man/man3/Helpers.h.3                                                 |    2 
 inst/documentation/man/man3/LinearStatistic.c.3                                         |    2 
 inst/documentation/man/man3/LinearStatistic.h.3                                         |    2 
 inst/documentation/man/man3/StreitbergRoehmel.c.3                                       |    2 
 inst/documentation/man/man3/_home_hothorn_projects_svn_Rpkgs_trunk_coin_src_.3          |    5 
 inst/documentation/man/man3/celW.3                                                      |   12 
 inst/documentation/man/man3/coin_common.h.3                                             |    2 
 inst/documentation/man/man3/vandeWiel.c.3                                               |    2 
 tests/Examples/coin-Ex.Rout.save                                                        |   65 
 tests/bugfixes.R                                                                        |    9 
 tests/bugfixes.Rout.save                                                                |    9 
 208 files changed, 3360 insertions(+), 2987 deletions(-)

More information about coin at CRAN
Permanent link

Package alr3 updated to version 1.1.11 with previous version 1.1.10 dated 2009-08-20

Author: Sanford Weisberg
Title: Methods and data to accompany Applied Linear Regression 3rd edition
Description: This library is a companion to the textbook S. Weisberg (2005), "Applied Linear Regression," 3rd edition, Wiley. It includes all the data sets discussed in the book (except one), and several few functions that are tailored to the methods discussed in the book. Ver. 1.0.3 corrects bugs in (1) weights for POD models; (2) use of 'subset' arguments with boot.case. Ver. 1.0.4 corrects a few bugs with overparameterized models. Ver. 1.0.5 changes one default argument. Ver 1.0.6 replaces the pure.error.anova function so it prints nicer and works with interactions. Ver 1.0.7 fixes a bug in residual.plots and adds an additional argument and adds a new function alrweb to access the website for the book in a browser. Ver 1.0.8 fixed a bug in delta.method for generalized linear models. Ver 1.0.9 fixes a bug with Yeo Johnson transformations. Ver 1.1.0 drops the conf.intervals function in favor of the confint function in stat, includes several minor bug fixes, and makes the package fully compatible with version 2.6.0 of R. 1.1.2 corrects a bug introduced in boot.case. Version 1.1.7 adds a namespace. Ver 1.1.8 fixes more bugs. Ver. 1.1.9 updated the delta.method to work with a user-supplied estimate of the variance matrix. 1.1.10 removed a conflict with another package.

Diff between alr3 versions 1.1.10 dated 2009-08-20 and 1.1.11 dated 2009-09-08

 DESCRIPTION            |   10 ++++++----
 NAMESPACE              |    1 +
 R/alr3.R               |    3 +++
 man/mmps.Rd            |    4 ++--
 man/random.lin.comb.Rd |    4 ++--
 5 files changed, 14 insertions(+), 8 deletions(-)

More information about alr3 at CRAN
Permanent link

Package R.cache updated to version 0.1.8 with previous version 0.1.7 dated 2008-03-07

Author: Henrik Bengtsson
Title: Fast and light-weight caching of objects
Description: Methods for memoization, that is, caching arbitrary R objects in persistent memory. Objects can be loaded and saved stratified on a set of hashing objects.

Diff between R.cache versions 0.1.7 dated 2008-03-07 and 0.1.8 dated 2009-09-08

 R.cache-0.1.7/R.cache/inst/HISTORY           |only
 R.cache-0.1.8/R.cache/DESCRIPTION            |   32 ++++++++++++++++-----------
 R.cache-0.1.8/R.cache/R/generateCache.R      |    3 --
 R.cache-0.1.8/R.cache/R/getCachePath.R       |    3 --
 R.cache-0.1.8/R.cache/R/readCacheHeader.R    |   22 ++++++++++++++----
 R.cache-0.1.8/R.cache/R/setCachePath.R       |    3 --
 R.cache-0.1.8/R.cache/inst/NEWS              |only
 R.cache-0.1.8/R.cache/man/R.cache-package.Rd |    2 -
 R.cache-0.1.8/R.cache/man/generateCache.Rd   |    3 --
 R.cache-0.1.8/R.cache/man/getCachePath.Rd    |    3 --
 R.cache-0.1.8/R.cache/man/setCachePath.Rd    |    3 --
 11 files changed, 37 insertions(+), 37 deletions(-)

More information about R.cache at CRAN
Permanent link

Package Brobdingnag updated to version 1.1-7 with previous version 1.1-6 dated 2009-02-25

Author: Robin K. S. Hankin
Title: Very large numbers in R
Description: Handles very large numbers in R. Real numbers are held using their natural logarithms, plus a logical flag indicating sign. The package includes a vignette that gives a step-by-step introduction to using S4 methods.

Diff between Brobdingnag versions 1.1-6 dated 2009-02-25 and 1.1-7 dated 2009-09-08

 Brobdingnag-1.1-6/Brobdingnag/inst/doc/jss.bst       |only
 Brobdingnag-1.1-6/Brobdingnag/inst/doc/jss.cls       |only
 Brobdingnag-1.1-7/Brobdingnag/DESCRIPTION            |   14 
 Brobdingnag-1.1-7/Brobdingnag/inst/doc/brob.pdf      |  560 +++++++++----------
 Brobdingnag-1.1-7/Brobdingnag/inst/doc/brobpaper.pdf |    8 
 Brobdingnag-1.1-7/Brobdingnag/man/as.numeric.Rd      |    7 
 6 files changed, 294 insertions(+), 295 deletions(-)

More information about Brobdingnag at CRAN
Permanent link

Package dynlm updated to version 0.2-3 with previous version 0.2-2 dated 2009-02-05

Author: Achim Zeileis
Title: Dynamic Linear Regression
Description: Dynamic linear models and time series regression.

Diff between dynlm versions 0.2-2 dated 2009-02-05 and 0.2-3 dated 2009-09-08

 COPYRIGHTS  |    2 +-
 DESCRIPTION |    8 +++++---
 NEWS        |    6 ++++++
 R/dynlm.R   |    6 +++---
 4 files changed, 15 insertions(+), 7 deletions(-)

More information about dynlm at CRAN
Permanent link

Package ant updated to version 0.0-6 with previous version 0.0-5 dated 2009-09-07

Author: Romain Francois
Title: Version of ant specific to R
Description: Version of the ant apache build tool, with a few R specific tasks to ease use of ant within an R package

Diff between ant versions 0.0-5 dated 2009-09-07 and 0.0-6 dated 2009-09-08

 DESCRIPTION        |    8 ++++----
 exec/ant.R         |   10 ++++++++++
 man/ant-package.Rd |    4 ++--
 3 files changed, 16 insertions(+), 6 deletions(-)

More information about ant at CRAN
Permanent link

Package GeneReg updated to version 1.1.0 with previous version 1.0 dated 2009-06-07

Author: Tao Huang
Title: Construct time delay gene regulatory network
Description: pkg{GeneReg} is an R package for inferring time delay gene regulatory network using time course gene expression profiles. The main idea of time delay linear model is to fit a linear regression model using a set of putative regulators to estimate the transcription pattern of a specific target gene.

Diff between GeneReg versions 1.0 dated 2009-06-07 and 1.1.0 dated 2009-09-08

 GeneReg-1.0/GeneReg/data/expr.rda                    |only
 GeneReg-1.0/GeneReg/data/yeastract.rda               |only
 GeneReg-1.0/GeneReg/man/expr.Rd                      |only
 GeneReg-1.0/GeneReg/man/yeastract.Rd                 |only
 GeneReg-1.1.0/GeneReg/DESCRIPTION                    |   12 +
 GeneReg-1.1.0/GeneReg/R/plot.GeneReg.R               |    2 
 GeneReg-1.1.0/GeneReg/R/timedelay.lm.R               |  124 +++++++++----------
 GeneReg-1.1.0/GeneReg/R/timedelay.lm.batch.R         |   14 +-
 GeneReg-1.1.0/GeneReg/R/timedelay.univariate.lm.R    |   64 +++------
 GeneReg-1.1.0/GeneReg/R/ts.bspline.R                 |    3 
 GeneReg-1.1.0/GeneReg/data/mut.expr.data.rda         |only
 GeneReg-1.1.0/GeneReg/data/tf.list.rda               |only
 GeneReg-1.1.0/GeneReg/data/wt.expr.data.rda          |only
 GeneReg-1.1.0/GeneReg/man/GeneReg-package.Rd         |   76 +++++------
 GeneReg-1.1.0/GeneReg/man/mut.expr.data.Rd           |only
 GeneReg-1.1.0/GeneReg/man/plot.GeneReg.Rd            |    4 
 GeneReg-1.1.0/GeneReg/man/plot.Rd                    |    4 
 GeneReg-1.1.0/GeneReg/man/tf.list.Rd                 |only
 GeneReg-1.1.0/GeneReg/man/timedelay.lm.Rd            |   18 +-
 GeneReg-1.1.0/GeneReg/man/timedelay.lm.batch.Rd      |    8 -
 GeneReg-1.1.0/GeneReg/man/timedelay.univariate.lm.Rd |   11 -
 GeneReg-1.1.0/GeneReg/man/ts.bspline.Rd              |    4 
 GeneReg-1.1.0/GeneReg/man/wt.expr.data.Rd            |only
 23 files changed, 161 insertions(+), 183 deletions(-)

More information about GeneReg at CRAN
Permanent link

New package fds with initial version 1.0
Package: fds
Type: Package
Title: Functional data sets
Version: 1.0
Date: 2009-09-08
Depends: R (>= 2.6.0), rainbow
LazyLoad: yes
LazyData: yes
Author: Han Lin Shang and Rob J Hyndman
Maintainer: Han Lin Shang
Description: Functional data sets
License: GPL (>= 2)
URL: http://monashforecasting.com/index.php?title=R_packages
Packaged: 2009-09-08 04:12:31 UTC; Han
Repository: CRAN
Date/Publication: 2009-09-08 05:05:11

More information about fds at CRAN
Permanent link

Package MCMCpack updated to version 1.0-4 with previous version 1.0-3 dated 2009-07-30

Author: Andrew D. Martin , Kevin M. Quinn , Jong Hee Park
Title: Markov chain Monte Carlo (MCMC) Package
Description: This package contains functions to perform Bayesian inference using posterior simulation for a number of statistical models. Most simulation is done in compiled C++ written in the Scythe Statistical Library Version 1.0.2. All models return coda mcmc objects that can then be summarized using the coda package. MCMCpack also contains some useful utility functions, including some additional density functions and pseudo-random number generators for statistical distributions, a general purpose Metropolis sampling algorithm, and tools for visualization.

Diff between MCMCpack versions 1.0-3 dated 2009-07-30 and 1.0-4 dated 2009-09-08

 DESCRIPTION            |    8 ++++----
 HISTORY                |    5 ++++-
 R/MCMCquantreg.R       |   12 ++++++------
 man/MCMCfactanal.Rd    |    2 +-
 man/MCMClogit.Rd       |    3 +--
 man/MCMCmixfactanal.Rd |    2 +-
 man/MCMCordfactanal.Rd |    2 +-
 man/MCMCpoisson.Rd     |    2 +-
 man/MCMCprobit.Rd      |    2 +-
 man/MCMCquantreg.Rd    |   26 +++++++++++++-------------
 src/MCMCfcds.h         |   21 ++++++++-------------
 src/MCMCquantreg.cc    |   10 +++++-----
 12 files changed, 46 insertions(+), 49 deletions(-)

More information about MCMCpack at CRAN
Permanent link

Mon, 07 Sep 2009

New package rms with initial version 2.0-2
Package: rms
Version: 2.0-2
Date: 2009-09-07
Title: rms Package
Author: Frank E Harrell Jr
Maintainer: Frank E Harrell Jr
Depends: Hmisc (>= 3.7), survival
Imports: survival
Suggests: lattice, quantreg, nlme, rpart
Description: Regression modeling, testing, estimation, validation, graphics, prediction, and typesetting by storing enhanced model design attributes in the fit. rms is a collection of about 180 functions that assist and streamline modeling, especially for biostatistical and epidemiologic applications. It also contains new 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.
License: GPL (>= 2)
URL: http://biostat.mc.vanderbilt.edu/rms
LazyLoad: yes
Packaged: 2009-09-07 19:44:13 UTC; harrelfe
Repository: CRAN
Date/Publication: 2009-09-07 22:27:34

More information about rms at CRAN
Permanent link

Package introgress updated to version 1.2 with previous version 1.1 dated 2009-03-08

Author: Zachariah Gompert, C. Alex Buerkle
Title: methods for analyzing introgression between divergent lineages
Description: introgress provides functions for analyzing introgression of genotypes between divergent, hybridizing lineages, including estimating genomic clines from multi-locus genotype data and testing for deviations from neutral expectations. Functions are also provided for maximum likelihood estimation of molecular hybrid index and graphical analysis.

Diff between introgress versions 1.1 dated 2009-03-08 and 1.2 dated 2009-09-07

 DESCRIPTION              |   21 +
 R/calc.intersp.het.R     |    2 
 R/clines.plot.R          |   39 ++
 R/compare.clines.R       |  629 +++++++++++++++++++++++++++++++++++++----------
 R/delta.R                |    2 
 R/est.h.R                |    2 
 R/fit.c.clines.R         |    2 
 R/fit.invariant.clines.R |    2 
 R/fixup.combos.touse.R   |    2 
 R/genomic.clines.R       |  128 +++++++--
 R/h.func.R               |    2 
 R/like.h.R               |    2 
 R/mk.image.R             |    2 
 R/per.locus.like.R       |    2 
 R/prepare.data.R         |    2 
 R/s.wrapper.R            |    2 
 R/support.limit.R        |    2 
 R/test.combinations.R    |    2 
 R/test.data.objects.R    |    4 
 R/test.genotypes.R       |    2 
 R/triangle.plot.R        |    4 
 data/AdmixDataSim1.rda   |binary
 data/AdmixDataSim2.rda   |binary
 data/AdmixDom.rda        |binary
 data/LociD.rda           |binary
 data/LociDataSim1.rda    |binary
 data/LociDataSim2.rda    |binary
 data/p1D.rda             |binary
 data/p1DataSim2.rda      |binary
 data/p2D.rda             |binary
 data/p2DataSim2.rda      |binary
 man/clines.plot.Rd       |   42 ++-
 man/compare.clines.Rd    |   26 +
 man/genomic.clines.Rd    |   19 +
 man/prepare.data.Rd      |    9 
 35 files changed, 745 insertions(+), 206 deletions(-)

More information about introgress at CRAN
Permanent link

New package gamm4 with initial version 0.0-1
Package: gamm4
Version: 0.0-1
Author: Simon Wood
Maintainer: Simon Wood
Title: Generalized additive mixed models using mgcv and lme4
Description: Fit generalized additive mixed models via a version of mgcv's gamm function, using lme4 for estimation via Fabian Scheipl's trick.
Depends: R (>= 2.9.0), methods, Matrix, lme4 (>= 0.999375-31), mgcv (>= 1.5-5)
License: GPL (>= 2)
Packaged: 2009-09-07 19:42:19 UTC; simon
Repository: CRAN
Date/Publication: 2009-09-07 22:27:25

More information about gamm4 at CRAN
Permanent link

Package eiPack updated to version 0.1-5 with previous version 0.1-2 dated 2007-02-15

Author: Olivia Lau , Ryan T. Moore , Michael Kellermann
Title: eiPack: Ecological Inference and Higher-Dimension Data Management
Description: Provides methods for analyzing RxC ecological contingency tables using the extreme case analysis, ecological regression, and Multinomial-Dirichlet ecological inference models. Also provides tools for manipulating higher-dimension data objects.

Diff between eiPack versions 0.1-2 dated 2007-02-15 and 0.1-5 dated 2009-09-07

 eiPack-0.1-2/eiPack/R/plotMD.R              |only
 eiPack-0.1-5/eiPack/DESCRIPTION             |   26 +++++++++++++++++---------
 eiPack-0.1-5/eiPack/R/bounds.R              |    7 ++++---
 eiPack-0.1-5/eiPack/R/delta.R               |    2 +-
 eiPack-0.1-5/eiPack/R/ei.MD.bayes.R         |   12 ++++++------
 eiPack-0.1-5/eiPack/R/lambda.MD.R           |    2 +-
 eiPack-0.1-5/eiPack/R/read.betas.R          |    2 ++
 eiPack-0.1-5/eiPack/inst                    |only
 eiPack-0.1-5/eiPack/man/bounds.Rd           |    5 ++---
 eiPack-0.1-5/eiPack/man/cover.plot.Rd       |    2 +-
 eiPack-0.1-5/eiPack/man/density.plot.Rd     |    2 +-
 eiPack-0.1-5/eiPack/man/ei.MD.bayes.Rd      |   16 ++++++----------
 eiPack-0.1-5/eiPack/man/ei.reg.Rd           |    7 +++----
 eiPack-0.1-5/eiPack/man/ei.reg.bayes.Rd     |    6 +++---
 eiPack-0.1-5/eiPack/man/lambda.MD.Rd        |    3 ++-
 eiPack-0.1-5/eiPack/man/lambda.reg.Rd       |    6 +++---
 eiPack-0.1-5/eiPack/man/lambda.reg.bayes.Rd |    2 +-
 eiPack-0.1-5/eiPack/man/mergeMD.Rd          |    2 +-
 eiPack-0.1-5/eiPack/man/plot.bounds.Rd      |    2 +-
 eiPack-0.1-5/eiPack/man/read.betas.Rd       |    2 +-
 eiPack-0.1-5/eiPack/man/tuneMD.Rd           |    2 +-
 21 files changed, 57 insertions(+), 51 deletions(-)

More information about eiPack at CRAN
Permanent link

Package Rmpfr updated to version 0.1-7 with previous version 0.1-6 dated 2009-09-04

Author: Martin Maechler
Title: R MPFR - Multiple Precision Floating-Point Reliable
Description: The package aims at providing S4 classes and methods for arithmetic including transcendental ("special") functions for arbitrary precision floating point numbers. To this end, it interfaces to the LGPL'ed MPFR (Multiple Precision Floating-Point Reliable) Library which itself is based on the GMP (GNU Multiple Precision) Library.

Diff between Rmpfr versions 0.1-6 dated 2009-09-04 and 0.1-7 dated 2009-09-07

 ChangeLog           |   15 ++++++++++++++-
 DESCRIPTION         |    8 ++++----
 R/mpfr.R            |    4 ++++
 TODO                |    8 +++++---
 man/special-math.Rd |    3 +++
 man/utils.Rd        |   10 ++++++++++
 src/Ops.c           |    6 +++++-
 src/Rmpfr_utils.h   |    1 +
 src/init.c          |    2 ++
 src/utils.c         |    4 ++++
 10 files changed, 52 insertions(+), 9 deletions(-)

More information about Rmpfr at CRAN
Permanent link

Package gmm updated to version 1.1-1 with previous version 1.1-0 dated 2009-08-27

Author: Pierre Chausse
Title: Generalized Method of Moments and Generalized Empirical Likelihood
Description: It is a complete suite to estimate models based on moment conditions. It includes the two step Generalized method of moments (GMM) of Hansen(1982), the iterated GMM and continuous updated estimator (CUE) of Hansen-Eaton-Yaron(1996) and several methods that belong to the Generalized Empirical Likelihood (GEL) family of estimators, as presented by Smith(1997), Kitamura(1997), Newey-Smith(2004) and Anatolyev(2005).

Diff between gmm versions 1.1-0 dated 2009-08-27 and 1.1-1 dated 2009-09-07

 DESCRIPTION             |   10 
 inst/doc/gmm_with_R.pdf | 2305 +++++++++++++++++++++++++-----------------------
 inst/doc/gmm_with_R.rnw |    1 
 3 files changed, 1220 insertions(+), 1096 deletions(-)

More information about gmm at CRAN
Permanent link

Package ensembleBMA updated to version 4.3.1 with previous version 4.3 dated 2009-06-27

Author: Chris Fraley, Adrian E. Raftery, J. McLean Sloughter, Tilmann Gneiting, University of Washington With contributions from Bobby Yuen and Michael Polokowski
Title: Probabilistic Forecasting using Ensembles and Bayesian Model Averaging
Description: Bayesian Model Averaging to create probabilistic forecasts from ensemble forecasts and weather observations.

Diff between ensembleBMA versions 4.3 dated 2009-06-27 and 4.3.1 dated 2009-09-07

 CHANGELOG        |    3 
 DESCRIPTION      |    8 
 R/fitBMAgamma0.R |  594 ++++++++++++++++++++++---------------------------------
 3 files changed, 251 insertions(+), 354 deletions(-)

More information about ensembleBMA at CRAN
Permanent link

New package ant with initial version 0.0-5
Package: ant
Type: Package
Title: Version of ant specific to R
Version: 0.0-5
Date: 2009-09-07
Author: Romain Francois
Maintainer: Romain Francois
Description: Version of the ant apache build tool, with a few R specific tasks to ease use of ant within an R package
License: Apache License (== 2.0)
LazyLoad: yes
LazyData: no
Depends: rJava (>= 0.7-0)
SystemRequirements: Java (>= 5.0)
Packaged: 2009-09-07 13:16:35 UTC; romain
Repository: CRAN
Date/Publication: 2009-09-07 18:53:25

More information about ant at CRAN
Permanent link

Package survival updated to version 2.35-6 with previous version 2.35-5 dated 2009-08-25

Author: Terry Therneau, original R port by Thomas Lumley
Title: Survival analysis, including penalised likelihood.
Description: survival analysis: descriptive statistics, two-sample tests, parametric accelerated failure models, Cox model. Delayed entry (truncation) allowed for all models; interval censoring for parametric models. Case-cohort designs.

Diff between survival versions 2.35-5 dated 2009-08-25 and 2.35-6 dated 2009-09-07

 Changelog                    |    7 +++++++
 DESCRIPTION                  |   10 ++++++----
 NAMESPACE                    |    2 ++
 R/model.frame.survreg.S      |only
 R/model.matrix.coxph.R       |only
 data/survexp.mn.R            |    2 +-
 data/survexp.us.R            |    6 ++++--
 man/frailty.Rd               |    7 +++++--
 man/model.frame.coxph.Rd     |only
 man/model.matrix.coxph.Rd    |only
 src/agmart.c                 |    4 ++--
 src/agmart2.c                |    4 ++--
 src/chinv2.c                 |    4 ++--
 src/cholesky2.c              |    4 ++--
 src/coxdetail.c              |    4 ++--
 src/coxscore.c               |    4 ++--
 src/dmatrix.c                |    4 ++--
 src/doloop.c                 |    4 ++--
 src/pyears3.c                |    4 ++--
 tests/factor2.R              |only
 tests/factor2.Rout.save      |only
 tests/model.matrix.R         |only
 tests/model.matrix.Rout.save |only
 23 files changed, 43 insertions(+), 27 deletions(-)

More information about survival at CRAN
Permanent link

New package sos with initial version 1.1-3
Package: sos
Title: sos
Version: 1.1-3
Author: Spencer Graves, Sundar Dorai-Raj, and Romain Francois
Maintainer: Spencer Graves
Description: R related Search Engines
License: GPL (>= 2)
Depends: brew
Suggests: RODBC, WriteXLS
Repository: CRAN
Repository/R-Forge/Project: rsitesearch
Repository/R-Forge/Revision: 118
Date/Publication: 2009-09-07 17:57:46
Packaged: 2009-09-06 20:22:09 UTC; rforge

More information about sos at CRAN
Permanent link

Package marelac updated to version 2.0 with previous version 1.2-1 dated 2009-02-23

Author: Karline Soetaert , Thomas Petzoldt , Filip Meysman
Title: Tools for Aquatic Sciences
Description: Datasets, constants, conversion factors, utilities for MArine, Riverine, Estuarine, LAcustrine and Coastal science. The package contains among others: (1) chemical and physical constants and datasets, e.g. atomic weights, gas constants, the earths bathymetry; (2) conversion factors (e.g. gram to mol to liter, barometric units, temperature, salinity); (3) physical functions, e.g. to estimate concentrations of conservative substances, gas transfer and diffusion coefficients, the Coriolis force and gravity; (4) thermophysical properties of the seawater, as from the UNESCO polynomial or from the more recent derivation based on a Gibbs function.

Diff between marelac versions 1.2-1 dated 2009-02-23 and 2.0 dated 2009-09-07

 marelac-1.2-1/marelac/R/Conversions.r       |only
 marelac-1.2-1/marelac/R/Diffusion.r         |only
 marelac-1.2-1/marelac/R/Oceanography.r      |only
 marelac-1.2-1/marelac/data/AtomicWeight.r   |only
 marelac-1.2-1/marelac/data/Constants.r      |only
 marelac-1.2-1/marelac/data/Nemaspec.rda     |only
 marelac-1.2-1/marelac/data/SCOC.rda         |only
 marelac-1.2-1/marelac/data/Zoogrowth.rda    |only
 marelac-1.2-1/marelac/inst/doc/Answers.pdf  |only
 marelac-1.2-1/marelac/inst/doc/Answers.rnw  |only
 marelac-1.2-1/marelac/inst/doc/Rplots.pdf   |only
 marelac-1.2-1/marelac/inst/doc/UsingR.pdf   |only
 marelac-1.2-1/marelac/inst/doc/UsingR.rnw   |only
 marelac-1.2-1/marelac/inst/doc/capture.pdf  |only
 marelac-1.2-1/marelac/inst/doc/marelac.rnw  |only
 marelac-1.2-1/marelac/inst/doc/tinn1.pdf    |only
 marelac-1.2-1/marelac/inst/lecture          |only
 marelac-1.2-1/marelac/man/Nemaspec.Rd       |only
 marelac-1.2-1/marelac/man/SCOC.Rd           |only
 marelac-1.2-1/marelac/man/Zoogrowth.Rd      |only
 marelac-1.2-1/marelac/man/cp.Rd             |only
 marelac-1.2-1/marelac/man/g2mol.Rd          |only
 marelac-1.2-1/marelac/man/l2mol.Rd          |only
 marelac-1.2-1/marelac/man/mol.vol.Rd        |only
 marelac-1.2-1/marelac/man/mol.weight.Rd     |only
 marelac-1.2-1/marelac/man/mol2l.Rd          |only
 marelac-1.2-1/marelac/man/sal2cl.Rd         |only
 marelac-1.2-1/marelac/man/salconc.Rd        |only
 marelac-1.2-1/marelac/man/satconc.Rd        |only
 marelac-2.0/marelac/DESCRIPTION             |   37 
 marelac-2.0/marelac/NAMESPACE               |   25 
 marelac-2.0/marelac/R/aaa.R                 |only
 marelac-2.0/marelac/R/atmComp.R             |only
 marelac-2.0/marelac/R/convert_PStoAS.R      |only
 marelac-2.0/marelac/R/convert_RtoS.R        |only
 marelac-2.0/marelac/R/convert_StoCl.R       |only
 marelac-2.0/marelac/R/convert_StoR.R        |only
 marelac-2.0/marelac/R/convert_T.R           |only
 marelac-2.0/marelac/R/convert_p.R           |only
 marelac-2.0/marelac/R/coriolis.R            |only
 marelac-2.0/marelac/R/diffcoeff.R           |only
 marelac-2.0/marelac/R/earth_surf.R          |only
 marelac-2.0/marelac/R/gas_O2sat.R           |only
 marelac-2.0/marelac/R/gas_satconc.R         |only
 marelac-2.0/marelac/R/gas_schmidt.R         |only
 marelac-2.0/marelac/R/gas_solubility.R      |only
 marelac-2.0/marelac/R/gas_transfer.R        |only
 marelac-2.0/marelac/R/gravity.R             |only
 marelac-2.0/marelac/R/molvol.R              |only
 marelac-2.0/marelac/R/molweight.R           |only
 marelac-2.0/marelac/R/redfield.R            |only
 marelac-2.0/marelac/R/ssd2rad.R             |only
 marelac-2.0/marelac/R/sw_adtgrad.R          |only
 marelac-2.0/marelac/R/sw_alpha.R            |only
 marelac-2.0/marelac/R/sw_beta.R             |only
 marelac-2.0/marelac/R/sw_comp.R             |only
 marelac-2.0/marelac/R/sw_conserv.R          |only
 marelac-2.0/marelac/R/sw_cp.R               |only
 marelac-2.0/marelac/R/sw_dens.R             |only
 marelac-2.0/marelac/R/sw_depth.R            |only
 marelac-2.0/marelac/R/sw_enthalpy.R         |only
 marelac-2.0/marelac/R/sw_entropy.R          |only
 marelac-2.0/marelac/R/sw_gibbs.R            |only
 marelac-2.0/marelac/R/sw_kappa.R            |only
 marelac-2.0/marelac/R/sw_kappa_t.R          |only
 marelac-2.0/marelac/R/sw_tfreeze.R          |only
 marelac-2.0/marelac/R/sw_tpot.R             |only
 marelac-2.0/marelac/R/sw_vel.R              |only
 marelac-2.0/marelac/R/vapor.R               |only
 marelac-2.0/marelac/R/vertmean.R            |only
 marelac-2.0/marelac/R/viscosity.R           |only
 marelac-2.0/marelac/data/AtomicWeight.R     |only
 marelac-2.0/marelac/data/AtomicWeight.txt   |only
 marelac-2.0/marelac/data/Constants.R        |only
 marelac-2.0/marelac/data/Oceans.R           |only
 marelac-2.0/marelac/data/gsw_data.dat       |only
 marelac-2.0/marelac/data/sw_sfac.R          |only
 marelac-2.0/marelac/inst/doc/marelac.Rnw    |only
 marelac-2.0/marelac/inst/doc/marelac.pdf    |302173 ++++++++++++++++------------
 marelac-2.0/marelac/inst/doc/vignettes.bib  | 1587 
 marelac-2.0/marelac/inst/wishlist.txt       |only
 marelac-2.0/marelac/man/AtmComp.Rd          |only
 marelac-2.0/marelac/man/AtomicWeight.Rd     |   65 
 marelac-2.0/marelac/man/Bathymetry.Rd       |   32 
 marelac-2.0/marelac/man/Constants.Rd        |   30 
 marelac-2.0/marelac/man/Oceans.Rd           |only
 marelac-2.0/marelac/man/convert_RtoS.Rd     |only
 marelac-2.0/marelac/man/convert_StoCl.Rd    |only
 marelac-2.0/marelac/man/convert_StoR.Rd     |only
 marelac-2.0/marelac/man/convert_T.Rd        |only
 marelac-2.0/marelac/man/convert_p.Rd        |only
 marelac-2.0/marelac/man/convert_salinity.Rd |only
 marelac-2.0/marelac/man/coriolis.Rd         |   42 
 marelac-2.0/marelac/man/diffcoeff.Rd        |  207 
 marelac-2.0/marelac/man/earth_surf.Rd       |only
 marelac-2.0/marelac/man/gas_O2sat.Rd        |only
 marelac-2.0/marelac/man/gas_satconc.Rd      |only
 marelac-2.0/marelac/man/gas_schmidt.Rd      |only
 marelac-2.0/marelac/man/gas_solubility.Rd   |only
 marelac-2.0/marelac/man/gas_transfer.Rd     |only
 marelac-2.0/marelac/man/gravity.Rd          |only
 marelac-2.0/marelac/man/marelac-internal.Rd |only
 marelac-2.0/marelac/man/marelac.Rd          |  228 
 marelac-2.0/marelac/man/molvol.Rd           |only
 marelac-2.0/marelac/man/molweight.Rd        |only
 marelac-2.0/marelac/man/redfield.Rd         |only
 marelac-2.0/marelac/man/ssd2rad.Rd          |only
 marelac-2.0/marelac/man/sw_adtgrad.Rd       |only
 marelac-2.0/marelac/man/sw_alpha.Rd         |only
 marelac-2.0/marelac/man/sw_beta.Rd          |only
 marelac-2.0/marelac/man/sw_comp.Rd          |only
 marelac-2.0/marelac/man/sw_conserv.Rd       |only
 marelac-2.0/marelac/man/sw_cp.Rd            |only
 marelac-2.0/marelac/man/sw_dens.Rd          |only
 marelac-2.0/marelac/man/sw_depth.Rd         |only
 marelac-2.0/marelac/man/sw_enthalpy.Rd      |only
 marelac-2.0/marelac/man/sw_entropy.Rd       |only
 marelac-2.0/marelac/man/sw_gibbs.Rd         |only
 marelac-2.0/marelac/man/sw_kappa.Rd         |only
 marelac-2.0/marelac/man/sw_kappa_t.Rd       |only
 marelac-2.0/marelac/man/sw_sfac.Rd          |only
 marelac-2.0/marelac/man/sw_svel.Rd          |only
 marelac-2.0/marelac/man/sw_tfreeze.Rd       |only
 marelac-2.0/marelac/man/sw_tpot.Rd          |only
 marelac-2.0/marelac/man/vapor.Rd            |only
 marelac-2.0/marelac/man/vertmean.Rd         |only
 marelac-2.0/marelac/man/viscosity.Rd        |   72 
 marelac-2.0/marelac/src                     |only
 128 files changed, 175384 insertions(+), 129114 deletions(-)

More information about marelac at CRAN
Permanent link

New package marelacTeaching with initial version 1.0
Package: marelacTeaching
Version: 1.0
Title: Datasets and tutorials for use in aquatic sciences
Author: Karline Soetaert , Thomas Petzoldt , Filip Meysman
Maintainer: Karline Soetaert
Depends: R (>= 2.01), marelac, deSolve, rootSolve, scatterplot3d
Description: Datasets and tutorials for use in the MArine, Riverine, Estuarine, LAcustrine and Coastal sciences
License: GPL (>= 2)
LazyData: yes
Repository: CRAN
Repository/R-Forge/Project: marelac
Repository/R-Forge/Revision: 118
Date/Publication: 2009-09-07 17:10:21
Packaged: 2009-09-02 20:31:33 UTC; rforge

More information about marelacTeaching at CRAN
Permanent link

New package farmR with initial version 1.0
Package: farmR
Type: Package
Title: Mixed Integer model of Arable Farms
Version: 1.0
Date: 2009-06-6
Author: Ira R. Cooke
Maintainer: Ira R. Cooke
Description: A mixed integer description of an arable farm. Finds optimal farming plans given economic and social preference information.
License: GPL-3
Suggests: sp
LazyLoad: yes
Depends: rJava,methods
URL: http://code.google.com/p/javawfm/
Packaged: 2009-09-07 16:40:23 UTC; iracooke
Repository: CRAN
Date/Publication: 2009-09-07 17:57:37

More information about farmR at CRAN
Permanent link

Package Pomic updated to version 1.0.1 with previous version 0.9.2 dated 2009-04-22

Author: Cyril Piou
Title: Pattern Oriented Modelling Information Criterion
Description: This package propose calculations of an information criterion to check the quality of simulations results of ABM/IBM or other non-linear rule-based models. The POMDEV measure is based on the KL divergence and likelihood theory. It basically indicates the deviance of simulation results from field observations. Once POMDEV scores and metropolis-hasting sampling on different model versions are effectuated, POMIC scores can be calculated. This method is still under development and further work are needed for the incorporation of multiple patterns assessment.

Diff between Pomic versions 0.9.2 dated 2009-04-22 and 1.0.1 dated 2009-09-07

 DESCRIPTION          |    8 ++++----
 INDEX                |    4 +++-
 NEWS                 |    6 ++++++
 R/pomdev.corrected.r |    8 +++++++-
 R/pomdev.extra.R     |    7 +++++--
 R/pomdev.r           |    8 +++++++-
 R/pomdev.ts.r        |only
 demo/00Index         |    2 +-
 demo/demoPomic.r     |    4 ++--
 inst/CITATION        |   10 +++++-----
 man/Pomic-package.Rd |   16 +++++++++++-----
 man/pomdev.ts.rd     |only
 12 files changed, 51 insertions(+), 22 deletions(-)

More information about Pomic at CRAN
Permanent link

Package FrF2 updated to version 0.97-8 with previous version 0.97-7 dated 2009-08-24

Author: Ulrike Groemping
Title: Fractional Factorial designs with 2-level factors
Description: This package creates regular and non-regular Fractional Factorial designs. Furthermore, analysis tools for Fractional Factorial designs with 2-level factors are offered (main effects and interaction plots for all factors simultaneously, cube plot for looking at the simultaneous effects of three factors, full or half normal plot, alias structure in a more readable format than with the built-in function alias). The package is currently subject to intensive development. While much of the intended functionality is already available, some changes and improvements are still to be expected. Suggestions are welcome.

Diff between FrF2 versions 0.97-7 dated 2009-08-24 and 0.97-8 dated 2009-09-07

 DESCRIPTION         |    8 ++++----
 R/FrF2.R            |    3 +--
 R/pb.R              |   14 ++++++++------
 inst/NEWS           |   10 ++++++++--
 man/FrF2-package.Rd |   16 ++++++++++------
 man/FrF2.Rd         |   36 +++++++++++++++++++++---------------
 man/pb.Rd           |   19 ++++++++++++++-----
 man/utilitiesPB.Rd  |    2 +-
 8 files changed, 67 insertions(+), 41 deletions(-)

More information about FrF2 at CRAN
Permanent link

Package FinTS updated to version 0.4-2 with previous version 0.3-9 dated 2009-01-14

Author: Spencer Graves
Title: Companion to Tsay (2005) Analysis of Financial Time Series
Description: R companion to Tsay (2005) Analysis of Financial Time Series, 2nd ed. (Wiley). Includes data sets, functions and script files required to work some of the examples. Version 0.3-x includes R objects for all data files used in the text and script files to recreate most of the analyses in chapters 1-3 and 9 plus parts of chapters 4 and 11.

Diff between FinTS versions 0.3-9 dated 2009-01-14 and 0.4-2 dated 2009-09-07

 DESCRIPTION          |   44 ++++++++++++++++++++++++--------------------
 man/ARIMA.Rd         |    4 ++--
 man/Acf.Rd           |    2 +-
 man/AutocorTest.Rd   |    4 ++--
 man/FinTS-package.Rd |    5 +++--
 man/Unitroot.Rd      |   35 ++++++++++++++++++-----------------
 man/as.yearmon2.Rd   |   16 ++++++++--------
 man/package.dir.Rd   |    2 +-
 8 files changed, 59 insertions(+), 53 deletions(-)

More information about FinTS at CRAN
Permanent link

Package DoE.wrapper updated to version 0.6-1 with previous version 0.6 dated 2009-08-25

Author: Ulrike Groemping
Title: Wrapper package for design of experiments functionality
Description: This package creates various kinds of designs for (industrial) experiments. It uses, and sometimes enhances, design generation routines from other packages. Initially, response surface designs from package rsm and latin hypercube samples from package lhs have been implemented.

Diff between DoE.wrapper versions 0.6 dated 2009-08-25 and 0.6-1 dated 2009-09-07

 DoE.wrapper-0.6-1/DoE.wrapper/DESCRIPTION                     |    8 
 DoE.wrapper-0.6-1/DoE.wrapper/inst/NEWS                       |    4 
 DoE.wrapper-0.6-1/DoE.wrapper/man/DoE.wrapper-package.Rd      |only
 DoE.wrapper-0.6-1/DoE.wrapper/man/bbd.design.Rd               |    6 
 DoE.wrapper-0.6-1/DoE.wrapper/man/ccd.augment.Rd              |    9 
 DoE.wrapper-0.6-1/DoE.wrapper/man/ccd.design.Rd               |   10 
 DoE.wrapper-0.6-1/DoE.wrapper/man/lhs.design.Rd               |   11 
 DoE.wrapper-0.6-1/DoE.wrapper/tests/qua.design.test.Rout.save |  248 +++++-----
 DoE.wrapper-0.6/DoE.wrapper/man/DoE.wrapper-packge.Rd         |only
 9 files changed, 156 insertions(+), 140 deletions(-)

More information about DoE.wrapper at CRAN
Permanent link

Package DoE.base updated to version 0.9 with previous version 0.8 dated 2009-08-25

Author: Ulrike Groemping
Title: Full factorials, orthogonal arrays and base utilities for DoE packages
Description: This package creates full factorial experimental designs and designs based on orthogonal arrays for (industrial) experiments. Additionally, it provides some utility functions used also by other DoE packages.

Diff between DoE.base versions 0.8 dated 2009-08-25 and 0.9 dated 2009-09-07

 DESCRIPTION                     |    8 -
 NAMESPACE                       |   14 ++
 R/DesignAccessors.r             |    5 -
 R/aggregate.design.R            |only
 R/change.contr.R                |only
 R/contr.FrF2.R                  |    2 
 R/fac.design.R                  |   19 ++-
 R/formula.design.R              |  200 +++++++++++++++++++++++++++++++++++-----
 R/iscube.R                      |only
 R/lm.design.R                   |only
 R/oa.design.R                   |   11 +-
 R/qua.design.R                  |    5 -
 R/reptowide.R                   |    1 
 inst/NEWS                       |   31 +++++-
 man/DoE.base-package.Rd         |   13 ++
 man/class-design-methods.Rd     |   68 ++++++++++++-
 man/contr.FrF2.Rd               |    6 -
 man/formula.design.Rd           |   54 ++++++++--
 man/lm.design.Rd                |only
 man/oa.design.Rd                |   11 ++
 man/qua.design.Rd               |   48 ++++++---
 tests/test_aggregate.R          |only
 tests/test_aggregate.Rout.save  |only
 tests/test_qua.design.R         |    5 -
 tests/test_qua.design.Rout.save |   77 +++++++++++----
 25 files changed, 473 insertions(+), 105 deletions(-)

More information about DoE.base at CRAN
Permanent link

Package vegan updated to version 1.15-4 with previous version 1.15-3 dated 2009-06-17

Author: Jari Oksanen, Roeland Kindt, Pierre Legendre, Bob O'Hara, Gavin L. Simpson, Peter Solymos, M. Henry H. Stevens, Helene Wagner
Title: Community Ecology Package
Description: Ordination methods, diversity analysis and other functions for community and vegetation ecologists.

Diff between vegan versions 1.15-3 dated 2009-06-17 and 1.15-4 dated 2009-09-07

 DESCRIPTION                  |   11 
 R/RsquareAdj.R               |   52 +
 R/anosim.R                   |   14 
 R/anova.cca.R                |    2 
 R/anova.ccabyterm.R          |    2 
 R/betadisper.R               |    7 
 R/biplot.rda.R               |    4 
 R/capscale.R                 |    1 
 R/decorana.R                 |    4 
 R/dispindmorisita.R          |    6 
 R/estaccumR.R                |only
 R/fitted.capscale.R          |only
 R/indpower.R                 |only
 R/mantel.correlog.R          |only
 R/metaMDS.R                  |   23 
 R/metaMDSdist.R              |    5 
 R/ordiGetData.R              |    2 
 R/ordicluster.R              |    2 
 R/ordiellipse.R              |   31 
 R/ordihull.R                 |   18 
 R/ordilabel.R                |    4 
 R/ordilattice.getEnvfit.R    |    4 
 R/ordiplot3d.R               |   11 
 R/ordisurf.R                 |    3 
 R/orditorp.R                 |    4 
 R/ordixyplot.R               |    4 
 R/panel.ordi.R               |   29 
 R/plot.mantel.correlog.R     |only
 R/plot.nestedtemp.R          |   12 
 R/plot.poolaccum.R           |only
 R/plot.spantree.R            |    9 
 R/points.cca.R               |   10 
 R/poolaccum.R                |only
 R/postMDS.R                  |   15 
 R/predict.rda.R              |   17 
 R/print.mantel.correlog.R    |only
 R/print.poolaccum.R          |only
 R/radlattice.R               |only
 R/rarefy.R                   |    2 
 R/read.cep.R                 |    2 
 R/rrarefy.R                  |only
 R/specaccum.R                |    2 
 R/specpool.R                 |    6 
 R/specpool2vect.R            |    6 
 R/summary.cca.R              |   11 
 R/summary.ordiellipse.R      |only
 R/summary.ordihull.R         |only
 R/summary.poolaccum.R        |only
 R/text.cca.R                 |   10 
 R/text.orditkplot.R          |    2 
 R/wcmdscale.R                |   23 
 inst/ChangeLog               |   68 +
 inst/NEWS                    |   73 +
 inst/doc/FAQ-vegan.pdf       |binary
 inst/doc/decision-vegan.pdf  | 1642 +++++++++++++++++++++----------------------
 inst/doc/decision-vegan.tex  |   16 
 inst/doc/diversity-vegan.pdf |binary
 inst/doc/diversity-vegan.tex |   68 -
 inst/doc/intro-vegan.pdf     |binary
 inst/doc/intro-vegan.tex     |   71 -
 man/RsquareAdj.Rd            |only
 man/anosim.Rd                |   10 
 man/beals.Rd                 |    3 
 man/biplot.rda.Rd            |    4 
 man/cca.Rd                   |    2 
 man/decorana.Rd              |    4 
 man/dispindmorisita.Rd       |    4 
 man/diversity.Rd             |   12 
 man/humpfit.Rd               |    4 
 man/indpower.Rd              |only
 man/mantel.Rd                |    2 
 man/mantel.correlog.Rd       |only
 man/metaMDS.Rd               |   10 
 man/mrpp.Rd                  |    4 
 man/nestedtemp.Rd            |    3 
 man/oecosimu.Rd              |    2 
 man/ordihull.Rd              |   69 +
 man/ordixyplot.Rd            |   12 
 man/permCheck.Rd             |    1 
 man/permatfull.Rd            |    2 
 man/permuted.index2.Rd       |    1 
 man/plot.cca.Rd              |    4 
 man/predict.cca.Rd           |   39 -
 man/radfit.Rd                |   12 
 man/rankindex.Rd             |    4 
 man/scores.Rd                |    3 
 man/specaccum.Rd             |   14 
 man/specpool.Rd              |   66 +
 man/varpart.Rd               |    1 
 man/wcmdscale.Rd             |   10 
 90 files changed, 1510 insertions(+), 1100 deletions(-)

More information about vegan at CRAN
Permanent link

Package tnet updated to version 0.1.1 with previous version 0.1.0 dated 2009-06-16

Author: Tore Opsahl
Title: tnet: Software for Analysis of Weighted, Two-mode, and Longitudinal networks
Description: R package to analyse weighted, two-mode, and longitudinal networks.

Diff between tnet versions 0.1.0 dated 2009-06-16 and 0.1.1 dated 2009-09-07

 DESCRIPTION                                     |   10 +-
 R/as.tnet.R                                     |only
 R/betweenness_w.R                               |   22 +++---
 R/closeness_w.R                                 |   21 ++----
 R/clustering_tm.R                               |only
 R/clustering_w.R                                |   59 ++++++++---------
 R/clustering_w_barrat.R                         |   32 ++++-----
 R/degree_w.R                                    |   49 +++++---------
 R/dichotomise.R                                 |   19 +++--
 R/distance_wRBGL.R                              |   26 +++----
 R/projecting_tm.R                               |   39 +++++++----
 R/random_values.R                               |only
 R/rg_reshuffling_tm.R                           |   37 +++++-----
 R/rg_reshuffling_w.R                            |   82 +++++++++---------------
 R/rg_tm.R                                       |only
 R/rg_w.R                                        |   13 +--
 R/shrink_to_weighted_network.R                  |   23 ++----
 R/symmetrise.R                                  |   59 ++++++++---------
 R/weighted_richclub_tm.R                        |   10 ++
 R/weighted_richclub_w.R                         |   49 +++++++-------
 man/Cross.Parker.Manufacturing.net.aware.Rd     |    2 
 man/Cross.Parker.Manufacturing.net.info.Rd      |    2 
 man/Cross.Parker.Manufacturing.node.location.Rd |    2 
 man/Cross.Parker.Manufacturing.node.orglevel.Rd |    2 
 man/Cross.Parker.Manufacturing.node.tenure.Rd   |    2 
 man/Freemans.EIES.net.1.n48.Rd                  |    2 
 man/Freemans.EIES.net.2.n48.Rd                  |    2 
 man/Freemans.EIES.net.3.n32.Rd                  |    2 
 man/Freemans.EIES.node.Citations.n32.Rd         |    2 
 man/Freemans.EIES.node.Discipline.n32.Rd        |    2 
 man/OnlineComm.f1000.lnet.Rd                    |    6 -
 man/as.tnet.Rd                                  |only
 man/betweenness_w.Rd                            |   10 +-
 man/closeness_w.Rd                              |    8 +-
 man/clustering_tm.Rd                            |only
 man/clustering_w.Rd                             |    4 -
 man/clustering_w_barrat.Rd                      |    6 -
 man/degree_w.Rd                                 |    7 --
 man/dichotomise.Rd                              |    4 -
 man/distance_w.Rd                               |    4 -
 man/projecting_tm.Rd                            |    4 -
 man/random_values.Rd                            |only
 man/rg_reshuffling_tm.Rd                        |    7 --
 man/rg_reshuffling_w.Rd                         |    8 +-
 man/rg_tm.Rd                                    |only
 man/shrink_to_weighted_network.Rd               |    4 -
 man/symmetrise.Rd                               |    4 -
 man/tnet-package.Rd                             |   12 +--
 man/weighted_richclub_tm.Rd                     |   10 +-
 man/weighted_richclub_w.Rd                      |    5 -
 50 files changed, 322 insertions(+), 351 deletions(-)

More information about tnet at CRAN
Permanent link

New package expsmooth with initial version 2.00
Package: expsmooth
Title: Data sets from "Forecasting with exponential smoothing"
Description: Data sets from the book "Forecasting with exponential smoothing: the state space approach" by Hyndman, Koehler, Ord and Snyder (Springer, 2008).
Version: 2.00
Date: 2009-09-07
Depends: R (>= 2.0.0), graphics, stats, tseries, forecast
LazyData: yes
LazyLoad: yes
Author: Rob J Hyndman
Maintainer: Rob J Hyndman
License: GPL (>= 2)
URL: http://www.robjhyndman.com/software/expsmooth/
Packaged: 2009-09-07 04:21:04 UTC; hyndman
Repository: CRAN
Date/Publication: 2009-09-07 09:37:46

More information about expsmooth at CRAN
Permanent link

New package forecast with initial version 2.00
Package: forecast
Title: Forecasting functions for time series
Description: Methods and tools for displaying and analysing univariate time series forecasts including exponential smoothing via state space models and automatic ARIMA modelling.
Version: 2.00
Date: 2009-09-07
Depends: R (>= 2.0.0), graphics, stats, tseries
LazyData: yes
LazyLoad: yes
Author: Rob J Hyndman
Maintainer: Rob J Hyndman
License: GPL (>= 2)
URL: http://www.robjhyndman.com/software/forecast/
Packaged: 2009-09-07 04:21:13 UTC; hyndman
Repository: CRAN
Date/Publication: 2009-09-07 09:38:06

More information about forecast at CRAN
Permanent link

New package fma with initial version 2.00
Package: fma
Title: Data sets from "Forecasting: methods and applications" by Makridakis, Wheelwright & Hyndman (1998)
Description: All data sets from "Forecasting: methods and applications" by Makridakis, Wheelwright & Hyndman (Wiley, 3rd ed., 1998).
Version: 2.00
Date: 2009-09-07
Depends: R (>= 2.0.0), graphics, stats, tseries, forecast
LazyData: yes
LazyLoad: yes
Author: Rob J Hyndman
Maintainer: Rob J Hyndman
License: GPL (>= 2)
URL: http://www.robjhyndman.com/software/fma/
Packaged: 2009-09-07 04:20:46 UTC; hyndman
Repository: CRAN
Date/Publication: 2009-09-07 09:37:51

More information about fma at CRAN
Permanent link

Package doBy updated to version 4.0.2 with previous version 4.0.1 dated 2009-08-19

Author: Søren Højsgaard with contributions from Kevin Wright and Alessandro A. Leidi.
Title: Groupwise computations of summary statistics, general linear contrasts and other utilities
Description: Facilities for groupwise computations of summary statistics and other facilities for working with grouped data.

Diff between doBy versions 4.0.1 dated 2009-08-19 and 4.0.2 dated 2009-09-07

 ChangeLog         |    8 
 DESCRIPTION       |    6 
 R/summaryBy.R     |  537 ++++++++++++++++++++++++++++--------------------------
 inst/doc/doBy.pdf |  525 +++++++++++++++++++++++++---------------------------
 4 files changed, 547 insertions(+), 529 deletions(-)

More information about doBy at CRAN
Permanent link

New package caroline with initial version 0.1-1
Package: caroline
Version: 0.1-1
Date: 2009-09-06
Title: Generic Functions for R
Author: David M. Schruth
Maintainer: David M. Schruth
Depends: R (>= 1.8.0)
Suggests:
Description: The caroline package is a collection of functions useful for various general situations.
License: GPL (>= 2)
URL: http://www.r-project.org, http://www.another.url
Packaged: Sun Sep 6 15:37:36 2009; dave
Repository: CRAN
Date/Publication: 2009-09-07 09:37:39

More information about caroline at CRAN
Permanent link

New package Mcomp with initial version 2.00
Package: Mcomp
Title: Data from the M-competitions
Description: The 1001 time series from the M-competition (Makridakis et al. 1982) and the 3003 time series from the IJF-M3 competition (Makridakis and Hibon, 2000).
Version: 2.00
Date: 2009-09-07
Depends: R (>= 2.0.0), graphics, stats, tseries, forecast
LazyData: yes
LazyLoad: yes
Author: Rob J Hyndman
Maintainer: Rob J Hyndman
License: GPL (>= 2)
URL: http://www.robjhyndman.com/software/mcomp/
Packaged: 2009-09-07 04:20:52 UTC; hyndman
Repository: CRAN
Date/Publication: 2009-09-07 09:37:33

More information about Mcomp at CRAN
Permanent link

Sun, 06 Sep 2009

Package its updated to version 1.1.8 with previous version 1.1.7 dated 2008-07-05

Author: Portfolio & Risk Advisory Group, Commerzbank Securities
Title: Irregular Time Series
Description: The its package contains an S4 class for handling irregular time series

Diff between its versions 1.1.7 dated 2008-07-05 and 1.1.8 dated 2009-09-06

 DESCRIPTION      |   17 -
 R/itspkg.R       |  134 +++++-----
 inst/changes     |    6 
 inst/test/test.r |  715 +++++++++++++++++++++++++++++++------------------------
 man/itsDef.rd    |   28 +-
 5 files changed, 503 insertions(+), 397 deletions(-)

More information about its at CRAN
Permanent link

Package Epi updated to version 1.1.2 with previous version 1.0.12 dated 2009-04-30

Author: Bendix Carstensen, Martyn Plummer, Esa Laara, Michael Hills et. al.
Title: A package for statistical analysis in epidemiology.
Description: Functions for demographic and epidemiological analysis in the Lexis diagram, i.e. register and cohort follow-up data, including interval censored data and representation of multistate data. Also some useful functions for tabulation and plotting. Contains some epidemiological datasets.

Diff between Epi versions 1.0.12 dated 2009-04-30 and 1.1.2 dated 2009-09-06

 CHANGES                |   38 ++
 DESCRIPTION            |   11 
 NAMESPACE              |   33 +-
 R/MS.boxes.R           |only
 R/Relevel.R            |    2 
 R/ci.lin.R             |   16 -
 R/cutLexis.R           |  131 ++++++---
 R/lexis.R              |   21 +
 R/splitLexis.R         |    7 
 R/stack.Lexis.R        |only
 data/DMconv.R          |    2 
 data/DMlate.R          |only
 data/DMrand.R          |only
 data/ewrates.R         |    3 
 data/nickel.R          |    1 
 inst/doc/Follow-up.R   |only
 inst/doc/Follow-up.pdf |  707 ++++++++++++++++++++++++-------------------------
 inst/doc/Follow-up.rnw |   20 +
 inst/doc/Rplots.pdf    |    6 
 man/DMlate.Rd          |only
 man/Lexis.Rd           |   23 -
 man/apc.lines.Rd       |    2 
 man/apc.plot.Rd        |    2 
 man/cutLexis.Rd        |   56 ++-
 man/mstate.Lexis.Rd    |only
 man/stack.Lexis.Rd     |only
 man/tbox.Rd            |only
 27 files changed, 628 insertions(+), 453 deletions(-)

More information about Epi at CRAN
Permanent link

New package mvsf with initial version 1.0
Package: mvsf
Type: Package
Title: Shapiro-Francia Multivariate Normality Test
Version: 1.0
Date: 2009-08-31
Author: David Delmail
Maintainer: David Delmail
Description: Generalization of the Shapiro-Francia test for multivariate variables.
License: GPL (>= 2)
Depends: nortest,mvnormtest
Packaged: 2009-09-06 11:22:01 UTC; Triffids
Repository: CRAN
Date/Publication: 2009-09-06 17:20:18

More information about mvsf at CRAN
Permanent link

Package Rcmdr updated to version 1.5-2 with previous version 1.5-1 dated 2009-08-30

Author: John Fox , with contributions from Michael Ash, Theophilius Boye, Stefano Calza, Andy Chang, Philippe Grosjean, Richard Heiberger, G. Jay Kerns, Renaud Lancelot, Matthieu Lesnoff, Uwe Ligges, Samir Messad, Martin Maechler, Robert Muenchen, Duncan Murdoch, Erich Neuwirth, Dan Putler, Brian Ripley, Miroslav Ristic, and Peter Wolf.
Title: R Commander
Description: A platform-independent basic-statistics GUI (graphical user interface) for R, based on the tcltk package.

Diff between Rcmdr versions 1.5-1 dated 2009-08-30 and 1.5-2 dated 2009-09-06

 DESCRIPTION                              |   10 
 R/commander.R                            |   10 
 R/distributions-plotDistributions-menu.R |   28 
 R/graphs-menu.R                          |    6 
 R/utilities.R                            |   10 
 inst/CHANGES                             |    9 
 inst/po/es/LC_MESSAGES/R-Rcmdr.mo        |binary
 inst/po/ru/LC_MESSAGES/R-Rcmdr.mo        |binary
 man/Rcmdr-package.Rd                     |    6 
 po/R-es.po                               | 2284 ++++++++++++++++---------------
 po/R-ru.po                               |  174 ++
 11 files changed, 1431 insertions(+), 1106 deletions(-)

More information about Rcmdr at CRAN
Permanent link

New package condGEE with initial version 0.1-0
Package: condGEE
Version: 0.1-0
Date: 2009-09-05
Title: Parameter estimation in conditional GEE for recurrent event gap times
Author: David Clement
Maintainer: David Clement
Depends: R (>= 2.01), numDeriv, rootSolve
Description: Solves for the mean parameters, the variance parameter, and their asymptotic variance in a conditional GEE for recurrent event gap times, as described by Clement and Strawderman (2009) in the journal Biostatistics. Makes a parametric assumption for the length of the censored gap time.
License: GPL (>= 2)
URL: www.stat.cornell.edu/~clement
Packaged: Sun Sep 6 09:53:43 2009; dyc24
Repository: CRAN
Date/Publication: 2009-09-06 17:44:41

More information about condGEE at CRAN
Permanent link

New package GWAF with initial version 1.0
Package: GWAF
Type: Package
Title: Genome-Wide Association analyses with Family data
Version: 1.0
Date: 2009-09-06
Author: Ming-Huei Chen and Qiong Yang
Maintainer: Ming-Huei Chen
Depends: gee, kinship
Description: Functions to test genetic association between SNPs and a continuous/dichotomous trait using family data, and to make genome-wide p-value plot and QQ plot.
License: GPL (>= 2)
Packaged: Sun Sep 6 10:43:02 2009; mhchen
Repository: CRAN
Date/Publication: 2009-09-06 17:44:26

More information about GWAF at CRAN
Permanent link

Package rgdal updated to version 0.6-18 with previous version 0.6-17 dated 2009-09-03

Author: Timothy H. Keitt , Roger Bivand , Edzer Pebesma , Barry Rowlingson
Title: Bindings for the Geospatial Data Abstraction Library
Description: Provides bindings to Frank Warmerdam's Geospatial Data Abstraction Library (GDAL) (>= 1.3.1) and access to projection/transformation operations from the PROJ.4 library. The GDAL and PROJ.4 libraries are external to the package, and, when installing the package from source, must be correctly installed first. Both GDAL raster and OGR vector map data can be imported into R, and GDAL raster data and OGR vector data exported. Use is made of classes defined in the sp package.

Diff between rgdal versions 0.6-17 dated 2009-09-03 and 0.6-18 dated 2009-09-06

 ChangeLog      |    8 +++++++-
 DESCRIPTION    |    8 ++++----
 R/sp_gdal.R    |   38 +++++++++++++++++++-------------------
 inst/ChangeLog |    8 +++++++-
 4 files changed, 37 insertions(+), 25 deletions(-)

More information about rgdal at CRAN
Permanent link

Package RQuantLib updated to version 0.3.0 with previous version 0.2.11 dated 2009-03-04

Author: Dirk Eddelbuettel and Khanh Nguyen
Title: R interface to the QuantLib library
Description: The RQuantLib package makes parts of QuantLib visible to the R user. Currently a number option pricing functions are included, both vanilla and exotic, as well as a broad range of fixed-income functions, as well a general utilities such as business day calendar computations. Further software contributions are welcome. The QuantLib project aims to provide a comprehensive software framework for quantitative finance. The goal is to provide a standard open source library for quantitative analysis, modeling, trading, and risk management of financial assets. The Windows binary version is self-contained and does not require a QuantLib (or Boost) installation. RQuantLib uses the Rcpp R/C++ interface class library. See the Rcpp package on CRAN (or R-Forge) for more information on Rcpp. Note that while RQuantLib's code is licensed under the GPL (v2 or later), QuantLib itself is released under a somewhat less restrictive Open Source license (see QuantLib-License.txt).

Diff between RQuantLib versions 0.2.11 dated 2009-03-04 and 0.3.0 dated 2009-09-06

 RQuantLib-0.2.11/RQuantLib/inst/README                         |only
 RQuantLib-0.3.0/RQuantLib/DESCRIPTION                          |   51 -
 RQuantLib-0.3.0/RQuantLib/INDEX                                |   26 
 RQuantLib-0.3.0/RQuantLib/R/arrays.R                           |    2 
 RQuantLib-0.3.0/RQuantLib/R/asian.R                            |only
 RQuantLib-0.3.0/RQuantLib/R/bond.R                             |only
 RQuantLib-0.3.0/RQuantLib/R/calendars.R                        |only
 RQuantLib-0.3.0/RQuantLib/R/discount.R                         |    5 
 RQuantLib-0.3.0/RQuantLib/R/implied.R                          |    2 
 RQuantLib-0.3.0/RQuantLib/R/option.R                           |    2 
 RQuantLib-0.3.0/RQuantLib/R/zzz.R                              |    2 
 RQuantLib-0.3.0/RQuantLib/inst/ChangeLog                       |   52 +
 RQuantLib-0.3.0/RQuantLib/inst/QuantLib-License.txt            |   73 +-
 RQuantLib-0.3.0/RQuantLib/man/AmericanOption.Rd                |    2 
 RQuantLib-0.3.0/RQuantLib/man/AsianOption.Rd                   |only
 RQuantLib-0.3.0/RQuantLib/man/BarrierOption.Rd                 |    2 
 RQuantLib-0.3.0/RQuantLib/man/BinaryOption.Rd                  |    2 
 RQuantLib-0.3.0/RQuantLib/man/Bond.Rd                          |only
 RQuantLib-0.3.0/RQuantLib/man/BondUtilities.Rd                 |only
 RQuantLib-0.3.0/RQuantLib/man/Calendars.Rd                     |only
 RQuantLib-0.3.0/RQuantLib/man/CallableBond.Rd                  |only
 RQuantLib-0.3.0/RQuantLib/man/ConvertibleFixedCouponBond.Rd    |only
 RQuantLib-0.3.0/RQuantLib/man/ConvertibleFloatingCouponBond.Rd |only
 RQuantLib-0.3.0/RQuantLib/man/ConvertibleZeroCouponBond.Rd     |only
 RQuantLib-0.3.0/RQuantLib/man/Enum.Rd                          |only
 RQuantLib-0.3.0/RQuantLib/man/EuropeanOption.Rd                |    2 
 RQuantLib-0.3.0/RQuantLib/man/FittedBondCurve.Rd               |only
 RQuantLib-0.3.0/RQuantLib/man/FixedRateBond.Rd                 |only
 RQuantLib-0.3.0/RQuantLib/man/FixedRateBondPriceByYield.Rd     |only
 RQuantLib-0.3.0/RQuantLib/man/FixedRateBondYield.Rd            |only
 RQuantLib-0.3.0/RQuantLib/man/FloatingRateBond.Rd              |only
 RQuantLib-0.3.0/RQuantLib/man/ZeroCouponBond.Rd                |only
 RQuantLib-0.3.0/RQuantLib/man/ZeroPriceByYield.Rd              |only
 RQuantLib-0.3.0/RQuantLib/man/ZeroYield.Rd                     |only
 RQuantLib-0.3.0/RQuantLib/src/asian.cpp                        |only
 RQuantLib-0.3.0/RQuantLib/src/barrier_binary.cpp               |   41 -
 RQuantLib-0.3.0/RQuantLib/src/bermudan.cpp                     |    4 
 RQuantLib-0.3.0/RQuantLib/src/bonds.cpp                        |only
 RQuantLib-0.3.0/RQuantLib/src/calendars.cpp                    |only
 RQuantLib-0.3.0/RQuantLib/src/curves.cpp                       |    4 
 RQuantLib-0.3.0/RQuantLib/src/discount.cpp                     |   57 +
 RQuantLib-0.3.0/RQuantLib/src/implieds.cpp                     |   26 
 RQuantLib-0.3.0/RQuantLib/src/rquantlib.hpp                    |   21 
 RQuantLib-0.3.0/RQuantLib/src/utils.cpp                        |  221 ++++++
 RQuantLib-0.3.0/RQuantLib/src/vanilla.cpp                      |   28 
 RQuantLib-0.3.0/RQuantLib/tests/RQuantlib.R                    |  200 +++++
 RQuantLib-0.3.0/RQuantLib/tests/RQuantlib.Rout.save            |  343 +++++++++-
 47 files changed, 1045 insertions(+), 123 deletions(-)

More information about RQuantLib at CRAN
Permanent link

Package JGR updated to version 1.6-8 with previous version 1.6-7 dated 2009-06-14

Author: Markus Helbig , Simon Urbanek, Ian Fellows
Title: JGR - Java Gui for R
Description: Java GUI for R - cross-platform, universal and unified Graphical User Interface for R. For full functionality on Windows and Mac OS X JGR requires a start application which depends on your OS. This can be downloaded from JGR's website: http://www.rosuda.org/JGR

Diff between JGR versions 1.6-7 dated 2009-06-14 and 1.6-8 dated 2009-09-06

 DESCRIPTION       |    4 ++--
 R/JGR.R           |    2 +-
 inst/java/JGR.jar |binary
 3 files changed, 3 insertions(+), 3 deletions(-)

More information about JGR at CRAN
Permanent link

Sat, 05 Sep 2009

Package nleqslv updated to version 1.5 with previous version 1.4 dated 2009-04-22

Author: Berend Hasselman
Title: Solve systems of non linear equations
Description: Solve a system of non linear equations using a Broyden or a Newton method with a choice of global strategies such as linesearch and trust region. There are options for using a numerical or an analytical jacobian and fixed or automatic scaling of parameters.

Diff between nleqslv versions 1.4 dated 2009-04-22 and 1.5 dated 2009-09-05

 DESCRIPTION    |    8 ++++----
 NEWS           |    4 ++++
 man/nleqslv.Rd |    4 ++--
 3 files changed, 10 insertions(+), 6 deletions(-)

More information about nleqslv at CRAN
Permanent link

Package tsDyn updated to version 0.7-1 with previous version 0.7 dated 2009-07-18

Author: Antonio Fabio Di Narzo, Jose Luis Aznarte, Matthieu Stigler
Title: Time series analysis based on dynamical systems theory
Description: Time series analysis based on dynamical systems theory

Diff between tsDyn versions 0.7 dated 2009-07-18 and 0.7-1 dated 2009-09-05

 tsDyn-0.7-1/tsDyn/DESCRIPTION                       |    8 
 tsDyn-0.7-1/tsDyn/NAMESPACE                         |    7 
 tsDyn-0.7-1/tsDyn/R/HanSeo_TVECM.R                  |    2 
 tsDyn-0.7-1/tsDyn/R/TVARestim.R                     |    2 
 tsDyn-0.7-1/tsDyn/R/TVECM.R                         |   45 
 tsDyn-0.7-1/tsDyn/R/TVECM.sim.R                     |    2 
 tsDyn-0.7-1/tsDyn/R/miscSETAR.R                     |   65 -
 tsDyn-0.7-1/tsDyn/R/nlar-methods.R                  |   48 
 tsDyn-0.7-1/tsDyn/R/selectSETAR.R                   |   15 
 tsDyn-0.7-1/tsDyn/R/setar.R                         |   53 
 tsDyn-0.7-1/tsDyn/R/setar.sim.R                     |    4 
 tsDyn-0.7-1/tsDyn/R/setarTest.R                     |    6 
 tsDyn-0.7-1/tsDyn/inst/ChangeLog                    |    7 
 tsDyn-0.7-1/tsDyn/inst/doc/tsDyn.pdf                |binary
 tsDyn-0.7-1/tsDyn/man/TVECM.Rd                      |   24 
 tsDyn-0.7-1/tsDyn/man/TVECM.sim.Rd                  |    4 
 tsDyn-0.7-1/tsDyn/man/getTh.Rd                      |only
 tsDyn-0.7-1/tsDyn/man/regime.Rd                     |only
 tsDyn-0.7-1/tsDyn/man/selectSETAR.Rd                |    3 
 tsDyn-0.7-1/tsDyn/tests/00SetarAndFriends.R         |   26 
 tsDyn-0.7-1/tsDyn/tests/00SetarAndFriends.Rout.save | 1280 +++-----------------
 tsDyn-0.7/tsDyn/man/.Rd2dvi20266                    |only
 22 files changed, 427 insertions(+), 1174 deletions(-)

More information about tsDyn at CRAN
Permanent link

Package spgrass6 updated to version 0.6-9 with previous version 0.6-8 dated 2009-09-03

Author: Roger Bivand
Title: Interface between GRASS 6 geographical information system and R
Description: Interpreted interface between GRASS 6 geographical information system and R, based on starting R from within the GRASS environment, or running free-standing R in a temporary GRASS location; the package provides facilities for using all GRASS commands from the R command line.

Diff between spgrass6 versions 0.6-8 dated 2009-09-03 and 0.6-9 dated 2009-09-05

 ChangeLog        |   13 ++++++++++++-
 DESCRIPTION      |    8 ++++----
 R/xml1.R         |   15 +++++++++++++++
 R/zzz.R          |    1 +
 inst/ChangeLog   |   13 ++++++++++++-
 man/execGRASS.Rd |    7 +++++++
 man/initGRASS.Rd |    1 +
 7 files changed, 52 insertions(+), 6 deletions(-)

More information about spgrass6 at CRAN
Permanent link

Package mapReduce updated to version 1.02 with previous version 1.01 dated 2009-04-19

Author: Christopher Brown
Title: mapReduce - flexible mapReduce algorithm for parallel computation
Description: mapReduce is an algorithm provides a simple framework for parallel computations. This implementation provides (a) a pure R implementation (b) a syntax following the mapReduce paper and (c) flexible and parallelizable back end.

Diff between mapReduce versions 1.01 dated 2009-04-19 and 1.02 dated 2009-09-05

 mapReduce-1.01/mapReduce/Read-and-delete-me       |only
 mapReduce-1.02/mapReduce/ChangeLog                |    2 
 mapReduce-1.02/mapReduce/DESCRIPTION              |   10 ++--
 mapReduce-1.02/mapReduce/R/mapReduce.r            |   45 +++++++++-------------
 mapReduce-1.02/mapReduce/man/mapReduce-package.Rd |    6 +-
 5 files changed, 30 insertions(+), 33 deletions(-)

More information about mapReduce at CRAN
Permanent link

Package hash updated to version 0.40 with previous version 0.30 dated 2009-07-19

Author: Christopher Brown
Title: Implements hash/associated arrays/dictionaries
Description: This package implements a data structure similar to hashes in Perl and dictionaries in Python but with a purposefully R flavor.

Diff between hash versions 0.30 dated 2009-07-19 and 0.40 dated 2009-09-05

 hash-0.30/hash/hash_0.22.tar.gz    |only
 hash-0.30/hash/hash_0.23.tar.gz    |only
 hash-0.30/hash/hash_0.30.tar.gz    |only
 hash-0.40/hash/ChangeLog           |only
 hash-0.40/hash/DESCRIPTION         |   16 ++++++++--------
 hash-0.40/hash/R/get.R             |    6 ++++--
 hash-0.40/hash/R/invert.R          |only
 hash-0.40/hash/R/zzz.R             |only
 hash-0.40/hash/TODO                |    4 +++-
 hash-0.40/hash/man/get.Rd          |    3 ++-
 hash-0.40/hash/man/hash-package.Rd |    4 ++--
 hash-0.40/hash/man/invert.Rd       |only
 12 files changed, 19 insertions(+), 14 deletions(-)

More information about hash at CRAN
Permanent link

Package dcemri updated to version 0.10.5 with previous version 0.1.4 dated 2009-08-27

Author: Brandon Whitcher and Volker Schmid, with contributions from Andrew Thornton
Title: A Package for Medical Image Analysis
Description: A collection of routines and documentation that allows one to perform a quantitative analysis of dynamic contrast-enhanced or diffusion-weighted MRI data. Medical imaging data should be organized using either the Analyze or NIfTI data formats.

Diff between dcemri versions 0.1.4 dated 2009-08-27 and 0.10.5 dated 2009-09-05

 DESCRIPTION                        |   13 ++++++-------
 R/write.R                          |    9 +++++----
 inst/doc/dcemri.pdf                |binary
 man/dce_bayes.Rd                   |    2 +-
 man/dce_spline.Rd                  |    2 +-
 man/dcemri.Rd                      |    2 +-
 man/write.Rd                       |   11 ++++++++---
 tests/Examples/dcemri-Ex.Rout.save |   25 ++++++++++++++++++++++++-
 8 files changed, 46 insertions(+), 18 deletions(-)

More information about dcemri at CRAN
Permanent link

Fri, 04 Sep 2009

Package sdef updated to version 1.2 with previous version 1.1 dated 2009-08-19

Author: Alberto Cassese, Marta Blangiardo
Title: Synthesizing List of Differentially Expressed Features
Description: The package performs two tests to evaluate if the experiments are associated and returns a list of interesting features common to all the experiments.

Diff between sdef versions 1.1 dated 2009-08-19 and 1.2 dated 2009-09-04

 DESCRIPTION             |   15 +---
 R/extractGenes.R.R      |   12 +++
 R/extractGenes.T.R      |   12 ++-
 man/Tmc.Rd              |   52 +++++++++-----
 man/baymod.Rd           |  139 ++++++++++++++++++++++----------------
 man/createTable.Rd      |   36 ++++++---
 man/designCount.Rd      |    2 
 man/designMatrix.Rd     |   11 +--
 man/extractGenes.R.Rd   |  117 +++++++++++++++++++-------------
 man/extractGenes.T.Rd   |   53 +++++++++-----
 man/ratio.Rd            |  174 +++++++++++++++++++++++++++++++-----------------
 man/sdef-package.Rd     |   12 +--
 man/simulation.Rd       |   41 ++++++-----
 man/simulation.indep.Rd |   50 +++++++------
 14 files changed, 454 insertions(+), 272 deletions(-)

More information about sdef at CRAN
Permanent link

Package dplR updated to version 1.1.9.1 with previous version 1.1.9 dated 2009-06-17

Author: Andy Bunn
Title: Dendrochronology Program Library in R
Description: This package contains functions for performing some standard tree-ring analyses.

Diff between dplR versions 1.1.9 dated 2009-06-17 and 1.1.9.1 dated 2009-09-04

 DESCRIPTION    |    8 ++++----
 NAMESPACE      |    2 +-
 R/read.fh.R    |only
 man/detrend.Rd |    3 ++-
 man/read.fh.rd |only
 5 files changed, 7 insertions(+), 6 deletions(-)

More information about dplR at CRAN
Permanent link

Package boolean updated to version 2.0-1 with previous version 2.0-0 dated 2009-08-31

Author: Bear F. Braumoeller , Ben Goodrich , Jacob Kline
Title: Boolean Binary Response Models
Description: This package implements a partial-observability procedure for testing Boolean hypotheses that generalizes the binary response GLM.

Diff between boolean versions 2.0-0 dated 2009-08-31 and 2.0-1 dated 2009-09-04

 DESCRIPTION |    8 ++++----
 R/boolean.R |    5 ++++-
 2 files changed, 8 insertions(+), 5 deletions(-)

More information about boolean at CRAN
Permanent link

Package Rmpfr updated to version 0.1-6 with previous version 0.1-5 dated 2009-08-14

Author: Martin Maechler
Title: R MPFR - Multiple Precision Floating-Point Reliable
Description: The package aims at providing S4 classes and methods for arithmetic including transcendental ("special") functions for arbitrary precision floating point numbers. To this end, it interfaces to the LGPL'ed MPFR (Multiple Precision Floating-Point Reliable) Library which itself is based on the GMP (GNU Multiple Precision) Library.

Diff between Rmpfr versions 0.1-5 dated 2009-08-14 and 0.1-6 dated 2009-09-04

 ChangeLog                 |   41 +++++++
 DESCRIPTION               |   11 +
 R/Math.R                  |   20 ++-
 R/array.R                 |   11 +
 R/as.R                    |   25 +++-
 R/mpfr.R                  |  268 ++++++++++++++++++++++++----------------------
 R/special-fun.R           |    8 +
 TODO                      |   28 ++++
 man/atomicVector-class.Rd |    2 
 man/formatMpfr.Rd         |only
 man/is.whole.Rd           |only
 man/mpfr-class.Rd         |   60 +++++++++-
 man/mpfr-utils.Rd         |   15 ++
 man/mpfr.Rd               |    1 
 man/pmax.Rd               |    6 -
 man/seqMpfr.Rd            |    3 
 man/special-math.Rd       |   24 +++-
 man/utils.Rd              |   29 ++++
 src/Ops.c                 |    1 
 src/Rmpfr_utils.h         |    1 
 src/convert.c             |   53 ++++++---
 src/init.c                |    2 
 src/utils.c               |    1 
 tests/bit-repr.Rout.save  |   10 -
 tests/create.R            |    5 
 25 files changed, 436 insertions(+), 189 deletions(-)

More information about Rmpfr at CRAN
Permanent link

Package AICcmodavg updated to version 1.01 with previous version 1.0 dated 2009-09-03

Author: Marc J. Mazerolle . Special thanks to T. Ergon for the original idea of storing candidate models in a list.
Title: Model selection and multimodel inference based on (Q)AIC(c)
Description: This package includes functions to create model selection tables based on Akaike's information criterion (AIC) and the second-order AIC (AICc), as well as their quasi-likelihood counterparts (QAIC, QAICc). Tables are printed with delta AIC and Akaike weights. The package also includes functions to conduct model averaging (multimodel inference) for a given parameter of interest or predicted values. Other handy functions enable the computation of relative variable importance, evidence ratios, and confidence sets for the best model. The present version works with lm, glm, and lme object classes.

Diff between AICcmodavg versions 1.0 dated 2009-09-03 and 1.01 dated 2009-09-04

 DESCRIPTION               |    8 +--
 man/AICc.Rd               |    7 +--
 man/AICcmodavg-package.Rd |    4 -
 man/aictab.Rd             |   84 +++++++++++++++++++++---------------
 man/c_hat.Rd              |   25 ++++++----
 man/confset.Rd            |   86 +++++++++++++++++++++----------------
 man/dry.frog.Rd           |    3 -
 man/evidence.Rd           |   30 +++++++------
 man/importance.Rd         |   50 +++++++++++----------
 man/modavg.Rd             |  105 +++++++++++++++++++++++++++-------------------
 man/modavgpred.Rd         |  103 ++++++++++++++++++++++++---------------------
 11 files changed, 290 insertions(+), 215 deletions(-)

More information about AICcmodavg at CRAN
Permanent link

Package nlme updated to version 3.1-94 with previous version 3.1-93 dated 2009-08-16

Author: Jose Pinheiro (S version), Douglas Bates (up to 2007), Saikat DebRoy (up to 2002), Deepayan Sarkar (up to 2005), the R Core team.
Title: Linear and Nonlinear Mixed Effects Models
Description: Fit and compare Gaussian linear and nonlinear mixed-effects models.

Diff between nlme versions 3.1-93 dated 2009-08-16 and 3.1-94 dated 2009-09-04

 ChangeLog                  |    6 ++++++
 DESCRIPTION                |   16 ++++++++--------
 man/corExp.Rd              |    2 +-
 man/corGaus.Rd             |    2 +-
 man/corLin.Rd              |    2 +-
 man/corRatio.Rd            |    2 +-
 man/corSpatial.Rd          |    2 +-
 man/corSpher.Rd            |    2 +-
 man/glsControl.Rd          |    2 +-
 man/gnlsControl.Rd         |    2 +-
 man/lmeControl.Rd          |    2 +-
 man/pairs.compareFits.Rd   |    4 ++--
 man/pairs.lmList.Rd        |    4 ++--
 man/pairs.lme.Rd           |    4 ++--
 man/plot.ACF.Rd            |    2 +-
 man/plot.Variogram.Rd      |    4 +---
 man/plot.augPred.Rd        |    2 +-
 man/plot.gls.Rd            |    6 +++---
 man/plot.lmList.Rd         |    4 ++--
 man/plot.lme.Rd            |    4 ++--
 man/plot.nffGroupedData.Rd |    3 +--
 man/plot.nfnGroupedData.Rd |    2 +-
 man/plot.ranef.lmList.Rd   |    9 ++++-----
 tests/lmList.R             |only
 24 files changed, 45 insertions(+), 43 deletions(-)

More information about nlme at CRAN
Permanent link

Package boot updated to version 1.2-39 with previous version 1.2-38 dated 2009-08-05

Author: S original by Angelo Canty . R port by Brian Ripley .
Title: Bootstrap R (S-Plus) Functions (Canty)
Description: functions and datasets for bootstrapping from the book "Bootstrap Methods and Their Applications" by A. C. Davison and D. V. Hinkley (1997, CUP).

Diff between boot versions 1.2-38 dated 2009-08-05 and 1.2-39 dated 2009-09-04

 ChangeLog                        |    6 +++++-
 DESCRIPTION                      |    8 ++++----
 man/catsM.Rd                     |    4 ++--
 man/censboot.Rd                  |    2 +-
 man/motor.Rd                     |    4 ++--
 man/tsboot.Rd                    |    2 +-
 tests/Examples/boot-Ex.Rout.save |    2 --
 7 files changed, 15 insertions(+), 13 deletions(-)

More information about boot at CRAN
Permanent link

Package SigWinR updated to version 1.0.1 with previous version 1.0 dated 2009-06-16

Author: Wim de Leeuw
Title: SigWin-detector implementation in R
Description: Implementation of the SigWin-detector for the detection of regions of increased or decreased gene expression (RIDGEs and anti-RIDGES) in transcriptome maps and the presentation in so called RIDGEOGRAMs as described by Marcia A. Inda et al. [BMC Res Notes 2008; 1:63]

Diff between SigWinR versions 1.0 dated 2009-06-16 and 1.0.1 dated 2009-09-04

 DESCRIPTION            |    8 ++++----
 R/RidgePlot.R          |    6 +++---
 R/RidgeogramPlot.R     |   24 +++++++++++++++++++-----
 man/PosRidgeogram.Rd   |   19 +++++++++++++++----
 man/RidgePlot.Rd       |   10 ++++++----
 man/Ridgeogram.Rd      |    5 +++--
 man/RidgeogramPlot.Rd  |    8 ++++----
 man/Ridges.Rd          |   15 ++++++++++-----
 man/SigWin.Rd          |    2 +-
 man/SubRidgeogram.Rd   |    5 +++--
 man/rsigwin-package.Rd |    7 ++++---
 11 files changed, 72 insertions(+), 37 deletions(-)

More information about SigWinR at CRAN
Permanent link

Package KernSmooth updated to version 2.23-3 with previous version 2.23-2 dated 2009-05-24

Author: S original by Matt Wand. R port by Brian Ripley .
Title: Functions for kernel smoothing for Wand & Jones (1995)
Description: functions for kernel smoothing (and density estimation) corresponding to the book: Wand, M.P. and Jones, M.C. (1995) "Kernel Smoothing".

Diff between KernSmooth versions 2.23-2 dated 2009-05-24 and 2.23-3 dated 2009-09-04

 KernSmooth-2.23-2/KernSmooth/INDEX       |only
 KernSmooth-2.23-3/KernSmooth/DESCRIPTION |    8 ++++----
 KernSmooth-2.23-3/KernSmooth/PORTING     |   12 ++++++++++++
 KernSmooth-2.23-3/KernSmooth/man/dpih.Rd |    8 +++-----
 4 files changed, 19 insertions(+), 9 deletions(-)

More information about KernSmooth at CRAN
Permanent link

Package tau updated to version 0.0-3 with previous version 0.0-2 dated 2009-08-31

Author: Christian Buchta, Kurt Hornik, Ingo Feinerer, David Meyer
Title: Text Analysis Utilities
Description: Utilities for text analysis

Diff between tau versions 0.0-2 dated 2009-08-31 and 0.0-3 dated 2009-09-04

 CHANGELOG       |only
 DESCRIPTION     |    8 ++++----
 NAMESPACE       |    1 +
 R/encoding.R    |only
 R/sysdata.rda   |only
 R/translate.R   |   20 ++++++--------------
 man/encoding.Rd |only
 src/encoding.c  |only
 tests           |only
 9 files changed, 11 insertions(+), 18 deletions(-)

More information about tau at CRAN
Permanent link

Package simecol updated to version 0.6-9 with previous version 0.6-8 dated 2009-06-27

Author: Thomas Petzoldt
Title: Simulation of ecological (and other) dynamic systems
Description: simecol is an object oriented framework to simulate ecological (and other) dynamic systems. It can be used for differential equations, individual-based (or agent-based) and other models as well. The package helps to organize scenarios (avoids copy and paste) and improves readability and usability of code.

Diff between simecol versions 0.6-8 dated 2009-06-27 and 0.6-9 dated 2009-09-04

 DESCRIPTION                       |   12 ++++++------
 inst/doc/simecol-howtos.Rnw       |   17 ++++++++---------
 inst/doc/simecol-howtos.pdf       |binary
 inst/doc/simecol-introduction.pdf |binary
 man/as.simObj.Rd                  |    2 +-
 man/iteration.Rd                  |    2 +-
 man/pcuseries.Rd                  |    2 +-
 7 files changed, 17 insertions(+), 18 deletions(-)

More information about simecol at CRAN
Permanent link

Package rainbow updated to version 1.4 with previous version 1.3 dated 2009-08-06

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

Diff between rainbow versions 1.3 dated 2009-08-06 and 1.4 dated 2009-09-04

 rainbow-1.3/rainbow/R/lines.sfts.R             |only
 rainbow-1.3/rainbow/R/plot.sfts.R              |only
 rainbow-1.3/rainbow/R/points.sfts.r            |only
 rainbow-1.3/rainbow/man/lines.sfts.Rd          |only
 rainbow-1.3/rainbow/man/plot.sfts.Rd           |only
 rainbow-1.3/rainbow/man/points.sfts.Rd         |only
 rainbow-1.3/rainbow/man/sfts.Rd                |only
 rainbow-1.4/rainbow/CHANGELOG                  |    8 +++
 rainbow-1.4/rainbow/DESCRIPTION                |    8 +--
 rainbow-1.4/rainbow/NAMESPACE                  |    6 --
 rainbow-1.4/rainbow/R/Qn.r                     |    6 +-
 rainbow-1.4/rainbow/R/bbag.R                   |   10 ++--
 rainbow-1.4/rainbow/R/compute.bagplot.r        |   60 ++++++++++++-------------
 rainbow-1.4/rainbow/R/depth.FM.R               |    8 +--
 rainbow-1.4/rainbow/R/depth.RP.R               |   12 ++---
 rainbow-1.4/rainbow/R/depth.RPD.R              |    9 +--
 rainbow-1.4/rainbow/R/depth.mode.R             |   10 +---
 rainbow-1.4/rainbow/R/fbag.R                   |   15 ++----
 rainbow-1.4/rainbow/R/fdepth.R                 |    2 
 rainbow-1.4/rainbow/R/fhdr.R                   |   38 +++++++--------
 rainbow-1.4/rainbow/R/foutliers.R              |   16 +++---
 rainbow-1.4/rainbow/R/fts.R                    |    2 
 rainbow-1.4/rainbow/R/func.mean.R              |    4 -
 rainbow-1.4/rainbow/R/func.med.RPD.R           |    2 
 rainbow-1.4/rainbow/R/func.trimvar.RPD.R       |    2 
 rainbow-1.4/rainbow/R/func.trimvar.mode.R      |    2 
 rainbow-1.4/rainbow/R/func.var.R               |    2 
 rainbow-1.4/rainbow/R/hossjercroux.r           |    2 
 rainbow-1.4/rainbow/R/lines.fds.r              |   22 ++++-----
 rainbow-1.4/rainbow/R/matrix.rank.r            |    2 
 rainbow-1.4/rainbow/R/metri.p.r                |    2 
 rainbow-1.4/rainbow/R/outliers.depth.pond.R    |    8 +--
 rainbow-1.4/rainbow/R/outliers.depth.trim.R    |   13 ++---
 rainbow-1.4/rainbow/R/outliers.lrt.R           |   24 +++++-----
 rainbow-1.4/rainbow/R/outliers.thres.lrt.R     |   24 +++++-----
 rainbow-1.4/rainbow/R/plot.bagplot.R           |   38 +++++++--------
 rainbow-1.4/rainbow/R/plot.fdepth.R            |    3 -
 rainbow-1.4/rainbow/R/plot.fds.R               |   31 ++++++------
 rainbow-1.4/rainbow/R/points.fds.r             |   24 +++++-----
 rainbow-1.4/rainbow/R/print.fds.R              |    2 
 rainbow-1.4/rainbow/R/print.fts.R              |    2 
 rainbow-1.4/rainbow/R/print.sfts.r             |    2 
 rainbow-1.4/rainbow/R/quantile.outliers.pond.R |   14 ++---
 rainbow-1.4/rainbow/R/quantile.outliers.trim.R |   14 ++---
 rainbow-1.4/rainbow/R/rapca.R                  |    2 
 rainbow-1.4/rainbow/R/robout.R                 |    6 +-
 rainbow-1.4/rainbow/R/rstep.r                  |    4 -
 rainbow-1.4/rainbow/R/sfts.R                   |   56 ++++++++++++-----------
 rainbow-1.4/rainbow/data/ElNino.rda            |binary
 rainbow-1.4/rainbow/man/Australiafertility.Rd  |    2 
 rainbow-1.4/rainbow/man/ElNino.Rd              |    2 
 rainbow-1.4/rainbow/man/Francemortality.Rd     |    2 
 rainbow-1.4/rainbow/man/fboxplot.Rd            |    2 
 rainbow-1.4/rainbow/man/fdepth.Rd              |    2 
 rainbow-1.4/rainbow/man/fds.Rd                 |   16 ++++++
 rainbow-1.4/rainbow/man/foutliers.Rd           |    2 
 rainbow-1.4/rainbow/man/lines.fds.Rd           |    2 
 rainbow-1.4/rainbow/man/plot.fds.Rd            |    4 +
 rainbow-1.4/rainbow/man/points.fds.Rd          |    2 
 59 files changed, 285 insertions(+), 268 deletions(-)

More information about rainbow at CRAN
Permanent link

Package Iso updated to version 0.0-7 with previous version 0.0-6 dated 2008-11-28

Author: Rolf Turner
Title: Functions to perform isotonic regression.
Description: Does linear order and unimodal order isotonic regression.

Diff between Iso versions 0.0-6 dated 2008-11-28 and 0.0-7 dated 2009-09-04

 DESCRIPTION     |   12 +++++++-----
 NAMESPACE       |only
 R/First.R       |    6 ++----
 inst/change.log |only
 4 files changed, 9 insertions(+), 9 deletions(-)

More information about Iso at CRAN
Permanent link

Package BioIDMapper updated to version 1.2 with previous version 1.1 dated 2009-02-16

Author: Xiaoyong Sun
Title: Mapping between BioIDs
Description: facilitate mapping between different databases, integrate various ID systems and provide a full view from gene level, mRNA level and functional level regarding one specific ID. The mapping system is based on NCBI and UniProt web service.

Diff between BioIDMapper versions 1.1 dated 2009-02-16 and 1.2 dated 2009-09-04

 BioIDMapper-1.1/BioIDMapper/Rinst604863912             |only
 BioIDMapper-1.1/BioIDMapper/Rutils438456933            |only
 BioIDMapper-1.2/BioIDMapper/DESCRIPTION                |   34 +++++++++--------
 BioIDMapper-1.2/BioIDMapper/R/bio.convert.R            |    2 -
 BioIDMapper-1.2/BioIDMapper/R/parse1.R                 |   29 +++++++++-----
 BioIDMapper-1.2/BioIDMapper/R/updateTerm.R             |    2 -
 BioIDMapper-1.2/BioIDMapper/inst/doc/BioIDMapper.pdf   |binary
 BioIDMapper-1.2/BioIDMapper/inst/doc/BioIDMapper.rnw   |    8 ++--
 BioIDMapper-1.2/BioIDMapper/inst/setup/BioIDMapper.xml |    2 -
 9 files changed, 44 insertions(+), 33 deletions(-)

More information about BioIDMapper at CRAN
Permanent link

Thu, 03 Sep 2009

New package frbf with initial version 0.9
Package: frbf
Type: Package
Title: Implementation of the "Flexible kernels for RBF network" algorithm
Version: 0.9
Date: 2009-08-31
Author: Fernando Martins
Maintainer: Fernando Martins
Description: Flexible kernerl for radial basis function network implementation.
License: LGPL
LazyLoad: yes
Depends: methods
Packaged: Thu Sep 3 19:45:42 2009; root
Repository: CRAN
Date/Publication: 2009-09-03 19:31:56

More information about frbf at CRAN
Permanent link

Package TeachingSampling updated to version 1.0.2 with previous version 0.8.1 dated 2009-05-24

Author: Hugo Andres Gutierrez Rojas
Title: Sampling designs and parameter estimation in finite population
Description: Foundations of inference in survey sampling

Diff between TeachingSampling versions 0.8.1 dated 2009-05-24 and 1.0.2 dated 2009-09-03

 DESCRIPTION       |    8 +-
 R/E.PPS.r         |    2 
 R/E.STPPS.r       |    2 
 R/HH.r            |    2 
 R/OrderWR.r       |only
 R/PikHol.r        |only
 R/Wk.r            |   23 +++---
 man/Domains.rd    |    6 -
 man/E.2SI.rd      |   15 ++--
 man/E.BE.rd       |    6 -
 man/E.Beta.rd     |    4 -
 man/E.PO.rd       |    6 -
 man/E.PPS.rd      |    6 -
 man/E.Quantile.rd |    6 -
 man/E.SI.rd       |    6 -
 man/E.STPPS.rd    |    6 -
 man/E.STSI.rd     |    6 -
 man/E.SY.rd       |    6 -
 man/E.WR.rd       |    6 -
 man/E.piPS.rd     |   13 ++-
 man/GREG.SI.rd    |    6 -
 man/HH.rd         |    6 -
 man/HT.rd         |    6 -
 man/IPFP.rd       |    4 -
 man/Ik.rd         |    6 -
 man/Lucy.rd       |    4 -
 man/Marco.rd      |    4 -
 man/OrderWR.r.rd  |only
 man/Pik.rd        |    6 -
 man/PikHol.rd     |only
 man/S.BE.rd       |    8 +-
 man/S.PO.rd       |    6 -
 man/S.PPS.rd      |    6 -
 man/S.SI.rd       |    6 -
 man/S.STPPS.rd    |    6 -
 man/S.STSI.rd     |    6 -
 man/S.SY.rd       |    4 -
 man/S.WR.rd       |    6 -
 man/S.piPS.rd     |    6 -
 man/Support.rd    |    6 -
 man/T.SIC.rd      |    6 -
 man/Wk.rd         |  180 ++++++++++++++++++++++++++++++++++++++----------------
 42 files changed, 247 insertions(+), 170 deletions(-)

More information about TeachingSampling at CRAN
Permanent link

Package gputools updated to version 0.1-3 with previous version 0.1-1 dated 2009-06-25

Author: Josh Buckner
Title: A few GPU enabled functions
Description: This package provides R interfaces to a handful of common statistical algorithms. These algorithms are implemented in parallel using a mixture of nVidia's CUDA langauge and CUBLAS library. On a computer equiped with an nVidia GPU some of these functions may be substantially more efficient than native R routines.

Diff between gputools versions 0.1-1 dated 2009-06-25 and 0.1-3 dated 2009-09-03

 gputools-0.1-1/gputools/R/gpuCor.R.in         |only
 gputools-0.1-1/gputools/R/gpuGranger.R.in     |only
 gputools-0.1-1/gputools/R/gpuHclust.R.in      |only
 gputools-0.1-1/gputools/R/gpuLr.R.in          |only
 gputools-0.1-1/gputools/R/gpuMatMult.R.in     |only
 gputools-0.1-1/gputools/R/gpuMi.R.in          |only
 gputools-0.1-1/gputools/R/gpuQr.R.in          |only
 gputools-0.1-1/gputools/README                |only
 gputools-0.1-1/gputools/man/gpuLr.Rd          |only
 gputools-0.1-1/gputools/src/nocuda.c          |only
 gputools-0.1-1/gputools/src/nocuda.h          |only
 gputools-0.1-3/gputools/DESCRIPTION           |    8 
 gputools-0.1-3/gputools/INSTALL               |only
 gputools-0.1-3/gputools/NAMESPACE             |    4 
 gputools-0.1-3/gputools/NEWS                  |only
 gputools-0.1-3/gputools/R/chooseGpu.R         |only
 gputools-0.1-3/gputools/R/fake.R              |only
 gputools-0.1-3/gputools/R/getGpuId.R          |only
 gputools-0.1-3/gputools/R/gpuCor.R            |only
 gputools-0.1-3/gputools/R/gpuGranger.R        |only
 gputools-0.1-3/gputools/R/gpuHclust.R         |only
 gputools-0.1-3/gputools/R/gpuMatMult.R        |only
 gputools-0.1-3/gputools/R/gpuMi.R             |only
 gputools-0.1-3/gputools/R/gpuQr.R             |only
 gputools-0.1-3/gputools/R/gpuSolve.R          |only
 gputools-0.1-3/gputools/R/gpuSvm.R.in         |   16 -
 gputools-0.1-3/gputools/cleanup               |    2 
 gputools-0.1-3/gputools/configure             |  243 ++++++++++++++-
 gputools-0.1-3/gputools/configure.ac          |   81 ++++-
 gputools-0.1-3/gputools/man/chooseGpu.Rd      |only
 gputools-0.1-3/gputools/man/getAucEstimate.Rd |    4 
 gputools-0.1-3/gputools/man/getGpuId.Rd       |only
 gputools-0.1-3/gputools/man/gpuCor.Rd         |   40 +-
 gputools-0.1-3/gputools/man/gpuDist.Rd        |    4 
 gputools-0.1-3/gputools/man/gpuDistClust.Rd   |   10 
 gputools-0.1-3/gputools/man/gpuGranger.Rd     |   23 -
 gputools-0.1-3/gputools/man/gpuHclust.Rd      |   17 -
 gputools-0.1-3/gputools/man/gpuMi.Rd          |   10 
 gputools-0.1-3/gputools/man/gpuQr.Rd          |   44 +-
 gputools-0.1-3/gputools/man/gpuSolve.Rd       |   32 +-
 gputools-0.1-3/gputools/man/gpuSvmPredict.Rd  |   12 
 gputools-0.1-3/gputools/man/gpuSvmTrain.Rd    |   14 
 gputools-0.1-3/gputools/man/gpuTtest.Rd       |    3 
 gputools-0.1-3/gputools/src/Makefile.in       |   36 +-
 gputools-0.1-3/gputools/src/classification.cu |   57 +++
 gputools-0.1-3/gputools/src/classification.h  |   18 +
 gputools-0.1-3/gputools/src/correlation.cu    |  315 ++++++++++++--------
 gputools-0.1-3/gputools/src/correlation.h     |    4 
 gputools-0.1-3/gputools/src/cuseful.cu        |   37 +-
 gputools-0.1-3/gputools/src/cuseful.h         |   12 
 gputools-0.1-3/gputools/src/fake.c            |only
 gputools-0.1-3/gputools/src/granger.cu        |   49 ++-
 gputools-0.1-3/gputools/src/hcluster.cu       |  154 +++++----
 gputools-0.1-3/gputools/src/kendall.cu        |only
 gputools-0.1-3/gputools/src/kendall.h         |only
 gputools-0.1-3/gputools/src/lr.cu             |   67 ++--
 gputools-0.1-3/gputools/src/matmult.cu        |   17 -
 gputools-0.1-3/gputools/src/mi.cu             |    9 
 gputools-0.1-3/gputools/src/qrdecomp.cu       |  405 +++++++++++++++++++++++---
 gputools-0.1-3/gputools/src/qrdecomp.h        |    7 
 gputools-0.1-3/gputools/src/rinterface.cu     |  131 +++++---
 gputools-0.1-3/gputools/src/rinterface.h      |   33 +-
 gputools-0.1-3/gputools/src/sort.cu           |    5 
 gputools-0.1-3/gputools/tools                 |only
 64 files changed, 1373 insertions(+), 550 deletions(-)

More information about gputools at CRAN
Permanent link

Package etm updated to version 0.4-6 with previous version 0.4-3 dated 2009-06-14

Author: Arthur Allignol
Title: Empirical Transition Matrix
Description: Matrix of transition probabilities for any time-inhomogeneous multistate model with finite state space

Diff between etm versions 0.4-3 dated 2009-06-14 and 0.4-6 dated 2009-09-03

 ChangeLog             |   27 +++++++++++++++++++++++++++
 DESCRIPTION           |    8 ++++----
 NAMESPACE             |    4 +++-
 R/ci.transfo.R        |   33 +++++++++++++++++----------------
 R/clos.R              |   28 ++++++++++++++++++++++++----
 R/etm.R               |   32 ++++++++++++++++++++------------
 R/extract.R           |only
 R/print.etm.R         |    2 +-
 R/print.summary.etm.R |    2 +-
 R/transfoData.R       |only
 R/xyplot.etm.R        |    6 +++++-
 man/etm.Rd            |   12 ++++++------
 man/etmprep.Rd        |only
 man/plot.clos.etm.Rd  |    8 ++++----
 man/print.etm.Rd      |    2 +-
 man/sir.cont.Rd       |    2 +-
 man/summary.etm.Rd    |   12 ++++++++----
 man/trprob_trcov.Rd   |only
 man/xyplot.etm.Rd     |   12 ++++++++----
 tests                 |only
 20 files changed, 130 insertions(+), 60 deletions(-)

More information about etm at CRAN
Permanent link

Package rgdal updated to version 0.6-17 with previous version 0.6-14 dated 2009-08-19

Author: Timothy H. Keitt , Roger Bivand , Edzer Pebesma , Barry Rowlingson
Title: Bindings for the Geospatial Data Abstraction Library
Description: Provides bindings to Frank Warmerdam's Geospatial Data Abstraction Library (GDAL) (>= 1.3.1) and access to projection/transformation operations from the PROJ.4 library. The GDAL and PROJ.4 libraries are external to the package, and, when installing the package from source, must be correctly installed first. Both GDAL raster and OGR vector map data can be imported into R, and GDAL raster data and OGR vector data exported. Use is made of classes defined in the sp package.

Diff between rgdal versions 0.6-14 dated 2009-08-19 and 0.6-17 dated 2009-09-03

 ChangeLog                   |   22 +++++++++++-
 DESCRIPTION                 |    8 ++--
 NAMESPACE                   |    1 
 R/gdal.R                    |    4 +-
 R/sp_gdal.R                 |   79 +++++++++++++++++++++++++++++++++-----------
 inst/ChangeLog              |   22 +++++++++++-
 man/GDALRasterBand-class.Rd |   12 ++++++
 man/SpatialGDAL-class.Rd    |    4 +-
 man/readGDAL.Rd             |    4 +-
 man/showWKT.Rd              |    2 -
 src/gdal-bindings.cpp       |   66 +++++++++++++++++++++++++++++++++++-
 11 files changed, 192 insertions(+), 32 deletions(-)

More information about rgdal at CRAN
Permanent link

Package feature updated to version 1.2.4 with previous version 1.2.3 dated 2009-04-14

Author: Tarn Duong & Matt Wand
Title: Feature significance for multivariate kernel density estimation
Description: Feature significance for multivariate kernel density estimation

Diff between feature versions 1.2.3 dated 2009-04-14 and 1.2.4 dated 2009-09-03

 feature-1.2.3/feature/R-future               |only
 feature-1.2.4/feature/DESCRIPTION            |    8 ++++----
 feature-1.2.4/feature/R/SignifFeatureData.R  |   10 ++++++----
 feature-1.2.4/feature/R/featureSignif.R      |    2 +-
 feature-1.2.4/feature/inst/doc/feature.pdf   |binary
 feature-1.2.4/feature/man/feature-package.Rd |    2 +-
 6 files changed, 12 insertions(+), 10 deletions(-)

More information about feature at CRAN
Permanent link

Package exams updated to version 1.0-2 with previous version 1.0-1 dated 2009-06-24

Author: Achim Zeileis, Bettina Gruen
Title: Automatic Generation of Standardized Exams for Large-Lecture Courses
Description: Sweave-based automatic generation of exams with multiple-choice questions and arithmetic problems.

Diff between exams versions 1.0-1 dated 2009-06-24 and 1.0-2 dated 2009-09-03

 DESCRIPTION        |    8 ++++----
 NEWS               |    6 ++++++
 R/exams.R          |   32 ++++++++++++++++++++++++++------
 inst/doc/exams.Rnw |   22 ++++++++++++++--------
 inst/doc/exams.pdf |binary
 man/exams.Rd       |   10 ++++++++--
 6 files changed, 58 insertions(+), 20 deletions(-)

More information about exams at CRAN
Permanent link

Package Rcplex updated to version 0.2-3 with previous version 0.2-2 dated 2009-07-18

Author: Hector Corrada Bravo, with contributions from Stefan Theussl
Title: R interface to CPLEX
Description: R interface to CPLEX solvers for linear, quadratic, and (linear and quadratic) mixed integer programs. A working installation of CPLEX is required for usage of the Rcplex package. See the file "INSTALL" for details on how to install the Rcplex package in Linux/Unix-like systems and Windows systems. Support for sparse matrices is provided by an S3-style class "simple_triplet_matrix" from package slam and by objects from the Matrix package class hierarchy.

Diff between Rcplex versions 0.2-2 dated 2009-07-18 and 0.2-3 dated 2009-09-03

 DESCRIPTION |   10 ++++------
 inst/NEWS   |   35 +++++++++++++++++++++++++++++------
 2 files changed, 33 insertions(+), 12 deletions(-)

More information about Rcplex at CRAN
Permanent link

New package AICcmodavg with initial version 1.0
Package: AICcmodavg
Type: Package
Title: Model selection and multimodel inference based on (Q)AIC(c)
Version: 1.0
Date: 2009-07-24
Author: Marc J. Mazerolle . Special thanks to T. Ergon for the original idea of storing candidate models in a list.
Maintainer: Marc J. Mazerolle
Depends: nlme, MASS
Description: This package includes functions to create model selection tables based on Akaike's information criterion (AIC) and the second-order AIC (AICc), as well as their quasi-likelihood counterparts (QAIC, QAICc). Tables are printed with delta AIC and Akaike weights. The package also includes functions to conduct model averaging (multimodel inference) for a given parameter of interest or predicted values. Other handy functions enable the computation of relative variable importance, evidence ratios, and confidence sets for the best model. The present version works with lm, glm, and lme object classes.
License: GPL (>= 2 )
LazyLoad: yes
Packaged: 2009-09-03 13:24:11 UTC; mazerolm
Repository: CRAN
Date/Publication: 2009-09-03 13:49:01

More information about AICcmodavg at CRAN
Permanent link

Package ttrTests updated to version 1.1 with previous version 1.0 dated 2009-08-19

Author: David St John
Title: Standard Backtests for Technical Trading Rules in Financial Data
Description: Four core functions evaluate the efficacy of a technical trading rule. Conditional return statistics, Bootstrap resampling statistics, Test for data snooping bias among parameter choices, and Robustness of parameter choices

Diff between ttrTests versions 1.0 dated 2009-08-19 and 1.1 dated 2009-09-03

 ttrTests-1.0/ttrTests/R/realityCheck.R        |only
 ttrTests-1.0/ttrTests/man/realityCheck.Rd     |only
 ttrTests-1.1/ttrTests/DESCRIPTION             |   15 +-
 ttrTests-1.1/ttrTests/R/cReturns.R            |   13 ++
 ttrTests-1.1/ttrTests/R/dataSnoop.R           |only
 ttrTests-1.1/ttrTests/R/defaults.R            |   22 ++--
 ttrTests-1.1/ttrTests/R/deleteNA.R            |only
 ttrTests-1.1/ttrTests/R/nullModel.R           |   52 ++++++++--
 ttrTests-1.1/ttrTests/R/paramPersist.R        |   75 ++++++++++----
 ttrTests-1.1/ttrTests/R/paramStats.R          |  134 +++++++++++++++++++++-----
 ttrTests-1.1/ttrTests/R/returnStats.R         |   72 ++++++++++++-
 ttrTests-1.1/ttrTests/man/dataSnoop.Rd        |only
 ttrTests-1.1/ttrTests/man/defaults.Rd         |    4 
 ttrTests-1.1/ttrTests/man/deleteNA.Rd         |only
 ttrTests-1.1/ttrTests/man/generateSample.Rd   |    5 
 ttrTests-1.1/ttrTests/man/nullModel.Rd        |    9 +
 ttrTests-1.1/ttrTests/man/paramPersist.Rd     |   41 +++----
 ttrTests-1.1/ttrTests/man/paramStats.Rd       |   35 ++++--
 ttrTests-1.1/ttrTests/man/returnStats.Rd      |    6 -
 ttrTests-1.1/ttrTests/man/ttrTests-package.Rd |   30 +++--
 20 files changed, 383 insertions(+), 130 deletions(-)

More information about ttrTests at CRAN
Permanent link

Package spgrass6 updated to version 0.6-8 with previous version 0.6-7 dated 2009-08-16

Author: Roger Bivand
Title: Interface between GRASS 6 geographical information system and R
Description: Interpreted interface between GRASS 6 geographical information system and R, based on starting R from within the GRASS environment, or running free-standing R in a temporary GRASS location; the package provides facilities for using all GRASS commands from the R command line.

Diff between spgrass6 versions 0.6-7 dated 2009-08-16 and 0.6-8 dated 2009-09-03

 DESCRIPTION |    8 ++++----
 R/xml1.R    |   33 +++++++++++++++++++++++++++------
 2 files changed, 31 insertions(+), 10 deletions(-)

More information about spgrass6 at CRAN
Permanent link

Package skmeans updated to version 0.1-1 with previous version 0.1 dated 2009-08-13

Author: Kurt Hornik, Ingo Feinerer, Martin Kober
Title: Spherical k-Means Clustering
Description: Algorithms to compute spherical k-means partitions. Features several methods, including a genetic and a simple fixed-point algorithm and an interface to the CLUTO vcluster program.

Diff between skmeans versions 0.1 dated 2009-08-13 and 0.1-1 dated 2009-09-03

 DESCRIPTION    |    6 +--
 R/skmeans.R    |   91 +++++++++++++++++++++++++++++++++++++--------------------
 man/cluto.Rd   |    7 ++--
 man/skmeans.Rd |   54 +++++++++++++++++++--------------
 4 files changed, 98 insertions(+), 60 deletions(-)

More information about skmeans at CRAN
Permanent link

Package simFrame updated to version 0.1.1 with previous version 0.1 dated 2009-08-13

Author: Andreas Alfons
Title: Simulation Framework
Description: A general framework for statistical simulation.

Diff between simFrame versions 0.1 dated 2009-08-13 and 0.1.1 dated 2009-09-03

 DESCRIPTION                         |    8 +++---
 NEWS                                |only
 R/cluster.R                         |    6 ++---
 R/clusterRunSimulation.R            |    6 ++---
 R/clusterSetup.R                    |    6 ++---
 R/runSimulation.R                   |   42 ++++++++++++++++++++++++++++++++++++
 R/simApply.R                        |    6 ++---
 R/simBwplot.R                       |   15 +++++++++---
 R/simDensityplot.R                  |   21 ++++++++++++------
 R/simSapply.R                       |    6 ++---
 R/simXyplot.R                       |   16 +++++++++----
 data/eusilc.RData                   |binary
 man/DCARContControl-class.Rd        |   11 +++++----
 man/DataControl-class.Rd            |    2 -
 man/clusterRunSimulation-methods.Rd |    7 ++----
 man/clusterRunSimulation.Rd         |    3 +-
 man/clusterSetup.Rd                 |    3 +-
 man/eusilc.Rd                       |   12 +++++-----
 man/simBwplot-methods.Rd            |    9 +++++--
 man/simBwplot.Rd                    |    2 -
 man/simDensityplot-methods.Rd       |    9 +++++--
 man/simDensityplot.Rd               |    2 -
 man/simFrame-package.Rd             |    4 +--
 man/simXyplot-methods.Rd            |    5 +++-
 24 files changed, 137 insertions(+), 64 deletions(-)

More information about simFrame at CRAN
Permanent link

Package phmm updated to version 0.6 with previous version 0.5 dated 2009-03-19

Author: Michael Donohue, Ronghui Xu
Title: Proportional Hazards Mixed-effects Model (PHMM)
Description: Fits proportional hazards model incorporating random effects using an EM agorithm using Markov Chain Monte Carlo at E-step.

Diff between phmm versions 0.5 dated 2009-03-19 and 0.6 dated 2009-09-03

 DESCRIPTION      |   10 +++++-----
 NAMESPACE        |    1 +
 R/phmm.R         |   10 ++++++++++
 R/phmm.design.R  |    5 ++++-
 man/phmm.Rd      |   13 ++++++++++---
 man/plot.phmm.Rd |only
 6 files changed, 30 insertions(+), 9 deletions(-)

More information about phmm at CRAN
Permanent link

Package orientlib updated to version 0.9.3 with previous version 0.9.2 dated 2009-05-29

Author: Duncan Murdoch
Title: Support for orientation data
Description: Representations, conversions and display of orientation SO(3) data. See the orientlib help topic for details.

Diff between orientlib versions 0.9.2 dated 2009-05-29 and 0.9.3 dated 2009-09-03

 DESCRIPTION      |    6 +--
 NEWS             |   87 +++++++++++++++++++++++++++++++------------------------
 man/boat3d.Rd    |    8 ++---
 man/orientlib.Rd |    4 +-
 man/orientlm.Rd  |    4 +-
 5 files changed, 61 insertions(+), 48 deletions(-)

More information about orientlib at CRAN
Permanent link

Package longitudinalData updated to version 0.6 with previous version 0.5 dated 2009-06-10

Author: Christophe Genolini
Title: Longitudinal Data
Description: Tools for Longitudinal Data

Diff between longitudinalData versions 0.5 dated 2009-06-10 and 0.6 dated 2009-09-03

 DESCRIPTION              |    8 ++---
 NAMESPACE                |only
 R/function.r             |    4 ++
 R/longData.r             |    2 -
 R/partition.r            |   16 +++++++++-
 R/plotLongData.r         |    2 -
 man/LongData-class.Rd    |    2 -
 man/imputation.Rd        |   47 ++++++++++++++---------------
 man/longData-internal.Rd |   74 ++++++++++++++++++++++++++++-------------------
 man/ordered.Rd           |only
 testsDev/testLongData.r  |    4 ++
 testsDev/testPartition.r |   10 ++++--
 12 files changed, 105 insertions(+), 64 deletions(-)

More information about longitudinalData at CRAN
Permanent link

New package lemma with initial version 1.2-1
Package: lemma
Version: 1.2-1
Date: 2009-08-12
Title: Laplace approximated EM Microarray Analysis
Author: Haim Bar, Elizabeth Schifano.
Maintainer: Haim Bar
Description: LEMMA is used to detect "nonnull genes" - genes for which the average response in treatment group 1 is significantly different from the average response in group 2, in normalized microarray data. LEMMA is an implementation of an approximate EM algorithm to estimate the parameters in the assumed linear model in Bar, Booth, Schifano, Wells (2009).
License: GPL (>= 2)
URL: http://www.stat.cornell.edu/lemma
Packaged: Mon Aug 31 21:56:28 2009; barhaim
Repository: CRAN
Date/Publication: 2009-09-03 09:25:33

More information about lemma at CRAN
Permanent link

Package gnumeric updated to version 0.5-2 with previous version 0.5-1 dated 2009-08-20

Author: Karoly Antal .
Title: Read data from files readable by gnumeric
Description: Read data files readable by gnumeric into R. Can read whole sheet or a range, from several file formats, including the native format of gnumeric. Reading is done by using ssconvert (a file converter utility included in the gnumeric distribution http://projects.gnome.org/gnumeric/) to convert the requested part to CSV.

Diff between gnumeric versions 0.5-1 dated 2009-08-20 and 0.5-2 dated 2009-09-03

 DESCRIPTION                |   24 ++++++++++-----------
 R/read.gnumeric.R          |   10 +++++++-
 man/read.gnumeric.sheet.Rd |   51 ++++++++++++++++++++++++++-------------------
 3 files changed, 51 insertions(+), 34 deletions(-)

More information about gnumeric at CRAN
Permanent link

Package epicalc updated to version 2.9.2.0 with previous version 2.9.1.7 dated 2009-08-25

Author: Virasakdi Chongsuvivatwong
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.

Diff between epicalc versions 2.9.1.7 dated 2009-08-25 and 2.9.2.0 dated 2009-09-03

 DESCRIPTION |    8 ++++----
 R/epicalc.R |    4 ++--
 2 files changed, 6 insertions(+), 6 deletions(-)

More information about epicalc at CRAN
Permanent link

Package drc updated to version 1.7-7 with previous version 1.7-2 dated 2009-07-18

Author: Christian Ritz , Jens Strebig
Title: Analysis of dose-response curves
Description: Analysis of one or multiple curves with focus on concentration-response, dose-response and time-response curves used, for example in biology, environmental sciences, medicine, pharmacology, toxicology.

Diff between drc versions 1.7-2 dated 2009-07-18 and 1.7-7 dated 2009-09-03

 drc-1.7-2/drc/R/comped.R        |only
 drc-1.7-2/drc/R/contAnovaTest.R |only
 drc-1.7-2/drc/man/comped.Rd     |only
 drc-1.7-7/drc/DESCRIPTION       |    8 ++++----
 drc-1.7-7/drc/NAMESPACE         |    4 +++-
 drc-1.7-7/drc/NEWS              |   16 ++++++++++++++--
 drc-1.7-7/drc/R/cedergreen.R    |    4 +---
 drc-1.7-7/drc/R/drmLOFls.R      |   12 +++++++++++-
 drc-1.7-7/drc/R/maED.R          |   37 ++++++++++++++++++++++++-------------
 drc-1.7-7/drc/R/modelFit.R      |    4 ++++
 drc-1.7-7/drc/R/nec.R           |only
 drc-1.7-7/drc/R/showNews.R      |    3 ++-
 drc-1.7-7/drc/R/twophase.R      |only
 drc-1.7-7/drc/R/ucedergreen.R   |   12 ++++++------
 drc-1.7-7/drc/man/CRS.5a.Rd     |    9 ++++++---
 drc-1.7-7/drc/man/ED.drc.Rd     |   15 ++++++++-------
 drc-1.7-7/drc/man/W2.Rd         |    1 +
 drc-1.7-7/drc/man/W4.Rd         |   23 ++++++++++++++++++++---
 drc-1.7-7/drc/man/anova.drc.Rd  |    2 +-
 drc-1.7-7/drc/man/maED.Rd       |    4 +++-
 drc-1.7-7/drc/man/ryegrass.Rd   |   20 +++++++++++---------
 drc-1.7-7/drc/man/secalonic.Rd  |   29 ++++++++++++++++++-----------
 drc-1.7-7/drc/man/twophase.Rd   |only
 23 files changed, 137 insertions(+), 66 deletions(-)

More information about drc at CRAN
Permanent link

Package betareg updated to version 2.0-0 with previous version 1.2 dated 2006-07-12

Author: Achim Zeileis
Title: Beta Regression
Description: Beta regression for modeling rates and proportions.

Diff between betareg versions 1.2 dated 2006-07-12 and 2.0-0 dated 2009-09-03

 betareg-1.2/betareg/R/anova.betareg.R             |only
 betareg-1.2/betareg/R/br.fit.R                    |only
 betareg-1.2/betareg/R/cooks.distance.betareg.R    |only
 betareg-1.2/betareg/R/df.residual.betareg.R       |only
 betareg-1.2/betareg/R/envelope.beta.R             |only
 betareg-1.2/betareg/R/estfun.betareg.R            |only
 betareg-1.2/betareg/R/gen.lev.betareg.R           |only
 betareg-1.2/betareg/R/hatvalues.betareg.R         |only
 betareg-1.2/betareg/R/logLik.betareg.R            |only
 betareg-1.2/betareg/R/predict.betareg.R           |only
 betareg-1.2/betareg/R/residuals.betareg.R         |only
 betareg-1.2/betareg/R/summary.betareg.R           |only
 betareg-1.2/betareg/R/vcov.betareg.R              |only
 betareg-1.2/betareg/data/prater.rda               |only
 betareg-1.2/betareg/data/pratergrouped.rda        |only
 betareg-1.2/betareg/man/anova.betareg.Rd          |only
 betareg-1.2/betareg/man/br.fit.Rd                 |only
 betareg-1.2/betareg/man/cooks.distance.betareg.Rd |only
 betareg-1.2/betareg/man/df.residual.betareg.Rd    |only
 betareg-1.2/betareg/man/envelope.beta.Rd          |only
 betareg-1.2/betareg/man/estfun.betareg.Rd         |only
 betareg-1.2/betareg/man/gen.lev.betareg.Rd        |only
 betareg-1.2/betareg/man/hatvalues.betareg.Rd      |only
 betareg-1.2/betareg/man/logLik.betareg.Rd         |only
 betareg-1.2/betareg/man/prater.Rd                 |only
 betareg-1.2/betareg/man/pratergrouped.Rd          |only
 betareg-1.2/betareg/man/vcov.betareg.Rd           |only
 betareg-2.0-0/betareg/DESCRIPTION                 |   18 
 betareg-2.0-0/betareg/NAMESPACE                   |only
 betareg-2.0-0/betareg/NEWS                        |only
 betareg-2.0-0/betareg/R/betareg.R                 |  488 +++++++++++++++++++---
 betareg-2.0-0/betareg/R/leverage.R                |only
 betareg-2.0-0/betareg/R/plot.betareg.R            |  153 ++++--
 betareg-2.0-0/betareg/data/FoodExpenditure.rda    |only
 betareg-2.0-0/betareg/data/GasolineYield.rda      |only
 betareg-2.0-0/betareg/inst                        |only
 betareg-2.0-0/betareg/man/FoodExpenditure.Rd      |only
 betareg-2.0-0/betareg/man/GasolineYield.Rd        |only
 betareg-2.0-0/betareg/man/betareg.Rd              |  143 +++++-
 betareg-2.0-0/betareg/man/betareg.control.Rd      |only
 betareg-2.0-0/betareg/man/gleverage.Rd            |only
 betareg-2.0-0/betareg/man/plot.betareg.Rd         |   63 +-
 betareg-2.0-0/betareg/man/predict.betareg.Rd      |   50 +-
 betareg-2.0-0/betareg/man/residuals.betareg.Rd    |   68 ++-
 betareg-2.0-0/betareg/man/summary.betareg.Rd      |   92 +++-
 45 files changed, 845 insertions(+), 230 deletions(-)

More information about betareg at CRAN
Permanent link

Package SubpathwayMiner updated to version 2.0 with previous version 1.1 dated 2008-11-28

Author: Chunquan Li
Title: Annotation and identification of the KEGG pathways.
Description: SubpathwayMiner is an R-based software for flexible pathway identification. (1) SubpathwayMiner can provide users with sub-pathway annotation and identification of metabolic pathways based on enzyme commission (EC) numbers. (2) SubpathwayMiner can provide users with sub-pathway annotation and identification based on KEGG Orthology (KO) identifiers. (new!) (3) SubpathwayMiner can provide annotation and identification of entire pathways. (4) SubpathwayMiner can support most of organisms in the KEGG GENE database. (5) Data can be automatically updated on demand by the user.

Diff between SubpathwayMiner versions 1.1 dated 2008-11-28 and 2.0 dated 2009-09-03

 DESCRIPTION                        |   36 
 R/go2go.R                          |   32 
 R/id.R                             |   12 
 R/initialize.R                     |   61 -
 R/ko.R                             |only
 R/visualize.R                      |   25 
 data/ath_ncbi-geneid.rda           |binary
 data/cel_ncbi-geneid.rda           |binary
 data/dme_ncbi-geneid.rda           |binary
 data/eco_ncbi-geneid.rda           |binary
 data/hsa_ensembl-hsa.rda           |binary
 data/hsa_ncbi-geneid.rda           |binary
 data/hsa_ncbi-gi.rda               |binary
 data/mmu_ncbi-geneid.rda           |binary
 data/osa_ncbi-geneid.rda           |binary
 data/sce_ncbi-geneid.rda           |binary
 data/sce_ncbi-gi.rda               |binary
 data/sce_sgd-sce.rda               |binary
 inst/doc/Rplots.pdf                | 1431 ++++++++++++++++++++++++++++++++++++-
 inst/doc/SubpathwayMiner.Rnw       |   61 +
 inst/doc/SubpathwayMiner.pdf       |binary
 man/KO2gene.Rd                     |only
 man/KOuGraph.Rd                    |only
 man/Ke2gEnvironment.Rd             |    7 
 man/SubpathwayMiner-internal.Rd    |   14 
 man/cutoffAnn.Rd                   |    8 
 man/dGraph.Rd                      |    4 
 man/ec2gene.Rd                     |    4 
 man/gene2KO.Rd                     |only
 man/gene2ec.Rd                     |    4 
 man/getAnn.Rd                      |   12 
 man/getDefaultKOPathway.Rd         |only
 man/getDefaultKOUndirectedGraph.Rd |only
 man/getDefaultUndirectedGraph.Rd   |    6 
 man/getGeneFromKO.Rd               |only
 man/getKOAnn.Rd                    |only
 man/getKOFromGene.Rd               |only
 man/getKcSubGraph.Rd               |   18 
 man/getMpAnn.Rd                    |    2 
 man/gotoKEGG.Rd                    |   10 
 man/ke2g.Rd                        |    5 
 man/kpidList.Rd                    |only
 man/plotAnn.Rd                     |   10 
 man/plotKOAnn.Rd                   |only
 man/printAnn.Rd                    |    4 
 man/uGraph.Rd                      |    6 
 man/updateGraphs.Rd                |   17 
 man/updateKOGraphs.Rd              |only
 man/updateOrgAndIdType.Rd          |    2 
 49 files changed, 1636 insertions(+), 155 deletions(-)

More information about SubpathwayMiner at CRAN
Permanent link

Package R.matlab updated to version 1.2.5 with previous version 1.2.4 dated 2008-10-30

Author: Henrik Bengtsson , Jason Riedy
Title: Read and write of MAT files together with R-to-Matlab connectivity
Description: This package provides methods to read and write MAT files. It also makes it possible to communicate (evaluate code, send and retrieve objects etc.) with Matlab v6 or higher running locally or on a remote host.

Diff between R.matlab versions 1.2.4 dated 2008-10-30 and 1.2.5 dated 2009-09-03

 DESCRIPTION                                   |   35 ++++++++++++++++----------
 inst/NEWS                                     |   13 ++++++++-
 inst/externals/MatlabServer.m                 |   21 ++++++++++-----
 man/1._The_Matlab_server_running_in_Matlab.Rd |   21 ++++++++++-----
 man/Matlab.Rd                                 |    2 -
 5 files changed, 62 insertions(+), 30 deletions(-)

More information about R.matlab at CRAN
Permanent link

Package MCMCglmm updated to version 1.11 with previous version 1.10 dated 2009-05-15

Author: Jarrod Hadfield
Title: MCMC Generalised Linear Mixed Models
Description: MCMC Generalised Linear Mixed Models

Diff between MCMCglmm versions 1.10 dated 2009-05-15 and 1.11 dated 2009-09-03

 MCMCglmm-1.10/MCMCglmm/src/cs_directproduct.c          |only
 MCMCglmm-1.10/MCMCglmm/src/cs_directproduct.h          |only
 MCMCglmm-1.10/MCMCglmm/src/cs_multiplyR.c              |only
 MCMCglmm-1.10/MCMCglmm/src/cs_multiplyR.h              |only
 MCMCglmm-1.11/MCMCglmm/DESCRIPTION                     |    8 
 MCMCglmm-1.11/MCMCglmm/NAMESPACE                       |   20 
 MCMCglmm-1.11/MCMCglmm/R/Ddivergence.R                 |    6 
 MCMCglmm-1.11/MCMCglmm/R/MCMCglmm.R                    |  815 
 MCMCglmm-1.11/MCMCglmm/R/buildZ.R                      |only
 MCMCglmm-1.11/MCMCglmm/R/find.componets.R              |only
 MCMCglmm-1.11/MCMCglmm/R/inverseA.R                    |    6 
 MCMCglmm-1.11/MCMCglmm/R/mterms.R                      |only
 MCMCglmm-1.11/MCMCglmm/R/plotprior.R                   |only
 MCMCglmm-1.11/MCMCglmm/R/posterior.mode.R              |   10 
 MCMCglmm-1.11/MCMCglmm/R/prunePed.R                    |   27 
 MCMCglmm-1.11/MCMCglmm/R/rIW.R                         |   39 
 MCMCglmm-1.11/MCMCglmm/R/rbv.R                         |   16 
 MCMCglmm-1.11/MCMCglmm/R/split.direct.sum.R            |only
 MCMCglmm-1.11/MCMCglmm/data/BTdata.tab                 |only
 MCMCglmm-1.11/MCMCglmm/data/BTped.tab                  |only
 MCMCglmm-1.11/MCMCglmm/inst/doc/Figures/TEST.R         |  384 
 MCMCglmm-1.11/MCMCglmm/inst/doc/Figures/Tutorial.Rnw   |   38 
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-006.eps       | 5970 ++--
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-006.pdf       | 7068 ++---
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-012.eps       |11204 ++++----
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-012.pdf       |14091 +++++-----
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-015.eps       |16219 ++++++------
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-015.pdf       |22037 ++++++++---------
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-019.eps       | 5664 ++--
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-019.pdf       | 7022 ++---
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-021.eps       |  109 
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-021.pdf       |   92 
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-028.eps       | 6082 ++--
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-028.pdf       | 7090 ++---
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-030.eps       | 6142 ++--
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-030.pdf       | 7072 ++---
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-035.eps       | 9541 +++----
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-035.pdf       |11090 ++++----
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-PMprob.eps    |  109 
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-PMprob.pdf    |   88 
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-Pcor.eps      | 6082 ++--
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-Pcor.pdf      | 7090 ++---
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-model1H2.eps  | 6142 ++--
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-model1H2.pdf  | 7072 ++---
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-model1Sol.eps | 5970 ++--
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-model1Sol.pdf | 7068 ++---
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-model1VCV.eps |11204 ++++----
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-model1VCV.pdf |14091 +++++-----
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-model2VCV.eps |16879 ++++++-------
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-model2VCV.pdf |22034 ++++++++--------
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-model3VCV.eps | 5664 ++--
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-model3VCV.pdf | 7022 ++---
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-model6H2.eps  | 9541 +++----
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial-model6H2.pdf  |11090 ++++----
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial.Rnw           |  101 
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial.aux           |only
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial.bbl           |only
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial.blg           |only
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial.log           |only
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial.pdf           |binary
 MCMCglmm-1.11/MCMCglmm/inst/doc/Tutorial.toc           |only
 MCMCglmm-1.11/MCMCglmm/man/BTdata.Rd                   |only
 MCMCglmm-1.11/MCMCglmm/man/BTped.Rd                    |only
 MCMCglmm-1.11/MCMCglmm/man/Ddivergence.Rd              |    6 
 MCMCglmm-1.11/MCMCglmm/man/Dexpressions.Rd             |    2 
 MCMCglmm-1.11/MCMCglmm/man/Dtensor.Rd                  |   64 
 MCMCglmm-1.11/MCMCglmm/man/MCMCglmm.Rd                 |  220 
 MCMCglmm-1.11/MCMCglmm/man/MCMCglmmPackage.Rd          |   79 
 MCMCglmm-1.11/MCMCglmm/man/PlodiaPO.Rd                 |    2 
 MCMCglmm-1.11/MCMCglmm/man/PlodiaR.Rd                  |    2 
 MCMCglmm-1.11/MCMCglmm/man/PlodiaRB.Rd                 |    2 
 MCMCglmm-1.11/MCMCglmm/man/Tri2M.Rd                    |    2 
 MCMCglmm-1.11/MCMCglmm/man/at.level.Rd                 |only
 MCMCglmm-1.11/MCMCglmm/man/at.set.Rd                   |only
 MCMCglmm-1.11/MCMCglmm/man/evalDtensor.Rd              |    2 
 MCMCglmm-1.11/MCMCglmm/man/inverseA.Rd                 |   84 
 MCMCglmm-1.11/MCMCglmm/man/knorm.Rd                    |    2 
 MCMCglmm-1.11/MCMCglmm/man/krzanowski.test.Rd          |    4 
 MCMCglmm-1.11/MCMCglmm/man/kunif.Rd                    |    2 
 MCMCglmm-1.11/MCMCglmm/man/leg.Rd                      |only
 MCMCglmm-1.11/MCMCglmm/man/list2bdiag.Rd               |    9 
 MCMCglmm-1.11/MCMCglmm/man/plotprior.Rd                |only
 MCMCglmm-1.11/MCMCglmm/man/plotsubspace.Rd             |    8 
 MCMCglmm-1.11/MCMCglmm/man/posterior.mode.Rd           |    9 
 MCMCglmm-1.11/MCMCglmm/man/prunePed.Rd                 |   10 
 MCMCglmm-1.11/MCMCglmm/man/rIW.Rd                      |  107 
 MCMCglmm-1.11/MCMCglmm/src/General.h                   |    3 
 MCMCglmm-1.11/MCMCglmm/src/MCMCglmm.cc                 |  301 
 MCMCglmm-1.11/MCMCglmm/src/MCMCglmm.h                  |   21 
 MCMCglmm-1.11/MCMCglmm/src/cs_directsum.c              |only
 MCMCglmm-1.11/MCMCglmm/src/cs_directsum.h              |only
 MCMCglmm-1.11/MCMCglmm/src/cs_directsumupdate.c        |only
 MCMCglmm-1.11/MCMCglmm/src/cs_invR.c                   |    8 
 MCMCglmm-1.11/MCMCglmm/src/cs_kroneckerA.h             |    1 
 MCMCglmm-1.11/MCMCglmm/src/cs_kroneckerAupdate.c       |only
 MCMCglmm-1.11/MCMCglmm/src/cs_kroneckerI.h             |    1 
 MCMCglmm-1.11/MCMCglmm/src/cs_kroneckerIupdate.c       |only
 MCMCglmm-1.11/MCMCglmm/src/cs_omega.h                  |    2 
 MCMCglmm-1.11/MCMCglmm/src/cs_omegaupdate.c            |only
 MCMCglmm-1.11/MCMCglmm/src/cs_rCinvwishart.c           |   43 
 MCMCglmm-1.11/MCMCglmm/src/cs_rCinvwishart.h           |    2 
 MCMCglmm-1.11/MCMCglmm/src/cs_tmultiplyupdate.c        |only
 MCMCglmm-1.11/MCMCglmm/src/cs_tmultiplyupdate.h        |only
 MCMCglmm-1.11/MCMCglmm/src/dcutopints.c                |only
 MCMCglmm-1.11/MCMCglmm/src/dcutpoints.h                |only
 MCMCglmm-1.11/MCMCglmm/src/inverseA.cc                 |    6 
 MCMCglmm-1.11/MCMCglmm/src/rIW.cc                      |   24 
 MCMCglmm-1.11/MCMCglmm/src/rbv.cc                      |   15 
 MCMCglmm-1.11/MCMCglmm/src/rtnorm.c                    |only
 MCMCglmm-1.11/MCMCglmm/src/rtnorm.h                    |only
 110 files changed, 138188 insertions(+), 137964 deletions(-)

More information about MCMCglmm at CRAN
Permanent link

Package Hmisc updated to version 3.7-0 with previous version 3.6-1 dated 2009-08-04

Author: Frank E Harrell Jr , with contributions from many other users.
Title: Harrell Miscellaneous
Description: The Hmisc library contains many functions useful for data analysis, high-level graphics, utility operations, functions for computing sample size and power, importing datasets, imputing missing values, advanced table making, variable clustering, character string manipulation, conversion of S objects to LaTeX code, and recoding variables. Please submit bug reports to 'http://biostat.mc.vanderbilt.edu/trac/Hmisc'.

Diff between Hmisc versions 3.6-1 dated 2009-08-04 and 3.7-0 dated 2009-09-03

 DESCRIPTION                           |   14 
 INDEX                                 |only
 R/Misc.s                              |  104 ++-
 R/biVar.s                             |    2 
 R/bootkm.s                            |    4 
 R/discrete.s                          |    2 
 R/do.s                                |    2 
 R/errbar.s                            |  162 ++--
 R/labcurve.s                          |    4 
 R/latex.s                             |    3 
 R/na.detail.response.s                |    3 
 R/recode.s                            |    2 
 R/rm.boot.s                           |    2 
 R/sas.get.s                           |   17 
 R/spower.s                            |   72 ++
 R/strgraphwrap.s                      |only
 R/subplot.s                           |    4 
 R/summary.formula.s                   |    5 
 R/survfit.km.s                        |   10 
 R/transace.s                          |   11 
 R/transcan.s                          |   36 -
 R/xYplot.s                            | 1104 +++++++++++++++++-----------------
 man/Hmisc-internal.Rd                 |    2 
 man/Misc.Rd                           |   32 
 man/Overview.Rd                       |    2 
 man/aregImpute.Rd                     |    7 
 man/bootkm.Rd                         |    4 
 man/bpplot.Rd                         |    2 
 man/bystats.Rd                        |    4 
 man/data.frame.create.modify.check.Rd |   25 
 man/errbar.Rd                         |   31 
 man/escapeRegex.Rd                    |    4 
 man/event.convert.Rd                  |    2 
 man/getHdata.Rd                       |    2 
 man/label.Rd                          |   14 
 man/latex.Rd                          |  202 ++----
 man/mdb.get.Rd                        |    5 
 man/prselect.Rd                       |only
 man/ps.slide.Rd                       |  219 +++---
 man/rcorrp.cens.Rd                    |    4 
 man/rcspline.eval.Rd                  |    2 
 man/rcspline.plot.Rd                  |    2 
 man/rcspline.restate.Rd               |    2 
 man/reShape.Rd                        |  220 +++---
 man/requirePackage.Rd                 |    2 
 man/sedit.Rd                          |    4 
 man/smean.sd.Rd                       |    2 
 man/spower.Rd                         |  108 ++-
 man/stata.get.Rd                      |    6 
 man/subplot.Rd                        |    2 
 man/summary.formula.Rd                |   12 
 man/transace.Rd                       |    4 
 man/transcan.Rd                       |   46 -
 man/units.Rd                          |    3 
 man/unix/sas.get.Rd                   |    2 
 man/wtd.stats.Rd                      |   23 
 man/xYplot.Rd                         |    8 
 57 files changed, 1399 insertions(+), 1173 deletions(-)

More information about Hmisc at CRAN
Permanent link

Package GenABEL updated to version 1.4-4 with previous version 1.4-3 dated 2009-07-23

Author: Yurii Aulchenko, Maksim Struchalin
Title: genome-wide SNP association analysis
Description: a package for genome-wide association analysis between quantitative or binary traits and single-nucleiotide polymorphisms (SNPs).

Diff between GenABEL versions 1.4-3 dated 2009-07-23 and 1.4-4 dated 2009-09-03

 GenABEL-1.4-3/GenABEL/GenABEL                     |only
 GenABEL-1.4-3/GenABEL/R.save                      |only
 GenABEL-1.4-3/GenABEL/tmp                         |only
 GenABEL-1.4-4/GenABEL/.project                    |only
 GenABEL-1.4-4/GenABEL/CHANGES.LOG                 |    8 
 GenABEL-1.4-4/GenABEL/DESCRIPTION                 |    8 
 GenABEL-1.4-4/GenABEL/R/hom.R                     |   12 
 GenABEL-1.4-4/GenABEL/R/perid.summary.R           |    2 
 GenABEL-1.4-4/GenABEL/inst/doc/ABEL-tutorial.pdf  |262369 +++++++++++++++++++++-
 GenABEL-1.4-4/GenABEL/inst/doc/GenABEL-manual.pdf |23629 +
 GenABEL-1.4-4/GenABEL/man/hom.Rd                  |   15 
 GenABEL-1.4-4/GenABEL/src/gwaa.c                  |   51 
 12 files changed, 268940 insertions(+), 17154 deletions(-)

More information about GenABEL at CRAN
Permanent link

New package GGMselect with initial version 0.1-0
Package: GGMselect
Title: Gaussian Graphs Models selection
Version: 0.1-0
Date: 2009-07-06
Author: Annie Bouvier, Christophe Giraud, Sylvie Huet, Verzelen N.
Maintainer: Annie Bouvier
Description: GGMselect is a package dedicated to graph estimation in Gaussian Graphical Models. The main functions return the adjacency matrix of an undirected graph estimated from a data matrix.
Depends: mvtnorm, lars, mvbutils (>= 2.0), gtools
Suggests: network, glasso
License: GPL (>= 3)
URL: http://www.inra.fr/miaj/public/logiciels/GGMselect/
Packaged: Thu Sep 3 08:56:42 2009; abouvier
Repository: CRAN
Date/Publication: 2009-09-03 08:40:58

More information about GGMselect at CRAN
Permanent link

Package DAKS updated to version 2.0-0 with previous version 1.0-0 dated 2009-02-26

Author: Anatol Sargin , Ali Uenlue
Title: Data Analysis and Knowledge Spaces
Description: Functions and example datasets for the psychometric theory of knowledge spaces. This package implements data analysis methods and procedures for simulating data and transforming different formulations in knowledge space theory.

Diff between DAKS versions 1.0-0 dated 2009-02-26 and 2.0-0 dated 2009-09-03

 DESCRIPTION              |   27 ++++++++++++++-------------
 NAMESPACE                |   11 +++++++++--
 R/corr_iita.r            |   18 +++++++++++++++---
 R/hasse.r                |   19 ++++++++++++-------
 R/iita.r                 |   10 ++++++----
 R/mini_iita.r            |   14 +++++++++++---
 R/orig_iita.r            |   18 +++++++++++++++---
 R/pattern.r              |   12 +++++++++---
 R/pop_iita.r             |   33 +++++++++++++++++++++++++++------
 R/pop_variance.r         |    7 ++++---
 R/print.iita.r           |only
 R/print.pat.r            |only
 R/print.summpopiita.r    |only
 R/print.ztest.r          |only
 R/print_popiita.r        |only
 R/summary.popiita.r      |only
 R/variance.r             |   43 ++++++++++++-------------------------------
 R/z_test.r               |only
 man/DAKS-package.Rd      |    7 ++++---
 man/corr_iita.Rd         |    7 +++++--
 man/iita.Rd              |    5 ++++-
 man/mini_iita.Rd         |    7 +++++--
 man/orig_iita.Rd         |    7 +++++--
 man/pattern.Rd           |    1 +
 man/pop_iita.Rd          |    8 ++++++--
 man/print.iita.Rd        |only
 man/print.pat.Rd         |only
 man/print.popiita.Rd     |only
 man/print.summpopiita.Rd |only
 man/print.ztest.Rd       |only
 man/simu.Rd              |    6 +++---
 man/summary.popiita.Rd   |only
 man/z_test.Rd            |only
 33 files changed, 167 insertions(+), 93 deletions(-)

More information about DAKS at CRAN
Permanent link


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