Author: William Revelle
Diff between psych versions 1.0-78 dated 2009-07-30 and 1.0-80 dated 2009-09-30
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.
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(-)
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(-)
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(-)
Author: Florian Wickelmaier
Diff between eba versions 1.5-4 dated 2009-08-25 and 1.5-5 dated 2009-09-30
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).
ChangeLog | 5 +++++
DESCRIPTION | 8 ++++----
R/strans.R | 20 +++++++++++---------
3 files changed, 20 insertions(+), 13 deletions(-)
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(-)
Author: Bob Wheeler
Diff between SuppDists versions 1.1-4 dated 2009-06-18 and 1.1-6 dated 2009-09-30
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.
DESCRIPTION | 10 +++++-----
man/MWC1019.Rd | 3 +--
man/ziggurat.Rd | 5 +++--
3 files changed, 9 insertions(+), 9 deletions(-)
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(-)
Author: Bob Wheeler
Diff between AlgDesign versions 1.0-10 dated 2009-06-18 and 1.0-12 dated 2009-09-30
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.
DESCRIPTION | 10 +++++-----
R/Utility.R | 6 ++++--
2 files changed, 9 insertions(+), 7 deletions(-)
Author: Marc J. Mazerolle
Diff between AICcmodavg versions 1.01 dated 2009-09-04 and 1.02 dated 2009-09-30
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.
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(-)
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(-)
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(-)
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(-)
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(-)
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(-)
Author: Thomas Lumley
Diff between rmeta versions 2.15 dated 2009-02-24 and 2.16 dated 2009-09-29
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
Changes | 2 ++
DESCRIPTION | 16 +++++++++-------
R/meta.R | 4 ++--
3 files changed, 13 insertions(+), 9 deletions(-)
Author: Jonathan P. Weeks
Diff between plink versions 1.2-0 dated 2009-08-19 and 1.2-1 dated 2009-09-29
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.
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(-)
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(-)
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(-)
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(-)
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(-)
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(-)
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(-)
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(-)
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(-)
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(-)
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
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(-)
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(-)
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(-)
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(-)
Author: Sanford Weisberg
Diff between alr3 versions 1.1.11 dated 2009-09-08 and 1.1.12 dated 2009-09-29
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.
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(-)
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(-)
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(-)
Author: Yves Croissant
Diff between plm versions 1.2-0 dated 2009-09-23 and 1.2-1 dated 2009-09-29
Title: Linear Models for Panel Data
Description: A set of estimators and tests for panel data.
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(-)
Author: Hrishikesh D. Vinod
Diff between meboot versions 1.0-0 dated 2009-01-21 and 1.0-1 dated 2009-09-29
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.
DESCRIPTION | 29 +++++++++++++++++------------
R/meboot.R | 2 +-
data/ullwan.rda |binary
inst/doc/meboot.pdf |binary
4 files changed, 18 insertions(+), 13 deletions(-)
Author: S-PLUS original by Phil Everson; R port by Roger D. Peng
Diff between tlnise versions 1.0-1 dated 2009-05-14 and 1.1 dated 2009-09-28
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.
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(-)
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(-)
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 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timeSeries-2100.84/timeSeries/man/timeSeries.Rd | 33 timeSeries-2100.84/timeSeries/man/utils-str.Rd |only 229 files changed, 1142 insertions(+), 1213 deletions(-)
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 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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 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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 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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(-)
Author: Jiahui Wang, Ruben Zamar
Diff between robust versions 0.3-4 dated 2008-09-10 and 0.3-9 dated 2009-09-28
Title: Insightful Robust Library
Description: A package of robust methods.
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(-)
Author: lp_solve
Diff between lpSolveAPI versions 5.5.0.14 dated 2009-02-12 and 5.5.0.15 dated 2009-09-28
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.
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(-)
Author: Jorge Luis Ojeda Cabrera,
Diff between locpol versions 0.2-0 dated 2007-12-18 and 0.4-0 dated 2009-09-28
Title: Kernel local polynomial regression
Description: Computes local polynomial estimators.
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(-)
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(-)
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(-)
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(-)
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(-)
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(-)
Author: Virasakdi Chongsuvivatwong
Diff between epicalc versions 2.9.2.2 dated 2009-09-23 and 2.9.2.3 dated 2009-09-28
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.
DESCRIPTION | 8 +-
R/epicalc.R | 234 ++++++++++++++++++++++++++++++++++--------------------------
2 files changed, 140 insertions(+), 102 deletions(-)
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(-)
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(-)
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
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(-)
Author: Jouni Lehtonen
Diff between KFAS versions 0.4.2 dated 2009-09-28 and 0.4.3 dated 2009-09-28
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.
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(-)
Author: Bernhard Pfaff
Diff between urca versions 1.2-2 dated 2009-01-11 and 1.2-3 dated 2009-09-28
Title: Unit root and cointegration tests for time series data
Description: Unit root and cointegration tests encountered in applied
econometric analysis are implemented.
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(-)
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
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(-)
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(-)
Author: Ben B. Hansen
Diff between optmatch versions 0.5-0 dated 2009-05-19 and 0.6-0 dated 2009-09-28
Title: Functions for optimal matching
Description: Functions for optimal matching, including full matching
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(-)
Author: Rolf Turner
Diff between hmm.discnp versions 0.0-9 dated 2009-02-26 and 0.1-0 dated 2009-09-28
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.
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(-)
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(-)
Author: S original by Venables & Ripley. R port by Brian Ripley
Diff between VR versions 7.2-48 dated 2009-08-05 and 7.2-49 dated 2009-09-28
Bundle: VR
Contains: MASS class nnet spatial
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(-)
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(-)
Author: Jouni Lehtonen
Diff between KFAS versions 0.4.1 dated 2009-09-18 and 0.4.2 dated 2009-09-28
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.
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(-)
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(-)
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
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(-)
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(-)
Author: Ming-Huei Chen
Diff between GWAF versions 1.0 dated 2009-09-06 and 1.1 dated 2009-09-25
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.
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(-)
Author: Jared O'Connell
Diff between mhsmm versions 0.3.0 dated 2009-08-31 and 0.3.1 dated 2009-09-24
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.
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(-)
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 RcmdrPlugin.DoE at CRAN
Permanent link
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(-)
Author: Dirk Eddelbuettel
Diff between digest versions 0.4.0 dated 2009-09-24 and 0.4.1 dated 2009-09-24
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.
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(-)
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(-)
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(-)
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(-)
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(-)
Author: Torben Tvedebrink
Diff between dirmult versions 0.1.1 dated 2009-06-24 and 0.1.2 dated 2009-09-24
Title: Estimation in Dirichlet-Multinomial distribution.
Description: Estimate parameters in Dirichlet-Multinomial and compute
profile log-likelihoods.
DESCRIPTION | 8 ++++----
NAMESPACE | 1 +
R/dirmult.R | 17 +++++++++++++++++
man/simPop.Rd |only
4 files changed, 22 insertions(+), 4 deletions(-)
Author: G. Grothendieck
Diff between sqldf versions 0-1.5 dated 2009-06-07 and 0-1.7 dated 2009-09-24
Title: Perform SQL Selects on R Data Frames
Description: Manipulate R data frames using SQL.
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(-)
Author: Gary A. Nelson
Diff between fishmethods versions 0.0-1 dated 2009-01-15 and 1.0-1 dated 2009-09-24
Title: Fisheries Methods and Models in R
Description: Fishery methods and models from Quinn and Deriso (1999),
Haddon(2001) , and literature.
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(-)
Author: Dirk Eddelbuettel
Diff between digest versions 0.3.1 dated 2007-09-28 and 0.4.0 dated 2009-09-24
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.
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(-)
Author: Kosuke Imai
Diff between MNP versions 2.5-6 dated 2008-03-25 and 2.6-1 dated 2009-09-24
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.
DESCRIPTION | 50 +++++++++++++++++++++++++++-----------------------
MNP.pdf |only
R/mnp.R | 21 ++++++++++++++-------
man/mnp.Rd | 34 +++++++++++++++++++++-------------
src/MNP.c | 10 +++++++++-
5 files changed, 71 insertions(+), 44 deletions(-)
Author: Yves Croissant
Diff between plm versions 1.1-4 dated 2009-06-07 and 1.2-0 dated 2009-09-23
Title: Linear models for panel data
Description: A set of estimators and tests for panel data
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(-)
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(-)
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(-)
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(-)
Author: Virasakdi Chongsuvivatwong
Diff between epicalc versions 2.9.2.1 dated 2009-09-21 and 2.9.2.2 dated 2009-09-23
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.
DESCRIPTION | 8 ++++----
R/epicalc.R | 55 ++++++++++++++++++++++++++++++++++++-------------------
2 files changed, 40 insertions(+), 23 deletions(-)
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(-)
Author: Nandita Mukhopadhyay
Diff between nplplot versions 4.3 dated 2009-06-16 and 4.4 dated 2009-09-23
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.
DESCRIPTION | 8 ++++----
R/nplplot.multi.R | 15 +--------------
2 files changed, 5 insertions(+), 18 deletions(-)
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(-)
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(-)
Author: Henrik Bengtsson
Diff between R.huge versions 0.1.8 dated 2009-06-14 and 0.1.9 dated 2009-09-23
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.)
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(-)
Author: Adrian Dusa
Diff between QCA versions 0.6-1 dated 2009-09-22 and 0.6-2 dated 2009-09-23
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
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(-)
Author: David Scott
Diff between HyperbolicDist versions 0.5-3 dated 2009-03-12 and 0.6-2 dated 2009-09-23
More information about HyperbolicDist at CRAN
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.
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(-)
Permanent link
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(-)
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(-)
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(-)
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(-)
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(-)
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(-)
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(-)
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(-)
Author: Charles J. Geyer
Diff between mcmc versions 0.6 dated 2009-04-14 and 0.7-2 dated 2009-09-22
Title: Markov Chain Monte Carlo
Description: functions for Markov chain Monte Carlo (MCMC).
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(-)
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(-)
Author: Adrian Dusa
Diff between QCA versions 0.6-0 dated 2009-09-21 and 0.6-1 dated 2009-09-22
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
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(-)
Author: Fortran code by R. J. Renka. R functions by Albrecht Gebhardt
Diff between tripack versions 1.3-3 dated 2009-06-16 and 1.3-4 dated 2009-09-21
Title: Triangulation of irregularly spaced data
Description: A constrained two-dimensional Delaunay triangulation
package
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(-)
Author: S original by James J. Majure
Diff between sgeostat versions 1.0-22 dated 2009-07-03 and 1.0-23 dated 2009-09-21
Title: An Object-oriented Framework for Geostatistical Modeling in S+
Description: An Object-oriented Framework for Geostatistical Modeling
in S+
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(-)
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(-)
Author: Virasakdi Chongsuvivatwong
Diff between epicalc versions 2.9.2.0 dated 2009-09-03 and 2.9.2.1 dated 2009-09-21
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.
DESCRIPTION | 8 ++++----
R/epicalc.R | 34 +++++++++++++++++++++++++---------
man/cc.rd | 2 +-
man/followup.plot.rd | 4 +++-
4 files changed, 33 insertions(+), 15 deletions(-)
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(-)
Author: S original by David W. Scott R port by Albrecht Gebhardt
Diff between ash versions 1.0-11 dated 2009-06-14 and 1.0-12 dated 2009-09-21
Title: David Scott's ASH routines
Description: David Scotts ASH routines
ChangeLog | 8 ++++++--
DESCRIPTION | 6 +++---
R/zzz.R | 2 +-
3 files changed, 10 insertions(+), 6 deletions(-)
Author: Fortran code by H. Akima R port by Albrecht Gebhardt
Diff between akima versions 0.5-2 dated 2009-06-14 and 0.5-3 dated 2009-09-21
Title: Interpolation of irregularly spaced data
Description: Linear or cubic spline interpolation for irregular gridded
data
ChangeLog | 30 +++++++++++++++++-------------
DESCRIPTION | 6 +++---
R/zzz.R | 2 +-
man/interpp.Rd | 4 ++--
4 files changed, 23 insertions(+), 19 deletions(-)
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(-)
Author: Andrej-Nikolai Spiess
Diff between qpcR versions 1.2-1 dated 2009-08-13 and 1.2-2 dated 2009-09-21
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).
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(-)
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(-)
Author: Adrian Dusa
Diff between QCA versions 0.5-4 dated 2009-07-01 and 0.6-0 dated 2009-09-21
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
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(-)
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(-)
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(-)
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(-)
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(-)
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(-)
Author: Federico Girosi
Diff between YourCast versions 1.1-2 dated 2009-08-31 and 1.1-3 dated 2009-09-19
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/
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(-)
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(-)
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(-)
Author: Barry Rowlingson
Diff between splancs versions 2.01-24 dated 2008-08-01 and 2.01-25 dated 2009-09-18
Title: Spatial and Space-Time Point Pattern Analysis
Description: Spatial and Space-Time Point Pattern Analysis Functions
ChangeLog | 12 ++++++++++++
DESCRIPTION | 16 +++++++++-------
inst/ChangeLog | 12 ++++++++++++
3 files changed, 33 insertions(+), 7 deletions(-)
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
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(-)
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(-)
Author: Edzer J. Pebesma
Diff between sp versions 0.9-43 dated 2009-07-19 and 0.9-44 dated 2009-09-18
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.
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(-)
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(-)
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(-)
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(-)
Author: Stef van Buuren
Diff between mice versions 2.0 dated 2009-08-27 and 2.1 dated 2009-09-18
Title: Multivariate Imputation by Chained Equations
Description: Multiple Imputation using Fully Conditional Specification
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(-)
Author: Wolfgang Viechtbauer
Diff between metafor versions 0.5-3 dated 2009-07-31 and 0.5-4 dated 2009-09-18
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.
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(-)
Author: Luke Keele
Diff between mediation versions 2.0 dated 2009-07-18 and 2.1 dated 2009-09-18
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.
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(-)
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(-)
Author: Rob J Hyndman
Diff between hdrcde versions 2.10 dated 2009-08-19 and 2.11 dated 2009-09-18
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.
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 iGenomicViewer at CRAN
Permanent link
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(-)
Author: Karoly Antal
Diff between gnumeric versions 0.5-2 dated 2009-09-03 and 0.5-3 dated 2009-09-18
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.
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(-)
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(-)
Author: Rob J Hyndman
Diff between forecast versions 2.00 dated 2009-09-07 and 2.01 dated 2009-09-18
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.
ChangeLog | 4 ++++
DESCRIPTION | 8 ++++----
R/forecast2.R | 18 ++++++++++++++++--
man/croston.Rd | 3 ++-
4 files changed, 26 insertions(+), 7 deletions(-)
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(-)
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(-)
Author: Roger Bivand
Diff between classInt versions 0.1-11 dated 2009-05-29 and 0.1-12 dated 2009-09-18
Title: Choose univariate class intervals
Description: A package for choosing univariate class intervals for
mapping or other graphics purposes
ChangeLog | 7 ++++++-
DESCRIPTION | 8 ++++----
man/classIntervals.Rd | 2 +-
man/findColours.Rd | 2 +-
4 files changed, 12 insertions(+), 7 deletions(-)
Author: Hsin-ya Lee, Yung-jin Lee
Diff between bear versions 2.4.0 dated 2009-07-21 and 2.4.1 dated 2009-09-18
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).
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(-)
Author: Ben Bolker
Diff between bbmle versions 0.9.0 dated 2009-02-05 and 0.9.3 dated 2009-09-18
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.
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(-)
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(-)
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(-)
Author: Henrik Bengtsson
Diff between R.rsp versions 0.3.4 dated 2008-03-07 and 0.3.6 dated 2009-09-18
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.
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(-)
Author: Henrik Bengtsson
Diff between R.cache versions 0.1.8 dated 2009-09-08 and 0.1.9 dated 2009-09-18
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.
DESCRIPTION | 10 ++++------
R/loadCache.R | 23 +++++++++++++++++++++--
inst/NEWS | 13 +++++++++++--
man/loadCache.Rd | 4 +++-
4 files changed, 39 insertions(+), 11 deletions(-)
Author: Jose L. Izquierdo
Diff between Metabonomic versions 3.2.1 dated 2009-07-02 and 3.3 dated 2009-09-18
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.
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(-)
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(-)
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(-)
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(-)
Author: Jouni Lehtonen
Diff between KFAS versions 0.3.3 dated 2009-08-27 and 0.4.1 dated 2009-09-18
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.
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(-)
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(-)
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(-)
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(-)
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(-)
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(-)
Author: Frank E Harrell Jr
Diff between Design versions 2.2-0 dated 2009-05-18 and 2.3-0 dated 2009-09-18
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.
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(-)
Author: Adrian Raftery
Diff between BMA versions 3.10 dated 2009-04-19 and 3.12 dated 2009-09-18
Title: Bayesian Model Averaging
Description: Package for Bayesian model averaging for linear models,
generalizable linear models and survival models (cox
regression).
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(-)
Author: Evgenia Dimitriadou
Diff between cclust versions 0.6-15 dated 2009-01-06 and 0.6-16 dated 2009-09-18
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.
DESCRIPTION | 14 ++++++++------
man/Rindexes.Rd | 10 +++++-----
man/cclust.Rd | 2 +-
3 files changed, 14 insertions(+), 12 deletions(-)
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(-)
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(-)
Author: Dan Kelley
Diff between oce versions 0.1-76 dated 2009-03-03 and 0.1-77 dated 2009-09-13
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.
oce-0.1-76/oce/R/add.column.R |only
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oce-0.1-76/oce/R/oce.write.table.R |only
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oce-0.1-76/oce/R/plot.ctd.R |only
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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
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oce-0.1-76/oce/R/read.topo.R |only
oce-0.1-76/oce/R/section.grid.R |only
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oce-0.1-77/oce/DESCRIPTION | 19
oce-0.1-77/oce/NAMESPACE | 89
oce-0.1-77/oce/NEWS | 36
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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
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oce-0.1-77/oce/R/zzz.R | 5
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oce-0.1-77/oce/data/air.hal.rda |only
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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 ++++++++++++++-------------
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oce-0.1-77/oce/man/as.sealevel.Rd | 25
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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
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oce-0.1-77/oce/man/formatci.Rd |only
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oce-0.1-77/oce/man/lat.format.Rd | 3
oce-0.1-77/oce/man/latlon.format.Rd | 3
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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
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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
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oce-0.1-77/oce/man/plot.sealevel.Rd | 70
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oce-0.1-77/oce/man/plot.topo.Rd | 33
oce-0.1-77/oce/man/plot.windrose.Rd | 8
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oce-0.1-77/oce/man/processing.log.append.Rd | 4
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oce-0.1-77/oce/man/sealevel.tuk.Rd | 24
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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
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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
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oce-0.1-77/oce/tests/sealevel.R | 3
263 files changed, 125585 insertions(+), 102038 deletions(-)
Author: Patrick Giraudoux
Diff between pgirmess versions 1.3.9 dated 2009-07-27 and 1.4.0 dated 2009-09-13
Title: Data analysis in ecology
Description: Miscellaneous functions for analysis and display of
ecological and spatial data
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(-)
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(-)
Author: Jeremy Stephens
Diff between yaml versions 1.0.2 dated 2009-08-26 and 1.1.0 dated 2009-09-12
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.
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(-)
Author: Nicolas Turenne
Diff between svcR versions 1.6.1 dated 2009-09-10 and 1.6.2 dated 2009-09-12
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.
DESCRIPTION | 9 +++++----
1 file changed, 5 insertions(+), 4 deletions(-)
Author: Simon Wood
Diff between mgcv versions 1.5-5 dated 2009-05-15 and 1.5-6 dated 2009-09-12
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.
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(-)
Author: Regis Pouillot
Diff between mc2d versions 0.1-5 dated 2009-04-14 and 0.1-6 dated 2009-09-12
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
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(-)
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(-)
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(-)
Author: Eric M. Thompson
Diff between Rsac versions 0.1-7 dated 2009-01-26 and 0.1-8 dated 2009-09-12
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.
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(-)
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(-)
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(-)
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(-)
Author: Compiled by Adrian Trapletti
Diff between tseries versions 0.10-19 dated 2009-08-31 and 0.10-20 dated 2009-09-10
Title: Time series analysis and computational finance
Description: Package for time series analysis and computational finance
ChangeLog | 6 ++++++
DESCRIPTION | 8 ++++----
inst/CITATION | 4 ++--
3 files changed, 12 insertions(+), 6 deletions(-)
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.plugin.mail at CRAN
Permanent link
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(-)
Author: Karl W Broman
Diff between qtl versions 1.12-26 dated 2009-07-01 and 1.13-7 dated 2009-09-10
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.
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(-)
Author: S original by Bill Venables
Diff between polynom versions 1.3-5 dated 2009-02-05 and 1.3-6 dated 2009-09-10
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.
ChangeLog | 4 ++++
DESCRIPTION | 18 ++++++++++--------
inst/CITATION | 6 +++---
man/poly.orth.Rd | 2 +-
4 files changed, 18 insertions(+), 12 deletions(-)
Author: S original by Bill Venables
Diff between oz versions 1.0-17 dated 2009-02-05 and 1.0-18 dated 2009-09-10
Title: Plot the Australian coastline and states
Description: Functions for plotting Australia's coastline and state
boundaries.
ChangeLog | 6 ++++++
DESCRIPTION | 14 ++++++++------
inst/CITATION | 4 ++--
man/oz-states.Rd | 2 +-
4 files changed, 17 insertions(+), 9 deletions(-)
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(-)
Author: Terry Therneau
Diff between date versions 1.2-27 dated 2009-02-05 and 1.2-28 dated 2009-09-10
Title: Functions for handling dates
Description: Functions for handling dates.
ChangeLog | 6 ++++++
DESCRIPTION | 13 ++++++++-----
inst/CITATION | 8 ++++----
3 files changed, 18 insertions(+), 9 deletions(-)
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(-)
Author: S original by David James
Diff between chron versions 2.3-30 dated 2009-02-18 and 2.3-31 dated 2009-09-10
Title: Chronological objects which can handle dates and times
Description: Chronological objects which can handle dates and times
ChangeLog | 6 ++++++
DESCRIPTION | 12 +++++++-----
inst/CITATION | 4 ++--
man/chron.Rd | 2 +-
4 files changed, 16 insertions(+), 8 deletions(-)
Author: Nicolas Turenne
Diff between svcR versions 1.4.2 dated 2009-05-06 and 1.6.1 dated 2009-09-10
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.
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(-)
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(-)
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(-)
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(-)
Author: Henrik Bengtsson
Diff between aroma.core versions 1.1.2 dated 2009-06-16 and 1.2.0 dated 2009-09-10
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.
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(-)
Author: Holger Froehlich
Diff between GOSim versions 1.1.5.4 dated 2008-12-04 and 1.2 dated 2009-09-10
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
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(-)
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(-)
Author: Henrik Bengtsson
Diff between aroma.affymetrix versions 1.1.1 dated 2009-06-29 and 1.2.0 dated 2009-09-10
More information about aroma.affymetrix at CRAN
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.
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(-)
Permanent link
Author: Henrik Bengtsson
Diff between R.utils versions 1.1.7 dated 2009-06-08 and 1.2.0 dated 2009-09-10
Title: Various programming utilities
Description: This package provides utility classes and methods useful
when programming in R and developing R packages.
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(-)
Author: Henrik Bengtsson
Diff between R.oo versions 1.4.8 dated 2009-06-08 and 1.5.0 dated 2009-09-10
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.
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(-)
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(-)
Author: Karsten Tabelow
Diff between dti versions 0.8-0 dated 2009-04-15 and 0.8-1 dated 2009-09-09
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).
DESCRIPTION | 10 +++++-----
inst/CITATION |only
2 files changed, 5 insertions(+), 5 deletions(-)
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(-)
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(-)
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(-)
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(-)
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(-)
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(-)
Author: Daniel Adler
Diff between rgl versions 0.84 dated 2009-03-15 and 0.87 dated 2009-09-09
Title: 3D visualization device system (OpenGL)
Description: 3D visualization device (OpenGL)
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(-)
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(-)
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
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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(-)
Author: Georg Luebeck
Diff between Bhat versions 0.9-08 dated 2006-02-08 and 0.9-09 dated 2009-09-09
Title: General likelihood exploration
Description: Functions for MLE, MCMC, CIs (originally in Fortran)
.DS_Store |only
DESCRIPTION | 9 +++++----
2 files changed, 5 insertions(+), 4 deletions(-)
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(-)
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
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(-)
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
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tests/Examples/coin-Ex.Rout.save | 65 tests/bugfixes.R | 9 tests/bugfixes.Rout.save | 9 208 files changed, 3360 insertions(+), 2987 deletions(-)
Author: Sanford Weisberg
Diff between alr3 versions 1.1.10 dated 2009-08-20 and 1.1.11 dated 2009-09-08
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.
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(-)
Author: Henrik Bengtsson
Diff between R.cache versions 0.1.7 dated 2008-03-07 and 0.1.8 dated 2009-09-08
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.
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(-)
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(-)
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(-)
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(-)
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(-)
Author: Andrew D. Martin
Diff between MCMCpack versions 1.0-3 dated 2009-07-30 and 1.0-4 dated 2009-09-08
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.
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(-)
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(-)
Author: Olivia Lau
Diff between eiPack versions 0.1-2 dated 2007-02-15 and 0.1-5 dated 2009-09-07
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.
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(-)
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(-)
Author: Pierre Chausse
Diff between gmm versions 1.1-0 dated 2009-08-27 and 1.1-1 dated 2009-09-07
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).
DESCRIPTION | 10
inst/doc/gmm_with_R.pdf | 2305 +++++++++++++++++++++++++-----------------------
inst/doc/gmm_with_R.rnw | 1
3 files changed, 1220 insertions(+), 1096 deletions(-)
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(-)
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(-)
Author: Karline Soetaert
Diff between marelac versions 1.2-1 dated 2009-02-23 and 2.0 dated 2009-09-07
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.
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
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marelac-1.2-1/marelac/man/Zoogrowth.Rd |only
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marelac-1.2-1/marelac/man/satconc.Rd |only
marelac-2.0/marelac/DESCRIPTION | 37
marelac-2.0/marelac/NAMESPACE | 25
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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
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marelac-2.0/marelac/R/coriolis.R |only
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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
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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
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marelac-2.0/marelac/man/AtomicWeight.Rd | 65
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128 files changed, 175384 insertions(+), 129114 deletions(-)
More information about marelacTeaching at CRAN
Permanent link
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(-)
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(-)
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(-)
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(-)
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(-)
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(-)
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(-)
Author: Søren Højsgaard
Diff between doBy versions 4.0.1 dated 2009-08-19 and 4.0.2 dated 2009-09-07
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.
ChangeLog | 8
DESCRIPTION | 6
R/summaryBy.R | 537 ++++++++++++++++++++++++++++--------------------------
inst/doc/doBy.pdf | 525 +++++++++++++++++++++++++---------------------------
4 files changed, 547 insertions(+), 529 deletions(-)
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(-)
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(-)
Author: John Fox
Diff between Rcmdr versions 1.5-1 dated 2009-08-30 and 1.5-2 dated 2009-09-06
Title: R Commander
Description: A platform-independent basic-statistics GUI (graphical
user interface) for R, based on the tcltk package.
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(-)
Author: Timothy H. Keitt
Diff between rgdal versions 0.6-17 dated 2009-09-03 and 0.6-18 dated 2009-09-06
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.
ChangeLog | 8 +++++++-
DESCRIPTION | 8 ++++----
R/sp_gdal.R | 38 +++++++++++++++++++-------------------
inst/ChangeLog | 8 +++++++-
4 files changed, 37 insertions(+), 25 deletions(-)
Author: Dirk Eddelbuettel
Diff between RQuantLib versions 0.2.11 dated 2009-03-04 and 0.3.0 dated 2009-09-06
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).
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(-)
Author: Markus Helbig
Diff between JGR versions 1.6-7 dated 2009-06-14 and 1.6-8 dated 2009-09-06
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
DESCRIPTION | 4 ++--
R/JGR.R | 2 +-
inst/java/JGR.jar |binary
3 files changed, 3 insertions(+), 3 deletions(-)
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(-)
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(-)
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(-)
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(-)
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(-)
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(-)
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(-)
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(-)
Author: Bear F. Braumoeller
Diff between boolean versions 2.0-0 dated 2009-08-31 and 2.0-1 dated 2009-09-04
Title: Boolean Binary Response Models
Description: This package implements a partial-observability procedure
for testing Boolean hypotheses that generalizes the binary
response GLM.
DESCRIPTION | 8 ++++----
R/boolean.R | 5 ++++-
2 files changed, 8 insertions(+), 5 deletions(-)
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(-)
Author: Marc J. Mazerolle
Diff between AICcmodavg versions 1.0 dated 2009-09-03 and 1.01 dated 2009-09-04
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.
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(-)
Author: Jose Pinheiro
Diff between nlme versions 3.1-93 dated 2009-08-16 and 3.1-94 dated 2009-09-04
Title: Linear and Nonlinear Mixed Effects Models
Description: Fit and compare Gaussian linear and nonlinear
mixed-effects models.
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(-)
Author: S original
Diff between boot versions 1.2-38 dated 2009-08-05 and 1.2-39 dated 2009-09-04
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).
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(-)
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(-)
Author: S original by Matt Wand. R port by Brian Ripley
Diff between KernSmooth versions 2.23-2 dated 2009-05-24 and 2.23-3 dated 2009-09-04
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".
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(-)
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(-)
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(-)
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(-)
Author: Rolf Turner
Diff between Iso versions 0.0-6 dated 2008-11-28 and 0.0-7 dated 2009-09-04
Title: Functions to perform isotonic regression.
Description: Does linear order and unimodal order isotonic regression.
DESCRIPTION | 12 +++++++-----
NAMESPACE |only
R/First.R | 6 ++----
inst/change.log |only
4 files changed, 9 insertions(+), 9 deletions(-)
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(-)
Author: Hugo Andres Gutierrez Rojas
Diff between TeachingSampling versions 0.8.1 dated 2009-05-24 and 1.0.2 dated 2009-09-03
More information about TeachingSampling at CRAN
Title: Sampling designs and parameter estimation in finite population
Description: Foundations of inference in survey sampling
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(-)
Permanent link
Author: Josh Buckner
Diff between gputools versions 0.1-1 dated 2009-06-25 and 0.1-3 dated 2009-09-03
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.
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(-)
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(-)
Author: Timothy H. Keitt
Diff between rgdal versions 0.6-14 dated 2009-08-19 and 0.6-17 dated 2009-09-03
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.
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(-)
Author: Tarn Duong
Diff between feature versions 1.2.3 dated 2009-04-14 and 1.2.4 dated 2009-09-03
Title: Feature significance for multivariate kernel density estimation
Description: Feature significance for multivariate kernel density
estimation
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(-)
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(-)
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(-)
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(-)
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(-)
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(-)
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(-)
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(-)
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(-)
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
Author: Karoly Antal
Diff between gnumeric versions 0.5-1 dated 2009-08-20 and 0.5-2 dated 2009-09-03
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.
DESCRIPTION | 24 ++++++++++-----------
R/read.gnumeric.R | 10 +++++++-
man/read.gnumeric.sheet.Rd | 51 ++++++++++++++++++++++++++-------------------
3 files changed, 51 insertions(+), 34 deletions(-)
Author: Virasakdi Chongsuvivatwong
Diff between epicalc versions 2.9.1.7 dated 2009-08-25 and 2.9.2.0 dated 2009-09-03
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.
DESCRIPTION | 8 ++++----
R/epicalc.R | 4 ++--
2 files changed, 6 insertions(+), 6 deletions(-)
Author: Christian Ritz
Diff between drc versions 1.7-2 dated 2009-07-18 and 1.7-7 dated 2009-09-03
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.
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(-)
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(-)
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
Author: Henrik Bengtsson
Diff between R.matlab versions 1.2.4 dated 2008-10-30 and 1.2.5 dated 2009-09-03
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.
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(-)
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(-)
Author: Frank E Harrell Jr
Diff between Hmisc versions 3.6-1 dated 2009-08-04 and 3.7-0 dated 2009-09-03
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'.
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(-)
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(-)
Author: Anatol Sargin
Diff between DAKS versions 1.0-0 dated 2009-02-26 and 2.0-0 dated 2009-09-03
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.
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(-)