Author: Artem Sokolov
Title: Stochastic Modeling
Description: Learning and inference algorithms for a variety of
probabilistic models
Diff between stochmod versions 1.2 dated 2007-05-29 and 1.2.1 dated 2009-10-26
CHANGES | 4 ++++ DESCRIPTION | 11 +++++++---- man/sm-options.Rd | 7 +++++-- src/gmm.c | 6 +++--- src/gmmR.c | 1 - src/hmm.c | 9 ++++----- src/matrix.c | 13 ++++--------- 7 files changed, 27 insertions(+), 24 deletions(-)
Author: Vito M.R. Muggeo
Diff between segmented versions 0.2-4 dated 2008-01-21 and 0.2-5 dated 2009-10-26
Title: Segmented relationships in regression models
Description: Given a (generalized) linear model, segmented `updates'
the model by adding one or more segmented relationships.
Several variables with multiple breakpoints are allowed.
DESCRIPTION | 25 ++++++++++++++-----------
man/davies.test.Rd | 3 ++-
man/plot.segmented.Rd | 5 +++--
man/seg.control.Rd | 2 +-
man/segmented.Rd | 14 ++++++++++----
5 files changed, 30 insertions(+), 19 deletions(-)
Author: Joerg Schlarmann, Josef Wienand
Title: Functions and datasets for math used in school
Description: This package contains functions and datasets for math
taught in school. A main focus is set to prime-calculation
Diff between schoolmath versions 0.2 dated 2007-06-11 and 0.4 dated 2009-10-26
DESCRIPTION | 13 +-- R/cancel.fraction.R | 49 +++++------- R/decimal2fraction.R | 84 ++++++++++---------- R/gcd.R | 84 ++++++++++---------- R/is.decimal.R | 50 ++++++------ R/is.even.R | 52 ++++++------ R/is.negative.R | 48 +++++------ R/is.odd.R | 62 +++++++-------- R/is.positive.R | 48 +++++------ R/is.prim.R | 186 +++++++++++++++++++++++----------------------- R/is.real.positive.R | 48 +++++------ R/is.whole.R | 50 ++++++------ R/prime.factor.R | 79 +++++++++---------- R/primes.R | 152 ++++++++++++++++++------------------- R/scm.R | 106 +++++++++++++------------- data/primlist.rda |binary man/schoolmath-package.Rd | 4 17 files changed, 558 insertions(+), 557 deletions(-)
Author: Maja Pohar Perme
Title: Relative survival regression
Description: Various functions for regression in relative survival.
Diff between relsurv versions 1.5.1 dated 2009-05-27 and 1.5.2 dated 2009-10-26
DESCRIPTION | 6 +++--- R/Rcode.r | 19 +++++++++++-------- data/slopop.rda |binary 3 files changed, 14 insertions(+), 11 deletions(-)
Author: Graham Williams
Diff between rattle versions 2.4.90 dated 2009-08-08 and 2.5.1 dated 2009-10-26
Title: A graphical user interface for data mining in R using GTK
Description: Rattle (the R Analytic Tool To Learn Easily) provides a
Gnome (RGtk2) based interface to R functionality for data
mining. The aim is to provide a simple and intuitive interface
that allows a user to quickly load data from a CSV file (or via
ODBC), transform and explore the data, build and evaluate
models, and export models as PMML (predictive modelling markup
language) or as scores. All of this with knowing little about
R. All R commands are logged and commented through the log tab
and so available to the user as a script file or as an aide to
the user to interact directly with R itself. Rattle also
exports a number of utility functions and the graphical user
interface, invoked as rattle(), does not need to be run to
deploy these.
DESCRIPTION | 20
R/ada_gui.R | 4
R/data.R | 51 -
R/evaluate.R | 508 ++++++++++++++-
R/explore.R | 237 ++++---
R/export.R | 2
R/hclust.R | 15
R/kmeans.R | 40 -
R/model.R | 258 ++-----
R/nnet.R | 95 ++
R/projects.R | 11
R/random_forest.R | 10
R/rattle.R | 44 -
R/rpart.R | 26
R/survival.R |only
R/test.R | 14
R/textview.R | 3
R/transform.R | 14
R/zzz.R | 10
data/audit.RData |binary
data/weather.RData |binary
data/weatherCanberra.RData |binary
data/weatherSydney.RData |binary
inst/arff/weather.arff | 746 +++++++++++-----------
inst/arff/weatherCanberra.arff | 1354 +++++++++++++++++++++--------------------
inst/arff/weatherSydney.arff | 79 ++
inst/csv/weather.csv | 732 +++++++++++-----------
inst/csv/weatherCanberra.csv | 1340 +++++++++++++++++++++-------------------
inst/csv/weatherSydney.csv | 71 +-
inst/etc/rattle.glade | 224 +++++-
inst/etc/textviews.xml | 7
inst/po |only
man/internal.Rd | 3
po |only
test.po |only
35 files changed, 3457 insertions(+), 2461 deletions(-)
Author: Stephane Champely
Title: Basic functions for power analysis
Description: Power analysis functions along the lines of Cohen (1988)
Diff between pwr versions 1.1 dated 2007-02-01 and 1.1.1 dated 2009-10-26
DESCRIPTION | 24 +++++++++++++----------- man/ES.h.Rd | 8 ++++---- man/ES.w1.Rd | 6 +++--- man/ES.w2.Rd | 6 +++--- man/cohen.ES.Rd | 10 +++++++--- man/pwr-package.Rd | 36 ++++++++++++++++++++---------------- man/pwr.2p.test.Rd | 15 +++++---------- man/pwr.2p2n.test.Rd | 9 ++++----- man/pwr.anova.test.Rd | 8 ++++---- man/pwr.chisq.test.Rd | 7 +++---- man/pwr.f2.test.Rd | 6 +++--- man/pwr.norm.test.Rd | 6 +++--- man/pwr.p.test.Rd | 13 ++++++++----- man/pwr.r.test.Rd | 6 +++--- man/pwr.t.test.Rd | 9 +++++---- man/pwr.t2n.test.Rd | 6 +++--- 16 files changed, 91 insertions(+), 84 deletions(-)
Author: William Revelle
Diff between psych versions 1.0-81 dated 2009-10-05 and 1.0-83 dated 2009-10-26
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-1.0-81/psych/fa.indeterm.r |only
psych-1.0-81/psych/factor.indeterm.r |only
psych-1.0-81/psych/inst/doc/psych_manual.pdf |only
psych-1.0-83/psych/CHANGES | 233 -
psych-1.0-83/psych/DESCRIPTION | 10
psych-1.0-83/psych/NAMESPACE | 2
psych-1.0-83/psych/R/ICLUST.R | 3
psych-1.0-83/psych/R/ICLUST.diagram.R | 2
psych-1.0-83/psych/R/alpha.R | 19
psych-1.0-83/psych/R/describe.by.R | 45
psych-1.0-83/psych/R/dia.rect.R | 30
psych-1.0-83/psych/R/fa.R | 1
psych-1.0-83/psych/R/fa.diagram.R | 2
psych-1.0-83/psych/R/guttman.R | 3
psych-1.0-83/psych/R/mat.regress.R | 20
psych-1.0-83/psych/R/principal.R | 2
psych-1.0-83/psych/R/print.psych.R | 36
psych-1.0-83/psych/R/summary.psych.R | 18
psych-1.0-83/psych/R/test.psych.r | 10
psych-1.0-83/psych/inst/NEWS | 170 -
psych-1.0-83/psych/inst/doc/overview.pdf | 3758 +++++++++++++-------------
psych-1.0-83/psych/inst/doc/psych_for_sem.pdf | 1764 ++++++------
psych-1.0-83/psych/man/00.psych-package.Rd | 4
psych-1.0-83/psych/man/ICLUST.rgraph.Rd | 4
psych-1.0-83/psych/man/alpha.Rd | 3
psych-1.0-83/psych/man/bifactor.Rd | 2
psych-1.0-83/psych/man/describe.by.Rd | 8
psych-1.0-83/psych/man/mat.regress.Rd | 33
psych-1.0-83/psych/man/omega.Rd | 9
psych-1.0-83/psych/man/omega.graph.Rd | 4
psych-1.0-83/psych/man/principal.Rd | 2
psych-1.0-83/psych/man/sim.Rd | 4
psych-1.0-83/psych/man/structure.graph.Rd | 9
33 files changed, 3041 insertions(+), 3169 deletions(-)
Author: Etienne Laliberté
Title: Meta-analysis of correlation coefficients
Description: Implement the DerSimonian-Laird (DSL) and Olkin-Pratt (OP)
meta-analytical approaches with correlation coefficients as
effect sizes.
Diff between metacor versions 1.0 dated 2009-03-18 and 1.0-1 dated 2009-10-26
metacor-1.0-1/metacor/DESCRIPTION | 13 +++++++------ metacor-1.0-1/metacor/NAMESPACE | 2 +- metacor-1.0-1/metacor/data/lui.rda |binary metacor-1.0-1/metacor/man/lui.Rd | 3 ++- metacor-1.0-1/metacor/man/metacor-package.Rd | 5 +++-- metacor-1.0-1/metacor/man/metacor.DSL.Rd | 6 ++++-- metacor-1.0-1/metacor/man/metacor.OP.Rd | 3 ++- metacor-1.0/metacor/R/metacor-internal.R |only 8 files changed, 19 insertions(+), 13 deletions(-)
Author: Göran Broström
Title: Event History Analysis
Description: A package for survival and event history analysis
Diff between eha versions 1.2-12 dated 2009-10-16 and 1.2-13 dated 2009-10-26
ChangeLog | 3 +++ DESCRIPTION | 8 ++++---- R/plot.coxreg.R | 2 +- ToDo |only 4 files changed, 8 insertions(+), 5 deletions(-)
Author: Original by Littel, Milliken, Stroup, and Wolfinger
modifications by Douglas Bates
Diff between SASmixed versions 0.4-4 dated 2008-06-26 and 0.5-1 dated 2009-10-26
Title: Data sets from "SAS System for Mixed Models"
Description: Data sets and sample lmer analyses corresponding to the
examples in Littel, Milliken, Stroup and Wolfinger (1996), "SAS
System for Mixed Models", SAS Institute.
SASmixed-0.4-4/SASmixed/inst/doc/Rplots.ps |only
SASmixed-0.4-4/SASmixed/inst/doc/Usinglmer.tex |only
SASmixed-0.5-1/SASmixed/ChangeLog | 25
SASmixed-0.5-1/SASmixed/DESCRIPTION | 20
SASmixed-0.5-1/SASmixed/INDEX |only
SASmixed-0.5-1/SASmixed/inst/doc/Usinglmer.Rnw | 87
SASmixed-0.5-1/SASmixed/inst/doc/Usinglmer.pdf | 4709 ++++++++++++-----------
SASmixed-0.5-1/SASmixed/inst/doc/figs/f-adg1.pdf | 912 ++--
SASmixed-0.5-1/SASmixed/inst/doc/figs/f-bib1.pdf | 394 +
9 files changed, 3420 insertions(+), 2727 deletions(-)
Author: Ben Ingram
Diff between psgp versions 0.2-7 dated 2009-09-29 and 0.2-8 dated 2009-10-26
Title: Projected Spatial Gaussian Process (psgp) methods
Description: Implements projected sparse Gaussian process kriging for
the intamap package
psgp-0.2-7/psgp/R/learnParameters.r |only
psgp-0.2-7/psgp/R/makePrediction.r |only
psgp-0.2-7/psgp/R/psgp.R |only
psgp-0.2-7/psgp/libs |only
psgp-0.2-7/psgp/man/summary.Rd |only
psgp-0.2-7/psgp/src/ForwardModel.cpp |only
psgp-0.2-7/psgp/src/ForwardModel.h |only
psgp-0.2-7/psgp/src/GaussianProcess.cpp |only
psgp-0.2-7/psgp/src/GaussianProcess.h |only
psgp-0.2-7/psgp/src/Makefile |only
psgp-0.2-7/psgp/src/SequentialGP.cpp |only
psgp-0.2-7/psgp/src/SequentialGP.h |only
psgp-0.2-7/psgp/src/covarianceFunctions/GenericCF.o |only
psgp-0.2-7/psgp/src/covarianceFunctions/LinearCF.o |only
psgp-0.2-7/psgp/src/covarianceFunctions/MaternCF.o |only
psgp-0.2-7/psgp/src/covarianceFunctions/NegLogSigmoidTransform.o |only
psgp-0.2-7/psgp/src/covarianceFunctions/SigmoidTransform.o |only
psgp-0.2-7/psgp/src/gaussianProcesses/SeparableGP.o |only
psgp-0.2-7/psgp/src/gaussianProcesses/SequentialGP.cpp.mine |only
psgp-0.2-7/psgp/src/gaussianProcesses/SequentialGP.cpp.r34 |only
psgp-0.2-7/psgp/src/gaussianProcesses/SequentialGP.cpp.r37 |only
psgp-0.2-7/psgp/src/likelihoodModels/ExponentialSampLikelihoodIdentity.cpp |only
psgp-0.2-7/psgp/src/likelihoodModels/ExponentialSampLikelihoodIdentity.h |only
psgp-0.2-7/psgp/src/likelihoodModels/GaussianSampLikelihoodMathML.o |only
psgp-0.2-7/psgp/src/likelihoodModels/MathMLParser/ExpressionNode.o |only
psgp-0.2-7/psgp/src/likelihoodModels/MathMLParser/MathMLParser.o |only
psgp-0.2-7/psgp/src/likelihoodModels/SamplingLikelihoodMathML.o |only
psgp-0.2-7/psgp/src/optimisation/CGModelTrainer.o |only
psgp-0.2-7/psgp/src/optimisation/GDModelTrainer.o |only
psgp-0.2-7/psgp/src/optimisation/QuasiNewtonModelTrainer.o |only
psgp-0.2-8/psgp/DESCRIPTION | 16
psgp-0.2-8/psgp/NAMESPACE | 4
psgp-0.2-8/psgp/R/buildMetadata.R |only
psgp-0.2-8/psgp/R/estimateParameters.R |only
psgp-0.2-8/psgp/R/learnParameters.R |only
psgp-0.2-8/psgp/R/makePrediction.R |only
psgp-0.2-8/psgp/R/spatialPredict.R |only
psgp-0.2-8/psgp/R/summary.R |only
psgp-0.2-8/psgp/cleanup |only
psgp-0.2-8/psgp/configure |only
psgp-0.2-8/psgp/configure.ac |only
psgp-0.2-8/psgp/inst |only
psgp-0.2-8/psgp/man/buildMetadata.Rd |only
psgp-0.2-8/psgp/man/estimateParameters.Rd |only
psgp-0.2-8/psgp/man/learnParameters.rd | 139 +-
psgp-0.2-8/psgp/man/makePrediction.rd | 150 --
psgp-0.2-8/psgp/man/psgp-package.Rd |only
psgp-0.2-8/psgp/man/spatialPredict.Rd |only
psgp-0.2-8/psgp/src/Makevars.in |only
psgp-0.2-8/psgp/src/RInterface.cpp | 115 -
psgp-0.2-8/psgp/src/astonGeostats.cpp | 638 ++++++----
psgp-0.2-8/psgp/src/astonGeostats.h | 111 +
psgp-0.2-8/psgp/src/config.h.in |only
psgp-0.2-8/psgp/src/covarianceFunctions/ConstantCF.cpp | 16
psgp-0.2-8/psgp/src/covarianceFunctions/ConstantCF.h | 1
psgp-0.2-8/psgp/src/covarianceFunctions/CovarianceFunction.cpp | 28
psgp-0.2-8/psgp/src/covarianceFunctions/CovarianceFunction.h | 8
psgp-0.2-8/psgp/src/covarianceFunctions/Exponential2CF.cpp |only
psgp-0.2-8/psgp/src/covarianceFunctions/Exponential2CF.h |only
psgp-0.2-8/psgp/src/covarianceFunctions/GaussianCF.cpp | 2
psgp-0.2-8/psgp/src/covarianceFunctions/Matern3CF.cpp |only
psgp-0.2-8/psgp/src/covarianceFunctions/Matern3CF.h |only
psgp-0.2-8/psgp/src/covarianceFunctions/Matern5CF.cpp |only
psgp-0.2-8/psgp/src/covarianceFunctions/Matern5CF.h |only
psgp-0.2-8/psgp/src/covarianceFunctions/NeuralNetCF.cpp |only
psgp-0.2-8/psgp/src/covarianceFunctions/NeuralNetCF.h |only
psgp-0.2-8/psgp/src/covarianceFunctions/SumCovarianceFunction.cpp | 12
psgp-0.2-8/psgp/src/covarianceFunctions/WhiteNoiseCF.cpp | 6
psgp-0.2-8/psgp/src/gaussianProcesses/PSGP.cpp |only
psgp-0.2-8/psgp/src/gaussianProcesses/PSGP.h |only
psgp-0.2-8/psgp/src/gaussianProcesses/SequentialGP.cpp | 74 -
psgp-0.2-8/psgp/src/gaussianProcesses/SequentialGP.h | 7
psgp-0.2-8/psgp/src/io |only
psgp-0.2-8/psgp/src/itppext |only
psgp-0.2-8/psgp/src/likelihoodModels/ExponentialSampLikelihood.cpp | 96 -
psgp-0.2-8/psgp/src/likelihoodModels/ExponentialSampLikelihood.h | 2
psgp-0.2-8/psgp/src/likelihoodModels/GaussianLikelihood.cpp | 11
psgp-0.2-8/psgp/src/likelihoodModels/GaussianSampLikelihood.cpp | 71 -
psgp-0.2-8/psgp/src/likelihoodModels/GaussianSampLikelihood.h | 2
psgp-0.2-8/psgp/src/likelihoodModels/GaussianSampLikelihoodMathML.cpp | 3
psgp-0.2-8/psgp/src/likelihoodModels/SamplingLikelihood.cpp | 16
psgp-0.2-8/psgp/src/likelihoodModels/SamplingLikelihood.h | 28
psgp-0.2-8/psgp/src/optimisation/ModelTrainer.cpp | 18
psgp-0.2-8/psgp/src/optimisation/SCGModelTrainer.cpp | 27
psgp-0.2-8/psgp/src/setup.sh |only
psgp-0.2-8/psgp/tests/meuse_psgp.R | 12
psgp-0.2-8/psgp/tests/meuse_psgp.Rout.save | 180 +-
psgp-0.2-8/psgp/tests/psgp.R | 58
psgp-0.2-8/psgp/tests/psgp.Rout.save | 175 +-
89 files changed, 1119 insertions(+), 907 deletions(-)
Author: Graham Williams, Michael Hahsler (arules), Zementis Inc, Hemant
Ishwaran, Udaya B. Kogalur, Rajarshi Guha
Title: Generate PMML for various models
Description: The Predictive Modelling Markup Language (PMML) is a
language for representing models, in an application independent
way. Such models can then be loaded into other applications
supporting PMML, including ADAPA from Zementis, Teradata
Warehouse Miner and IBM's DB2. The package provides a generic
pmml function to generate pmml for an object. Using a S3
generic function the approriate method for the class of the
supplied object is dispatched. The package currently supports
the export of PMML for linear regression, SVMs, rpart
classification trees, randomSurvivalForest forest models, and
kmeans clusters. This package is part of the Rattle toolkit.
Diff between pmml versions 1.2.17 dated 2009-08-08 and 1.2.19 dated 2009-10-26
DESCRIPTION | 8 +- R/pmml.R | 153 +++++++++++++++++++++++++++++++++++++++++------------ R/pmml.hclust.R | 17 +++++ R/pmml.kmeans.R | 6 +- R/pmml.ksvm.R | 24 ++++---- R/pmml.lm.R | 21 +++++-- R/pmml.multinom.R | 5 + R/pmml.nnet.R | 125 ++++++++++++++++++++++++------------------- R/pmml.rpart.R | 58 ++++++++++++-------- man/pmml.Rd | 4 + man/pmml.hclust.Rd | 4 + man/pmml.ksvm.Rd | 6 +- man/pmml.nnet.Rd | 5 + man/pmml.rpart.Rd | 5 + 14 files changed, 300 insertions(+), 141 deletions(-)
Author: Jim Lemon,Ben Bolker,Sander Oom, Eduardo Klein,Barry
Rowlingson, Hadley Wickham,Anupam Tyagi, Olivier
Eterradossi,Gabor Grothendieck, Michael Toews,John Kane,Mike
Cheetham, Rolf Turner,Carl Witthoft,Julian Stander, Thomas
Petzoldt,Remko Duursma,Elisa Biancotto, Ofir Levy
Title: Various plotting functions
Description: Lots of plots, various labeling, axis and color scaling
functions.
Diff between plotrix versions 2.7-1 dated 2009-10-11 and 2.7-2 dated 2009-10-26
DESCRIPTION | 8 ++++---- NEWS | 4 ++++ R/getIntersectList.R | 8 +++++--- R/twoord.plot.R | 14 +++++++------- man/getIntersectList.Rd | 31 ++++++++++++++++++++++++++++--- man/twoord.plot.Rd | 8 +++++--- 6 files changed, 53 insertions(+), 20 deletions(-)
Author: Dan Kelley
Diff between oce versions 0.1-78 dated 2009-10-02 and 0.1-79 dated 2009-10-26
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.
DESCRIPTION | 8
NEWS | 2
R/oce.R | 12 -
R/sealevel.R | 10
inst/doc/oce.pdf | 639 +++++++++++++++++++++++++------------------------------
5 files changed, 322 insertions(+), 349 deletions(-)
Author: Deepayan Sarkar
Diff between latticeExtra versions 0.6-1 dated 2009-06-24 and 0.6-3 dated 2009-10-26
Title: Extra Graphical Utilities Based on Lattice
Description: Extra graphical utilities based on lattice
DESCRIPTION | 9 +++++----
NAMESPACE | 10 +++++++++-
R/c.trellis.R | 9 +++++++++
R/marginal.plot.R | 11 ++++++++---
R/panel.qqmath.tails.R |only
R/panel.xblocks.R |only
R/panel.xyarea.R |only
R/utilities.R | 2 +-
inst/NEWS | 10 ++++++++++
man/c.trellis.Rd | 11 ++++++++++-
man/marginal.plot.Rd | 7 ++++---
man/panel.qqmath.tails.Rd |only
man/panel.xblocks.Rd |only
man/panel.xyarea.Rd |only
14 files changed, 56 insertions(+), 13 deletions(-)
Author: Matthias Gamer
Diff between irr versions 0.80 dated 2009-10-19 and 0.81 dated 2009-10-26
Title: Various Coefficients of Interrater Reliability and Agreement
Description: Coefficients of Interrater Reliability and Agreement for
quantitative, ordinal and nominal data: ICC, Finn-Coefficient,
Robinson'A, Kendall's W, Cohen's Kappa, ...
CHANGES | 1
DESCRIPTION | 8 ++---
INDEX | 3 +-
R/kripp.alpha.R | 69 ++++++++++++++++++--------------------------------
man/N.cohen.kappa.Rd | 4 +-
man/kripp.alpha.Rd | 35 +++++++++----------------
man/rater.bias.Rd | 3 --
man/relInterIntra.Rd | 6 ++--
man/stuart.maxwell.Rd | 7 +----
man/video.Rd | 2 -
10 files changed, 55 insertions(+), 83 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 1.3-0 dated 2009-09-08 and 1.3-8 dated 2009-10-26
hyperdirichlet-1.3-0/hyperdirichlet/inst/doc/correspondence.bbl |only hyperdirichlet-1.3-0/hyperdirichlet/inst/doc/correspondence.blg |only hyperdirichlet-1.3-8/hyperdirichlet/DESCRIPTION | 8 hyperdirichlet-1.3-8/hyperdirichlet/R/hyperdirichlet.R | 87 +++++++++- hyperdirichlet-1.3-8/hyperdirichlet/data/pollen.R |only hyperdirichlet-1.3-8/hyperdirichlet/data/serum.R |only hyperdirichlet-1.3-8/hyperdirichlet/inst/doc/correspondence.pdf |binary hyperdirichlet-1.3-8/hyperdirichlet/inst/doc/hyperdirichlet.pdf | 16 - hyperdirichlet-1.3-8/hyperdirichlet/man/B.Rd | 18 +- hyperdirichlet-1.3-8/hyperdirichlet/man/diri_norm.Rd |only hyperdirichlet-1.3-8/hyperdirichlet/man/e_to_p.Rd | 5 hyperdirichlet-1.3-8/hyperdirichlet/man/extract.Rd | 2 hyperdirichlet-1.3-8/hyperdirichlet/man/hyperdirichlet.Rd | 6 hyperdirichlet-1.3-8/hyperdirichlet/man/maxmult.Rd |only hyperdirichlet-1.3-8/hyperdirichlet/man/pollen.Rd |only hyperdirichlet-1.3-8/hyperdirichlet/man/print.Rd | 1 hyperdirichlet-1.3-8/hyperdirichlet/man/serum.Rd |only 17 files changed, 119 insertions(+), 24 deletions(-)
More information about hyperdirichlet at CRAN
Permanent link
Author: Robin K. S. Hankin
Title: Bayesian emulation of computer programs
Description: This package allows one to estimate the output of a
computer program, as a function of the input parameters,
without actually running it. The computer program is assumed to
be a Gaussian process, whose parameters are estimated using
Bayesian techniqes that give a PDF of expected program output.
This PDF is conditional on a ``training set'' of runs, each
consisting of a point in parameter space and the model output
at that point. The emphasis is on complex codes that take
weeks or months to run, and that have a large number of
undetermined input parameters; many climate prediction models
fall into this class. The emulator essentially determines
Bayesian a-postiori estimates of the PDF of the output of a
model, conditioned on results from previous runs and a
user-specified prior linear model. A working example is given
in the help page for function `interpolant', which should be
the users's first point of reference.
Diff between emulator versions 1.1-7 dated 2009-10-15 and 1.1-8 dated 2009-10-26
DESCRIPTION | 8 - inst/doc/emulex.pdf | 233 ++++++++++++++++++++++++---------------------------- 2 files changed, 116 insertions(+), 125 deletions(-)
Author: Robin K. S. Hankin
Title: Bayesian calibration of complex computer codes
Description: Performs Bayesian calibration of computer models as per
Kennedy and O'Hagan 2001. The package includes routines to
find the hyperparameters and parameters; see the help page for
stage1() for a worked example using the toy dataset. A
tutorial is provided in the calex.Rnw vignette; and a suite of
especially simple one dimensional examples appears in
inst/doc/one.dim/.
Diff between calibrator versions 1.1-7 dated 2009-10-15 and 1.1-9 dated 2009-10-26
DESCRIPTION | 6 R/calibrator.R | 20 inst/doc/calex.Rnw | 8 inst/doc/calex.pdf | 1086 ++++++++++++++++++++++---------------------- inst/doc/one.dim/calex_1d.R | 4 man/EK.eqn10.supp.Rd | 19 6 files changed, 595 insertions(+), 548 deletions(-)
Author: Marco Scutari
Title: Bayesian network structure learning
Description: Bayesian network structure learning via constraint-based
(also known as 'conditional independence'), score-based and
hybrid algorithms. This package implements the Grow-Shrink (GS)
algorithm, the Incremental Association (IAMB) algorithm, the
Interleaved-IAMB (Inter-IAMB) algorithm, the Fast-IAMB
(Fast-IAMB) algorithm, the Max-Min Parents and Children (MMPC)
algorithm, the Hill-Climbing (HC) greedy search algorithm, the
Max-Min Hill-Climbing (MMHC) algorithm for both discrete and
Gaussian networks, along with many score functions and
conditional independence tests. Some utility functions (model
comparison and manipulation, random data generation, arc
orientation testing, simple and advanced plots) are included,
as well as basic parametric and bootstrap inference functions.
Diff between bnlearn versions 1.6 dated 2009-08-24 and 1.7 dated 2009-10-26
Changelog | 11 ++ DESCRIPTION | 8 - NAMESPACE | 8 + R/backend-indep.R | 30 ++--- R/fit.R | 2 R/frontend-bootstrap.R | 4 R/frontend-graph.R | 23 ++++ R/frontend-mvber.R |only R/frontend-print.R | 11 ++ R/globals.R | 8 + R/learning-algorithms.R | 6 - R/mvber.R |only R/test.R | 20 +++ R/utils-arcs.R | 12 ++ R/utils-graph.R | 42 ++++++++ R/utils-sanitization.R | 40 ++++++- inst/bibtex/bnlearn.bib | 24 +++- man/alarm.Rd | 13 +- man/arc.strength.Rd | 2 man/arcops.Rd | 6 - man/asia.Rd | 15 ++ man/bn.class.Rd | 2 man/bn.fit.Rd | 21 +++- man/bn.fit.methods.Rd | 24 ++-- man/bn.fit.plots.Rd | 26 ++--- man/bn.var.Rd |only man/bnboot.Rd | 11 +- man/bnlearn-package.Rd | 43 ++++++-- man/boot.strength.Rd | 5 man/choose.direction.Rd | 9 - man/ci.test.Rd | 25 ++-- man/compare.Rd | 2 man/constraint.Rd | 39 +++---- man/cpdag.Rd | 2 man/gaussian-test.Rd | 2 man/graph.Rd |only man/graphgen.Rd | 9 - man/graphviz.plot.Rd | 4 man/hc.Rd | 13 +- man/hybrid.Rd | 18 +-- man/learning-test.Rd | 2 man/lizards.Rd | 2 man/marks.Rd | 2 man/mb.Rd | 69 +++++-------- man/mmpc.Rd | 15 +- man/modelstring.Rd | 14 +- man/ordering.Rd | 9 - man/plot.bn.Rd | 4 man/rbn.Rd | 2 man/score.Rd | 6 - man/strength.plot.Rd | 6 - src/acyclic.c | 91 ++++++++--------- src/allocations.c | 29 ++++- src/arcs2amat.c | 57 +++------- src/bayesian.network.c | 24 +--- src/bind.c | 5 src/bn.recovery.c | 52 +++++----- src/bootstrap.c | 65 ++++++------ src/cache.structure.c | 174 ++++++++++++++++++--------------- src/common.c | 6 - src/common.h | 15 ++ src/configurations.c | 11 -- src/dirichlet.posterior.c | 30 ++--- src/discrete.loglikelihood.c | 20 +-- src/graph.generation.c | 112 +++++++++------------ src/hc.cache.lookup.c | 108 ++++++++++---------- src/is.dag.c | 39 +++---- src/is.row.equal.c | 38 +++---- src/linear.algebra.c | 105 ++++++++++++++++---- src/linear.correlation.c | 26 ++--- src/monte.carlo.c | 223 ++++++++++++++++++++++++++++++++++--------- src/mutual.information.c | 24 ++-- src/mvber.c |only src/path.c | 83 +++++++--------- src/pdag2dag.c |only src/pearson.x2.c | 22 +--- src/score.delta.helper.c | 16 +-- 77 files changed, 1227 insertions(+), 819 deletions(-)
Author: Jens Oehlschl\xE4gel
Diff between bit versions 1.1-1 dated 2009-10-11 and 1.1-2 dated 2009-10-26
Title: A class for vectors of 1-bit booleans
Description: bitmapped vectors of booleans (no NAs), coercion from and
to logicals, integers and integer subscripts; fast boolean
operators and fast summary statistics. With 'bit' vectors you
can store true binary booleans {FALSE,TRUE} at the expense of 1
bit only, on a 32 bit architecture this means factor 32 less
RAM and factor 32 more speed on boolean operations. With this
speed gain it even pays-off to convert to bit in order to avoid
a single boolean operation on logicals or a single set
operation on (longer) integer subscripts, the pay-off is
dramatic when such components are used more than once. Reading
from and writing to bit is approximately as fast as accessing
standard logicals - mostly due to R's time for memory
allocation. The package allows to work with pre-allocated
memory for return values by calling .Call() directly: when
evaluating the speed of C-access with pre-allocated vector
memory, coping from bit to logical requires only 70% of the
time for copying from logical to logical; and copying from
logical to bit comes at a performance penalty of 150%. the
package now contains further classes for representing logical
selections: 'bitwhich' for very skewed selections and 'ri' for
selecting ranges of values for chunked processing. All three
index classes can be used for subsetting 'ff' objects (ff-2.1-0
and higher).
DESCRIPTION | 9 ++++---
NAMESPACE |only
NEWS | 8 ++++++
R/bit.R | 20 ----------------
R/generics.R |only
R/rle.R | 8 ++++++
R/zzz.R | 13 +++++-----
exec/make_rd.pl | 66 ++++++++++++++++++++++++++---------------------------
man/bit-package.rd | 2 -
9 files changed, 62 insertions(+), 64 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 3.11 dated 2009-09-10 and 3.12 dated 2009-10-26
DESCRIPTION | 8 +-- R/bigmatrix.R | 104 +++++++++++++++++++++-------------------------- man/bigmemory-package.Rd | 4 - man/write.big.matrix.Rd | 31 ++++++++------ src/bigmemory.cpp | 68 +++++++++++++++++++++--------- 5 files changed, 118 insertions(+), 97 deletions(-)
Author: Chandra Erdman and John W. Emerson
Title: A Package for Performing a Bayesian Analysis of Change Point
Problems
Description: An implementation of an approximation to the Barry and
Hartigan (1993) product partition model for the standard change
point problem using Markov Chain Monte Carlo.
Diff between bcp versions 2.1.1 dated 2009-03-25 and 2.1.2 dated 2009-10-26
DESCRIPTION | 16 ++++++++-------- 1 file changed, 8 insertions(+), 8 deletions(-)
Author: David Hajage
Title: Export R objects to several markup languages
Description: Coerce R object to asciidoc, txt2tags, sphinx or org
syntax. Package comes with a set of drivers for Sweave.
Diff between ascii versions 0.2.1 dated 2009-10-11 and 0.3.1 dated 2009-10-26
ascii-0.2.1/ascii/man/SweaveAscii.Rd |only ascii-0.3.1/ascii/DESCRIPTION | 16 - ascii-0.3.1/ascii/NAMESPACE | 4 ascii-0.3.1/ascii/NEWS | 20 + ascii-0.3.1/ascii/R/RweaveOrg.r |only ascii-0.3.1/ascii/R/RweaveSphinx.r |only ascii-0.3.1/ascii/R/SweaveAscii.r | 11 - ascii-0.3.1/ascii/R/asciiAnova.r | 93 ++++---- ascii-0.3.1/ascii/R/asciiDataFrame.r | 8 ascii-0.3.1/ascii/R/asciiDefault.r | 6 ascii-0.3.1/ascii/R/asciiDensity.r | 17 - ascii-0.3.1/ascii/R/asciiGlm.r | 36 +-- ascii-0.3.1/ascii/R/asciiHmisc.r | 2 ascii-0.3.1/ascii/R/asciiHtest.r | 15 - ascii-0.3.1/ascii/R/asciiList.r | 9 ascii-0.3.1/ascii/R/asciiLm.r | 30 +- ascii-0.3.1/ascii/R/asciiMatrix.r | 7 ascii-0.3.1/ascii/R/asciiPrcomp.r | 12 - ascii-0.3.1/ascii/R/asciiSmoothSpline.r | 2 ascii-0.3.1/ascii/R/asciiSummaryTable.r | 2 ascii-0.3.1/ascii/R/asciiSurvival.r | 34 +-- ascii-0.3.1/ascii/R/asciiTable.r | 17 - ascii-0.3.1/ascii/R/asciiTs.r | 17 - ascii-0.3.1/ascii/R/asciiVector.r | 61 +++-- ascii-0.3.1/ascii/R/generic.r | 5 ascii-0.3.1/ascii/R/misc.r | 100 +++++++++ ascii-0.3.1/ascii/R/print.r | 5 ascii-0.3.1/ascii/R/show.r | 344 ++++++++++++++++++++++++++++++-- ascii-0.3.1/ascii/TODO |only ascii-0.3.1/ascii/man/Asciidoc.Rd |only ascii-0.3.1/ascii/man/Org.Rd |only ascii-0.3.1/ascii/man/RweaveAsciidoc.Rd | 2 ascii-0.3.1/ascii/man/RweaveOrg.Rd |only ascii-0.3.1/ascii/man/RweaveSphinx.Rd |only ascii-0.3.1/ascii/man/RweaveT2t.Rd | 4 ascii-0.3.1/ascii/man/Sphinx.Rd |only ascii-0.3.1/ascii/man/T2t.Rd |only ascii-0.3.1/ascii/man/ascii.Rd | 46 ++-- ascii-0.3.1/ascii/man/print.ascii.Rd | 12 - 39 files changed, 705 insertions(+), 232 deletions(-)
Author: Yihui Xie
Title: Demonstrate Animations in Statistics
Description: This package consists of various functions for animations
in statistics, covering many areas such as probability theory,
mathematical statistics, multivariate statistics, nonparametric
statistics, sampling survey, linear models, time series,
computational statistics, data mining and machine learning.
These functions might be of help in teaching statistics and
data analysis.
Diff between animation versions 1.0-5 dated 2009-10-11 and 1.0-6 dated 2009-10-26
DESCRIPTION | 10 +++++----- R/ani.stop.R | 2 +- R/sim.qqnorm.R |only R/tidy.source.R | 5 ++++- inst/NEWS | 35 +++++++++++++++++++++++++++++++++-- man/animation-package.Rd | 2 +- man/sim.qqnorm.Rd |only man/tidy.source.Rd | 8 +++++--- 8 files changed, 49 insertions(+), 13 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 0.6 dated 2009-10-19 and 0.6-6 dated 2009-10-26
DESCRIPTION | 8 +-- R/Menu.FrF2level.R | 40 +++++++++++++---- R/Menu.addresponse.R | 63 +++++++++++++++++++++------- R/Menu.export.R | 5 +- R/Menu.importrdacsv.R | 46 ++++++++++++++++---- R/menushelp.R | 13 +++++ inst/NEWS | 19 ++++++++ inst/etc/menus.txt | 4 + man/Menu.FrF2levelTab1.Rd | 2 man/Menu.FrF2levelTabEstimable.Rd |only man/Menu.QuantDesignAnalyze.Rd | 6 +- man/Menu.addresponse.Rd | 4 + man/Menu.exportTab.Rd | 7 ++- man/Menu.importrdacsv.Rd | 3 - man/RcmdrPlugin.DoEUndocumentedFunctions.Rd | 4 + 15 files changed, 179 insertions(+), 45 deletions(-)
More information about RcmdrPlugin.DoE at CRAN
Permanent link
Author: Etienne Laliberté
Title: Measuring functional diversity (FD) from multiple traits
Description: FD is a package to compute different multidimensional FD
indices. It implements a distance-based framework to measure FD
that allows any number and type of functional traits, and can
also consider species relative abundances.
Diff between FD versions 1.0-0 dated 2009-04-16 and 1.0-1 dated 2009-10-26
DESCRIPTION | 8 - R/dbFD.R | 4 R/fdisp.R | 2 R/gowdis.R | 317 ++++++++++++++++++------------------------------------ R/zzz.R |only inst/CITATION | 12 +- inst/NEWS |only man/FD-package.Rd | 8 - man/dbFD.Rd | 12 +- man/fdisp.Rd | 10 - man/gowdis.Rd | 5 man/simul.dbFD.Rd | 2 src |only 13 files changed, 141 insertions(+), 239 deletions(-)