Title: Nonlinear time series models with regime switching
Diff between tsDyn versions 0.7-30 dated 2010-07-02 and 0.7-40 dated 2010-08-11
Description: Implements nonlinear autoregressive (AR) time series
models. For univariate series, a non-parametric approach is
available through additive nonlinear AR. Parametric modeling
and testing for regime switching dynamics is available when the
transition is either direct (TAR: threshold AR) or smooth
(STAR: smooth transition AR, LSTAR). For multivariate series,
one can estimate a range of TVAR or threshold cointegration
TVECM models with two or two regimes. Tests can be conducted
for TVAR as well as for TVECM (Hansen and Seo 2002 and Seo
2006).
Author: Antonio Fabio Di Narzo, Jose Luis Aznarte, Matthieu Stigler
Maintainer: Matthieu Stigler
tsDyn-0.7-30/tsDyn/tests/Rplots.pdf |only
tsDyn-0.7-40/tsDyn/DESCRIPTION | 13
tsDyn-0.7-40/tsDyn/NAMESPACE | 4
tsDyn-0.7-40/tsDyn/R/TVAR_LRtest.R | 19
tsDyn-0.7-40/tsDyn/R/TVARestim.R | 7
tsDyn-0.7-40/tsDyn/R/TVECM.HSTest.R | 41
tsDyn-0.7-40/tsDyn/R/TVECM.R | 10
tsDyn-0.7-40/tsDyn/R/TVECMSeoTest.R | 73
tsDyn-0.7-40/tsDyn/R/lineVar.R | 8
tsDyn-0.7-40/tsDyn/R/nlVar-methods.R | 2
tsDyn-0.7-40/tsDyn/R/nlar-methods.R | 52
tsDyn-0.7-40/tsDyn/R/setar.R | 497 +-
tsDyn-0.7-40/tsDyn/R/setarTest.R | 15
tsDyn-0.7-40/tsDyn/inst/ChangeLog | 8
tsDyn-0.7-40/tsDyn/inst/doc/ThCointOverview.Rnw | 10
tsDyn-0.7-40/tsDyn/inst/doc/ThCointOverview.pdf | 3317 +++++++++----------
tsDyn-0.7-40/tsDyn/inst/doc/tsDyn.pdf |binary
tsDyn-0.7-40/tsDyn/man/TVAR.LRtest.Rd | 9
tsDyn-0.7-40/tsDyn/man/TVECM.HSTest.Rd | 12
tsDyn-0.7-40/tsDyn/man/TVECM.SeoTest.Rd | 7
tsDyn-0.7-40/tsDyn/man/TVECM.sim.Rd | 28
tsDyn-0.7-40/tsDyn/man/regime.Rd | 13
tsDyn-0.7-40/tsDyn/man/setarTest.Rd | 6
tsDyn-0.7-40/tsDyn/tests/00SetarAndFriends.R | 26
tsDyn-0.7-40/tsDyn/tests/00SetarAndFriends.Rout.save | 230 +
tsDyn-0.7-40/tsDyn/tests/TVECM_HSTEST.R | 26
tsDyn-0.7-40/tsDyn/tests/TVECM_HSTEST.Rout.save | 51
tsDyn-0.7-40/tsDyn/tests/VECM.R | 18
tsDyn-0.7-40/tsDyn/tests/VECM.Rout.save | 84
tsDyn-0.7-40/tsDyn/tests/regime.R |only
tsDyn-0.7-40/tsDyn/tests/toMlm.Rout.save | 24
31 files changed, 2485 insertions(+), 2125 deletions(-)
Title: Species Association Analysis
Diff between spaa versions 0.1.1 dated 2010-06-01 and 0.1.2 dated 2010-08-11
Description: Package for analysis of species association and niche
overlap.
Author: Jinlong Zhang Qiong Ding Jihong Huang
Maintainer: Jinlong Zhang
DESCRIPTION | 17 ++++++---------
R/niche.overlap.R |only
R/niche.overlap.boot.R |only
R/niche.overlap.boot.pair.R |only
R/niche.overlap.pair.R |only
R/niche.width.R |only
R/plotlowertri.R | 34 +++++++++++--------------------
data/datasample.rda |only
man/datasample.Rd |only
man/niche.overlap.Rd |only
man/niche.overlap.boot.Rd |only
man/niche.overlap.boot.paire.Rd |only
man/niche.overlap.paire.Rd |only
man/niche.width.Rd |only
man/sp.pair.Rd | 2 -
man/spaa-package.Rd | 43 +++++++++++++++++++++++++++-------------
16 files changed, 50 insertions(+), 46 deletions(-)
Title: Simultaneous Inference in General Parametric Models
Diff between multcomp versions 1.1-7 dated 2010-05-18 and 1.2-0 dated 2010-08-11
Description: Simultaneous tests and confidence intervals for general
linear hypotheses in parametric models, including linear,
generalized linear, linear mixed effects, and survival models.
Author: Torsten Hothorn, Frank Bretz and Peter Westfall and Richard M.
Heiberger and Andre Schuetzenmeister
Maintainer: Torsten Hothorn
DESCRIPTION | 8 ++++----
NEWS | 12 ++++++++++++
R/mcp.R | 2 +-
demo |only
inst/CHANGES | 12 ++++++++++++
inst/doc/chfls1.pdf |binary
inst/doc/generalsiminf.pdf |binary
inst/doc/multcomp-examples.pdf |binary
man/cld.Rd | 2 +-
man/contrMat.Rd | 4 ++++
man/glht.Rd | 27 ++++++++++++++++++++++++++-
man/methods.Rd | 5 ++++-
12 files changed, 64 insertions(+), 8 deletions(-)
Title: Mixture of Gaussian Bayesian Network Model
Diff between mugnet versions 0.13.1 dated 2010-08-10 and 0.13.2 dated 2010-08-11
Description: A package that models continuous multivariate data via
directional acyclic graphs and provides inference based on the
frequentist approach
Author: Nikolay Balov
Maintainer: Nikolay Balov
DESCRIPTION | 9 +++++----
R/mugnet.learn.R | 2 ++
demo/blung.r | 8 ++++----
src/emsearch.h | 2 +-
src/mixnet_rexport.cpp | 8 ++++----
src/rsearch.cpp | 6 ++++--
src/utils.cpp | 8 ++++----
7 files changed, 24 insertions(+), 19 deletions(-)
Title: Various Coefficients of Interrater Reliability and Agreement
Diff between irr versions 0.82 dated 2009-11-10 and 0.83 dated 2010-08-11
Description: Coefficients of Interrater Reliability and Agreement for
quantitative, ordinal and nominal data: ICC, Finn-Coefficient,
Robinson'A, Kendall's W, Cohen's Kappa, ...
Author: Matthias Gamer
Maintainer: Matthias Gamer
CHANGES | 2 +
DESCRIPTION | 13 ++++++-----
INDEX | 2 +
R/N.cohen.kappa.R | 58 +++++++++++++++++++++++++-------------------------
R/N2.cohen.kappa.R |only
man/N.cohen.kappa.Rd | 30 ++++++++++++-------------
man/N2.cohen.kappa.Rd |only
7 files changed, 55 insertions(+), 50 deletions(-)
Title: Hartigan's dip test statistic for unimodality - corrected code
Diff between diptest versions 0.25-2 dated 2009-02-09 and 0.25-3 dated 2010-08-11
Description: Compute Hartigan's dip test statistic for unimodality
Author: Martin Maechler (based on Fortran and S-plus from Dario
Ringach, NYU.edu)
Maintainer: Martin Maechler
diptest-0.25-2/diptest/INDEX |only
diptest-0.25-3/diptest/ChangeLog | 4 ++++
diptest-0.25-3/diptest/DESCRIPTION | 13 +++++++------
diptest-0.25-3/diptest/TODO | 4 ++++
diptest-0.25-3/diptest/inst/doc/auto |only
diptest-0.25-3/diptest/inst/doc/diptest-issues.Rnw |only
diptest-0.25-3/diptest/inst/doc/diptest-issues.pdf |only
diptest-0.25-3/diptest/inst/doc/diptest.bib |only
diptest-0.25-3/diptest/inst/doc/myVignette.sty |only
9 files changed, 15 insertions(+), 6 deletions(-)
Title: delftfews R extensions
Diff between delftfews versions 0.3-19 dated 2010-08-09 and 0.3-27 dated 2010-08-11
Description: a collection of timeseries sets handling functions used
here at work (Nelen en Schuurmans), initially for the Lizard
Scripter.
Author: Mario Frasca
Maintainer: Mario Frasca
DESCRIPTION | 10 ++--
NAMESPACE | 8 ++-
R/rezoo.R |only
R/select.R | 104 ++--------------------------------------------
inst/RUnit/Makefile |only
inst/RUnit/runit.rezoo.R |only
inst/RUnit/runit.select.R | 9 ---
man/delftfews-package.Rd | 4 +
8 files changed, 19 insertions(+), 116 deletions(-)
Title: COBS -- Constrained B-splines (Sparse matrix based)
Diff between cobs versions 1.2-0 dated 2009-02-25 and 1.2-1 dated 2010-08-11
Description: Qualitatively Constrained (Regression) Smoothing via
Linear Programming and Sparse Matrices.
Author: Pin T. Ng
Maintainer: Martin Maechler
ChangeLog | 15 +++++++++-
DESCRIPTION | 15 ++++++----
Pin-notes_2009-02.txt |only
R/l1Design.R | 4 ++
R/looDesign.R | 5 ++-
man/cobs.Rd | 8 ++---
man/qbsks.Rd | 8 +++--
scobs_02_09.txt |only
tests/ex1.Rout.save | 27 +++++++++---------
tests/ex2-long.Rout.save | 27 ++++++++----------
tests/ex3.Rout.save | 7 ++--
tests/multi-constr.Rout.save | 5 +--
tests/pt-ex.R |only
tests/roof.Rout.save | 7 ++--
tests/small-ex.Rout.save | 7 ++--
tests/spline-ex.R | 13 ++-------
tests/spline-ex.Rout.save | 62 ++++++++++++++++++++-----------------------
tests/temp.Rout.save | 7 ++--
tests/wind.Rout.save | 22 +++++++++++----
19 files changed, 125 insertions(+), 114 deletions(-)
Title: Construct Graphs of S4 Class Hierarchies
Diff between classGraph versions 0.7-3 dated 2009-11-18 and 0.7-4 dated 2010-08-11
Description: Construct directed graphs of S4 class hierarchies and
visualize them. In general, these graphs typically are DAGs
(directed acyclic graphs), often simple trees in practice.
Author: Martin Maechler partly based on code from Robert Gentleman
Maintainer: Martin Maechler
ChangeLog | 6 ++++++
DESCRIPTION | 8 ++++----
man/plotRag.Rd | 13 +++++++++++--
3 files changed, 21 insertions(+), 6 deletions(-)
Title: Bayesian Inference for Marketing/Micro-econometrics
Diff between bayesm versions 2.2-2 dated 2008-06-09 and 2.2-3 dated 2010-08-11
Description: bayesm covers many important models used in marketing and
micro-econometrics applications. The package includes: Bayes
Regression (univariate or multivariate dep var), Bayes
Seemingly Unrelated Regression (SUR), Binary and Ordinal
Probit, Multinomial Logit (MNL) and Multinomial Probit (MNP),
Multivariate Probit, Negative Binomial (Poisson) Regression,
Multivariate Mixtures of Normals (including clustering),
Dirichlet Process Prior Density Estimation with normal base,
Hierarchical Linear Models with normal prior and covariates,
Hierarchical Linear Models with a mixture of normals prior and
covariates, Hierarchical Multinomial Logits with a mixture of
normals prior and covariates, Hierarchical Multinomial Logits
with a Dirichlet Process prior and covariates, Hierarchical
Negative Binomial Regression Models, Bayesian analysis of
choice-based conjoint data, Bayesian treatment of linear
instrumental variables models, and Analysis of Multivariate
Ordinal survey data with scale usage heterogeneity (as in Rossi
et al, JASA (01)). For further reference, consult our book,
Bayesian Statistics and Marketing by Rossi, Allenby and
McCulloch.
Author: Peter Rossi
Maintainer: Peter Rossi
DESCRIPTION | 63 +++++++++++++++++++++------------------------
R/rhierLinearMixture.R | 3 +-
R/rhierMnlRwMixture.R | 3 +-
R/rivDP.R | 3 +-
R/rnmixGibbs.R | 30 ++++++++++++++++++++-
man/Scotch.Rd | 2 -
man/bank.Rd | 2 -
man/breg.Rd | 6 ++--
man/cgetC.Rd | 2 -
man/cheese.Rd | 2 -
man/clusterMix.Rd | 4 +-
man/condMom.Rd | 6 ++--
man/createX.Rd | 6 ++--
man/customerSat.Rd | 2 -
man/eMixMargDen.Rd | 6 ++--
man/fsh.Rd | 4 +-
man/ghkvec.Rd | 6 ++--
man/llmnl.Rd | 6 ++--
man/llmnp.Rd | 6 ++--
man/llnhlogit.Rd | 6 ++--
man/lndIChisq.Rd | 6 ++--
man/lndIWishart.Rd | 6 ++--
man/lndMvn.Rd | 6 ++--
man/lndMvst.Rd | 6 ++--
man/logMargDenNR.Rd | 6 ++--
man/margarine.Rd | 2 -
man/mixDen.Rd | 6 ++--
man/mixDenBi.Rd | 6 ++--
man/mnlHess.Rd | 6 ++--
man/mnpProb.Rd | 6 ++--
man/momMix.Rd | 6 ++--
man/nmat.Rd | 4 +-
man/numEff.Rd | 6 ++--
man/orangeJuice.Rd | 2 -
man/plot.bayesm.hcoef.Rd | 4 +-
man/plot.bayesm.mat.Rd | 4 +-
man/plot.bayesm.nmix.Rd | 4 +-
man/rDPGibbs.Rd | 6 ++--
man/rbiNormGibbs.Rd | 6 ++--
man/rbprobitGibbs.Rd | 6 ++--
man/rdirichlet.Rd | 6 ++--
man/rhierBinLogit.Rd | 6 ++--
man/rhierLinearMixture.Rd | 20 +++++++-------
man/rhierLinearModel.Rd | 6 ++--
man/rhierMnlDP.Rd | 6 ++--
man/rhierMnlRwMixture.Rd | 6 ++--
man/rhierNegbinRw.Rd | 6 ++--
man/rivDP.Rd | 4 +-
man/rivGibbs.Rd | 6 ++--
man/rmixGibbs.Rd | 6 ++--
man/rmixture.Rd | 4 +-
man/rmnlIndepMetrop.Rd | 6 ++--
man/rmnpGibbs.Rd | 6 ++--
man/rmultireg.Rd | 6 ++--
man/rmvpGibbs.Rd | 6 ++--
man/rmvst.Rd | 6 ++--
man/rnegbinRw.Rd | 6 ++--
man/rnmixGibbs.Rd | 16 +++++++----
man/rordprobitGibbs.Rd | 6 ++--
man/rscaleUsage.Rd | 6 ++--
man/rsurGibbs.Rd | 8 ++---
man/rtrun.Rd | 6 ++--
man/runireg.Rd | 6 ++--
man/runiregGibbs.Rd | 6 ++--
man/rwishart.Rd | 6 ++--
man/simnhlogit.Rd | 6 ++--
man/summary.bayesm.mat.Rd | 4 +-
man/summary.bayesm.nmix.Rd | 8 +++--
man/summary.bayesm.var.Rd | 4 +-
man/tuna.Rd | 2 -
70 files changed, 251 insertions(+), 217 deletions(-)
Title: Rniftilib - R Interface to NIFTICLIB (V1.1.0)
Diff between Rniftilib versions 0.0-27 dated 2009-08-04 and 0.0-29 dated 2010-08-11
Description: R interface to nifticlib (nifticlib-1.1.0) (read/write
ANALYZE(TM)7.5/NIfTI-1 volume images)
Author: Oliver Granert
Maintainer: Oliver Granert
DESCRIPTION | 12
R/nifti.R | 15
configure.in | 2
man/nifti.Rd | 15
man/nifti_image_free.Rd |only
man/nifti_image_setdatatype.Rd | 63 ++
man/nifti_image_unload.Rd |only
man/nifti_units_string.Rd |only
src/Rnifti.c | 979 +++++++++++++++++++++++++----------------
src/nifti1_io.c | 28 -
src/nifti1_io.h | 6
11 files changed, 713 insertions(+), 407 deletions(-)
Title: Fast Nearest Neighbor Search Algorithms and Applications
Diff between FNN versions 0.6-0 dated 2010-05-19 and 0.6-2 dated 2010-08-11
Description: A collection of fast k-nearest neighbor search algorithms
and applications including a cover-tree, kd-tree and the
nearest neighbor algorithm in package class. In addition, KNN
classification, regression and information measures are also
implemented.
Author: Shengqiao Li
Maintainer: Shengqiao Li
ChangeLog | 13 +++
DESCRIPTION | 8 +-
NAMESPACE | 2
R/KNN.R | 18 ++--
R/KNN.information.measures.R | 4 -
R/KNNCR.R | 3
man/get.knn.Rd | 8 +-
man/knn.dist.Rd | 4 -
man/knn.index.Rd | 4 -
src/KNN_ANN.cpp | 29 ++++---
src/KNN_VR.cpp | 169 +++++++++++++++++++++++++++++++++++++++----
src/KNN_cover_test.cpp | 5 -
src/KNN_cover_tree.cpp | 10 +-
src/label_point.cpp | 73 ------------------
src/label_point.h | 75 ++++++++++++++++++-
15 files changed, 296 insertions(+), 129 deletions(-)
Title: Triad census for networks
Diff between triads versions 0.1 dated 2010-06-04 and 0.2 dated 2010-08-11
Description: This program calculates the triad census positions of each
node in a graph object.
Author: Solomon Messing
Maintainer: Solomon Messing
DESCRIPTION | 8 ++++----
R/triads.R | 50 ++++++++++++++++++++++++++------------------------
2 files changed, 30 insertions(+), 28 deletions(-)
Title: R code for Stock Synthesis
Diff between r4ss versions 1.07 dated 2010-07-24 and 1.08 dated 2010-08-11
Description: Functions for reading output, plotting, exploring and
manipulating input files for Richard Methot's Stock Synthesis
fisheries stock assessment modeling platform.
Author: Ian Taylor, Ian Stewart, Tommy Garrison, Andre Punt, John
Wallace, and other contributors
Maintainer: Ian Taylor
DESCRIPTION | 8 ++--
R/SS_fitbiasramp.R | 45 ++++++++++++++++-----------
R/SS_output.R | 35 ++++++++++++++-------
R/SS_plots.R | 82 ++++++++++++++++++++++++++++++++-----------------
R/SS_recdevs.R | 16 ++++-----
R/SSplotBiology.R | 4 +-
R/SSplotCatch.R | 17 ++++++----
R/SSplotComps.R | 21 ++++--------
R/SSplotNumbers.R | 66 +++++++++++++++++++++++++--------------
R/SSplotSelex.R | 83 ++++++++++++++++++++++++++++++++++++++++++++++++--
R/SSplotTags.R | 9 +++--
R/SSplotTimeseries.R | 10 ++++--
R/SSrunsims.R | 5 ++-
R/make_multifig.R | 4 +-
man/SS_fitbiasramp.Rd | 7 +++-
man/SS_plots.Rd | 5 ---
man/SS_recdevs.Rd | 12 +++----
man/SSplotCatch.Rd | 2 -
man/SSplotComps.Rd | 5 ---
man/SSplotNumbers.Rd | 8 ++++
man/SSplotSelex.Rd | 9 ++++-
man/SSplotTags.Rd | 9 +++--
man/SSrunsims.Rd | 8 +++-
man/r4ss-package.Rd | 4 +-
24 files changed, 322 insertions(+), 152 deletions(-)
Title: Warnes and Raftery's MCGibbsit MCMC diagnostic
Diff between mcgibbsit versions 1.0.5 dated 2005-06-22 and 1.0.6 dated 2010-08-11
Description: mcgibbsit provides an implementation of Warnes & Raftery's
MCGibbsit run-length diagnostic for a set of (not-necessarily
independent) MCMC sampers. It combines the estimate
error-bounding approach of Raftery and Lewis with evaulate
between verses within chain approach of Gelman and Rubin.
Author: Gregory R. Warnes
Maintainer: Gregory R. Warnes
mcgibbsit-1.0.5/mcgibbsit/ChangeLog |only
mcgibbsit-1.0.5/mcgibbsit/INDEX |only
mcgibbsit-1.0.6/mcgibbsit/DESCRIPTION | 21 ++++++++--------
mcgibbsit-1.0.6/mcgibbsit/R/mcgibbsit.R | 2 -
mcgibbsit-1.0.6/mcgibbsit/R/read.mcmc.R | 38 +++++++++++++++++------------
mcgibbsit-1.0.6/mcgibbsit/man/mcgibbsit.Rd | 11 ++++++--
mcgibbsit-1.0.6/mcgibbsit/man/read.mcmc.Rd | 21 ++++++++++++----
7 files changed, 61 insertions(+), 32 deletions(-)
Title: Generic Functions for R
Diff between caroline versions 0.2-0 dated 2010-07-26 and 0.3-0 dated 2010-08-11
Description: The caroline package is a collection of generic functions
useful for various applications.
Author: David M. Schruth
Maintainer: David M. Schruth
DESCRIPTION | 8 +--
NAMESPACE | 2
R/system.R | 119 ++++++++++++++++++++++++++++++++++++++++++++++-------
R/violins.R | 3 +
man/getFileLock.Rd |only
man/groupBy.Rd |only
man/regroupDF.Rd |only
man/rmFileLock.Rd |only
8 files changed, 112 insertions(+), 20 deletions(-)
Title: Classification and Regression Training
Diff between caret versions 4.49 dated 2010-08-09 and 4.51 dated 2010-08-11
Description: Misc functions for training and plotting classification
and regression models
Author: Max Kuhn. Contributions from Jed Wing, Steve Weston, Andre
Williams, Chris Keefer and Allan Engelhardt
Maintainer: Max Kuhn
DESCRIPTION | 8 +-
NAMESPACE | 1
R/resamples.R | 119 ++++++++++++++++++++++++++++++++++++--------
data/.Rhistory |only
data/oil.RData |binary
inst/NEWS | 14 +++++
inst/doc/caretMisc.pdf |binary
inst/doc/caretSelection.pdf |binary
inst/doc/caretTrain.pdf |binary
inst/doc/caretVarImp.pdf |binary
man/diff.resamples.Rd | 6 ++
man/lattice.resamples.Rd | 27 ++++++++-
man/resamples.Rd | 6 ++
13 files changed, 153 insertions(+), 28 deletions(-)