Author: Klaus Schliep
Title: Phylogenetic analysis in R
Description: Phylogenetic analysis in R (Estimation of phylogenetic
trees and networks using Maximum Likelihood, Maximum Parsimony,
Distance methods & Hadamard conjugation)
Diff between phangorn versions 0.99-2 dated 2009-07-21 and 0.99-3 dated 2009-10-30
ChangeLog | 19 + DESCRIPTION | 10 NAMESPACE | 5 R/phylo.R | 860 ++++++++++++++++++++++++++++++++++++++------- inst/doc/Rplots.pdf | 276 ++++++-------- inst/doc/Trees.pdf | 902 +++++++++++++++++++++++------------------------- man/Laurasiatherian.Rd | 2 man/NJ.Rd | 4 man/SH.test.Rd | 2 man/allTrees.Rd | 17 man/bootstrap.pml.Rd | 4 man/designTree.Rd | 2 man/dfactorial.Rd | 2 man/dist.hamming.Rd | 2 man/distanceHadamard.Rd | 2 man/hadamard.Rd | 2 man/nni.Rd |only man/parsimony.Rd | 2 man/phyDat.Rd | 6 man/pml.Rd | 6 man/pmlCluster.Rd | 3 man/pmlMix.Rd | 2 man/pmlPart.Rd | 2 man/read.aa.Rd | 2 man/simSeq.Rd | 2 man/splitsNetwork.Rd | 2 man/treedist.Rd | 4 man/upgma.Rd | 2 src/phangorn.c | 270 +++++++++++++- 29 files changed, 1611 insertions(+), 803 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 1.0-7 dated 2009-09-29 and 1.0-8 dated 2009-10-30
DESCRIPTION | 8 NEWS | 10 R/ExactDistributions.R | 9 inst/doc/LegoCondInf.pdf |binary inst/doc/MAXtest.pdf |binary inst/doc/coin.pdf |binary inst/doc/coin_implementation.pdf |binary inst/documentation/html/Classes_8c-source.html | 2 inst/documentation/html/Classes_8c.html | 2 inst/documentation/html/Classes_8h-source.html | 2 inst/documentation/html/Classes_8h.html | 2 inst/documentation/html/Helpers_8c-source.html | 2 inst/documentation/html/Helpers_8c.html | 2 inst/documentation/html/Helpers_8h-source.html | 2 inst/documentation/html/Helpers_8h.html | 2 inst/documentation/html/LinearStatistic_8c-source.html | 2 inst/documentation/html/LinearStatistic_8c.html | 2 inst/documentation/html/LinearStatistic_8h-source.html | 2 inst/documentation/html/LinearStatistic_8h.html | 2 inst/documentation/html/StreitbergRoehmel_8c-source.html | 2 inst/documentation/html/StreitbergRoehmel_8c.html | 2 inst/documentation/html/annotated.html | 2 inst/documentation/html/classes.html | 2 inst/documentation/html/coin__common_8h-source.html | 2 inst/documentation/html/coin__common_8h.html | 2 inst/documentation/html/dir_551893842a8579748e8cac726fc2aaac.html | 2 inst/documentation/html/dirs.html | 2 inst/documentation/html/files.html | 2 inst/documentation/html/functions.html | 2 inst/documentation/html/functions_vars.html | 2 inst/documentation/html/globals.html | 12 inst/documentation/html/globals_func.html | 12 inst/documentation/html/globals_vars.html | 2 inst/documentation/html/graph_legend.html | 2 inst/documentation/html/main.html | 2 inst/documentation/html/structcelW-members.html | 2 inst/documentation/html/structcelW.html | 4 inst/documentation/html/vandeWiel_8c-source.html | 174 +++++----- inst/documentation/html/vandeWiel_8c.html | 98 +++-- inst/documentation/html/vandeWiel_8c_18f96560e9861316db1121e8fe69ef07_cgraph.map |only inst/documentation/html/vandeWiel_8c_18f96560e9861316db1121e8fe69ef07_cgraph.md5 |only inst/documentation/html/vandeWiel_8c_18f96560e9861316db1121e8fe69ef07_cgraph.png |only inst/documentation/html/vandeWiel_8c_6bee1e9d657a3174d5a2ecafac2b1d6e_cgraph.map |only inst/documentation/html/vandeWiel_8c_6bee1e9d657a3174d5a2ecafac2b1d6e_cgraph.md5 |only inst/documentation/html/vandeWiel_8c_6bee1e9d657a3174d5a2ecafac2b1d6e_cgraph.png |only inst/documentation/html/vandeWiel_8c_b36f32483d67f870c4dca34aac14f5b9_cgraph.map |only inst/documentation/html/vandeWiel_8c_b36f32483d67f870c4dca34aac14f5b9_cgraph.md5 |only inst/documentation/html/vandeWiel_8c_b36f32483d67f870c4dca34aac14f5b9_cgraph.png |only inst/documentation/latex/dir_551893842a8579748e8cac726fc2aaac_dep.pdf | 16 inst/documentation/latex/doxygen.sty | 4 inst/documentation/latex/refman.tex | 2 inst/documentation/latex/structcelW.tex | 2 inst/documentation/latex/vandeWiel_8c.tex | 50 +- inst/documentation/latex/vandeWiel_8c_18f96560e9861316db1121e8fe69ef07_cgraph.eps |only inst/documentation/latex/vandeWiel_8c_18f96560e9861316db1121e8fe69ef07_cgraph.md5 |only inst/documentation/latex/vandeWiel_8c_18f96560e9861316db1121e8fe69ef07_cgraph.pdf |only inst/documentation/latex/vandeWiel_8c_6bee1e9d657a3174d5a2ecafac2b1d6e_cgraph.eps |only inst/documentation/latex/vandeWiel_8c_6bee1e9d657a3174d5a2ecafac2b1d6e_cgraph.md5 |only inst/documentation/latex/vandeWiel_8c_6bee1e9d657a3174d5a2ecafac2b1d6e_cgraph.pdf |only inst/documentation/latex/vandeWiel_8c_b36f32483d67f870c4dca34aac14f5b9_cgraph.eps |only inst/documentation/latex/vandeWiel_8c_b36f32483d67f870c4dca34aac14f5b9_cgraph.md5 |only inst/documentation/latex/vandeWiel_8c_b36f32483d67f870c4dca34aac14f5b9_cgraph.pdf |only inst/documentation/man/man3/Classes.c.3 | 2 inst/documentation/man/man3/Classes.h.3 | 2 inst/documentation/man/man3/Helpers.c.3 | 2 inst/documentation/man/man3/Helpers.h.3 | 2 inst/documentation/man/man3/LinearStatistic.c.3 | 2 inst/documentation/man/man3/LinearStatistic.h.3 | 2 inst/documentation/man/man3/StreitbergRoehmel.c.3 | 2 inst/documentation/man/man3/_home_hothorn_projects_svn_Rpkgs_trunk_coin_src_.3 | 2 inst/documentation/man/man3/celW.3 | 4 inst/documentation/man/man3/coin_common.h.3 | 2 inst/documentation/man/man3/vandeWiel.c.3 | 26 - src/vandeWiel.c | 30 - tests/Examples/coin-Ex.Rout.save | 11 tests/bugfixes.Rout.save | 2 tests/codetools-checks.Rout.save | 4 tests/comparisons.Rout.save | 4 tests/regtest_2sample.Rout.save | 12 tests/regtest_Ksample.Rout.save | 10 tests/regtest_MTP.Rout.save | 2 tests/regtest_contingency.Rout.save | 4 tests/regtest_correlation.Rout.save | 12 83 files changed, 321 insertions(+), 273 deletions(-)
Author: Philippe Grosjean
Title: SciViews GUI API - Unit testing
Description: A complete unit test system and functions to implement its
GUI part
Diff between svUnit versions 0.6-2 dated 2009-06-28 and 0.6-4 dated 2009-10-30
DESCRIPTION | 12 NEWS | 45 R/svUnit-internal.R | 15 TODO | 17 inst/CITATION | 10 inst/doc/svUnit.Rnw | 9 inst/doc/svUnit.lyx | 23 inst/doc/svUnit.pdf | 2419 +++++++++++++++++++-------------------- inst/komodo/sciviewskunit-ko.xpi |binary man/guiTestReport.Rd | 4 10 files changed, 1311 insertions(+), 1243 deletions(-)
Author: Russell V. Lenth
Title: Response-surface analysis
Description: Provides functions to generate response-surface designs,
fit first- and second-order response-surface models, make
contour plots, obtain the path of steepest ascent, and do
canonical analysis.
Diff between rsm versions 1.20 dated 2009-10-20 and 1.21 dated 2009-10-30
DESCRIPTION | 6 R/contour-lm.R | 4 inst/NEWS | 10 inst/doc/rsm.Rnw | 594 +++++++++++++++++++++++++++---------------------------- inst/doc/rsm.bbl |only inst/doc/rsm.blg |only inst/doc/rsm.pdf |binary 7 files changed, 310 insertions(+), 304 deletions(-)
Author: Guido Schwarzer
Diff between meta versions 1.1-2 dated 2009-10-11 and 1.1-3 dated 2009-10-30
Title: Meta-Analysis with R
Description: Fixed and random effects meta-analysis. Functions for
tests of bias, forest and funnel plot.
meta-1.1-2/meta/ChangeLogs |only
meta-1.1-3/meta/ChangeLog |only
meta-1.1-3/meta/DESCRIPTION | 8 -
meta-1.1-3/meta/INDEX | 3
meta-1.1-3/meta/NAMESPACE | 4
meta-1.1-3/meta/R/funnel.default.R | 4
meta-1.1-3/meta/R/trimfill.R | 223 -----------------------------------
meta-1.1-3/meta/R/trimfill.default.R |only
meta-1.1-3/meta/R/trimfill.meta.R |only
meta-1.1-3/meta/man/trimfill.Rd | 52 --------
meta-1.1-3/meta/man/trimfill.meta.Rd |only
11 files changed, 17 insertions(+), 277 deletions(-)
Author: Micah Altman, Jeff Gill, Michael P. McDonald
Title: Tools for testing and improving accuracy of statistical results.
Description: This is a suite of tools designed to test and improve the
accuracy of statistical computation, including: Summarization
of the sensitivity of linear and non-linear models (lm, glm,
mle, nls) to measurement and numerical error; Sensitivity
analysis of dozens of models as run through Zelig; A
generalized cholesky method for correcting non-invertable
Hessians; Tests for the global optimality of non-linear
regression and maximum likelihood results; Tools for obtaining
true random numbers using entropy collected from the system
and/or entropy servers on the internet; A method for converting
floating point numbers to normalized fractions; Benchmark data
for checking the accuracy of basic distribution functions.
Diff between accuracy versions 1.32 dated 2009-05-04 and 1.33 dated 2009-10-30
accuracy-1.32/accuracy/inst/doc/Sweave.sty |only accuracy-1.33/accuracy/CHANGELOG | 10 accuracy-1.33/accuracy/DESCRIPTION | 10 accuracy-1.33/accuracy/NAMESPACE | 1 accuracy-1.33/accuracy/R/coefFunctions.R | 2 accuracy-1.33/accuracy/R/trueRandom.R | 89 accuracy-1.33/accuracy/inst/CITATION | 2 accuracy-1.33/accuracy/inst/doc/Rplots.pdf | 1594 +++++------ accuracy-1.33/accuracy/inst/doc/accuracy_vignette-plot1a.eps | 493 +-- accuracy-1.33/accuracy/inst/doc/accuracy_vignette-plot1a.pdf | 542 +-- accuracy-1.33/accuracy/inst/doc/accuracy_vignette-plot2a.eps | 629 ++-- accuracy-1.33/accuracy/inst/doc/accuracy_vignette-plot2a.pdf | 1014 +++--- accuracy-1.33/accuracy/inst/doc/accuracy_vignette.Rnw | 5 accuracy-1.33/accuracy/inst/doc/accuracy_vignette.aux | 2 accuracy-1.33/accuracy/inst/doc/accuracy_vignette.bbl | 103 accuracy-1.33/accuracy/inst/doc/accuracy_vignette.blg | 20 accuracy-1.33/accuracy/inst/doc/accuracy_vignette.log | 385 +- accuracy-1.33/accuracy/inst/doc/accuracy_vignette.pdf |binary accuracy-1.33/accuracy/inst/doc/accuracy_vignette.tex | 48 accuracy-1.33/accuracy/man/dehaan.Rd | 4 accuracy-1.33/accuracy/man/disttest.Rd | 2 accuracy-1.33/accuracy/man/html.Rd | 2 accuracy-1.33/accuracy/man/psim.Rd | 4 accuracy-1.33/accuracy/man/pzelig.Rd | 4 accuracy-1.33/accuracy/man/starr.Rd | 6 accuracy-1.33/accuracy/man/trueRandom.Rd | 13 26 files changed, 2527 insertions(+), 2457 deletions(-)
Author: Kurt Hornik, with contributions from Christian Buchta, Torsten
Hothorn, Alexandros Karatzoglou, David Meyer, and Achim Zeileis
Title: R/Weka interface
Description: An R interface to Weka (Version 3.6.1). Weka is a
collection of machine learning algorithms for data mining tasks
written in Java, containing tools for data pre-processing,
classification, regression, clustering, association rules, and
visualization. Both the R interface and Weka itself are
contained in the RWeka package. For more information on Weka
see http://www.cs.waikato.ac.nz/~ml/weka/.
Diff between RWeka versions 0.3-22 dated 2009-10-18 and 0.3-23 dated 2009-10-30
DESCRIPTION | 8 ++++---- R/graph.R | 2 +- 2 files changed, 5 insertions(+), 5 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 0.6-9 dated 2009-09-05 and 0.6-11 dated 2009-10-30
ChangeLog | 17 +++++++++++++ DESCRIPTION | 8 +++--- R/vect_link.R | 70 ++++----------------------------------------------------- R/xml1.R | 17 ++++++++----- inst/ChangeLog | 17 +++++++++++++ 5 files changed, 54 insertions(+), 75 deletions(-)
Author: Timothy H. Keitt
Diff between rgdal versions 0.6-19 dated 2009-10-05 and 0.6-20 dated 2009-10-30
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 | 9 +++++++--
DESCRIPTION | 8 ++++----
R/gdal.R | 2 +-
R/sgdf_gdal.R | 1 +
R/sp_gdal.R | 4 ++++
R/subs.R | 1 +
inst/ChangeLog | 9 +++++++--
src/gdal-bindings.cpp | 18 +++++++++++-------
8 files changed, 36 insertions(+), 16 deletions(-)
Author: Ernesto Barrios
Title: Useful Functions for Box, Hunter and Hunter II
Description: Functions and data sets reproducing some examples in Box,
Hunter and Hunter II
Diff between BHH2 versions 1.0.2 dated 2009-01-30 and 1.0.3 dated 2009-10-30
DESCRIPTION | 25 ++++++++++++++----------- R/ffDesMatrix.R | 4 ++-- R/ffFullMatrix.R | 4 ++-- inst/doc/BHH2.Rnw | 2 +- inst/doc/BHH2.pdf |binary inst/doc/auto |only man/ffDesMatrix.Rd | 4 +++- 7 files changed, 22 insertions(+), 17 deletions(-)
Author: Micah Altman
Diff between BARD versions 1.03 dated 2009-01-07 and 1.05 dated 2009-10-30
Title: Better Automated ReDistricting
Description: This is a package for automated redistricting and
heuristic exploration of redistricter revealed preference
CHANGELOG | 6
DESCRIPTION | 17
R/bardCluster.R | 528
R/bardComparison.R | 840
R/bardInteractive.R | 418
R/bardOptim.R | 2
R/bardPlan.R | 1544
R/bardProfile.R | 804
R/miniball.R | 144
R/zzz.R | 4
TODO | 3
inst/CITATION | 6
inst/doc/Rplots.pdf |792042 +++++++++++++++++++++----------------------
inst/doc/bardJSS-plot1a.eps |111605 +++---
inst/doc/bardJSS-plot1a.pdf |119722 +++---
inst/doc/bardJSS-plot2a.eps |275962 +++++++--------
inst/doc/bardJSS-plot2a.pdf |535453 ++++++++++++++---------------
inst/doc/bardJSS-plot3a.eps | 944
inst/doc/bardJSS-plot3a.pdf | 1173
inst/doc/bardJSS.Rnw | 2185
inst/doc/bardJSS.aux | 96
inst/doc/bardJSS.bbl | 32
inst/doc/bardJSS.bib | 21
inst/doc/bardJSS.blg | 62
inst/doc/bardJSS.log | 702
inst/doc/bardJSS.pdf |803365 ++++++++++++++++++++++----------------------
inst/doc/bardJSS.tex | 421
man/BARD.package.Rd | 6
src/Makevars | 2
src/Makevars.unix | 2
30 files changed, 1328765 insertions(+), 1319346 deletions(-)
Author: Karl Kuschner, Qian Si and William Cooke, College of William
and Mary, Dept. of Physics, 2009
Title: The William and Mary Bayesian Analysis Tool
Description: The package contains all the functions used to get a
resulting Bayesian network.
Diff between rWMBAT versions 1.0 dated 2009-09-21 and 2.0 dated 2009-10-29
DESCRIPTION | 15 +++++++-------- man/BuildBayesNet.Rd | 2 +- man/ChooseMetaVars.Rd | 2 +- man/CondMutualInfo.Rd | 6 +++--- man/DoTheMath.Rd | 2 +- man/In.Rd | 2 +- man/InitialProcessing.Rd | 2 +- man/MutualInfo.Rd | 4 ++-- man/Options.Rd | 2 +- man/Repmat.Rd | 2 +- man/WMBAT.Rd | 2 +- man/adjmat.Rd | 2 +- man/adjmat1.Rd | 2 +- man/adjmat2.Rd | 2 +- man/alignedPeakList.Rd | 10 ++++++++-- man/automi.Rd | 2 +- man/drop.Rd | 2 +- man/findmutualinfos.Rd | 2 +- man/getarcs.Rd | 2 +- man/looklr.Rd | 6 +++--- man/miCalc.Rd | 4 ++-- man/mi_vc.Rd | 2 +- man/mi_vc_v.Rd | 2 +- man/nfold.Rd | 2 +- man/rWMBAT-package.Rd | 4 ++-- man/repeats.Rd | 2 +- man/tofListMetaData.Rd | 2 +- 27 files changed, 47 insertions(+), 42 deletions(-)
Author: Romain Francois
Title: SciViews GUI API - Tools (wrapper for packages tools and
codetools)
Description: Set of tools aimed at wrapping some of the functionalities
of the packages tools, utils and codetools into a nicer format
so that an IDE can use them
Diff between svTools versions 0.0-11 dated 2009-10-11 and 0.0-12 dated 2009-10-29
DESCRIPTION | 13 +++++++------ NAMESPACE | 5 ++++- NEWS | 5 ++++- R/sidekick.R | 37 ++++++++++++++++++++++--------------- man/sidekick.Rd | 23 +++++++++++++---------- 5 files changed, 50 insertions(+), 33 deletions(-)
Author: Philippe Grosjean, Matthew Dowle
Title: SciViews GUI API - R Socket Server
Description: Implements a simple socket server allowing to connect GUI
clients to R
Diff between svSocket versions 0.9-43 dated 2009-01-23 and 0.9-48 dated 2009-10-29
svSocket-0.9-43/svSocket/testCLI/testCLI.r |only svSocket-0.9-43/svSocket/testCLI/testCLIcmd.r |only svSocket-0.9-48/svSocket/DESCRIPTION | 30 svSocket-0.9-48/svSocket/NAMESPACE | 8 svSocket-0.9-48/svSocket/NEWS | 43 + svSocket-0.9-48/svSocket/R/closeSocketClients.R | 21 svSocket-0.9-48/svSocket/R/evalServer.R |only svSocket-0.9-48/svSocket/R/getSocket.R | 115 +-- svSocket-0.9-48/svSocket/R/parSocket.R | 89 +- svSocket-0.9-48/svSocket/R/processSocket.R | 265 ++++---- svSocket-0.9-48/svSocket/R/sendSocketClients.R | 33 - svSocket-0.9-48/svSocket/R/startSocketServer.R | 456 ++++++++------- svSocket-0.9-48/svSocket/R/stopSocketServer.R | 89 +- svSocket-0.9-48/svSocket/R/svSocket-Internal.R | 39 - svSocket-0.9-48/svSocket/R/svTaskCallbackManager.R |only svSocket-0.9-48/svSocket/TODO | 72 +- svSocket-0.9-48/svSocket/inst/CITATION | 10 svSocket-0.9-48/svSocket/inst/etc/SimpleClient.Tcl | 9 svSocket-0.9-48/svSocket/inst/etc/SimpleClientSecure.Tcl |only svSocket-0.9-48/svSocket/man/closeSocketClients.Rd | 2 svSocket-0.9-48/svSocket/man/evalServer.Rd |only svSocket-0.9-48/svSocket/man/processSocket.Rd | 28 svSocket-0.9-48/svSocket/man/startSocketServer.Rd | 9 svSocket-0.9-48/svSocket/man/svTaskCallbackManager.Rd |only svSocket-0.9-48/svSocket/testCLI/testCLI.R |only svSocket-0.9-48/svSocket/testCLI/testCLIcmd.R |only 26 files changed, 735 insertions(+), 583 deletions(-)
Author: Philippe Grosjean, Romain Francois & Kamil Barton
Title: SciViews GUI API - Miscellaneous functions
Description: Supporting functions for the GUI API (various utilitary
functions)
Diff between svMisc versions 0.9-48 dated 2009-06-28 and 0.9-56 dated 2009-10-29
DESCRIPTION | 14 +- NAMESPACE | 1 NEWS | 55 +++++++++ R/Args.R | 2 R/CallTip.R | 11 + R/Complete.R | 316 ++++++++++++++++++++++++++++++++++++++++++++++++---- R/CompletePlus.R | 20 +++ R/descFun.R | 100 +++++++++++++++- R/isHelp.R | 12 + TODO | 4 inst/CITATION | 10 - man/Complete.Rd | 84 ++++++++----- man/CompletePlus.Rd | 1 man/isHelp.Rd | 2 man/progress.Rd | 2 15 files changed, 549 insertions(+), 85 deletions(-)
Author: Philippe Grosjean
Title: SciViews GUI API - IDE and code editor functions
Description: Function for the GUI API to interact with external
IDE/code editors
Diff between svIDE versions 0.9-45 dated 2009-01-23 and 0.9-47 dated 2009-10-29
svIDE-0.9-45/svIDE/R/TinnR.R |only svIDE-0.9-45/svIDE/man/TinnR.Rd |only svIDE-0.9-47/svIDE/DESCRIPTION | 31 +++++++++++++++++++------------ svIDE-0.9-47/svIDE/NAMESPACE | 4 +--- svIDE-0.9-47/svIDE/NEWS | 19 +++++++++++++++++++ svIDE-0.9-47/svIDE/R/Source.R | 19 ++++++++++--------- svIDE-0.9-47/svIDE/R/Startup.R | 11 ++++------- svIDE-0.9-47/svIDE/R/createCallTipFile.R | 5 +++-- svIDE-0.9-47/svIDE/R/createSyntaxFile.R | 17 +++++++++-------- svIDE-0.9-47/svIDE/R/getFunctions.R | 3 ++- svIDE-0.9-47/svIDE/R/getKeywords.R | 3 ++- svIDE-0.9-47/svIDE/R/guiDDEInstall.R | 19 +++++++++++-------- svIDE-0.9-47/svIDE/inst/CITATION | 10 +++++----- svIDE-0.9-47/svIDE/man/guiDDEInstall.Rd | 4 +--- 14 files changed, 86 insertions(+), 59 deletions(-)
Author: Philippe Grosjean
Title: SciViews GUI API - Dialog boxes
Description: Rapidly construct dialog boxes for your GUI, including an
automatic function assistant
Diff between svDialogs versions 0.9-41 dated 2009-10-11 and 0.9-42 dated 2009-10-29
DESCRIPTION | 10 +++++----- NEWS | 5 +++++ R/flexibleDlg.R | 14 ++++++++++++-- 3 files changed, 22 insertions(+), 7 deletions(-)
Author: Daniel P Gaile
Diff between iGenomicViewer versions 2.4.2 dated 2009-09-18 and 2.4.4 dated 2009-10-29
More information about iGenomicViewer at CRAN
Title: Tool for sending interactive bioinformatic heatmaps with
tool-tip content.
Description: A tool for visualizing data
DESCRIPTION | 8 +++---
R/adfWrapper.R | 57 +++++++++++++++++++++++++------------------
R/dfWrapper.R | 58 +++++++++++++++++++++++---------------------
R/makeGGV.R | 24 +++++++++---------
R/mappingObj.R | 6 ++--
R/marrayWrapper.R | 55 ++++++++++++++++++++++-------------------
inst/doc/iGGV.pdf |binary
inst/doc/iGenomicViewer.Rnw | 8 ++----
inst/doc/iGenomicViewer.pdf |binary
man/makeGGV.Rd | 3 ++
man/mappingObj.Rd | 45 +++++++++++++++++++---------------
11 files changed, 145 insertions(+), 119 deletions(-)
Permanent link
Author: Rajarshi Guha
Diff between rcdklibs versions 1.2.1 dated 2009-02-23 and 1.2.2 dated 2009-10-29
Title: rcdklib - CDK libraries packaged for R
Description: This package provides the CDK libraries for use in the R
environment. Given the size of the library itself, this package
is not expected to change very frequently. To make use of the
CDK within R, it is suggested that you use the rcdk package.
Note that it is possible to directly interact with the CDK
using rJava. However rcdk exposes functionality in a more
idiomatic way
DESCRIPTION | 23 +++++++++++++----------
inst/cont/cdk.jar |binary
2 files changed, 13 insertions(+), 10 deletions(-)
Author: Ryan T. Moore
Diff between muRL versions 0.1-3 dated 2009-10-18 and 0.1-4 dated 2009-10-29
Title: Mailmerge using R, LaTeX, and the Web
Description: Provides mailmerge methods for reading spreadsheets of
addresses and other relevant information to create standardized
but customizable letters. Provides a method for mapping US ZIP
codes, including those of letter recipients. Provides a method
for parsing and processing html code from online job postings
of the American Political Science Association.
CHANGELOG | 7 +++++++
DESCRIPTION | 8 ++++----
R/write.murl.R | 8 ++++----
demo/write.murl.R | 24 +++++++++++++++---------
man/murl-package.Rd | 4 ++--
man/write.murl.Rd | 10 +++++-----
6 files changed, 37 insertions(+), 24 deletions(-)
Author: Ryan T. Moore
Title: Block, assign, and diagnose potential interference in randomized
experiments
Description: Blocks units into experimental blocks, with one unit per
treatment condition, by creating a measure of multivariate
distance between all possible pairs of units. Maximum,
minimum, or an allowable range of differences between units on
one variable can be set. Randomly assign units to treatment
conditions. Diagnose potential interference between units
assigned to different treatment conditions. Write outputs to
.tex and .csv files.
Diff between blockTools versions 0.3 dated 2009-04-30 and 0.4-1 dated 2009-10-29
CHANGELOG | 6 + DESCRIPTION | 10 - R/block.R | 231 +++++++++++++++++++++++++--------------------- man/assignment.Rd | 19 +-- man/block.Rd | 64 +++++++++--- man/blockTools-package.Rd | 8 - man/diagnose.Rd | 2 man/outCSV.Rd | 8 - man/outTeX.Rd | 12 +- 9 files changed, 211 insertions(+), 149 deletions(-)
Author: Piotr Romanski
Title: Selecting attributes
Description: This package provides functions for selecting attributes
from a given dataset. Attribute subset selection is the process
of identifying and removing as much of the irrevelant and
redundant information as possible.
Diff between FSelector versions 0.17 dated 2009-05-18 and 0.18 dated 2009-10-29
DESCRIPTION | 10 +++++----- 1 file changed, 5 insertions(+), 5 deletions(-)
Author: Matt Taddy
Diff between Bmix versions 0.1 dated 2009-10-27 and 0.2 dated 2009-10-29
Title: Bayesian Sampling for Stick-breaking Mixtures
Description: This is a bare-bones implementation of sampling algorithms
for a variety of Bayesian stick-breaking (marginally DP)
mixture models, including particle learning and Gibbs sampling
for static DP mixtures, particle learning for dynamic BAR
stick-breaking, and DP mixture regression. The software is
designed to be easy to customize to suit different situations
and for experimentation with stick-breaking models. Since
particles are repeatedly copied, it is not an especially
efficient implementation.
DESCRIPTION | 25 ++++++++++++++-----------
demo/DPreg.R | 17 +++++++++++------
demo/bar1D.R | 15 ++++++++-------
demo/bar2D.R | 16 +++++++++-------
man/Bmix-package.Rd | 2 +-
src/latools.h | 2 +-
src/rvtools.h | 2 +-
7 files changed, 45 insertions(+), 34 deletions(-)
Author: Gopal, V. and Li, Z. and Casella, G.
Title: Bayesian Association Model for Genomic Data with Missing
Covariates
Description: This package fits a linear mixed model where the
covariates for the random effects have missing values.
Diff between BAMD versions 3.1 dated 2009-10-18 and 3.3 dated 2009-10-29
DESCRIPTION | 8 ++++---- R/gibbsSampler.R | 6 ++++-- R/variableSelector.R | 6 +++++- src/SNP.h | 7 ------- src/computeLoop.c | 17 +++++++++++++++-- src/generate_SNP.c | 49 +------------------------------------------------ src/gibbs.c | 16 ++++++---------- src/gibbs.h | 2 +- 8 files changed, 36 insertions(+), 75 deletions(-)
Author: Dominik Reusser, Till Francke
Title: Visualisation and analysis of output files of the hydrological
model WASIM
Description: Helpful tools for data processing and visualisation of
results of the hydrological model WASIM-ETH.
Diff between wasim versions 1.0 dated 2008-12-17 and 1.1 dated 2009-10-28
wasim-1.0/wasim/R/count.diff.direction.error.R |only wasim-1.0/wasim/R/diagnostic.R |only wasim-1.0/wasim/R/diagnostic_dawson.R |only wasim-1.0/wasim/R/diagnostic_series.R |only wasim-1.0/wasim/R/diagnostic_window.R |only wasim-1.0/wasim/R/k_rel.R |only wasim-1.0/wasim/R/lagtime.R |only wasim-1.0/wasim/R/nashS.R |only wasim-1.0/wasim/R/nashS_HF.R |only wasim-1.0/wasim/man/count.diff.direction.error.Rd |only wasim-1.0/wasim/man/diagnostic.Rd |only wasim-1.0/wasim/man/k_rel.Rd |only wasim-1.0/wasim/man/lagtime.Rd |only wasim-1.0/wasim/man/mean_error.Rd |only wasim-1.0/wasim/man/nashS.Rd |only wasim-1.0/wasim/man/rmse.Rd |only wasim-1.1/wasim/DESCRIPTION | 18 wasim-1.1/wasim/R/p.flow_comp.R | 2 wasim-1.1/wasim/R/read.results.R | 2 wasim-1.1/wasim/R/rmse.R | 2 wasim-1.1/wasim/inst/weisseritz/sd__ww100.asc | 352 wasim-1.1/wasim/inst/weisseritz/suz_ww100.asc | 352 wasim-1.1/wasim/inst/weisseritz/ww100-rh.txt |238892 +++++++++++----------- wasim-1.1/wasim/man/assemble.date.Rd | 45 wasim-1.1/wasim/man/bias.Rd | 55 wasim-1.1/wasim/man/color.factor.Rd | 3 wasim-1.1/wasim/man/convert_q_units.Rd | 4 wasim-1.1/wasim/man/data.types.Rd | 3 wasim-1.1/wasim/man/diff_diff.Rd | 4 wasim-1.1/wasim/man/example.peaks.Rd | 9 wasim-1.1/wasim/man/extract_wasim_params.Rd | 4 wasim-1.1/wasim/man/f.score.Rd | 66 wasim-1.1/wasim/man/highlight.Rd | 14 wasim-1.1/wasim/man/k_hyd.Rd | 4 wasim-1.1/wasim/man/line_sumrain.Rd | 5 wasim-1.1/wasim/man/max_rel_diff.Rd | 4 wasim-1.1/wasim/man/models_dawson.Rd | 2 wasim-1.1/wasim/man/myRead.table.Rd | 9 wasim-1.1/wasim/man/p.storage.Rd | 7 wasim-1.1/wasim/man/read.results.Rd | 8 wasim-1.1/wasim/man/rerange.Rd | 7 wasim-1.1/wasim/man/span.Rd | 6 wasim-1.1/wasim/man/wasim-package.Rd | 17 43 files changed, 119850 insertions(+), 120046 deletions(-)
Author: Steve Juggins
Title: An R package for the analysis of Quaternary science data
Description: Functions for the analysis of Quaternary science data,
including constrained clustering, WA, WAPLS, IKFA, MLRC and MAT
transfer functions, and stratigraphic diagrams.
Diff between rioja versions 0.5-4 dated 2009-10-27 and 0.5-5 dated 2009-10-28
DESCRIPTION | 8 ++++---- inst/ChangeLog | 12 +++++++++--- man/read.CEP.Rd | 4 +++- man/rioja.package.Rd | 4 ++-- 4 files changed, 18 insertions(+), 10 deletions(-)
Author: Simon Urbanek
Diff between rJava versions 0.7-0 dated 2009-08-23 and 0.8-0 dated 2009-10-28
Title: Low-level R to Java interface
Description: Low-level interface to Java VM very much like .C/.Call and
friends. Allows creation of objects, calling methods and
accessing fields.
rJava-0.7-0/rJava/R/classes.R |only
rJava-0.8-0/rJava/DESCRIPTION | 5
rJava-0.8-0/rJava/NAMESPACE | 42
rJava-0.8-0/rJava/NEWS | 105 +
rJava-0.8-0/rJava/R/0classes.R |only
rJava-0.8-0/rJava/R/J.R |only
rJava-0.8-0/rJava/R/arrays.R |only
rJava-0.8-0/rJava/R/call.R | 208 +-
rJava-0.8-0/rJava/R/comparison.R |only
rJava-0.8-0/rJava/R/completion.R |only
rJava-0.8-0/rJava/R/exceptions.R | 22
rJava-0.8-0/rJava/R/import.R |only
rJava-0.8-0/rJava/R/instanceof.R |only
rJava-0.8-0/rJava/R/jinit.R | 17
rJava-0.8-0/rJava/R/methods.R | 4
rJava-0.8-0/rJava/R/reflection.R | 282 ++-
rJava-0.8-0/rJava/R/rep.R |only
rJava-0.8-0/rJava/R/serialize.R | 2
rJava-0.8-0/rJava/R/tools.R |only
rJava-0.8-0/rJava/R/windows/FirstLib.R | 2
rJava-0.8-0/rJava/R/with.R | 151 +
rJava-0.8-0/rJava/configure | 220 ++
rJava-0.8-0/rJava/configure.ac | 24
rJava-0.8-0/rJava/inst/java/ArrayDimensionException.class |only
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rJava-0.8-0/rJava/inst/java/boot/RJavaClassLoader.class |binary
rJava-0.8-0/rJava/inst/java/boot/RJavaClassLoader.java | 887 ++++++----
rJava-0.8-0/rJava/inst/javadoc |only
rJava-0.8-0/rJava/jri/NEWS | 2
rJava-0.8-0/rJava/jri/Rengine.java | 248 +-
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rJava-0.8-0/rJava/jri/src/Rengine.c | 58
rJava-0.8-0/rJava/jri/src/jri.h | 7
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rJava-0.8-0/rJava/man/jfloat.Rd | 2
rJava-0.8-0/rJava/man/jnew.Rd | 4
rJava-0.8-0/rJava/man/jobjRef-class.Rd | 8
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rJava-0.8-0/rJava/man/show.Rd | 4
rJava-0.8-0/rJava/man/with.Rd | 90 -
rJava-0.8-0/rJava/src/Rglue.c | 101 +
rJava-0.8-0/rJava/src/arrayc.c | 163 +
rJava-0.8-0/rJava/src/callJNI.c | 38
rJava-0.8-0/rJava/src/config.h.in | 11
rJava-0.8-0/rJava/src/fields.c | 7
rJava-0.8-0/rJava/src/init.c | 85
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rJava-0.8-0/rJava/src/java/RJavaClassLoader.java | 887 ++++++----
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rJava-0.8-0/rJava/src/rJava.c | 165 +
rJava-0.8-0/rJava/src/rJava.h | 52
156 files changed, 4216 insertions(+), 1211 deletions(-)
Author: William H. Asquith
Title: L-moments, Trimmed L-moments, L-comoments, and Many
Distributions
Description: The package implements the statistical theory of L-moments
including L-moment estimation, probability-weighted moment
estimation, parameter estimation for numerous familiar and
not-so-familiar distributions, and L-moment estimation for the
same distributions from the parameters. L-moments are derived
from the expectations of order statistics and are linear with
respect to the probability- weighted moments. L-moments are
directly analogous to the well-known product moments; however,
L-moments have many advantages including unbiasedness,
robustness, and consistency with respect to the product
moments. This package is oriented around the FORTRAN algorithms
of J.R.M. Hosking, and the nomenclature for many of the
functions parallels that of the Hosking library. However,
numerous extensions are made to aid in expand of the breadth
and ease of L-moment application. Much theoretical extension of
L-moment theory has occurred in recent years. E.A.H. Elamir and
A.H. Seheult have developed the trimmed L-moments, which are
implemented in this package. Further, recent developments by
Robert Serfling and Peng Xiao have extended L-moments into
multivariate space; the so-called sample L-comoments are
implemented here. The supported distributions with moment type
shown as L (L-moments) or TL (trimmed L-moments) and additional
support for right-tail censoring ([RC]) include: Cauchy(TL),
Exponential(L), Gamma(L), Generalized Extreme Value(L),
Generalized Lambda(L & TL), Generalized Logistic (L),
Generalized Normal(L), Generalized Pareto(L[RC] & TL),
Gumbel(L), Normal(L), Kappa(L), Pearson Type III(L), Reverse
Gumbel(L[RC]), Wakeby(L), and Weibull(L).
Diff between lmomco versions 0.97.1 dated 2009-07-18 and 0.97.4 dated 2009-10-28
ChangeLog | 11 +++++++++++ DESCRIPTION | 10 +++++----- man/lmomgld.Rd | 4 ++-- man/pdfkap.Rd | 2 +- man/prob2T.Rd | 2 +- man/z.par2cdf.Rd | 8 ++++---- man/z.par2qua.Rd | 8 ++++---- 7 files changed, 28 insertions(+), 17 deletions(-)
Author: Pavel N. Krivitsky
Diff between latentnet versions 2.2 dated 2009-07-18 and 2.2-2 dated 2009-10-28
Title: Latent position and cluster models for statistical networks
Description: A package to fit and simulate latent position and cluster
models for statistical networks.
ChangeLog | 4 ++++
DESCRIPTION | 8 ++++----
man/gof.ergmm.Rd | 2 +-
man/plot.ergmm.Rd | 6 +++---
man/simulate.ergmm.Rd | 2 +-
5 files changed, 13 insertions(+), 9 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 2100.77 dated 2009-09-28 and 2110.78 dated 2009-10-28
ChangeLog | 1558 ++++++++++++++++++++++++++++++++++++++++++++++++++- DESCRIPTION | 14 NAMESPACE | 9 R/builtin-adapt.R |only man/builtin-adapt.Rd |only src |only 6 files changed, 1570 insertions(+), 11 deletions(-)
Author: Sebastien Beland (UQAM), David Magis (KU Leuven) and Gilles
Raiche (UQAM)
Title: Some traditional methods to detect dichotomous differential item
functioning (DIF) in psychometrics
Description: The difR package contains several traditional methods to
detect DIF in dichotomously scored items. Both uniform and
non-uniform DIF effects can be detected, with methods relying
upon item response models or not. Some methods deal with more
than one focal group.
Diff between difR versions 1.0 dated 2009-09-23 and 1.1 dated 2009-10-28
DESCRIPTION | 10 ++++---- NEWS |only R/itemPar2PL.r | 4 +-- man/LRT.Rd | 2 - man/Logistik.rd | 2 - man/LordChi2.rd | 2 - man/RajuZ.rd | 2 - man/breslowDay.rd | 4 +-- man/contrastMatrix.rd | 2 - man/dichoDif.rd | 16 ++++++------- man/difBD.rd | 9 ++++--- man/difGMH.rd | 9 ++++--- man/difGenLord.rd | 21 ++++++++++------- man/difLRT.rd | 2 - man/difLogistic.rd | 2 - man/difLord.rd | 50 +++++++++++++++++++++++------------------- man/difMH.rd | 2 - man/difRaju.rd | 55 ++++++++++++++++++++++++----------------------- man/difStd.rd | 2 - man/genLordChi2.rd | 2 - man/genMantelHaenszel.rd | 2 - man/itemPar1PL.rd | 6 ++--- man/itemPar2PL.rd | 2 - man/itemPar3PL.rd | 2 - man/itemPar3PLconst.rd | 2 - man/itemParEst.rd | 5 ++-- man/itemRescale.rd | 2 - man/mantelHaenszel.rd | 2 - man/selectDif.rd | 2 - man/stdPDIF.rd | 2 - 30 files changed, 119 insertions(+), 106 deletions(-)
Author: David M. Schruth
Diff between caroline versions 0.1-1 dated 2009-09-07 and 0.1-3 dated 2009-10-28
Title: Generic Functions for R
Description: The caroline package is a collection of functions useful
for various general situations.
caroline-0.1-1/caroline/R/caroline.R |only
caroline-0.1-1/caroline/man/createVariablesFromCommandArgs.Rd |only
caroline-0.1-3/caroline/DESCRIPTION | 8 ++++----
caroline-0.1-3/caroline/R/plots.R |only
caroline-0.1-3/caroline/R/string.R |only
caroline-0.1-3/caroline/R/system.R |only
caroline-0.1-3/caroline/man/cmdArgsToVariables.Rd |only
caroline-0.1-3/caroline/man/m.Rd | 6 +++---
caroline-0.1-3/caroline/man/makeElipseCoords.Rd | 4 ++--
caroline-0.1-3/caroline/man/pies.Rd |only
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caroline-0.1-3/caroline/man/tab2df.Rd |only
caroline-0.1-3/caroline/man/trunc.path.Rd | 4 ++--
caroline-0.1-3/caroline/man/violins.Rd |only
14 files changed, 11 insertions(+), 11 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 4.25 dated 2009-10-06 and 4.26 dated 2009-10-28
DESCRIPTION | 10 +++++----- R/lmVarImp.R | 3 ++- R/rfe.R | 23 ++++++++++++++--------- R/varImp.R | 4 ---- inst/CHANGES | 8 ++++++++ man/train.Rd | 8 ++++---- 6 files changed, 33 insertions(+), 23 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 0.3.1 dated 2009-10-26 and 0.3.2 dated 2009-10-28
DESCRIPTION | 6 +++--- NAMESPACE | 3 +++ NEWS | 9 +++++++++ R/RweaveOrg.r | 4 ++-- R/RweaveSphinx.r | 4 ++-- R/asciiList.r | 30 ++++++++++++++++++++++++++++++ R/asciiTable.r | 4 ++++ R/show.r | 4 ++-- man/ascii.Rd | 11 +++++++++-- 9 files changed, 64 insertions(+), 11 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 0.0-8 dated 2009-09-18 and 0.0-10 dated 2009-10-28
DESCRIPTION | 10 inst/java_src/lib/JRIEngine.jar |binary inst/java_src/lib/REngine.jar |binary inst/java_src/src/org/rproject/ant/AntRMainLoopCallbacks.java | 107 +++------- inst/java_src/src/org/rproject/ant/RTask.java | 5 man/ant-package.Rd | 4 man/ant.Rd | 18 - 7 files changed, 53 insertions(+), 91 deletions(-)
Author: David Scott
Diff between VarianceGamma versions 0.1-2 dated 2009-04-22 and 0.2-1 dated 2009-10-28
Title: The Variance Gamma Distribution
Description: This package provides functions for the variance gamma
distributions. Density, distribution and quantile functions.
Functions for random number generation and fitting of the
variance gamma to data. Also, functions for computing moments
of the variance gamma distribution of any order about any
location. In addition, there are functions for checking the
validity of parameters and to interchange different sets of
parameterizatons for the variance gamma distribution.
VarianceGamma-0.1-2/VarianceGamma/R/vgMomentsAndMode.R |only
VarianceGamma-0.1-2/VarianceGamma/man/vgMomentsAndMode.Rd |only
VarianceGamma-0.2-1/VarianceGamma/ChangeLog | 74 ++++
VarianceGamma-0.2-1/VarianceGamma/DESCRIPTION | 22 -
VarianceGamma-0.2-1/VarianceGamma/NAMESPACE | 10
VarianceGamma-0.2-1/VarianceGamma/R/dvg.R | 211 ++++++--------
VarianceGamma-0.2-1/VarianceGamma/R/vgCalcRange.R | 41 +-
VarianceGamma-0.2-1/VarianceGamma/R/vgChangePars.R | 115 ++++++-
VarianceGamma-0.2-1/VarianceGamma/R/vgCheckPars.R |only
VarianceGamma-0.2-1/VarianceGamma/R/vgFit.R | 9
VarianceGamma-0.2-1/VarianceGamma/R/vgFitStart.R | 3
VarianceGamma-0.2-1/VarianceGamma/R/vgMeanVarMode.R |only
VarianceGamma-0.2-1/VarianceGamma/R/vgMom.R |only
VarianceGamma-0.2-1/VarianceGamma/R/vgPlots.R | 41 +-
VarianceGamma-0.2-1/VarianceGamma/data/vgParam.R | 14
VarianceGamma-0.2-1/VarianceGamma/man/VarianceGamma.Rd | 19 -
VarianceGamma-0.2-1/VarianceGamma/man/summary.vgFit.Rd | 21 -
VarianceGamma-0.2-1/VarianceGamma/man/vgCalcRange.Rd | 4
VarianceGamma-0.2-1/VarianceGamma/man/vgChangePars.Rd | 34 +-
VarianceGamma-0.2-1/VarianceGamma/man/vgCheckPars.Rd |only
VarianceGamma-0.2-1/VarianceGamma/man/vgFit.Rd | 12
VarianceGamma-0.2-1/VarianceGamma/man/vgFitStart.Rd | 6
VarianceGamma-0.2-1/VarianceGamma/man/vgMeanVarMode.Rd |only
VarianceGamma-0.2-1/VarianceGamma/man/vgMom.Rd |only
VarianceGamma-0.2-1/VarianceGamma/man/vgParam.Rd | 70 ++--
VarianceGamma-0.2-1/VarianceGamma/man/vgPlots.Rd | 10
26 files changed, 434 insertions(+), 282 deletions(-)
More information about SkewHyperbolic at CRAN
Permanent link
Author: Simon Urbanek
Diff between Rserve versions 0.5-3 dated 2009-01-26 and 0.6-0 dated 2009-10-28
Title: Binary R server
Description: Rserve acts as a socket server (TCP/IP or local sockets)
which allows binary requests to be sent to R. Every connection
has a separate workspace and working directory. Client-side
implementations are available for popular languages such as
C/C++ and Java, allowing any application to use facilities of R
without the need of linking to R code. Rserve supports remote
connection, user authentication and file transfer. A simple R
client is included in this package as well.
Rserve-0.5-3/Rserve/src/Makefile.win |only
Rserve-0.6-0/Rserve/DESCRIPTION | 27
Rserve-0.6-0/Rserve/INDEX | 3
Rserve-0.6-0/Rserve/NEWS | 46 +
Rserve-0.6-0/Rserve/clients/cxx/Rconnection.cc | 49 +
Rserve-0.6-0/Rserve/clients/cxx/Rconnection.h | 9
Rserve-0.6-0/Rserve/clients/cxx/Rsrv.h | 21
Rserve-0.6-0/Rserve/clients/java-new/JRI |only
Rserve-0.6-0/Rserve/clients/java-new/Makefile | 4
Rserve-0.6-0/Rserve/clients/java-new/REXP.java | 62 +-
Rserve-0.6-0/Rserve/clients/java-new/REXPDouble.java | 5
Rserve-0.6-0/Rserve/clients/java-new/REXPEnvironment.java | 44 +
Rserve-0.6-0/Rserve/clients/java-new/REXPExpressionVector.java | 7
Rserve-0.6-0/Rserve/clients/java-new/REXPFactor.java | 20
Rserve-0.6-0/Rserve/clients/java-new/REXPGenericVector.java | 7
Rserve-0.6-0/Rserve/clients/java-new/REXPList.java | 1
Rserve-0.6-0/Rserve/clients/java-new/REXPLogical.java | 120 +++-
Rserve-0.6-0/Rserve/clients/java-new/REXPRaw.java | 6
Rserve-0.6-0/Rserve/clients/java-new/REXPReference.java | 27
Rserve-0.6-0/Rserve/clients/java-new/REXPString.java | 9
Rserve-0.6-0/Rserve/clients/java-new/REXPSymbol.java | 5
Rserve-0.6-0/Rserve/clients/java-new/REXPUnknown.java | 11
Rserve-0.6-0/Rserve/clients/java-new/REXPVector.java | 6
Rserve-0.6-0/Rserve/clients/java-new/REXPWrapper.java |only
Rserve-0.6-0/Rserve/clients/java-new/REngine.java | 141 ++++
Rserve-0.6-0/Rserve/clients/java-new/REngineCallbacks.java |only
Rserve-0.6-0/Rserve/clients/java-new/REngineConsoleHistoryInterface.java |only
Rserve-0.6-0/Rserve/clients/java-new/REngineEvalException.java |only
Rserve-0.6-0/Rserve/clients/java-new/REngineException.java | 11
Rserve-0.6-0/Rserve/clients/java-new/REngineInputInterface.java |only
Rserve-0.6-0/Rserve/clients/java-new/REngineOutputInterface.java |only
Rserve-0.6-0/Rserve/clients/java-new/REngineStdOutput.java |only
Rserve-0.6-0/Rserve/clients/java-new/REngineUIInterface.java |only
Rserve-0.6-0/Rserve/clients/java-new/RList.java | 26
Rserve-0.6-0/Rserve/clients/java-new/Rserve/RConnection.java | 53 +
Rserve-0.6-0/Rserve/clients/java-new/Rserve/RserveException.java | 11
Rserve-0.6-0/Rserve/clients/java-new/Rserve/package-info.java |only
Rserve-0.6-0/Rserve/clients/java-new/Rserve/protocol/REXPFactory.java | 19
Rserve-0.6-0/Rserve/clients/java-new/Rserve/protocol/RTalk.java | 8
Rserve-0.6-0/Rserve/clients/java-new/Rserve/test/Makefile | 7
Rserve-0.6-0/Rserve/clients/java-new/Rserve/test/test.java | 48 +
Rserve-0.6-0/Rserve/clients/java-new/package-info.java |only
Rserve-0.6-0/Rserve/clients/java-old |only
Rserve-0.6-0/Rserve/configure | 14
Rserve-0.6-0/Rserve/configure.ac | 7
Rserve-0.6-0/Rserve/configure.win |only
Rserve-0.6-0/Rserve/src/Makefile.in | 13
Rserve-0.6-0/Rserve/src/Makevars.win |only
Rserve-0.6-0/Rserve/src/Rserv.c | 285 +++++++++-
Rserve-0.6-0/Rserve/src/Rsrv.h | 21
Rserve-0.6-0/Rserve/src/client/cxx/Rconnection.cc | 49 +
Rserve-0.6-0/Rserve/src/client/cxx/Rconnection.h | 9
Rserve-0.6-0/Rserve/src/client/cxx/Rsrv.h | 21
Rserve-0.6-0/Rserve/src/client/java-new/JRI |only
Rserve-0.6-0/Rserve/src/client/java-new/Makefile | 4
Rserve-0.6-0/Rserve/src/client/java-new/REXP.java | 62 +-
Rserve-0.6-0/Rserve/src/client/java-new/REXPDouble.java | 5
Rserve-0.6-0/Rserve/src/client/java-new/REXPEnvironment.java | 44 +
Rserve-0.6-0/Rserve/src/client/java-new/REXPExpressionVector.java | 7
Rserve-0.6-0/Rserve/src/client/java-new/REXPFactor.java | 20
Rserve-0.6-0/Rserve/src/client/java-new/REXPGenericVector.java | 7
Rserve-0.6-0/Rserve/src/client/java-new/REXPList.java | 1
Rserve-0.6-0/Rserve/src/client/java-new/REXPLogical.java | 120 +++-
Rserve-0.6-0/Rserve/src/client/java-new/REXPRaw.java | 6
Rserve-0.6-0/Rserve/src/client/java-new/REXPReference.java | 27
Rserve-0.6-0/Rserve/src/client/java-new/REXPString.java | 9
Rserve-0.6-0/Rserve/src/client/java-new/REXPSymbol.java | 5
Rserve-0.6-0/Rserve/src/client/java-new/REXPUnknown.java | 11
Rserve-0.6-0/Rserve/src/client/java-new/REXPVector.java | 6
Rserve-0.6-0/Rserve/src/client/java-new/REXPWrapper.java |only
Rserve-0.6-0/Rserve/src/client/java-new/REngine.java | 141 ++++
Rserve-0.6-0/Rserve/src/client/java-new/REngineCallbacks.java |only
Rserve-0.6-0/Rserve/src/client/java-new/REngineConsoleHistoryInterface.java |only
Rserve-0.6-0/Rserve/src/client/java-new/REngineEvalException.java |only
Rserve-0.6-0/Rserve/src/client/java-new/REngineException.java | 11
Rserve-0.6-0/Rserve/src/client/java-new/REngineInputInterface.java |only
Rserve-0.6-0/Rserve/src/client/java-new/REngineOutputInterface.java |only
Rserve-0.6-0/Rserve/src/client/java-new/REngineStdOutput.java |only
Rserve-0.6-0/Rserve/src/client/java-new/REngineUIInterface.java |only
Rserve-0.6-0/Rserve/src/client/java-new/RList.java | 26
Rserve-0.6-0/Rserve/src/client/java-new/Rserve/RConnection.java | 53 +
Rserve-0.6-0/Rserve/src/client/java-new/Rserve/RserveException.java | 11
Rserve-0.6-0/Rserve/src/client/java-new/Rserve/package-info.java |only
Rserve-0.6-0/Rserve/src/client/java-new/Rserve/protocol/REXPFactory.java | 19
Rserve-0.6-0/Rserve/src/client/java-new/Rserve/protocol/RTalk.java | 8
Rserve-0.6-0/Rserve/src/client/java-new/Rserve/test/Makefile | 7
Rserve-0.6-0/Rserve/src/client/java-new/Rserve/test/test.java | 48 +
Rserve-0.6-0/Rserve/src/client/java-new/package-info.java |only
Rserve-0.6-0/Rserve/src/client/java-old |only
Rserve-0.6-0/Rserve/src/winembed.c | 34 -
90 files changed, 1644 insertions(+), 280 deletions(-)
Author: Tobias Sing, Oliver Sander, Niko Beerenwinkel, Thomas Lengauer
Title: Visualizing the performance of scoring classifiers.
Description: ROC graphs, sensitivity/specificity curves, lift charts,
and precision/recall plots are popular examples of trade-off
visualizations for specific pairs of performance measures. ROCR
is a flexible tool for creating cutoff-parametrized 2D
performance curves by freely combining two from over 25
performance measures (new performance measures can be added
using a standard interface). Curves from different
cross-validation or bootstrapping runs can be averaged by
different methods, and standard deviations, standard errors or
box plots can be used to visualize the variability across the
runs. The parametrization can be visualized by printing cutoff
values at the corresponding curve positions, or by coloring the
curve according to cutoff. All components of a performance plot
can be quickly adjusted using a flexible parameter dispatching
mechanism. Despite its flexibility, ROCR is easy to use, with
only three commands and reasonable default values for all
optional parameters.
Diff between ROCR versions 1.0-2 dated 2007-01-30 and 1.0-3 dated 2009-10-28
ROCR-1.0-2/ROCR/unittests/runit.ROCR.R |only ROCR-1.0-2/ROCR/unittests/runit.ROCRaux.R |only ROCR-1.0-2/ROCR/unittests/testresults.html |only ROCR-1.0-3/ROCR/CITATION | 13 ++++-- ROCR-1.0-3/ROCR/DESCRIPTION | 43 ++++++++++++----------- ROCR-1.0-3/ROCR/R/performance_measures.R | 2 - ROCR-1.0-3/ROCR/R/zzz.R | 13 ++++++ ROCR-1.0-3/ROCR/demo/ROCR.R | 3 + ROCR-1.0-3/ROCR/man/performance.Rd | 5 +- ROCR-1.0-3/ROCR/unittests/XXXrunit.ROCR.aux.RXXX |only ROCR-1.0-3/ROCR/unittests/runit.consistency.r | 2 - ROCR-1.0-3/ROCR/unittests/testsuite.ROCR.R |only 12 files changed, 51 insertions(+), 30 deletions(-)
Author: Romain Francois, Philippe Grosjean
Title: R bindings for ImageJ
Description: Bindings between R and the ImageJ java based image
processing and Analysis platform
Diff between RImageJ versions 0.0-142 dated 2009-06-24 and 0.1-142 dated 2009-10-28
RImageJ-0.0-142/RImageJ/R/IJ.R |only RImageJ-0.1-142/RImageJ/DESCRIPTION | 18 +++++++++--------- RImageJ-0.1-142/RImageJ/R/ij.r |only RImageJ-0.1-142/RImageJ/R/onLoad.R | 3 +-- RImageJ-0.1-142/RImageJ/man/IJ.Rd | 3 ++- RImageJ-0.1-142/RImageJ/man/RImageJ-package.Rd | 8 ++++---- 6 files changed, 16 insertions(+), 16 deletions(-)
Author: Joern Schulz
Diff between PET versions 0.4.6 dated 2007-04-04 and 0.4.7 dated 2009-10-28
Title: Simulation and Reconstruction of PET Images
Description: This package implements different analytic/direct and
iterative reconstruction methods of Peter Toft. It also offer
the possibility to simulate PET data.
COPYRIGHT | 2 +-
DESCRIPTION | 32 +++++++++++++++++---------------
R/iniPetFifList.r | 6 +++---
R/readData.r | 10 ++--------
R/readIni.r | 14 +++++++-------
R/readSifData.r | 2 +-
R/writeData.r | 10 ++--------
man/PET-package.Rd |only
man/cutMatrix.Rd | 2 +-
man/hough.Rd | 12 +++++++-----
man/iradon.Rd | 8 +++++---
man/iradonIT.Rd | 8 +++++---
man/norm.Rd | 2 +-
man/radon.Rd | 5 +++--
man/readData.Rd | 4 +---
man/writeData.Rd | 4 +---
16 files changed, 57 insertions(+), 64 deletions(-)
Author: Markus Helbig
Diff between JGR versions 1.6-8 dated 2009-09-06 and 1.7-0 dated 2009-10-28
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 | 7 +-
NEWS | 13 +++-
R/JGR.R | 61 ++++++++++++++--------
inst/java/JGR.jar |binary
launcher/macosx/JGR_App.xcodeproj/project.pbxproj | 8 +-
launcher/macosx/main.c | 4 -
man/supplements.Rd | 13 +++-
7 files changed, 70 insertions(+), 36 deletions(-)
Author: Matthew K. Lau
Title: Dunnett-Tukey-Kramer Pairwise Multiple Comparison Test Adjusted
for Unequal Variances and Unequal Sample Sizes
Description: Functions for conducting and plotting Dunnett's modified
Tukey-Kramer pairwise multiple comparison test accounting for
unequal variance and unequal sample sizes.
Diff between DTK versions 2.1 dated 2009-03-05 and 3.0 dated 2009-10-28
DESCRIPTION | 17 +++- R/DTK.plot.R | 24 +++--- R/DTK.test.R | 184 +++++++++++++++++++++++++---------------------------- man/DTK-package.Rd | 6 - man/DTK.test.Rd | 2 5 files changed, 118 insertions(+), 115 deletions(-)
Author: Brandon Whitcher
Diff between DICOM versions 0.12 dated 2005-08-23 and 0.13 dated 2009-10-28
Title: Import medical imaging data using the DICOM Standard
Description: This package provides functions to import and manipulate
medical imaging data via the Digital Imaging and Communications
in Medicine (DICOM) Standard.
DESCRIPTION | 22 ++++---
man/dicom.Rd | 46 ++++++++--------
man/dicom.info.Rd | 70 +++++++++++--------------
man/dicom.separate.Rd | 52 ++++++++----------
man/dicom2analyze.Rd | 61 ++++++++++-----------
man/str2time.Rd | 140 +++++++++++++++++++++++++-------------------------
6 files changed, 196 insertions(+), 195 deletions(-)
Author: Ingo Feinerer
Title: Text Mining Package
Description: A framework for text mining applications within R.
Diff between tm versions 0.5 dated 2009-09-10 and 0.5-1 dated 2009-10-27
DESCRIPTION | 8 ++++---- R/meta.R | 23 ++++++++++++----------- R/preprocess.R | 2 +- R/source.R | 9 ++------- R/transform.R | 15 ++++----------- inst/NEWS | 6 ++++++ inst/doc/extensions.Rnw | 1 - inst/doc/tm.Rnw | 9 +++------ man/convert_UTF_8.Rd | 3 +-- man/getSources.Rd | 2 +- man/meta.Rd | 8 ++++---- 11 files changed, 38 insertions(+), 48 deletions(-)
Author: Dominik Reusser
Title: TIme series of Grouped ERrors
Description: Temporally resolved groups of typical differences (errors)
between two time series are determined and visualized
Diff between tiger versions 0.1 dated 2009-03-27 and 0.2 dated 2009-10-27
tiger-0.1/tiger/R/zzz.R |only tiger-0.1/tiger/inst/doc/tiger.bbl |only tiger-0.1/tiger/inst/doc/tiger.blg |only tiger-0.1/tiger/inst/doc/tiger.tex.tex |only tiger-0.1/tiger/wasim |only tiger-0.1/tiger/x.log |only tiger-0.2/tiger/DESCRIPTION | 10 - tiger-0.2/tiger/NAMESPACE |only tiger-0.2/tiger/R/add.dimension.R |only tiger-0.2/tiger/R/box.plots.R | 25 ++- tiger-0.2/tiger/R/box.plots_all_values_with_soms.R |only tiger-0.2/tiger/R/change.order.cluster.R | 3 tiger-0.2/tiger/R/cluster.proportion.R |only tiger-0.2/tiger/R/color.factor.R |only tiger-0.2/tiger/R/diagnostic_series.R | 11 - tiger-0.2/tiger/R/diagnostic_window.R | 8 - tiger-0.2/tiger/R/drop.dimension.R |only tiger-0.2/tiger/R/eD.R | 6 tiger-0.2/tiger/R/errors.in.time.R | 75 ++++++---- tiger-0.2/tiger/R/p.synth.peak.error.R | 76 +++++++--- tiger-0.2/tiger/R/p.validityIndex.R |only tiger-0.2/tiger/R/peaks.in.clusters.R | 23 +-- tiger-0.2/tiger/R/peaks.measures.R | 4 tiger-0.2/tiger/R/peaks.on.som.R |only tiger-0.2/tiger/R/reduced.line.R |only tiger-0.2/tiger/R/som.cluster.R |only tiger-0.2/tiger/R/som.measure.level.R |only tiger-0.2/tiger/R/som.regions.for.values.R |only tiger-0.2/tiger/R/synth.peak.R | 3 tiger-0.2/tiger/R/tiger.R | 103 ++++++++----- tiger-0.2/tiger/R/tiger.cluster.R |only tiger-0.2/tiger/R/tiger.peaks.R | 12 + tiger-0.2/tiger/R/tiger.som.peaks.R |only tiger-0.2/tiger/data/tiger.example.rda |binary tiger-0.2/tiger/inst/doc/tiger.Snw | 155 +++++++++++++-------- tiger-0.2/tiger/inst/doc/tiger.bib | 23 ++- tiger-0.2/tiger/inst/doc/tiger.dvi |binary tiger-0.2/tiger/inst/doc/tiger.pdf |binary tiger-0.2/tiger/man/change.order.clusters.Rd | 4 tiger-0.2/tiger/man/color.factor.Rd |only tiger-0.2/tiger/man/correlated.Rd | 2 tiger-0.2/tiger/man/diagnostic.Rd | 15 +- tiger-0.2/tiger/man/eD.Rd | 4 tiger-0.2/tiger/man/plots.Rd | 52 +++++-- tiger-0.2/tiger/man/synth.peak.error.Rd | 21 ++ tiger-0.2/tiger/man/tiger-package.Rd | 8 - tiger-0.2/tiger/man/tiger.Rd | 24 ++- tiger-0.2/tiger/man/tiger.res.Rd | 7 48 files changed, 451 insertions(+), 223 deletions(-)
Author: Michael Chajewski
Diff between rela versions 4.0 dated 2009-01-20 and 4.1 dated 2009-10-27
Title: Item Analysis Package with Standard Errors
Description: Item analysis with alpha standard error and principal axis
factoring for continuous variable scales (with plots).
DESCRIPTION | 24 +++++++++++++-----------
R/itemanal.R | 10 +++++++---
R/plot.itemanal.R | 9 ++++++---
R/plot.paf.R | 16 ++++++++++++----
inst/CITATION | 5 ++---
man/itemanal.Rd | 18 ++++++++++++------
man/paf.Rd | 11 +++++++----
man/rela-package.Rd | 11 ++++++-----
8 files changed, 65 insertions(+), 39 deletions(-)
Author: Steven Kembel
Diff between picante versions 0.7-1 dated 2009-07-03 and 0.7-2 dated 2009-10-27
Title: R tools for integrating phylogenies and ecology
Description: Phylocom integration, community analyses, null-models,
traits and evolution in R
DESCRIPTION | 8 ++++----
man/comm.phylo.qr.Rd | 2 +-
man/picante-package.Rd | 4 ++--
man/traitgram.Rd | 2 --
4 files changed, 7 insertions(+), 9 deletions(-)
Author: Christian Schellhase
Diff between pendensity versions 0.1.1 dated 2009-09-18 and 0.2 dated 2009-10-27
Title: Density Estimation with a Penalized Mixture Approach
Description: Estimating penalized (conditional) densities
DESCRIPTION | 10 +++----
R/pendensity.R | 64 +++++++++++++++++++++-------------------------
man/D.m.Rd | 2 -
man/Derv1.Rd | 2 -
man/Derv2.Rd | 2 -
man/L.mat.Rd | 2 -
man/bias.par.Rd | 2 -
man/ck.Rd | 2 -
man/distr.func.Rd | 2 -
man/f.hat.Rd | 2 -
man/marg.likelihood.Rd | 2 -
man/my.AIC.Rd | 2 -
man/new.beta.val.Rd | 2 -
man/new.lambda.Rd | 2 -
man/pen.log.like.Rd | 2 -
man/pendenForm.Rd | 1
man/pendensity-package.Rd | 57 +++++++++++++++++++++++++++++++++++++---
man/pendensity.Rd | 10 +------
man/plot.pendensity.Rd | 2 -
man/test.equal.Rd | 3 +-
man/variance.par.Rd | 4 --
man/variance.val.Rd | 3 ++
22 files changed, 109 insertions(+), 71 deletions(-)
Author: Alan Genz, Frank Bretz, Tetsuhisa Miwa, Xuefei Mi, Friedrich
Leisch, Fabian Scheipl, Torsten Hothorn
Title: Multivariate Normal and t Distributions
Description: Computes multivariate normal and t probabilities,
quantiles, random deviates and densities.
Diff between mvtnorm versions 0.9-7 dated 2009-05-24 and 0.9-8 dated 2009-10-27
mvtnorm-0.9-7/mvtnorm/CHANGES |only mvtnorm-0.9-8/mvtnorm/DESCRIPTION | 6 +++--- mvtnorm-0.9-8/mvtnorm/NEWS |only mvtnorm-0.9-8/mvtnorm/inst/CHANGES | 6 +++++- mvtnorm-0.9-8/mvtnorm/inst/CITATION | 14 +++++++++++++- mvtnorm-0.9-8/mvtnorm/inst/doc/MVT_Rnews.pdf |binary mvtnorm-0.9-8/mvtnorm/man/Mvt.Rd | 4 ++-- mvtnorm-0.9-8/mvtnorm/man/algorithms.Rd | 4 ++++ mvtnorm-0.9-8/mvtnorm/man/pmvnorm.Rd | 4 ++++ mvtnorm-0.9-8/mvtnorm/man/pmvt.Rd | 4 ++++ mvtnorm-0.9-8/mvtnorm/tests/bugfix-tests.Rout.save | 6 +++--- 11 files changed, 38 insertions(+), 10 deletions(-)
Author: Antoine Lucas, Immanuel Scholz, Rainer Boehme
Diff between gmp versions 0.4-10 dated 2009-02-01 and 0.4-11 dated 2009-10-27
Title: Multiple Precision Arithmetic
Description: Multiple Precision Arithmetic (big integers and rationals,
prime number tests, matrix computation), "arithmetic without
limitations" using the C library gmp.
gmp-0.4-10/gmp/man/extract.bigq.Rd |only
gmp-0.4-11/gmp/Changes | 3 +++
gmp-0.4-11/gmp/DESCRIPTION | 20 ++++++++++++--------
gmp-0.4-11/gmp/INDEX | 1 -
gmp-0.4-11/gmp/man/extract.Rd | 10 ++++++++++
gmp-0.4-11/gmp/man/matrix.Rd | 16 ++++++++++++++++
gmp-0.4-11/gmp/src/biginteger.h | 4 ++--
gmp-0.4-11/gmp/src/bigintegerR.cc | 4 ++--
gmp-0.4-11/gmp/src/bigrational.h | 4 ++--
9 files changed, 47 insertions(+), 15 deletions(-)
Author: Boan Zhang, Christopher Bilder, Frank Schaarschmidt
Title: Evaluation and experimental design for binomial group testing
Description: This package provides methods for estimation and
hypothesis testing of proportions in group testing designs.
Currently, methods of estimating a proportion in a single
population, as well as hypothesis tests and functions for
experimental design for this situation are provided. Further,
regression methods are implemented for simple pooling and
matrix pooling designs.
Diff between binGroup versions 0.3-2 dated 2008-07-15 and 1.0-3 dated 2009-10-27
binGroup-0.3-2/binGroup/man/binGroup.Rd |only binGroup-0.3-2/binGroup/man/plot.nDesign.Rd |only binGroup-0.3-2/binGroup/man/plot.sDesign.Rd |only binGroup-0.3-2/binGroup/man/print.nDesign.Rd |only binGroup-0.3-2/binGroup/man/print.sDesign.Rd |only binGroup-1.0-3/binGroup/DESCRIPTION | 30 +++++++++------- binGroup-1.0-3/binGroup/R/EM.R |only binGroup-1.0-3/binGroup/R/EM.mp.R |only binGroup-1.0-3/binGroup/R/binGroup-internal.R |only binGroup-1.0-3/binGroup/R/gtreg.R |only binGroup-1.0-3/binGroup/R/gtreg.fit.R |only binGroup-1.0-3/binGroup/R/gtreg.mp.R |only binGroup-1.0-3/binGroup/R/predict.gt.R |only binGroup-1.0-3/binGroup/R/print.gt.R |only binGroup-1.0-3/binGroup/R/print.gt.mp.R |only binGroup-1.0-3/binGroup/R/print.summary.gt.R |only binGroup-1.0-3/binGroup/R/print.summary.gt.mp.R |only binGroup-1.0-3/binGroup/R/residuals.gt.R |only binGroup-1.0-3/binGroup/R/sim.g.R |only binGroup-1.0-3/binGroup/R/sim.mp.R |only binGroup-1.0-3/binGroup/R/summary.gt.R |only binGroup-1.0-3/binGroup/R/summary.gt.mp.R |only binGroup-1.0-3/binGroup/data |only binGroup-1.0-3/binGroup/man/bgtCI.Rd | 16 ++++---- binGroup-1.0-3/binGroup/man/binCI.Rd | 2 - binGroup-1.0-3/binGroup/man/binDesign.Rd | 20 +++++----- binGroup-1.0-3/binGroup/man/binGroup-package.Rd |only binGroup-1.0-3/binGroup/man/binPower.Rd | 16 ++++---- binGroup-1.0-3/binGroup/man/binTest.Rd | 16 +++----- binGroup-1.0-3/binGroup/man/binWidth.Rd | 39 ++++++++++++--------- binGroup-1.0-3/binGroup/man/estDesign.Rd | 4 +- binGroup-1.0-3/binGroup/man/gtreg.Rd |only binGroup-1.0-3/binGroup/man/gtreg.mp.Rd |only binGroup-1.0-3/binGroup/man/hivsurv.Rd |only binGroup-1.0-3/binGroup/man/nDesign.Rd | 21 +++++------ binGroup-1.0-3/binGroup/man/plot.bgtDesign.Rd |only binGroup-1.0-3/binGroup/man/plot.binDesign.Rd | 18 +++++---- binGroup-1.0-3/binGroup/man/predict.gt.Rd |only binGroup-1.0-3/binGroup/man/print.bgtCI.Rd | 4 +- binGroup-1.0-3/binGroup/man/print.bgtDesign.Rd |only binGroup-1.0-3/binGroup/man/print.bgtvs.Rd | 4 +- binGroup-1.0-3/binGroup/man/print.binDesign.Rd | 4 +- binGroup-1.0-3/binGroup/man/print.gt.mp.Rd |only binGroup-1.0-3/binGroup/man/print.summary.gt.mp.Rd |only binGroup-1.0-3/binGroup/man/residuals.gt.Rd |only binGroup-1.0-3/binGroup/man/sDesign.Rd | 20 ++++------ binGroup-1.0-3/binGroup/man/sim.g.Rd |only binGroup-1.0-3/binGroup/man/sim.mp.Rd |only binGroup-1.0-3/binGroup/man/summary.gt.Rd |only binGroup-1.0-3/binGroup/man/summary.gt.mp.Rd |only 50 files changed, 113 insertions(+), 101 deletions(-)
Author: Duncan Temple Lang
Title: General network (HTTP/FTP/...) client interface for R
Description: The package allows one to compose general HTTP requests
and provides convenient functions to fetch URIs, get & post
forms, etc. and process the results returned by the Web server.
This provides a great deal of control over the HTTP/FTP/...
connection and the form of the request while providing a
higher-level interface than is available just using R socket
connections. Additionally, the underlying implementation is
robust and extensive, supporting FTP/FTPS/TFTP (uploads and
downloads), SSL/HTTPS, telnet, dict, ldap, and also supports
cookies, redirects, authentication, etc.
Diff between RCurl versions 1.2-0 dated 2009-08-26 and 1.3-0 dated 2009-10-27
Changes.html | 33 +++++++++++++++++++++- DESCRIPTION | 6 ++-- FAQ.html | 76 ++++++++++++++++++++++++++++++++++++++++++++++++++- NAMESPACE | 2 + R/dynamic.R | 5 +-- R/form.S | 3 -- R/getURLContent.R | 21 ++++++++++---- R/scp.R |only Todo.html | 9 +++++- cacert.pem |only configure.win | 35 ++--------------------- man/dynCurlReader.Rd | 7 +++- man/getURL.Rd | 7 +++- man/scp.Rd |only proxy |only src/Makevars | 2 - src/Makevars.win | 23 +++------------ trends |only 18 files changed, 159 insertions(+), 70 deletions(-)
Author: Peter Carl, Brian G. Peterson
Title: Econometric tools for performance and risk analysis.
Description: Library of econometric functions for performance and risk
analysis. This library aims to aid practitioners and
researchers in utilizing the latest research in analysis of
non-normal return streams. In general, this library is most
tested on return (rather than price) data on a monthly scale,
but most functions will work with daily or irregular return
data as well.
Diff between PerformanceAnalytics versions 0.9.7.1 dated 2008-10-12 and 1.0.0 dated 2009-10-27
PerformanceAnalytics-0.9.7.1/PerformanceAnalytics/PA-log |only PerformanceAnalytics-0.9.7.1/PerformanceAnalytics/R/VaR.Beyond.R |only PerformanceAnalytics-0.9.7.1/PerformanceAnalytics/R/VaR.CornishFisher.R |only PerformanceAnalytics-0.9.7.1/PerformanceAnalytics/R/chart.Correlation.color.R |only PerformanceAnalytics-0.9.7.1/PerformanceAnalytics/R/cummax.column.R |only PerformanceAnalytics-0.9.7.1/PerformanceAnalytics/R/cumprod.column.R |only PerformanceAnalytics-0.9.7.1/PerformanceAnalytics/R/download.RiskFree.R |only PerformanceAnalytics-0.9.7.1/PerformanceAnalytics/R/download.SP500PriceReturns.R |only PerformanceAnalytics-0.9.7.1/PerformanceAnalytics/R/rollingRegression.R |only PerformanceAnalytics-0.9.7.1/PerformanceAnalytics/R/rollingStat.R |only PerformanceAnalytics-0.9.7.1/PerformanceAnalytics/codeblock.txt |only PerformanceAnalytics-0.9.7.1/PerformanceAnalytics/inst/doc/.build.timestamp |only PerformanceAnalytics-0.9.7.1/PerformanceAnalytics/inst/doc/Diamond_Logo_Tag.jpg |only PerformanceAnalytics-0.9.7.1/PerformanceAnalytics/inst/doc/PA-techniques.tex |only PerformanceAnalytics-0.9.7.1/PerformanceAnalytics/inst/doc/Rplots.ps |only PerformanceAnalytics-0.9.7.1/PerformanceAnalytics/man/MultivariateMoments.Rd |only PerformanceAnalytics-0.9.7.1/PerformanceAnalytics/man/MultivariateRisk.MM.Rd |only PerformanceAnalytics-0.9.7.1/PerformanceAnalytics/man/VaR.Beyond.Rd |only PerformanceAnalytics-0.9.7.1/PerformanceAnalytics/man/VaR.CornishFisher.Rd |only PerformanceAnalytics-0.9.7.1/PerformanceAnalytics/man/VaR.Marginal.Rd |only PerformanceAnalytics-0.9.7.1/PerformanceAnalytics/man/chart.Correlation.color.Rd |only PerformanceAnalytics-0.9.7.1/PerformanceAnalytics/man/cum.utils.Rd |only PerformanceAnalytics-0.9.7.1/PerformanceAnalytics/man/download.RiskFree.Rd |only PerformanceAnalytics-0.9.7.1/PerformanceAnalytics/man/download.SP500PriceReturns.Rd |only PerformanceAnalytics-0.9.7.1/PerformanceAnalytics/man/rollingRegression.Rd |only PerformanceAnalytics-0.9.7.1/PerformanceAnalytics/man/rollingStat.Rd |only PerformanceAnalytics-1.0.0/PerformanceAnalytics/ChangeLog | 5004 +++++++--- PerformanceAnalytics-1.0.0/PerformanceAnalytics/DESCRIPTION | 24 PerformanceAnalytics-1.0.0/PerformanceAnalytics/NAMESPACE | 400 PerformanceAnalytics-1.0.0/PerformanceAnalytics/NEWS |only PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/ActivePremium.R | 71 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/CAPM.alpha.R | 78 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/CAPM.beta.R | 244 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/CAPM.utils.R | 107 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/CalmarRatio.R | 77 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/CoMoments.R | 183 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/DownsideDeviation.R | 58 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/Drawdowns.R | 37 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/ES.R |only PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/InformationRatio.R | 69 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/KellyRatio.R | 43 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/MultivariateMoments.R | 16 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/Omega.R | 124 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/PortfolioRisk.R |only PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/Return.Geltner.R | 48 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/Return.annualized.R | 72 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/Return.calculate.R | 28 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/Return.clean.R | 58 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/Return.cumulative.R | 36 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/Return.excess.R | 110 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/Return.index.R |only PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/Return.portfolio.R |only PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/Return.read.R | 23 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/Return.relative.R |only PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/SemiDeviation.R | 51 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/SharpeRatio.R | 56 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/SharpeRatio.annualized.R | 69 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/SharpeRatio.modified.R | 68 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/SmoothingIndex.R | 137 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/SortinoRatio.R | 44 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/StdDev.annualized.R | 79 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/TrackingError.R | 65 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/TreynorRatio.R | 77 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/UpDownRatios.R | 188 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/UpsidePotentialRatio.R | 61 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/VaR.Marginal.R | 39 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/VaR.R |only PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/apply.fromstart.R | 7 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/apply.rolling.R | 76 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/chart.ACFplus.R | 4 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/chart.Bar.R | 15 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/chart.BarVaR.R | 139 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/chart.Boxplot.R | 43 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/chart.CaptureRatios.R |only PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/chart.Correlation.R | 22 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/chart.CumReturns.R | 59 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/chart.Drawdown.R | 41 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/chart.ECDF.R | 24 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/chart.Events.R |only PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/chart.Histogram.R | 62 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/chart.QQPlot.R | 27 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/chart.Regression.R | 46 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/chart.RelativePerformance.R | 14 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/chart.RiskReturnScatter.R | 66 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/chart.RollingCorrelation.R | 21 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/chart.RollingMean.R | 34 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/chart.RollingPerformance.R | 59 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/chart.RollingQuantileRegression.R |only PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/chart.RollingRegression.R | 69 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/chart.RollingStyle.R | 33 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/chart.Scatter.R | 46 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/chart.SnailTrail.R | 79 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/chart.StackedBar.R | 188 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/chart.Style.R | 10 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/chart.TimeSeries.R | 139 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/chart.VaRSensitivity.R | 27 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/charts.Bar.R |only PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/charts.BarVaR.R |only PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/charts.PerformanceSummary.R | 43 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/charts.RollingPerformance.R | 49 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/charts.RollingRegression.R | 48 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/charts.TimeSeries.R |only PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/checkData.R | 176 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/findDrawdowns.R | 17 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/kurtosis.R | 24 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/legend.R | 7 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/maxDrawdown.R | 40 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/mean.utils.R | 100 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/na.skip.R |only PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/replaceTabs.R |only PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/skewness.R | 20 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/sortDrawdowns.R | 7 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/style.QPfit.R | 4 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/style.fit.R | 61 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/table.AnnualizedReturns.R | 48 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/table.Arbitrary.R | 21 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/table.Autocorrelation.R | 7 PerformanceAnalytics-1.0.0/PerformanceAnalytics/R/table.CAPM.R | 56 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PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/PerformanceAnalytics-package.Rd | 272 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/Return.Geltner.Rd | 16 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/Return.annualized.Rd | 17 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/Return.calculate.Rd | 25 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/Return.clean.Rd | 23 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/Return.cumulative.Rd | 14 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/Return.excess.Rd | 36 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/Return.portfolio.Rd |only PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/Return.read.Rd | 11 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/Return.relative.Rd |only PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/SharpeRatio.Rd | 23 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/SharpeRatio.annualized.Rd | 32 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/SharpeRatio.modified.Rd | 46 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/SmoothingIndex.Rd | 31 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/SortinoRatio.Rd | 14 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/StdDev.annualized.Rd | 30 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/Style.Rd | 9 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/TrackingError.Rd | 33 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/TreynorRatio.Rd | 23 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/UpDownRatios.Rd | 37 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/UpsidePotentialRatio.Rd | 11 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/VaR.Rd |only PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/apply.fromstart.Rd | 10 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/apply.rolling.Rd | 16 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/centeredmoments.Rd | 42 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/chart.ACF.Rd | 8 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/chart.Bar.Rd | 9 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/chart.BarVaR.Rd | 35 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/chart.Boxplot.Rd | 8 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/chart.CaptureRatios.Rd |only PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/chart.Correlation.Rd | 15 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/chart.CumReturns.Rd | 14 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/chart.Drawdown.Rd | 9 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/chart.ECDF.Rd | 12 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/chart.Events.Rd |only PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/chart.Histogram.Rd | 59 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/chart.QQPlot.Rd | 52 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/chart.Regression.Rd | 9 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/chart.RelativePerformance.Rd | 39 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/chart.RiskReturnScatter.Rd | 24 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/chart.RollingCorrelation.Rd | 30 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/chart.RollingMean.Rd | 13 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/chart.RollingPerformance.Rd | 20 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/chart.RollingRegression.Rd | 56 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/chart.Scatter.Rd | 16 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/chart.SnailTrail.Rd | 20 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/chart.StackedBar.Rd | 24 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/chart.TimeSeries.Rd | 74 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/chart.VaRSensitivity.Rd | 17 PerformanceAnalytics-1.0.0/PerformanceAnalytics/man/charts.PerformanceSummary.Rd | 15 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| 6 PerformanceAnalytics-1.0.0/PerformanceAnalytics/performanceanalytics.session |only PerformanceAnalytics-1.0.0/PerformanceAnalytics/performanceanalytics.webprj |only PerformanceAnalytics-1.0.0/PerformanceAnalytics/tests |only 233 files changed, 8531 insertions(+), 4241 deletions(-)
More information about PerformanceAnalytics at CRAN
Permanent link
Author: Andreas Ruckstuhl, Thomas Unternaehrer, Rene Locher
Title: Utilities of Institute of Data Analyses and Process Design
(www.idp.zhaw.ch)
Description: The IDPmisc package contains different high-level graphics
functions for displaying large datasets, displaying circular
data in a very flexible way, finding local maxima, brewing
color ramps, drawing nice arrows, zooming 2D-plots, creating
figures with differently colored margin and plot region. In
addition, the package contains auxiliary functions for data
manipulation like omitting observations with irregular values
or selecting data by logical vectors, which include NAs. Other
functions are especially useful in spectroscopy and analyses of
environmental data: robust baseline fitting, finding peaks in
spectra.
Diff between IDPmisc versions 1.1.05 dated 2009-10-06 and 1.1.06 dated 2009-10-27
ChangeLog | 12 +++++++++--- DESCRIPTION | 8 ++++---- man/IDPcolorRamp.Rd | 1 - man/IDPmisc-package.Rd | 4 ++-- man/Image.Rd | 3 +-- man/showColors.Rd | 3 +-- 6 files changed, 17 insertions(+), 14 deletions(-)
Author: Steve Juggins
Title: An R package for the analysis of Quaternary science data
Description: Functions for the analysis of Quaternary science data,
including constrained clustering, WA, WAPLS, IKFA, MLRC and MAT
transfer functions, and stratigraphic diagrams.
Diff between rioja versions 0.5-3 dated 2009-08-13 and 0.5-4 dated 2009-10-27
DESCRIPTION | 6 +++--- R/IKFA.r | 4 ++-- R/WAPLS.r | 8 ++++---- R/cep.r | 4 ++++ R/compare.datasets.r | 2 +- inst/ChangeLog | 12 ++++++++++++ man/WA.Rd | 2 +- man/compare.datasets.Rd | 2 +- src/mat.cpp | 12 ++++++------ src/wapls.cpp | 41 +++++++++++++++++------------------------ 10 files changed, 51 insertions(+), 42 deletions(-)
Author: Deepayan Sarkar
Diff between latticeExtra versions 0.6-3 dated 2009-10-26 and 0.6-4 dated 2009-10-27
Title: Extra Graphical Utilities Based on Lattice
Description: Extra graphical utilities based on lattice
DESCRIPTION | 8 +++---
R/doubleYScale.R | 37 ++++++++++++++++++++++++-------
R/layer.R | 4 ++-
inst/NEWS | 6 ++++-
man/as.layer.Rd | 61 +++++++++++++++++-----------------------------------
man/doubleYScale.Rd | 1
man/layer.Rd | 12 +++++-----
7 files changed, 70 insertions(+), 59 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 1.1.9.4 dated 2009-10-13 and 1.2 dated 2009-10-27
DESCRIPTION | 8 ++++---- NAMESPACE | 2 +- R/cms.R |only R/crn.plot.R | 10 +++++----- R/detrend.series.R | 4 ++-- R/ffcsaps.R | 7 ++++--- R/rcs.R |only data/gp.po.rda |only data/gp.rwl.rda |only man/cms.Rd |only man/crn.plot.Rd | 5 +++-- man/detrend.Rd | 2 +- man/detrend.series.Rd | 2 +- man/ffcsaps.Rd | 9 ++++++--- man/gp.po.Rd |only man/gp.rwl.Rd |only man/i.detrend.Rd | 2 +- man/i.detrend.series.Rd | 2 +- man/rcs.Rd |only 19 files changed, 29 insertions(+), 24 deletions(-)
Author: Paul Gilbert
Diff between TSodbc versions 2009.3-3 dated 2009-04-14 and 2009.5-1 dated 2009-10-27
Title: Time Series Database Interface extensions for ODBC
Description: TSodbc provides a ODBC interface for TSdbi.
TSodbc-2009.3-3/TSodbc/Makefile |only
TSodbc-2009.3-3/TSodbc/Rbuildignore |only
TSodbc-2009.3-3/TSodbc/tests |only
TSodbc-2009.5-1/TSodbc/DESCRIPTION | 13 ++++----
TSodbc-2009.5-1/TSodbc/NEWS | 42 ++++++++++++++++++++---------
TSodbc-2009.5-1/TSodbc/R/TSdbiMethods.R | 4 +-
TSodbc-2009.5-1/TSodbc/inst/doc/TSodbc.pdf |binary
7 files changed, 37 insertions(+), 22 deletions(-)
Author: Paul Gilbert
Diff between TSfame versions 2009.3-1 dated 2009-03-22 and 2009.10-1 dated 2009-10-27
Title: Time Series Database Interface extensions for fame
Description: TSfame provides a fame interface for TSdbi.
TSfame-2009.10-1/TSfame/DESCRIPTION | 13 +++++-----
TSfame-2009.10-1/TSfame/NEWS | 34 +++++++++++++++++++---------
TSfame-2009.10-1/TSfame/R/TSdbiMethods.R | 4 +--
TSfame-2009.10-1/TSfame/inst/doc/TSfame.pdf |binary
TSfame-2009.10-1/TSfame/man/TSdbiMethods.Rd | 1
TSfame-2009.10-1/TSfame/man/tis.Rd | 5 +---
TSfame-2009.3-1/TSfame/Makefile |only
TSfame-2009.3-1/TSfame/Rbuildignore |only
TSfame-2009.3-1/TSfame/tests |only
9 files changed, 35 insertions(+), 22 deletions(-)
Author: Paul Gilbert
Diff between TSSQLite versions 2009.3-1 dated 2009-03-22 and 2009.10-1 dated 2009-10-27
Title: Time Series Database Interface extentions for SQLite
Description: TSSQLite provides a SQLite interface for TSdbi.
TSSQLite-2009.10-1/TSSQLite/DESCRIPTION | 13 +++++++------
TSSQLite-2009.10-1/TSSQLite/NEWS | 21 ++++++++++++++++++---
TSSQLite-2009.10-1/TSSQLite/R/TSdbiMethods.R | 4 ++--
TSSQLite-2009.10-1/TSSQLite/inst/doc/TSSQLite.pdf |binary
TSSQLite-2009.10-1/TSSQLite/man/TSdbiMethods.Rd | 3 ++-
TSSQLite-2009.3-1/TSSQLite/Makefile |only
TSSQLite-2009.3-1/TSSQLite/Rbuildignore |only
7 files changed, 29 insertions(+), 12 deletions(-)
Author: Paul Gilbert
Diff between TSPostgreSQL versions 2009.3-2 dated 2009-03-25 and 2009.5-1 dated 2009-10-27
Title: Time Series Database Interface extensions for PostgreSQL
Description: TSPostgreSQL provides a PostgreSQL interface for TSdbi.
TSPostgreSQL-2009.3-2/TSPostgreSQL/Makefile |only
TSPostgreSQL-2009.3-2/TSPostgreSQL/Rbuildignore |only
TSPostgreSQL-2009.3-2/TSPostgreSQL/tests |only
TSPostgreSQL-2009.5-1/TSPostgreSQL/DESCRIPTION | 13 ++---
TSPostgreSQL-2009.5-1/TSPostgreSQL/NEWS | 25 ++++++++---
TSPostgreSQL-2009.5-1/TSPostgreSQL/R/TSdbiMethods.R | 5 +-
TSPostgreSQL-2009.5-1/TSPostgreSQL/inst/doc/TSPostgreSQL.pdf |binary
7 files changed, 28 insertions(+), 15 deletions(-)
Author: Paul Gilbert
Diff between TSMySQL versions 2009.3-2 dated 2009-03-25 and 2009.5-1 dated 2009-10-27
Title: Time Series Database Interface extensions for MySQL
Description: TSMySQL provides a MySQL interface for TSdbi.
TSMySQL-2009.3-2/TSMySQL/Makefile |only
TSMySQL-2009.3-2/TSMySQL/Rbuildignore |only
TSMySQL-2009.3-2/TSMySQL/tests |only
TSMySQL-2009.5-1/TSMySQL/DESCRIPTION | 11 +++++------
TSMySQL-2009.5-1/TSMySQL/NEWS | 25 +++++++++++++++++++------
TSMySQL-2009.5-1/TSMySQL/R/TSdbiMethods.R | 6 +++---
TSMySQL-2009.5-1/TSMySQL/inst/doc/TSMySQL.pdf |binary
7 files changed, 27 insertions(+), 15 deletions(-)
Author: Rolf Turner
Diff between Iso versions 0.0-7 dated 2009-09-04 and 0.0-8 dated 2009-10-27
Title: Functions to perform isotonic regression.
Description: Linear order and unimodal order (univariate) isotonic
regression; bivariate isotonic regression with linear order on
both variables.
Iso-0.0-7/Iso/inst/change.log |only
Iso-0.0-8/Iso/ChangeLog |only
Iso-0.0-8/Iso/DESCRIPTION | 12 +++++++-----
Iso-0.0-8/Iso/INDEX | 1 +
Iso-0.0-8/Iso/NAMESPACE | 2 +-
Iso-0.0-8/Iso/R/First.R | 2 +-
Iso-0.0-8/Iso/R/biviso.R |only
Iso-0.0-8/Iso/inst/Isotonic.for |only
Iso-0.0-8/Iso/man/biviso.Rd |only
Iso-0.0-8/Iso/man/pava.Rd | 2 +-
Iso-0.0-8/Iso/man/ufit.Rd | 2 +-
Iso-0.0-8/Iso/src/smooth.f |only
12 files changed, 12 insertions(+), 9 deletions(-)
Author: Jitao David Zhang, supported by Stefan Wiemann and Wolfgang
Huber
Title: Design Patterns in R to build reusable object-oriented software
Description: Design patterns are building blocks of reusable
object-oriented software projects. This package provides data
structures and tools to implement, study and reuse design
patterns, especially the ones introduced in the book 'Gang of
Four'.
Diff between DesignPatterns versions 0.1.0 dated 2009-10-23 and 0.1.2 dated 2009-10-27
DESCRIPTION | 6 ++--- Makefile | 2 - NAMESPACE | 5 +++- NEWS |only R/S4GSetter.R | 33 +++++++++++++++++++++++++----- man/DesignPattern-package.Rd | 4 +-- man/getS4SlotAccessorGenericAndMethods.Rd | 32 +++++++++++++++++++++++++---- 7 files changed, 66 insertions(+), 16 deletions(-)
More information about DesignPatterns at CRAN
Permanent link
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(-)
Author: Jonathan P. Weeks
Diff between plink versions 1.2-1 dated 2009-09-29 and 1.2-2 dated 2009-10-23
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 plotting item
response curves/surfaces, vector plots, and comparison plots
for examining parameter drift.
DESCRIPTION | 10 +++++-----
R/classes.R | 2 +-
R/equate.R | 34 +++++++++++++++++++++-------------
R/link.R | 27 +++++++++++++++++++++++++++
R/plink.R | 46 ++++++++++++++++++++++++++++++++++++----------
R/sep.pars.R | 3 +--
R/summary.R | 28 ++++++++++++++--------------
inst/NEWS | 28 ++++++++++++++++++++++++++++
man/as.irt.pars.Rd | 2 +-
man/as.poly.mod.Rd | 6 +++---
man/dgn.Rd | 2 +-
man/drm-methods.Rd | 2 +-
man/equate-methods.Rd | 12 ++++++------
man/gpcm-methods.Rd | 4 ++--
man/grm-methods.Rd | 4 ++--
man/irt.pars-class.Rd | 2 +-
man/link.con.Rd | 9 +++++++--
man/mcm-methods.Rd | 2 +-
man/md.mixed.Rd | 2 +-
man/mixed-methods.Rd | 6 +++---
man/nrm-methods.Rd | 2 +-
man/plink-methods.Rd | 12 ++++++------
man/plot.irt.prob.Rd | 6 ++++--
man/poly.mod-class.Rd | 4 ++--
man/reading.Rd | 2 +-
man/sep.pars-class.Rd | 8 ++++----
man/summary.irt.pars.Rd | 2 +-
27 files changed, 181 insertions(+), 86 deletions(-)
More information about DesignPatterns at CRAN
Permanent link
Author: Eryk Witold Wolski, Andreas Westfeld
Title: Basic HTTP Request
Description: HTTP Request protocols. Implements the GET, POST and
multipart POST request.
Diff between httpRequest versions 0.0.6 dated 2006-02-03 and 0.0.8 dated 2009-10-23
httpRequest-0.0.6/httpRequest/help |only httpRequest-0.0.6/httpRequest/man/GetToHost.Rd |only httpRequest-0.0.6/httpRequest/man/PostToHost.Rd |only httpRequest-0.0.6/httpRequest/man/SimplePostToHost.Rd |only httpRequest-0.0.8/httpRequest/DESCRIPTION | 14 +- httpRequest-0.0.8/httpRequest/INDEX | 8 - httpRequest-0.0.8/httpRequest/R/httpRequest.R | 106 +++++++++++++----- httpRequest-0.0.8/httpRequest/man/getToHost.Rd |only httpRequest-0.0.8/httpRequest/man/getToHost2.Rd |only httpRequest-0.0.8/httpRequest/man/postToHost.Rd |only httpRequest-0.0.8/httpRequest/man/simplePostToHost.Rd |only 11 files changed, 96 insertions(+), 32 deletions(-)
Author: Marek Walesiak
Diff between clusterSim versions 0.36-4 dated 2009-03-11 and 0.36-6 dated 2009-10-23
Title: Searching for optimal clustering procedure for a data set
Description: GDM Distance, Sokal-Michener Distance, Bray-Curtis
Distance, Calinski-Harabasz Index, G2 Index, G3 Index,
Silhouette Index, Krzanowski-Lai Index, Hartigan Index, Gap
Index, DB Index, Data Normalization, HINoV method, Replication
analysis for cluster validation, Clustering with several
algorithms, distances, normalizations and icq indices, Symbolic
interval distances, Plot functions, Random cluster generation
DESCRIPTION | 8 ++++----
R/replication.Mod.r | 10 +++++++++-
2 files changed, 13 insertions(+), 5 deletions(-)
Author: Antoine Lucas
Title: Another Multidimensional Analysis Package
Description: Tools for Clustering and Principal Component Analysis
(With robusts methods, and parallelized functions).
Diff between amap versions 0.8-3 dated 2009-05-19 and 0.8-4 dated 2009-10-23
Changes | 2 ++ DESCRIPTION | 6 +++--- inst/doc/amap.pdf |binary inst/po/po |only man/Kmeans.Rd | 2 +- src/burt.c | 12 ++++++++++++ src/kmeans.cpp | 4 ++-- 7 files changed, 20 insertions(+), 6 deletions(-)
Author: Luke J. Keele
Title: Perform Rosenbaum bounds sensitivity tests for matched data.
Description: Takes matched data and calculates Rosenbaum bounds for the
treatment effect. Calculates bounds for binary data,
Hodges-Lehmann point estimates, Wilcoxon signed-rank test, and
for data with multiple matched controls. Is designed to work
with the Matching package and operate on Match() objects.
Diff between rbounds versions 0.3 dated 2009-05-24 and 0.4 dated 2009-10-23
DESCRIPTION | 8 ++++---- R/binarysens.R | 17 +++++++++++++---- man/binarysens.Rd | 2 +- man/hlsens.Rd | 2 +- 4 files changed, 19 insertions(+), 10 deletions(-)
Author: Gregory R. Warnes. Includes R source code and/or documentation
contributed by (in alphabetical order): Ben Bolker, Lodewijk
Bonebakker, Robert Gentleman, Wolfgang Huber Andy Liaw, Thomas
Lumley, Martin Maechler, Arni Magnusson, Steffen Moeller, Marc
Schwartz, Bill Venables
Title: Various R programming tools for plotting data
Description: Various R programming tools for plotting data
Diff between gplots versions 2.7.2 dated 2009-10-12 and 2.7.3 dated 2009-10-23
ChangeLog | 325 +++++++++++++++++++++++++-------------------------------- DESCRIPTION | 8 - NEWS | 9 + R/heatmap.2.R | 8 - inst/ChangeLog | 325 +++++++++++++++++++++++++-------------------------------- inst/NEWS | 9 + 6 files changed, 312 insertions(+), 372 deletions(-)
Author: Juan R González, Virginie Rondeau
Diff between frailtypack versions 2.1-1 dated 2008-07-28 and 2.2-9.5 dated 2009-10-23
Title: Frailty models using maximum penalized likelihood estimation
Description: Frailtypack now fits several classes of frailty models
using Penalized Likelihood on the hazard function. 1) A shared
gamma frailty model and Cox proportional hazards model. Left
truncated, censored data and strata (max=2) are allowed.
Clustered and recurrent survival times can be studied (the
Andersen-Gill(1982) approach has been implemented for recurrent
events). An automatic choice of the smoothing parameter is
possible using an approximated cross-validation procedure. 2)
Additive frailty models for proportional hazards models with
two correlated random effects (intercept random effect with
random slope). 3) Nested frailty models for hierarchically
clustered data (with 2 levels of clustering) by including two
iid gamma random effects. 4) Joint frailty models in the
context of joint modelling of recurrent events with terminal
event.
frailtypack-2.1-1/frailtypack/INDEX |only
frailtypack-2.1-1/frailtypack/R/frailtypack.R |only
frailtypack-2.1-1/frailtypack/frailtypack |only
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55 files changed, 440 insertions(+), 754 deletions(-)
Author: Roeland Kindt
Title: GUI for biodiversity and community ecology analysis
Description: This package provides a GUI (Graphical User Interface, via
the R-Commander) and some utility functions (often based on the
vegan package) for statistical analysis of biodiversity and
ecological communities, including species accumulation curves,
diversity indices, Renyi profiles, GLMs for analysis of species
abundance and presence-absence, distance matrices, Mantel
tests, and cluster, constrained and unconstrained ordination
analysis. A book on biodiversity and community ecology analysis
is available for free download from the website.
Diff between BiodiversityR versions 1.3 dated 2009-07-03 and 1.4 dated 2009-10-23
DESCRIPTION | 8 - R/accumcomp.R | 2 R/accumresult.R | 2 R/diversityresult.R | 32 ++---- R/import.from.Access.R | 8 + R/import.from.Excel.R | 8 + inst/etc/BiodiversityGUI.R | 219 ++++++++++++++++++++++++++++++++++--------- inst/etc/Rcmdr-menus.txt | 1 man/BiodiversityR-package.Rd | 72 -------------- man/accumresult.Rd | 8 - man/diversityresult.Rd | 6 - man/import.from.Excel.Rd | 7 - 12 files changed, 222 insertions(+), 151 deletions(-)
Author: Adrian Baddeley
Diff between spatstat versions 1.16-3 dated 2009-10-13 and 1.17-0 dated 2009-10-22
Title: Spatial Point Pattern analysis, model-fitting, simulation, tests
Description: A package for analysing spatial data, mainly Spatial Point
Patterns, including multitype/marked points and spatial
covariates, in any two-dimensional spatial region. Contains
functions for plotting spatial data, exploratory data analysis,
model-fitting, simulation, spatial sampling, model diagnostics,
and formal inference. Data types include point patterns, line
segment patterns, spatial windows, and pixel images. Point
process models can be fitted to point pattern data. Cluster
type models are fitted by the method of minimum contrast. Very
general Gibbs point process models can be fitted to point
pattern data using a function ppm similar to lm or glm. Models
may include dependence on covariates, interpoint interaction
and dependence on marks. Fitted models can be simulated
automatically. Also provides facilities for formal inference
(such as chi-squared tests) and model diagnostics (including
simulation envelopes, residuals, residual plots and Q-Q plots).
spatstat-1.16-3/spatstat/R/rmhseed.R |only
spatstat-1.16-3/spatstat/inst/ratfor/arand.r |only
spatstat-1.16-3/spatstat/inst/ratfor/areaint.r |only
spatstat-1.16-3/spatstat/inst/ratfor/aru.r |only
spatstat-1.16-3/spatstat/inst/ratfor/badgey.r |only
spatstat-1.16-3/spatstat/inst/ratfor/cif.h |only
spatstat-1.16-3/spatstat/inst/ratfor/cif.r |only
spatstat-1.16-3/spatstat/inst/ratfor/death.h |only
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spatstat-1.17-0/spatstat/DESCRIPTION | 32
spatstat-1.17-0/spatstat/INDEX | 1
spatstat-1.17-0/spatstat/R/Kinhom.S | 16
spatstat-1.17-0/spatstat/R/Kmulti.inhom.R | 39 -
spatstat-1.17-0/spatstat/R/density.ppp.R | 18
spatstat-1.17-0/spatstat/R/distances.psp.R | 61 +
spatstat-1.17-0/spatstat/R/mincontrast.R | 11
spatstat-1.17-0/spatstat/R/multipair.util.R | 24
spatstat-1.17-0/spatstat/R/multistrauss.S | 4
spatstat-1.17-0/spatstat/R/rmh.default.R | 217 ++----
spatstat-1.17-0/spatstat/R/rmhmodel.R | 302 ++------
spatstat-1.17-0/spatstat/R/rmhmodel.ppm.R | 4
spatstat-1.17-0/spatstat/R/rmhstart.R | 20
spatstat-1.17-0/spatstat/R/tess.R | 3
spatstat-1.17-0/spatstat/R/util.S | 66 +
spatstat-1.17-0/spatstat/R/window.S | 106 ++
spatstat-1.17-0/spatstat/R/xypolygon.S | 11
spatstat-1.17-0/spatstat/data/bronzefilter.rda |only
spatstat-1.17-0/spatstat/demo/data.R | 3
spatstat-1.17-0/spatstat/inst/doc/shapefiles.pdf | 681 +++++++++----------
spatstat-1.17-0/spatstat/inst/ratfor/Makefile | 70 -
spatstat-1.17-0/spatstat/man/Kcross.inhom.Rd | 58 +
spatstat-1.17-0/spatstat/man/Kdot.inhom.Rd | 61 +
spatstat-1.17-0/spatstat/man/Kinhom.Rd | 2
spatstat-1.17-0/spatstat/man/Ldot.inhom.Rd | 2
spatstat-1.17-0/spatstat/man/as.mask.Rd | 7
spatstat-1.17-0/spatstat/man/as.owin.Rd | 7
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spatstat-1.17-0/spatstat/man/internal.Rd | 24
spatstat-1.17-0/spatstat/man/owin.Rd | 14
spatstat-1.17-0/spatstat/man/rmh.default.Rd | 47 -
spatstat-1.17-0/spatstat/man/rmhstart.Rd | 29
spatstat-1.17-0/spatstat/man/spatstat-package.Rd | 9
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spatstat-1.17-0/spatstat/src/dist2.h |only
spatstat-1.17-0/spatstat/src/fexitc.c | 8
spatstat-1.17-0/spatstat/src/getcif.c |only
spatstat-1.17-0/spatstat/src/geyer.c |only
spatstat-1.17-0/spatstat/src/lookup.c |only
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spatstat-1.17-0/spatstat/tests/rmhBasic.R | 4
spatstat-1.17-0/spatstat/tests/rmhmodel.ppm.R | 17
120 files changed, 1008 insertions(+), 970 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. The package includes also a
graphical user interface.
Diff between sdcMicro versions 2.6.1 dated 2009-09-18 and 2.6.2 dated 2009-10-22
.project |only DESCRIPTION | 11 ++++++----- R/freqCalc.r | 5 +++-- inst/doc/Rplots.pdf | 4 ++-- inst/doc/sdcMicroPaper.pdf |binary man/freqCalc.Rd | 4 ++-- man/localSupp.Rd | 2 +- man/localSupp2.Rd | 2 +- man/localSupp2Wrapper.Rd | 2 +- man/microaggregation.Rd | 2 +- man/plot.indivRisk.Rd | 2 +- man/print.pram.Rd | 2 +- man/sdcMicro-package.Rd | 2 +- man/summary.micro.Rd | 2 +- man/summary.pram.Rd | 2 +- 15 files changed, 22 insertions(+), 20 deletions(-)
Author: Katherine S. Pollard, Houston N. Gilbert, Yongchao Ge, Sandra
Taylor, Sandrine Dudoit
Title: Resampling-based multiple hypothesis testing
Description: Non-parametric bootstrap and permutation resampling-based
multiple testing procedures (including empirical Bayes methods)
for controlling the family-wise error rate (FWER), generalized
family-wise error rate (gFWER), tail probability of the
proportion of false positives (TPPFP), and false discovery rate
(FDR). Several choices of bootstrap-based null distribution
are implemented (centered, centered and scaled,
quantile-transformed). Single-step and step-wise methods are
available. Tests based on a variety of t- and F-statistics
(including t-statistics based on regression parameters from
linear and survival models as well as those based on
correlation parameters) are included. When probing hypotheses
with t-statistics, users may also select a potentially faster
null distribution which is multivariate normal with mean zero
and variance covariance matrix derived from the vector
influence function. Results are reported in terms of adjusted
p-values, confidence regions and test statistic cutoffs. The
procedures are directly applicable to identifying
differentially expressed genes in DNA microarray experiments.
Diff between multtest versions 2.1.1 dated 2009-06-14 and 2.1.3 dated 2009-10-22
DESCRIPTION | 6 +++--- R/EBMTP.R | 5 ++++- R/nulldistn_c.R | 8 ++++---- R/test.R | 10 ++++++++-- man/MTP.Rd | 2 +- 5 files changed, 20 insertions(+), 11 deletions(-)
Author: Mario Hasler
Title: Simultaneous Comparisons for Multiple Endpoints
Description: Simultaneous tests and confidence intervals for one-way
experimental designs with one or many normally distributed,
primary response variables (endpoints). The procedure of Hasler
(2009) is applied for differences or ratios of means. Various
contrasts can be chosen, unbalanced sample sizes are allowed as
well as heterogeneous covariance matrices.
Diff between SimComp versions 1.4.1 dated 2009-10-14 and 1.4.2 dated 2009-10-22
DESCRIPTION | 21 +++++++++----------- man/SimCiDiff.Rd | 8 +------ man/SimCiRat.Rd | 12 +++-------- man/SimComp-package.Rd | 50 ++++++++++++++++++++++++++++++++++--------------- man/SimTestDiff.Rd | 8 +------ man/SimTestRat.Rd | 8 +------ 6 files changed, 55 insertions(+), 52 deletions(-)
Author: Jouni Helske
Diff between KFAS versions 0.4.5 dated 2009-10-19 and 0.4.6 dated 2009-10-22
Title: Multivariate Kalman filter and smoother, simulation smoother and
forecasting of state space models. Approximate likelihood of
linear non-gaussian state space models.
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. KFAS also contains function which computes approximate
likelihood of exponential family state space model.
DESCRIPTION | 18 ++++-----
R/KFAS.R | 107 ++++++++++++++++++++++++++++++++++++++++++++++++++++++---
elinankoodeja |only
man/expflik.Rd | 33 ++++++++++++-----
man/kf.Rd | 2 -
src/expf.f90 | 21 ++++++++---
6 files changed, 152 insertions(+), 29 deletions(-)
Author: Material from the book's webpage, R port and packaging by
Kjetil Halvorsen
Title: Data sets, functions and examples from the book: "The Elements
of Statistical Learning, Data Mining, Inference, and
Prediction" by Trevor Hastie, Robert Tibshirani and Jerome
Friedman.
Description: Useful when reading the book above mentioned, in the
documentation referred to as `the book'.
Diff between ElemStatLearn versions 0.1-6 dated 2009-02-12 and 0.1-7 dated 2009-10-22
DESCRIPTION | 40 +++++++++++++++++++++------------------- data/SAheart.RData |binary data/bone.RData |binary data/countries.RData |binary data/galaxy.RData |binary data/marketing.RData |binary data/mixture.example.RData |binary data/nci.RData |binary data/orange10.test.RData |binary data/orange10.train.RData |binary data/orange4.test.RData |binary data/orange4.train.RData |binary data/ozone.RData |binary data/phoneme.RData |binary data/prostate.RData |binary data/spam.RData |binary data/vowel.test.RData |binary data/vowel.train.RData |binary data/waveform.test.RData |binary data/waveform.train.RData |binary data/zip.test.RData |binary data/zip.train.RData |binary man/mixture.example.Rd | 25 +++++++++++++++++++++---- 23 files changed, 42 insertions(+), 23 deletions(-)
Author: Søren Højsgaard
Diff between doBy versions 4.0.4 dated 2009-10-19 and 4.0.5 dated 2009-10-22
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 | 9 +
DESCRIPTION | 6
R/orderBy.R | 2
inst/doc/doBy.pdf | 365 +++++++++++++++++++++++++++---------------------------
4 files changed, 195 insertions(+), 187 deletions(-)
Author: Daniela Witten and Rob Tibshirani and Sam Gross
Title: Penalized Multivariate Analysis
Description: Performs Penalized Multivariate Analysis: a penalized
matrix decomposition, sparse principal components analysis, and
sparse canonical correlation analysis, described in the
following papers: (1) Witten, Tibshirani and Hastie (2009) A
penalized matrix decomposition, with applications to sparse
principal components and canonical correlation analysis.
Biostatistics 10(3):515-534. (2) Witten and Tibshirani (2009)
Extensions of sparse canonical correlation analysis, with
applications to genomic data. Statistical Applications in
Genetics and Molecular Biology 8(1): Article 28.
Diff between PMA versions 1.0.2 dated 2009-04-15 and 1.0.4 dated 2009-10-22
PMA-1.0.2/PMA/R/CGH.SparseCCA.R |only PMA-1.0.2/PMA/R/MultiSparseCCA.R |only PMA-1.0.4/PMA/DESCRIPTION | 18 ++- PMA-1.0.4/PMA/NAMESPACE | 2 PMA-1.0.4/PMA/R/CCA.R |only PMA-1.0.4/PMA/R/CCA.xlfuns.R |only PMA-1.0.4/PMA/R/MultiCCA.R |only PMA-1.0.4/PMA/R/PMD.CGH.R | 43 ++++++- PMA-1.0.4/PMA/R/PMD.R | 100 ++++++++++++------ PMA-1.0.4/PMA/R/PlotFusedLasso.R | 6 - PMA-1.0.4/PMA/R/SamrFunctions.R |only PMA-1.0.4/PMA/man/CCA.Rd | 184 +++++++++++++++++----------------- PMA-1.0.4/PMA/man/CCA.permute.Rd | 120 ++++++++++++---------- PMA-1.0.4/PMA/man/MultiCCA.Rd |only PMA-1.0.4/PMA/man/MultiCCA.permute.Rd |only PMA-1.0.4/PMA/man/PMA-internal.Rd | 42 +++++-- PMA-1.0.4/PMA/man/PMA-package.Rd | 4 PMA-1.0.4/PMA/man/PMD.Rd | 14 ++ PMA-1.0.4/PMA/man/PMD.cv.Rd | 10 + PMA-1.0.4/PMA/man/PlotCGH.Rd | 3 PMA-1.0.4/PMA/man/SPC.Rd | 5 PMA-1.0.4/PMA/man/SPC.cv.Rd | 4 PMA-1.0.4/PMA/man/notusing |only 23 files changed, 342 insertions(+), 213 deletions(-)
Author: Marc J. Mazerolle
Diff between AICcmodavg versions 1.02 dated 2009-09-30 and 1.03 dated 2009-10-22
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 linear models ('lm'
class), generalized linear models ('glm' class), linear mixed
models ('lme' class), multinomial and ordinal logistic
regressions ('multinom' and 'polr' classes).
DESCRIPTION | 14 +--
R/AICc.R | 26 ++---
R/AICc.glm.R | 23 ++---
R/AICc.lme.R | 22 ++--
R/AICc.mult.R | 36 ++++----
R/AICc.polr.R |only
R/aictab.R | 69 ++++++++-------
R/aictab.glm.R | 49 +++++++---
R/aictab.lme.R | 51 +++++++----
R/aictab.mult.R | 16 ++-
R/aictab.polr.R |only
R/c_hat.R | 30 +++---
R/confset.R | 190 +++++++++++++++++++++---------------------
R/evidence.R | 22 ++--
R/importance.R | 68 +++++++--------
R/modavg.R | 26 ++++-
R/modavg.glm.R | 191 ++++++++++++++++++++++++++++++------------
R/modavg.lme.R | 6 -
R/modavg.mult.R | 205 +++++++++++++++++++++++++++++++---------------
R/modavg.polr.R |only
R/modavgpred.R | 2
man/AICc.Rd | 74 +++++++++-------
man/AICcmodavg-package.Rd | 10 +-
man/aictab.Rd | 32 ++++---
man/modavg.Rd | 180 +++++++++++++++++++++++++++++++---------
25 files changed, 846 insertions(+), 496 deletions(-)
Author: Sebastian P. Luque
Diff between diveMove versions 0.9.5 dated 2009-02-15 and 0.9.6 dated 2009-10-21
Title: Dive analysis and calibration
Description: Functions to filter and summarize time-depth recorder
(TDR) data, and miscellaneous functions for handling location
data.
ChangeLog | 9
DESCRIPTION | 18
R/bouts.R | 22
R/detDive.R | 6
README | 8
inst/doc/diveMove.pdf | 4488 ++++++++++++++++++++++----------------------------
man/calibrateDepth.Rd | 68
7 files changed, 2171 insertions(+), 2448 deletions(-)
Author: Christian Buchta, Kurt Hornik, Ingo Feinerer, David Meyer
Title: Text Analysis Utilities
Description: Utilities for text analysis
Diff between tau versions 0.0-3 dated 2009-09-04 and 0.0-4 dated 2009-10-21
CHANGELOG | 4 DESCRIPTION | 8 - NAMESPACE | 3 R/encoding.R | 4 R/textcnt.R | 93 ++++++++++++++++---- R/util.R | 13 +- man/encoding.Rd | 3 man/textcnt.Rd | 43 +++++++-- man/util.Rd | 3 src/encoding.c | 34 ++++++- src/textcnt.c | 108 +++++++++++++++++++---- tests/counting.R | 23 ++-- tests/counting.Rout.save.UTF8 | 143 +++++++++++++++---------------- tests/counting.Rout.save.latin1 | 143 +++++++++++++++---------------- tests/counting_useBytes.R |only tests/counting_useBytes.Rout.save.UTF8 |only tests/counting_useBytes.Rout.save.latin1 |only 17 files changed, 411 insertions(+), 214 deletions(-)
Author: Trevor Hastie
Title: svmpath: the SVM Path algorithm
Description: Computes the entire regularization path for the two-class
svm classifier with essentialy the same cost as a single SVM
fit.
Diff between svmpath versions 0.92 dated 2006-06-06 and 0.93 dated 2009-10-21
svmpath-0.92/svmpath/R/svmpathfuncs.R |only svmpath-0.93/svmpath/DESCRIPTION | 26 +++++++++++---------- svmpath-0.93/svmpath/R/Balanced.Initialization.R |only svmpath-0.93/svmpath/R/DowndateKstar.R |only svmpath-0.93/svmpath/R/First.lib.R |only svmpath-0.93/svmpath/R/InitsvmPath.R |only svmpath-0.93/svmpath/R/OptInit.alpha.R |only svmpath-0.93/svmpath/R/PrintPath.R |only svmpath-0.93/svmpath/R/SnapPath.R |only svmpath-0.93/svmpath/R/SolveKstar.R |only svmpath-0.93/svmpath/R/StatPath.R |only svmpath-0.93/svmpath/R/Unbalanced.Initialization.R |only svmpath-0.93/svmpath/R/UpdateKstar.R |only svmpath-0.93/svmpath/R/coef.svmpath.R |only svmpath-0.93/svmpath/R/enlist.R |only svmpath-0.93/svmpath/R/get.svmstep.R |only svmpath-0.93/svmpath/R/modulus.R |only svmpath-0.93/svmpath/R/poly.kernel.R |only svmpath-0.93/svmpath/R/predict.svmpath.R |only svmpath-0.93/svmpath/R/print.svmpath.R |only svmpath-0.93/svmpath/R/radial.kernel.R |only svmpath-0.93/svmpath/R/summary.svmpath.R |only svmpath-0.93/svmpath/R/svmpath.R |only svmpath-0.93/svmpath/data/svmpath.RData |binary svmpath-0.93/svmpath/man/predict.svmpath.Rd | 4 +-- svmpath-0.93/svmpath/man/print.svmpath.Rd | 2 - svmpath-0.93/svmpath/man/summary.svmpath.Rd | 2 - svmpath-0.93/svmpath/man/svmpath.Rd | 2 - 28 files changed, 19 insertions(+), 17 deletions(-)
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 0.1-5 dated 2009-09-10 and 0.1-6 dated 2009-10-21
DESCRIPTION | 8 +- NAMESPACE | 1 R/array.R | 5 - R/matrix.R | 169 ++++++++++++++++++++++++++-------------------- R/stm.R | 59 ++++++++++------ src/sparse.c | 61 ++++++++++++---- tests/matrix.R |only tests/matrix.Rout.save |only tests/stm_zeros.R |only tests/stm_zeros.Rout.save |only 10 files changed, 191 insertions(+), 112 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 0.1-1 dated 2009-09-03 and 0.1-2 dated 2009-10-21
DESCRIPTION | 8 +-- R/cluto.R | 15 ++----- R/skmeans.R | 120 +++++++++++++++++++++++++++++++++++++-------------------- man/skmeans.Rd | 2 4 files changed, 91 insertions(+), 54 deletions(-)
Author: Stefano Iacus
Diff between cem versions 1.0.117 dated 2009-10-21 and 1.0.120 dated 2009-10-21
Title: CEM: Software for Coarsened Exact Matching
Description: This program implements the coarsened exact matching
algorithm (and many extensions) described in Stefano M. Iacus,
Gary King, and Giuseppe Porro, "Causal Inference Without
Balance Checking: Coarsened Exact Matching,"
http://gking.harvard.edu/files/abs/cem-plus-abs.shtml
DESCRIPTION | 8
inst/doc/Rplots.pdf | 4
inst/doc/cem.Rnw | 44
inst/doc/cem.pdf | 5077 +++++++++++++++++++++++++-------------------------
inst/doc/coarsen1.pdf | 4
inst/doc/coarsen2.pdf | 4
inst/doc/index.shtml | 6
inst/doc/teff.pdf | 4
man/L1.meas.Rd | 14
man/L1.profile.Rd | 33
man/att.Rd | 2
man/cem.Rd | 2
man/imbalance.Rd | 2
man/k2k.Rd | 2
man/pair.Rd | 2
man/relax.cem.Rd | 2
man/shift.cem.Rd | 2
17 files changed, 2655 insertions(+), 2557 deletions(-)
Author: Daniel Haase
Diff between ringscale versions 0.1.1 dated 2009-07-30 and 0.1.2 dated 2009-10-21
Title: Ringscale
Description: Implementation of the "Ringscale" method as proposed in
the student research project "DETECTION OF FAINT COMPANIONS
AROUND YOUNG STARS IN SPECKLE PATTERNS OF VLT/NACO CUBE MODE
IMAGES BY MEANS OF POST-PROCESSING" at the
Friedrich-Schiller-University of Jena.
ChangeLog | 18 ++++++++++++++++++
DESCRIPTION | 8 ++++----
R/misc.R | 8 +++++++-
R/ringscale.R | 23 ++++++++++++++++++-----
man/ringscale.Rd | 4 +++-
5 files changed, 50 insertions(+), 11 deletions(-)
Author: Luca Scrucca
Diff between qcc versions 1.3 dated 2008-10-12 and 2.0 dated 2009-10-21
Title: Quality Control Charts
Description: Shewhart quality control charts for continuous, attribute
and count data. Cusum and EWMA charts. Operating characteristic
curves. Process capability analysis. Pareto chart and
cause-and-effect chart. Multivariate control charts.
qcc-1.3/qcc/inst/qcc_Rnews.pdf |only
qcc-2.0/qcc/CHANGES | 19
qcc-2.0/qcc/DESCRIPTION | 20
qcc-2.0/qcc/INDEX | 37
qcc-2.0/qcc/NAMESPACE |only
qcc-2.0/qcc/R/capability.R |only
qcc-2.0/qcc/R/causeandeffect.R |only
qcc-2.0/qcc/R/cusum.R |only
qcc-2.0/qcc/R/ewma.R |only
qcc-2.0/qcc/R/mqcc.R |only
qcc-2.0/qcc/R/paretochart.R |only
qcc-2.0/qcc/R/qcc.R | 1287 ++++----------------------
qcc-2.0/qcc/R/utilities.R |only
qcc-2.0/qcc/data/boiler.txt |only
qcc-2.0/qcc/inst/doc |only
qcc-2.0/qcc/man/boiler.Rd |only
qcc-2.0/qcc/man/cusum.qcc.Rd | 83 +
qcc-2.0/qcc/man/ellipseChart.Rd |only
qcc-2.0/qcc/man/ewma.qcc.Rd | 89 +
qcc-2.0/qcc/man/mqcc.Rd |only
qcc-2.0/qcc/man/oc.curves.Rd | 6
qcc-2.0/qcc/man/pistonrings.Rd | 2
qcc-2.0/qcc/man/process.capability.Rd | 10
qcc-2.0/qcc/man/process.capability.sixpack.Rd | 8
qcc-2.0/qcc/man/qcc-internal.Rd |only
qcc-2.0/qcc/man/qcc-package.Rd |only
qcc-2.0/qcc/man/qcc.Rd | 39
qcc-2.0/qcc/man/qcc.groups.Rd | 4
qcc-2.0/qcc/man/qcc.options.Rd | 17
qcc-2.0/qcc/man/qcc.overdispersion.test.Rd | 2
qcc-2.0/qcc/man/shewhart.rules.Rd | 2
qcc-2.0/qcc/man/stats.R.Rd | 2
qcc-2.0/qcc/man/stats.T2.Rd |only
qcc-2.0/qcc/man/stats.T2.single.Rd |only
qcc-2.0/qcc/man/stats.c.Rd | 2
qcc-2.0/qcc/man/stats.g.Rd | 2
qcc-2.0/qcc/man/stats.np.Rd | 2
qcc-2.0/qcc/man/stats.p.Rd | 2
qcc-2.0/qcc/man/stats.u.Rd | 2
qcc-2.0/qcc/man/stats.xbar.Rd | 4
qcc-2.0/qcc/man/stats.xbar.one.Rd | 35
41 files changed, 506 insertions(+), 1170 deletions(-)
Author: Rasmus E. Benestad
Diff between clim.pact versions 2.2-38 dated 2009-06-16 and 2.2-39 dated 2009-10-21
Title: Climate analysis and empirical-statistical downscaling (ESD)
package for monthly and daily data.
Description: The package contains R functions for retrieving data,
making climate analysis and downscaling of monthly mean and
daily mean global climate scenarios. (Windows-users may need to
obtain the 'ncdf' package from URL
'http://www.stats.ox.ac.uk/pub/RWin/' to get clim.pact to
work). The package is also described in the book
'Empirical-Statistical Downscaling
(http://www.worldscibooks.com/environsci/6908.html)
DESCRIPTION | 8 +++----
R/extras.R | 60 +++++++++++++++++++++++++++++++++++++-----------------
R/getnarp.R | 8 ++++++-
R/grd.box.ts.R | 32 ++++++++++++++++++++++------
R/retrieve.nc.R | 17 +++++++++------
man/getgiss.Rd | 2 -
man/grd.box.ts.Rd | 8 ++++---
7 files changed, 94 insertions(+), 41 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 1.0.1 dated 2009-09-12 and 1.01 dated 2009-10-21
DESCRIPTION | 6 +++--- NAMESPACE | 2 +- R/polylo.R | 20 +++++++++----------- man/gam.Rd | 2 +- src/Makevars | 1 - 5 files changed, 14 insertions(+), 17 deletions(-)
Author: Stefano Iacus
Diff between cem versions 1.0.116 dated 2009-10-20 and 1.0.117 dated 2009-10-21
Title: CEM: Software for Coarsened Exact Matching
Description: This program implements the coarsened exact matching
algorithm (and many extensions) described in Stefano M. Iacus,
Gary King, and Giuseppe Porro, "Causal Inference Without
Balance Checking: Coarsened Exact Matching,"
http://gking.harvard.edu/files/abs/cem-plus-abs.shtml
DESCRIPTION | 6
NAMESPACE | 2
R/L1profile.R |only
inst/doc/Rplots.pdf | 4
inst/doc/cem.Rnw | 2
inst/doc/cem.pdf | 1035 +++++++++++++++++++++++++-------------------------
inst/doc/coarsen1.pdf | 4
inst/doc/coarsen2.pdf | 4
inst/doc/copyRd.Rout | 2
inst/doc/index.shtml | 2
inst/doc/teff.pdf | 4
man/L1.profile.Rd |only
12 files changed, 543 insertions(+), 522 deletions(-)
Author: Russell V. Lenth
Title: Response-surface analysis
Description: Provides functions to generate response-surface designs,
fit first- and second-order response-surface models, make
contour plots, obtain the path of steepest ascent, and do
canonical analysis.
Diff between rsm versions 1.13 dated 2009-10-12 and 1.20 dated 2009-10-20
rsm-1.13/rsm/inst/doc/rsm.Rtex |only rsm-1.20/rsm/DESCRIPTION | 8 ++++---- rsm-1.20/rsm/inst/CITATION | 35 +++++++++++++++++------------------ rsm-1.20/rsm/inst/NEWS | 22 ++++++++++++++++++---- rsm-1.20/rsm/inst/doc/rsm.Rnw |only rsm-1.20/rsm/inst/doc/rsm.bib |only rsm-1.20/rsm/inst/doc/rsm.pdf |binary rsm-1.20/rsm/man/FO.Rd | 5 +++++ rsm-1.20/rsm/man/bbd.Rd | 7 ++++++- rsm-1.20/rsm/man/ccd.Rd | 4 ++++ rsm-1.20/rsm/man/ccd.pick.Rd | 7 ++++++- rsm-1.20/rsm/man/coded.data.Rd | 5 +++++ rsm-1.20/rsm/man/contour.lm.Rd | 5 +++++ rsm-1.20/rsm/man/model.data.Rd | 5 +++++ rsm-1.20/rsm/man/rsm-package.Rd | 4 ++++ rsm-1.20/rsm/man/rsm.Rd | 6 +++++- rsm-1.20/rsm/man/steepest.Rd | 10 ++++++++-- 17 files changed, 92 insertions(+), 31 deletions(-)
Author: Jeff Gentry
Diff between twitteR versions 0.1.0 dated 2009-07-24 and 0.1.2 dated 2009-10-20
Title: R based Twitter client
Description: Provides an interface to the Twitter web API
DESCRIPTION | 6 -
R/allGenerics.R |only
R/classes.R | 133 ++++++++++++++++++++++++++-
R/json.R | 14 ++
R/status.R | 7 +
R/timeline.R | 2
R/users.R | 12 +-
inst/doc/twitteR.Rnw | 219 ++++++++++++++++++++++++++++++++++++++++++++-
inst/doc/twitteR.pdf |binary
man/directMessage-class.Rd | 34 ++++++
man/status-class.Rd | 28 +++++
man/updateStatus.Rd | 4
man/user-class.Rd | 45 ++++++++-
13 files changed, 476 insertions(+), 28 deletions(-)
Author: Derek Young Tatiana Benaglia Didier Chauveau Ryan Elmore Tom
Hettmansperger David Hunter Hoben Thomas Fengjuan Xuan
Title: Tools for analyzing finite mixture models
Description: A collection of R functions for analyzing finite mixture
models. This package is based upon work supported by the
National Science Foundation under Grant No. SES-0518772.
Diff between mixtools versions 0.4.1 dated 2009-07-02 and 0.4.3 dated 2009-10-20
DESCRIPTION | 10 +++--- R/gammamixEM.R |only R/gammamixinit.R |only R/lambda.R | 55 +++++++++++++++++++--------------- R/plot.npEM.R | 5 +-- R/regmixEMloc.R | 79 +++++++++++++++++++++++++------------------------ R/summary.mixEM.R | 2 - inst |only man/gammamixEM.Rd |only man/initializations.Rd | 7 ++-- man/plot.npEM.Rd | 8 +++- 11 files changed, 91 insertions(+), 75 deletions(-)
Author: Douglas Bates
Diff between lme4 versions 0.999375-31 dated 2009-05-24 and 0.999375-32 dated 2009-10-20
Title: Linear mixed-effects models using S4 classes
Description: Fit linear and generalized linear mixed-effects models.
lme4-0.999375-31/lme4/inst/doc/AGQ.Rnw |only
lme4-0.999375-31/lme4/inst/doc/AGQ.pdf |only
lme4-0.999375-31/lme4/inst/doc/SpecifyingLMMs.Rnw |only
lme4-0.999375-31/lme4/inst/doc/SpecifyingLMMs.pdf |only
lme4-0.999375-31/lme4/inst/doc/Theory.rel |only
lme4-0.999375-31/lme4/inst/doc/auto |only
lme4-0.999375-31/lme4/tests/StratVar.R |only
lme4-0.999375-32/lme4/ChangeLog | 18 +
lme4-0.999375-32/lme4/DESCRIPTION | 10
lme4-0.999375-32/lme4/R/lmer.R | 119 +++++---
lme4-0.999375-32/lme4/ToDo | 2
lme4-0.999375-32/lme4/inst/doc/Implementation.pdf |binary
lme4-0.999375-32/lme4/inst/doc/PLSvGLS.pdf |binary
lme4-0.999375-32/lme4/inst/doc/Theory.pdf |binary
lme4-0.999375-32/lme4/man/BIC.Rd | 6
lme4-0.999375-32/lme4/man/lmList-class.Rd | 8
lme4-0.999375-32/lme4/man/lmList.Rd | 2
lme4-0.999375-32/lme4/man/lmer.Rd | 10
lme4-0.999375-32/lme4/man/mer-class.Rd | 1
lme4-0.999375-32/lme4/man/ranef.Rd | 2
lme4-0.999375-32/lme4/src/init.c | 35 ++
lme4-0.999375-32/lme4/src/lmer.c | 2
lme4-0.999375-32/lme4/tests/lmer-1.R | 34 +-
lme4-0.999375-32/lme4/tests/lmer-1.Rout.save | 295 +++++++++++++++++++---
lme4-0.999375-32/lme4/tests/lmer-conv.R | 1
lme4-0.999375-32/lme4/tests/nlmer.Rout.save | 37 --
26 files changed, 429 insertions(+), 153 deletions(-)
Author: Vincent Calcagno
Diff between glmulti versions 0.5-2 dated 2009-10-01 and 0.5-3 dated 2009-10-20
Title: GLM model selection and multimodel inference made easy
Description: Automated model selection for GLMs. Provides a wrapper for
glm and similar functions, automatically generating all
possible models (under constraints set by the user) with the
specified response and explanatory variables, and finding the
best models in terms of some Information Criterion (AIC, AICc
or BIC). Can handle very large numbers of candidate models.
Features a Genetic Algorithm to find the best models when an
exhaustive screening of the candidates is not feasible.
DESCRIPTION | 8 ++++----
R/glmulti.R | 13 ++++++++++---
inst/java/glmulti.jar |binary
inst/java/glmulti/GLMModel.class |binary
inst/java/glmulti/ModelGenerator.class |binary
5 files changed, 14 insertions(+), 7 deletions(-)
Author: Stefano Iacus
Diff between cem versions 1.0.111 dated 2009-08-31 and 1.0.116 dated 2009-10-20
Title: CEM: Software for Coarsened Exact Matching
Description: This program implements the coarsened exact matching
algorithm (and many extensions) described in Stefano M. Iacus,
Gary King, and Giuseppe Porro, "Causal Inference Without
Balance Checking: Coarsened Exact Matching,"
http://gking.harvard.edu/files/abs/cem-plus-abs.shtml
DESCRIPTION | 14
R/cem.main.R | 4
R/imb.meas.R | 65
inst/doc/Rplots.pdf | 4
inst/doc/cem.Rnw | 2
inst/doc/cem.pdf | 4371 ++++++++++++++++++++++++--------------------------
inst/doc/coarsen1.pdf | 4
inst/doc/coarsen2.pdf | 4
inst/doc/index.shtml | 30
inst/doc/teff.pdf | 4
10 files changed, 2245 insertions(+), 2257 deletions(-)
Author: Bob Wheeler
Diff between RelativeRisk versions 1.0-1 dated 2009-09-30 and 1.1-1 dated 2009-10-20
Title: Relative Risk
Description: Relative risk estimation for prospective and retrospective
data.
DESCRIPTION | 8 ++--
R/as.afactor.R | 28 ++++++++++++--
R/as.twolevel.R | 9 +++-
R/est.rr.R | 51 +++++++++++++++++++++----
R/tally.data.R | 104 ++++++++++++++++++++++++++++++++++------------------
data/Chocolates.rda |only
data/Melanoma.rda |only
data/TitanicMat.rda |binary
inst |only
man/AsAFactor.Rd | 25 ++++++++++--
man/AsTwoLevel.Rd | 8 ++--
man/ChocolatesRd.Rd |only
man/EstRR.Rd | 12 +++++-
man/Melanoma.Rd |only
14 files changed, 181 insertions(+), 64 deletions(-)
Author: Jon T. Schnute
Diff between PBSmodelling versions 2.21 dated 2009-08-19 and 2.50.162 dated 2009-10-20
Title: GUI Tools Made Easy: Interact with Models, Explore Data, Give
Dynamic Presentations
Description: PBS Modelling provides software to facilitate the design,
testing, and operation of computer models. It focuses
particularly on tools that make it easy to construct and edit a
customized graphical user interface (GUI). Although it depends
heavily on the R interface to the Tcl/Tk package, a user does
not need to know Tcl/Tk. The package contains examples that
illustrate models built with other R packages, including
PBSmapping, deSolve, PBSddesolve, and BRugs. It also serves as
a convenient prototype for building new R packages, along with
instructions and batch files to facilitate that process. The R
directory '.../library/PBSmodelling/doc' includes a complete
user guide PBSmodelling-UG.pdf. To use this package
effectively, please consult the guide.
PBSmodelling-2.21/PBSmodelling/inst/doc/PBSmodelling-Updates.pdf |only
PBSmodelling-2.21/PBSmodelling/inst/examples/swissTalk.txt |only
PBSmodelling-2.21/PBSmodelling/man/getPrefix.Rd |only
PBSmodelling-2.21/PBSmodelling/man/getSuffix.Rd |only
PBSmodelling-2.50.162/PBSmodelling/DESCRIPTION | 10
PBSmodelling-2.50.162/PBSmodelling/NAMESPACE | 8
PBSmodelling-2.50.162/PBSmodelling/R/guiFuns.r | 131 +
PBSmodelling-2.50.162/PBSmodelling/R/listFuns.r | 2
PBSmodelling-2.50.162/PBSmodelling/R/option_manager.r |only
PBSmodelling-2.50.162/PBSmodelling/R/presentTalk.r | 1075 ++++------
PBSmodelling-2.50.162/PBSmodelling/R/projectFuns.r | 144 -
PBSmodelling-2.50.162/PBSmodelling/R/supportFuns.r | 227 +-
PBSmodelling-2.50.162/PBSmodelling/R/zzz.r | 21
PBSmodelling-2.50.162/PBSmodelling/inst/doc/ChangeLog.txt | 46
PBSmodelling-2.50.162/PBSmodelling/inst/doc/PBSmodelling-UG.pdf |binary
PBSmodelling-2.50.162/PBSmodelling/inst/doc/PBSmodellingIntro.pdf |binary
PBSmodelling-2.50.162/PBSmodelling/inst/doc/index.html | 2
PBSmodelling-2.50.162/PBSmodelling/inst/examples/swisstalk.xml |only
PBSmodelling-2.50.162/PBSmodelling/inst/thirdparty |only
PBSmodelling-2.50.162/PBSmodelling/inst/unitTests |only
PBSmodelling-2.50.162/PBSmodelling/man/createWin.Rd | 45
PBSmodelling-2.50.162/PBSmodelling/man/doAction.Rd | 10
PBSmodelling-2.50.162/PBSmodelling/man/findPrefix.Rd | 42
PBSmodelling-2.50.162/PBSmodelling/man/findProgram.Rd |only
PBSmodelling-2.50.162/PBSmodelling/man/getOptions.Rd |only
PBSmodelling-2.50.162/PBSmodelling/man/getOptionsFileName.Rd |only
PBSmodelling-2.50.162/PBSmodelling/man/getOptionsPrefix.Rd |only
PBSmodelling-2.50.162/PBSmodelling/man/getPBSoptions.Rd | 2
PBSmodelling-2.50.162/PBSmodelling/man/getWinAct.Rd | 2
PBSmodelling-2.50.162/PBSmodelling/man/getWinVal.Rd | 2
PBSmodelling-2.50.162/PBSmodelling/man/loadOptions.Rd |only
PBSmodelling-2.50.162/PBSmodelling/man/loadOptionsGUI.Rd |only
PBSmodelling-2.50.162/PBSmodelling/man/openFile.Rd | 15
PBSmodelling-2.50.162/PBSmodelling/man/openPackageFile.Rd | 10
PBSmodelling-2.50.162/PBSmodelling/man/openProjFiles.Rd | 8
PBSmodelling-2.50.162/PBSmodelling/man/option-class.Rd |only
PBSmodelling-2.50.162/PBSmodelling/man/presentTalk.Rd | 25
PBSmodelling-2.50.162/PBSmodelling/man/promptOpenFile.Rd | 15
PBSmodelling-2.50.162/PBSmodelling/man/promptSaveFile.Rd | 14
PBSmodelling-2.50.162/PBSmodelling/man/selectDir.Rd |only
PBSmodelling-2.50.162/PBSmodelling/man/selectFile.Rd |only
PBSmodelling-2.50.162/PBSmodelling/man/setWidgetColor.Rd |only
PBSmodelling-2.50.162/PBSmodelling/man/setwdGUI.Rd | 39
PBSmodelling-2.50.162/PBSmodelling/man/updateGUI.Rd | 9
PBSmodelling-2.50.162/PBSmodelling/man/viewCode.Rd | 6
45 files changed, 1050 insertions(+), 860 deletions(-)
Author: Jan de Leeuw, Kurt Hornik, Patrick Mair
Title: Active set and generalized PAVA for isotone optimization
Description: This package contains two main functions: gpava() for
solving general isotone regression problem using the
pool-adjacent-violators algorithm (PAVA). activeSet() provides
a framework of active set methods for isotone optimization
problems with arbitrary order restrictions. Various types of
loss functions are pre-spcified.
Diff between isotone versions 0.8-7 dated 2009-10-15 and 1.0-0 dated 2009-10-20
DESCRIPTION | 11 - inst/CITATION |only inst/doc/isotone.Rnw | 340 ++++++++++++++++++++++++--------------------------- inst/doc/isotone.bib | 249 ++++++++++++++++++++++++------------- inst/doc/isotone.pdf |binary man/activeSet.Rd | 4 man/gpava.Rd | 4 7 files changed, 336 insertions(+), 272 deletions(-)
Author: Christian B. Pipper
Diff between multmod versions 0.5 dated 2009-08-31 and 0.6 dated 2009-10-20
Title: Testing of multiple outcomes
Description: Testing of multiple outcomes using i.i.d. decompositions
DESCRIPTION | 6 +++---
NEWS | 3 ++-
inst/CITATION | 1 +
3 files changed, 6 insertions(+), 4 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 1.2 dated 2009-09-07 and 1.2.1 dated 2009-10-20
DESCRIPTION | 6 +++--- R/genomic.clines.R | 24 +++++++++++++++++++----- R/prepare.data.R | 13 +++++++------ R/s.wrapper.R | 2 +- 4 files changed, 30 insertions(+), 15 deletions(-)
Author: Luke Harmon
Diff between geiger versions 1.2-14 dated 2008-11-21 and 1.3-1 dated 2009-10-20
Title: Analysis of evolutionary diversification
Description: Running macroevolutionary simulation, and estimating
parameters related to diversification from comparative
phylogenetic data.
DESCRIPTION | 17 ++++++++++------
NAMESPACE | 2 +
R/birthdeath.tree.R | 2 -
R/fitContinuous.R | 6 ++++-
R/fitDiscrete.R | 6 +++--
R/getAncStates.R |only
R/medusa.R |only
R/node.leaves.R | 1
R/treedata.R | 2 -
man/BDsim.Rd | 2 -
man/area.between.curves.Rd | 2 -
man/deltaTree.Rd | 40 +++++++++++++++++---------------------
man/dtt.Rd | 47 +++++++++++++++++++++------------------------
man/fitContinuous.Rd | 26 ++++++++++--------------
man/fitDiscrete.Rd | 31 +++++++++++++----------------
man/geiger-package.Rd | 7 ------
man/geospiza.Rd | 8 -------
man/getAncStates.Rd |only
man/ic.sigma.Rd | 4 ---
man/medusa.Rd |only
man/name.check.Rd | 10 ---------
man/phy.anova.Rd | 3 --
man/prune.extinct.taxa.Rd | 4 ---
man/rate.estimate.Rd | 3 --
man/rc.Rd | 3 --
man/sim.char.Rd | 3 --
man/tip.disparity.Rd | 3 --
27 files changed, 92 insertions(+), 140 deletions(-)
Author: Terry Therneau
Diff between date versions 1.2-28 dated 2009-09-10 and 1.2-29 dated 2009-10-20
Title: Functions for handling dates
Description: Functions for handling dates.
ChangeLog | 7 +++++++
DESCRIPTION | 8 ++++----
R/date.R | 2 +-
3 files changed, 12 insertions(+), 5 deletions(-)
Author: Roger Bivand
Diff between classInt versions 0.1-12 dated 2009-09-18 and 0.1-13 dated 2009-10-20
Title: Choose univariate class intervals
Description: A package for choosing univariate class intervals for
mapping or other graphics purposes
ChangeLog | 9 +++++++--
DESCRIPTION | 8 ++++----
R/classInt.R | 35 +++++++++++++++++++++++------------
inst |only
man/classIntervals.Rd | 2 +-
5 files changed, 35 insertions(+), 19 deletions(-)
Author: Sameer Kumar Prayaga (during 2008) and Dirk Eddelbuettel with
contributions by Neil Tiffin and Joe Conway
Title: R interface to the PostgreSQL database system
Description: Database interface and PostgreSQL driver for R This
version complies with the database interface definition as
implemented in the package DBI.
Diff between RPostgreSQL versions 0.1-5 dated 2009-10-14 and 0.1-6 dated 2009-10-20
DESCRIPTION | 12 ++++++------ R/PostgreSQL.R | 6 +++--- inst/ChangeLog | 22 ++++++++++++++++++++++ tests/connectWithNull.R | 3 ++- tests/dataTypeTests.R | 3 ++- tests/datetimeTests.R | 3 ++- tests/dbExistsIssue.R | 4 ++-- tests/dbWriteTableTest.R | 3 ++- tests/loadDriverAndConnect.R | 3 ++- tests/selectWhereZero.R | 19 ++++++++++--------- tests/selectWithAlias.R | 4 ++-- 11 files changed, 55 insertions(+), 27 deletions(-)
Author: Andrew Harris
Title: FITS (Flexible Image Transport System) utilities
Description: Utilities to read and write files in the FITS (Flexible
Image Transport System) format, a standard format in astronomy.
Present low-level routines allow: * Reading and parsing FITS
headers * Reading FITS images (multi-dimensional arrays) *
Reading FITS binary tables * Writing FITS images
(multi-dimensional arrays) Higher-level functions allow: *
Reading files composed of one or more headers and a single
(perhaps multidimensional) image or single bintable * Reading
bintables into data frames * Generating vectors for image array
axes * Scaling and writing images as 16-bit integers Known
incompletenesses are reading FITS ASCII table and random group
extensions, as well as bit, complex, and array descriptor data
types in binary tables.
Diff between FITSio versions 1.0-3 dated 2009-04-14 and 1.1-0 dated 2009-10-20
ChangeLog | 22 ++++++++++++---- DESCRIPTION | 8 +++--- R/readFITSarray.R | 38 +++++++++++++++------------- R/readFITSheader.R | 66 ++++++++++++++++++++++++++++++++++---------------- man/FITSio-package.Rd | 20 +++++++-------- man/readFITSarray.Rd | 15 ++++++----- 6 files changed, 104 insertions(+), 65 deletions(-)
Author: Alejandro Jara
Diff between DPpackage versions 1.0-7 dated 2009-03-16 and 1.0-8 dated 2009-10-20
Title: Bayesian Nonparametric and Semiparametric Analysis
Description: This package contains functions to perform inference via
simulation from the posterior distributions for Bayesian
nonparametric and semiparametric models. Although the name of
the package was motivated by the Dirichlet Process prior, the
package considers and will consider other priors on functional
spaces. So far, DPpackage includes models considering Dirichlet
Processes, Dependent Dirichlet Processes, Hierarchical
Dirichlet Processes, Polya Trees, Mixtures of Triangular
distributions, and Random Bernstein polynomials priors. The
package also includes models considering Penalized B-Splines.
Currently the package includes semiparametric models for
marginal and conditional density estimation, ROC curve
analysis, interval censored data, binary regression models,
generalized linear mixed models, IRT type models, and
generalized additive models. The package also contains
functions to compute Pseudo-Bayes factors for model comparison,
and to elicitate the precision parameter of the Dirichlet
Process. To maximize computational efficiency, the actual
sampling for each model is done in compiled FORTRAN. The
functions return objects which can be subsequently analyzed
with functions provided in the coda package.
DPpackage-1.0-7/DPpackage/src/FPTrasch.f |only
DPpackage-1.0-7/DPpackage/src/FPTraschpoisson.f |only
DPpackage-1.0-8/DPpackage/DESCRIPTION | 22
DPpackage-1.0-8/DPpackage/NAMESPACE | 46
DPpackage-1.0-8/DPpackage/R/BDPdensity.R | 16
DPpackage-1.0-8/DPpackage/R/CSDPbinary.R | 6
DPpackage-1.0-8/DPpackage/R/DPMglmm.R | 990 +++++++-------
DPpackage-1.0-8/DPpackage/R/DPMlmm.R | 480 +++---
DPpackage-1.0-8/DPpackage/R/DPMmeta.R | 18
DPpackage-1.0-8/DPpackage/R/DPMolmm.R | 49
DPpackage-1.0-8/DPpackage/R/DPMrandom.R | 6
DPpackage-1.0-8/DPpackage/R/DPMrasch.R |only
DPpackage-1.0-8/DPpackage/R/DPMraschpoisson.R |only
DPpackage-1.0-8/DPpackage/R/DPbetabinom.R | 144 +-
DPpackage-1.0-8/DPpackage/R/DPbinary.R | 6
DPpackage-1.0-8/DPpackage/R/DPcaterpillar.R | 6
DPpackage-1.0-8/DPpackage/R/DPcdensity.R | 311 ++--
DPpackage-1.0-8/DPpackage/R/DPdensity.R | 826 ++++++-----
DPpackage-1.0-8/DPpackage/R/DPelicit.R | 6
DPpackage-1.0-8/DPpackage/R/DPglmm.R | 346 +---
DPpackage-1.0-8/DPpackage/R/DPlmm.R | 427 ++----
DPpackage-1.0-8/DPpackage/R/DPmeta.R | 22
DPpackage-1.0-8/DPpackage/R/DPmultmeta.R | 296 ++--
DPpackage-1.0-8/DPpackage/R/DPolmm.R | 6
DPpackage-1.0-8/DPpackage/R/DPpsBF.R | 6
DPpackage-1.0-8/DPpackage/R/DPrandom.R | 74 -
DPpackage-1.0-8/DPpackage/R/DPrasch.R | 928 ++++++-------
DPpackage-1.0-8/DPpackage/R/DPraschpoisson.R | 769 ++++++-----
DPpackage-1.0-8/DPpackage/R/DProc.R | 6
DPpackage-1.0-8/DPpackage/R/DPsurvint.R | 6
DPpackage-1.0-8/DPpackage/R/FPTbinary.R | 6
DPpackage-1.0-8/DPpackage/R/FPTrasch.R | 1000 ++++++--------
DPpackage-1.0-8/DPpackage/R/FPTraschpoisson.R | 822 ++++++-----
DPpackage-1.0-8/DPpackage/R/HDPMcdensity.R |only
DPpackage-1.0-8/DPpackage/R/HDPMdensity.R |only
DPpackage-1.0-8/DPpackage/R/LDDPdensity.R | 64
DPpackage-1.0-8/DPpackage/R/LDDPrasch.R |only
DPpackage-1.0-8/DPpackage/R/LDDPraschpoisson.R |only
DPpackage-1.0-8/DPpackage/R/LDDPsurvival.R | 142 --
DPpackage-1.0-8/DPpackage/R/PSgam.R | 6
DPpackage-1.0-8/DPpackage/R/PTdensity.R | 98 -
DPpackage-1.0-8/DPpackage/R/PTglmm.R | 1251 ++++++++----------
DPpackage-1.0-8/DPpackage/R/PTlm.R | 92 -
DPpackage-1.0-8/DPpackage/R/PTlmm.R | 631 ++++-----
DPpackage-1.0-8/DPpackage/R/PTmeta.R | 22
DPpackage-1.0-8/DPpackage/R/PTolmm.R | 96 -
DPpackage-1.0-8/DPpackage/R/PTrandom.R | 32
DPpackage-1.0-8/DPpackage/R/Pbinary.R | 6
DPpackage-1.0-8/DPpackage/R/Plm.R | 36
DPpackage-1.0-8/DPpackage/R/TDPdensity.R | 6
DPpackage-1.0-8/DPpackage/R/ps.R | 18
DPpackage-1.0-8/DPpackage/inst |only
DPpackage-1.0-8/DPpackage/man/DPMglmm.Rd | 2
DPpackage-1.0-8/DPpackage/man/DPMlmm.Rd | 2
DPpackage-1.0-8/DPpackage/man/DPMmeta.Rd | 14
DPpackage-1.0-8/DPpackage/man/DPMolmm.Rd | 6
DPpackage-1.0-8/DPpackage/man/DPMrasch.Rd |only
DPpackage-1.0-8/DPpackage/man/DPMraschpoisson.Rd |only
DPpackage-1.0-8/DPpackage/man/DPdensity.Rd | 64
DPpackage-1.0-8/DPpackage/man/DPglmm.Rd | 36
DPpackage-1.0-8/DPpackage/man/DPlmm.Rd | 2
DPpackage-1.0-8/DPpackage/man/DPmeta.Rd | 10
DPpackage-1.0-8/DPpackage/man/DPolmm.Rd | 2
DPpackage-1.0-8/DPpackage/man/DPrasch.Rd | 132 +
DPpackage-1.0-8/DPpackage/man/DPraschpoisson.Rd | 90 -
DPpackage-1.0-8/DPpackage/man/DProc.Rd | 2
DPpackage-1.0-8/DPpackage/man/DPsurvint.Rd | 3
DPpackage-1.0-8/DPpackage/man/FPTrasch.Rd | 94 -
DPpackage-1.0-8/DPpackage/man/FPTraschpoisson.Rd | 84 -
DPpackage-1.0-8/DPpackage/man/HDPMcdensity.Rd |only
DPpackage-1.0-8/DPpackage/man/HDPMdensity.Rd |only
DPpackage-1.0-8/DPpackage/man/LDDPdensity.Rd | 5
DPpackage-1.0-8/DPpackage/man/LDDPrasch.Rd |only
DPpackage-1.0-8/DPpackage/man/LDDPraschpoisson.Rd |only
DPpackage-1.0-8/DPpackage/man/LDDPsurvival.Rd | 7
DPpackage-1.0-8/DPpackage/man/PSgam.Rd | 4
DPpackage-1.0-8/DPpackage/man/PTdensity.Rd | 8
DPpackage-1.0-8/DPpackage/man/PTglmm.Rd | 4
DPpackage-1.0-8/DPpackage/man/PTlm.Rd | 4
DPpackage-1.0-8/DPpackage/man/PTlmm.Rd | 4
DPpackage-1.0-8/DPpackage/man/PTmeta.Rd | 30
DPpackage-1.0-8/DPpackage/man/PTolmm.Rd | 4
DPpackage-1.0-8/DPpackage/man/predict.HDPMcdensity.Rd |only
DPpackage-1.0-8/DPpackage/man/predict.HDPMdensity.Rd |only
DPpackage-1.0-8/DPpackage/man/ps.Rd | 4
DPpackage-1.0-8/DPpackage/src/BDPdensity.f | 6
DPpackage-1.0-8/DPpackage/src/CSDPbinaryl.f | 6
DPpackage-1.0-8/DPpackage/src/DPMglmmgam.f | 6
DPpackage-1.0-8/DPpackage/src/DPMglmmlogit.f | 112 -
DPpackage-1.0-8/DPpackage/src/DPMglmmpois.f | 6
DPpackage-1.0-8/DPpackage/src/DPMglmmprob.f | 6
DPpackage-1.0-8/DPpackage/src/DPMlm.f | 6
DPpackage-1.0-8/DPpackage/src/DPMlmm.f | 6
DPpackage-1.0-8/DPpackage/src/DPMmeta.f | 6
DPpackage-1.0-8/DPpackage/src/DPMolmmp.f | 6
DPpackage-1.0-8/DPpackage/src/DPMrasch.f |only
DPpackage-1.0-8/DPpackage/src/DPMraschpoisson.f |only
DPpackage-1.0-8/DPpackage/src/DPMraschpoissonh.f |only
DPpackage-1.0-8/DPpackage/src/DPbetabinom.f | 6
DPpackage-1.0-8/DPpackage/src/DPbinaryc.f | 6
DPpackage-1.0-8/DPpackage/src/DPbinaryl.f | 6
DPpackage-1.0-8/DPpackage/src/DPbinaryp.f | 6
DPpackage-1.0-8/DPpackage/src/DPbivdensityg.f | 107 +
DPpackage-1.0-8/DPpackage/src/DPbivdensityn.f | 103 +
DPpackage-1.0-8/DPpackage/src/DPdensityg.f | 163 +-
DPpackage-1.0-8/DPpackage/src/DPdensityn.f | 105 +
DPpackage-1.0-8/DPpackage/src/DPdensityreg.f | 6
DPpackage-1.0-8/DPpackage/src/DPglmmgam.f | 6
DPpackage-1.0-8/DPpackage/src/DPglmmlogit.f | 6
DPpackage-1.0-8/DPpackage/src/DPglmmlogita.f | 22
DPpackage-1.0-8/DPpackage/src/DPglmmpois.f | 6
DPpackage-1.0-8/DPpackage/src/DPglmmprob.f | 6
DPpackage-1.0-8/DPpackage/src/DPlmm.f | 6
DPpackage-1.0-8/DPpackage/src/DPmeta.f | 6
DPpackage-1.0-8/DPpackage/src/DPmultmeta.f | 6
DPpackage-1.0-8/DPpackage/src/DPolmmp.f | 21
DPpackage-1.0-8/DPpackage/src/DPrasch.f | 789 ++++++-----
DPpackage-1.0-8/DPpackage/src/DPraschpoisson.f | 599 ++++----
DPpackage-1.0-8/DPpackage/src/DPsurvint.f | 6
DPpackage-1.0-8/DPpackage/src/FPTbinaryl.f | 6
DPpackage-1.0-8/DPpackage/src/HDPMcdensity.f |only
DPpackage-1.0-8/DPpackage/src/HDPMdensity.f |only
DPpackage-1.0-8/DPpackage/src/LDDPdensity.f | 60
DPpackage-1.0-8/DPpackage/src/LDDPrasch.f |only
DPpackage-1.0-8/DPpackage/src/LDDPraschpoisson.f |only
DPpackage-1.0-8/DPpackage/src/LDDPsurvival.f | 70 -
DPpackage-1.0-8/DPpackage/src/PSgamgam.f | 6
DPpackage-1.0-8/DPpackage/src/PSgamgauss.f | 6
DPpackage-1.0-8/DPpackage/src/PSgamlogit.f | 22
DPpackage-1.0-8/DPpackage/src/PSgampois.f | 6
DPpackage-1.0-8/DPpackage/src/PSgamprob.f | 6
DPpackage-1.0-8/DPpackage/src/PTglmmgam.f | 6
DPpackage-1.0-8/DPpackage/src/PTglmmlogit.f | 6
DPpackage-1.0-8/DPpackage/src/PTglmmpois.f | 6
DPpackage-1.0-8/DPpackage/src/PTglmmprob.f | 6
DPpackage-1.0-8/DPpackage/src/PTlm.f | 6
DPpackage-1.0-8/DPpackage/src/PTlmm.f | 6
DPpackage-1.0-8/DPpackage/src/PTlmp.f | 6
DPpackage-1.0-8/DPpackage/src/PTmdensity.f | 9
DPpackage-1.0-8/DPpackage/src/PTmdensityp.f | 9
DPpackage-1.0-8/DPpackage/src/PTmeta.f | 6
DPpackage-1.0-8/DPpackage/src/PTolmmp.f | 20
DPpackage-1.0-8/DPpackage/src/PTrasch.f |only
DPpackage-1.0-8/DPpackage/src/PTraschpoisson.f |only
DPpackage-1.0-8/DPpackage/src/PTsurv.f | 7
DPpackage-1.0-8/DPpackage/src/PTudensity.f | 6
DPpackage-1.0-8/DPpackage/src/PTudensityp.f | 6
DPpackage-1.0-8/DPpackage/src/Pbinary.f | 6
DPpackage-1.0-8/DPpackage/src/Plm.f | 20
DPpackage-1.0-8/DPpackage/src/TDPdensity.f | 6
DPpackage-1.0-8/DPpackage/src/TDPdensitypl.f | 6
DPpackage-1.0-8/DPpackage/src/ToolsARS.f | 6
DPpackage-1.0-8/DPpackage/src/ToolsBDP.f | 6
DPpackage-1.0-8/DPpackage/src/ToolsDP.f | 6
DPpackage-1.0-8/DPpackage/src/ToolsDistributions.f | 6
DPpackage-1.0-8/DPpackage/src/ToolsHMM.f | 6
DPpackage-1.0-8/DPpackage/src/ToolsMatrix.f | 6
DPpackage-1.0-8/DPpackage/src/ToolsPT.f | 6
DPpackage-1.0-8/DPpackage/src/ToolsPolynomials.f | 6
DPpackage-1.0-8/DPpackage/src/ToolsRfun.c | 4
DPpackage-1.0-8/DPpackage/src/ToolsRnumbers.f | 6
DPpackage-1.0-8/DPpackage/src/ToolsSB.f | 76 +
DPpackage-1.0-8/DPpackage/src/ToolsSlice.f | 6
DPpackage-1.0-8/DPpackage/src/ToolsSparseMatrix.f | 6
DPpackage-1.0-8/DPpackage/src/ToolsSplines.f | 6
DPpackage-1.0-8/DPpackage/src/ToolsSweep.f | 7
DPpackage-1.0-8/DPpackage/src/ToolsTDP.f | 7
167 files changed, 7053 insertions(+), 6354 deletions(-)
Author: Compiled by Kjetil Halvorsen
Title: Functions and Datasets for the book "Bayesian Data Analysis"
Description: Functions for Bayesian Data Analysis, with datasets from
the book "Bayesian data Analysis (second edition)" by Gelman,
Carlin, Stern and Rubin. Not all datasets yet, hopefully
completed soon.
Diff between BayesDA versions 1.0-0 dated 2009-01-30 and 1.0-1 dated 2009-10-20
DESCRIPTION | 30 ++++++++++++++++-------------- 1 file changed, 16 insertions(+), 14 deletions(-)
Author: Roger Bivand
Diff between spdep versions 0.4-49 dated 2009-10-13 and 0.4-50 dated 2009-10-19
Title: Spatial dependence: weighting schemes, statistics and models
Description: A collection of functions to create spatial weights matrix
objects from polygon contiguities, from point patterns by
distance and tesselations, for summarising these objects, and
for permitting their use in spatial data analysis, including
regional aggregation by minimum spanning tree; a collection of
tests for spatial autocorrelation, including global Moran's I,
APLE, Geary's C, Hubert/Mantel general cross product statistic,
Empirical Bayes estimates and Assunção/Reis Index, Getis/Ord G
and multicoloured join count statistics, local Moran's I and
Getis/Ord G, saddlepoint approximations and exact tests for
global and local Moran's I; and functions for estimating
spatial simultaneous autoregressive (SAR) lag and error models,
impact measures for lag models, weighted and unweighted SAR and
CAR spatial regression models, semi-parametric and Moran
eigenvector spatial filtering, GM SAR error models, and
generalized spatial two stage least squares models.
ChangeLog | 507 +++++++++++++++++++++++----------------------------
DESCRIPTION | 8
R/error.hessian.R | 48 ++--
R/error.spsarlm.R | 29 ++
R/nb2mat.R | 2
R/summary.spsarlm.R | 9
inst/ChangeLog | 507 +++++++++++++++++++++++----------------------------
inst/doc/CO69.pdf |binary
inst/doc/sids.pdf |binary
man/summary.sarlm.Rd | 6
10 files changed, 528 insertions(+), 588 deletions(-)
Author: Søren Højsgaard
Diff between doBy versions 4.0.3 dated 2009-10-18 and 4.0.4 dated 2009-10-19
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 | 6 +
DESCRIPTION | 10 +-
NAMESPACE | 1
R/esticon.R | 125 ++++++++++++++++++++++++++++++---
inst/doc/doBy.pdf | 201 +++++++++++++++++++++++++++---------------------------
5 files changed, 230 insertions(+), 113 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 0.13 dated 2009-09-10 and 0.14 dated 2009-10-19
DESCRIPTION | 8 inst/doc/Rplots.pdf | 4 inst/doc/SimExperimentBICq.Rnw | 2 inst/doc/SimExperimentBICq.pdf | 334 ++++++++++++++++++++--------------------- inst/doc/bestglm.pdf | 36 ++-- man/bestglm-package.Rd | 4 6 files changed, 198 insertions(+), 190 deletions(-)
Author: Augustin Luna
Diff between snp.plotter versions 0.2 dated 2007-01-21 and 0.3 dated 2009-10-19
Title: snp.plotter
Description: Creates plots of p-values using single SNP and/or
haplotype data. Main features of the package include options to
display a linkage disequilibrium (LD) plot and the ability to
plot multiple datasets simultaneously. Plots can be created
using global and/or individual haplotype p-values along with
single SNP p-values. Images are created as either PDF/EPS
files.
DESCRIPTION | 31 ++++++++++++++++++++-----------
R/snp.plotter.R | 38 +++++++++++++++++++++++++++++++-------
man/snp.plotter.Rd | 12 +++++++++---
3 files changed, 60 insertions(+), 21 deletions(-)
Author: Ulrike Groemping, with contributions from Matthias Lehrkamp
Title: Relative importance of regressors in linear models
Description: relaimpo provides several metrics for assessing relative
importance in linear models. These can be printed, plotted and
bootstrapped. The recommended metric is lmg, which provides a
decomposition of the model explained variance into non-negative
contributions. There is a version of this package available
that additionally provides a new and also recommended metric
called pmvd. If you are a non-US user, you can download this
extended version from Ulrike Groempings web site.
Diff between relaimpo versions 2.1-2 dated 2009-05-17 and 2.1-4 dated 2009-10-19
DESCRIPTION | 8 ++++---- inst/CITATION | 5 +++-- inst/NEWS | 10 ++++++++++ man/mianalyze.relimp.Rd | 2 +- man/relimplm-class.Rd | 4 +++- man/relimplmboot-class.Rd | 4 ++++ 6 files changed, 25 insertions(+), 8 deletions(-)
Author: Frederic Ibanez
Diff between pastecs versions 1.3-8 dated 2009-02-23 and 1.3-10 dated 2009-10-19
Title: Package for Analysis of Space-Time Ecological Series
Description: Regulation, decomposition and analysis of space-time
series. The pastecs library is a PNEC-Art4 and IFREMER (Benoit
Beliaeff
pastecs-1.3-10/pastecs/DESCRIPTION | 21 ++++++++++++-----
pastecs-1.3-10/pastecs/R/AutoD2.R | 8 +++---
pastecs-1.3-10/pastecs/R/CenterD2.R | 2 -
pastecs-1.3-10/pastecs/R/CrossD2.R | 10 ++++----
pastecs-1.3-10/pastecs/R/buysbal.R | 6 ++---
pastecs-1.3-10/pastecs/R/daystoyears.R | 2 -
pastecs-1.3-10/pastecs/R/decaverage.R | 10 ++++----
pastecs-1.3-10/pastecs/R/deccensus.R | 34 ++++++++++++++---------------
pastecs-1.3-10/pastecs/R/decdiff.R | 10 ++++----
pastecs-1.3-10/pastecs/R/decevf.R | 7 ++---
pastecs-1.3-10/pastecs/R/decloess.R | 10 ++++----
pastecs-1.3-10/pastecs/R/decmedian.R | 10 ++++----
pastecs-1.3-10/pastecs/R/decreg.R | 10 ++++----
pastecs-1.3-10/pastecs/R/disto.R | 2 -
pastecs-1.3-10/pastecs/R/escouf.R | 4 +--
pastecs-1.3-10/pastecs/R/extract.regul.R | 3 --
pastecs-1.3-10/pastecs/R/extract.tsd.R | 2 -
pastecs-1.3-10/pastecs/R/pgleissberg.R | 6 ++---
pastecs-1.3-10/pastecs/R/plot.escouf.R | 2 -
pastecs-1.3-10/pastecs/R/plot.tsd.R | 12 +++++-----
pastecs-1.3-10/pastecs/R/regarea.R | 14 +++++------
pastecs-1.3-10/pastecs/R/regconst.R | 4 +--
pastecs-1.3-10/pastecs/R/reglin.R | 4 +--
pastecs-1.3-10/pastecs/R/regspline.R | 6 ++---
pastecs-1.3-10/pastecs/R/regul.R | 12 +++++-----
pastecs-1.3-10/pastecs/R/stat.desc.R | 2 -
pastecs-1.3-10/pastecs/R/stat.pen.R | 4 +--
pastecs-1.3-10/pastecs/R/stat.slide.R | 12 +++++-----
pastecs-1.3-10/pastecs/R/trend.test.R | 4 +--
pastecs-1.3-10/pastecs/R/tsd.R | 8 +++---
pastecs-1.3-10/pastecs/R/tseries.R | 2 +
pastecs-1.3-10/pastecs/R/turnogram.R | 10 ++++----
pastecs-1.3-10/pastecs/R/turnpoints.R | 14 +++++------
pastecs-1.3-10/pastecs/R/vario.R | 2 -
pastecs-1.3-10/pastecs/man/AutoD2.Rd | 4 +--
pastecs-1.3-10/pastecs/man/abund.Rd | 2 -
pastecs-1.3-10/pastecs/man/daystoyears.Rd | 2 -
pastecs-1.3-10/pastecs/man/decdiff.Rd | 2 -
pastecs-1.3-10/pastecs/man/decevf.Rd | 2 -
pastecs-1.3-10/pastecs/man/decloess.Rd | 2 -
pastecs-1.3-10/pastecs/man/decreg.Rd | 2 -
pastecs-1.3-10/pastecs/man/disto.Rd | 2 -
pastecs-1.3-10/pastecs/man/escouf.Rd | 6 ++---
pastecs-1.3-10/pastecs/man/local.trend.Rd | 8 +++---
pastecs-1.3-10/pastecs/man/pennington.Rd | 6 ++---
pastecs-1.3-10/pastecs/man/pgleissberg.Rd | 2 -
pastecs-1.3-10/pastecs/man/regarea.Rd | 4 +--
pastecs-1.3-10/pastecs/man/regconst.Rd | 5 ++--
pastecs-1.3-10/pastecs/man/reglin.Rd | 2 -
pastecs-1.3-10/pastecs/man/regspline.Rd | 2 -
pastecs-1.3-10/pastecs/man/regul.Rd | 6 ++---
pastecs-1.3-10/pastecs/man/regul.adj.Rd | 2 -
pastecs-1.3-10/pastecs/man/regul.screen.Rd | 2 -
pastecs-1.3-10/pastecs/man/releve.Rd | 2 -
pastecs-1.3-10/pastecs/man/specs.Rd | 2 -
pastecs-1.3-10/pastecs/man/stat.pen.Rd | 2 -
pastecs-1.3-10/pastecs/man/trend.test.Rd | 8 +++---
pastecs-1.3-10/pastecs/man/tsd.Rd | 4 +--
pastecs-1.3-10/pastecs/man/turnogram.Rd | 6 ++---
pastecs-1.3-10/pastecs/man/turnpoints.Rd | 6 ++---
pastecs-1.3-10/pastecs/man/vario.Rd | 2 -
pastecs-1.3-8/pastecs/COPYING |only
62 files changed, 187 insertions(+), 177 deletions(-)
Author: Matthias Gamer
Diff between irr versions 0.70 dated 2007-06-16 and 0.80 dated 2009-10-19
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 | 3 ++
DESCRIPTION | 31 +++++++++++++-------------
INDEX | 1
R/N.cohen.kappa.R | 60 ++++++++++++++++++++++++++-------------------------
R/relInterIntra.R |only
man/N.cohen.kappa.Rd | 3 +-
man/agree.Rd | 4 +--
man/finn.Rd | 6 ++---
man/icc.Rd | 16 ++++++-------
man/iota.Rd | 8 +++---
man/kappa2.Rd | 14 +++++------
man/kappam.fleiss.Rd | 12 +++++-----
man/kappam.light.Rd | 8 +++---
man/kendall.Rd | 8 +++---
man/meancor.Rd | 10 ++++----
man/meanrho.Rd | 10 ++++----
man/print.icclist.Rd | 2 -
man/print.irrlist.Rd | 2 -
man/rater.bias.Rd | 4 +--
man/relInterIntra.Rd |only
20 files changed, 105 insertions(+), 97 deletions(-)
Author: Evgenia Dimitriadou, Kurt Hornik, Friedrich Leisch, David
Meyer, and Andreas Weingessel
Title: Misc Functions of the Department of Statistics (e1071), TU Wien
Description: Functions for latent class analysis, short time Fourier
transform, fuzzy clustering, support vector machines, shortest
path computation, bagged clustering, naive Bayes classifier,
...
Diff between e1071 versions 1.5-19 dated 2009-01-06 and 1.5-20 dated 2009-10-19
DESCRIPTION | 21 ++-- NEWS | 5 + R/naiveBayes.R | 214 ++++++++++++++++++++++++------------------------ inst/NEWS | 5 + inst/doc/svmdoc.Rnw | 1 inst/doc/svmdoc.pdf |binary man/Discrete.Rd | 2 man/bootstrap.lca.Rd | 4 man/classAgreement.Rd | 2 man/cmeans.Rd | 2 man/fclustIndex.Rd | 3 man/kurtosis.Rd | 2 man/matchClasses.Rd | 2 man/naiveBayes.Rd | 6 - man/plot.tune.Rd | 2 man/probplot.Rd | 4 man/rectangle.window.Rd | 2 man/svm.Rd | 6 - man/tune.Rd | 4 man/write.svm.Rd | 2 20 files changed, 154 insertions(+), 135 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 1.0.2 dated 2009-10-13 and 1.1.0 dated 2009-10-19
DESCRIPTION | 8 R/crossplot.R | 107 R/crosspred.R | 34 inst/ChangeLog | 19 inst/doc/Rplots.pdf | 1420 +++---- inst/doc/biblio.bib | 442 ++ inst/doc/dlnmOverview.Rnw | 182 - inst/doc/dlnmOverview.pdf | 8211 ++++++++++++++++++++++------------------------ man/crossbasis.Rd | 4 man/crossplot.Rd | 17 man/crosspred.Rd | 11 man/dlnm-package.Rd | 2 12 files changed, 5450 insertions(+), 5007 deletions(-)
Author: Henrik Bengtsson
Diff between R.oo versions 1.5.0 dated 2009-09-10 and 1.6.2 dated 2009-10-19
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 | 4 ++--
R/BasicObject.R | 4 ++--
R/Interface.R |only
R/Package.R | 11 +++++++++--
R/hashCode.R | 2 +-
inst/NEWS | 13 +++++++++++++
man/Interface.Rd |only
man/as.character.Interface.Rd |only
man/attach.BasicObject.Rd | 2 +-
man/attach.Object.Rd | 2 +-
man/detach.BasicObject.Rd | 2 +-
man/detach.Object.Rd | 2 +-
man/extend.Interface.Rd |only
man/getFields.Interface.Rd |only
man/hashCode.Rd | 4 ++--
man/print.Interface.Rd |only
man/uses.Interface.Rd |only
18 files changed, 39 insertions(+), 17 deletions(-)
Author: Jouni Helske
Diff between KFAS versions 0.4.4 dated 2009-10-01 and 0.4.5 dated 2009-10-19
Title: Multivariate Kalman filter and smoother, simulation smoother and
forecasting of gaussian state space models. Approximate
likelihood of linear non-gaussian state space models.
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. KFAS also contains function which computes approximate
likelihood of linear non-gaussian state space model.
DESCRIPTION | 18 +++++-----
NAMESPACE | 2 -
R/KFAS.R | 91 ++++++++++++++++++++++++++++++++++++++++++++++++++++
man/expflik.Rd |only
src/distsmooth.f90 | 8 ++--
src/expf.f90 |only
src/ks.f90 | 82 ++++++++++++++++++++++++++++++++--------------
src/simsmoother.f90 | 4 --
8 files changed, 163 insertions(+), 42 deletions(-)
Author: David Luethi, Philipp Erb, Simon Otziger
Title: Fast Kalman Filter
Description: This is a fast and flexible implementation of the Kalman
filter, which can deal with NAs. It is entirely written in C
and relies fully on linear algebra subroutines contained in
BLAS and LAPACK. Due to the speed of the filter, the fitting of
high-dimensional linear state space models to large datasets
becomes possible. This package also contains a plot function
for the visualization of the state vector and graphical
diagnostics of the residuals.
Diff between FKF versions 0.0.2 dated 2009-07-18 and 0.1.0 dated 2009-10-19
ChangeLog | 25 + DESCRIPTION | 29 - Fixme | 2 R/fkf.r | 8 man/fkf.Rd | 146 +++++--- man/plot.fkf.Rd | 10 src/fkflib.c | 920 +++++++++++++++++++++++++++++++++++++++++--------------- 7 files changed, 807 insertions(+), 333 deletions(-)
Author: J L Marchini
Diff between AnalyzeFMRI versions 1.1-10 dated 2008-02-28 and 1.1-11 dated 2009-10-19
Title: Functions for analysis of fMRI datasets stored in the ANALYZE or
NIFTI format.
Description: Functions for I/O, visualisation and analysis of
functional Magnetic Resonance Imaging (fMRI) datasets stored in
the ANALYZE or NIFTI format.
DESCRIPTION | 24
INDEX | 52
R/analyzeFMRI.R | 44
R/niftiFMRI.R | 1728 +++++++++++++++++++++++++++++++-
inst/HISTORY | 32
inst/ICAst.gui.R |only
inst/example.mat |only
inst/plot.volume.gui.R |only
man/EC.3D.Rd | 9
man/ICAspat.Rd |only
man/ICAtemp.Rd |only
man/N2G.Class.Probability.Rd | 9
man/Q2R.Rd |only
man/R2Q.Rd |only
man/analyze2nifti.Rd |only
man/centering.Rd |only
man/diminfo2fps.Rd |only
man/eigenvalues.Rd |only
man/f.complete.hdr.nifti.list.create.Rd |only
man/f.icast.fmri.Rd |only
man/f.icast.fmri.gui.Rd |only
man/f.plot.volume.gui.Rd |only
man/f.read.nifti.header.Rd | 158 ++
man/f.read.nifti.volume.Rd | 8
man/f.read.volume.Rd |only
man/f.write.list.to.hdr.Rd | 2
man/f.write.nifti.Rd | 2
man/fourDto2D.Rd |only
man/fps2diminfo.Rd |only
man/ijk2xyz.Rd |only
man/magicfield.Rd |only
man/mat34.to.TRSZ.Rd |only
man/mat34.to.TZSR.Rd |only
man/nifti.quatern.to.mat44.Rd |only
man/reduction.Rd |only
man/st2xyzt.Rd |only
man/threeDto4D.Rd |only
man/twoDto4D.Rd |only
man/xyz2ijk.Rd |only
man/xyzt2st.Rd |only
niftidoc |only
src/niftiFMRI.c | 24
src/sblas.unused | 15
src/slamc.f | 1
src/slamc.unused | 1
src/slapack.unused | 27
46 files changed, 2014 insertions(+), 122 deletions(-)
Author: Roger Koenker
Diff between quantreg versions 4.38 dated 2009-08-04 and 4.43 dated 2009-10-19
Title: Quantile Regression
Description: Quantile regression and related methods.
quantreg-4.38/quantreg/man/plot.Rd |only
quantreg-4.38/quantreg/man/rrs.test.Rd |only
quantreg-4.43/quantreg/DESCRIPTION | 8
quantreg-4.43/quantreg/R/anova.R | 58 -
quantreg-4.43/quantreg/R/crq.R | 6
quantreg-4.43/quantreg/R/nlrq.R | 4
quantreg-4.43/quantreg/R/quantreg.R | 117 +-
quantreg-4.43/quantreg/R/rqss.R | 276 ++++-
quantreg-4.43/quantreg/R/tools.R | 20
quantreg-4.43/quantreg/demo/00Index | 2
quantreg-4.43/quantreg/demo/Frank.R | 2
quantreg-4.43/quantreg/demo/Mel.R |only
quantreg-4.43/quantreg/demo/combos.R |only
quantreg-4.43/quantreg/inst/ChangeLog | 43
quantreg-4.43/quantreg/inst/doc/Rplots.pdf | 1560 ++++++++++++++---------------
quantreg-4.43/quantreg/inst/doc/rq.pdf |binary
quantreg-4.43/quantreg/inst/doc/rqss.pdf |only
quantreg-4.43/quantreg/man/FAQ.Rd | 27
quantreg-4.43/quantreg/man/Peirce.Rd | 7
quantreg-4.43/quantreg/man/anova.rq.Rd | 8
quantreg-4.43/quantreg/man/combos.Rd | 8
quantreg-4.43/quantreg/man/critval.Rd |only
quantreg-4.43/quantreg/man/crq.Rd | 3
quantreg-4.43/quantreg/man/kuantile.Rd | 2
quantreg-4.43/quantreg/man/latex.Rd | 2
quantreg-4.43/quantreg/man/plot.rqss.Rd |only
quantreg-4.43/quantreg/man/rq.fit.br.Rd | 2
quantreg-4.43/quantreg/man/rq.object.Rd | 3
quantreg-4.43/quantreg/man/rqss.Rd | 13
quantreg-4.43/quantreg/man/rqss.object.Rd | 4
quantreg-4.43/quantreg/man/summary.rqss.Rd |only
31 files changed, 1266 insertions(+), 909 deletions(-)
Author: Max Kuhn, contributions from Steve Weston, Jed Wing and James
Forester
Title: A collection of contrast methods
Description: Contrast methods, in the style of the Design package, for
fit objects produced by the lm, glm, gls, and geese functions.
Diff between contrast versions 0.10 dated 2009-07-18 and 0.12 dated 2009-10-19
DESCRIPTION | 10 +- R/contrast.lm.R | 205 +++++++++++++++++++++++++------------------------- inst/CHANGES | 12 ++ inst/doc/contrast.Rnw | 88 +++++---------------- inst/doc/contrast.pdf |binary man/contrast.Rd | 2 6 files changed, 146 insertions(+), 171 deletions(-)
Author: Henrik Bengtsson
Diff between aroma.apd versions 0.1.6 dated 2009-06-14 and 0.1.7 dated 2009-10-19
Title: A probe-level data file format used by aroma.affymetrix
[DEPRECATED]
Description: THIS PACKAGE HAS BEEN DEPRECATED. (The (in-house) APD file
format was initially developed to store Affymetrix probe-level
data, e.g. normalized CEL intensites. Chip types can be added
to APD file and similar to methods in the affxparser package,
this package provides methods to read APDs organized by units
(probesets). In addition, the probe elements can be arranged
optimally such that the elements are guaranteed to be read in
order when, for instance, data is read unit by unit. This
speed up the read substantially. This package is supporting
the aroma.affymetrix package and not intended to be used
elsewhere.)
DESCRIPTION | 13 ++++++++-----
R/hide |only
R/readApd.R | 2 +-
R/readApdMap.R | 2 +-
R/updateApdUnits.R | 2 +-
inst/NEWS | 4 ++++
man/readApd.Rd | 2 +-
man/readApdMap.Rd | 2 +-
man/updateApdUnits.Rd | 2 +-
9 files changed, 18 insertions(+), 11 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 0.5-6 dated 2009-10-18 and 0.6 dated 2009-10-19
DESCRIPTION | 8 ++++---- R/Menu.FrF2level.R | 7 ++++++- R/Menu.addcenter.R | 11 +++++++---- R/Menu.addresponse.R | 3 ++- R/Menu.aggregate.R | 15 +++++++++------ R/Menu.augmentlhs.R | 14 +++++++------- R/Menu.bbd.r | 12 ++++++------ R/Menu.ccd.r | 14 +++++++------- R/Menu.export.R | 1 + R/Menu.fac.R | 12 ++++++------ R/Menu.importrdacsv.R | 9 ++++++--- R/Menu.lhs.R | 12 ++++++------ R/Menu.linearModelDesign.R | 11 +++++++++-- R/Menu.oa.R | 12 ++++++------ R/Menu.param.R | 5 +++-- R/Menu.pb2level.R | 12 ++++++------ R/Menu.summarize.R | 6 +++++- R/Menu.wide.R | 6 ++++-- R/justDoItDoE.R | 3 ++- inst/NEWS | 18 ++++++++++++++++++ inst/etc/menus.txt | 2 +- 21 files changed, 121 insertions(+), 72 deletions(-)
More information about RcmdrPlugin.DoE at CRAN
Permanent link
Author: Rob J Hyndman
Diff between Mcomp versions 2.00 dated 2009-09-07 and 2.01 dated 2009-10-19
Title: Data from the M-competitions
Description: The 1001 time series from the M-competition (Makridakis et
al. 1982) and the 3003 time series from the IJF-M3 competition
(Makridakis and Hibon, 2000).
ChangeLog | 4 ++++
DESCRIPTION | 8 ++++----
R/Mdata.R | 9 ++++++++-
R/x111.R |only
man/M1.Rd | 4 ++--
man/Mcomp-package.Rd | 4 ++--
man/subset.Mcomp.Rd | 3 +++
7 files changed, 23 insertions(+), 9 deletions(-)
Author: David Meyer, Achim Zeileis, Kurt Hornik
Title: Visualizing Categorical Data
Description: Visualization techniques, data sets, summary and inference
procedures aimed particularly at categorical data. Special
emphasis is given to highly extensible grid graphics. The
package was inspired by the book "Visualizing Categorical Data"
by Michael Friendly.
Diff between vcd versions 1.2-6 dated 2009-10-13 and 1.2-7 dated 2009-10-18
DESCRIPTION | 8 ++++---- NEWS | 18 +++++++++++++++--- R/goodfit.R | 29 +++++++++++++++++------------ inst/NEWS | 18 +++++++++++++++--- inst/doc/residual-shadings.pdf | 26 +++++++++++++------------- inst/doc/strucplot.pdf |binary 6 files changed, 64 insertions(+), 35 deletions(-)
Author: Paul Gilbert and Erik Meijer
Diff between tsfa versions 2009.02-1 dated 2009-02-10 and 2009.10-1 dated 2009-10-18
Title: Time Series Factor Analysis
Description: Extraction of Factors from Multivariate Time Series. See
?00tsfa-Intro for more details.
tsfa-2009.02-1/tsfa/Rplots.pdf |only
tsfa-2009.10-1/tsfa/DESCRIPTION | 17 +++-
tsfa-2009.10-1/tsfa/NAMESPACE | 8 +-
tsfa-2009.10-1/tsfa/NEWS | 103 +++++++++++++++---------------
tsfa-2009.10-1/tsfa/inst/doc/tsfa.pdf |binary
tsfa-2009.10-1/tsfa/man/TSFmodel.Rd | 2
tsfa-2009.10-1/tsfa/man/checkResiduals.Rd | 4 -
tsfa-2009.10-1/tsfa/man/distribution.Rd | 6 -
tsfa-2009.10-1/tsfa/man/explained.Rd | 2
tsfa-2009.10-1/tsfa/man/simulate.Rd | 14 ++--
tsfa-2009.10-1/tsfa/man/summaryStats.Rd | 2
tsfa-2009.10-1/tsfa/man/tsfa-package.Rd | 5 -
tsfa-2009.10-1/tsfa/tests/MCestTSF_ML.R | 4 -
tsfa-2009.10-1/tsfa/tests/TruePar.R | 4 -
tsfa-2009.10-1/tsfa/tests/estTSF_ML.R | 4 -
tsfa-2009.10-1/tsfa/tests/estTSF_QML.R | 4 -
16 files changed, 93 insertions(+), 86 deletions(-)
Author: Paul Gilbert
Diff between tframePlus versions 2009.02-1 dated 2009-02-03 and 2009.10-1 dated 2009-10-18
Title: Time Frame coding kernel extensions
Description: Extensions and additional tframe utilities.
DESCRIPTION | 14
NAMESPACE | 9
NEWS | 55 +
R/utils.R | 98 +++
R/zoo.R | 20
Rplots.pdf | 1478 ++++++++++++++++++++++++------------------------
inst/doc/tframePlus.pdf |binary
man/TSwriteXLS.Rd |only
man/as.quarterly.Rd | 56 +
man/its.Rd | 12
man/rollAggregate.Rd |only
man/tfI.Rd | 2
man/tfpersp.Rd | 2
man/zoo.Rd | 13
test.xls |only
tests/TSwriteXLS.R |only
16 files changed, 976 insertions(+), 783 deletions(-)
Author: Paul Gilbert
Diff between tframe versions 2009.2-1 dated 2009-02-03 and 2009.10-1 dated 2009-10-18
Title: Time Frame coding kernel
Description: Functions for writing code that is independent of the way
time is represented. See ?tframe.Intro for more details.
DESCRIPTION | 15 ++++---
NEWS | 99 ++++++++++++++++++++++++----------------------------
R/tframe.R | 11 +++--
inst/doc/tframe.pdf |binary
man/seriesNames.Rd | 4 +-
man/tfL.Rd | 2 -
man/tfstart.Rd | 10 ++---
7 files changed, 70 insertions(+), 71 deletions(-)
Author: Robert Ferstl, Josef Hayden
Title: Zero-coupon Yield Curve Estimation
Description: Zero-coupon yield curves and spread curves are important
inputs for various financial models, e.g. pricing of
securities, risk management, monetary policy issues. Since
zero-coupon rates are rarely directly observable, they have to
be estimated from market data. The literature broadly
distinguishes between parametric and spline-based estimation
methods for the zero-coupon yield curve. Our package consists
of several widely-used approaches, i.e. the parametric Nelson
and Siegel (1987) method with the Svensson (1994) extension,
and the McCulloch (1975) cubic splines approach. Extensive
summary statistics and plots are provided to compare the
results of the different estimation methods.
Diff between termstrc versions 1.1 dated 2008-02-21 and 1.1.1 dated 2009-10-18
DESCRIPTION | 37 +- R/methods.R | 82 ++-- R/nelson.R | 26 - R/splines.R | 41 +- R/tools.R | 671 +++++++++++++++++++------------------- man/aabse.Rd | 2 man/bond_prices.Rd | 2 man/bond_yields.Rd | 6 man/corpbonds.Rd | 10 man/create_cashflows_matrix.Rd | 5 man/create_maturities_matrix.Rd | 8 man/duration.Rd | 2 man/eurobonds.Rd | 6 man/forwardrates.Rd | 6 man/fwr_ns.Rd | 1 man/fwr_sv.Rd | 3 man/gi.Rd | 2 man/govbonds.Rd | 6 man/impl_fwr.Rd | 1 man/loss_function.Rd | 6 man/maturity_range.Rd | 2 man/nelson_estim.Rd | 274 +++++++-------- man/nelson_siegel.Rd | 2 man/plot.cubicsplines.Rd | 33 - man/plot.df_curves.Rd | 29 - man/plot.error.Rd | 20 - man/plot.fwr_curves.Rd | 29 - man/plot.ir_curve.Rd | 21 - man/plot.nelson.Rd | 34 - man/plot.s_curves.Rd | 26 - man/plot.spot_curves.Rd | 29 - man/print.cubicsplines.Rd | 10 man/print.nelson.Rd | 9 man/print.summary.cubicsplines.Rd | 8 man/print.summary.nelson.Rd | 8 man/rm_bond.Rd | 2 man/rmse.Rd | 4 man/splines_estim.Rd | 73 +--- man/spotrates.Rd | 3 man/summary.cubicsplines.Rd | 10 man/summary.nelson.Rd | 11 man/svensson.Rd | 2 42 files changed, 793 insertions(+), 769 deletions(-)
Author: William Constantine, Tim Hesterberg, Knut Wittkowski, Tingting
Song
Title: S-PLUS functionality missing from R
Description: Currently there are many functions in S-PLUS that are
missing in R. To facilitate the conversion of S-PLUS packages
to R packages, this package provides some missing S-PLUS
functionality in R.
Diff between splus2R versions 1.0-5 dated 2008-07-28 and 1.0-6 dated 2009-10-18
splus2R-1.0-5/splus2R/R/Swrappers.R |only splus2R-1.0-6/splus2R/DESCRIPTION | 24 +++++++++++---------- splus2R-1.0-6/splus2R/R/aaaSwrappers.R |only splus2R-1.0-6/splus2R/R/doTest.R | 4 +++ splus2R-1.0-6/splus2R/R/showStructure.R | 36 +++++++++++++++++++------------- splus2R-1.0-6/splus2R/man/ifelse1.Rd | 4 +-- splus2R-1.0-6/splus2R/man/nDotArgs.Rd | 2 - 7 files changed, 42 insertions(+), 28 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 2.0-5 dated 2009-09-18 and 2.0-6 dated 2009-10-18
seqinr |only 1 file changed
Author: Kurt Hornik, with contributions from Walter Boehm
Title: Cluster ensembles
Description: CLUster Ensembles
Diff between clue versions 0.3-31 dated 2009-09-10 and 0.3-32 dated 2009-10-18
DESCRIPTION | 8 +++---- R/pclust.R | 1 inst/doc/clue.pdf |binary man/addtree.Rd | 7 +++--- man/cl_consensus.Rd | 34 +++++++++++++++++--------------- man/fit_ultrametric_target.Rd | 6 ++--- man/l1_fit_ultrametric.Rd | 11 +++++----- man/ls_fit_sum_of_ultrametrics.Rd | 4 +-- man/ls_fit_ultrametric.Rd | 40 +++++++++++++++++++------------------- man/solve_LSAP.Rd | 7 ++++-- man/sumt.Rd | 2 - 11 files changed, 65 insertions(+), 55 deletions(-)
Author: Kurt Hornik, with contributions from Christian Buchta, Torsten
Hothorn, Alexandros Karatzoglou, David Meyer, and Achim Zeileis
Title: R/Weka interface
Description: An R interface to Weka (Version 3.6.1). Weka is a
collection of machine learning algorithms for data mining tasks
written in Java, containing tools for data pre-processing,
classification, regression, clustering, association rules, and
visualization. Both the R interface and Weka itself are
contained in the RWeka package. For more information on Weka
see http://www.cs.waikato.ac.nz/~ml/weka/.
Diff between RWeka versions 0.3-21 dated 2009-08-31 and 0.3-22 dated 2009-10-18
CHANGELOG | 4 ++++ DESCRIPTION | 8 ++++---- R/associators.R | 4 ++-- R/classifiers.R | 12 ++++++------ R/clusterers.R | 4 ++-- R/control.R | 2 +- R/readers.R | 4 ++-- R/techinfo.R | 6 +++--- R/utils.R | 10 +++++++--- R/wow.R | 4 ++-- man/WOW.Rd | 8 ++++---- man/Weka_classifier_functions.Rd | 4 ++-- man/Weka_classifier_lazy.Rd | 2 +- man/Weka_classifier_meta.Rd | 2 +- man/Weka_classifier_rules.Rd | 2 +- man/Weka_classifier_trees.Rd | 6 +++--- man/Weka_classifiers.Rd | 10 +++++----- man/Weka_converters.Rd | 6 +++--- man/Weka_filters.Rd | 8 ++++---- man/Weka_interfaces.Rd | 2 +- man/dot.Rd | 2 +- man/read.arff.Rd | 12 +++++++----- man/write.arff.Rd | 3 ++- 23 files changed, 68 insertions(+), 57 deletions(-)
Author: Fortran original by Leo Breiman and Adele Cutler, R port by
Andy Liaw and Matthew Wiener.
Title: Breiman and Cutler's random forests for classification and
regression
Description: Classification and regression based on a forest of trees
using random inputs.
Diff between randomForest versions 4.5-32 dated 2009-10-16 and 4.5-33 dated 2009-10-18
DESCRIPTION | 6 +++--- inst/NEWS | 7 +++++++ src/classTree.c | 30 +++++++++++++++--------------- src/rf.c | 37 +++++++++++++++++++------------------ src/rfutils.c | 18 +++++++++--------- 5 files changed, 53 insertions(+), 45 deletions(-)
Author: Charles J. Geyer
Diff between potts versions 0.3-4 dated 2009-09-22 and 0.4 dated 2009-10-18
Title: Markov Chain Monte Carlo for Potts Models
Description: the title says it all
ChangeLog | 2
DESCRIPTION | 8 -
R/potts.R | 29 ++++-
man/potts.Rd | 18 ++-
src/init.c | 6 +
src/potts.c | 259 +++++++++++++++++++++++++++++++++----------------
src/potts.h | 8 +
tests/outfun.R |only
tests/outfun.Rout.save |only
9 files changed, 236 insertions(+), 94 deletions(-)
Author: Frederick Novomestky
Diff between orthopolynom versions 1.0-1 dated 2007-08-25 and 1.0-2 dated 2009-10-18
Title: Collection of functions for orthogonal and orthonormal
polynomials
Description: A collection of functions to construct sets of orthogonal
polynomials and their recurrence relations. Additional
functions are provided to calculate the derivative, integral,
value and roots of lists of polynomial objects.
DESCRIPTION | 29 ++++++++++++++++-------------
man/orthonormal.polynomials.Rd | 2 +-
2 files changed, 17 insertions(+), 14 deletions(-)
Author: Ryan T. Moore
Diff between muRL versions 0.1-2 dated 2009-08-20 and 0.1-3 dated 2009-10-18
Title: Mailmerge using R, LaTeX, and the Web
Description: Provides mailmerge methods for reading spreadsheets of
addresses and other relevant information to create standardized
but customizable letters. Provides a method for mapping US ZIP
codes, including those of letter recipients. Provides a method
for parsing and processing html code from online job postings
of the American Political Science Association.
CHANGELOG | 5 +++++
DESCRIPTION | 8 ++++----
R/apsahtml2csv.R | 2 +-
R/zip.plot.R | 2 +-
data/zips.tab | 2 +-
man/murl-package.Rd | 4 ++--
man/zips.Rd | 4 ++--
7 files changed, 16 insertions(+), 11 deletions(-)
Author: Patrick Brown
Title: Generalised Linear Mixed Models and Spatial Models with BUGS
Description: Write bugs model files for hierarchical and spatial
models, arranges unbalanced data in ragged arrays, and creates
starting values.
Diff between glmmBUGS versions 1.6 dated 2009-04-26 and 1.6.4 dated 2009-10-18
glmmBUGS-1.6.4/glmmBUGS/DESCRIPTION | 10 +- glmmBUGS-1.6.4/glmmBUGS/R/addSpatial.R | 16 +-- glmmBUGS-1.6.4/glmmBUGS/R/checkChain.R | 2 glmmBUGS-1.6.4/glmmBUGS/R/getDesignMatrix.R | 5 - glmmBUGS-1.6.4/glmmBUGS/R/getStartingValues.R | 47 +++++++--- glmmBUGS-1.6.4/glmmBUGS/R/glmmBUGS.R | 100 ++++++++-------------- glmmBUGS-1.6.4/glmmBUGS/R/restoreParams.R | 34 +++++-- glmmBUGS-1.6.4/glmmBUGS/R/summaryChain.R | 2 glmmBUGS-1.6.4/glmmBUGS/R/winBugsRaggedArray.R | 71 +++++++++++---- glmmBUGS-1.6.4/glmmBUGS/R/writeBugsModel.R | 100 ++++++++++++++++------ glmmBUGS-1.6.4/glmmBUGS/data/ontario.RData |binary glmmBUGS-1.6.4/glmmBUGS/data/ontarioResult.RData |binary glmmBUGS-1.6.4/glmmBUGS/data/popDataAdjMat.RData |binary glmmBUGS-1.6.4/glmmBUGS/man/addSpatial.Rd | 3 glmmBUGS-1.6.4/glmmBUGS/man/getStartingValues.Rd | 6 - glmmBUGS-1.6.4/glmmBUGS/man/glmmBUGS.Rd | 7 + glmmBUGS-1.6.4/glmmBUGS/man/restoreParams.Rd | 10 +- glmmBUGS-1.6.4/glmmBUGS/man/winBugsRaggedArray.Rd | 9 + glmmBUGS-1.6.4/glmmBUGS/man/writeBugsModel.Rd | 68 +++++++++++--- glmmBUGS-1.6.4/glmmBUGS/tests |only glmmBUGS-1.6/glmmBUGS/Paper |only 21 files changed, 323 insertions(+), 167 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 0.995-6 dated 2009-09-24 and 0.995-8 dated 2009-10-18
DESCRIPTION | 8 NEWS | 17 R/print.frontier.R | 26 R/print.summary.frontier.R | 1 R/summary.frontier.R | 5 data/front41Data.txt | 122 man/coef.summary.frontier.Rd | 6 man/front41Data.Rd | 1 man/front41Est.Rd | 3 man/front41ReadOutput.Rd | 4 man/front41WriteInput.Rd | 4 man/frontier.Rd | 12 man/summary.frontier.Rd | 4 tests/frontier41.R | 8 tests/frontier41.Rout.save | 12 tests/frontierTest.R | 69 tests/frontierTest.Rout.save |38809 +++++++++++++++++++++---------------------- tests/translogRay.Rout.save | 59 18 files changed, 19761 insertions(+), 19409 deletions(-)
Author: J. O. Ramsay
Diff between fda versions 2.1.2 dated 2009-06-02 and 2.1.3 dated 2009-10-18
Title: Functional Data Analysis
Description: These functions were developed to support functional data
analysis as described in Ramsay, J. O. and Silverman, B. W.
(2005) Functional Data Analysis. New York: Springer. They were
ported from earlier versions in Matlab and S-PLUS. An
introduction appears in Ramsay, J. O., Hooker, Giles, and
Graves, Spencer (2009) Functional Data Analysis with R and
Matlab (Springer). The package includes data sets and script
files working many examples including all but one of the 76
figures in this latter book.
fda-2.1.2/fda/R |only
fda-2.1.2/fda/data |only
fda-2.1.2/fda/demo |only
fda-2.1.2/fda/inst/originals |only
fda-2.1.2/fda/man |only
fda-2.1.3/fda/DESCRIPTION | 27
fda-2.1.3/fda/NEWS | 95
fda-2.1.3/fda/TODO | 1
fda-2.1.3/fda/add-links.rb | 18
fda-2.1.3/fda/inst/scripts/CSTR/CSTR_demo.R | 1831 ----------
fda-2.1.3/fda/inst/scripts/CSTR/CSTR_demoMatlab-R.ppt |binary
fda-2.1.3/fda/inst/scripts/CSTR/fda-in-matlab-and-r.pdf |binary
fda-2.1.3/fda/inst/scripts/CSTR/fit9Mat.csv | 191 -
fda-2.1.3/fda/inst/scripts/CSTR/r-matlab-convergence-comparison.csv | 107
fda-2.1.3/fda/inst/scripts/afda-ch02.R | 9
fda-2.1.3/fda/inst/scripts/afda-ch03.R | 152
fda-2.1.3/fda/inst/scripts/afda-ch06.R | 515 --
fda-2.1.3/fda/inst/scripts/afda-ch07.R | 8
fda-2.1.3/fda/inst/scripts/fda-ch01.R | 298 -
fda-2.1.3/fda/inst/scripts/fda-ch03.R | 127
fda-2.1.3/fda/inst/scripts/fda-ch08.R | 10
fda-2.1.3/fda/inst/scripts/fda-ch17.R | 30
fda-2.1.3/fda/inst/scripts/fda-script-progress.xls |binary
fda-2.1.3/fda/inst/scripts/fdarm-ch03.R | 196 -
fda-2.1.3/fda/inst/scripts/fdarm-ch04.R | 226 -
fda-2.1.3/fda/inst/scripts/fdarm-ch09.R | 4
fda-2.1.3/fda/inst/scripts/fdarm-ch10.R | 694 ---
fda-2.1.3/fda/inst/scripts/fdarm-ch11.R | 166
fda-2.1.3/fda/load.r | 2
29 files changed, 2 insertions(+), 4705 deletions(-)
Author: Paul Gilbert
Diff between dse versions 2009.10-1 dated 2009-10-13 and 2009.10-2 dated 2009-10-18
Title: Dynamic Systems Estimation (time series package)
Description: Multivariate Time Series - ARMA and State Space models.
See ?dse.Intro for more details.
DESCRIPTION | 8
NEWS | 535 ++++++++++++++++++++-------------------------
inst/doc/dse-guide.pdf |binary
man/TSdata.object.Rd | 15 -
man/checkBalance.Rd | 2
man/checkBalanceMittnik.Rd | 2
man/dse-package.Rd | 8
man/estSSfromVARX.Rd | 4
man/estVARXar.Rd | 6
man/estVARXls.Rd | 4
man/periods.TSdata.Rd | 9
man/simulate.Rd | 2
12 files changed, 267 insertions(+), 328 deletions(-)
Author: Søren Højsgaard
Diff between doBy versions 4.0.2 dated 2009-09-07 and 4.0.3 dated 2009-10-18
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/esticon.R | 2
inst/doc/doBy.pdf | 415 ++++++++++++++++++++++++++----------------------------
man/esticon.Rd | 2
5 files changed, 220 insertions(+), 213 deletions(-)
Author: Tomoaki Nakatani
Diff between ccgarch versions 0.1.7 dated 2009-10-12 and 0.1.9 dated 2009-10-18
Title: Conditional Correlation GARCH models
Description: Functions for estimating and simulating the family of the
CC-GARCH models.
ChangeLog | 6 +++++
DESCRIPTION | 8 +++----
R/dlc.R | 63 +++++++++++++++++++++++++++++++++++++-----------------------
3 files changed, 49 insertions(+), 28 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 0.5-5 dated 2009-10-08 and 0.5-6 dated 2009-10-18
DESCRIPTION | 8 ++++---- R/Menu.FrF2level.R | 46 ++++++++++++++++++++++++++++++++++++++++------ R/Menu.pb2level.R | 28 ++++++++++++++++++++++++---- inst/NEWS | 5 +++++ 4 files changed, 73 insertions(+), 14 deletions(-)
More information about RcmdrPlugin.DoE at CRAN
Permanent link
Author: Henrik Bengtsson
Diff between R.utils versions 1.2.0 dated 2009-09-10 and 1.2.2 dated 2009-10-18
Title: Various programming utilities
Description: This package provides utility classes and methods useful
when programming in R and developing R packages.
R.utils-1.2.0/R.utils/man/Sys.setenv.Rd |only
R.utils-1.2.2/R.utils/DESCRIPTION | 10 ++++++----
R.utils-1.2.2/R.utils/R/beta |only
R.utils-1.2.2/R.utils/R/copyDirectory.R | 4 ++--
R.utils-1.2.2/R.utils/R/createLink.R |only
R.utils-1.2.2/R.utils/R/createWindowsShortcut.R |only
R.utils-1.2.2/R.utils/R/devel |only
R.utils-1.2.2/R.utils/R/isOpen.character.R | 2 +-
R.utils-1.2.2/R.utils/R/readWindowsShortcut.R | 10 ++++++++--
R.utils-1.2.2/R.utils/incl/createWindowsShortcut.Rex |only
R.utils-1.2.2/R.utils/inst/NEWS | 10 ++++++++++
R.utils-1.2.2/R.utils/man/GString.Rd | 2 +-
R.utils-1.2.2/R.utils/man/copyDirectory.Rd | 4 ++--
R.utils-1.2.2/R.utils/man/createLink.Rd |only
R.utils-1.2.2/R.utils/man/createWindowsShortcut.Rd |only
R.utils-1.2.2/R.utils/man/isOpen.character.Rd | 4 ++--
R.utils-1.2.2/R.utils/man/readWindowsShortcut.Rd | 9 +++++++--
17 files changed, 39 insertions(+), 16 deletions(-)
Author: Henrik Bengtsson
Diff between R.huge versions 0.1.9 dated 2009-09-23 and 0.2.0 dated 2009-10-18
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 | 10 ++++++----
R/AbstractFileArray.R | 2 +-
R/FileMatrix.R | 2 +-
inst/NEWS | 4 ++++
man/R.huge-package.Rd | 2 +-
man/as.matrix.FileMatrix.Rd | 4 ++--
man/as.vector.AbstractFileArray.Rd | 4 ++--
7 files changed, 17 insertions(+), 11 deletions(-)
Author: Fadoua Balabdaoui, Kaspar Rufibach, Filippo Santambrogio
Title: Compute least squares estimates of one bounded or two ordered
isotonic regression curves
Description: We consider the problem of estimating two isotonic
regression curves g1* and g2* under the constraint that they
are ordered, i.e. g1* <= g2*. Given two sets of n data points
y_1, ..., y_n and z_1, ..., z_n that are observed at (the same)
deterministic design points x_1, ..., x_n, the estimates are
obtained by minimizing the Least Squares criterion L(a, b) =
sum_{i=1}^n (y_i - a_i)^2 w1(x_i) + sum_{i=1}^n (z_i - b_i)^2
w2(x_i) over the class of pairs of vectors (a, b) such that a
and b are isotonic and a_i <= b_i for all i = 1, ..., n. We
offer two different approaches to compute the estimates: a
projected subgradient algorithm where the projection is
calculated using a PAVA as well as Dykstra's cyclical
projection algorithm.
Diff between OrdMonReg versions 1.0.1 dated 2009-07-21 and 1.0.2 dated 2009-10-18
OrdMonReg-1.0.1/OrdMonReg/R/boundedAntiMean.R |only OrdMonReg-1.0.1/OrdMonReg/R/boundedAntiMeanTwo.R |only OrdMonReg-1.0.1/OrdMonReg/R/boundedIsoMean.R |only OrdMonReg-1.0.1/OrdMonReg/R/boundedIsoMeanTwo.R |only OrdMonReg-1.0.1/OrdMonReg/man/boundedAntiMeanTwo.Rd |only OrdMonReg-1.0.1/OrdMonReg/man/boundedIsoMean.Rd |only OrdMonReg-1.0.2/OrdMonReg/CHANGES | 6 +++++ OrdMonReg-1.0.2/OrdMonReg/DESCRIPTION | 16 +++++++------- OrdMonReg-1.0.2/OrdMonReg/R/BoundedAntiMean.R |only OrdMonReg-1.0.2/OrdMonReg/R/BoundedAntiMeanTwo.R |only OrdMonReg-1.0.2/OrdMonReg/R/BoundedIsoMean.R |only OrdMonReg-1.0.2/OrdMonReg/R/BoundedIsoMeanTwo.R |only OrdMonReg-1.0.2/OrdMonReg/R/BoundedIsoMeanTwoDykstra.R |only OrdMonReg-1.0.2/OrdMonReg/R/LSfunctional.R | 2 - OrdMonReg-1.0.2/OrdMonReg/R/MA.R | 2 - OrdMonReg-1.0.2/OrdMonReg/R/Subgradient.R | 2 - OrdMonReg-1.0.2/OrdMonReg/R/astar_1.R | 2 - OrdMonReg-1.0.2/OrdMonReg/R/bstar_n.R | 2 - OrdMonReg-1.0.2/OrdMonReg/R/disp.R |only OrdMonReg-1.0.2/OrdMonReg/R/minK1.R |only OrdMonReg-1.0.2/OrdMonReg/R/minK2.R |only OrdMonReg-1.0.2/OrdMonReg/R/minK3.R |only OrdMonReg-1.0.2/OrdMonReg/man/BoundedAntiMeanTwo.Rd |only OrdMonReg-1.0.2/OrdMonReg/man/BoundedIsoMean.Rd |only OrdMonReg-1.0.2/OrdMonReg/man/BoundedIsoMeanTwoDykstra.Rd |only OrdMonReg-1.0.2/OrdMonReg/man/disp.Rd |only OrdMonReg-1.0.2/OrdMonReg/man/minK.Rd |only OrdMonReg-1.0.2/OrdMonReg/man/ordMonReg-package.Rd | 16 ++++++++------ 28 files changed, 30 insertions(+), 18 deletions(-)
Author: Henrik Bengtsson
Diff between R.cache versions 0.1.9 dated 2009-09-18 and 0.2.0 dated 2009-10-18
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 +++++------------------
R/private.baseLoad.R |only
R/readCacheHeader.R | 24 ++++--------------------
inst/NEWS | 5 +++++
5 files changed, 20 insertions(+), 42 deletions(-)
Author: Paul Gilbert
Diff between EvalEst versions 2009.10-1 dated 2009-10-13 and 2009.10-2 dated 2009-10-18
Title: Dynamic Systems Estimation - extensions
Description: Multivariate Time Series - extensions.See ?00dse-Intro for
more details.
DESCRIPTION | 8 ++++----
NEWS | 21 ++++++++++++++-------
inst/doc/EvalEst-guide.pdf |binary
3 files changed, 18 insertions(+), 11 deletions(-)
Author: Gopal, V. and Li, Z. and Casella, G.
Title: Bayesian Association Model for Genomic Data with Missing
Covariates
Description: This package fits a linear mixed model where the
covariates for the random effects have missing values.
Diff between BAMD versions 1.2 dated 2009-04-21 and 3.1 dated 2009-10-18
BAMD-1.2/BAMD/R/gs.R |only BAMD-1.2/BAMD/R/vs.R |only BAMD-1.2/BAMD/README |only BAMD-1.2/BAMD/man/gs.Rd |only BAMD-1.2/BAMD/man/vs.Rd |only BAMD-3.1/BAMD/DESCRIPTION | 9 +++++---- BAMD-3.1/BAMD/NAMESPACE | 2 +- BAMD-3.1/BAMD/R/gibbsSampler.R |only BAMD-3.1/BAMD/R/variableSelector.R |only BAMD-3.1/BAMD/man/BAMD-package.Rd | 6 +++--- BAMD-3.1/BAMD/man/egMat.Rd | 2 +- BAMD-3.1/BAMD/man/gibbsSampler.Rd |only BAMD-3.1/BAMD/man/variableSelector.Rd |only BAMD-3.1/BAMD/src/computeLoop.c | 12 +++++------- 14 files changed, 15 insertions(+), 16 deletions(-)
Author: Arne Henningsen
Diff between sampleSelection versions 0.6-6 dated 2009-07-18 and 0.6-8 dated 2009-10-16
More information about sampleSelection at CRAN
Title: Sample Selection Models
Description: Estimation of Sample Selection Models
sampleSelection-0.6-6/sampleSelection/R/coef.probit.R |only
sampleSelection-0.6-6/sampleSelection/R/coef.summary.probit.R |only
sampleSelection-0.6-6/sampleSelection/R/vcov.probit.R |only
sampleSelection-0.6-6/sampleSelection/man/coef.probit.Rd |only
sampleSelection-0.6-6/sampleSelection/man/vcov.probit.Rd |only
sampleSelection-0.6-8/sampleSelection/DESCRIPTION | 8
sampleSelection-0.6-8/sampleSelection/INDEX | 2
sampleSelection-0.6-8/sampleSelection/R/print.summary.probit.R | 2
sampleSelection-0.6-8/sampleSelection/inst/doc/selection.pdf | 947 ++++------
sampleSelection-0.6-8/sampleSelection/man/vcov.selection.Rd | 2
sampleSelection-0.6-8/sampleSelection/tests/selection.Rout.save | 88
11 files changed, 467 insertions(+), 582 deletions(-)
Permanent link
Author: Fortran original by Leo Breiman and Adele Cutler, R port by
Andy Liaw and Matthew Wiener.
Title: Breiman and Cutler's random forests for classification and
regression
Description: Classification and regression based on a forest of trees
using random inputs.
Diff between randomForest versions 4.5-31 dated 2009-10-15 and 4.5-32 dated 2009-10-16
DESCRIPTION | 8 ++++---- R/predict.randomForest.R | 2 +- inst/NEWS | 5 +++++ man/predict.randomForest.Rd | 14 ++++++++++---- 4 files changed, 20 insertions(+), 9 deletions(-)
Author: Joerg Schaber
Title: Auxiliary functions for phenological data analysis
Description: Provides some easy-to-use functions for time series
analyses of (plant-) phenological data sets. These functions
mainly deal with the estimation of combined phenological time
series and are usually wrappers for functions that are already
implemented in other R packages adapted to the special
structure of phenological data and the needs of phenologists.
Some date conversion functions to handle Julian dates are also
provided.
Diff between pheno versions 1.4 dated 2009-01-18 and 1.5 dated 2009-10-16
DESCRIPTION | 36 ++++++++------- R/date2jul1.R | 4 - R/date2jul2.R | 4 - R/daylength.R | 3 - R/daysbetween.R | 4 - R/getConnectedSets.R |only R/jul2date1.R | 4 - R/jul2date2.R | 4 - R/maxConnectedSet.R | 12 +++-- R/maxdaylength.R | 3 - R/pheno.ddm.R | 72 +++++++++++++++++------------- R/pheno.flm.fit.R | 112 ++++++++++++++++++++++++++++++------------------ R/pheno.lad.fit.R | 63 ++++++++++++++------------- R/pheno.mlm.fit.R | 4 - R/zzz.R | 2 man/connectedSets.Rd | 5 +- man/getConnectedSets.Rd |only man/maxConnectedSet.Rd | 1 man/pheno.ddm.Rd | 10 ++-- man/pheno.flm.fit.Rd | 18 +++++-- man/pheno.lad.fit.Rd | 14 +++--- man/pheno.mlm.fit.Rd | 3 + src/pheno.c | 50 +++++++++++++++------ 23 files changed, 255 insertions(+), 173 deletions(-)
Author: Ott Toomet
Diff between maxLik versions 0.5-12 dated 2009-07-18 and 0.6-0 dated 2009-10-16
Title: Maximum Likelihood Estimation
Description: Tools for Maximum Likelihood Estimation
DESCRIPTION | 8 -
INDEX | 2
NAMESPACE | 4
NEWS |only
R/checkFuncArgs.R |only
R/coef.maxLik.R | 9 +
R/maxBFGS.R | 172 +++++++++++++++++++---
R/maxBHHH.R | 87 +++++++----
R/maxLik.R | 66 +++++---
R/maxNM.R | 146 ++++++++++++++++--
R/maxNR.R | 326 ++++++------------------------------------
R/maxNRCompute.R |only
R/maxSANN.R | 118 +++++++++++++--
R/maximMessage.R |only
R/numericGradient.R | 18 +-
R/numericHessian.R | 18 +-
R/stdEr.R |only
R/summary.maxLik.R | 41 ++---
R/summary.maxim.R | 10 +
R/sumt.R |only
R/vcov.maxLik.R | 11 +
man/hessian.Rd | 6
man/maxBFGS.Rd | 46 +++++
man/maxLik-internal.Rd | 4
man/maxLik-methods.Rd | 1
man/maxLik.Rd | 21 ++
man/maxNR.Rd | 62 ++++++-
man/numericGradient.Rd | 10 -
man/stdEr.Rd |only
man/summary.maxLik.Rd | 12 +
man/summary.maxim.Rd | 8 -
man/sumt.Rd |only
man/vcov.maxLik.Rd | 6
tests/constraints.R |only
tests/constraints.Rout.save |only
tests/examples.R | 11 -
tests/examples.Rout.save | 123 ++++++++-------
tests/fitNormalDist.R |only
tests/fitNormalDist.Rout.save |only
tests/methods.R |only
tests/methods.Rout.save |only
41 files changed, 828 insertions(+), 518 deletions(-)
Author: Robin K. S. Hankin
Title: create and investigate magic squares
Description: a collection of efficient, vectorized algorithms for the
creation and investigation of magic squares and hypercubes,
including a variety of functions for the manipulation and
analysis of arbitrarily dimensioned arrays. The package
includes methods for creating normal magic squares of any order
greater than 2. The ultimate intention is for the package to
be a computerized embodiment all magic square knowledge,
including direct numerical verification of properties of magic
squares (such as recent results on the determinant of
odd-ordered semimagic squares). Some antimagic functionality
is included. The package also serves as a rebuttal to the
often-heard comment "I thought R was just for statistics".
Diff between magic versions 1.4-4 dated 2009-03-30 and 1.4-6 dated 2009-10-16
DESCRIPTION | 6 - R/magic.R | 193 +++++++++++++++++++++++++------------------ inst/doc/magicpaper.pdf | 26 ++--- man/adiag.Rd | 5 - man/allsums.Rd | 31 ++++-- man/apl.Rd | 4 man/fnsd.Rd | 5 - man/hudson.Rd | 15 +-- man/is.magic.Rd | 26 ++--- man/is.magichypercube.Rd | 32 +++---- man/is.square.palindromic.Rd | 23 ++--- man/latin.Rd | 4 man/magic.2np1.Rd | 4 man/magic.constant.Rd | 2 man/recurse.Rd | 18 +++- man/strachey.Rd | 7 - man/subsums.Rd | 10 +- tests/aaa.R | 61 +++++++++++-- 18 files changed, 285 insertions(+), 187 deletions(-)
Author: Tarn Duong
Diff between ks versions 1.6.7 dated 2009-10-05 and 1.6.8 dated 2009-10-16
Title: Kernel smoothing
Description: Kernel density estimators and kernel discriminant analysis
for multivariate data
DESCRIPTION | 8 ++++----
NAMESPACE | 2 +-
R/selector.R | 46 +++++++++++++++++++++++++++-------------------
README | 42 ++++++++++++++++++++++--------------------
inst/doc/kde.pdf |binary
man/Hlscv.Rd | 21 ++++++++++-----------
6 files changed, 64 insertions(+), 55 deletions(-)
Author: Virasakdi Chongsuvivatwong
Diff between epicalc versions 2.9.2.7 dated 2009-10-11 and 2.9.2.8 dated 2009-10-16
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.
DESCRIPTION | 8 ++--
R/epicalc.R | 80 ++++++++++++++++++++++++++++-------------------
man/addMissingRecords.rd | 24 +++++++++++---
3 files changed, 72 insertions(+), 40 deletions(-)
Author: Göran Broström
Title: Event History Analysis
Description: A package for survival and event history analysis
Diff between eha versions 1.2-4 dated 2009-01-13 and 1.2-12 dated 2009-10-16
eha-1.2-12/eha/ChangeLog | 20 + eha-1.2-12/eha/DESCRIPTION | 8 eha-1.2-12/eha/R/aftreg.R | 28 + eha-1.2-12/eha/R/aftreg.fit.R | 177 ++++++----- eha-1.2-12/eha/R/check.dist.R | 7 eha-1.2-12/eha/R/coxreg.R | 24 + eha-1.2-12/eha/R/coxreg.fit.R | 41 ++ eha-1.2-12/eha/R/mlreg.R | 2 eha-1.2-12/eha/R/phreg.R | 4 eha-1.2-12/eha/R/print.coxreg.R | 3 eha-1.2-12/eha/man/aftreg.Rd | 5 eha-1.2-12/eha/man/aftreg.fit.Rd | 3 eha-1.2-12/eha/man/coxreg.Rd | 4 eha-1.2-12/eha/man/coxreg.fit.Rd | 5 eha-1.2-12/eha/man/phreg.Rd | 6 eha-1.2-12/eha/man/plot.coxreg.Rd | 2 eha-1.2-12/eha/man/plot.hazdata.Rd | 2 eha-1.2-12/eha/man/weibreg.Rd | 2 eha-1.2-12/eha/src/aftexpreg.c | 476 +++++-------------------------- eha-1.2-12/eha/src/aftreg.c | 566 ++++++++----------------------------- eha-1.2-12/eha/src/aftreg.h | 33 -- eha-1.2-12/eha/src/coxfun.c | 155 +++++++--- eha-1.2-12/eha/src/sup.c | 66 +++- eha-1.2-12/eha/src/sup.h | 10 eha-1.2-4/eha/src/loglik_aft.c |only eha-1.2-4/eha/src/loglik_aft.h |only 26 files changed, 627 insertions(+), 1022 deletions(-)
Author: Karline Soetaert
Diff between deSolve versions 1.3 dated 2009-06-25 and 1.5 dated 2009-10-16
Title: General solvers for initial value problems of ordinary
differential equations (ODE), partial differential equations
(PDE) and differential algebraic equations (DAE)
Description: Functions that solve initial value problems of a system of
first-order ordinary differential equations (ODE), of partial
differential equations (PDE) and of differential algebraic
equations (DAE). The functions provide an interface to the
FORTRAN functions lsoda, lsodar, lsode, lsodes of the ODEPACK
collection, to the FORTRAN functions dvode and daspk and a
C-implementation of solvers of the Runge-Kutta family with
fixed or variable time steps. The package contains routines
designed for solving ODEs resulting from 1-D, 2-D and 3-D
partial differential equations (PDE) that have been converted
to ODEs by numerical differencing.
deSolve-1.3/deSolve/demo/nonlinreg.R |only
deSolve-1.3/deSolve/inst/dynload/daspkdll.r |only
deSolve-1.3/deSolve/inst/dynload/lsodardll.r |only
deSolve-1.3/deSolve/inst/dynload/odedll.r |only
deSolve-1.3/deSolve/inst/dynload/satres.c |only
deSolve-1.3/deSolve/inst/dynload/satres.r |only
deSolve-1.3/deSolve/inst/wishlist.txt |only
deSolve-1.3/deSolve/src/Aquaphy.f |only
deSolve-1.3/deSolve/src/CCL4model.f |only
deSolve-1.3/deSolve/src/call_dvode.c |only
deSolve-1.5/deSolve/DESCRIPTION | 12
deSolve-1.5/deSolve/NAMESPACE | 7
deSolve-1.5/deSolve/R/Aquaphy.R | 37
deSolve-1.5/deSolve/R/DLLfunc.R |only
deSolve-1.5/deSolve/R/SCOC.R |only
deSolve-1.5/deSolve/R/Utilities.R |only
deSolve-1.5/deSolve/R/ccl4model.R | 28
deSolve-1.5/deSolve/R/daspk.R | 826 -
deSolve-1.5/deSolve/R/diagnostics.R | 310
deSolve-1.5/deSolve/R/euler.R | 104
deSolve-1.5/deSolve/R/forcings.R |only
deSolve-1.5/deSolve/R/functions.R |only
deSolve-1.5/deSolve/R/lsoda.R | 219
deSolve-1.5/deSolve/R/lsodar.R | 202
deSolve-1.5/deSolve/R/lsode.R | 242
deSolve-1.5/deSolve/R/lsodes.R | 252
deSolve-1.5/deSolve/R/ode.R | 417
deSolve-1.5/deSolve/R/printmessage.R | 38
deSolve-1.5/deSolve/R/rk.R | 150
deSolve-1.5/deSolve/R/rk4.R | 113
deSolve-1.5/deSolve/R/rkMethod.R | 382
deSolve-1.5/deSolve/R/vode.R | 608 -
deSolve-1.5/deSolve/R/zvode.R |only
deSolve-1.5/deSolve/demo/00Index | 7
deSolve-1.5/deSolve/demo/CCL4model.R | 127
deSolve-1.5/deSolve/demo/odedim.R | 367
deSolve-1.5/deSolve/demo/rk_solvers.R | 253
deSolve-1.5/deSolve/inst/doc/compiledCode.Rnw | 1916 ++--
deSolve-1.5/deSolve/inst/doc/compiledCode.pdf | 9438 ++++++++++++++++++---
deSolve-1.5/deSolve/inst/doc/deSolve.Rnw | 1616 +--
deSolve-1.5/deSolve/inst/doc/deSolve.pdf | 3384 ++++---
deSolve-1.5/deSolve/inst/doc/index.html | 29
deSolve-1.5/deSolve/inst/doc/integration.bib | 148
deSolve-1.5/deSolve/inst/doc/mymod.c | 82
deSolve-1.5/deSolve/inst/doc/mymod.f | 86
deSolve-1.5/deSolve/inst/dynload/Aquaphy.f | 258
deSolve-1.5/deSolve/inst/dynload/AquaphyForcing.R |only
deSolve-1.5/deSolve/inst/dynload/AquaphyForcing.f |only
deSolve-1.5/deSolve/inst/dynload/ChemicalDAE.f |only
deSolve-1.5/deSolve/inst/dynload/Forcing_lv.R |only
deSolve-1.5/deSolve/inst/dynload/Forcing_lv.c |only
deSolve-1.5/deSolve/inst/dynload/SCOC.f |only
deSolve-1.5/deSolve/inst/dynload/daspkdll.R |only
deSolve-1.5/deSolve/inst/dynload/daspkfor.f | 148
deSolve-1.5/deSolve/inst/dynload/intakes.RData |only
deSolve-1.5/deSolve/inst/dynload/lsodardll.R |only
deSolve-1.5/deSolve/inst/dynload/lsodarfor.f | 110
deSolve-1.5/deSolve/inst/dynload/odedll.R |only
deSolve-1.5/deSolve/inst/dynload/odefor.f | 102
deSolve-1.5/deSolve/inst/dynload/odefor2.f | 92
deSolve-1.5/deSolve/inst/dynload/satres.R |only
deSolve-1.5/deSolve/inst/dynload/satres.f | 91
deSolve-1.5/deSolve/inst/dynload/satresC.c |only
deSolve-1.5/deSolve/inst/dynload/zvodedll.R |only
deSolve-1.5/deSolve/inst/dynload/zvodedll.f |only
deSolve-1.5/deSolve/inst/examples/Nand.R | 665 -
deSolve-1.5/deSolve/inst/examples/Pollution.R | 472 -
deSolve-1.5/deSolve/inst/examples/Schelde_DSA.R | 327
deSolve-1.5/deSolve/inst/examples/Schelde_FKA.R | 383
deSolve-1.5/deSolve/inst/examples/Schelde_FNA.R | 337
deSolve-1.5/deSolve/inst/examples/Schelde_OSA.R | 325
deSolve-1.5/deSolve/inst/examples/Schelde_pars.R | 255
deSolve-1.5/deSolve/inst/examples/examples_paper.R | 581 -
deSolve-1.5/deSolve/inst/source/vodecomments.txt | 2042 ++--
deSolve-1.5/deSolve/man/DLLfunc.Rd |only
deSolve-1.5/deSolve/man/DLLres.Rd |only
deSolve-1.5/deSolve/man/SCOC.Rd |only
deSolve-1.5/deSolve/man/aquaphy.Rd | 106
deSolve-1.5/deSolve/man/ccl4model.Rd | 2
deSolve-1.5/deSolve/man/daspk.Rd | 234
deSolve-1.5/deSolve/man/deSolve.Rd | 238
deSolve-1.5/deSolve/man/diagnostics.Rd | 93
deSolve-1.5/deSolve/man/forcings.Rd |only
deSolve-1.5/deSolve/man/lsoda.Rd | 169
deSolve-1.5/deSolve/man/lsodar.Rd | 167
deSolve-1.5/deSolve/man/lsode.Rd | 179
deSolve-1.5/deSolve/man/lsodes.Rd | 177
deSolve-1.5/deSolve/man/ode.1D.Rd | 14
deSolve-1.5/deSolve/man/ode.2D.Rd | 14
deSolve-1.5/deSolve/man/ode.3D.Rd | 10
deSolve-1.5/deSolve/man/ode.Rd | 91
deSolve-1.5/deSolve/man/ode.band.Rd | 16
deSolve-1.5/deSolve/man/plot.deSolve.Rd |only
deSolve-1.5/deSolve/man/rk.Rd | 681 -
deSolve-1.5/deSolve/man/rk4.Rd | 51
deSolve-1.5/deSolve/man/rkMethod.Rd | 456 -
deSolve-1.5/deSolve/man/vode.Rd | 222
deSolve-1.5/deSolve/man/zvode.Rd |only
deSolve-1.5/deSolve/src/DLLutil.c |only
deSolve-1.5/deSolve/src/call_daspk.c | 95
deSolve-1.5/deSolve/src/call_euler.c | 13
deSolve-1.5/deSolve/src/call_lsoda.c | 380
deSolve-1.5/deSolve/src/call_rk4.c | 15
deSolve-1.5/deSolve/src/call_rkAuto.c | 59
deSolve-1.5/deSolve/src/call_rkFixed.c | 78
deSolve-1.5/deSolve/src/call_zvode.c |only
deSolve-1.5/deSolve/src/deSolve.h | 56
deSolve-1.5/deSolve/src/deSolve_utils.c | 218
deSolve-1.5/deSolve/src/ex_Aquaphy.f |only
deSolve-1.5/deSolve/src/ex_CCL4model.f |only
deSolve-1.5/deSolve/src/ex_ChemicalDAE.c |only
deSolve-1.5/deSolve/src/ex_SCOC.f |only
deSolve-1.5/deSolve/src/forcings.c |only
deSolve-1.5/deSolve/src/opkda1.f | 6
deSolve-1.5/deSolve/src/rk_util.c | 58
deSolve-1.5/deSolve/src/rk_util.h | 11
deSolve-1.5/deSolve/src/zvode.f |only
deSolve-1.5/deSolve/src/zvode.h |only
118 files changed, 19744 insertions(+), 11753 deletions(-)
Author: Robin K. S. Hankin
Title: Continued fractions
Description: Various utilities for evaluating continued fractions
Diff between contfrac versions 1.1-7 dated 2009-02-15 and 1.1-8 dated 2009-10-16
DESCRIPTION | 8 +++++--- man/contfrac-package.Rd | 2 +- 2 files changed, 6 insertions(+), 4 deletions(-)
Author: Robin K. S. Hankin
Title: Bayesian prediction of complex computer codes
Description: Performs Bayesian prediction of complex computer codes
when fast approximations are available: M. C. Kennedy and A.
O'Hagan 2000, Biometrika 87(1):1-13
Diff between approximator versions 1.1-5 dated 2009-07-18 and 1.1-6 dated 2009-10-16
DESCRIPTION | 8 ++++---- inst/doc/apprex.pdf | 6 +++--- man/A.Rd | 2 +- man/approximator.package.Rd | 6 +++--- man/c.fun.Rd | 4 ++-- man/genie.Rd | 4 ++-- man/mdash.fun.Rd | 2 +- man/object.Rd | 8 ++++---- man/toyapps.Rd | 4 ++-- 9 files changed, 22 insertions(+), 22 deletions(-)
Author: Mathieu Ribatet
Diff between SpatialExtremes versions 1.3-0 dated 2009-05-28 and 1.4-0 dated 2009-10-16
More information about SpatialExtremes at CRAN
Title: Modelling Spatial Extremes
Description: This package proposes several approaches for spatial
extremes modelling.
SpatialExtremes |only
1 file changed
Permanent link
Author: Seija Sirkia, Klaus Nordhausen, Hannu Oja
Title: Multivariate nonparametric methods based on spatial signs and
ranks
Description: This package contains test and estimates of location,
tests of independence, tests of sphericity and several
estimates of shape all based on spatial signs, symmetrized
signs, ranks and signed ranks.
Diff between SpatialNP versions 1.00 dated 2009-04-22 and 1.0-1 dated 2009-10-16
DESCRIPTION | 8 ++++---- man/spatial.location.Rd | 2 +- 2 files changed, 5 insertions(+), 5 deletions(-)
Author: Mathieu Ribatet
Diff between POT versions 1.0-9 dated 2009-02-10 and 1.1-0 dated 2009-10-16
Title: Generalized Pareto Distribution and Peaks Over Threshold
Description: Some functions useful to perform a Peak Over Threshold
analysis in univariate and bivariate cases. A user's guide is
avalaible.
DESCRIPTION | 16
R/bvGPD.R | 2
R/fitPP.R | 8
inst/doc/POT.Rnw | 2
inst/doc/POT.pdf |17661 ++++++++++++++++++++-----------------------------------
man/confint.Rd | 12
man/diplot.Rd | 2
man/fitGPD.Rd | 6
man/tcplot.Rd | 2
9 files changed, 6462 insertions(+), 11249 deletions(-)
Author: Hormuzd A. Katki
Diff between NestedCohort versions 1.1-1 dated 2009-04-15 and 1.1-2 dated 2009-10-16
Title: Survival Analysis for Cohorts with Missing Covariate Information
Description: Estimate hazard ratios, survival curves and attributable
risks for cohorts with missing covariates, using Cox models or
Kaplan-Meier estimated for strata. This handles studies nested
within cohorts, such as case-cohort studies with stratified
sampling. See
http://www.r-project.org/doc/Rnews/Rnews_2008-1.pdf
DESCRIPTION | 10 +++++-----
inst/doc/NestedCohort.Rnw | 2 +-
inst/doc/NestedCohort.pdf |binary
inst/doc/Rplots.pdf | 6 +++---
inst/doc/auto/NestedCohort.el | 1 -
man/NestedCohort-package.Rd | 3 ++-
6 files changed, 11 insertions(+), 11 deletions(-)
Author: Sebastien Joucla, Christophe Pouzat
Title: Automatic Calcium Imaging Analysis
Description: Simulate and analyse calcium imaging data obtained with
ratiometric dyes
Diff between CalciOMatic versions 1.1-2 dated 2009-06-08 and 1.1-3 dated 2009-10-16
CalciOMatic-1.1-2/CalciOMatic/inst |only CalciOMatic-1.1-3/CalciOMatic/DESCRIPTION | 8 - CalciOMatic-1.1-3/CalciOMatic/R/anova4Fits.R | 2 CalciOMatic-1.1-3/CalciOMatic/R/caBiExp.R | 9 - CalciOMatic-1.1-3/CalciOMatic/R/caFromDf.R | 12 - CalciOMatic-1.1-3/CalciOMatic/R/caFromRatio.R | 58 ++++++-- CalciOMatic-1.1-3/CalciOMatic/R/caMonoBiExpFromIG.R | 2 CalciOMatic-1.1-3/CalciOMatic/R/caMonoExp.R | 11 - CalciOMatic-1.1-3/CalciOMatic/R/directFit.R | 39 +++--- CalciOMatic-1.1-3/CalciOMatic/R/fluo.R | 6 CalciOMatic-1.1-3/CalciOMatic/R/getThetaRatio.R |only CalciOMatic-1.1-3/CalciOMatic/R/igDirect.R | 13 +- CalciOMatic-1.1-3/CalciOMatic/R/igRatio.R | 2 CalciOMatic-1.1-3/CalciOMatic/R/mkFluo4DirectFit.R | 4 CalciOMatic-1.1-3/CalciOMatic/R/mkFunction4DirectFit.R | 12 - CalciOMatic-1.1-3/CalciOMatic/R/mkFunction4RatioFit.R | 4 CalciOMatic-1.1-3/CalciOMatic/R/plot.direct_fit.R | 3 CalciOMatic-1.1-3/CalciOMatic/R/plot.fluo_rawdata.R | 12 + CalciOMatic-1.1-3/CalciOMatic/R/plot.ratio_fit.R | 29 ++-- CalciOMatic-1.1-3/CalciOMatic/R/plot.ratio_fit_list.R | 2 CalciOMatic-1.1-3/CalciOMatic/R/plotCalciOMatic.R | 4 CalciOMatic-1.1-3/CalciOMatic/R/ratioExpPhysio.R | 26 +--- CalciOMatic-1.1-3/CalciOMatic/R/ratioExpSimul.R | 15 +- CalciOMatic-1.1-3/CalciOMatic/R/ratioFitFromCa.R | 91 ++++++++++---- CalciOMatic-1.1-3/CalciOMatic/R/ratioFitFromDf.R | 18 -- CalciOMatic-1.1-3/CalciOMatic/R/transientConvexPart.R | 2 CalciOMatic-1.1-3/CalciOMatic/data/inVitro.rda |binary CalciOMatic-1.1-3/CalciOMatic/man/CalciOMatic-package.Rd | 18 +- CalciOMatic-1.1-3/CalciOMatic/man/anova4Fits.Rd | 21 +-- CalciOMatic-1.1-3/CalciOMatic/man/caBiExp.Rd | 22 +-- CalciOMatic-1.1-3/CalciOMatic/man/caFromDf.Rd | 36 +++-- CalciOMatic-1.1-3/CalciOMatic/man/caFromRatio.Rd | 49 ++++--- CalciOMatic-1.1-3/CalciOMatic/man/caMonoBiExpFromIG.Rd | 14 +- CalciOMatic-1.1-3/CalciOMatic/man/caMonoExp.Rd | 14 +- CalciOMatic-1.1-3/CalciOMatic/man/directFit.Rd | 53 +++----- CalciOMatic-1.1-3/CalciOMatic/man/fluo.Rd | 31 ++-- CalciOMatic-1.1-3/CalciOMatic/man/getThetaRatio.Rd |only CalciOMatic-1.1-3/CalciOMatic/man/igDirect.Rd | 21 +-- CalciOMatic-1.1-3/CalciOMatic/man/igRatio.Rd | 50 +++---- CalciOMatic-1.1-3/CalciOMatic/man/inVitro.Rd | 4 CalciOMatic-1.1-3/CalciOMatic/man/mkFluo4DirectFit.Rd | 8 - CalciOMatic-1.1-3/CalciOMatic/man/mkFunction4DirectFit.Rd | 17 +- CalciOMatic-1.1-3/CalciOMatic/man/mkFunction4RatioFit.Rd | 12 - CalciOMatic-1.1-3/CalciOMatic/man/plot.direct_fit.Rd | 62 ++++----- CalciOMatic-1.1-3/CalciOMatic/man/plot.fluo_rawdata.Rd | 39 +++--- CalciOMatic-1.1-3/CalciOMatic/man/plot.ratio_fit.Rd | 38 +++-- CalciOMatic-1.1-3/CalciOMatic/man/plot.ratio_fit_list.Rd | 49 ++++--- CalciOMatic-1.1-3/CalciOMatic/man/plotCalciOMatic.Rd | 54 ++++---- CalciOMatic-1.1-3/CalciOMatic/man/ratioExpPhysio.Rd | 45 +++--- CalciOMatic-1.1-3/CalciOMatic/man/ratioExpSimul.Rd | 53 ++++---- CalciOMatic-1.1-3/CalciOMatic/man/ratioFitFromCa.Rd | 66 ++++++---- CalciOMatic-1.1-3/CalciOMatic/man/ratioFitFromDf.Rd | 46 ++----- CalciOMatic-1.1-3/CalciOMatic/man/transientConvexPart.Rd | 2 53 files changed, 650 insertions(+), 558 deletions(-)
Author: Uwe Ligges
Diff between tuneR versions 0.2-10 dated 2009-03-29 and 0.2-11 dated 2009-10-15
Title: Analysis of music
Description: Collection of tools to analyze music, handling wave files,
transcription, ...
DESCRIPTION | 8 ++++----
man/WaveArith.Rd | 2 +-
man/plot.Rd | 2 +-
3 files changed, 6 insertions(+), 6 deletions(-)
Author: Uwe Ligges
Diff between scatterplot3d versions 0.3-28 dated 2009-05-28 and 0.3-29 dated 2009-10-15
Title: 3D Scatter Plot
Description: Plots a three dimensional (3D) point cloud.
CHANGES | 1 +
DESCRIPTION | 8 ++++----
R/scatterplot3d.R | 12 +++++++++---
inst/doc/s3d.pdf | 6 +++---
man/scatterplot3d.Rd | 4 +---
5 files changed, 18 insertions(+), 13 deletions(-)
Author: Matthew Denwood
Diff between runjags versions 0.9.4-2 dated 2009-05-28 and 0.9.5-1 dated 2009-10-15
Title: Run Bayesian MCMC Models in the BUGS syntax from Within R
Description: A set of functions to allow any user specified model to be
run in JAGS from within R, returning the MCMC chains as R
objects. Includes functions to read external WinBUGS type
textfiles, and allows several ways of automatically specifying
model data from existing R objects or R functions. Also
includes functions to automatically calculate model run length,
autocorrealtion and Gelman Rubin statistic diagnostics for all
models to simplify the process of achieving chain convergence.
Designed for maximum compatibility with WinBUGS syntax,
although minor modification to existing .bug files will be
required. Requires Just Another Gibbs Sampler (JAGS) for most
functions, see: http://www-fis.iarc.fr/~martyn/software/jags/
DESCRIPTION | 8 -
R/autorun.jags.R | 28 ++---
R/combine.mcmc.R | 2
R/invisible.R | 25 +---
R/read.winbugs.R | 244 ++++++++++++++++++++++++++++++++++++++++++++---
R/run.jags.R | 14 +-
inst/CITATION | 20 ++-
inst/version_history.txt | 25 ++++
man/autorun.jags.Rd | 3
man/autorun.jagsfile.Rd | 2
man/combine.mcmc.Rd | 4
man/read.winbugs.Rd | 4
man/run.jagsfile.Rd | 2
13 files changed, 309 insertions(+), 72 deletions(-)
Author: Fortran original by Leo Breiman and Adele Cutler, R port by
Andy Liaw and Matthew Wiener.
Title: Breiman and Cutler's random forests for classification and
regression
Description: Classification and regression based on a forest of trees
using random inputs.
Diff between randomForest versions 4.5-30 dated 2009-02-26 and 4.5-31 dated 2009-10-15
DESCRIPTION | 29 +- NAMESPACE | 1 R/margin.R | 48 ++- R/predict.randomForest.R | 43 +-- R/randomForest.default.R | 14 - inst/NEWS | 15 + man/MDSplot.Rd | 2 man/getTree.Rd | 8 man/margin.Rd | 29 +- man/predict.randomForest.Rd | 10 man/randomForest.Rd | 5 src/regTree.c | 268 ++++++++++----------- src/rf.c | 545 ++++++++++++++++++++++---------------------- src/rfutils.c | 65 ++--- 14 files changed, 569 insertions(+), 513 deletions(-)
Author: Jose Pinheiro
Diff between nlme versions 3.1-95 dated 2009-10-05 and 3.1-96 dated 2009-10-15
Title: Linear and Nonlinear Mixed Effects Models
Description: Fit and compare Gaussian linear and nonlinear
mixed-effects models.
ChangeLog | 5 +++++
DESCRIPTION | 8 ++++----
inst/po/de/LC_MESSAGES/R-nlme.mo |binary
inst/po/de/LC_MESSAGES/nlme.mo |binary
po/R-de.po | 31 ++++++++++++++-----------------
po/de.po | 6 +++---
6 files changed, 26 insertions(+), 24 deletions(-)
Author: Paulo J. Ribeiro Jr
Diff between geoR versions 1.6-25 dated 2009-02-19 and 1.6-27 dated 2009-10-15
Title: Analysis of geostatistical data
Description: Geostatistical analysis including traditional,
likelihood-based and Bayesian methods.
DESCRIPTION | 15 ++++++----
R/auxiliar.R | 66 ++++++++++++++++++++++++------------------------
R/corcov.R | 48 +++++++++-------------------------
R/geobayes.R | 33 +++++++++++-------------
R/geodata.R | 10 ++++---
R/likGRF.R | 19 ++++++-------
R/profiles.R | 2 -
R/variofit.R | 3 +-
inst/doc/CHANGES | 18 +++++++++++++
man/BoxCox.Rd | 2 -
man/boxcox.fit.Rd | 2 -
man/boxcox.geodata.Rd | 4 +-
man/ca20.Rd | 6 ++--
man/geoR-defunct.Rd | 2 -
man/image.kriging.Rd | 4 +-
man/krige.bayes.Rd | 18 ++-----------
man/krige.conv.Rd | 4 +-
man/pars.limits.Rd | 2 -
man/plot.geodata.Rd | 2 -
man/plot.krige.bayes.Rd | 4 +-
man/points.geodata.Rd | 7 ++---
man/soja98.Rd | 31 ++++++++++------------
man/summary.likGRF.Rd | 2 -
man/wo.Rd | 2 +
man/wrappers.Rd | 1
man/wrc.Rd | 1
man/xvalid.Rd | 2 +
27 files changed, 154 insertions(+), 156 deletions(-)
Author: John Fox
Diff between effects versions 2.0-9 dated 2009-10-14 and 2.0-10 dated 2009-10-15
Title: Effect Displays for Linear, Generalized Linear,
Multinomial-Logit, and Proportional-Odds Logit Models
Description: Graphical and tabular effect displays, e.g., of
interactions, for linear generalized linear, multinomial-logit,
and proportional-odds logit models.
DESCRIPTION | 13 ++---
R/effects.R | 69 ++++++++++------------------
R/utilities.R | 118 +++++++++++++++++++++++--------------------------
inst/CHANGES | 7 ++
man/effects-package.Rd | 12 +---
5 files changed, 96 insertions(+), 123 deletions(-)
Author: S original
Diff between boot versions 1.2-40 dated 2009-10-07 and 1.2-41 dated 2009-10-15
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 | 4 ++++
DESCRIPTION | 8 ++++----
inst/po/de/LC_MESSAGES/R-boot.mo |binary
inst/po/en@quot/LC_MESSAGES/R-boot.mo |binary
inst/po/ru/LC_MESSAGES/R-boot.mo |binary
po/R-boot.pot | 4 ++--
po/R-de.po | 7 +++----
po/R-en@quot.po | 6 +++---
po/R-ru.po | 23 ++++++++++-------------
9 files changed, 26 insertions(+), 26 deletions(-)
Author: Jonathan M. Lees
Title: Seismic Time Series Analysis Tools
Description: Multiple interactive codes to analyze seismic data, via,
spectrum analysis, wavelet transforms, particle motion,
hodograms.
Diff between RSEIS versions 2.1-6 dated 2009-06-02 and 2.2-0 dated 2009-10-15
RSEIS-2.1-6/RSEIS/R/spec.taper.R |only RSEIS-2.1-6/RSEIS/man/spec.taper.Rd |only RSEIS-2.2-0/RSEIS/DESCRIPTION | 8 RSEIS-2.2-0/RSEIS/R/ASCII.SEISN.R |only RSEIS-2.2-0/RSEIS/R/CHOP.SEISN.R | 2 RSEIS-2.2-0/RSEIS/R/DISPLACE.SEISN.R | 40 ++- RSEIS-2.2-0/RSEIS/R/DOsgram.R |only RSEIS-2.2-0/RSEIS/R/FILT.SEISN.R | 8 RSEIS-2.2-0/RSEIS/R/MTMgabor.R |only RSEIS-2.2-0/RSEIS/R/Mine.seis.R | 104 ++++++-- RSEIS-2.2-0/RSEIS/R/PICK.GEN.R | 395 ++++++++++++++++++++------------ RSEIS-2.2-0/RSEIS/R/SPECT.drive.R | 14 + RSEIS-2.2-0/RSEIS/R/VELOCITY.SEISN.R | 25 +- RSEIS-2.2-0/RSEIS/R/applytaper.R | 23 + RSEIS-2.2-0/RSEIS/R/doGABOR.AR.R |only RSEIS-2.2-0/RSEIS/R/doGABOR.MTM.R |only RSEIS-2.2-0/RSEIS/R/dowiggles.R |only RSEIS-2.2-0/RSEIS/R/evolAR.R | 2 RSEIS-2.2-0/RSEIS/R/evolMTM.R | 2 RSEIS-2.2-0/RSEIS/R/evolfft.R | 5 RSEIS-2.2-0/RSEIS/R/genrick.R |only RSEIS-2.2-0/RSEIS/R/infoDB.R |only RSEIS-2.2-0/RSEIS/R/markseis24.R |only RSEIS-2.2-0/RSEIS/R/plotarrivals.R |only RSEIS-2.2-0/RSEIS/R/plotevol.R | 11 RSEIS-2.2-0/RSEIS/R/rsspec.taper.R |only RSEIS-2.2-0/RSEIS/R/showdatetime.R | 3 RSEIS-2.2-0/RSEIS/R/sigconv.R |only RSEIS-2.2-0/RSEIS/R/sigconvGR.R |only RSEIS-2.2-0/RSEIS/R/symshot1.R |only RSEIS-2.2-0/RSEIS/R/trapz.R | 9 RSEIS-2.2-0/RSEIS/R/wiggleimage.R |only RSEIS-2.2-0/RSEIS/R/winmark.R | 123 ++++++++- RSEIS-2.2-0/RSEIS/R/winseis24.R | 8 RSEIS-2.2-0/RSEIS/demo/MTM.R | 2 RSEIS-2.2-0/RSEIS/inst/doc/hodo.pdf |binary RSEIS-2.2-0/RSEIS/inst/doc/rseis.pdf |binary RSEIS-2.2-0/RSEIS/man/ASCII.SEISN.Rd |only RSEIS-2.2-0/RSEIS/man/DISPLACE.SEISN.Rd | 2 RSEIS-2.2-0/RSEIS/man/DOsgram.Rd |only RSEIS-2.2-0/RSEIS/man/FILT.SEISN.Rd | 2 RSEIS-2.2-0/RSEIS/man/MTMgabor.Rd |only RSEIS-2.2-0/RSEIS/man/Mine.seis.Rd | 3 RSEIS-2.2-0/RSEIS/man/PICK.GEN.Rd | 33 ++ RSEIS-2.2-0/RSEIS/man/PLOT.MATN.Rd | 6 RSEIS-2.2-0/RSEIS/man/RSEIS-package.Rd | 6 RSEIS-2.2-0/RSEIS/man/VELOCITY.SEISN.Rd | 2 RSEIS-2.2-0/RSEIS/man/doGABOR.AR.Rd |only RSEIS-2.2-0/RSEIS/man/doGABOR.MTM.Rd |only RSEIS-2.2-0/RSEIS/man/dowiggles.Rd |only RSEIS-2.2-0/RSEIS/man/evolfft.Rd | 7 RSEIS-2.2-0/RSEIS/man/genrick.Rd |only RSEIS-2.2-0/RSEIS/man/infoDB.Rd |only RSEIS-2.2-0/RSEIS/man/markseis24.Rd |only RSEIS-2.2-0/RSEIS/man/pickseis24.Rd | 4 RSEIS-2.2-0/RSEIS/man/plotarrivals.Rd |only RSEIS-2.2-0/RSEIS/man/rsspec.taper.Rd |only RSEIS-2.2-0/RSEIS/man/sigconv.Rd |only RSEIS-2.2-0/RSEIS/man/sigconvGR.Rd |only RSEIS-2.2-0/RSEIS/man/symshot1.Rd |only RSEIS-2.2-0/RSEIS/man/wiggleimage.Rd |only RSEIS-2.2-0/RSEIS/man/winmark.Rd | 54 +++- RSEIS-2.2-0/RSEIS/man/winseis24.Rd | 8 63 files changed, 657 insertions(+), 254 deletions(-)
Author: Jonathan M. Lees
Title: Graphics for Spherical Distributions and Earthquake Focal
Mechanisms
Description: Graphics for statistics on a sphere, as applied to
geological fault data, crystalogaphy, earthquake focal
mechanisms, radiation patterns, ternary plots and
geographical/geological maps.
Diff between RFOC versions 1.0-5 dated 2009-01-26 and 1.0-6 dated 2009-10-15
DESCRIPTION | 14 ++++++++++---- inst/doc/focalmec.pdf |binary man/RFOC-package.Rd | 5 ++--- 3 files changed, 12 insertions(+), 7 deletions(-)
Author: Robin K. S. Hankin
Title: ecological drift under the UNTB
Description: A collection of utilities for biodiversity data. Includes
the simulation of ecological drift under Hubbell's Unified
Neutral Theory of Biodiversity, and the calculation of various
diagnostics such as Preston curves. Now includes functionality
provided by Francois Munoz and Andrea Manica.
Diff between untb versions 1.4-2 dated 2009-03-30 and 1.6-1 dated 2009-10-15
DESCRIPTION | 9 R/munoz.R |only R/sysdata.rda |binary R/untb.R | 204 +- data/caruso.R |only data/ghats.rda |only data/saunders.R | 16 inst/CITATION |only inst/doc/untbpaper.pdf | 3555 +++++++++++++++++++++----------------------- man/bci.Rd | 11 man/caruso.Rd |only man/ghats.Rd |only man/logS1.Rd | 8 man/logkda.Rd | 13 man/optimal.params.gst.Rd |only man/optimal.params.sloss.Rd |only man/optimal.prob.Rd | 2 man/saunders.Rd | 49 man/simpson.Rd | 50 man/untb.package.Rd | 14 20 files changed, 2018 insertions(+), 1913 deletions(-)
Author: M. Höhle with contributions from T. Correa, M. Hofmann, C.
Lang, M. Paul, A. Riebler, S. Steiner and V. Wimmer
Title: Modeling and monitoring discrete response time series
Description: A package implementing statistical methods for the
modeling and change-point detection in time series of counts,
proportions and categorical data. Focus is on outbreak
detection in count data time series originating from public
health surveillance of infectious diseases, but applications
could just as well originate from environmetrics, reliability
engineering, econometrics or social sciences. Currently the
package contains implementations typical outbreak detection
procedures such as Stroup et. al (1989), Farrington et al,
(1996), Rossi et al. (1999), Rogerson and Yamada (2001), a
Bayesian approach, negative binomial CUSUM methods and a
detector based on generalized likelihood ratios. Furthermore,
inference methods for the retrospective infectious disease
model in Held et al. (2005), Held et al. (2006) and Paul et al.
(2008) are provided. A novel CUSUM approach combining logistic
and multinomial logistic modelling is also included. The
package contains several real-world datasets, the ability to
simulate outbreak data, visualize the results of the monitoring
in temporal, spatial or spatio-temporal fashion.
Diff between surveillance versions 1.0-2 dated 2009-03-06 and 1.1-2 dated 2009-10-15
surveillance-1.0-2/surveillance/inst/doc/SurveillanceFlowchart.sxd |only surveillance-1.0-2/surveillance/inst/doc/flowchart.pdf |only surveillance-1.1-2/surveillance/DESCRIPTION | 49 + surveillance-1.1-2/surveillance/NEWS | 48 + surveillance-1.1-2/surveillance/R/AllClass.R | 6 surveillance-1.1-2/surveillance/R/AllGeneric.R | 78 ++ surveillance-1.1-2/surveillance/R/LRCUSUM.runlength.R |only surveillance-1.1-2/surveillance/R/algo_bayes.R | 6 surveillance-1.1-2/surveillance/R/algo_cdc.R | 8 surveillance-1.1-2/surveillance/R/algo_farrington.R | 135 +++- surveillance-1.1-2/surveillance/R/algo_glrnb.R | 17 surveillance-1.1-2/surveillance/R/algo_twins.R | 41 - surveillance-1.1-2/surveillance/R/catCUSUM.R |only surveillance-1.1-2/surveillance/R/pairedbinCUSUM.R |only surveillance-1.1-2/surveillance/R/plot_multi.R | 4 surveillance-1.1-2/surveillance/R/stcd.R |only surveillance-1.1-2/surveillance/R/sts.R | 315 ++++++---- surveillance-1.1-2/surveillance/R/wrap_univariate.R | 19 surveillance-1.1-2/surveillance/THANKS | 2 surveillance-1.1-2/surveillance/data/abattoir.RData |only surveillance-1.1-2/surveillance/data/deleval.RData |only surveillance-1.1-2/surveillance/data/momo.RData |only surveillance-1.1-2/surveillance/demo/00Index | 2 surveillance-1.1-2/surveillance/demo/biosurvbook.R |only surveillance-1.1-2/surveillance/demo/cost.R | 5 surveillance-1.1-2/surveillance/inst/CITATION | 36 - surveillance-1.1-2/surveillance/inst/doc/.Rresults |binary surveillance-1.1-2/surveillance/inst/doc/Rplots.pdf | 94 +- surveillance-1.1-2/surveillance/inst/doc/figs/vignette-002.eps | 2 surveillance-1.1-2/surveillance/inst/doc/figs/vignette-002.pdf | 26 surveillance-1.1-2/surveillance/inst/doc/figs/vignette-003.eps | 2 surveillance-1.1-2/surveillance/inst/doc/figs/vignette-003.pdf | 24 surveillance-1.1-2/surveillance/inst/doc/figs/vignette-004.eps | 2 surveillance-1.1-2/surveillance/inst/doc/figs/vignette-004.pdf | 26 surveillance-1.1-2/surveillance/inst/doc/figs/vignette-007.eps | 2 surveillance-1.1-2/surveillance/inst/doc/figs/vignette-007.pdf | 28 surveillance-1.1-2/surveillance/inst/doc/figs/vignette-020.eps | 2 surveillance-1.1-2/surveillance/inst/doc/figs/vignette-020.pdf | 26 surveillance-1.1-2/surveillance/inst/doc/figs/vignette-021.eps | 2 surveillance-1.1-2/surveillance/inst/doc/figs/vignette-021.pdf | 24 surveillance-1.1-2/surveillance/inst/doc/figs/vignette_glrnb-002.eps | 2 surveillance-1.1-2/surveillance/inst/doc/figs/vignette_glrnb-002.pdf | 26 surveillance-1.1-2/surveillance/inst/doc/figs/vignette_glrnb-004.eps | 2 surveillance-1.1-2/surveillance/inst/doc/figs/vignette_glrnb-004.pdf | 24 surveillance-1.1-2/surveillance/inst/doc/figs/vignette_glrnb-005.eps | 2 surveillance-1.1-2/surveillance/inst/doc/figs/vignette_glrnb-005.pdf | 26 surveillance-1.1-2/surveillance/inst/doc/figs/vignette_glrnb-012.eps | 2 surveillance-1.1-2/surveillance/inst/doc/figs/vignette_glrnb-012.pdf | 24 surveillance-1.1-2/surveillance/inst/doc/figs/vignette_glrnb-021.eps | 2 surveillance-1.1-2/surveillance/inst/doc/figs/vignette_glrnb-021.pdf | 26 surveillance-1.1-2/surveillance/inst/doc/figs/vignette_glrnb-023.eps | 2 surveillance-1.1-2/surveillance/inst/doc/figs/vignette_glrnb-023.pdf | 26 surveillance-1.1-2/surveillance/inst/doc/index.html | 44 - surveillance-1.1-2/surveillance/man/LRCUSUM.runlength.Rd |only surveillance-1.1-2/surveillance/man/abattoir.Rd |only surveillance-1.1-2/surveillance/man/algo.bayes.Rd | 4 surveillance-1.1-2/surveillance/man/algo.farrington.threshold.Rd | 10 surveillance-1.1-2/surveillance/man/algo.glrnb.Rd | 16 surveillance-1.1-2/surveillance/man/algo.glrpois.Rd | 8 surveillance-1.1-2/surveillance/man/algo.hhh.grid.Rd | 5 surveillance-1.1-2/surveillance/man/algo.hmm.Rd | 3 surveillance-1.1-2/surveillance/man/algo.twins.Rd | 12 surveillance-1.1-2/surveillance/man/categoricalCUSUM.Rd |only surveillance-1.1-2/surveillance/man/create.disProg.Rd | 5 surveillance-1.1-2/surveillance/man/deleval.Rd |only surveillance-1.1-2/surveillance/man/estimateGLRNbHook.Rd | 3 surveillance-1.1-2/surveillance/man/internal.Rd | 1 surveillance-1.1-2/surveillance/man/momo.Rd |only surveillance-1.1-2/surveillance/man/pairedbinCUSUM.Rd |only surveillance-1.1-2/surveillance/man/plot.survRes.Rd | 6 surveillance-1.1-2/surveillance/man/readData.Rd | 3 surveillance-1.1-2/surveillance/man/refvalIdxByDate.Rd |only surveillance-1.1-2/surveillance/man/stcd.Rd |only surveillance-1.1-2/surveillance/man/sts-class.Rd | 80 ++ surveillance-1.1-2/surveillance/man/stsDisp.Rd | 42 + surveillance-1.1-2/surveillance/man/stsSlots.Rd |only surveillance-1.1-2/surveillance/man/stsXtrct.Rd | 1 surveillance-1.1-2/surveillance/man/stsYear.Rd | 2 surveillance-1.1-2/surveillance/man/surveillance-package.Rd | 67 +- surveillance-1.1-2/surveillance/src/gsl_wrappers.h | 6 surveillance-1.1-2/surveillance/src/stcd-assuncaocorrea.cc |only surveillance-1.1-2/surveillance/src/stcd-assuncaocorrea.h |only surveillance-1.1-2/surveillance/src/twins.cc | 23 83 files changed, 1028 insertions(+), 508 deletions(-)
Author: Kaspar Rufibach
Diff between smoothtail versions 1.1.3 dated 2009-06-04 and 1.1.4 dated 2009-10-15
Title: Smooth Estimation of GPD Shape Parameter
Description: Given independent and identically distributed observations
X(1), ..., X(n) from a Generalized Pareto distribution with
shape parameter gamma in [-1,0], this package offers several
estimates to compute estimates of gamma. The estimates are
based on the principle of replacing the order statistics by
quantiles of a distribution function based on a log--concave
density function. This procedure is justified by the fact that
the GPD density is log--concave for gamma in [-1,0].
CHANGES | 4 ++++
DESCRIPTION | 8 ++++----
man/falk.Rd | 2 +-
man/falkMVUE.Rd | 2 +-
man/generalizedPick.Rd | 2 +-
man/lambdaGenPick.Rd | 2 +-
man/pickands.Rd | 2 +-
man/smoothtail-package.Rd | 6 +++---
8 files changed, 16 insertions(+), 12 deletions(-)
Author: Robin K. S. Hankin
Title: octonions and quaternions
Description: A collection of routines to manipulate and visualize
quaternions and octonions.
Diff between onion versions 1.2-2 dated 2009-01-20 and 1.2-3 dated 2009-10-15
onion-1.2-2/onion/inst/doc/jss.bst |only onion-1.2-2/onion/inst/doc/jss.cls |only onion-1.2-3/onion/DESCRIPTION | 23 ++++++++++++----------- onion-1.2-3/onion/inst/doc/onionpaper.Rnw | 4 ++-- onion-1.2-3/onion/inst/doc/onionpaper.pdf |binary onion-1.2-3/onion/man/Oil.Rd | 1 - onion-1.2-3/onion/man/onion-package.Rd | 2 +- 7 files changed, 15 insertions(+), 15 deletions(-)
Author: Kimihiro Noguchi
Diff between nparLD versions 1.0 dated 2009-09-18 and 1.1 dated 2009-10-15
Title: Nonparametric Analysis of Longitudinal Data in Factorial
Experiments
Description: The package "nparLD" is designed to perform nonparametric
analysis of longitudinal data in factorial experiments.
Longitudinal data are those which are collected from the same
subjects over time, and they frequently arise in biological
sciences. Nonparametric methods do not require assumptions on
distributions of parameters, and are applicable to a variety of
data types (continuous, discrete, purely ordinal, and
dichotomous). Such methods are also robust with respect to
outliers and for small sample sizes.
DESCRIPTION | 12 ++++++------
R/f1.ld.f2.R | 4 ++--
R/f2.ld.f1.R | 6 +++---
R/ld.ci.R | 4 ++--
R/ld.f1.R | 2 +-
R/ld.f2.R | 8 ++++----
man/f1.ld.f1.rd | 4 ++++
man/f1.ld.f2.rd | 4 ++++
man/f2.ld.f1.rd | 4 ++++
man/ld.f2.rd | 16 ++++++++++------
10 files changed, 40 insertions(+), 24 deletions(-)
Author: Robin K. S. Hankin
Title: multivariate polynomials
Description: Various utilities to manipulate multivariate polynomials
Diff between multipol versions 1.0-2 dated 2008-05-09 and 1.0-4 dated 2009-10-15
DESCRIPTION | 8 +++++--- inst |only man/ooom.Rd | 35 ++++++++++++++++++++++++++++++++--- 3 files changed, 37 insertions(+), 6 deletions(-)
Author: Martin Elff
Title: Tools for Management of Survey Data, Graphics, Programming,
Statistics, and Simulation
Description: One of the aims of this package is to make life easier for
useRs who deal with survey data sets. It provides an
infrastructure for the management of survey data including
value labels, definable missing values, recoding of variables,
production of code books, and import of (subsets of) SPSS and
Stata files. Further, it provides functionality to produce
tables and data frames of arbitrary descriptive statistics and
(almost) publication-ready tables of regression model
estimates. Also some convenience tools for graphics,
programming, and simulation are provided.
Diff between memisc versions 0.95-21 dated 2009-08-20 and 0.95-22 dated 2009-10-15
DESCRIPTION | 6 +++--- R/applyTemplate.R | 18 +++--------------- R/query.R | 4 ---- inst/NEWS | 4 ++++ inst/doc/anes48.pdf |binary 5 files changed, 10 insertions(+), 22 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 3.1-2 dated 2009-09-22 and 3.1-3 dated 2009-10-15
DESCRIPTION | 10 +++++----- NAMESPACE |only R/zzz.R | 18 +++++++++++++++--- inst/ChangeLog | 14 +++++++++++--- inst/doc/mefa.Rnw | 2 +- inst/doc/mefa.pdf |binary man/mefa.Rd | 2 +- 7 files changed, 33 insertions(+), 13 deletions(-)
Author: Michael Buecker
Title: Latent Class Discriminant Analysis
Description: Local Discrimination via Latent Class Models
Diff between lcda versions 0.1 dated 2009-03-25 and 0.2 dated 2009-10-15
DESCRIPTION | 6 +++--- man/cclcda.Rd | 6 +++--- man/cclcda2.Rd | 4 ++-- man/lcda.Rd | 6 +++--- man/predict.cclcda.Rd | 2 +- man/predict.cclcda2.Rd | 2 +- man/predict.lcda.Rd | 2 +- 7 files changed, 14 insertions(+), 14 deletions(-)
Author: Alexandros Karatzoglou, Alex Smola, Kurt Hornik
Title: Kernel-based Machine Learning Lab
Description: Kernel-based machine learning methods for classification,
regression, clustering, novelty detection, quantile regression
and dimensionality reduction. Among other methods kernlab
includes Support Vector Machines, Spectral Clustering, Kernel
PCA and a QP solver.
Diff between kernlab versions 0.9-8 dated 2008-09-28 and 0.9-9 dated 2009-10-15
DESCRIPTION | 19 +++++++++++-------- R/kcca.R | 3 ++- R/kernels.R | 10 +++++----- R/ksvm.R | 4 ++-- inst/doc/kernlab.Rnw | 12 ++++++------ man/as.kernelMatrix.Rd | 2 +- man/csi.Rd | 10 +++++----- man/gausspr.Rd | 4 ++-- man/inchol.Rd | 7 ++++--- man/income.Rd | 2 +- man/ipop-class.Rd | 9 +++++---- man/kcca.Rd | 4 ++-- man/kernelMatrix.Rd | 4 ++-- man/kfa-class.Rd | 2 +- man/kha-class.Rd | 8 ++++---- man/kha.Rd | 4 ++-- man/kkmeans.Rd | 2 +- man/kmmd-class.Rd | 8 ++++---- man/kpca-class.Rd | 8 ++++---- man/kpca.Rd | 2 +- man/kqr-class.Rd | 6 +++++- man/ksvm-class.Rd | 10 +++++----- man/ksvm.Rd | 6 +++--- man/lssvm-class.Rd | 10 ++++++---- man/lssvm.Rd | 7 +++---- man/onlearn-class.Rd | 2 +- man/prc-class.Rd | 6 +++--- man/rvm-class.Rd | 12 +++++++----- man/rvm.Rd | 5 ++--- man/sigest.Rd | 2 +- man/spam.Rd | 2 +- man/specc-class.Rd | 3 ++- man/specc.Rd | 2 +- man/stringdot.Rd | 4 ++-- man/ticdata.Rd | 4 ++-- man/vm-class.Rd | 4 ++-- src/esa.cpp | 2 +- 37 files changed, 112 insertions(+), 99 deletions(-)
Author: Jan de Leeuw, Kurt Hornik, Patrick Mair
Title: Active set and generalized PAVA for isotone optimization
Description: This package contains two main functions: gpava() for
solving general isotone regression problem using the
pool-adjacent-violators algorithm (PAVA). activeSet() provides
a framework of active set methods for isotone optimization
problems. Various loss functions are pre-spcified.
Diff between isotone versions 0.8-6 dated 2009-08-30 and 0.8-7 dated 2009-10-15
DESCRIPTION | 8 ++++---- R/gpava.R | 2 +- R/plot.gpava.R | 6 +++++- inst/doc/isotone.pdf |binary man/gpava.Rd | 1 + 5 files changed, 11 insertions(+), 6 deletions(-)
Author: Robert King
Diff between gld versions 1.8.3 dated 2007-10-11 and 1.8.4 dated 2009-10-15
Title: Estimation and use of the generalised (Tukey) lambda
distribution
Description: The generalised lambda distribution, or Tukey lambda
distribution, provides a wide variety of shapes with one
functional form. This package provides random numbers,
quantiles, probabilities, densities and plots. It also
includes an implementation of the starship estimation method
for the distribution.
Changelog | 4 ++++
DESCRIPTION | 27 ++++++++++++++++-----------
R/fxgld.R | 2 +-
R/methods.R |only
R/starship.R | 7 ++++++-
man/GeneralisedLambdaDistribution.Rd | 14 ++++++++------
man/StarshipClassDocs.Rd |only
man/plotgl.Rd | 4 ++--
man/starship.Rd | 30 +++++++++++++++++++++---------
man/starship.adaptivegrid.Rd | 4 ++--
man/starship.obj.Rd | 8 ++++----
11 files changed, 64 insertions(+), 36 deletions(-)
Author: Ole F. Christensen
Diff between geoRglm versions 0.8-25 dated 2009-04-15 and 0.8-26 dated 2009-10-15
Title: geoRglm - a package for generalised linear spatial models
Description: Functions for inference in generalised linear spatial
models. The posterior and predictive inference is based on
Markov chain Monte Carlo methods. Package geoRglm is an
extension to the package geoR, which must be installed first.
DESCRIPTION | 8 ++++----
inst/doc/geoRglmintro.pdf |binary
man/covariog.Rd | 2 +-
man/covariog.model.env.Rd | 2 +-
man/glsm.mcmc.Rd | 2 +-
man/likfit.glsm.Rd | 2 +-
man/proflik.glsm.Rd | 2 +-
man/summary.likGLSM.Rd | 6 +++---
8 files changed, 12 insertions(+), 12 deletions(-)
Author: Whit Armstrong
Diff between fts versions 0.7.5 dated 2008-07-16 and 0.7.6 dated 2009-10-15
Title: R interface to tslib (a time series library in c++)
Description: fast operations for time series objects
fts-0.7.5/fts/src/RAbstraction/Rutilities.cpp |only
fts-0.7.5/fts/src/tslib/tslib/date.policies/date.breaks.hpp |only
fts-0.7.5/fts/src/tslib/tslib/range.specifier/range.opp.hpp |only
fts-0.7.5/fts/src/tslib/tslib/ts.opps/ts.opps.predeclare.hpp |only
fts-0.7.5/fts/src/tslib/tslib/vector.transform/lag.hpp |only
fts-0.7.5/fts/src/tslib/tslib/vector.transform/lead.hpp |only
fts-0.7.6/fts/.gitignore | 3
fts-0.7.6/fts/.gitmodules | 6
fts-0.7.6/fts/DESCRIPTION | 8
fts-0.7.6/fts/NAMESPACE | 77 +
fts-0.7.6/fts/R/fts.R | 439 +++++++
fts-0.7.6/fts/man/as.fts.Rd | 4
fts-0.7.6/fts/man/frequency.convert.Rd | 6
fts-0.7.6/fts/man/fts.Rd | 8
fts-0.7.6/fts/man/indicators.Rd |only
fts-0.7.6/fts/man/intersect.all.Rd |only
fts-0.7.6/fts/man/lm.fts.Rd |only
fts-0.7.6/fts/man/read.write.fts.Rd | 8
fts-0.7.6/fts/src/R.tslib.backend/R.tseries.data.backend.hpp | 39
fts-0.7.6/fts/src/R.tslib.backend/R.tseries.object.convert.hpp | 12
fts-0.7.6/fts/src/RAbstraction/.gitignore |only
fts-0.7.6/fts/src/RAbstraction/R.backend.hpp |only
fts-0.7.6/fts/src/RAbstraction/Rmatrix.hpp |only
fts-0.7.6/fts/src/RAbstraction/Robject.hpp |only
fts-0.7.6/fts/src/RAbstraction/Rsexp.allocator.templates.hpp | 39
fts-0.7.6/fts/src/RAbstraction/Rtype.hpp | 60 -
fts-0.7.6/fts/src/RAbstraction/Rutilities.hpp | 61 -
fts-0.7.6/fts/src/RAbstraction/Rvector.hpp | 146 ++
fts-0.7.6/fts/src/analog.h |only
fts-0.7.6/fts/src/interface.cpp | 305 ++---
fts-0.7.6/fts/src/interface.h | 15
fts-0.7.6/fts/src/r.transform.template.h | 105 -
fts-0.7.6/fts/src/r.window.template.h | 106 +
fts-0.7.6/fts/src/tslib/test/Makefile | 2
fts-0.7.6/fts/src/tslib/test/test.cpp | 561 +++++++---
fts-0.7.6/fts/src/tslib/tslib/date.policies/date.partition.hpp |only
fts-0.7.6/fts/src/tslib/tslib/date.policies/posix.date.policy.hpp | 30
fts-0.7.6/fts/src/tslib/tslib/range.specifier/rangeSpecifier.hpp | 21
fts-0.7.6/fts/src/tslib/tslib/ts.opps/ifthenelse.hpp |only
fts-0.7.6/fts/src/tslib/tslib/ts.opps/ts.opps.hpp |only
fts-0.7.6/fts/src/tslib/tslib/ts.opps/ts.promotion.hpp |only
fts-0.7.6/fts/src/tslib/tslib/ts.opps/ts.scalar.opp.hpp | 127 +-
fts-0.7.6/fts/src/tslib/tslib/ts.opps/ts.ts.opp.hpp | 69 -
fts-0.7.6/fts/src/tslib/tslib/tseries.data.hpp | 13
fts-0.7.6/fts/src/tslib/tslib/tseries.hpp | 382 ++----
fts-0.7.6/fts/src/tslib/tslib/utils/breaks.hpp |only
fts-0.7.6/fts/src/tslib/tslib/utils/cbind.hpp |only
fts-0.7.6/fts/src/tslib/tslib/utils/window.apply.hpp | 22
fts-0.7.6/fts/src/tslib/tslib/utils/window.function.hpp | 18
fts-0.7.6/fts/src/tslib/tslib/utils/window.intersection.apply.hpp | 21
fts-0.7.6/fts/src/tslib/tslib/vector.summary.hpp | 5
fts-0.7.6/fts/src/tslib/tslib/vector.summary/close.hpp |only
fts-0.7.6/fts/src/tslib/tslib/vector.summary/contains.na.hpp |only
fts-0.7.6/fts/src/tslib/tslib/vector.summary/mean.hpp | 2
fts-0.7.6/fts/src/tslib/tslib/vector.summary/neg.sum.hpp |only
fts-0.7.6/fts/src/tslib/tslib/vector.summary/open.hpp |only
fts-0.7.6/fts/src/tslib/tslib/vector.summary/pos.sum.hpp |only
fts-0.7.6/fts/src/tslib/tslib/vector.summary/rsi.hpp |only
fts-0.7.6/fts/src/tslib/tslib/vector.summary/stdev.hpp | 2
fts-0.7.6/fts/src/tslib/tslib/vector.transform.hpp | 4
fts-0.7.6/fts/src/tslib/tslib/vector.transform/ema.hpp |only
fts-0.7.6/fts/src/tslib/tslib/vector.transform/ema.traits.hpp |only
fts-0.7.6/fts/src/tslib/tslib/vector.transform/fill.bwd.hpp | 2
63 files changed, 1879 insertions(+), 849 deletions(-)
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 1.1-5 dated 2009-07-18 and 1.1-7 dated 2009-10-15
DESCRIPTION | 6 - inst/CITATION | 1 inst/doc/emulex.pdf | 242 +++++++++++++++++++++++------------------------ inst/doc/uncertainty.bib | 102 +++++++++++++++++++ man/betahat.fun.Rd | 2 man/corr.Rd | 6 - man/pad.Rd | 6 - man/regressor.basis.Rd | 2 man/scales.likelihood.Rd | 6 - 9 files changed, 238 insertions(+), 135 deletions(-)
Author: Lukasz Nieweglowski.
Diff between clv versions 0.3-1 dated 2009-02-17 and 0.3-2 dated 2009-10-15
Title: Cluster Validation Techniques
Description: Package contains most of the popular internal and external
cluster validation methods ready to use for the most of the
outputs produced by functions coming from package "cluster".
Package contains also functions and examples of usage for
cluster stability approach that might be applied to algorithms
implemented in "cluster" package as well as user defined
clustering algorithms.
DESCRIPTION | 19 ++++++++++++-------
README | 12 ++++++------
man/cluster_stability_usr.Rd | 2 +-
src/cluster_scatter.c | 2 +-
4 files changed, 20 insertions(+), 15 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 1.1-6 dated 2009-07-23 and 1.1-7 dated 2009-10-15
DESCRIPTION | 6 inst/CITATION | 1 inst/doc/calex.pdf | 818 +++++++++++++++++++++++++++-------------------------- 3 files changed, 424 insertions(+), 401 deletions(-)
Author: Charles C. Berry
Diff between bqtl versions 1.0-24 dated 2009-01-12 and 1.0-25 dated 2009-10-15
Title: Bayesian QTL mapping toolkit
Description: QTL mapping toolkit for inbred crosses and recombinant
inbred lines. Includes maximum likelihood and Bayesian tools.
CHANGES | 3 +++
DESCRIPTION | 16 +++++++++-------
R/version.bqtl.R | 2 +-
man/linear.bayes.Rd | 3 +--
man/little.map.frame.Rd | 3 +--
man/make.loc.right.Rd | 3 ---
man/marker.levels.Rd | 4 ++--
7 files changed, 17 insertions(+), 17 deletions(-)
Author: Robin K. S. Hankin (R) and Luke G. West (C++)
Title: A generalization of Fisher's exact test
Description: A generalization of Fisher's exact test that allows for
structural zeros.
Diff between aylmer versions 1.0-3 dated 2009-01-20 and 1.0-4 dated 2009-10-15
aylmer-1.0-3/aylmer/inst/doc/jss.bst |only aylmer-1.0-3/aylmer/inst/doc/jss.cls |only aylmer-1.0-3/aylmer/inst/doc/jsslogo.jpg |only aylmer-1.0-4/aylmer/DESCRIPTION | 10 aylmer-1.0-4/aylmer/R/zzz.R | 9 aylmer-1.0-4/aylmer/inst/doc/fishervig.pdf | 3974 +++++++++++++---------------- aylmer-1.0-4/aylmer/man/allboards.Rd | 26 aylmer-1.0-4/aylmer/man/aylmer.test.Rd | 1 aylmer-1.0-4/aylmer/man/best.Rd | 16 aylmer-1.0-4/aylmer/man/randomprobs.Rd | 9 10 files changed, 1961 insertions(+), 2084 deletions(-)
Author: Rich FitzJohn & Ian Dickie
Title: TRFLP Analysis and Matching Package for R
Description: TRAMPR is an R package for matching terminal restriction
fragment length polymorphism (TRFLP) profiles between unknown
samples and a database of knowns. TRAMPR facilitates analysis
of many unknown profiles at once, and provides tools for
working directly with electrophoresis output through to
generating summaries suitable for community analyses with R's
rich set of statistical functions. TRAMPR also resolves the
issues of multiple TRFLP profiles within a species, and shared
TRFLP profiles across species.
Diff between TRAMPR versions 1.0-5 dated 2009-05-24 and 1.0-6 dated 2009-10-15
DESCRIPTION | 6 +++--- inst/CITATION | 7 ++++--- inst/doc/TRAMPRdemo.pdf |binary 3 files changed, 7 insertions(+), 6 deletions(-)
Author: Jeffrey A. Ryan
Title: R API to Oracle Berkeley DB
Description: Provides R Interface to Embedded Oracle Berkeley DB(tm)
Diff between RBerkeley versions 0.7-0 dated 2009-08-13 and 0.7-1 dated 2009-10-15
DESCRIPTION | 9 NAMESPACE | 1 R/db.R | 11 configure | 1563 +++++++++++++++++++++++++++++++++++++++++++-------- configure.in | 221 +++---- inst/INSTALL | 38 + inst/doc/DBIntro.pdf | 6 man/Databases.Rd | 1 src/Makevars | 16 src/Makevars.in | 16 src/db.c | 17 src/mkFlags.c | 8 12 files changed, 1546 insertions(+), 361 deletions(-)
Author: Robin K. S. Hankin
Title: The Davies quantile function
Description: The Davies quantile function and the Generalized Lambda
distribution
Diff between Davies versions 1.1-4 dated 2009-01-20 and 1.1-5 dated 2009-10-15
DESCRIPTION | 13 ++++++++----- R/parzfns.R | 2 +- inst/CITATION | 2 +- man/davies.moment.Rd | 24 ++++++++++++------------ man/expected.gld.Rd | 12 +++++++----- man/hypergeo.Rd | 10 +++++++--- man/ozturk.Rd | 9 +++++---- 7 files changed, 41 insertions(+), 31 deletions(-)
Author: Robin K. S. Hankin
Title: Bayesian Analysis of Computer Code Output (BACCO)
Description: The BACCO bundle of packages is replaced by the BACCO
package, which provides a vignette that illustrates the
constituent packages (emulator, approximator, calibrator) in
use.
Diff between BACCO versions 2.0-2 dated 2009-07-23 and 2.0-4 dated 2009-10-15
DESCRIPTION | 6 inst/CITATION |only inst/doc/both_papers.Rnw | 9 inst/doc/both_papers.pdf | 954 +++++++++++++++++++++++------------------------ 4 files changed, 479 insertions(+), 490 deletions(-)
Author: Achim Zeileis, Guan Yang
Title: Penn World Table
Description: The Penn World Table provides purchasing power parity and
national income accounts converted to international prices for
189 countries for some or all of the years 1950-2007.
Diff between pwt versions 6.2-2 dated 2009-02-05 and 6.3-0 dated 2009-10-14
COPYRIGHTS | 2 +- DESCRIPTION | 12 +++++++----- NEWS | 5 +++++ data/pwt6.3.rda |only inst/CITATION | 12 ++++++------ man/pwt5.6.Rd | 2 +- man/pwt6.1.Rd | 2 +- man/pwt6.2.Rd | 2 +- man/pwt6.3.Rd |only 9 files changed, 22 insertions(+), 15 deletions(-)
Author: Jeffrey A. Ryan, Josh M. Ulrich
Title: Extensible Time Series
Description: Provide for uniform handling of R's different time-based
data classes by extending zoo, maximizing native format
information preservation and allowing for user level
customization and extension, while simplifying cross-class
interoperability.
Diff between xts versions 0.6-7 dated 2009-07-22 and 0.6-8 dated 2009-10-14
DESCRIPTION | 8 NAMESPACE | 10 R/align.time.R |only R/coredata.xts.R | 2 R/endpoints.R | 6 R/merge.R | 9 R/parse8601.R |only R/periodicity.R | 50 R/print.R | 2 R/rollapply.xts.R |only R/utils.R | 6 R/xts.R | 3 R/xts.methods.R | 118 -- R/zzz.R | 16 inst/doc/xts.pdf | 3030 ++++++++++++++++++++++++++-------------------------- man/align.time.Rd |only man/coredata.xts.Rd | 2 man/parseISO8601.Rd |only man/split.Rd | 4 man/subset.xts.Rd | 51 man/to.period.Rd | 2 man/xts-package.Rd | 1 src/any.c |only src/binsearch.c |only src/coredata.c | 39 src/init.c | 9 src/merge.c | 3 src/subset.c | 339 ++--- src/subset.old.c |only src/xts.h | 1 30 files changed, 1855 insertions(+), 1856 deletions(-)
Author: Mario Hasler
Title: Simultaneous Comparisons for Multiple Endpoints
Description: Simultaneous tests and confidence intervals for general
linear hypotheses when there is more than one primary response
variable (endpoint). The procedure of Hasler (2009) is applied
for differences or ratios of means of normally distributed
data. The covariance matrices (containing the covariances
between the endpoints) may be assumed to be equal or possibly
unequal for the different groups.
Diff between SimComp versions 1.3 dated 2009-03-25 and 1.4.1 dated 2009-10-14
DESCRIPTION | 8 ++++---- man/SimCiDiff.Rd | 5 +++++ man/SimCiRat.Rd | 5 +++++ man/SimComp-package.Rd | 13 ++++++++----- man/SimTestDiff.Rd | 5 +++++ man/SimTestRat.Rd | 5 +++++ 6 files changed, 32 insertions(+), 9 deletions(-)
Author: Iain M. Johnstone, Zongming Ma, Patrick O. Perry and Morteza
Shahram.
Title: Distributions, Statistics and Tests derived from Random Matrix
Theory
Description: Functions for working with the Tracy-Widom laws and other
distributions related to the eigenvalues of large Wishart
matrices.
The tables for computing the Tracy-Widom densities and distribution
functions were computed by Momar Dieng's MATLAB package
"RMLab", which is available on his homepage at
http://math.arizona.edu/~momar/research.htm
This package is part of a collaboration between Iain Johnstone,
Zongming Ma, Patrick Perry, and Morteza Shahram. It will soon
be replaced by a package with more accuracy and built-in
support for relevant statistical tests.
Diff between RMTstat versions 0.1 dated 2009-04-17 and 0.2 dated 2009-10-14
RMTstat-0.1/RMTstat/R/wishart.max.R |only RMTstat-0.1/RMTstat/R/wishart.spike.R |only RMTstat-0.1/RMTstat/man/wishart.max.par.Rd |only RMTstat-0.1/RMTstat/man/wishart.spike.par.Rd |only RMTstat-0.2/RMTstat/DESCRIPTION | 15 ++++---- RMTstat-0.2/RMTstat/LICENSE | 3 + RMTstat-0.2/RMTstat/NAMESPACE | 11 +++--- RMTstat-0.2/RMTstat/R/WishartMax.R |only RMTstat-0.2/RMTstat/R/WishartSpike.R |only RMTstat-0.2/RMTstat/R/mp.R |only RMTstat-0.2/RMTstat/inst/CITATION | 22 +++++++----- RMTstat-0.2/RMTstat/man/MarcenkoPastur.Rd |only RMTstat-0.2/RMTstat/man/TracyWidom.Rd | 2 - RMTstat-0.2/RMTstat/man/WishartMax.Rd | 42 ++++++++++++------------ RMTstat-0.2/RMTstat/man/WishartMaxPar.Rd |only RMTstat-0.2/RMTstat/man/WishartSpike.Rd | 46 ++++++++++++++------------- RMTstat-0.2/RMTstat/man/WishartSpikePar.Rd |only RMTstat-0.2/RMTstat/tests/tests.R | 8 ++-- 18 files changed, 79 insertions(+), 70 deletions(-)
Author: Ravi Varadhan
Title: Solving and Optimizing Large-Scale Nonlinear Systems
Description: Barzilai-Borwein spectral methods for solving nonlinear
system of equations, and for optimizing nonlinear objective
functions subject to simple constraints. A tutorial style
introduction to this package is available in a vignette on the
CRAN download page or, when the package is loaded in an R
session, with vignette("BB").
Diff between BB versions 2009.6-1 dated 2009-06-14 and 2009.9-1 dated 2009-10-14
DESCRIPTION | 17 ++-- NEWS | 15 ++++ R/multiStart.R | 50 ++++++------- inst/CITATION | 37 +++++---- inst/doc/BB.Stex | 164 +++++++++++++++++++++++++++++++++++++++++--- inst/doc/BB.pdf |binary inst/doc/BB_JSS.bib |only inst/doc/BBvignetteJSS.Stex |only inst/doc/BBvignetteJSS.pdf |only man/BB-package.Rd | 2 man/BBoptim.Rd | 3 man/BBsolve.Rd | 3 man/dfsane.Rd | 4 - man/multiStart.Rd | 3 man/sane.Rd | 6 - man/spg.Rd | 7 - tests/multiStartHDP.R | 5 + tests/uniroot.R |only 18 files changed, 242 insertions(+), 74 deletions(-)
Author: Frank Schaarschmidt, Daniel Gerhard
Title: Confidence intervals for two sample comparisons
Description: Calculation of the parametric, nonparametric confidence
intervals for the difference or ratio of location parameters
and for the difference, ratio and odds-ratio of binomial
proportions for comparison of independent samples. CI are not
adjusted for multiplicity. A by statement allows calculation of
CI separately for the levels of further factors. Please note
that, when a (generalized) linear model can be reasonably
assumed, there are smarter methods for CI calculation available
than are implemented in this package!
Diff between pairwiseCI versions 0.1-15 dated 2008-11-04 and 0.1-17 dated 2009-10-14
pairwiseCI-0.1-15/pairwiseCI/R/subsetfl.R |only pairwiseCI-0.1-15/pairwiseCI/man/subsetfl.Rd |only pairwiseCI-0.1-17/pairwiseCI/DESCRIPTION | 39 ++-- pairwiseCI-0.1-17/pairwiseCI/R/Lognorm.ratio.R | 2 pairwiseCI-0.1-17/pairwiseCI/man/Oats.Rd | 2 pairwiseCI-0.1-17/pairwiseCI/man/Prop.test.Rd | 8 pairwiseCI-0.1-17/pairwiseCI/man/as.data.frame.pairwiseCI.Rd | 2 pairwiseCI-0.1-17/pairwiseCI/man/as.data.frame.pairwiseMEP.Rd | 10 - pairwiseCI-0.1-17/pairwiseCI/man/behenic.Rd | 4 pairwiseCI-0.1-17/pairwiseCI/man/dieldrin.Rd | 2 pairwiseCI-0.1-17/pairwiseCI/man/pairwiseCI.Rd | 88 ++++------ pairwiseCI-0.1-17/pairwiseCI/man/pairwiseCI.package.Rd | 5 pairwiseCI-0.1-17/pairwiseCI/man/pairwiseCIInt.Rd | 57 +++--- pairwiseCI-0.1-17/pairwiseCI/man/pairwiseCImethodsCont.Rd | 72 ++++---- pairwiseCI-0.1-17/pairwiseCI/man/pairwiseCImethodsCount.Rd | 18 +- pairwiseCI-0.1-17/pairwiseCI/man/pairwiseCImethodsProp.Rd | 28 +-- pairwiseCI-0.1-17/pairwiseCI/man/pairwiseMEP.Rd | 14 - pairwiseCI-0.1-17/pairwiseCI/man/pairwiseTest.Rd | 46 ++--- pairwiseCI-0.1-17/pairwiseCI/man/pairwiseTestInt.Rd | 16 - pairwiseCI-0.1-17/pairwiseCI/man/plot.pairwiseCI.Rd | 30 +-- pairwiseCI-0.1-17/pairwiseCI/man/plotCI.pairwiseMEP.Rd | 9 - pairwiseCI-0.1-17/pairwiseCI/man/print.pairwiseCI.Rd | 2 pairwiseCI-0.1-17/pairwiseCI/man/print.pairwiseTest.Rd | 2 pairwiseCI-0.1-17/pairwiseCI/man/print.summary.pairwiseCI.Rd | 4 pairwiseCI-0.1-17/pairwiseCI/man/print.summary.pairwiseTest.Rd | 4 pairwiseCI-0.1-17/pairwiseCI/man/profileDG.Rd | 6 pairwiseCI-0.1-17/pairwiseCI/man/repellent.Rd | 2 pairwiseCI-0.1-17/pairwiseCI/man/rooting.Rd | 6 pairwiseCI-0.1-17/pairwiseCI/man/summary.pairwiseCI.Rd | 2 pairwiseCI-0.1-17/pairwiseCI/man/summary.pairwiseTest.Rd | 8 30 files changed, 244 insertions(+), 244 deletions(-)
Author: Arthur Allignol
Title: Nelson-Aalen estimator of the cumulative hazard in multistate
models
Description: This package computes the Nelson-Aalen estimator of the
cumulative transition hazard for multistate models.
Diff between mvna versions 1.1-9 dated 2009-04-14 and 1.1-10 dated 2009-10-14
DESCRIPTION | 8 ++++---- man/msmplot.Rd | 2 +- man/sir.adm.Rd | 2 +- 3 files changed, 6 insertions(+), 6 deletions(-)
Author: Gemechis Dilba Djira, Mario Hasler, Daniel Gerhard, Frank
Schaarschmidt
Title: Inferences for ratios of coefficients in the general linear
model
Description: With this package, it is possible to perform
(simultaneous) inferences for ratios of linear combinations of
coefficients in the general linear model. In particular, tests
and confidence interval estimations for ratios of treatment
means in the normal one-way layout and confidence interval
estimations like in (multiple) slope ratio and parallel line
assays can be carried out. Moreover, it is possible to
calculate the sample sizes required in comparisons with a
control based on relative margins. For the simple two-sample
problem, functions for a t-test for ratio-formatted hypotheses
and the corresponding Fieller confidence interval are provided
assuming homogeneous or heterogeneous group variances.
Diff between mratios versions 1.3.10 dated 2009-04-03 and 1.3.11 dated 2009-10-14
DESCRIPTION | 6 +++--- man/mratios.package.Rd | 3 +-- man/t.test.ratio.Rd | 8 ++++---- 3 files changed, 8 insertions(+), 9 deletions(-)
Author: Seung W. Choi, with contributions from Laura E. Gibbons and
Paul K. Crane
Title: Logistic Regression Differential Item Functioning using IRT
Description: Analysis of Differential Item Functioning (DIF) for
dichotomous and polytomous items using an iterative hybrid of
(ordinal) logistic regression and item response theory (IRT).
Diff between lordif versions 0.1-1 dated 2009-07-26 and 0.1-2 dated 2009-10-14
DESCRIPTION | 11 ++++++----- R/calcprob.R | 2 +- R/calctheta.R | 2 +- R/collapse.R | 2 +- R/equate.R | 2 +- R/extract.R | 2 +- R/getcutoff.R | 2 +- R/lordif.R | 20 +++++++++++++++++--- R/montecarlo.R | 2 +- R/plotDIF.R | 6 +++--- R/plotMC.R | 5 +++-- R/probgrm.R | 2 +- R/recode.R | 2 +- R/rundif.R | 2 +- R/runolr.R | 2 +- R/separate.R | 6 +++--- R/tcc.R | 2 +- data/Anxiety.rda |binary man/lordif-package.Rd | 8 ++++---- man/lordif.Rd | 2 +- man/montecarlo.Rd | 27 ++++++++++++++------------- 21 files changed, 63 insertions(+), 46 deletions(-)
Author: Mikis Stasinopoulos
Diff between gamlss.tr versions 3.0-0 dated 2009-07-21 and 3.0-1 dated 2009-10-14
Title: Generating and fitting truncated (gamlss.family) distributions
Description: This is an add on package to GAMLSS. The purpose of this
package is to allow users to defined truncated distributions in
GAMLSS models. The main function gen.trun() generates truncated
version of an existing GAMLSS family distribution.
DESCRIPTION | 8 ++++----
man/gamlss.tr.package.Rd | 2 --
man/gen.trun.Rd | 9 ++++-----
man/trun.Rd | 10 +++++-----
man/trun.d.Rd | 10 ++++------
man/trun.p.Rd | 8 ++++----
man/trun.q.Rd | 10 ++++------
man/trun.r.Rd | 8 ++++----
8 files changed, 29 insertions(+), 36 deletions(-)
Author: Mikis Stasinopoulos
Diff between gamlss.nl versions 3.0-0 dated 2009-07-21 and 3.0-1 dated 2009-10-14
Title: Fitting non linear parametric GAMLSS models
Description: This is an add on package to GAMLSS. It allows one extra
method for fitting GAMLSS models. The main function nlgamlss()
can fit any parametric (up to four parameter) GAMLSS
distribution.
DESCRIPTION | 8 ++++----
R/nlgamlss.R | 12 ++++++------
man/NL.control.Rd | 3 ---
man/finterp.Rd | 6 +++---
man/gamlss.nl.package.Rd | 6 ++----
man/la.Rd | 3 +--
man/nl.Rd | 1 -
man/nlgamlss.Rd | 7 +++----
8 files changed, 19 insertions(+), 27 deletions(-)
Author: Mikis Stasinopoulos
Diff between gamlss.mx versions 3.0-0 dated 2009-07-21 and 3.0-1 dated 2009-10-14
Title: A GAMLSS add on package for fitting mixture distributions
Description: The main purpose of this package is to allow fitting of
mixture distributions with GAMLSS models.
DESCRIPTION | 8 ++++----
R/gamlssMX-10-11-07.R | 24 ++++++++++++------------
R/gamlssNP.R | 24 ++++++++++++------------
man/MX.control.Rd | 6 ++----
man/NP.control.Rd | 5 +----
man/dMX.Rd | 6 ++----
man/enzyme.Rd | 9 +--------
man/gamlss.mx.package.Rd | 2 +-
man/gamlssMX.Rd | 11 +++--------
man/gamlssNP.Rd | 5 ++---
10 files changed, 40 insertions(+), 60 deletions(-)
Author: Mikis Stasinopoulos
Diff between gamlss.dist versions 3.0-0 dated 2009-07-21 and 3.0-1 dated 2009-10-14
Title: Distributions to be used for GAMLSS modelling.
Description: This package contains the distributions for GAMLSS
modelling.
gamlss.dist-3.0-0/gamlss.dist/tests |only
gamlss.dist-3.0-1/gamlss.dist/DESCRIPTION | 8 -
gamlss.dist-3.0-1/gamlss.dist/R/BB.R | 12 +-
gamlss.dist-3.0-1/gamlss.dist/R/BCCG.R | 10 +-
gamlss.dist-3.0-1/gamlss.dist/R/BCPE.R | 10 +-
gamlss.dist-3.0-1/gamlss.dist/R/BCT.R | 14 +--
gamlss.dist-3.0-1/gamlss.dist/R/BE.R | 6 -
gamlss.dist-3.0-1/gamlss.dist/R/BEINF.R | 14 +--
gamlss.dist-3.0-1/gamlss.dist/R/BEOI.r | 12 +-
gamlss.dist-3.0-1/gamlss.dist/R/BEZI.r | 10 +-
gamlss.dist-3.0-1/gamlss.dist/R/BEo.R | 6 -
gamlss.dist-3.0-1/gamlss.dist/R/BI.R | 8 -
gamlss.dist-3.0-1/gamlss.dist/R/DELAPORT.R | 14 +--
gamlss.dist-3.0-1/gamlss.dist/R/EGB2.R | 4
gamlss.dist-3.0-1/gamlss.dist/R/EXP.R | 11 +-
gamlss.dist-3.0-1/gamlss.dist/R/GA.R | 16 +--
gamlss.dist-3.0-1/gamlss.dist/R/GB1.R | 8 -
gamlss.dist-3.0-1/gamlss.dist/R/GB2.R | 6 -
gamlss.dist-3.0-1/gamlss.dist/R/GG.R | 16 +--
gamlss.dist-3.0-1/gamlss.dist/R/GIG.R | 6 -
gamlss.dist-3.0-1/gamlss.dist/R/GT.R | 4
gamlss.dist-3.0-1/gamlss.dist/R/GU.R | 13 +--
gamlss.dist-3.0-1/gamlss.dist/R/IG.R | 6 -
gamlss.dist-3.0-1/gamlss.dist/R/JSU.R | 4
gamlss.dist-3.0-1/gamlss.dist/R/JSUo.R | 4
gamlss.dist-3.0-1/gamlss.dist/R/LNO.R | 10 +-
gamlss.dist-3.0-1/gamlss.dist/R/Logistic.R | 13 +--
gamlss.dist-3.0-1/gamlss.dist/R/NBI.R | 12 +-
gamlss.dist-3.0-1/gamlss.dist/R/NBII.R | 10 +-
gamlss.dist-3.0-1/gamlss.dist/R/NET.R | 4
gamlss.dist-3.0-1/gamlss.dist/R/NO.r | 30 +++----
gamlss.dist-3.0-1/gamlss.dist/R/NOF.R | 6 -
gamlss.dist-3.0-1/gamlss.dist/R/PE.R | 4
gamlss.dist-3.0-1/gamlss.dist/R/PE2.R | 4
gamlss.dist-3.0-1/gamlss.dist/R/PIG.R | 12 +-
gamlss.dist-3.0-1/gamlss.dist/R/RG.R | 16 +--
gamlss.dist-3.0-1/gamlss.dist/R/RGE.R | 8 -
gamlss.dist-3.0-1/gamlss.dist/R/SEP.R | 4
gamlss.dist-3.0-1/gamlss.dist/R/SEP1.R | 4
gamlss.dist-3.0-1/gamlss.dist/R/SEP2.R | 4
gamlss.dist-3.0-1/gamlss.dist/R/SEP3.R | 10 +-
gamlss.dist-3.0-1/gamlss.dist/R/SEP4.R | 6 -
gamlss.dist-3.0-1/gamlss.dist/R/SHASH.R | 4
gamlss.dist-3.0-1/gamlss.dist/R/SI.R | 14 +--
gamlss.dist-3.0-1/gamlss.dist/R/SICHEL.R | 16 +--
gamlss.dist-3.0-1/gamlss.dist/R/ST1.R | 4
gamlss.dist-3.0-1/gamlss.dist/R/ST2.R | 4
gamlss.dist-3.0-1/gamlss.dist/R/ST3.R | 14 +--
gamlss.dist-3.0-1/gamlss.dist/R/ST4.R | 10 +-
gamlss.dist-3.0-1/gamlss.dist/R/ST5.R | 4
gamlss.dist-3.0-1/gamlss.dist/R/TF.R | 10 +-
gamlss.dist-3.0-1/gamlss.dist/R/WEI.R | 17 +---
gamlss.dist-3.0-1/gamlss.dist/R/WEI2.R | 18 ++--
gamlss.dist-3.0-1/gamlss.dist/R/WEI3.R | 8 -
gamlss.dist-3.0-1/gamlss.dist/R/ZAGA.R | 6 -
gamlss.dist-3.0-1/gamlss.dist/R/ZAIG.R | 6 -
gamlss.dist-3.0-1/gamlss.dist/R/ZIP.R | 8 -
gamlss.dist-3.0-1/gamlss.dist/R/ZIP2.R | 10 +-
gamlss.dist-3.0-1/gamlss.dist/R/exGAUS.R | 12 +-
gamlss.dist-3.0-1/gamlss.dist/R/logNO.R | 8 -
gamlss.dist-3.0-1/gamlss.dist/R/po.r | 8 -
gamlss.dist-3.0-1/gamlss.dist/man/BB.Rd | 6 -
gamlss.dist-3.0-1/gamlss.dist/man/BCCG.Rd | 6 -
gamlss.dist-3.0-1/gamlss.dist/man/BCPE.Rd | 6 -
gamlss.dist-3.0-1/gamlss.dist/man/BCt.Rd | 6 -
gamlss.dist-3.0-1/gamlss.dist/man/BE.Rd | 8 -
gamlss.dist-3.0-1/gamlss.dist/man/BEINF.Rd | 7 -
gamlss.dist-3.0-1/gamlss.dist/man/BEOI.Rd | 6 -
gamlss.dist-3.0-1/gamlss.dist/man/BEZI.Rd | 6 -
gamlss.dist-3.0-1/gamlss.dist/man/BI.Rd | 8 -
gamlss.dist-3.0-1/gamlss.dist/man/DEL.Rd | 6 -
gamlss.dist-3.0-1/gamlss.dist/man/EGB2.Rd | 15 +--
gamlss.dist-3.0-1/gamlss.dist/man/EXP.Rd | 7 -
gamlss.dist-3.0-1/gamlss.dist/man/GA.Rd | 8 -
gamlss.dist-3.0-1/gamlss.dist/man/GB1.Rd | 9 --
gamlss.dist-3.0-1/gamlss.dist/man/GB2.Rd | 14 +--
gamlss.dist-3.0-1/gamlss.dist/man/GG.Rd | 9 --
gamlss.dist-3.0-1/gamlss.dist/man/GIG.Rd | 7 -
gamlss.dist-3.0-1/gamlss.dist/man/GT.Rd | 10 +-
gamlss.dist-3.0-1/gamlss.dist/man/GU.rd | 6 -
gamlss.dist-3.0-1/gamlss.dist/man/IG.Rd | 6 -
gamlss.dist-3.0-1/gamlss.dist/man/JSU.Rd | 8 -
gamlss.dist-3.0-1/gamlss.dist/man/JSUoriginal.Rd | 7 -
gamlss.dist-3.0-1/gamlss.dist/man/LNO.Rd | 8 -
gamlss.dist-3.0-1/gamlss.dist/man/LOGISTIC.Rd | 6 -
gamlss.dist-3.0-1/gamlss.dist/man/NBI.Rd | 6 -
gamlss.dist-3.0-1/gamlss.dist/man/NBII.Rd | 6 -
gamlss.dist-3.0-1/gamlss.dist/man/NET.Rd | 6 -
gamlss.dist-3.0-1/gamlss.dist/man/NO.Rd | 6 -
gamlss.dist-3.0-1/gamlss.dist/man/NO2.Rd | 6 -
gamlss.dist-3.0-1/gamlss.dist/man/NOF.Rd | 6 -
gamlss.dist-3.0-1/gamlss.dist/man/PE.Rd | 8 -
gamlss.dist-3.0-1/gamlss.dist/man/PIG.Rd | 7 -
gamlss.dist-3.0-1/gamlss.dist/man/PO.Rd | 6 -
gamlss.dist-3.0-1/gamlss.dist/man/RG.Rd | 6 -
gamlss.dist-3.0-1/gamlss.dist/man/RGE.Rd | 6 -
gamlss.dist-3.0-1/gamlss.dist/man/SEP.Rd | 8 -
gamlss.dist-3.0-1/gamlss.dist/man/SEP1.Rd | 17 +---
gamlss.dist-3.0-1/gamlss.dist/man/SHASH.Rd | 8 -
gamlss.dist-3.0-1/gamlss.dist/man/SI.Rd | 8 -
gamlss.dist-3.0-1/gamlss.dist/man/SICHEL.Rd | 6 -
gamlss.dist-3.0-1/gamlss.dist/man/ST1.Rd | 16 +--
gamlss.dist-3.0-1/gamlss.dist/man/TF.Rd | 6 -
gamlss.dist-3.0-1/gamlss.dist/man/WEI.Rd | 6 -
gamlss.dist-3.0-1/gamlss.dist/man/WEI2.Rd | 6 -
gamlss.dist-3.0-1/gamlss.dist/man/WEI3.Rd | 12 +-
gamlss.dist-3.0-1/gamlss.dist/man/ZAGA.Rd | 9 --
gamlss.dist-3.0-1/gamlss.dist/man/ZAIG.Rd | 9 --
gamlss.dist-3.0-1/gamlss.dist/man/ZIP.Rd | 8 -
gamlss.dist-3.0-1/gamlss.dist/man/ZIP2.Rd | 8 -
gamlss.dist-3.0-1/gamlss.dist/man/checklink.Rd | 6 -
gamlss.dist-3.0-1/gamlss.dist/man/exGAUS.Rd | 8 -
gamlss.dist-3.0-1/gamlss.dist/man/gamlss.dist.package.Rd | 3
gamlss.dist-3.0-1/gamlss.dist/man/gamlss.family.Rd | 61 +++++++--------
gamlss.dist-3.0-1/gamlss.dist/man/make.link.gamlss.Rd | 2
115 files changed, 504 insertions(+), 517 deletions(-)
Author: Mikis Stasinopoulos
Diff between gamlss.data versions 3.0-0 dated 2009-07-21 and 3.0-1 dated 2009-10-14
Title: GAMLSS Data.
Description: Data for GAMLSS models.
DESCRIPTION | 8 ++++----
man/aep.Rd | 2 +-
man/bd.Rd | 2 --
man/hodges.Rd | 4 +---
man/usair.Rd | 3 +--
5 files changed, 7 insertions(+), 12 deletions(-)
Author: Mikis Stasinopoulos
Diff between gamlss.cens versions 3.0.0 dated 2009-07-21 and 3.0.1 dated 2009-10-14
Title: Fitting an interval response variable using gamlss.family
distributions
Description: This is an add on package to GAMLSS. The purpose of this
package is to allow users to fit interval response variables in
GAMLSS models. The main function gen.cens() generates a
censored version of an existing GAMLSS family distribution.
DESCRIPTION | 8 ++++----
R/cens.d.R | 24 ++++++++++++------------
man/cens.Rd | 12 ++++++------
man/cens.d.Rd | 6 +++---
man/cens.p.Rd | 6 +++---
man/cens.q.Rd | 6 +++---
man/gamlss.cens-package.Rd | 2 +-
man/gen.cens.Rd | 10 +++++-----
man/lip.Rd | 4 +---
9 files changed, 38 insertions(+), 40 deletions(-)
Author: Mikis Stasinopoulos
Diff between gamlss versions 3.0-0 dated 2009-07-21 and 3.0-1 dated 2009-10-14
Title: Generalized Additive Models for Location Scale and Shape.
Description: The library for fitting GAMLSS models.
DESCRIPTION | 8 ++--
R/VGD.R | 32 ++++++++---------
R/centile-pred.R | 6 +--
R/cy.R | 84 +++++++++++++++++++++++++++++++++-------------
R/pb.R | 26 +++++++++-----
R/term-plot.R | 22 ++++++------
R/vcov_gamlss.R | 12 +++---
inst/doc/NEWS.txt | 18 +++++++++
man/Q.stats.Rd | 6 +--
man/VGD.Rd | 6 +--
man/additive.fit.Rd | 1
man/bfp.Rd | 2 -
man/centiles.Rd | 2 -
man/centiles.com.Rd | 27 +++++++-------
man/centiles.pred.Rd | 3 -
man/centiles.split.Rd | 4 +-
man/coef.gamlss.Rd | 5 +-
man/findhyper.Rd | 2 -
man/formula.gamlss.Rd | 5 --
man/gamlss.package.Rd | 2 -
man/gamlss.ps.Rd | 4 --
man/gamlss.ra.Rd | 2 -
man/model.frame.gamlss.Rd | 3 -
man/par.plot.Rd | 3 -
man/print.gamlss.Rd | 3 -
man/ps.Rd | 15 +++-----
man/ra.Rd | 5 +-
man/rc.Rd | 5 +-
man/ridge.Rd | 5 +-
man/rqres.plot.Rd | 2 -
man/stepGAIC.Rd | 2 -
man/summary.gamlss.Rd | 2 -
man/term.plot.Rd | 1
man/wp.Rd | 1
34 files changed, 186 insertions(+), 140 deletions(-)
Author: Olivia Lau
Diff between eiPack versions 0.1-5 dated 2009-09-07 and 0.1-6 dated 2009-10-14
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.
DESCRIPTION | 8 ++++----
src/rbyceicov4.c | 2 +-
2 files changed, 5 insertions(+), 5 deletions(-)
Author: Holger Schwender, Arno Fritsch
Title: Analysis of High-Dimensional Categorical Data such as SNP Data
Description: Tools for the analysis of high-dimensional data
developed/implemented at the group "Statistical Complexity
Reduction In Molecular Epidemiology" (SCRIME). Main focus is on
SNP data. But most of the functions can also be applied to
other types of categorical data.
Diff between scrime versions 1.1.6 dated 2009-05-19 and 1.1.7 dated 2009-10-14
DESCRIPTION | 8 ++++---- R/rowHWEs.R |only R/rowMAFs.R |only inst/CHANGES | 6 ++++++ man/identifyMonomorphism.Rd | 2 +- man/rowHWEs.Rd |only man/rowMAFs.Rd |only 7 files changed, 11 insertions(+), 5 deletions(-)
Author: Valentin Todorov
Diff between rrcov versions 0.5-02 dated 2009-07-30 and 1.0-00 dated 2009-10-14
Title: Scalable Robust Estimators with High Breakdown Point
Description: Robust Location and Scatter Estimation and Robust
Multivariate Analysis with High Breakdown Point.
rrcov-0.5-02/rrcov/inst/doc/UML.Rnw |only
rrcov-0.5-02/rrcov/inst/doc/UML.pdf |only
rrcov-1.0-00/rrcov/ChangeLog | 48 ++++++++-----
rrcov-1.0-00/rrcov/DESCRIPTION | 9 +-
rrcov-1.0-00/rrcov/R/Pca.R | 11 ++-
rrcov-1.0-00/rrcov/R/PcaCov.R | 38 +++++------
rrcov-1.0-00/rrcov/R/utils.R | 20 ++---
rrcov-1.0-00/rrcov/inst/CITATION |only
rrcov-1.0-00/rrcov/inst/doc/AModel.pdf |binary
rrcov-1.0-00/rrcov/inst/doc/CovControl.pdf |binary
rrcov-1.0-00/rrcov/inst/doc/CovModel.pdf |binary
rrcov-1.0-00/rrcov/inst/doc/DAModel.pdf |binary
rrcov-1.0-00/rrcov/inst/doc/PcaModel.pdf |binary
rrcov-1.0-00/rrcov/inst/doc/Rplots.pdf |only
rrcov-1.0-00/rrcov/inst/doc/Structure.pdf |binary
rrcov-1.0-00/rrcov/inst/doc/jss.bst |only
rrcov-1.0-00/rrcov/inst/doc/jss.cls |only
rrcov-1.0-00/rrcov/inst/doc/mybiblio.bib |only
rrcov-1.0-00/rrcov/inst/doc/rrcov.Rnw |only
rrcov-1.0-00/rrcov/inst/doc/rrcov.pdf |only
rrcov-1.0-00/rrcov/man/Cov-class.Rd | 12 ++-
rrcov-1.0-00/rrcov/man/CovClassic-class.Rd | 14 +++-
rrcov-1.0-00/rrcov/man/CovClassic.Rd | 20 +++--
rrcov-1.0-00/rrcov/man/CovControl-class.Rd | 13 ++-
rrcov-1.0-00/rrcov/man/CovControlMcd-class.Rd | 9 ++
rrcov-1.0-00/rrcov/man/CovControlMcd.Rd | 14 ++--
rrcov-1.0-00/rrcov/man/CovControlMest-class.Rd | 9 ++
rrcov-1.0-00/rrcov/man/CovControlMest.Rd | 25 ++++---
rrcov-1.0-00/rrcov/man/CovControlMve-class.Rd | 9 ++
rrcov-1.0-00/rrcov/man/CovControlMve.Rd | 12 ++-
rrcov-1.0-00/rrcov/man/CovControlOgk-class.Rd | 9 ++
rrcov-1.0-00/rrcov/man/CovControlOgk.Rd | 51 ++++++++------
rrcov-1.0-00/rrcov/man/CovControlSde-class.Rd | 8 ++
rrcov-1.0-00/rrcov/man/CovControlSde.Rd | 34 ++++++---
rrcov-1.0-00/rrcov/man/CovControlSest-class.Rd | 8 ++
rrcov-1.0-00/rrcov/man/CovControlSest.Rd | 39 ++++++-----
rrcov-1.0-00/rrcov/man/CovMcd-class.Rd | 6 +
rrcov-1.0-00/rrcov/man/CovMcd.Rd | 6 +
rrcov-1.0-00/rrcov/man/CovMest-class.Rd | 7 +-
rrcov-1.0-00/rrcov/man/CovMest.Rd | 79 ++++++++++++-----------
rrcov-1.0-00/rrcov/man/CovMve-class.Rd | 6 +
rrcov-1.0-00/rrcov/man/CovMve.Rd | 72 +++++++++++---------
rrcov-1.0-00/rrcov/man/CovOgk-class.Rd | 6 +
rrcov-1.0-00/rrcov/man/CovOgk.Rd | 63 +++++++++---------
rrcov-1.0-00/rrcov/man/CovRobust-class.Rd | 7 +-
rrcov-1.0-00/rrcov/man/CovRobust.Rd | 7 +-
rrcov-1.0-00/rrcov/man/CovSde-class.Rd | 6 +
rrcov-1.0-00/rrcov/man/CovSde.Rd | 53 ++++++++-------
rrcov-1.0-00/rrcov/man/CovSest-class.Rd | 6 +
rrcov-1.0-00/rrcov/man/CovSest.Rd | 9 ++
rrcov-1.0-00/rrcov/man/Lda-class.Rd | 6 +
rrcov-1.0-00/rrcov/man/LdaClassic-class.Rd | 6 +
rrcov-1.0-00/rrcov/man/LdaClassic.Rd | 6 +
rrcov-1.0-00/rrcov/man/LdaRobust-class.Rd | 6 +
rrcov-1.0-00/rrcov/man/Linda-class.Rd | 7 +-
rrcov-1.0-00/rrcov/man/Linda.Rd | 10 ++
rrcov-1.0-00/rrcov/man/Pca-class.Rd | 6 +
rrcov-1.0-00/rrcov/man/PcaClassic-class.Rd | 6 +
rrcov-1.0-00/rrcov/man/PcaClassic.Rd | 6 +
rrcov-1.0-00/rrcov/man/PcaCov-class.Rd | 6 +
rrcov-1.0-00/rrcov/man/PcaCov.Rd | 10 ++
rrcov-1.0-00/rrcov/man/PcaGrid-class.Rd | 6 +
rrcov-1.0-00/rrcov/man/PcaGrid.Rd | 5 +
rrcov-1.0-00/rrcov/man/PcaHubert-class.Rd | 6 +
rrcov-1.0-00/rrcov/man/PcaHubert.Rd | 5 +
rrcov-1.0-00/rrcov/man/PcaLocantore-class.Rd | 6 +
rrcov-1.0-00/rrcov/man/PcaLocantore.Rd | 6 +
rrcov-1.0-00/rrcov/man/PcaProj-class.Rd | 6 +
rrcov-1.0-00/rrcov/man/PcaProj.Rd | 6 +
rrcov-1.0-00/rrcov/man/PcaRobust-class.Rd | 6 +
rrcov-1.0-00/rrcov/man/PredictLda-class.Rd | 7 +-
rrcov-1.0-00/rrcov/man/PredictQda-class.Rd | 7 +-
rrcov-1.0-00/rrcov/man/Qda-class.Rd | 6 +
rrcov-1.0-00/rrcov/man/QdaClassic-class.Rd | 6 +
rrcov-1.0-00/rrcov/man/QdaClassic.Rd | 6 +
rrcov-1.0-00/rrcov/man/QdaCov-class.Rd | 6 +
rrcov-1.0-00/rrcov/man/QdaCov.Rd | 7 +-
rrcov-1.0-00/rrcov/man/QdaRobust-class.Rd | 6 +
rrcov-1.0-00/rrcov/man/SummaryCov-class.Rd | 7 +-
rrcov-1.0-00/rrcov/man/SummaryCovRobust-class.Rd | 7 +-
rrcov-1.0-00/rrcov/man/SummaryLda-class.Rd | 7 +-
rrcov-1.0-00/rrcov/man/SummaryPca-class.Rd | 7 +-
rrcov-1.0-00/rrcov/man/SummaryQda-class.Rd | 7 +-
rrcov-1.0-00/rrcov/man/covMest3.Rd | 72 +++++++++++---------
rrcov-1.0-00/rrcov/tests/thubert.Rout.save | 4 -
rrcov-1.0-00/rrcov/tests/tlda.Rout.save | 4 -
rrcov-1.0-00/rrcov/tests/tmcd4.Rout.save | 4 -
rrcov-1.0-00/rrcov/tests/tmest.Rout.save | 4 -
rrcov-1.0-00/rrcov/tests/tmest4.Rout.save | 4 -
rrcov-1.0-00/rrcov/tests/tmve4.Rout.save | 4 -
rrcov-1.0-00/rrcov/tests/togk4.Rout.save | 4 -
rrcov-1.0-00/rrcov/tests/tqda.Rout.save | 4 -
rrcov-1.0-00/rrcov/tests/tsde.Rout.save | 4 -
rrcov-1.0-00/rrcov/tests/tsest.Rout.save | 4 -
94 files changed, 730 insertions(+), 340 deletions(-)
Author: Gilles Raiche (Universite du Quebec a Montreal) and David Magis
(Universite de Liege)
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 2.3 dated 2009-09-20 and 2.3.1 dated 2009-10-14
DESCRIPTION | 13 NAMESPACE | 3 NEWS | 17 R/structureSim.r | 6 R/studySim.r |only inst/doc/Rplots.pdf | 1298 ++++++++++++++++++++--------------------- inst/doc/nFactorsExample01.R |only inst/doc/nFactorsExample01.pdf |binary inst/doc/nFactorsExample01.rnw | 2 man/nFactors-package.rd | 2 man/nFactors-parameters.rd | 32 - man/studySim.rd |only 12 files changed, 703 insertions(+), 670 deletions(-)
Author: Ben Bolker
Diff between mixstock versions 0.9 dated 2008-07-08 and 0.9.2 dated 2009-10-14
Title: functions for mixed stock analysis
Description: mixed stock analysis functions
mixstock-0.9.2/mixstock/DESCRIPTION | 12 -
mixstock-0.9.2/mixstock/NEWS | 18 ++
mixstock-0.9.2/mixstock/R/RCS |only
mixstock-0.9.2/mixstock/R/mixstock.R | 101 ++++++++----
mixstock-0.9.2/mixstock/TODO | 7
mixstock-0.9.2/mixstock/inst/CITATION |only
mixstock-0.9.2/mixstock/inst/bugs/manymany.bug | 4
mixstock-0.9.2/mixstock/inst/bugs/manymany.txt | 142 ++++++++---------
mixstock-0.9.2/mixstock/inst/doc/mixstock.Rnw | 193 ++++++++++++++----------
mixstock-0.9.2/mixstock/inst/doc/mixstock.pdf |binary
mixstock-0.9.2/mixstock/inst/doc/turtle.bib | 6
mixstock-0.9.2/mixstock/man/calc.RL.Rd | 4
mixstock-0.9.2/mixstock/man/mm.wbugs.Rd | 16 +
mixstock-0.9.2/mixstock/man/pm.wbugs.Rd | 4
mixstock-0.9.2/mixstock/src/turtle-gibbs.c | 11 -
mixstock-0.9/mixstock/inst/doc/Rplots.pdf |only
mixstock-0.9/mixstock/inst/doc/coda1.txt |only
mixstock-0.9/mixstock/inst/doc/coda2.txt |only
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mixstock-0.9/mixstock/inst/doc/inits2.txt |only
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mixstock-0.9/mixstock/inst/doc/log.odc |only
mixstock-0.9/mixstock/inst/doc/log.txt |only
mixstock-0.9/mixstock/inst/doc/mixstock-009.eps |only
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52 files changed, 312 insertions(+), 206 deletions(-)
Author: Göran Broström
Title: Generalized linear models with clustering
Description: A Maximum Likelihood and bootstrap approach to mixed
models
Diff between glmmML versions 0.81-5 dated 2009-05-29 and 0.81-6 dated 2009-10-14
DESCRIPTION | 8 ++++---- man/glmmML.Rd | 3 +-- man/glmmML.fit.Rd | 2 +- man/glmmboot.Rd | 3 +-- 4 files changed, 7 insertions(+), 9 deletions(-)
Author: John Fox
Diff between effects versions 2.0-8 dated 2009-10-09 and 2.0-9 dated 2009-10-14
Title: Effect Displays for Linear, Generalized Linear,
Multinomial-Logit, and Proportional-Odds Logit Models
Description: Graphical and tabular effect displays, e.g., of
interactions, for linear generalized linear, multinomial-logit,
and proportional-odds logit models.
effects-2.0-8/effects/inst/CITATION.txt |only
effects-2.0-9/effects/DESCRIPTION | 13 +-
effects-2.0-9/effects/R/effects.R | 69 +++++++++------
effects-2.0-9/effects/R/utilities.R | 120 ++++++++++++++-------------
effects-2.0-9/effects/inst/CHANGES | 10 ++
effects-2.0-9/effects/inst/CITATION |only
effects-2.0-9/effects/man/effect.Rd | 2
effects-2.0-9/effects/man/effects-package.Rd | 12 ++
8 files changed, 133 insertions(+), 93 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 0.1-2 dated 2009-10-11 and 0.1-3 dated 2009-10-14
DESCRIPTION | 8 ++++---- R/condGEE.R | 30 ++++++++++++------------------ 2 files changed, 16 insertions(+), 22 deletions(-)
Author: Liviu Andronic
Title: Graphically export objects to LaTeX or HTML
Description: This package provides facilities to graphically export
Rcmdr output to LaTeX or HTML code. Essentially, at the moment,
the plug-in is a graphical front-end to xtable(). It is
intended to (1) facilitate exporting Rcmdr output to formats
other than ASCII text and (2) provide R novices with an easy to
use, easy to access reference on exporting R objects to formats
suited for printed output.
Diff between RcmdrPlugin.Export versions 0.2-1 dated 2008-10-09 and 0.2-2 dated 2009-10-14
DESCRIPTION | 34 ++++++++++++++++++---------------- man/RcmdrPlugin.Export-package.Rd | 8 ++++---- 2 files changed, 22 insertions(+), 20 deletions(-)
More information about RcmdrPlugin.Export at CRAN
Permanent link
Author: Sameer Kumar Prayaga
Diff between RPostgreSQL versions 0.1-4 dated 2009-01-28 and 0.1-5 dated 2009-10-14
Title: R interface to the PostgreSQL database system
Description: Database interface and PostgreSQL driver for R This
version complies with the database interface definition as
implemented in the package DBI.
DESCRIPTION | 21
R/PostgreSQL.R | 25
R/PostgreSQLSupport.R | 32
R/S4R.R | 2
R/dbObjectId.R | 2
configure.in | 19
inst/ChangeLog | 49
inst/NEWS | 25
man/PostgreSQL.Rd | 2
man/dbReadTable-methods.Rd | 4
man/dbSendQuery-methods.Rd | 2
man/safe.write.Rd | 8
src/RS-DBI.c | 1481 ++++++++++++++--------------
src/RS-DBI.h | 428 ++++----
src/RS-PostgreSQL.c | 1837 +++++++++++++++++------------------
src/RS-PostgreSQL.h | 360 +++---
src/S4R.h | 312 ++---
tests/connectWithNull.R |only
tests/connectWithNull.Rout.save |only
tests/dataTypeTests.R | 3
tests/dataTypeTests.Rout.save | 19
tests/datetimeTests.Rout.save | 40
tests/dbExistsIssue.R |only
tests/dbExistsIssue.Rout.save |only
tests/dbWriteTableTest.R |only
tests/dbWriteTableTest.Rout.save |only
tests/loadDriverAndConnect.Rout.save | 10
tests/selectWhereZero.R |only
tests/selectWhereZero.Rout.save |only
tests/selectWithAlias.R |only
tests/selectWithAlias.Rout.save |only
31 files changed, 2401 insertions(+), 2280 deletions(-)
Author: Wei Dai, Robert Brown, Jim Paul
Title: Methylation Linear Discriminant Analysis (MLDA)
Description: MLDA is a method to identify the differentially methylated
loci on CpG island array using Differential Methylation
Hybridisation(DMH).
Diff between MLDA versions 1.0-1 dated 2008-06-11 and 2.0 dated 2009-10-14
MLDA-1.0-1/MLDA/man/MLDA-package.Rd |only MLDA-2.0/MLDA/DESCRIPTION | 28 ++--- MLDA-2.0/MLDA/R/FDR.R | 89 +++++++--------- MLDA-2.0/MLDA/R/MMR.R | 18 +-- MLDA-2.0/MLDA/R/Qn.R | 30 ++--- MLDA-2.0/MLDA/R/R2.R | 32 ++--- MLDA-2.0/MLDA/R/SR.R | 68 +++++------- MLDA-2.0/MLDA/R/cutoff.R | 82 +++++++------- MLDA-2.0/MLDA/R/cutoff.plot.R | 64 +++++------ MLDA-2.0/MLDA/R/inconsist.R | 124 +++++++++++----------- MLDA-2.0/MLDA/R/likelihood.R | 33 ++---- MLDA-2.0/MLDA/R/list.compare.R | 23 +--- MLDA-2.0/MLDA/R/lr.plot.R | 76 ++++++------- MLDA-2.0/MLDA/R/meth.lm.R | 167 ++++++++++++++---------------- MLDA-2.0/MLDA/R/middle.lm.R | 113 ++++++++++---------- MLDA-2.0/MLDA/R/mito.lm.R | 186 ++++++++++++++++------------------ MLDA-2.0/MLDA/R/mlda.R | 25 ++-- MLDA-2.0/MLDA/R/mlda.data.R | 22 ++-- MLDA-2.0/MLDA/R/mlda.sig.R | 151 +++++++++++++-------------- MLDA-2.0/MLDA/R/mlda.sig.plot.R | 96 ++++++++--------- MLDA-2.0/MLDA/R/score.cal.R | 32 ++--- MLDA-2.0/MLDA/R/weight.score.R | 57 ++++------ MLDA-2.0/MLDA/data/hcgi12k.rda |binary MLDA-2.0/MLDA/man/FDR.Rd | 2 MLDA-2.0/MLDA/man/MLDA_2.0-package.Rd |only MLDA-2.0/MLDA/man/MMR.Rd | 1 MLDA-2.0/MLDA/man/R2.Rd | 2 MLDA-2.0/MLDA/man/cutoff.Rd | 2 MLDA-2.0/MLDA/man/hcgi12k.Rd | 4 MLDA-2.0/MLDA/man/inconsist.Rd | 2 MLDA-2.0/MLDA/man/likelihood.Rd | 2 MLDA-2.0/MLDA/man/list.compare.Rd | 2 MLDA-2.0/MLDA/man/lr.plot.Rd | 2 MLDA-2.0/MLDA/man/meth.lm.Rd | 2 MLDA-2.0/MLDA/man/middle.lm.Rd | 3 MLDA-2.0/MLDA/man/mito.lm.Rd | 1 MLDA-2.0/MLDA/man/mlda.Rd | 1 MLDA-2.0/MLDA/man/score.cal.Rd | 2 38 files changed, 722 insertions(+), 822 deletions(-)
Author: Jim Albert
Title: Functions for Learning Exploratory Data Analysis
Description: LearnEDA contains a collection of functions helpful in
learning the basic tenets of Exploratory Data Analysis.
Diff between LearnEDA versions 1.0 dated 2008-12-23 and 1.01 dated 2009-10-14
DESCRIPTION | 23 ++++++----- R/rline.R | 76 +++++++++++++++++++++++---------------- data/heaviest.fish.txt |only data/immigrants.txt | 2 - data/pop.densities.1920.2000.txt | 2 - data/rent.prices.txt | 2 - man/act.scores.06.07.Rd | 6 ++- man/baseball.attendance.Rd | 6 ++- man/beatles.Rd | 8 +++- man/boston.marathon.Rd | 6 ++- man/boston.marathon.wtimes.Rd | 6 ++- man/brave.at.Rd | 6 ++- man/car.measurements.Rd | 8 +++- man/church.2.way.Rd | 9 +++- man/church.tseries.Rd | 7 ++- man/college.ratings.Rd | 9 +++- man/farms.Rd | 6 ++- man/football.Rd | 7 ++- man/gestation.periods.Rd | 8 +++- man/grandma.19.40.Rd | 6 ++- man/heaviest.fish.Rd |only man/hinkley.Rd | 6 --- man/home.prices.Rd | 6 ++- man/homeruns.2000.Rd | 6 ++- man/homeruns.61.Rd | 6 ++- man/immigrants.Rd | 10 ++++- man/island.areas.Rd | 7 ++- man/lake.Rd | 7 ++- man/mortality.rates.Rd | 12 ++++-- man/mtrans.Rd | 6 --- man/olympics.run.Rd | 17 +++++--- man/olympics.speed.skating.Rd | 19 +++++---- man/olympics.swim.Rd | 16 +++++--- man/pop.change.Rd | 6 ++- man/pop.densities.1920.2000.Rd | 6 ++- man/pop.england.Rd | 9 +++- man/rent.prices.Rd | 6 ++- man/rline.Rd | 1 man/salaries.Rd | 7 ++- man/studentdata.Rd | 30 ++++++++------- man/temperatures.Rd | 7 ++- man/tukey.24a.Rd | 7 ++- man/tukey.24b.Rd | 7 ++- man/tukey.26a.Rd | 10 +++-- man/tukey.26b.Rd | 10 +++-- man/tukey.26c.Rd | 10 +++-- man/us.pop.Rd | 6 ++- 47 files changed, 295 insertions(+), 148 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 0.9.3 dated 2009-09-03 and 0.10.2 dated 2009-10-13
DESCRIPTION | 31 ++++++++++++++----------------- NEWS | 12 ------------ R/orientlib.r | 2 +- man/weighted.mean-methods.Rd | 8 ++++---- 4 files changed, 19 insertions(+), 34 deletions(-)
Author: Markus Loecher, Sense Networks
Title: Overlays on Google map tiles in R
Description: This package serves two purposes: (i) Provide a
comfortable R interface to query the Google server for static
maps, and (ii) Use the map as a background image to overlay
plots within R. This requires proper coordinate scaling. NOTE:
To do anything but downloading static map tiles, RgoogleMaps
needs EITHER rgdal OR ReadImages OR rimage installed ! Such an
OR dependency is difficult to express in the Depends field, so
I moved those packages to suggested. rgdal is your package if
you prefer png file format and ReadImages or rimage if you
prefer jpg format. In the latter cases, you will also need the
libjpeg library installed.
Diff between RgoogleMaps versions 1.1.5 dated 2009-07-26 and 1.1.6 dated 2009-10-13
DESCRIPTION | 10 +++++----- R/XY2LatLon.R |only inst/doc/RgoogleMaps-intro.Rnw | 37 ++++++++++++++++++++++++++++++++++++- inst/doc/RgoogleMaps-intro.pdf |binary man/RgoogleMaps-package.Rd | 4 ++-- man/XY2LatLon.Rd |only 6 files changed, 43 insertions(+), 8 deletions(-)
Author: A.I. McLeod and Ying Zhang
Title: Subset AR Model Fitting
Description: Complete functions are given for model identification,
estimation and diagnostic checking for AR and subset AR models.
Two types of subset AR models are supported. One family of
subset AR models, denoted by ARp, is formed by taking subet of
the original AR coefficients and in the other, denoted by ARz,
subsets of the partial autocorrelations are used. The main
advantage of the ARz model is its applicability to very large
order models.
Diff between FitAR versions 1.74 dated 2008-11-07 and 1.79 dated 2009-10-13
DESCRIPTION | 33 +++++++++++++++++++++------------ R/FitARp.R | 11 +++++++++-- R/GetFitARpLS.R | 17 +++++++++-------- R/LBQPlot.R | 15 ++++++--------- R/LjungBoxTest.R | 10 ++++------ R/PlotARSdf.R | 6 +++--- R/SelectModel.R | 42 ++++++++++++++++++++++++++++++++++-------- R/SimulateGaussianAR.R | 1 + R/TimeSeriesPlot.R | 8 ++++---- R/UnitRootTest.R |only R/getRho.R |only R/getT.R |only R/glog.R |only R/plot.FitAR.R | 9 ++++++--- data/Commodities.rda |only data/FXRates.rda |only data/SeriesB.rda |only data/SeriesB2.rda |only inst/doc |only man/BoxCox.Arima.Rd | 4 ++-- man/Commodities.Rd |only man/FXRates.Rd |only man/FitAR-package.Rd | 8 ++------ man/GetLeapsAR.Rd | 23 ++++++++++------------- man/LBQPlot.Rd | 10 +++++++--- man/LjungBoxTest.Rd | 15 ++++++++++----- man/PlotARSdf.Rd | 10 +++++++--- man/Readts.Rd | 14 +++++++------- man/SelectModel.Rd | 14 +++++++++----- man/SeriesB.Rd |only man/SeriesB2.Rd |only man/SimulateGaussianAR.Rd | 5 ++--- man/TimeSeriesPlot.Rd | 4 +++- man/UnitRootTest.Rd |only man/getRho.Rd |only man/getT.Rd |only man/glog.Rd |only man/sdfplot.Arima.Rd | 3 ++- man/sdfplot.FitAR.Rd | 3 ++- man/sdfplot.Rd | 3 ++- man/sdfplot.ar.Rd | 3 ++- man/sdfplot.numeric.Rd | 3 ++- man/sdfplot.ts.Rd | 3 ++- 43 files changed, 168 insertions(+), 109 deletions(-)
Author: Michael Fay
Diff between ssanv versions 1.0 dated 2006-02-14 and 1.0-1 dated 2009-10-13
Title: Sample Size Adjusted for Nonadherence or Variability of input
parameters
Description: A set of functions to calculate sample size for two-sample
difference in means tests. Does adjustments for either
nonadherence or variability that comes from using data to
estimate parameters.
ssanv-1.0-1/ssanv/CITATION |only
ssanv-1.0-1/ssanv/ChangeLog |only
ssanv-1.0-1/ssanv/DESCRIPTION | 29 +++++++++++++++-----------
ssanv-1.0-1/ssanv/R/ss.nonadh.R | 12 +++++-----
ssanv-1.0-1/ssanv/man/find.calibrated.beta.Rd | 4 +--
ssanv-1.0-1/ssanv/man/ss.fromdata.neff.Rd | 6 ++---
ssanv-1.0-1/ssanv/man/ss.fromdata.nvar.Rd | 9 +++-----
ssanv-1.0-1/ssanv/man/ss.fromdata.pois.Rd | 7 ++----
ssanv-1.0-1/ssanv/man/ss.nonadh.Rd | 6 ++---
ssanv-1.0-1/ssanv/man/ssanv.package.Rd | 12 ++++------
ssanv-1.0/ssanv/README |only
11 files changed, 43 insertions(+), 42 deletions(-)
Author: Michael Fay
Diff between rateratio.test versions 1.0 dated 2007-06-05 and 1.0-1 dated 2009-10-13
More information about rateratio.test at CRAN
Title: Exact rate ratio test
Description: A function which performs exact rate ratio tests and
returns an object of class htest.
Changelog |only
DESCRIPTION | 25 ++++++++++++++-----------
inst/doc/rateratio.test.Rnw | 2 +-
inst/doc/rateratio.test.pdf |binary
man/rateratio.Rd | 3 +--
5 files changed, 16 insertions(+), 14 deletions(-)
Permanent link
Author: Alexis Dinno
Diff between paran versions 1.4.1 dated 2008-10-15 and 1.4.2 dated 2009-10-13
Title: Horn's Test of Principal Components/Factors
Description: paran is an implementation of Horn's technique for
numerically and graphically evaluating the components or
factors retained in a principle components analysis (PCA) or
common factor analysis (FA). Horn's method contrasts
eigenvalues produced through a PCA or FA on a number of random
data sets of uncorrelated variables with the same number of
variables and observations as the experimental or observational
data set to produce eigenvalues for components or factors that
are adjusted for the sample error-induced inflation. Components
with adjusted eigenvalues greater than one are retained. paran
may also be used to conduct parallel analysis following
Glorfeld's (1995) suggestions to reduce the likelihood of
over-retention.
DESCRIPTION | 22 ++++++++++++++++++----
man/paran.Rd | 2 +-
2 files changed, 19 insertions(+), 5 deletions(-)
Author: P. Roebuck
Title: MATLAB emulation package
Description: Emulate MATLAB code using R
Diff between matlab versions 0.8-2 dated 2008-10-17 and 0.8-3 dated 2009-10-13
DESCRIPTION | 8 +++++--- NEWS | 6 ++++-- man/ceil.Rd | 4 +++- man/cell.Rd | 4 +++- man/colorbar.Rd | 36 ++++++++++++++++++++---------------- man/eye.Rd | 4 +++- man/fileparts.Rd | 6 ++++-- man/filesep.Rd | 4 +++- man/find.Rd | 4 +++- man/fix.Rd | 6 ++++-- man/fliplr.Rd | 8 +++++--- man/fullfile.Rd | 6 ++++-- man/imagesc.Rd | 14 ++++++++------ man/isempty.Rd | 4 +++- man/jet.colors.Rd | 6 ++++-- man/linspace.Rd | 6 ++++-- man/logspace.Rd | 6 ++++-- man/magic.Rd | 4 +++- man/matlab-package.Rd | 8 +++++--- man/meshgrid.Rd | 8 ++++---- man/mod.Rd | 4 +++- man/multiline.plot.colors.Rd | 8 +++++--- man/ndims.Rd | 4 +++- man/numel.Rd | 4 +++- man/ones.Rd | 4 +++- man/padarray.Rd | 6 ++++-- man/pascal.Rd | 6 ++++-- man/pathsep.Rd | 4 +++- man/repmat.Rd | 4 +++- man/reshape.Rd | 8 ++++---- man/rot90.Rd | 6 ++++-- man/size.Rd | 4 +++- man/size_t-class.Rd | 4 +++- man/std.Rd | 6 ++++-- man/strcmp.Rd | 4 +++- man/sum.Rd | 6 ++++-- man/tictoc.Rd | 8 +++++--- 37 files changed, 157 insertions(+), 85 deletions(-)
Author: M.P. Fay
Title: Choplump tests
Description: Choplump Tests are Permutation Tests for Comparing Two
Groups with Some Positive but Many Zero Responses
Diff between choplump versions 0.9-3 dated 2007-09-04 and 1.0 dated 2009-10-13
CHANGELOG |only CITATION |only DESCRIPTION | 25 ++++++++++++++----------- R/chop.R | 2 +- inst/doc/Rplots.pdf |only inst/doc/choplumpComputation.pdf |binary inst/doc/choplumpValidation.pdf |binary man/choplump-internal.Rd | 3 +-- man/choplump-package.Rd | 7 ++++--- man/choplump.Rd | 11 ++++++----- 10 files changed, 26 insertions(+), 22 deletions(-)
Author: Peter Wolf, Uni Bielefeld
Title: Another Plot PACKage: stem.leaf, bagplot, faces, spin3R, and
some slider functions
Description: set of functions for drawing some special plots: stem.leaf
plots a stem and leaf plot bagplot plots a bagplot faces plots
chernoff faces spin3R for an inspection of a 3-dim point cloud
slider functions for interactive graphics
Diff between aplpack versions 1.2.1 dated 2009-06-16 and 1.2.2 dated 2009-10-13
DESCRIPTION | 8 ++++---- inst/doc/sliderbootwidget.jpg |binary inst/doc/sliderfns.Snw | 40 ++++++++++++++++++++-------------------- inst/doc/sliderfns.pdf |binary inst/src/bagplot.rev | 3 +++ inst/src/ms.rev | 2 +- inst/src/sliderfns.rev | 30 +++++++++++++++--------------- man/slider.bootstrap.lm.plot.Rd | 2 +- man/slider.brush.Rd | 9 ++++----- man/slider.hist.Rd | 2 +- man/slider.lowess.plot.Rd | 2 +- man/slider.smooth.plot.ts.Rd | 2 +- man/slider.split.plot.ts.Rd | 5 +++-- man/slider.zoom.plot.ts.Rd | 2 +- man/stem.leaf.Rd | 2 +- 15 files changed, 56 insertions(+), 53 deletions(-)
Author: M.P. Fay
Title: Monte Carlo hypothesis tests with Sequential Stopping
Description: The package performs Monte Carlo hypothesis tests. It
allows a couple of different sequential stopping boundaries (a
truncated sequential probability ratio test boundary and a
boundary proposed by Besag and Clifford, 1991). Gives valid
p-values and confidence intervals on p-values.
Diff between MChtest versions 1.0 dated 2007-03-25 and 1.0-1 dated 2009-10-13
CITATION |only ChangeLog | 8 ++++++++ DESCRIPTION | 31 +++++++++++++++++++------------ R/findB.design.R | 5 +++-- inst |only man/MCbound.Rd | 4 +++- man/MCbound.precalc1.Rd | 2 ++ man/MChtest-package.Rd | 8 ++++---- man/MCtest.Rd | 3 ++- man/p1.given.p0.Rd | 4 +++- man/plot.MCbound.Rd | 2 +- man/print.MCtest.Rd | 2 +- man/rrisk.Rd | 4 +++- 13 files changed, 49 insertions(+), 24 deletions(-)
Author: Richard Bourgon
Diff between intervals versions 0.13.0 dated 2009-07-18 and 0.13.1 dated 2009-10-13
Title: Tools for working with points and intervals
Description: Tools for working with and comparing sets of points and
intervals.
DESCRIPTION | 10 +++++-----
man/Intervals_virtual_or_numeric-class.Rd | 2 +-
2 files changed, 6 insertions(+), 6 deletions(-)
Author: John Fox, Michael Friendly, and Georges Monette
Title: Visualizing Tests in Multivariate Linear Models
Description: Represents sums-of-squares-and-products matrices for
linear hypotheses and for error using ellipses (in two
dimensions) and ellipsoids (in three dimensions).
Diff between heplots versions 0.8-9 dated 2009-07-23 and 0.8-10 dated 2009-10-13
DESCRIPTION | 10 +++++----- inst/CHANGES | 5 ++--- man/cross3d.Rd | 2 +- man/ellipse3d.axes.Rd | 2 +- man/heplot-package.Rd | 4 ++-- man/heplot1d.Rd | 4 +--- 6 files changed, 12 insertions(+), 15 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 1.0.1 dated 2009-09-18 and 1.0.2 dated 2009-10-13
DESCRIPTION | 12 inst/ChangeLog | 11 inst/doc/Rplots.pdf | 4 inst/doc/dlnmOverview.pdf | 962 ++++++++++++++++++++++------------------------ man/crossbasis.Rd | 4 man/crossplot.Rd | 4 man/dlnm-package.Rd | 2 7 files changed, 503 insertions(+), 496 deletions(-)
Author: Frank Schaarschmidt
Title: Asymptotic simultaneous confidence intervals for many-to-one
comparisons of proportions
Description: Asymptotic simultaneous confidence intervals for
comparison of many treatments with one control, for the
difference of binomial proportions, allows for
Dunnett-like-adjustment, Bonferroni or unadjusted intervals.
Simulation of power of the above interval methods, approximate
calculation of any-pair-power, and sample size iteration based
on approximate any-pair power. Exact conditional maximum test
for many-to-one comparisons to a control.
Diff between binMto versions 0.0-3 dated 2007-08-25 and 0.0-4 dated 2009-10-13
DESCRIPTION | 36 +++++++++++++++++++++--------------- man/Mtoquant.Rd | 7 ++++++- man/apprPower.rd | 2 +- man/binMto.Rd | 28 ++++++++++------------------ man/binMto.package.Rd | 7 ++----- man/binMtoMethods.Rd | 11 +++++++---- man/ec.mto.Rd | 11 ++++------- man/nbinMto.Rd | 2 +- man/plot.binMto.Rd | 2 +- man/print.binMto.Rd | 2 +- 10 files changed, 54 insertions(+), 54 deletions(-)
Author: Jose L. Izquierdo
Diff between Metabonomic versions 3.3 dated 2009-09-18 and 3.3.1 dated 2009-10-13
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 | 8 ++++----
R/Import.data.R | 43 +++++++++++++++++++++++++++++++++++++------
R/Met.Selection.R | 3 ++-
3 files changed, 43 insertions(+), 11 deletions(-)
Author: Frank Schaarschmidt, Daniel Gerhard, Martin Sill
Title: Multiple comparisons using normal approximation
Description: Multiple contrast tests and simultaneous confidence
intervals based on normal approximation. With implementations
for binomial proportions in a 2xk setting (risk difference and
odds ratio), poly-3-adjusted tumour rates, and multiple
comparisons of biodiversity indices. Approximative power
calculation for multiple contrast tests of binomial
proportions.
Diff between MCPAN versions 1.1-7 dated 2008-10-23 and 1.1-9 dated 2009-10-13
DESCRIPTION | 35 +++++++++++++++++++---------------- R/plotCI.R | 14 +++++++++++--- man/HCD.Rd | 18 +++++++++--------- man/MCPAN-package.Rd | 31 ++++++++++++------------------- man/Shannonci.Rd | 10 +++++----- man/Simpsonci.Rd | 10 +++++----- man/binomORci.Rd | 36 ++++++++++++++++++------------------ man/binomRDci.Rd | 22 +++++++++++----------- man/binomRDtest.Rd | 14 +++++++------- man/binomRRci.Rd | 25 +++++++++++-------------- man/binomest.Rd | 17 ++++++++--------- man/bronch.Rd | 6 +++--- man/censsample.Rd | 4 ++-- man/censsamplef.Rd | 4 ++-- man/estShannon.Rd | 6 +++--- man/estShannonf.Rd | 4 ++-- man/estSimpsonf.Rd | 8 ++++---- man/liarozole.Rd | 6 +++--- man/methyl.Rd | 10 +++++----- man/mosaicplot.Shannonci.Rd | 10 +++++----- man/plot.sci.Rd | 6 +++--- man/plotCI.Rd | 8 ++++---- man/plotCII.Rd | 11 ++++++----- man/poly3ci.Rd | 8 ++++---- man/poly3est.Rd | 2 +- man/poly3estf.Rd | 10 +++++----- man/poly3table.Rd | 2 +- man/poly3test.Rd | 8 ++++---- man/powerbinom.Rd | 14 +++++++------- man/powermcp.Rd | 2 +- man/print.Shannonci.Rd | 4 ++-- man/print.Simpsonci.Rd | 4 ++-- man/print.poly3est.Rd | 2 +- man/scalechoice.Rd | 2 +- man/summary.binomORci.Rd | 2 +- man/summary.binomRDci.Rd | 4 ++-- man/summary.binomRDtest.Rd | 4 ++-- 37 files changed, 192 insertions(+), 191 deletions(-)
Author: David Meyer, Achim Zeileis, Kurt Hornik
Title: Visualizing Categorical Data
Description: Visualization techniques, data sets, summary and inference
procedures aimed particularly at categorical data. Special
emphasis is given to highly extensible grid graphics. The
package was inspired by the book "Visualizing Categorical Data"
by Michael Friendly.
Diff between vcd versions 1.2-4 dated 2009-05-09 and 1.2-6 dated 2009-10-13
vcd-1.2-4/vcd/inst/doc/Z.cls |only vcd-1.2-4/vcd/inst/doc/jss.bst |only vcd-1.2-6/vcd/DESCRIPTION | 8 vcd-1.2-6/vcd/NAMESPACE | 1 vcd-1.2-6/vcd/NEWS | 40 + vcd-1.2-6/vcd/R/goodfit.R | 20 vcd-1.2-6/vcd/R/shadings.R | 41 - vcd-1.2-6/vcd/R/sieve.R | 34 + vcd-1.2-6/vcd/R/structable.R | 2 vcd-1.2-6/vcd/data/Bundesliga.rda |binary vcd-1.2-6/vcd/inst/NEWS | 40 + vcd-1.2-6/vcd/inst/doc/residual-shadings.pdf | 270 +++++------ vcd-1.2-6/vcd/inst/doc/strucplot.Rnw | 600 +++++++++++++------------- vcd-1.2-6/vcd/inst/doc/strucplot.pdf |binary vcd-1.2-6/vcd/man/Baseball.Rd | 4 vcd-1.2-6/vcd/man/Bundesliga.Rd | 32 - vcd-1.2-6/vcd/man/Hospital.Rd | 2 vcd-1.2-6/vcd/man/Kappa.Rd | 2 vcd-1.2-6/vcd/man/agreementplot.Rd | 2 vcd-1.2-6/vcd/man/co_table.Rd | 2 vcd-1.2-6/vcd/man/fourfold.Rd | 2 vcd-1.2-6/vcd/man/goodfit.Rd | 17 vcd-1.2-6/vcd/man/grid_barplot.Rd | 2 vcd-1.2-6/vcd/man/labeling_border.Rd | 6 vcd-1.2-6/vcd/man/mosaic.Rd | 4 vcd-1.2-6/vcd/man/panel_pairs_diagonal.Rd | 4 vcd-1.2-6/vcd/man/panel_pairs_off-diagonal.Rd | 2 vcd-1.2-6/vcd/man/shadings.Rd | 2 vcd-1.2-6/vcd/man/sieve.Rd | 12 vcd-1.2-6/vcd/man/spine.Rd | 2 vcd-1.2-6/vcd/man/struc_mosaic.Rd | 4 vcd-1.2-6/vcd/man/struc_sieve.Rd | 5 vcd-1.2-6/vcd/man/structable.Rd | 4 vcd-1.2-6/vcd/man/tile.Rd | 2 34 files changed, 628 insertions(+), 540 deletions(-)
Author: David Meyer and Christian Buchta
Title: Distance and Similarity Measures
Description: Provides an extensible framework for the effcient
calculation of auto- and cross-proximities, along with
implementations of the most popular ones.
Diff between proxy versions 0.4-3 dated 2009-05-24 and 0.4-4 dated 2009-10-13
DESCRIPTION | 8 ++--- NEWS | 9 +++++ R/dissimilarities.R | 81 ++++++++++++++++++++++++++++++++++++++++++++++++++-- R/similarities.R | 31 ++++++++++++++++++- inst/NEWS | 9 +++++ inst/doc |only src/distance.c | 33 +++++++++++---------- 7 files changed, 148 insertions(+), 23 deletions(-)
Author: Roger Bivand
Diff between spdep versions 0.4-47 dated 2009-10-12 and 0.4-49 dated 2009-10-13
Title: Spatial dependence: weighting schemes, statistics and models
Description: A collection of functions to create spatial weights matrix
objects from polygon contiguities, from point patterns by
distance and tesselations, for summarising these objects, and
for permitting their use in spatial data analysis, including
regional aggregation by minimum spanning tree; a collection of
tests for spatial autocorrelation, including global Moran's I,
APLE, Geary's C, Hubert/Mantel general cross product statistic,
Empirical Bayes estimates and Assunção/Reis Index, Getis/Ord G
and multicoloured join count statistics, local Moran's I and
Getis/Ord G, saddlepoint approximations and exact tests for
global and local Moran's I; and functions for estimating
spatial simultaneous autoregressive (SAR) lag and error models,
impact measures for lag models, weighted and unweighted SAR and
CAR spatial regression models, semi-parametric and Moran
eigenvector spatial filtering, GM SAR error models, and
generalized spatial two stage least squares models.
ChangeLog | 24 +++++
DESCRIPTION | 6 -
inst/ChangeLog | 24 +++++
inst/doc/CO69.Rnw | 24 ++++-
inst/doc/CO69.pdf |binary
inst/doc/backstore |only
inst/doc/sids.pdf | 234 ++++++++++++++++++++++++-------------------------
man/ME.Rd | 2
man/aple.mc.Rd | 2
man/aple.plot.Rd | 2
man/impacts.sarlm.Rd | 2
man/joincount.multi.Rd | 4
man/spautolm.Rd | 5 -
13 files changed, 205 insertions(+), 124 deletions(-)
Author: Adrian Baddeley
Diff between spatstat versions 1.16-2 dated 2009-08-23 and 1.16-3 dated 2009-10-13
Title: Spatial Point Pattern analysis, model-fitting, simulation, tests
Description: A package for analysing spatial data, mainly Spatial Point
Patterns, including multitype/marked points and spatial
covariates, in any two-dimensional spatial region. Contains
functions for plotting spatial data, exploratory data analysis,
model-fitting, simulation, spatial sampling, model diagnostics,
and formal inference. Data types include point patterns, line
segment patterns, spatial windows, and pixel images. Point
process models can be fitted to point pattern data. Cluster
type models are fitted by the method of minimum contrast. Very
general Gibbs point process models can be fitted to point
pattern data using a function ppm similar to lm or glm. Models
may include dependence on covariates, interpoint interaction
and dependence on marks. Fitted models can be simulated
automatically. Also provides facilities for formal inference
(such as chi-squared tests) and model diagnostics (including
simulation envelopes, residuals, residual plots and Q-Q plots).
DESCRIPTION | 8
INDEX | 2
R/Kinhom.S | 52 +--
R/connected.R | 6
R/deltametric.R |only
R/distfun.R |only
R/ho.R | 3
R/images.R | 4
R/kppm.R | 31 +
R/mpl.R | 68 +++-
R/nncross.R | 4
R/pairsat.family.S | 61 +--
R/pairwise.family.S | 71 ++--
R/plot.ppp.S | 16 -
R/ppm.R | 4
R/ppmclass.R | 14
R/ppp.S | 17 -
R/quadratcount.R | 63 ++-
R/quadrattest.R | 2
R/rmhcontrol.R | 6
R/suffstat.R | 119 +++----
R/summary.ppm.R | 25 +
R/tess.R | 4
R/unique.ppp.R | 4
R/util.S | 37 ++
R/wingeom.S | 6
inst/doc/shapefiles.pdf | 758 +++++++++++++++++++++++-------------------------
man/Kinhom.Rd | 20 +
man/area.owin.Rd | 4
man/colourmap.Rd | 2
man/deltametric.Rd |only
man/distfun.Rd |only
man/distmap.Rd | 7
man/finpines.Rd | 5
man/internal.Rd | 12
man/markcorr.Rd | 2
man/nbfires.Rd | 4
man/perimeter.Rd | 3
man/plot.fv.Rd | 4
man/ppm.Rd | 47 +-
man/quadrats.Rd | 15
man/rmhmodel.default.Rd | 2
man/simulate.kppm.Rd | 15
man/spatstat-package.Rd | 5
man/suffstat.Rd | 35 ++
man/swedishpines.Rd | 2
src/corrections.c | 18 -
47 files changed, 889 insertions(+), 698 deletions(-)
Author: Adrian Baddeley
Diff between scuba versions 1.2-2 dated 2008-11-02 and 1.2-3 dated 2009-10-13
Title: Scuba diving calculations and decompression models
Description: dive profiles, decompression models and gas calculations
for scuba diving
DESCRIPTION | 15
inst/doc/intro.Rnw | 10
inst/doc/intro.pdf | 2661 ++++++++++++++++++++++++++++-------------------------
man/dive.Rd | 2
man/nitrox.Rd | 2
5 files changed, 1455 insertions(+), 1235 deletions(-)
Author: Daniela M. Witten and Robert Tibshirani
Diff between scout versions 1.0 dated 2008-12-09 and 1.0.1 dated 2009-10-13
Title: Implements the Scout method for Covariance-Regularized
Regression
Description: Implements the Scout method for regression, described in
"Covariance-regularized regression and classification for
high-dimensional problems", by Witten and Tibshirani (2008),
Journal of the Royal Statistical Society, Series B 71(3):
615-636.
DESCRIPTION | 17 ++++++++++++-----
man/crossProdLasso.Rd | 40 ++++++++++++++++++++--------------------
man/cv.scout.Rd | 4 ++--
man/predict.scoutobject.Rd | 4 ++--
man/scout-package.Rd | 8 ++++----
man/scout.Rd | 10 +++++-----
6 files changed, 45 insertions(+), 38 deletions(-)
Author: John Verzani with contributions by Yvonnick Noel
Title: Poor Man's GUI
Description: Simple GUI for R using gWidgets.
Diff between pmg versions 0.9-38 dated 2008-05-02 and 0.9-40 dated 2009-10-13
ChangeLog |only DESCRIPTION | 14 ++++++++------ DESCRIPTION.gWidgetsRGtk |only NEWS | 7 ++++++- TODO.txt |only changes.txt |only inst/doc/pmg.pdf |binary man/pmg.Rd | 2 +- quincunx.R |only readme |only 10 files changed, 15 insertions(+), 8 deletions(-)
Author: Chris Fraley and Adrian Raftery
Title: Model-Based Clustering / Normal Mixture Modeling
Description: Model-based clustering and normal mixture modeling
including Bayesian regularization
Diff between mclust versions 3.3.1 dated 2009-07-01 and 3.3.2 dated 2009-10-13
mclust-3.3.1/mclust/core |only mclust-3.3.2/mclust/CHANGELOG | 1 + mclust-3.3.2/mclust/DESCRIPTION | 8 ++++---- mclust-3.3.2/mclust/man/mclustOptions.Rd | 18 +++++++++--------- 4 files changed, 14 insertions(+), 13 deletions(-)
Author: Rob J Hyndman
Diff between hdrcde versions 2.11 dated 2009-09-18 and 2.12 dated 2009-10-13
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 | 4 ++++
DESCRIPTION | 8 ++++----
INDEX | 1 +
NAMESPACE | 2 +-
R/hdr.R | 4 ++--
R/hdr.boxplot.R | 49 ++++++++++++++++++++++++++++++++++++++++++++-----
R/hdr.den.R | 4 ++--
man/BoxCox.Rd |only
man/hdr.Rd | 43 +++++++++++++++++++++++++++++++++----------
9 files changed, 91 insertions(+), 24 deletions(-)
Author: Paul Gilbert
Diff between dse versions 2009.7-1 dated 2009-07-26 and 2009.10-1 dated 2009-10-13
Title: Dynamic Systems Estimation (time series package)
Description: Multivariate Time Series - ARMA and State Space models.
See ?dse.Intro for more details.
dse-2009.10-1/dse/DESCRIPTION | 24 ++++++++++--------------
dse-2009.10-1/dse/LICENSE |only
dse-2009.10-1/dse/NAMESPACE |only
dse-2009.10-1/dse/NEWS | 11 +++++++++++
dse-2009.10-1/dse/R |only
dse-2009.10-1/dse/data |only
dse-2009.10-1/dse/demo |only
dse-2009.10-1/dse/exec |only
dse-2009.10-1/dse/inst |only
dse-2009.10-1/dse/man |only
dse-2009.10-1/dse/src |only
dse-2009.10-1/dse/tests |only
dse-2009.7-1/dse/dse1 |only
dse-2009.7-1/dse/dse2 |only
14 files changed, 21 insertions(+), 14 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 1.1.9.3 dated 2009-10-07 and 1.1.9.4 dated 2009-10-13
DESCRIPTION | 8 ++++---- NAMESPACE | 3 ++- R/crn.plot.R | 26 +++++++++++++++++--------- R/detrend.R | 3 ++- R/detrend.series.R | 17 ++++++++++------- R/ffcsaps.R |only R/i.detrend.R | 5 +++-- R/i.detrend.series.R | 5 +++-- man/corr.rwl.seg.Rd | 2 +- man/corr.series.seg.Rd | 2 +- man/crn.plot.Rd | 12 +++++++++--- man/detrend.Rd | 10 +++++++++- man/detrend.series.Rd | 23 +++++++++++++++++------ man/ffcsaps.Rd |only man/hanning.Rd | 2 +- man/i.detrend.Rd | 8 +++++++- man/i.detrend.series.Rd | 8 +++++++- man/series.rwl.plot.Rd | 2 +- 18 files changed, 94 insertions(+), 42 deletions(-)
Author: Yu-Sung Su
Diff between R2jags versions 0.01-24 dated 2009-08-06 and 0.01-26 dated 2009-10-13
Title: A Package for Running jags from R
Description: Using this package to call jags from R.
CHANGELOG | 9 +++++++++
DESCRIPTION | 8 ++++----
NAMESPACE | 2 ++
R/attach.jags.R |only
R/jags.R | 5 ++---
R/jags2.R | 2 +-
man/attach.jags.Rd |only
man/jags.Rd | 19 ++++++++++++++-----
8 files changed, 32 insertions(+), 13 deletions(-)
Author: Alexis Dinno
Diff between LoopAnalyst versions 1.2-1.1 dated 2009-02-23 and 1.2-2 dated 2009-10-13
Title: A collection of tools to conduct Levins' Loop Analysis
Description: Loop analysis makes qualitative predictions of variable
change in a system of causally interdependent variabless, where
"qualitative" means sign only (i.e. increases, decreases, non
change, and ambiguous). This implementation includes output
support for graphs in .dot file format for use with
visualization software such as graphviz (graphviz.org). Loop
Analyst provides tools for the construction and output of
community matrices, computation and output of community effect
matrices, tables of correlations, adjoint, absolute feedback,
weighted feedback and weighted prediction matrices, change in
life expectancy matrices, and feedback, path and loop
enumeration tools.
DESCRIPTION | 27 ++++++++++++++++++++-------
R/graph.cem.R | 4 ++--
2 files changed, 22 insertions(+), 9 deletions(-)
Author: A.I. McLeod
Title: Kendall rank correlation and Mann-Kendall trend test
Description: Computes the Kendall rank correlation
Diff between Kendall versions 2.0 dated 2006-02-08 and 2.1 dated 2009-10-13
Kendall-2.0/Kendall/INDEX |only Kendall-2.0/Kendall/README |only Kendall-2.1/Kendall/DESCRIPTION | 24 +++++++------ Kendall-2.1/Kendall/R/Kendall.R | 4 +- Kendall-2.1/Kendall/man/Kendall-package.Rd |only Kendall-2.1/Kendall/man/Kendall.Rd | 46 +++++++++++++++++++------ Kendall-2.1/Kendall/man/SeasonalMannKendall.Rd | 23 +++++------- Kendall-2.1/Kendall/man/print.Kendall.Rd | 4 +- Kendall-2.1/Kendall/man/summary.Kendall.Rd | 4 +- Kendall-2.1/Kendall/src/Kendall.f | 1 10 files changed, 69 insertions(+), 37 deletions(-)
Author: A.I. McLeod
Title: Fractional Gaussian Noise Model Fitting
Description: MLE for H parameter in FGN; MLE for regression with FGN
error; simulation of FGN
Diff between FGN versions 1.1 dated 2008-01-08 and 1.2 dated 2009-10-13
FGN-1.1/FGN/INDEX |only FGN-1.2/FGN/DESCRIPTION | 25 ++-- FGN-1.2/FGN/man/Boot.FitFGN.Rd | 116 ++++++++++----------- FGN-1.2/FGN/man/Boot.Rd | 72 ++++++------- FGN-1.2/FGN/man/FGN-package.Rd |only FGN-1.2/FGN/man/FGNAcf.Rd | 78 +++++++------- FGN-1.2/FGN/man/FGNLL.Rd | 102 +++++++++---------- FGN-1.2/FGN/man/FitFGN.Rd | 142 +++++++++++++------------- FGN-1.2/FGN/man/FitRegressionFGN.Rd | 118 +++++++++++----------- FGN-1.2/FGN/man/GetFitFGN.Rd | 190 ++++++++++++++++++------------------ FGN-1.2/FGN/man/HurstK.Rd | 92 ++++++++--------- FGN-1.2/FGN/man/NileFlowCMS.Rd | 64 ++++++------ FGN-1.2/FGN/man/NileMin.Rd | 188 +++++++++++++++++------------------ FGN-1.2/FGN/man/SimulateFGN.Rd | 114 ++++++++++----------- FGN-1.2/FGN/man/coef.FitFGN.Rd | 72 ++++++------- FGN-1.2/FGN/man/plot.FitFGN.Rd | 102 +++++++++---------- FGN-1.2/FGN/man/predict.FitFGN.Rd | 88 ++++++++-------- FGN-1.2/FGN/man/print.FitFGN.Rd | 80 +++++++-------- FGN-1.2/FGN/man/residuals.FitFGN.Rd | 54 +++++----- FGN-1.2/FGN/man/summary.FitFGN.Rd | 58 +++++----- 20 files changed, 879 insertions(+), 876 deletions(-)
Author: Original by Jay L. Devore, modifications by Douglas Bates
Diff between Devore7 versions 0.7.1 dated 2007-03-08 and 0.7.2 dated 2009-10-13
Title: Data sets from Devore's "Prob and Stat for Eng (7th ed)"
Description: Data sets and sample analyses from Jay L. Devore (2008),
"Probability and Statistics for Engineering and the Sciences
(7th ed)", Thomson.
DESCRIPTION | 13
inst/doc/Devore7.pdf |13629 +++++++++++++++++++++++++++++----------------------
man/xmp15.09.Rd | 2
3 files changed, 7916 insertions(+), 5728 deletions(-)
Author: Enrico Glaab
Title: Convert 3D data matrices to VRML files
Description: vrmlgen translates 3D point data, i.e. a numerical matrix
with 3 columns and n rows, into a visual representation in the
Virtual Reality Markup Language (VRML, filetype .wrl) or
alternatively, in the LiveGraphics3D format.
Diff between vrmlgen versions 1.0 dated 2009-03-21 and 1.1 dated 2009-10-12
DESCRIPTION | 19 ++-- R/lbar.R |only R/lcloud.R |only R/vbar.R | 144 +++++++++++++++++++++++++------------ R/vcloud.R | 188 +++++++++++++++++++++++++++++++------------------ R/vrmlgen-internal.R | 68 +++++------------ man/lbar.Rd |only man/lcloud.Rd |only man/vbar.Rd | 35 ++++----- man/vcloud.Rd | 39 +++++----- man/vrmlgen-package.Rd | 6 - 11 files changed, 289 insertions(+), 210 deletions(-)
Author: Russell V. Lenth
Title: Response-surface analysis
Description: Provides functions to generate response-surface designs,
fit first- and second-order response-surface models, make
contour plots, obtain the path of steepest ascent, and do
canonical analysis.
Diff between rsm versions 1.12 dated 2009-05-06 and 1.13 dated 2009-10-12
DESCRIPTION | 8 ++++---- inst/doc/rsm.pdf |binary man/steepest.Rd | 2 +- 3 files changed, 5 insertions(+), 5 deletions(-)
Author: Gregory R. Warnes. Includes R source code and/or documentation
contributed by (in alphabetical order): Ben Bolker, Lodewijk
Bonebakker, Robert Gentleman, Wolfgang Huber Andy Liaw, Thomas
Lumley, Martin Maechler, Arni Magnusson, Steffen Moeller, Marc
Schwartz, Bill Venables
Title: Various R programming tools for plotting data
Description: Various R programming tools for plotting data
Diff between gplots versions 2.7.1 dated 2009-05-11 and 2.7.2 dated 2009-10-12
ChangeLog | 1084 +++++++++++++------------------------------ DESCRIPTION | 6 NEWS | 11 R/col2hex.R | 4 inst/ChangeLog | 1084 +++++++++++++------------------------------ inst/NEWS | 11 man/colorpanel.Rd | 2 man/lowess.Rd | 4 man/ooplot.Rd | 2 man/overplot.Rd | 6 man/smartlegend.Rd | 2 man/space.Rd | 4 tests/heatmap2Test.Rout.save | 10 13 files changed, 714 insertions(+), 1516 deletions(-)
Author: Joerg Polzehl
Diff between aws versions 1.6 dated 2009-04-15 and 1.6-1 dated 2009-10-12
Title: Adaptive Weights Smoothing
Description: The package contains R-functions implementing the
Propagation-Separation Approach to adaptive smoothing as
described in J. Polzehl and V. Spokoiny (2006),
Propagation-Separation Approach for Local Likelihood
Estimation, Prob. Theory and Rel. Fields, 135(3):335--362. and
J. Polzehl and V. Spokoiny (2004) Spatially adaptive regression
estimation: Propagation-separation approach, WIAS-Preprint 998.
aws-1.6-1/aws/DESCRIPTION | 8 ++++----
aws-1.6-1/aws/NAMESPACE | 3 ++-
aws-1.6-1/aws/R/awssegment.r |only
aws-1.6-1/aws/R/misc.r | 14 ++++++++++++++
aws-1.6-1/aws/demo/00Index | 3 +++
aws-1.6-1/aws/demo/awssegm_ex1.r |only
aws-1.6-1/aws/demo/awssegm_ex2.r |only
aws-1.6-1/aws/demo/awssegm_ex3.r |only
aws-1.6-1/aws/man/aws-package.Rd |only
aws-1.6-1/aws/man/aws.Rd | 10 +++++-----
aws-1.6-1/aws/man/aws.gaussian.Rd | 6 +++---
aws-1.6-1/aws/man/aws.segment.Rd |only
aws-1.6-1/aws/src/segment.f |only
aws-1.6-1/aws/structure |only
aws-1.6-1/aws/summary.txt |only
aws-1.6/aws/INDEX |only
16 files changed, 31 insertions(+), 13 deletions(-)
Author: Marc Schwartz
Diff between WriteXLS versions 1.8.1 dated 2009-06-25 and 1.8.2 dated 2009-10-12
Title: Cross-platform Perl based R function to create Excel 2003 (XLS)
files
Description: Cross-platform perl based R function to create Excel (XLS)
files from one or more data frames. Each data frame will be
written to a separate named worksheet in the Excel spreadsheet.
The worksheet name will be the name of the data frame it
contains or can be specified by the user.
WriteXLS-1.8.1/WriteXLS/inst/INSTALL |only
WriteXLS-1.8.2/WriteXLS/DESCRIPTION | 10 ++++++----
WriteXLS-1.8.2/WriteXLS/man/WriteXLS.Rd | 2 +-
3 files changed, 7 insertions(+), 5 deletions(-)
Author: Joerg Polzehl
Diff between EDR versions 0.6-2.2 dated 2007-11-20 and 0.6-3 dated 2009-10-12
Title: Estimation of the effective dimension reduction (EDR) space
Description: The library contains R-functions to estimate the effective
dimension reduction space in multi-index regression models.
COPYRIGHT | 2 +-
DESCRIPTION | 20 ++++++++++----------
NAMESPACE | 2 +-
R/edr.r | 8 ++------
R/edrcv.r | 2 +-
README |only
man/edr.R.Rd | 5 +++--
man/edr.Rd | 4 ++--
man/edrcv.Rd | 5 ++---
man/plot.edr.Rd | 4 +++-
man/print.edr.Rd | 8 ++++----
man/summary.edr.Rd | 8 ++++----
12 files changed, 33 insertions(+), 35 deletions(-)
Author: Michael Sumner and Simon Wotherspoon
Title: Metropolis sampler and supporting functions for estimating
animal movement from archival tags and satellite fixes
Description: Data handling and estimation functions for animal movement
estimation by light level and satellite data. Image summaries
from MCMC simulations of point data, binned by time interval.
Various convenience functions for creating generic summary
images for periods defined by the location estimation and
combining those in arbitrarily specified ways.
Diff between tripEstimation versions 0.0-24 dated 2008-01-19 and 0.0-29 dated 2009-10-12
tripEstimation-0.0-24/tripEstimation/man/as.local.pimg.Rd |only tripEstimation-0.0-24/tripEstimation/man/as.matrix.pimg.Rd |only tripEstimation-0.0-24/tripEstimation/man/bin.pimg.Rd |only tripEstimation-0.0-24/tripEstimation/man/chain.dim.Rd |only tripEstimation-0.0-24/tripEstimation/man/chain.write.Rd |only tripEstimation-0.0-24/tripEstimation/man/chunk.bin.Rd |only tripEstimation-0.0-24/tripEstimation/man/combine.Rd |only tripEstimation-0.0-24/tripEstimation/man/coords.pimg.Rd |only tripEstimation-0.0-24/tripEstimation/man/get.pimgs.Rd |only tripEstimation-0.0-24/tripEstimation/man/pimg.Rd |only tripEstimation-0.0-24/tripEstimation/man/unzipper.Rd |only tripEstimation-0.0-29/tripEstimation/CHANGES | 102 ++++++++-- tripEstimation-0.0-29/tripEstimation/DESCRIPTION | 32 ++- tripEstimation-0.0-29/tripEstimation/R/astro.R | 57 +++--- tripEstimation-0.0-29/tripEstimation/R/initialize.x.R | 45 ++-- tripEstimation-0.0-29/tripEstimation/R/satellite.model.R | 73 ++++--- tripEstimation-0.0-29/tripEstimation/R/solar.model.R | 113 +++++------- tripEstimation-0.0-29/tripEstimation/man/as.image.pimg.Rd | 58 +++--- tripEstimation-0.0-29/tripEstimation/man/astro.Rd | 7 tripEstimation-0.0-29/tripEstimation/man/behav.bin.Rd | 62 ++---- tripEstimation-0.0-29/tripEstimation/man/chain.read.Rd | 7 tripEstimation-0.0-29/tripEstimation/man/initialize.x.Rd | 10 - tripEstimation-0.0-29/tripEstimation/man/metropolis.Rd | 7 tripEstimation-0.0-29/tripEstimation/man/mkLookup.Rd | 2 tripEstimation-0.0-29/tripEstimation/man/pick.Rd | 4 tripEstimation-0.0-29/tripEstimation/man/pimg.list.Rd | 69 ++----- tripEstimation-0.0-29/tripEstimation/man/satellite.model.Rd | 23 +- tripEstimation-0.0-29/tripEstimation/man/solar.model.Rd | 4 28 files changed, 362 insertions(+), 313 deletions(-)
More information about tripEstimation at CRAN
Permanent link
Author: Michael D. Sumner
Title: Spatial analysis of animal track data
Description: Functions for accessing and manipulating spatial data for
animal tracking. Filter for speed and create time spent plots
from animal track data.
Diff between trip versions 1.1-2 dated 2008-11-10 and 1.1-3 dated 2009-10-12
DESCRIPTION | 25 ++++++++++++++----------- man/TimeOrderedRecords.Rd | 5 ----- man/argos.sigma.Rd | 6 ------ man/makeGridTopology.Rd | 16 ---------------- man/readDiag.Rd | 8 -------- man/speedfilter.Rd | 6 +++--- man/trackDistance.Rd | 9 --------- man/tripGrid.Rd | 6 ------ 8 files changed, 17 insertions(+), 64 deletions(-)
Author: Roger Bivand
Diff between spdep versions 0.4-46 dated 2009-10-07 and 0.4-47 dated 2009-10-12
Title: Spatial dependence: weighting schemes, statistics and models
Description: A collection of functions to create spatial weights matrix
objects from polygon contiguities, from point patterns by
distance and tesselations, for summarising these objects, and
for permitting their use in spatial data analysis, including
regional aggregation by minimum spanning tree; a collection of
tests for spatial autocorrelation, including global Moran's I,
APLE, Geary's C, Hubert/Mantel general cross product statistic,
Empirical Bayes estimates and Assunção/Reis Index, Getis/Ord G
and multicoloured join count statistics, local Moran's I and
Getis/Ord G, saddlepoint approximations and exact tests for
global and local Moran's I; and functions for estimating
spatial simultaneous autoregressive (SAR) lag and error models,
impact measures for lag models, weighted and unweighted SAR and
CAR spatial regression models, semi-parametric and Moran
eigenvector spatial filtering, GM SAR error models, and
generalized spatial two stage least squares models.
ChangeLog | 467 ++++++++++++++++++++++++++++++++----------------------
DESCRIPTION | 8
R/impacts.R | 3
inst/ChangeLog | 467 ++++++++++++++++++++++++++++++++----------------------
inst/doc/CO69.pdf |binary
inst/doc/sids.pdf |binary
man/trW.Rd | 1
7 files changed, 561 insertions(+), 385 deletions(-)
Author: Hans Peter Wolf
Diff between relax versions 1.2.1 dated 2009-03-25 and 1.3.1 dated 2009-10-12
Title: relax -- R Editor for Literate Analysis and lateX
Description: package relax contains some functions for report writing,
presentation, and programming: relax(), tangleR(), weaveR(),
slider(). "relax" is written in R and Tcl/Tk. relax creates a
new window (top level Tcl/Tk widget) that consists of two text
fields and some buttons and menus. Text (chunks) and code
(chunks) are inserted in the upper text field (report field).
Code chunks are evaluated by clicking on EvalRCode. Results are
shown in the lower text field (output field) and will be
transfered to the report field by pressing on Insert. In this
way you get correct reports. These reports can be loaded again
in cause of presentation, modification and result checking.
tangleR() and weaveR() implement a plain kind of tangling and
weaving. slider() is designed to define sliders for interactive
experiments in a simple way. The syntax rules of code chunks
and text chunks are defined by the noweb system proposed by
Norman Ramsey
(http://www.eecs.harvard.edu/~nr/noweb/intro.html). For
integrating jpeg graphics into the text field you need the
Tcl/Tk Img package of Jan Nijtmans (see:
http://members.chello.nl/~j.nijtmans/img.html,
http://home.kpnplanet.nl/~J.Nijtmans@kpnplanet.nl/img.html or
http://tkimg.sourceforge.net/, the package is found on
http://sourceforge.net/projects/tkimg). If an Img version is
integrated in the relax package the license terms concerning
the img package will be found in the source file of the
package, for example in: relax/src/tkimg1.3.tar.gz. Older
windows versions of relax contain the Tcl/Tk img package, so no
further installations have to be done.
DESCRIPTION | 8 -
R/relax.R | 304 +++++++++++++++++++++++++++++++++++++++++++++---
R/slider.R | 2
R/weaveR.R | 6
inst/lib/LaTeX-head.tex | 9 -
inst/src/relax.rev | 201 +++++++++++++++++++++++++------
inst/src/webR.rev | 14 ++
man/relax.Rd | 3
8 files changed, 476 insertions(+), 71 deletions(-)
Author: Dimitris Rizopoulos
Diff between ltm versions 0.9-1 dated 2009-06-19 and 0.9-2 dated 2009-10-12
Title: Latent Trait Models under IRT
Description: Analysis of multivariate dichotomous and polytomous data
using latent trait models under the Item Response Theory
approach. It includes the Rasch, the Two-Parameter Logistic,
the Birnbaum's Three-Parameter, the Graded Response, and the
Generalized Partial Credit Models.
DESCRIPTION | 8 +++---
R/GHpoints.R | 3 +-
R/factor.scores.gpcm.R | 3 +-
R/factor.scores.grm.R | 3 +-
R/factor.scores.ltm.R | 4 ++-
R/factor.scores.rasch.R | 3 +-
R/factor.scores.tpm.R | 3 +-
R/fscores.g.R | 7 ++++-
R/fscores.gp.R | 7 ++++-
R/fscores.l.R | 25 ++++++++++----------
R/fscores.r.R | 7 ++++-
R/fscores.t.R | 7 ++++-
R/item.fit.R | 28 ++++++++++++++++------
R/ltm.R | 2 -
R/ltm.fit.R | 5 +++-
R/onAttach.R | 2 -
R/person.fit.R | 2 -
R/print.itemFit.R | 2 -
R/start.val.ltm.R | 3 +-
data/Abortion.rda |binary
data/Environment.rda |binary
data/LSAT.rda |binary
data/Mobility.rda |binary
data/Science.rda |binary
data/WIRS.rda |binary
inst/NEWS | 59 ++++++++++++++++++++++++++++--------------------
man/factor.scores.Rd | 20 ++++++++++++----
man/item.fit.Rd | 6 ++--
man/ltm-package.Rd | 4 +--
29 files changed, 139 insertions(+), 74 deletions(-)
Author: Hsin-ya Lee, Yung-jin Lee
Title: A data analysis tool for in vitro-in vivo correlation (IVIVC)
Description: a menu-driven package for IVIVC model buidling and model
validation
Diff between ivivc versions 0.1.4 dated 2008-11-04 and 0.1.5 dated 2009-10-12
ivivc-0.1.4/ivivc/R/ivivc.r |only ivivc-0.1.4/ivivc/man/ivivc.rd |only ivivc-0.1.5/ivivc/DESCRIPTION | 25 ++++++++++++++----------- ivivc-0.1.5/ivivc/R/DepModel.R | 2 +- ivivc-0.1.5/ivivc/R/InVVRefcsv.r | 18 +++++++++--------- ivivc-0.1.5/ivivc/R/InVVRefdata.R | 8 ++++---- ivivc-0.1.5/ivivc/R/InVVTestcsv.r | 14 +++++++------- ivivc-0.1.5/ivivc/R/InVVTestdata.R | 2 +- ivivc-0.1.5/ivivc/R/PK.r | 2 +- ivivc-0.1.5/ivivc/R/PKfit.R | 2 +- ivivc-0.1.5/ivivc/R/PKvalue.r | 22 +++++++++++++--------- ivivc-0.1.5/ivivc/R/SelModel.R | 2 +- ivivc-0.1.5/ivivc/R/bye.r | 4 ++-- ivivc-0.1.5/ivivc/R/ivivc_demo.r |only ivivc-0.1.5/ivivc/R/plotting.lin.R | 4 ++-- ivivc-0.1.5/ivivc/R/plotting.non.R | 4 ++-- ivivc-0.1.5/ivivc/R/run.R | 4 ++-- ivivc-0.1.5/ivivc/R/zzz.R | 18 +++++++++--------- ivivc-0.1.5/ivivc/man/DepModel.rd | 2 ++ ivivc-0.1.5/ivivc/man/InVVRefcsv.rd | 2 ++ ivivc-0.1.5/ivivc/man/InVVRefdata.rd | 2 ++ ivivc-0.1.5/ivivc/man/InVVTestcsv.rd | 2 ++ ivivc-0.1.5/ivivc/man/InVVTestdata.rd | 2 ++ ivivc-0.1.5/ivivc/man/PK.rd | 2 ++ ivivc-0.1.5/ivivc/man/PKfit.rd | 2 ++ ivivc-0.1.5/ivivc/man/PKvalue.rd | 2 ++ ivivc-0.1.5/ivivc/man/SelModel.rd | 2 ++ ivivc-0.1.5/ivivc/man/WagNel.rd | 2 ++ ivivc-0.1.5/ivivc/man/aicllsbc.Rd | 2 ++ ivivc-0.1.5/ivivc/man/bye.rd | 2 ++ ivivc-0.1.5/ivivc/man/check.Rd | 2 ++ ivivc-0.1.5/ivivc/man/entertitle.Rd | 2 ++ ivivc-0.1.5/ivivc/man/fbolus1.Rd | 2 ++ ivivc-0.1.5/ivivc/man/ffirst.lag.Rd | 2 ++ ivivc-0.1.5/ivivc/man/ffirst.nolag.Rd | 2 ++ ivivc-0.1.5/ivivc/man/fzero.nolag.Rd | 2 ++ ivivc-0.1.5/ivivc/man/iv.route.Rd | 2 ++ ivivc-0.1.5/ivivc/man/ivivc_demo.rd |only ivivc-0.1.5/ivivc/man/noniv.route.Rd | 2 ++ ivivc-0.1.5/ivivc/man/one.list.Rd | 2 ++ ivivc-0.1.5/ivivc/man/plotting.cp.rd | 2 ++ ivivc-0.1.5/ivivc/man/plotting.lin.Rd | 2 ++ ivivc-0.1.5/ivivc/man/plotting.non.Rd | 2 ++ ivivc-0.1.5/ivivc/man/plotting.vitro.rd | 2 ++ ivivc-0.1.5/ivivc/man/run.rd | 2 ++ 45 files changed, 121 insertions(+), 62 deletions(-)
Author: Dimitris Rizopoulos
Diff between grouped versions 0.5-0 dated 2009-01-26 and 0.6-0 dated 2009-10-12
Title: Regression Analysis of Grouped and Coarse Data
Description: Regression models for grouped and coarse data, under the
Coarsened At Random assumption.
grouped-0.5-0/grouped/inst/CITATION |only
grouped-0.6-0/grouped/DESCRIPTION | 28 ++++++++++++++++------------
2 files changed, 16 insertions(+), 12 deletions(-)
Author: Karsten Tabelow
Diff between dti versions 0.8-1 dated 2009-09-09 and 0.8-2 dated 2009-10-12
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 | 8 ++++----
man/show-methods.Rd | 2 +-
2 files changed, 5 insertions(+), 5 deletions(-)
Author: Tomoaki Nakatani
Diff between ccgarch versions 0.1.6 dated 2009-08-10 and 0.1.7 dated 2009-10-12
Title: Conditional Correlation GARCH models
Description: Functions for estimating and simulating the family of the
CC-GARCH models.
ChangeLog |only
DESCRIPTION | 8 ++++----
R/R_dcc.R | 2 +-
R/dcc_results.R | 3 ++-
R/dlc.R | 3 ++-
R/simulate_dcc.R | 2 +-
R/simulate_eccc.R | 2 +-
R/simulate_stcc.R | 2 +-
R/uni_vola.R | 2 +-
R/uni_vola_sim.R | 2 +-
R/vector_garch.R | 2 +-
man/analytical_Hessian.Rd | 2 +-
man/analytical_grad.Rd | 2 +-
man/d2lv.Rd | 6 +++---
man/dcc_estimation.Rd | 4 ++--
man/dcc_estimation1.Rd | 2 +-
man/dcc_results.Rd | 4 ++--
man/dcc_sim.Rd | 2 +-
man/dlc.Rd | 6 +++---
man/dlv.Rd | 4 ++--
man/dlv_est.Rd | 4 ++--
man/eccc_estimation.Rd | 10 +++++-----
man/grad_dcc2.Rd | 2 +-
man/grad_full_likelihood.Rd | 2 +-
man/jb_test.Rd | 2 +-
man/ljung_box_test.Rd | 2 +-
man/loglik_dcc.Rd | 4 ++--
man/loglik_dcc1.Rd | 4 ++--
man/loglik_dcc2.Rd | 2 +-
man/loglik_eccc.Rd | 2 +-
man/rob_kr.Rd | 2 +-
man/uni_vola.Rd | 2 +-
man/vec_garch_derivative.Rd | 2 +-
man/vector_garch.Rd | 8 ++++----
src/R_eccc_sim.c | 39 ++++++++++++++-------------------------
src/R_stcc_sim.c | 6 ++----
36 files changed, 71 insertions(+), 82 deletions(-)
Author: Karsten Tabelow
Diff between adimpro versions 0.7.2 dated 2009-04-14 and 0.7.3 dated 2009-10-12
Title: Adaptive Smoothing of Digital Images
Description: This package implements tools for manipulationg digital
images and the Propagation Separation approach by Polzehl and
Spokoiny (2006) for smoothing digital images.
DESCRIPTION | 12 ++++++------
inst/CITATION |only
man/adimpro.Rd | 2 +-
man/awsimage.Rd | 8 ++++----
man/awsraw.Rd | 6 ++----
man/combine.Rd | 2 +-
man/imganiso2D.Rd | 8 ++++----
src/shrink.f | 4 ++--
8 files changed, 20 insertions(+), 22 deletions(-)
Author: Tatjana Kinsvater
Title: Testing equality of spectral densities
Description: Bootstrap for testing the hypothesis that the spectral
densities of a number m, m>=2, not necessarily independent time
series are equal
Diff between bootspecdens versions 2.0 dated 2009-02-16 and 3.0 dated 2009-10-12
bootspecdens-2.0/bootspecdens/Read-and-delete-me |only bootspecdens-3.0/bootspecdens/DESCRIPTION | 26 ++++++++------ bootspecdens-3.0/bootspecdens/R/specdens.R | 13 +++++++ bootspecdens-3.0/bootspecdens/man/bootspecdens-package.Rd | 3 - bootspecdens-3.0/bootspecdens/man/specdens.Rd | 5 +- 5 files changed, 30 insertions(+), 17 deletions(-)
Author: Anthony Davison
Diff between SMPracticals versions 1.3 dated 2009-02-12 and 1.3-1 dated 2009-10-12
Title: Practicals for use with Davison (2003) Statistical Models
Description: This package contains the datasets and a few functions for
use with the practicals outlined in Appendix A of the book
Statistical Models (Davison, 2003, Cambridge University Press).
The practicals themselves can be found at
http://statwww.epfl.ch/davison/SM/
DESCRIPTION | 22 +++++++++++++---------
R/get.alpha.R |only
man/beaver.Rd | 2 +-
man/get.alpha.Rd |only
man/pairs.mod.Rd | 3 +--
man/shuttle.Rd | 2 +-
6 files changed, 16 insertions(+), 13 deletions(-)
Author: Brian Ripley, and from 1999 to Oct 2002 Michael Lapsley
Title: ODBC Database Access
Description: An ODBC database interface
Diff between RODBC versions 1.3-0 dated 2009-07-28 and 1.3-1 dated 2009-10-12
ChangeLog | 9 ++++++++- DESCRIPTION | 8 ++++---- man/odbcConnect.Rd | 47 +++++++++++++++++++++++++---------------------- man/odbcDataSources.Rd | 2 +- man/odbcGetInfo.Rd | 3 ++- man/sqlQuery.Rd | 4 ++-- man/sqlSave.Rd | 12 ++++++------ man/sqlTables.Rd | 6 +++--- src/RODBC.c | 2 +- 9 files changed, 52 insertions(+), 41 deletions(-)
Author: This package is 99% based on the Rcmdr package written by John
Fox
Diff between QCAGUI versions 1.3-6 dated 2009-02-10 and 1.3-7 dated 2009-10-12
Title: QCA Graphical User Interface
Description: QCAGUI is a graphical user interface (GUI) for the QCA
package, derived from R Commander. Because QCA has little to do
with statistics, the menus from Rcmdr were stripped down to the
very basics. In crisp sets QCA, data is binary therefore it is
fairly decent to treat it as categorical (1 - presence; 0 -
absence). In order to ease the primary analysis (e.g. tables of
frequencies) and the creation of basic graphs, this package
activates some menus that are not available in Rcmdr but for
factors. Users should be aware, however, that QCAGUI is not a
package for statistics; Rcmdr is better for this purpose
DESCRIPTION | 39 ++++++++++++++++++++++++++-------------
R/analyze-menu.R | 17 ++++++++++-------
man/QCAGUI.package.Rd | 6 +++---
man/Rcmdr-package.Rd | 4 ++--
man/hierarchicalCluster.Rd | 2 +-
5 files changed, 42 insertions(+), 26 deletions(-)
Author: Ronggui HUANG
Title: Qualitative Comparative Analysis with R
Description: A set of functions for Qulitative Comparative Analysis
(QCA). It can be used for all three types of QCA. It has
methods for simplifying assumption, contradictory simplifying
assumption. Moreover, it can return the constrained result by
including or excluding specific conditions.
Diff between QCA3 versions 0.0-1 dated 2009-09-28 and 0.0-2 dated 2009-10-12
DESCRIPTION | 21 +++++++++++---------- man/coincid.Rd | 2 +- man/suffnec.Rd | 2 +- 3 files changed, 13 insertions(+), 12 deletions(-)
Author: S. Dejean, N. Oumouhou, D. Estivals, B. Mangin
Title: HapIM
Description: The package provides a set of functions whose aim is to
propose 4 methods of QTL detection. HAPimLD is an
interval-mapping method designed for unrelated individuals with
no family information that makes use of linkage disequilibrium.
HAPimLDL is an interval-mapping method for design of half-sib
families. It combines linkage analysis and linkage
disequilibrium. HaploMax is based on an analysis of variance
with a dose haplotype effect. HaploMaxHS is based on an
analysis of variance with a sire effect and a dose haplotype
effect in half-sib family design. Fundings for the package
development were provided to the LDLmapQTL project by the ANR
GENANIMAL program and APIS-GENE.
Diff between HAPim versions 1.2 dated 2008-09-01 and 1.3 dated 2009-10-12
DESCRIPTION | 27 ++++++++++++++++++++------- data/data.test.rda |binary man/HAPim-package.Rd | 4 ++-- man/data.test.Rd | 27 ++++++++++++++++++--------- man/haldanem1.Rd | 2 +- man/hapim.LD.add.Rd | 2 +- man/hapim.LDL.add.Rd | 2 +- man/pi.hap.Rd | 2 +- 8 files changed, 44 insertions(+), 22 deletions(-)
Author: S-plus original by Ulric Lund
Diff between CircStats versions 0.2-3 dated 2007-08-25 and 0.2-4 dated 2009-10-12
Title: Circular Statistics, from "Topics in circular Statistics" (2001)
Description: Circular Statistics, from "Topics in circular Statistics"
(2001) S. Rao Jammalamadaka and A. SenGupta, World Scientific.
CircStats-0.2-3/CircStats/._PORTING |only
CircStats-0.2-4/CircStats/DESCRIPTION | 16 ++++++++++------
CircStats-0.2-4/CircStats/PORTING | 4 ++++
CircStats-0.2-4/CircStats/R/circular.R | 6 +++---
CircStats-0.2-4/CircStats/README | 2 +-
CircStats-0.2-4/CircStats/man/rstable.Rd | 18 +++++++-----------
6 files changed, 25 insertions(+), 21 deletions(-)
Author: Ivailo Partchev
Title: Simple interface to the estimation and plotting of IRT models
Description: Provides a simple common interface to the estimation of
item parameters in IRT models for binary responses with three
different programs (ICL, BILOG-MG, and ltm, and a variety of
functions useful with IRT models.
Diff between irtoys versions 0.1.1 dated 2008-06-25 and 0.1.2 dated 2009-10-12
irtoys-0.1.1/irtoys/R/irtoys.r |only irtoys-0.1.1/irtoys/data/mymodel.dat |only irtoys-0.1.1/irtoys/data/mymodel.icld |only irtoys-0.1.1/irtoys/data/mymodel.iclo |only irtoys-0.1.1/irtoys/data/mymodel.iclp |only irtoys-0.1.1/irtoys/data/mymodel.tcl |only irtoys-0.1.1/irtoys/man/mlebme.rd |only irtoys-0.1.1/irtoys/man/sco.rd |only irtoys-0.1.1/irtoys/man/sim.rd |only irtoys-0.1.1/irtoys/man/tgp.rd |only irtoys-0.1.2/irtoys/DESCRIPTION | 31 +++++++++++++++------------ irtoys-0.1.2/irtoys/R/irtoys.R |only irtoys-0.1.2/irtoys/man/api.Rd |only irtoys-0.1.2/irtoys/man/dpv.Rd |only irtoys-0.1.2/irtoys/man/eap.Rd | 2 - irtoys-0.1.2/irtoys/man/grp.Rd | 11 +++++---- irtoys-0.1.2/irtoys/man/internal.Rd | 4 +++ irtoys-0.1.2/irtoys/man/irtoys.package.Rd | 34 +++++++++++++----------------- irtoys-0.1.2/irtoys/man/itf.Rd | 5 +++- irtoys-0.1.2/irtoys/man/mlebme.Rd |only irtoys-0.1.2/irtoys/man/sco.Rd |only irtoys-0.1.2/irtoys/man/sim.Rd |only irtoys-0.1.2/irtoys/man/tgp.Rd |only irtoys-0.1.2/irtoys/man/tsc.Rd |only 24 files changed, 47 insertions(+), 40 deletions(-)
More information about integrativeMEdata at CRAN
Permanent link
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 1.0 dated 2009-09-29 and 1.0.2 dated 2009-10-12
hash-1.0.2/hash/ChangeLog | 15 +++++++++++++++ hash-1.0.2/hash/DESCRIPTION | 10 +++++----- hash-1.0.2/hash/R/Class-hash.R | 20 ++++++++++++-------- hash-1.0.2/hash/R/clear.R | 2 +- hash-1.0.2/hash/R/del.R | 2 +- hash-1.0.2/hash/R/get.R | 4 ++-- hash-1.0.2/hash/R/has-key.R | 6 +----- hash-1.0.2/hash/R/hash.R | 13 +------------ hash-1.0.2/hash/R/invert.R | 2 +- hash-1.0.2/hash/R/keys.R | 2 +- hash-1.0.2/hash/R/length.R | 2 +- hash-1.0.2/hash/R/make-keys.R |only hash-1.0.2/hash/R/set.R | 10 +++++----- hash-1.0.2/hash/R/values.R | 2 +- hash-1.0.2/hash/R/zzz.R | 10 +++++----- hash-1.0.2/hash/TODO | 13 +++++++++++-- hash-1.0.2/hash/man/del.Rd | 4 ++-- hash-1.0.2/hash/man/get.Rd | 2 +- hash-1.0.2/hash/man/hash-accessors.Rd | 21 ++++++++++++++++----- hash-1.0.2/hash/man/hash-class.Rd | 2 +- hash-1.0.2/hash/man/hash-package.Rd | 4 ++-- hash-1.0.2/hash/man/invert.Rd | 2 +- hash-1.0.2/hash/man/make.keys.Rd |only hash-1.0/hash/R/validate-key.R |only hash-1.0/hash/man/validate.key.Rd |only 25 files changed, 86 insertions(+), 62 deletions(-)
Author: Originally written for S-Plus by: Kjell Konis
Diff between forward versions 1.0.2 dated 2009-02-10 and 1.0.3 dated 2009-10-12
Title: Forward search
Description: Forward search approach to robust analysis in linear and
generalized linear regression models.
DESCRIPTION | 19 +++++++++++--------
R/forward.R | 10 +++++-----
man/ar.Rd | 6 +++---
man/bliss.Rd | 6 +++---
man/calcium.Rd | 6 +++---
man/carinsuk.Rd | 6 +++---
man/carr.Rd | 6 +++---
man/cellular.Rd | 6 +++---
man/chapman.Rd | 6 +++---
man/derailme.Rd | 6 +++---
man/dialectric.Rd | 6 +++---
man/forbes.Rd | 6 +++---
man/fwd.combn.Rd | 2 +-
man/fwdglm.Rd | 14 +++++++-------
man/fwdlm.Rd | 12 ++++++------
man/fwdsco.Rd | 8 ++++----
man/hawkins.Rd | 6 +++---
man/kinetics.Rd | 6 +++---
man/lakes.Rd | 6 +++---
man/leafpine.Rd | 6 +++---
man/lmsglm.Rd | 14 +++++++-------
man/mice.Rd | 6 +++---
man/molar.Rd | 6 +++---
man/mussels.Rd | 6 +++---
man/ozone.Rd | 6 +++---
man/plot.fwdglm.Rd | 4 ++--
man/plot.fwdlm.Rd | 6 +++---
man/plot.fwdsco.Rd | 6 +++---
man/poison.Rd | 6 +++---
man/rainfall.Rd | 6 +++---
man/salinity.Rd | 6 +++---
man/scglm.Rd | 6 +++---
man/score.s.Rd | 4 ++--
man/stackloss.Rd | 6 +++---
man/summary.fwdglm.Rd | 10 +++++-----
man/summary.fwdlm.Rd | 10 +++++-----
man/summary.fwdsco.Rd | 10 +++++-----
man/vaso.Rd | 6 +++---
man/wool.Rd | 6 +++---
39 files changed, 141 insertions(+), 138 deletions(-)
Author: Johannes Ranke
Diff between drfit versions 0.05-92 dated 2008-01-24 and 0.05-95 dated 2009-10-12
Title: Dose-response data evaluation
Description: drfit provides basic and easy-to-use functions for fitting
dose-response curves to dose-response data, calculating some
(eco)toxicological parameters and plotting the results.
Functions that are fitted are the cumulative density function
of the lognormal distribution (probit fit), of the logistic
distribution (logit fit), of the weibull distribution (weibull
fit) and a linear-logistic model ("linlogit" fit), derived from
the latter, which is used to describe data showing stimulation
at low doses (hormesis). In addition, functions checking,
plotting and retrieving dose-response data retrieved from a
database accessed via RODBC are included.
DESCRIPTION | 33 ++++++++++++++++++---------------
R/drplot.R | 9 +++++++--
man/drfit-package.Rd | 4 ++--
man/drplot.Rd | 12 ++++++++++--
tests/IM1xIPC81.Rout.save | 14 +++++++-------
tests/IM1xVibrio.Rout.save | 6 +++---
tests/XY.Rout.save | 6 +++---
tests/antifoul.Rout.save | 8 ++++----
tests/pyrithione.Rout.save | 12 +++++-------
9 files changed, 59 insertions(+), 45 deletions(-)
Author: Paul Murrell
Title: Comparing Objects for Differences
Description: Functions for comparing vectors and data frames.
Diff between compare versions 0.2-2 dated 2009-06-25 and 0.2-3 dated 2009-10-12
DESCRIPTION | 6 +++--- inst/doc/compare-intro.pdf |binary inst/doc/fundamentals.pdf |binary man/questionComments.Rd | 2 -- man/questionMarks.Rd | 2 -- 5 files changed, 3 insertions(+), 7 deletions(-)
Author: Christophe Genolini
Diff between r2lUniv versions 0.9.2 dated 2009-02-19 and 0.9.3 dated 2009-10-11
Title: R to LaTeX, Univariate analysis
Description: This package provide facilities to export some R analysis
in a LaTeX format. Working either on a single variable or on a
data.frame, it compute several statistics (frequency,
centrality, dispersion, graph) for each variable, according to
their nature.
r2lUniv-0.9.2/r2lUniv/R/rtlu.r |only
r2lUniv-0.9.2/r2lUniv/inst |only
r2lUniv-0.9.3/r2lUniv/DESCRIPTION | 31 +++++++++-------
r2lUniv-0.9.3/r2lUniv/R/function.R | 52 +++++++++++----------------
r2lUniv-0.9.3/r2lUniv/R/rtlu.R |only
r2lUniv-0.9.3/r2lUniv/man/r2lUniv-package.Rd | 4 +-
r2lUniv-0.9.3/r2lUniv/man/rtlu.Rd | 28 +++++++-------
7 files changed, 59 insertions(+), 56 deletions(-)
Author: Christophe Genolini
Title: Toy example of S4 package
Description: This package comes to illustrate the book "Petit Manuel de
Programmation Orientee Objet sous R"
Diff between packS4 versions 0.5 dated 2009-05-27 and 0.5.2 dated 2009-10-11
DESCRIPTION | 10 +++++----- man/ClassV-class.Rd | 4 ++-- man/packS4-package.Rd | 5 +++-- man/publicA-ClassV-method.Rd | 2 +- 4 files changed, 11 insertions(+), 10 deletions(-)
Author: Regine Scheder
Title: strictly monotone smoothing procedure
Description: monotonizes a given fit in one or two variables.
Diff between monoProc versions 1.0-4 dated 2005-09-21 and 1.0-6 dated 2009-10-11
monoProc-1.0-4/monoProc/inst/doc/Rplots.ps |only monoProc-1.0-6/monoProc/DESCRIPTION | 30 - monoProc-1.0-6/monoProc/NAMESPACE | 3 monoProc-1.0-6/monoProc/R/monoProcpackage.R | 61 +- monoProc-1.0-6/monoProc/inst/doc/monoproc.pdf |binary monoProc-1.0-6/monoProc/inst/doc/monoproc.snw | 660 +++++++++++------------ monoProc-1.0-6/monoProc/man/cv.Rd | 108 +-- monoProc-1.0-6/monoProc/man/ksmooth-class.Rd | 63 +- monoProc-1.0-6/monoProc/man/ksmooth.Rd | 42 - monoProc-1.0-6/monoProc/man/locfit.Rd | 44 - monoProc-1.0-6/monoProc/man/locpoly-class.Rd | 63 +- monoProc-1.0-6/monoProc/man/locpoly.Rd | 52 - monoProc-1.0-6/monoProc/man/loess-class.Rd | 39 - monoProc-1.0-6/monoProc/man/monofit-class.Rd | 65 +- monoProc-1.0-6/monoProc/man/monoproc-class.Rd | 55 - monoProc-1.0-6/monoProc/man/monoproc.1d-class.Rd | 88 +-- monoProc-1.0-6/monoProc/man/monoproc.2d-class.Rd | 86 +- monoProc-1.0-6/monoProc/man/monoproc.Rd | 240 ++++---- 18 files changed, 869 insertions(+), 830 deletions(-)
Author: Christophe Genolini
Title: Toy example of Pack Classic
Description: This package comes to illustrate the book "Petit Manuel de
Programmation Orientee Objet sous R"
Diff between packClassic versions 0.5.1 dated 2009-05-24 and 0.5.2 dated 2009-10-11
DESCRIPTION | 16 ++++++++-------- DESCRIPTION_EX |only NAMESPACE | 2 +- R/progClassic.R | 19 ++++++++++--------- divers |only main.R |only man/dataAges.Rd | 2 ++ man/packClassic-package.Rd | 6 ++++-- tests |only testsDev/testsProgClassic.R | 16 ++++++++-------- 10 files changed, 33 insertions(+), 28 deletions(-)
Author: David Hajage
Title: Export R objects to asciidoc or txt2tags
Description: Coerce R object to asciidoc or txt2tags syntax. Package
comes with two drivers for Sweave.
Diff between ascii versions 0.2 dated 2009-07-19 and 0.2.1 dated 2009-10-11
ascii-0.2.1/ascii/DESCRIPTION | 6 +++--- ascii-0.2.1/ascii/man/RweaveAsciidoc.Rd | 2 +- ascii-0.2.1/ascii/man/RweaveT2t.Rd | 2 +- ascii-0.2/ascii/TODO |only ascii-0.2/ascii/testsyntax.Rnw |only ascii-0.2/ascii/testsyntax.html |only ascii-0.2/ascii/testsyntax.txt |only 7 files changed, 5 insertions(+), 5 deletions(-)
Author: Jarek Tuszynski
Diff between caTools versions 1.9 dated 2008-07-07 and 1.10 dated 2009-10-11
Title: Tools: moving window statistics, GIF, Base64, ROC AUC, etc.
Description: Contains several basic utility functions including: moving
(rolling, running) window statistic functions, read/write for
GIF and ENVI binary files, fast calculation of AUC, LogitBoost
classifier, base64 encoder/decoder, round-off error free sum
and cumsum, etc.
CHANGES | 15 ++++
DESCRIPTION | 31 +++++----
R/ENVI.R | 2
R/GIF.R | 14 ++--
R/base64.R | 2
R/runfunc.R | 163 ++++++++++++++++++++++++++++++++----------------
man/caTools-internal.Rd | 9 ++
man/colAUC.Rd | 4 -
man/runmad.Rd | 37 ++++++++--
man/runmean.Rd | 29 ++++++--
man/runminmax.Rd | 40 +++++++++--
man/runquantile.Rd | 30 +++++++-
man/runsd.Rd | 27 ++++++-
src/GifTools.cpp | 6 +
src/runfunc.c | 18 ++---
15 files changed, 304 insertions(+), 123 deletions(-)
Author: Jarek Tuszynski
Diff between caMassClass versions 1.6 dated 2007-02-01 and 1.7 dated 2009-10-11
Title: Processing & Classification of Protein Mass Spectra (SELDI) Data
Description: Functions for processing and classification of protein
mass spectra (SELDI) data. Also includes support for mzXML
Files.
CHANGES | 10 ++++++++--
DESCRIPTION | 27 +++++++++++++++------------
R/msc.baseline.subtract.R | 3 +--
R/msc.biomarkers.IO.csv.R | 4 ++--
R/msc.biomarkers.fill.R | 18 +++++++++---------
R/msc.classifier.run.R | 10 +++++-----
R/msc.peaks.IO.csv.R | 4 ++--
R/msc.peaks.IO.mzXML.R | 30 +++++++++++++++---------------
R/msc.peaks.align.R | 8 ++++----
R/msc.peaks.find.R | 24 ++++++++++++------------
R/msc.preprocess.run.R | 10 +++++-----
R/msc.rawMS.IO.mzXML.R | 26 +++++++++++++-------------
R/mzXML.R | 14 +++++++-------
man/msc.rawMS.IO.csv.Rd | 2 +-
14 files changed, 99 insertions(+), 91 deletions(-)
Author: Romain Francois
Title: SciViews GUI API - Tools (wrapper for packages tools and
codetools)
Description: Set of tools aimed at wrapping some of the functionalities
of the packages tools, utils and codetools into a nicer format
so that an IDE can use them
Diff between svTools versions 0.0-10 dated 2009-08-10 and 0.0-11 dated 2009-10-11
DESCRIPTION | 18 +++++++++------- NAMESPACE | 63 +++++++++++++++++++++++++++------------------------------- NEWS | 15 ++++++++++++- R/zzz.R | 7 ++---- inst/CITATION | 14 ++++++------ 5 files changed, 64 insertions(+), 53 deletions(-)
Author: Philippe Grosjean
Title: SciViews GUI API - Functions to manage GUI client
Description: Functions to manage the GUI client, like Komodo with the
SciViews-K extension
Diff between svGUI versions 0.9-44 dated 2009-01-23 and 0.9-46 dated 2009-10-11
DESCRIPTION | 33 +++++++++++++++++++++------------ NAMESPACE | 2 ++ NEWS | 24 ++++++++++++++++++++++++ R/guiInstall.R | 20 +++++++------------- R/guiRefresh.R |only R/guiUninstall.R | 15 +++++++-------- R/koCmd.R | 5 +++-- R/svGUI-internal.R | 6 ++++-- TODO | 2 +- inst/CITATION | 14 +++++++------- man/guiRefresh.Rd |only 11 files changed, 76 insertions(+), 45 deletions(-)
Author: Philippe Grosjean
Title: SciViews GUI API - Dialog boxes
Description: Rapidly construct dialog boxes for your GUI, including an
automatic function assistant
Diff between svDialogs versions 0.9-40 dated 2009-06-28 and 0.9-41 dated 2009-10-11
DESCRIPTION | 16 +++++++++------- NEWS | 6 ++++++ R/fixedDlg.R | 6 +++--- inst/CITATION | 10 +++++----- 4 files changed, 23 insertions(+), 15 deletions(-)
Author: John Fox
Diff between sem versions 0.9-17 dated 2009-06-02 and 0.9-19 dated 2009-10-11
Title: Structural Equation Models
Description: This package contains functions for fitting general linear
structural equation models (with observed and unobserved
variables) by the method of maximum likelihood using the RAM
approach, and for fitting structural equations in
observed-variable models by two-stage least squares.
DESCRIPTION | 13 +--
R/path.diagram.R | 187 +++++++++++++++++++++-------------------------------
R/startvalues.R | 3
inst/CHANGES | 12 +++
man/path.diagram.Rd | 38 ++++++----
man/sem.Rd | 2
6 files changed, 124 insertions(+), 131 deletions(-)
Author: Martyn Plummer
Title: Bayesian graphical models using MCMC
Description: Interface to the JAGS MCMC library
Diff between rjags versions 1.0.3-10 dated 2009-08-13 and 1.0.3-11 dated 2009-10-11
DESCRIPTION | 8 ++++---- man/adapt.Rd | 2 +- 2 files changed, 5 insertions(+), 5 deletions(-)
Author: Jens Oehlschlägel
Diff between rindex versions 0.09 dated 2009-04-15 and 0.10 dated 2009-10-11
Title: Indexing for R
Description: Index structures allow quickly accessing elements from
large collections. While btree are optimized for disk databases
and ttree for ram databases we use hybrid static indexing which
is quite optimal for R.
DESCRIPTION | 6 +++---
R/index.R | 4 ++--
man/index.rd | 2 +-
man/sort.index.rd | 2 +-
4 files changed, 7 insertions(+), 7 deletions(-)
Author: Jens Oehlschlägel
Diff between ref versions 0.96 dated 2009-04-15 and 0.97 dated 2009-10-11
Title: References for R
Description: small package with functions for creating references,
reading from and writing ro references and a memory efficient
refdata type that transparently encapsulates matrixes and
data.frames
DESCRIPTION | 8 ++++----
R/refdata.R | 2 +-
man/regression.test.refdata.rd | 2 +-
3 files changed, 6 insertions(+), 6 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 dated 2009-08-19 and 2.7-1 dated 2009-10-11
plotrix-2.7-1/plotrix/DESCRIPTION | 8 ++-- plotrix-2.7-1/plotrix/INDEX | 4 +- plotrix-2.7-1/plotrix/NEWS | 10 +++++ plotrix-2.7-1/plotrix/R/dispersion.R | 11 +++-- plotrix-2.7-1/plotrix/R/gantt.R | 1 plotrix-2.7-1/plotrix/R/getMarginWidth.R |only plotrix-2.7-1/plotrix/R/hierobarp.R | 49 +++++++++++++++---------- plotrix-2.7-1/plotrix/R/hierobarp.svymean.R |only plotrix-2.7-1/plotrix/R/hierobarp.svyprop.R |only plotrix-2.7-1/plotrix/R/stackpoly.R | 11 +++-- plotrix-2.7-1/plotrix/R/twoord.plot.R | 7 ++- plotrix-2.7-1/plotrix/R/zoomInPlot.R | 5 -- plotrix-2.7-1/plotrix/man/barp.Rd | 4 +- plotrix-2.7-1/plotrix/man/gantt.chart.Rd | 10 ++++- plotrix-2.7-1/plotrix/man/getMarginWidth.Rd |only plotrix-2.7-1/plotrix/man/hierobarp.Rd | 11 +++-- plotrix-2.7-1/plotrix/man/hierobarp.svymean.Rd |only plotrix-2.7-1/plotrix/man/hierobarp.svyprop.Rd |only plotrix-2.7-1/plotrix/man/stackpoly.Rd | 5 +- plotrix-2.7-1/plotrix/man/twoord.plot.Rd | 16 ++++++-- plotrix-2.7/plotrix/hierobarp1.R |only 21 files changed, 100 insertions(+), 52 deletions(-)
Author: Peter Langfelder
Diff between moduleColor versions 1.08 dated 2008-08-06 and 1.08-1 dated 2009-10-11
Title: Basic module functions
Description: Methods for color labeling, calculation of eigengenes,
merging of closely related modules.
Changelog | 5 +++++
DESCRIPTION | 17 +++++++++++------
man/consensusMEDissimilarity.Rd | 2 +-
man/plotHclustColors.Rd | 2 +-
4 files changed, 18 insertions(+), 8 deletions(-)
Author: Guido Schwarzer
Diff between meta versions 1.0-6 dated 2009-08-31 and 1.1-2 dated 2009-10-11
Title: Meta-Analysis with R
Description: Fixed and random effects meta-analysis. Functions for
tests of bias, forest and funnel plot.
ChangeLogs |only
DESCRIPTION | 10 +--
INDEX | 5 +
NAMESPACE | 10 ++-
R/forest.R | 30 ++++++---
R/funnel.R | 164 ---------------------------------------------------
R/funnel.default.R |only
R/funnel.meta.R |only
R/labbe.R |only
R/labbe.default.R |only
R/labbe.metabin.R |only
R/meta-internal.R | 6 -
R/metabin.R | 3
R/metacont.R | 3
R/metacr.R | 16 +++-
R/metagen.R | 3
R/nnt.metabias.R |only
R/nnt.metabin.R |only
man/forest.Rd | 6 +
man/funnel.Rd | 90 ++++++++++++++-------------
man/funnel.meta.Rd |only
man/labbe.Rd |only
man/labbe.metabin.Rd |only
man/metabias.Rd | 2
man/metabin.Rd | 3
man/metacont.Rd | 3
man/metagen.Rd | 3
27 files changed, 126 insertions(+), 231 deletions(-)
Author: Rainer Opgen-Rhein and Korbinian Strimmer.
Title: Analysis of Multiple Time Course Data
Description: This package contains general data structures and
functions for longitudinal data with multiple variables,
repeated measurements, and irregularly spaced time points. It
also implements a shrinkage estimator of dynamical correlation
and dynamical covariance.
Diff between longitudinal versions 1.1.4 dated 2008-11-17 and 1.1.5 dated 2009-10-11
longitudinal-1.1.4/longitudinal/CHANGES |only longitudinal-1.1.5/longitudinal/DESCRIPTION | 20 +++++++++++--------- longitudinal-1.1.5/longitudinal/NEWS |only longitudinal-1.1.5/longitudinal/man/dyn.scale.Rd | 2 +- 4 files changed, 12 insertions(+), 10 deletions(-)
Author: Karline Soetaert
Diff between limSolve versions 1.5 dated 2009-04-20 and 1.5.1 dated 2009-10-11
Title: Solving Linear Inverse Models
Description: Functions that (1.) Find the minimum/maximum of a linear
or quadratic function: min or max (f(x)), where f(x) =
||Ax-b||^2 or f(x) = sum(ai*xi) subject to equality constraints
Ex=f and/or inequality constraints Gx>=h. (2.) Sample an
underdetermined- or overdetermined system Ex=f subject to
Gx>=h, and if applicable Ax~=b. (3.) Solve a linear system Ax=B
for the unknown x. Includes banded and tridiagonal linear
systems. The package calls Fortran functions from LINPACK
limSolve-1.5.1/limSolve/DESCRIPTION | 10
limSolve-1.5.1/limSolve/R/Solve.R | 2
limSolve-1.5.1/limSolve/R/Solve.banded.R | 7
limSolve-1.5.1/limSolve/R/Solve.block.R | 2
limSolve-1.5.1/limSolve/R/ldei.R | 2
limSolve-1.5.1/limSolve/R/linp.R | 2
limSolve-1.5.1/limSolve/R/lsei.R | 10
limSolve-1.5.1/limSolve/R/xsample.R | 5
limSolve-1.5.1/limSolve/inst/doc/.build.timestamp |only
limSolve-1.5.1/limSolve/inst/doc/Rplots.pdf |only
limSolve-1.5.1/limSolve/inst/doc/jss.bst |only
limSolve-1.5.1/limSolve/inst/doc/jss.cls |only
limSolve-1.5.1/limSolve/inst/doc/limSolve.pdf |85991 ++++++++++------------
limSolve-1.5.1/limSolve/inst/doc/vignettes.bib | 42
limSolve-1.5.1/limSolve/inst/doc/xsample.pdf | 1873
limSolve-1.5.1/limSolve/man/Chemtax.Rd | 6
limSolve-1.5.1/limSolve/man/limSolve.rd | 4
limSolve-1.5.1/limSolve/man/lsei.Rd | 4
limSolve-1.5/limSolve/inst/CITATION |only
19 files changed, 43415 insertions(+), 44545 deletions(-)
Author: Wolfgang Breymann, David Luethi
Title: A package on the generalized hyperbolic distribution and its
special cases
Description: This package provides detailed functionality for working
with the univariate and multivariate Generalized Hyperbolic
distribution and its special cases (Hyperbolic (hyp), Normal
Inverse Gaussian (NIG), Variance Gamma (VG), skewed Student-t
and Gaussian distribution). Especially, it contains fitting
procedures, an AIC-based model selection routine, and functions
for the computation of density, quantile, probability, random
variates, expected shortfall and some portfolio optimization
and plotting routines as well as the likelihood ratio test. In
addition, it contains the Generalized Inverse Gaussian
distribution.
Diff between ghyp versions 1.5.1 dated 2009-05-24 and 1.5.2 dated 2009-10-11
ChangeLog | 14 DESCRIPTION | 8 Fixme | 2 R/ghypConstructors.R | 10 R/ghypMethods.R | 2 inst/doc/Generalized_Hyperbolic_Distribution.Rnw | 12 inst/doc/Generalized_Hyperbolic_Distribution.pdf | 2301 +++++++++++------------ man/ghyp-mle.ghyp-classes.Rd | 2 man/ghyp-package.Rd | 4 man/gig-distribution.Rd | 9 man/pairs-methods.Rd | 6 11 files changed, 1198 insertions(+), 1172 deletions(-)
Author: Virasakdi Chongsuvivatwong
Diff between epicalc versions 2.9.2.5 dated 2009-10-01 and 2.9.2.7 dated 2009-10-11
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.
DESCRIPTION | 8 ++++----
R/epicalc.R | 34 ++++++++++++++++++++++++++++++++++
man/addMissingRecords.rd |only
3 files changed, 38 insertions(+), 4 deletions(-)
Author: Karline Soetaert
Diff between diagram versions 1.4 dated 2009-06-17 and 1.5 dated 2009-10-11
Title: Functions for visualising simple graphs (networks), plotting
flow diagrams
Description: Visualises simple graphs (networks) based on a transition
matrix, utilities to plot flow diagrams, visualising webs,...
Support for the book "A practical guide to ecological modelling
- using R as a simulation platform" by Karline Soetaert and
Peter M.J. Herman (2009). Springer. Includes demo(flowchart),
demo(plotmat), demo(plotweb)
DESCRIPTION | 12
inst/doc/.build.timestamp |only
inst/doc/Rplots.pdf |only
inst/doc/diagram.pdf | 2991 ++++++++++++++++++++--------------------------
inst/doc/vignettes.bib | 10
man/diagram.Rd | 4
man/openplotmat.Rd | 4
7 files changed, 1334 insertions(+), 1687 deletions(-)
Author: Jakson Aquino. Includes R source code and/or documentation
written by Dirk Enzmann, Marc Schwartz, and Nitin Jain
Title: Descriptive statistics
Description: This package contains functions to describe weighted
categorical variables and functions to facilitate the character
encoding conversion of objects.
Diff between descr versions 0.3.1 dated 2009-08-13 and 0.3.2 dated 2009-10-11
DESCRIPTION | 12 - NAMESPACE | 4 NEWS | 58 ++++++++- R/CrossTable.R | 225 +++++++++++++++++++++-------------- R/UTF-8.R | 61 +++------ R/compmeans.R | 60 +++++++-- R/crosstab.R | 5 R/descr.R | 12 - R/file.head.R |only R/freq.R | 56 ++++++-- R/fwf2csv.R | 5 inst/po/pt_BR/LC_MESSAGES/R-descr.mo |binary man/LogRegR2.Rd | 2 man/crosstab.Rd | 2 man/file.head.Rd |only man/freq.Rd | 15 +- man/fwf2csv.Rd | 2 po/R-descr.pot | 126 +++++++++---------- po/R-pt_BR.po | 139 +++++++++++---------- src/fwf2csv.c | 57 +++++--- 20 files changed, 502 insertions(+), 339 deletions(-)
Author: Juliane Schaefer, Rainer Opgen-Rhein, and Korbinian Strimmer.
Title: Efficient Estimation of Covariance and (Partial) Correlation
Description: This package implements a James-Stein-type shrinkage
estimator for the covariance matrix, with separate shrinkage
for variances and correlations. The details of the method are
explained in Sch\"afer and Strimmer (2005) and Opgen-Rhein and
Strimmer (2007). The approach is both computationally as well
as statistically very efficient, it is applicable to "small n,
large p" data, and always returns a positive definite and
well-conditioned covariance matrix. In addition to inferring
the covariance matrix the package also provides shrinkage
estimators for partial correlations, partial variances, and
regression coefficients. The inverse of the covariance and
correlation matrix can be efficiently computed, and as well as
any arbitrary power of the shrinkage correlation matrix.
Furthermore, functions are available for fast singular value
decomposition, for computing the pseudoinverse, and for
checking the rank and positive definiteness of a matrix.
Diff between corpcor versions 1.5.2 dated 2009-01-26 and 1.5.3 dated 2009-10-11
DESCRIPTION | 39 ++++++++++++++++++++++----------------- NEWS | 4 ++++ man/powcor.shrink.Rd | 27 ++++++++++++++++++--------- 3 files changed, 44 insertions(+), 26 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 0.1-1 dated 2009-09-20 and 0.1-2 dated 2009-10-11
DESCRIPTION | 8 ++++---- demo/asthmaExample.R | 2 +- man/condGEE.Rd | 4 ++++ 3 files changed, 9 insertions(+), 5 deletions(-)
Author: Scott Chasalow
Title: combinatorics utilities
Description: routines for combinatorics
Diff between combinat versions 0.0-6 dated 2005-08-05 and 0.0-7 dated 2009-10-11
DESCRIPTION | 10 +++++----- 1 file changed, 5 insertions(+), 5 deletions(-)
Author: John Fox
Diff between car versions 1.2-15 dated 2009-08-25 and 1.2-16 dated 2009-10-11
Title: Companion to Applied Regression
Description: This package accompanies J. Fox, An R and S-PLUS Companion
to Applied Regression, Sage, 2002. The package contains mostly
functions for applied regression, linear models, and
generalized linear models, with an emphasis on regression
diagnostics, particularly graphical diagnostic methods. There
are also some utility functions. With some exceptions, I have
tried not to duplicate capabilities in the basic distribution
of R, nor in widely used packages. Where relevant, the
functions in car are consistent with na.action = na.omit or
na.exclude.
DESCRIPTION | 8 ++++----
inst/CHANGES | 50 ++++++++++++++++++++++++++------------------------
man/av.plots.Rd | 10 +++++-----
man/car-package.Rd | 4 ++--
man/cookd.Rd | 2 +-
5 files changed, 38 insertions(+), 36 deletions(-)
Author: Jens Oehlschl\xE4gel
Diff between bit versions 1.1.0 dated 2009-07-24 and 1.1-1 dated 2009-10-11
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).
bit-1.1-1/bit/DESCRIPTION | 15 -
bit-1.1-1/bit/NEWS |only
bit-1.1-1/bit/R/bit.R | 432 +++++++++++++++++++++----------
bit-1.1-1/bit/R/chunkutil.R | 17 -
bit-1.1-1/bit/man/Summary.rd | 2
bit-1.1-1/bit/man/as.bit.rd | 3
bit-1.1-1/bit/man/as.bitwhich.rd | 6
bit-1.1-1/bit/man/as.logical.bit.rd | 48 ++-
bit-1.1-1/bit/man/as.which.rd |only
bit-1.1-1/bit/man/bit-package.rd | 8
bit-1.1-1/bit/man/bitwhich.rd | 2
bit-1.1-1/bit/man/c.bit.rd | 2
bit-1.1-1/bit/man/chunk.rd | 10
bit-1.1-1/bit/man/is.bit.rd | 2
bit-1.1-1/bit/man/length.bit.rd | 111 ++++++-
bit-1.1.0/bit/CHANGES |only
bit-1.1.0/bit/man/as.logical.bitwhich.rd |only
17 files changed, 467 insertions(+), 191 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 1.0-4 dated 2009-03-11 and 1.0-5 dated 2009-10-11
animation-1.0-4/animation/R/tidy.source2.r |only animation-1.0-4/animation/man/tidy.source2.Rd |only animation-1.0-5/animation/DESCRIPTION | 40 ++++++++------- animation-1.0-5/animation/R/ani.stop.R | 4 - animation-1.0-5/animation/R/tidy.source.R | 56 +++++++++++++++++---- animation-1.0-5/animation/R/zzz.R |only animation-1.0-5/animation/demo/00Index | 2 animation-1.0-5/animation/demo/Sierpinski.r |only animation-1.0-5/animation/demo/fire.r |only animation-1.0-5/animation/demo/wordrotation.r | 1 animation-1.0-5/animation/inst/NEWS | 45 +++++++++++++--- animation-1.0-5/animation/man/ani.options.Rd | 2 animation-1.0-5/animation/man/animation-package.Rd | 4 - animation-1.0-5/animation/man/brownian.motion.Rd | 6 +- animation-1.0-5/animation/man/newton.method.Rd | 4 + animation-1.0-5/animation/man/tidy.source.Rd | 33 ++++++++---- 16 files changed, 144 insertions(+), 53 deletions(-)
Author: Richard M. Heiberger, with contributions from Burt Holland.
Title: Rcmdr support for the HH package
Description: Rcmdr menu support for many of the functions in the HH
package. The focus is on menu items for functions we use in our
introductory courses.
Diff between RcmdrPlugin.HH versions 1.1-24 dated 2009-05-25 and 1.1-25 dated 2009-10-11
DESCRIPTION | 8 ++++---- man/Rcmdr.HH-package.Rd | 4 ++-- 2 files changed, 6 insertions(+), 6 deletions(-)
More information about RcmdrPlugin.HH at CRAN
Permanent link
Author: Adrian Dusa
Diff between QCA versions 0.6-2 dated 2009-09-23 and 0.6-3 dated 2009-10-11
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 | 8 ++++----
R/eqmcc.R | 34 +++++++++++++---------------------
R/factorize.R | 2 +-
R/findPrimes.R | 2 +-
R/findSubsets.R | 6 +++++-
data/MV.tab | 22 ++++++++++++++++------
inst/CHANGES | 6 +++++-
inst/TODO | 1 +
man/MV.Rd | 2 +-
man/QCA.package.Rd | 4 ++--
man/allExpressions.Rd | 4 +---
man/createMatrix.Rd | 4 +---
man/createString.Rd | 4 +---
man/demoChart.Rd | 4 +---
man/eqmcc.Rd | 12 ++----------
man/factorize.Rd | 4 +---
man/findPrimes.Rd | 8 +++-----
man/findSubsets.Rd | 4 +---
man/getRow.Rd | 4 +---
man/prettyTable.Rd | 4 +---
man/qmcc.Rd | 4 +---
man/readTosmana.Rd | 4 +---
man/solveChart.Rd | 4 +---
man/truthTable.Rd | 4 +---
24 files changed, 66 insertions(+), 89 deletions(-)
Author: David Harte
Title: Time Dependent Point Process Modelling
Description: This package fits and analyses time dependent marked point
process models with an emphasis on earthquake modelling. For a
more detailed introduction to the package, see the topic
"PtProcess". A list of recent changes can be found in the topic
"Changes".
Diff between PtProcess versions 3.1-4 dated 2009-07-18 and 3.2-1 dated 2009-10-11
DESCRIPTION | 9 +++++---- R/etas_gif.R | 1 - R/linksrm_gif.R | 2 -- R/logLik.mpp.R | 38 ++++++++++++++++++++++++++++++++------ R/neglogLik.R | 4 ++-- R/simple_gif.R | 5 ----- R/srm_gif.R | 1 - man/Changes.Rd | 16 +++++++++++----- man/Phuket.Rd | 2 +- man/etas_gif.Rd | 3 +-- man/gif.Rd | 4 +--- man/linksrm_gif.Rd | 1 - man/logLik.Rd | 30 +++++++++++++++++++++++++++++- man/neglogLik.Rd | 3 ++- man/plot.Rd | 2 +- man/simple_gif.Rd | 1 - man/srm_gif.Rd | 1 - 17 files changed, 85 insertions(+), 38 deletions(-)
Author: Karline Soetaert
Diff between LIM versions 1.3 dated 2009-06-17 and 1.4 dated 2009-10-11
Title: Linear Inverse Model examples and solution methods.
Description: Functions that read and solve linear inverse problems
(food web problems, linear programming problems). These
problems find solutions to linear or quadratic functions: min
or max (f(x)), where f(x) = ||Ax-b||^2 or f(x) = sum(ai*xi)
subject to equality constraints Ex=f and inequality constraints
Gx>=h. Uses package limSolve.
DESCRIPTION | 10
R/Linp.R | 10
R/read.limfile.r | 27
data/LIMCoralRockall.rda |only
inst/doc/.build.timestamp |only
inst/doc/LIM.pdf | 3316 +++++++++++++++-----------------
inst/doc/LIMecoli.Rnw |only
inst/doc/LIMecoli.pdf |only
inst/doc/Rplots.pdf |only
inst/doc/vignettes.bib | 2
inst/examples/Foodweb/CWC_Rockall.input |only
inst/examples/Foodweb/Coral |only
man/LIM.Rd | 8
man/LIMBlending.Rd | 6
man/LIMBrouageMudflat.Rd | 7
man/LIMCaliforniaSediment.Rd | 7
man/LIMCoralRockall.Rd |only
man/LIMEcoli.Rd | 9
man/LIMEverglades.Rd | 6
man/LIMRigaAutumn.Rd | 6
man/LIMRigaSpring.Rd | 6
man/LIMRigaSummer.Rd | 6
man/LIMScheldtIntertidal.Rd | 7
man/LIMTakapoto.Rd | 6
man/Linp.Rd | 2
man/PrintMat.Rd | 4
man/Setup.Rd | 2
27 files changed, 1731 insertions(+), 1716 deletions(-)
Author: David Harte
Title: Hidden Markov Models
Description: Contains functions for the analysis of Discrete Time
Hidden Markov Models, Markov Modulated GLMs and the Markov
Modulated Poisson Process. It includes functions for
simulation, parameter estimation, and the Viterbi algorithm.
See the topic "HiddenMarkov" for an introduction to the
package, and "Changes" for a list of recent changes. The
algorithms are based of those of Walter Zucchini.
Diff between HiddenMarkov versions 1.2-7 dated 2009-01-26 and 1.2-8 dated 2009-10-11
DESCRIPTION | 21 +++++++++++++++------ man/Changes.Rd | 3 ++- man/Viterbi.Rd | 2 +- 3 files changed, 18 insertions(+), 8 deletions(-)
Author: Juliane Schaefer, Rainer Opgen-Rhein, and Korbinian Strimmer.
Title: Modeling and Inferring Gene Networks
Description: GeneNet is a package for analyzing gene expression (time
series) data with focus on the inference of gene networks. In
particular, GeneNet implements the methods of Schaefer and
Strimmer (2005a,b,c) and Opgen-Rhein and Strimmer (2006, 2007)
for learning large-scale gene association networks (including
assignment of putative directions).
Diff between GeneNet versions 1.2.3 dated 2008-11-17 and 1.2.4 dated 2009-10-11
GeneNet-1.2.3/GeneNet/CHANGES |only GeneNet-1.2.4/GeneNet/DESCRIPTION | 27 ++++++++++++++------------- GeneNet-1.2.4/GeneNet/NEWS |only GeneNet-1.2.4/GeneNet/man/arth800.Rd | 2 +- GeneNet-1.2.4/GeneNet/man/ggm.test.edges.Rd | 2 +- 5 files changed, 16 insertions(+), 15 deletions(-)
Author: Steve Su
Title: Fitting Single and Mixture of Generalised Lambda Distributions
(RS and FMKL) using Discretised and Maximum Likelihood Methods
Description: The fitting algorithms considered in this package have two
major objectives. One is to provide a smoothing device to fit
distributions to data using the weight and unweighted
discretised approach based on the bin width of the histogram.
The other is to provide a definitive fit to the data set using
the maximum likelihood estimation. Diagnostics on goodness of
fit can be done via qqplots, KS-resample tests and comparing
mean, variance, skewness and kurtosis of the data with the
fitted distribution.
Diff between GLDEX versions 1.0.3.1 dated 2009-02-08 and 1.0.3.2 dated 2009-10-11
DESCRIPTION | 31 +++++++++++++++++++++---------- man/hiddenfunctions.Rd | 2 +- 2 files changed, 22 insertions(+), 11 deletions(-)
Author: Regine Scheder
Title: Estimation of the Effective Dose including Bootstrap confidence
intervals
Description: estimates the effective dose level for quantal bioassay
data by nonparametric techniques and gives a bootstrap
confidence interval
Diff between EffectiveDose versions 1.0-6 dated 2008-03-03 and 1.0-7 dated 2009-10-11
DESCRIPTION | 33 +++++++++++++++++++-------------- inst/doc/EffectiveDose.pdf |binary man/ED.Rd | 2 +- man/EffectiveDose-package.Rd | 9 ++------- man/aic.ED.locfit.Rd | 2 +- man/fitED-class.Rd | 1 + 6 files changed, 24 insertions(+), 23 deletions(-)
Author: Vinzenz Erhardt
Title: Generate correlated count random variables
Description: Generate high-dimensional correlated count random
variables with a prespecified Pearson correlation.
Diff between corcounts versions 1.2 dated 2008-11-27 and 1.3 dated 2009-10-09
DESCRIPTION | 11 +++++++---- R/modified.cvine.alg.R | 4 ++-- R/modified.cvine.alg.reg.R | 4 ++-- man/corcounts-package.Rd | 9 ++++----- man/rcounts.Rd | 19 +++++++++++++------ man/rcounts.reg.Rd | 7 +++++-- 6 files changed, 33 insertions(+), 21 deletions(-)
Author: Madeleine Cule, Robert Gramacy, Richard Samworth
Title: Log-concave Density Estimation in Arbitrary Dimensions
Description: Computes a log-concave (maximum likelihood) estimator for
i.i.d. data in any number of dimensions.
Diff between LogConcDEAD versions 1.3-3 dated 2009-01-30 and 1.4-0 dated 2009-10-09
ChangeLog | 10 DESCRIPTION | 15 R/convhullnew.R | 3 R/dlcd.R | 43 R/getinfolcd.R |only R/interplcd.R | 24 R/interpmarglcd.R | 42 R/mlelcd.R | 145 R/plot.LogConcDEAD.R | 52 R/print.LogConcDEAD.R | 49 R/rlcd.R | 82 R/summary.LogConcDEAD.R | 51 R/usefulfuncs.R |only inst/doc/.build.timestamp |only inst/doc/LogConcDEAD.Rnw | 15 inst/doc/LogConcDEAD.pdf | 9692 ++++++++++++++++++++++---------------------- inst/doc/intro.intRnw | 9 man/LogConcDEAD-internal.Rd | 10 man/LogConcDEAD-package.Rd | 6 man/dlcd.Rd | 7 man/getinfolcd.Rd |only man/interplcd.Rd | 36 man/mlelcd.Rd | 11 man/plot.LogConcDEAD.Rd | 16 src/convhullnew.c | 5 src/convhullnmlc.c | 12 src/delaunayn.c | 2 src/logcon.h |only src/logconweights.c | 24 src/renormalise.c | 6 src/sigmaeffw.c | 128 src/subgradeffw.c | 78 src/useful.c | 22 33 files changed, 5345 insertions(+), 5250 deletions(-)
Author: Charles J. Geyer
Diff between mcmc versions 0.7-2 dated 2009-09-22 and 0.7-3 dated 2009-10-09
Title: Markov Chain Monte Carlo
Description: functions for Markov chain Monte Carlo (MCMC).
ChangeLog | 5 ++++
DESCRIPTION | 8 +++----
R/metrop.R | 1
inst/doc/Makefile | 5 +++-
inst/doc/debug.Rnw |only
inst/doc/debug.pdf |only
inst/doc/debug.tex |only
inst/doc/demo.pdf |binary
inst/doc/demo.tex | 16 +++++++-------
man/initseq.Rd | 5 ++++
man/metrop.Rd | 7 +++++-
man/temper.Rd | 52 +++++++++++++++++++++++++++++++++++------------
src/metrop.c | 34 +++++++++++++++++++++---------
src/temper.c | 2 -
tests/logitmat.R | 10 +++++++--
tests/logitmat.Rout.save | 25 +++++++++++++++++-----
16 files changed, 124 insertions(+), 46 deletions(-)
Author: John Fox
Diff between effects versions 2.0-7 dated 2009-05-10 and 2.0-8 dated 2009-10-09
Title: Effect Displays for Linear, Generalized Linear,
Multinomial-Logit, and Proportional-Odds Logit Models
Description: Graphical and tabular effect displays, e.g., of
interactions, for linear generalized linear, multinomial-logit,
and proportional-odds logit models.
DESCRIPTION | 10 +++++-----
NAMESPACE | 3 ++-
inst/CHANGES | 10 ++++++++++
inst/CITATION.txt |only
man/effect.Rd | 16 +++++++++++-----
man/effects-package.Rd | 5 ++---
man/summary.effect.Rd | 14 +++++++-------
7 files changed, 37 insertions(+), 21 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 2.3-4 dated 2009-09-21 and 2.3-5 dated 2009-10-09
DESCRIPTION | 6 NEWS | 4 R/earth.glm.R | 7 man/earth.Rd | 4 src/allowed.c | 6 src/tests/test.earth.full.Rout.save | 1036 +++++++++++------------ src/tests/test.earth.glm.R | 23 src/tests/test.earth.glm.Rout.save | 1003 +++++++++++++++-------- src/tests/test.plotmo.Rout.save | 1556 ++++++++++++++++++------------------ 9 files changed, 2011 insertions(+), 1634 deletions(-)
Author: Michael Anderson
Title: Bayesian Discrete Ordered Classification of DNA Barcodes
Description: This package contains a function that will classify DNA
barcodes as well as a few test and reference data sets.
Diff between bdoc versions 1.0 dated 2009-09-22 and 1.1 dated 2009-10-09
DESCRIPTION | 6 +++--- R/bdoc.R | 12 ++++++------ man/bdoc-package.Rd | 2 +- 3 files changed, 10 insertions(+), 10 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 0.2-2 dated 2009-09-24 and 0.2-3 dated 2009-10-09
CHANGELOG | 5 +++++ DESCRIPTION | 8 ++++---- R/BAYSTAR.R | 27 +++++++++++++-------------- man/BAYSTAR.Rd | 38 ++++++++++++++++++++++++++------------ 4 files changed, 48 insertions(+), 30 deletions(-)
Author: Allan Strand
Diff between rmetasim versions 1.1.05 dated 2008-05-03 and 1.1.09 dated 2009-10-08
Title: An individual-based population genetic simulation environment
Description: An interface between R and the metasim simulation engine.
Facilitates the use of the metasim engine to build and run
individual based population genetics simulations. The
simulation environment is documented in: Allan Strand. Metasim
1.0: an individual-based environment for simulating population
genetics of complex population dynamics. Mol. Ecol. Notes,
2:373-376, 2002. (Please contact Allan Strand with comments,
bug reports, etc). This version represents a significant
alteration of function names that hopefully increases
consistency and reduces the chances of collisions with other
packages naming conventions. For a spatially-explicit, but
slower, package with a similar interface, see kernelPop
CHANGELOG | 15 ++++++++++++++-
DESCRIPTION | 36 ++++++++++++++++++------------------
NAMESPACE | 1 -
R/amova.R | 32 ++++++++++++++++++++++++++++++--
R/ape_interface.R | 9 +++++----
R/coal2rmet.R |only
R/diversity.R | 2 +-
R/landscape.allelefreq.R |only
R/landscape.sample.R | 21 +++++++++++++++++----
R/simcoal.R | 2 +-
man/landscape.amova.Rd | 2 +-
man/landscape.amova.locus.Rd | 2 +-
man/landscape.amova.pairwise.Rd | 2 +-
man/landscape.demography.Rd | 5 ++---
man/landscape.sample.Rd | 8 ++++++--
15 files changed, 97 insertions(+), 40 deletions(-)
Author: Lester L. Yuan
Title: Compute biological inferences
Description: Imports benthic count data, reformats this data, and
computes environmental inferences from this data.
Diff between bio.infer versions 1.2-4 dated 2009-07-18 and 1.2-5 dated 2009-10-08
DESCRIPTION | 8 ++++---- R/parse.taxon.name.R | 28 +++++++++++++++++++--------- 2 files changed, 23 insertions(+), 13 deletions(-)
Author: Friedrich Leisch and Andreas Weingessel and Kurt Hornik
Title: Generation of Artificial Binary Data
Description: Generation of correlated artificial binary data.
Diff between bindata versions 0.9-15 dated 2009-09-18 and 0.9-16 dated 2009-10-08
DESCRIPTION | 12 ++++++------ R/simul.commonprob.R | 18 +++++++----------- 2 files changed, 13 insertions(+), 17 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 0.5-4 dated 2009-10-08 and 0.5-5 dated 2009-10-08
DESCRIPTION | 6 +++--- inst/NEWS | 4 ++++ inst/etc/menus.txt | 2 +- man/Menu.Analyze.Rd | 14 ++++++-------- man/Menu.FrF2level.Rd | 2 +- man/Menu.ccd.Rd | 6 +++--- man/Menu.fac.Rd | 2 +- man/Menu.facTab1.Rd | 5 +++-- man/Menu.linearModelDesign.Rd | 2 +- 9 files changed, 23 insertions(+), 20 deletions(-)
More information about RcmdrPlugin.DoE at CRAN
Permanent link
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 1.4 dated 2009-09-04 and 1.5 dated 2009-10-08
rainbow-1.4/rainbow/data/Francemortality.rda |only rainbow-1.4/rainbow/data/Francesmoothmortality.rda |only rainbow-1.4/rainbow/man/Francemortality.Rd |only rainbow-1.5/rainbow/CHANGELOG | 20 ++++++++++++------ rainbow-1.5/rainbow/DESCRIPTION | 8 +++---- rainbow-1.5/rainbow/data/Australiafertility.rda |binary rainbow-1.5/rainbow/data/Australiasmoothfertility.rda |binary rainbow-1.5/rainbow/data/Simulationdata.rda |binary rainbow-1.5/rainbow/man/Australiafertility.Rd | 2 - rainbow-1.5/rainbow/man/ElNino.Rd | 7 ++++++ rainbow-1.5/rainbow/man/Simulationdata.Rd | 2 - rainbow-1.5/rainbow/man/fboxplot.Rd | 2 - rainbow-1.5/rainbow/man/fds.Rd | 13 +++-------- rainbow-1.5/rainbow/man/foutliers.Rd | 2 - rainbow-1.5/rainbow/man/lines.fds.Rd | 8 ++----- rainbow-1.5/rainbow/man/plot.fdepth.Rd | 4 --- rainbow-1.5/rainbow/man/plot.fds.Rd | 10 ++++----- rainbow-1.5/rainbow/man/points.fds.Rd | 9 ++------ rainbow-1.5/rainbow/man/rainbow-package.Rd | 2 - 19 files changed, 46 insertions(+), 43 deletions(-)
Author: Wolfgang Viechtbauer
Diff between metafor versions 0.5-4 dated 2009-09-18 and 0.5-5 dated 2009-10-08
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.
metafor-0.5-4/metafor/man/plot.rma.uni.infl.Rd |only
metafor-0.5-4/metafor/man/print.rma.list.Rd |only
metafor-0.5-4/metafor/man/print.rma.uni.infl.Rd |only
metafor-0.5-5/metafor/DESCRIPTION | 8
metafor-0.5-5/metafor/NAMESPACE | 13
metafor-0.5-5/metafor/NEWS | 17
metafor-0.5-5/metafor/R/metafor.R | 1131 +++++++++++++++++-------
metafor-0.5-5/metafor/man/anova.rma.uni.Rd | 7
metafor-0.5-5/metafor/man/blup.rma.uni.Rd | 30
metafor-0.5-5/metafor/man/cint.rma.uni.Rd | 5
metafor-0.5-5/metafor/man/cumul.Rd |only
metafor-0.5-5/metafor/man/cumul.rma.mh.Rd |only
metafor-0.5-5/metafor/man/cumul.rma.uni.Rd |only
metafor-0.5-5/metafor/man/escalc.Rd | 14
metafor-0.5-5/metafor/man/fitstats.rma.Rd | 9
metafor-0.5-5/metafor/man/forest.Rd | 9
metafor-0.5-5/metafor/man/forest.default.Rd | 3
metafor-0.5-5/metafor/man/forest.rma.Rd | 25
metafor-0.5-5/metafor/man/forest.rma.cumul.Rd |only
metafor-0.5-5/metafor/man/fsn.Rd | 12
metafor-0.5-5/metafor/man/influence.rma.uni.Rd | 8
metafor-0.5-5/metafor/man/leave1out.Rd |only
metafor-0.5-5/metafor/man/leave1out.rma.mh.Rd |only
metafor-0.5-5/metafor/man/leave1out.rma.uni.Rd |only
metafor-0.5-5/metafor/man/plot.infl.rma.uni.Rd |only
metafor-0.5-5/metafor/man/predict.rma.uni.Rd | 4
metafor-0.5-5/metafor/man/print.infl.rma.uni.Rd |only
metafor-0.5-5/metafor/man/print.list.rma.Rd |only
metafor-0.5-5/metafor/man/qqnorm.rma.uni.Rd | 5
metafor-0.5-5/metafor/man/radial.rma.Rd | 2
metafor-0.5-5/metafor/man/ranktest.rma.Rd | 5
metafor-0.5-5/metafor/man/regtest.rma.Rd | 12
metafor-0.5-5/metafor/man/residuals.rma.Rd | 4
metafor-0.5-5/metafor/man/rma.mh.Rd | 8
metafor-0.5-5/metafor/man/rma.peto.Rd | 4
metafor-0.5-5/metafor/man/rma.uni.Rd | 25
36 files changed, 967 insertions(+), 393 deletions(-)
Author: Rob J Hyndman and Han Lin Shang
Title: Functional time series analysis
Description: Functions for functional time series
Diff between ftsa versions 1.0 dated 2009-09-12 and 1.1 dated 2009-10-08
CHANGELOG |only DESCRIPTION | 8 ++++---- man/dynupdate.Rd | 2 +- man/forecast.ftsm.Rd | 2 +- man/ftsa-package.Rd | 8 ++++---- man/ftsm.Rd | 2 +- man/plot.fm.Rd | 2 +- man/plot.ftsf.Rd | 2 +- 8 files changed, 13 insertions(+), 13 deletions(-)
Author: Jun Yan
Diff between copula versions 0.8-10 dated 2009-07-30 and 0.8-12 dated 2009-10-08
Title: Multivariate dependence with copulas
Description: Classes (S4) of commonly used copulas including elliptical
(normal and t), Archimedean (Clayton, Gumbel, Frank, and
Ali-Mikhail-Haq), extreme value (Gumbel, Husler-Reiss,
Galambos, and t-EV), and other families (Plackett and
Farlie-Gumbel-Morgenstern). Methods for density, distribution,
random number generation, bivariate dependence measures,
perspective and contour plots. Functions for fitting copula
models with variance estimate. Independence tests among random
variables and random vectors. Serial independence tests for
univariate and multivariate continuous time series.
Goodness-of-fit tests for copulas based on multipliers and on
the parametric bootstrap.
ChangeLog | 11 ++++++++
DESCRIPTION | 10 +++----
NAMESPACE | 1
R/Copula.R | 38 ++++++++++++++---------------
R/evTests.R | 64 +++++++++++++++++++++++++++++++------------------
R/schlatherCopula.R | 4 +--
man/copula-internal.Rd | 1
man/evTest.Rd |only
man/gofCopula.Rd | 2 -
9 files changed, 80 insertions(+), 51 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 0.5-3 dated 2009-09-28 and 0.5-4 dated 2009-10-08
DESCRIPTION | 12 ++++++------ R/Menu.EffectPlots.R | 18 +++++++----------- R/Menu.FrF2level.R | 6 ++++-- R/Menu.IAPlot.R | 23 +++++++++-------------- inst/NEWS | 11 +++++++++++ inst/etc/menus.txt | 1 + 6 files changed, 38 insertions(+), 33 deletions(-)
More information about RcmdrPlugin.DoE at CRAN
Permanent link
Author: M. Suzette Blanchard
Diff between PKtools versions 1.4-0 dated 2008-04-16 and 1.5-0 dated 2009-10-08
Title: unified computational interfaces for pop PK
Description: computations for WinBUGS, NONMEM V, NLME
PKtools-1.4-0/PKtools/inst/PKtools.Setup.pdf |only
PKtools-1.4-0/PKtools/inst/README |only
PKtools-1.4-0/PKtools/inst/nonmemAdd/control.model3 |only
PKtools-1.4-0/PKtools/inst/nonmemAdd/control.model5 |only
PKtools-1.4-0/PKtools/inst/nonmemAdd/control.model6 |only
PKtools-1.4-0/PKtools/man/PKtoolsInternal.Rd |only
PKtools-1.5-0/PKtools/DESCRIPTION | 18
PKtools-1.5-0/PKtools/NAMESPACE |only
PKtools-1.5-0/PKtools/R/PKtools.R | 4234 ++++++++--------
PKtools-1.5-0/PKtools/README |only
PKtools-1.5-0/PKtools/inst/doc/PKtools.Setup.pdf |only
PKtools-1.5-0/PKtools/inst/doc/PKtools.pdf | 4873 +++++++++----------
PKtools-1.5-0/PKtools/inst/doc/PKtoolsVignette.pdf |binary
PKtools-1.5-0/PKtools/inst/nonmemAdd/control.theosq0 |only
PKtools-1.5-0/PKtools/man/AICcomp.Rd | 18
PKtools-1.5-0/PKtools/man/HTMLtools.Rd | 24
PKtools-1.5-0/PKtools/man/PKtools.AIC.Rd | 7
PKtools-1.5-0/PKtools/man/RunNLME.Rd | 5
PKtools-1.5-0/PKtools/man/RunNM.Rd | 4
PKtools-1.5-0/PKtools/man/RunWB.Rd | 11
PKtools-1.5-0/PKtools/man/bugs.Rd | 15
PKtools-1.5-0/PKtools/man/coVar.id.Rd | 5
PKtools-1.5-0/PKtools/man/desc.Rd | 10
PKtools-1.5-0/PKtools/man/diagplot.Rd | 16
PKtools-1.5-0/PKtools/man/diagtrplot.Rd | 14
PKtools-1.5-0/PKtools/man/indEst.Rd | 10
PKtools-1.5-0/PKtools/man/lonecpmt.Rd |only
PKtools-1.5-0/PKtools/man/obvsprplot.Rd | 26
PKtools-1.5-0/PKtools/man/paramEst.Rd | 16
PKtools-1.5-0/PKtools/man/pk.Rd | 6
PKtools-1.5-0/PKtools/man/residplot.Rd | 22
PKtools-1.5-0/PKtools/man/sonecpmt.Rd |only
PKtools-1.5-0/PKtools/man/tex.Rd | 22
PKtools-1.5-0/PKtools/man/trplot.Rd | 27
34 files changed, 4623 insertions(+), 4760 deletions(-)
Author: Douglas Bates
Diff between Matrix versions 0.999375-30 dated 2009-07-30 and 0.999375-31 dated 2009-10-08
Title: Sparse and Dense Matrix Classes and Methods
Description: Classes and methods for dense and sparse matrices and
operations on them using Lapack and SuiteSparse.
ChangeLog | 120 +++
DESCRIPTION | 8
NAMESPACE | 1
R/AllGeneric.R | 29
R/Auxiliaries.R | 47 +
R/CHMfactor.R | 53 +
R/Matrix.R | 71 +-
R/Ops.R | 1184 +++++++++++++++++++++-----------------
R/Tsparse.R | 3
R/dMatrix.R | 2
R/ddenseMatrix.R | 8
R/denseMatrix.R | 12
R/dgCMatrix.R | 5
R/diagMatrix.R | 19
R/dsyMatrix.R | 12
R/dtrMatrix.R | 20
R/kronecker.R | 57 -
R/not.R | 35 +
R/pMatrix.R | 3
R/products.R | 4
R/spModels.R | 54 +
R/sparseMatrix.R | 18
R/sparseVector.R | 69 +-
R/zzz.R | 4
TODO | 1
inst/Doxyfile | 1353 +++++++++++++++++++++++++-------------------
inst/doc/Comparisons.pdf |binary
inst/doc/Design-issues.pdf |binary
inst/doc/Intro2Matrix.pdf | 739 ++++++++++++------------
inst/doc/Introduction.pdf |binary
inst/doc/sparseModels.pdf |binary
inst/include/Matrix.h | 2
inst/include/Matrix_stubs.c | 34 +
inst/include/cholmod.h | 3
inst/test-tools.R | 4
man/CHMfactor-class.Rd | 14
man/Matrix-class.Rd | 2
man/Xtrct-methods.Rd | 4
man/atomicVector-class.Rd | 4
man/cBind.Rd | 4
man/chol2inv-methods.Rd |only
man/dMatrix-class.Rd | 28
man/ddenseMatrix-class.Rd | 11
man/dgCMatrix-class.Rd | 2
man/dgeMatrix-class.Rd | 2
man/diagonalMatrix-class.Rd | 4
man/dpoMatrix-class.Rd | 26
man/dsparseMatrix-class.Rd | 4
man/dsyMatrix-class.Rd | 1
man/kronecker-methods.Rd | 2
man/nMatrix-class.Rd | 26
man/pMatrix-class.Rd | 1
man/spMatrix.Rd | 5
man/sparse.model.matrix.Rd | 2
man/sparseQR-class.Rd | 8
man/sparseVector-class.Rd | 23
src/Mutils.c | 32 -
src/Mutils.h | 7
src/chm_common.c | 122 +++
src/chm_common.h | 3
src/dgCMatrix.c | 7
src/dgeMatrix.c | 2
src/dsCMatrix.c | 17
src/dtrMatrix.c | 17
src/dtrMatrix.h | 1
src/init.c | 4
tests/Simple.R | 5
tests/factorizing.R | 20
tests/group-methods.R | 36 +
tests/indexing.R | 10
tests/indexing.Rout.save | 71 --
tests/matprod.R | 12
tests/spModel.matrix.R | 17
tests/validObj.R | 3
74 files changed, 2779 insertions(+), 1754 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 0.97-10 dated 2009-09-18 and 1.0 dated 2009-10-08
DESCRIPTION | 8 ++++---- NAMESPACE | 7 ++++++- R/DanielPlot.R | 23 ++++++++++++++++++++++- R/FrF2.R | 12 +++++++----- R/IAPlot.R | 19 +++++++++++++++++-- R/MEPlot.R | 18 ++++++++++++++++-- R/contr.FrF2.R | 4 ++-- R/print.catlg.R | 14 ++++++++++++-- R/sysdata.rda |binary inst/NEWS | 15 +++++++++++---- man/CatalogueAccessors.Rd | 20 +++++++++++++++++--- man/DanielPlot.Rd | 25 +++++++++++++++++++++---- man/FrF2-package.Rd | 8 ++++++++ man/FrF2.Rd | 28 +++++++++++++++------------- man/IAPlot.Rd | 33 ++++++++++++++++++++++++++++----- 15 files changed, 186 insertions(+), 48 deletions(-)
Author: Heloise Lavigne and Aurelien Proye and Jean-Pierre Gattuso.
Portions of code and/or corrections were contributed by
Jean-Marie Epitalon, Andreas Hofmann, Bernard Gentili, Jim Orr
and Karline Soetaert
Title: Calculates parameters of the seawater carbonate system
Description: Calculates parameters of the seawater carbonate system
Diff between seacarb versions 2.1.4 dated 2009-07-18 and 2.2 dated 2009-10-07
ChangeLog | 19 ++++++++++++++++++- DESCRIPTION | 8 ++++---- R/K1.R | 17 ++++++++++++----- R/K1p.R | 16 +++++++++++++--- R/K2.R | 14 ++++++++++---- R/K2p.R | 17 +++++++++++++---- R/K3p.R | 18 +++++++++++++----- R/Kb.R | 14 ++++++++++---- R/Kf.R | 20 +++++++++++++++----- R/Kh.R | 2 +- R/Khs.R | 18 ++++++++++++++---- R/Kn.R | 12 +++++++----- R/Ks.R | 2 +- R/Ksi.R | 20 +++++++++++++++----- R/Kw.R | 16 +++++++++++----- R/buffer.R | 2 +- R/carb.R | 2 +- R/kconv.R | 16 +++++++++++----- R/pHconv.R | 2 +- man/K1.Rd | 13 +++++++++---- man/K1p.Rd | 7 +++++-- man/K2.Rd | 8 ++++++-- man/K2p.Rd | 10 +++++++--- man/K3p.Rd | 10 +++++++--- man/Kb.Rd | 10 +++++++--- man/Kf.Rd | 17 ++++++++++------- man/Kh.Rd | 4 ++-- man/Khs.Rd | 6 ++++-- man/Kn.Rd | 8 +++++--- man/Ks.Rd | 8 ++++++-- man/Ksi.Rd | 8 ++++++-- man/Kspa.Rd | 4 ++-- man/Kspc.Rd | 4 ++-- man/Kw.Rd | 9 ++++++--- man/bor.Rd | 2 +- man/buffer.Rd | 4 ++-- man/carb.Rd | 20 +++++++++++++++++--- man/kconv.Rd | 3 ++- man/pCa.Rd | 12 +++++++++++- man/pHconv.Rd | 6 ++++-- man/pHinsi.Rd | 2 +- man/pTA.Rd | 17 ++++++++++++++++- man/pgas.Rd | 21 ++++++++++++++++++--- man/pmix.Rd | 17 ++++++++++++++++- man/ppH.Rd | 18 +++++++++++++++++- man/psi.Rd | 2 +- man/rho.Rd | 2 +- 47 files changed, 362 insertions(+), 125 deletions(-)
Author: Romain Francois
Diff between operators versions 0.1-0 dated 2009-01-26 and 0.1-5 dated 2009-10-07
Title: Additional binary operators for the R language
Description: A set of operators for common tasks such as regex
manipulation.
DESCRIPTION | 9 +++++----
NAMESPACE | 2 ++
R/000.R |only
R/file.R | 4 +++-
R/patternRemoving.R | 8 +++++---
R/zzz.R | 4 +++-
inst/options/options.R | 6 +++---
man/decorator.Rd | 2 +-
man/operators-package.Rd | 6 +++---
man/pattern.Rd | 34 ++++++++++++++++++++++------------
man/patternFilter.Rd | 12 ++++++------
11 files changed, 53 insertions(+), 34 deletions(-)
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 1.4.1 dated 2009-10-01 and 1.4.2 dated 2009-10-07
CHANGES | 3 +++ DESCRIPTION | 8 ++++---- R/ezPlot.R | 27 ++++++++++++--------------- 3 files changed, 19 insertions(+), 19 deletions(-)
Author: Stefan Wilhelm
Diff between tmvtnorm versions 0.7-2 dated 2009-08-26 and 0.8-3 dated 2009-10-07
Title: Truncated Multivariate Normal Distribution
Description: Computes truncated multivariate normal probabilities,
quantiles and densities, including one-dimensional and
bivariate marginal densities. Random number generation.
Computes first and second moments (i.e. mean and covariance
matrix) for the double-truncated case.
DESCRIPTION | 8 -
NAMESPACE | 2
R/bivariate-marginal-density.R | 2
R/dmvtnorm-marginal.R | 57 --------------
R/dmvtnorm.R | 2
R/mtmvnorm.R | 4
R/onLoad.R |only
R/ptmvnorm-marginal.R |only
R/rtmvnorm.R | 166 ++++++++++++++++++++++++++++++++++++++---
man/dmvtnorm-marginal.Rd | 10 ++
man/dtmvnorm.marginal2.Rd | 40 ++++++---
man/mtmvnorm.Rd | 2
man/ptmvnorm.Rd | 2
man/ptmvnorm.marginal.Rd |only
man/qtmvnorm-marginal.Rd | 6 -
man/rtmvtnorm.Rd | 20 +++-
release-notes.txt | 16 +++
src |only
18 files changed, 233 insertions(+), 104 deletions(-)
Author: Roger Bivand
Diff between spdep versions 0.4-36 dated 2009-08-19 and 0.4-46 dated 2009-10-07
Title: Spatial dependence: weighting schemes, statistics and models
Description: A collection of functions to create spatial weights matrix
objects from polygon contiguities, from point patterns by
distance and tesselations, for summarising these objects, and
for permitting their use in spatial data analysis, including
regional aggregation by minimum spanning tree; a collection of
tests for spatial autocorrelation, including global Moran's I,
APLE, Geary's C, Hubert/Mantel general cross product statistic,
Empirical Bayes estimates and Assunção/Reis Index, Getis/Ord G
and multicoloured join count statistics, local Moran's I and
Getis/Ord G, saddlepoint approximations and exact tests for
global and local Moran's I; and functions for estimating
spatial simultaneous autoregressive (SAR) lag and error models,
impact measures for lag models, weighted and unweighted SAR and
CAR spatial regression models, semi-parametric and Moran
eigenvector spatial filtering, GM SAR error models, and
generalized spatial two stage least squares models.
ChangeLog | 200 ++++++++++++++++++++++++++++++++++++++++++
DESCRIPTION | 19 ++--
INDEX | 3
NAMESPACE | 16 ++-
R/error.hessian.R |only
R/error.spsarlm.R | 93 ++++++++++++++++++-
R/impacts.R |only
R/kpgm_new.R | 4
R/lag.hessian.R |only
R/lag.spsarlm.R | 170 +++++++++++++++++++++++++++---------
R/nb2mat.R | 31 ++++++
R/spautolm.R | 17 ++-
R/summary.spsarlm.R | 215 ++++++++++++++++++++++++++++++++++------------
data/house.RData |only
inst/ChangeLog | 200 ++++++++++++++++++++++++++++++++++++++++++
inst/doc/CO69.pdf |binary
inst/doc/sids.pdf |binary
man/GMerrorsar.Rd | 3
man/LR.sarlm.Rd | 17 ++-
man/as_dgRMatrix_listw.Rd | 5 -
man/errorsarlm.Rd | 34 ++++---
man/house.Rd |only
man/impacts.sarlm.Rd |only
man/invIrM.Rd | 35 +++++--
man/lagsarlm.Rd | 79 +++++++++++-----
man/spautolm.Rd | 4
man/summary.sarlm.Rd | 15 ++-
man/trW.Rd |only
28 files changed, 976 insertions(+), 184 deletions(-)
Author: Jelle Goeman
Diff between penalized versions 0.9-26 dated 2009-08-06 and 0.9-27 dated 2009-10-07
Title: L1 (lasso) and L2 (ridge) penalized estimation in GLMs and in
the Cox model
Description: A package for fitting possibly high dimensional penalized
regression models. The penalty structure can be any combination
of an L1 penalty (lasso), an L2 penalty (ridge) and a
positivity constraint on the regression coefficients. The
supported regression models are linear, logistic and poisson
regression and the Cox Proportional Hazards model.
Cross-validation routines allow optimization of the tuning
parameters.
DESCRIPTION | 8
R/checkinput.R | 11
R/cvl.R | 10
R/penalized.R | 2
R/penfit.R | 20
changelog.txt | 8
inst/doc/Rplots.pdf | 6936 ++++++++++++++++++++++++-------------------------
inst/doc/penalized.Rnw | 6
inst/doc/penalized.pdf |binary
man/penfit.Rd | 2
man/predict.Rd | 8
11 files changed, 3498 insertions(+), 3513 deletions(-)
Author: Emmanuel Paradis
Title: Population and Evolutionary Genetics Analysis System
Description: pegas provides functions for reading, writing, plotting,
analysing, and manipulating allelic data, and for the analysis
of population nucleotide sequences including coalescence
analyses.
Diff between pegas versions 0.1 dated 2009-05-13 and 0.2 dated 2009-10-07
ChangeLog | 23 +++++++++++++++++++++-- DESCRIPTION | 14 ++++++++------ R/IO.R | 8 ++++---- R/amova.R | 22 +++++++++++++--------- R/haplotype.R | 9 ++++++--- R/heterozygosity.R |only R/nuc.div.R |only R/site.spectrum.R |only R/summary.loci.R | 32 +++++++++++++++++++++++++++++--- R/theta.R |only man/Fst.Rd | 2 -- man/amova.Rd | 4 +++- man/haplotype.Rd | 4 +++- man/heterozygosity.Rd |only man/nuc.div.Rd |only man/read.gtx.Rd | 9 +++++++-- man/site.spectrum.Rd |only man/summary.loci.Rd | 26 +++++++++++++++++++++++--- man/theta.h.Rd |only man/theta.k.Rd |only man/theta.s.Rd |only man/theta.tree.Rd |only man/utilities.Rd | 4 ++-- man/write.loci.Rd | 12 +++++++++++- 24 files changed, 130 insertions(+), 39 deletions(-)
Author: R-core members, Saikat DebRoy
Diff between foreign versions 0.8-37 dated 2009-08-13 and 0.8-38 dated 2009-10-07
Title: Read Data Stored by Minitab, S, SAS, SPSS, Stata, Systat, dBase,
...
Description: Functions for reading and writing data stored by
statistical packages such as Minitab, S, SAS, SPSS, Stata,
Systat, ..., and for reading and writing .dbf (dBase) files.
ChangeLog | 14 ++++++++++++++
DESCRIPTION | 8 ++++----
R/spss.R | 6 ++++--
man/read.dta.Rd | 2 +-
src/spss.c | 12 +++++++++---
5 files changed, 32 insertions(+), 10 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 1.1.9.2 dated 2009-10-01 and 1.1.9.3 dated 2009-10-07
DESCRIPTION | 8 +++--- R/skel.plot.R | 1 man/ccf.series.rwl.Rd | 56 +++++++++++++++++++++++++------------------- man/corr.rwl.seg.Rd | 50 ++++++++++++++++++++++----------------- man/corr.series.seg.Rd | 62 ++++++++++++++++++++++++------------------------- man/series.rwl.plot.Rd | 36 +++++++++++++++------------- man/skel.plot.Rd | 6 +++- 7 files changed, 120 insertions(+), 99 deletions(-)
Author: S original
Diff between boot versions 1.2-39 dated 2009-09-04 and 1.2-40 dated 2009-10-07
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 ++++----
R/bootfuns.q | 1 +
inst/po/de |only
inst/po/en@quot/LC_MESSAGES/R-boot.mo |binary
inst/po/fr/LC_MESSAGES/R-boot.mo |binary
inst/po/ru/LC_MESSAGES/R-boot.mo |binary
po/R-boot.pot | 7 +++++--
po/R-de.po |only
po/R-en@quot.po | 9 ++++++---
po/R-fr.po | 6 +++++-
po/R-ru.po | 6 +++++-
tests/Examples/boot-Ex.Rout.save | 27 +++++++++++++++++++++++++--
13 files changed, 57 insertions(+), 13 deletions(-)
Author: Michael Hoehle, Ulrike Feldmann, Sebastian Meyer
Title: Analysis of Infectious Diseases using Stochastic Epidemic Models
Description: Analysis of infectious disease data using stochastic
Susceptible-Exposed-Infectious-Recovered (SEIR) models. Parts
of the R package wrap functionality of a Java program, i.e. a
java virtual machine has to be installed on your computer.
Furthermore, infectious disease surveillance data can now be
modeled based on a multivariate counting process with
additive-multiplicative conditional intensities.
Diff between RLadyBug versions 0.5-0 dated 2009-02-03 and 0.6-0 dated 2009-10-07
RLadyBug-0.5-0/RLadyBug/R/spatialSIR.R |only RLadyBug-0.5-0/RLadyBug/R/spatialSIR_epidata.R |only RLadyBug-0.5-0/RLadyBug/R/spatialSIR_helper.R |only RLadyBug-0.5-0/RLadyBug/R/spatialSIR_intensity.R |only RLadyBug-0.5-0/RLadyBug/R/spatialSIR_methods.R |only RLadyBug-0.5-0/RLadyBug/R/spatialSIR_simulation.R |only RLadyBug-0.5-0/RLadyBug/man/spatialSIR.Rd |only RLadyBug-0.5-0/RLadyBug/man/spatialSIR_AIC.Rd |only RLadyBug-0.5-0/RLadyBug/man/spatialSIR_cox.Rd |only RLadyBug-0.5-0/RLadyBug/man/spatialSIR_epidata.Rd |only RLadyBug-0.5-0/RLadyBug/man/spatialSIR_epidata_animate.Rd |only RLadyBug-0.5-0/RLadyBug/man/spatialSIR_epidata_plot.Rd |only RLadyBug-0.5-0/RLadyBug/man/spatialSIR_exData.Rd |only RLadyBug-0.5-0/RLadyBug/man/spatialSIR_intensityPlot.Rd |only RLadyBug-0.5-0/RLadyBug/man/spatialSIR_profile.Rd |only RLadyBug-0.5-0/RLadyBug/man/spatialSIR_simulation.Rd |only RLadyBug-0.6-0/RLadyBug/DESCRIPTION | 44 +++--- RLadyBug-0.6-0/RLadyBug/NAMESPACE | 35 ++--- RLadyBug-0.6-0/RLadyBug/NEWS | 90 +++++++++++++ RLadyBug-0.6-0/RLadyBug/R/twinSIR.R |only RLadyBug-0.6-0/RLadyBug/R/twinSIR_epidata.R |only RLadyBug-0.6-0/RLadyBug/R/twinSIR_helper.R |only RLadyBug-0.6-0/RLadyBug/R/twinSIR_intensity.R |only RLadyBug-0.6-0/RLadyBug/R/twinSIR_methods.R |only RLadyBug-0.6-0/RLadyBug/R/twinSIR_simulation.R |only RLadyBug-0.6-0/RLadyBug/R/zzz.R | 14 +- RLadyBug-0.6-0/RLadyBug/data/bw.RData |only RLadyBug-0.6-0/RLadyBug/data/fooepidata.RData |binary RLadyBug-0.6-0/RLadyBug/data/foofit.RData |binary RLadyBug-0.6-0/RLadyBug/inst/CITATION | 50 ++++--- RLadyBug-0.6-0/RLadyBug/man/LBExperiment-class.Rd | 1 RLadyBug-0.6-0/RLadyBug/man/RLadyBug-package.Rd | 4 RLadyBug-0.6-0/RLadyBug/man/twinSIR.Rd |only RLadyBug-0.6-0/RLadyBug/man/twinSIR_cox.Rd |only RLadyBug-0.6-0/RLadyBug/man/twinSIR_epidata.Rd |only RLadyBug-0.6-0/RLadyBug/man/twinSIR_epidata_animate.Rd |only RLadyBug-0.6-0/RLadyBug/man/twinSIR_epidata_intersperse.Rd |only RLadyBug-0.6-0/RLadyBug/man/twinSIR_epidata_plot.Rd |only RLadyBug-0.6-0/RLadyBug/man/twinSIR_epidata_summary.Rd |only RLadyBug-0.6-0/RLadyBug/man/twinSIR_exData.Rd |only RLadyBug-0.6-0/RLadyBug/man/twinSIR_intensityPlot.Rd |only RLadyBug-0.6-0/RLadyBug/man/twinSIR_methods.Rd |only RLadyBug-0.6-0/RLadyBug/man/twinSIR_profile.Rd |only RLadyBug-0.6-0/RLadyBug/man/twinSIR_simulation.Rd |only 44 files changed, 181 insertions(+), 57 deletions(-)
Author: Didier Leibovici
Diff between PTAk versions 1.1-22 dated 2009-08-26 and 1.2-0 dated 2009-10-07
Title: Principal Tensor Analysis on k modes
Description: A multiway method to decompose a tensor (array) of any
order, as a generalisation of SVD also supporting non-identity
metrics and penalisations. 2-way SVD with these extensions is
also available. The package includes also some other multiway
methods: PCAn (Tucker-n) and PARAFAC/CANDECOMP with these
extensions.
PTAk-1.1-22/PTAk/CITATION |only
PTAk-1.1-22/PTAk/LICENSE |only
PTAk-1.1-22/PTAk/inst/doc/PTAklicence.pdf |only
PTAk-1.2-0/PTAk/DESCRIPTION | 10 +++++-----
PTAk-1.2-0/PTAk/inst/CITATION |only
PTAk-1.2-0/PTAk/inst/doc/PTAkgeneral.pdf |binary
PTAk-1.2-0/PTAk/inst/doc/index.html | 13 +++++++------
PTAk-1.2-0/PTAk/inst/doc/left.jpg |only
PTAk-1.2-0/PTAk/inst/doc/logo.jpg |only
PTAk-1.2-0/PTAk/inst/doc/logosm.jpg |only
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PTAk-1.2-0/PTAk/inst/doc/up.jpg |only
12 files changed, 12 insertions(+), 11 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 0.4-2 dated 2009-09-07 and 0.4-3 dated 2009-10-07
DESCRIPTION | 8 ++++---- R/runscript.R | 9 ++++++++- man/runscript.Rd | 44 +++++++++++++++++++++++++------------------- 3 files changed, 37 insertions(+), 24 deletions(-)
Author: David Ardia and Katharine Mullen
Title: Optimization by Differential Evolution
Description: This package provides the DEoptim function which performs
optimization by Differential Evolution.
Diff between DEoptim versions 2.0-0 dated 2009-10-01 and 2.0-1 dated 2009-10-07
DESCRIPTION | 6 +++--- src/de4_0.c | 6 ++++++ 2 files changed, 9 insertions(+), 3 deletions(-)
Author: Claudio Lupi
Title: Hansen's Covariate-Augmented Dickey-Fuller (CADF) Test
Description: This package performs Hansen's (1995) Covariate-Augmented
Dickey-Fuller (CADF) test. The only required argument is y, the
univariate time series to be tested. If no stationary covariate
X is passed to the procedure, then an ordinary ADF test is
performed. The p-values of the test are computed using a
procedure proposed in Costantini, Lupi and Popp (2007),
illustrated in Lupi (2009).
Diff between CADFtest versions 0.1-0 dated 2008-12-29 and 0.3-0 dated 2009-10-06
CADFtest-0.1-0/CADFtest/Read-and-delete-me |only CADFtest-0.3-0/CADFtest/DESCRIPTION | 39 CADFtest-0.3-0/CADFtest/NAMESPACE | 32 CADFtest-0.3-0/CADFtest/NEWS |only CADFtest-0.3-0/CADFtest/R/CADFpvalues.R | 3138 ---------------------- CADFtest-0.3-0/CADFtest/R/CADFtest.R | 11 CADFtest-0.3-0/CADFtest/R/CADFtest.default.R | 457 +-- CADFtest-0.3-0/CADFtest/R/CADFtest.formula.R | 145 - CADFtest-0.3-0/CADFtest/R/plot.CADFtest.R |only CADFtest-0.3-0/CADFtest/R/print.CADFtestsummary.R |only CADFtest-0.3-0/CADFtest/R/residuals.CADFtest.R |only CADFtest-0.3-0/CADFtest/R/summary.CADFtest.R | 121 CADFtest-0.3-0/CADFtest/R/update.CADFtest.R |only CADFtest-0.3-0/CADFtest/data |only CADFtest-0.3-0/CADFtest/inst/CITATION | 30 CADFtest-0.3-0/CADFtest/inst/doc |only CADFtest-0.3-0/CADFtest/man/CADFpvalues.Rd | 66 CADFtest-0.3-0/CADFtest/man/CADFtest.Rd | 219 - CADFtest-0.3-0/CADFtest/man/coeffs_ct.Rd |only CADFtest-0.3-0/CADFtest/man/plot.CADFFtest.Rd |only CADFtest-0.3-0/CADFtest/man/residuals.CADFtest.Rd |only CADFtest-0.3-0/CADFtest/man/summary.CADFtest.Rd | 55 CADFtest-0.3-0/CADFtest/man/update.CADFtest.Rd |only 23 files changed, 686 insertions(+), 3627 deletions(-)
Author: Xianhong Xie
Diff between rgcvpack versions 0.1-2 dated 2007-09-06 and 0.1-3 dated 2009-10-06
Title: R Interface for GCVPACK Fortran Package
Description: Thin plate spline fitting and prediction
DESCRIPTION | 14 -
INDEX | 4
NAMESPACE | 12 -
R/rgcvpack.R | 532 ++++++++++++++++++++++++++---------------------------
R/zzz.R | 44 ++--
man/fitTps.Rd | 238 +++++++++++------------
man/predict.Tps.Rd | 118 +++++------
7 files changed, 482 insertions(+), 480 deletions(-)
Author: REvolution Computing
Title: Iterator construct for R
Description: Support for iterators, which allow a programmer to
traverse through all the elements of a vector, list, or other
collection of data.
Diff between iterators versions 1.0.2 dated 2009-07-21 and 1.0.3 dated 2009-10-06
iterators-1.0.2/iterators/inst/doc/iterators.tex |only iterators-1.0.3/iterators/DESCRIPTION | 6 +-- iterators-1.0.3/iterators/R/aslist.R | 14 +++---- iterators-1.0.3/iterators/inst/doc/iterators.Rnw | 43 +++++++++++++++++++---- iterators-1.0.3/iterators/inst/doc/iterators.pdf |binary iterators-1.0.3/iterators/inst/doc/writing.Rnw |only iterators-1.0.3/iterators/inst/doc/writing.pdf |only iterators-1.0.3/iterators/inst/examples |only iterators-1.0.3/iterators/test/chunksizeTest.R |only iterators-1.0.3/iterators/test/recycleTest.R |only iterators-1.0.3/iterators/test/runTestSuite.sh | 2 - 11 files changed, 48 insertions(+), 17 deletions(-)
Author: Gabor Csardi
Diff between isa2 versions 0.1 dated 2009-06-05 and 0.2 dated 2009-10-06
Title: The Iterative Signature Algorithm
Description: The ISA is a biclustering algorithm that finds modules in
an input matrix. A module or bicluster is a block of the
reordered input matrix.
isa2-0.1/isa2/inst/doc/ISA_tutorial.Rnw |only
isa2-0.2/isa2/DESCRIPTION | 8 +-
isa2-0.2/isa2/R/AllGenerics.R | 1
isa2-0.2/isa2/R/insilico.R | 2
isa2-0.2/isa2/R/isa3.R | 80 +++++++++++++++++++++++++--
isa2-0.2/isa2/R/robustness.R | 1
isa2-0.2/isa2/inst/doc/ISA_parallel.pdf |binary
isa2-0.2/isa2/inst/doc/ISA_parallel.vignette | 44 ++++++++++----
isa2-0.2/isa2/inst/doc/ISA_tutorial.pdf |binary
isa2-0.2/isa2/inst/doc/ISA_tutorial.vignette |only
isa2-0.2/isa2/man/aaa-package.Rd | 1
isa2-0.2/isa2/man/isa.Rd | 3 +
isa2-0.2/isa2/man/isa.iterate.Rd | 14 +++-
isa2-0.2/isa2/man/isa.normalize.Rd | 1
isa2-0.2/isa2/man/isa.sweep.Rd | 20 +++++-
isa2-0.2/isa2/man/plot.modules.Rd | 2
isa2-0.2/isa2/man/robustness.Rd | 4 -
17 files changed, 145 insertions(+), 36 deletions(-)
Author: REvolution Computing
Title: Foreach looping construct for R
Description: Support for the foreach looping construct. Foreach is an
idiom that allows for iterating over elements in a collection,
without the use of an explicit loop counter. This package in
particular is intended to be used for its return value, rather
than for its side effects. In that sense, it is similar to the
standard lapply function, but doesn't require the evaluation of
a function. Using foreach without side effects also
facilitates executing the loop in parallel.
Diff between foreach versions 1.2.1 dated 2009-06-30 and 1.3.0 dated 2009-10-06
foreach-1.2.1/foreach/inst/examples/rf2.R |only foreach-1.2.1/foreach/inst/examples/rf3.R |only foreach-1.3.0/foreach/DESCRIPTION | 6 +-- foreach-1.3.0/foreach/NAMESPACE | 7 +++- foreach-1.3.0/foreach/R/zzz.R | 8 +++-- foreach-1.3.0/foreach/demo |only foreach-1.3.0/foreach/inst/doc/foreach.pdf |binary foreach-1.3.0/foreach/inst/doc/nested.Rnw |only foreach-1.3.0/foreach/inst/doc/nested.Rnw.bk2 |only foreach-1.3.0/foreach/inst/doc/nested.pdf |only foreach-1.3.0/foreach/inst/examples/apply.R | 5 +-- foreach-1.3.0/foreach/inst/examples/bigmax.R | 8 +---- foreach-1.3.0/foreach/inst/examples/bigmean.R | 8 +---- foreach-1.3.0/foreach/inst/examples/bootpar.R | 5 +-- foreach-1.3.0/foreach/inst/examples/bootpar2.R | 12 +------ foreach-1.3.0/foreach/inst/examples/for.R | 7 +--- foreach-1.3.0/foreach/inst/examples/matmul2.R | 6 +-- foreach-1.3.0/foreach/inst/examples/rf.R | 15 ++++++--- foreach-1.3.0/foreach/inst/examples/sinc2.R | 9 ++--- foreach-1.3.0/foreach/inst/examples/sqlite.R | 6 +-- foreach-1.3.0/foreach/inst/examples/tuneRF.R |only foreach-1.3.0/foreach/man/foreach-ext.Rd | 4 ++ foreach-1.3.0/foreach/man/foreach-package.Rd | 13 ++++++++ foreach-1.3.0/foreach/test/runTestSuite.sh | 39 ++++++++++++++++++++++--- foreach-1.3.0/foreach/test/sqrt.R |only foreach-1.3.0/foreach/test/stressTest.R |only foreach-1.3.0/foreach/test/test.log |only foreach-1.3.0/foreach/test/tsqrt.R |only 28 files changed, 103 insertions(+), 55 deletions(-)
Author: REvolution Computing
Title: Foreach parallel adaptor for the multicore package
Description: Provides a parallel backend for the %dopar% function using
Simon Urbanek's multicore package.
Diff between doMC versions 1.1.1 dated 2009-06-30 and 1.2.0 dated 2009-10-06
DESCRIPTION | 8 +++--- NEWS |only R/doMC.R | 62 +++++++++++++++++++++++++++++++++++++++++++++++++--- demo |only inst |only man/doMC-package.Rd |only test |only 7 files changed, 63 insertions(+), 7 deletions(-)
Author: Martin Maechler, based on S original by Peter Rousseeuw
Diff between cluster versions 1.12.0 dated 2009-05-13 and 1.12.1 dated 2009-10-06
Title: Cluster Analysis Extended Rousseeuw et al.
Description: Cluster Analysis, extended original from Peter Rousseeuw,
Anja Struyf and Mia Hubert.
ChangeLog | 9 +++++++++
DESCRIPTION | 8 ++++----
man/ellipsoidhull.Rd | 2 +-
3 files changed, 14 insertions(+), 5 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 4.24 dated 2009-09-30 and 4.25 dated 2009-10-06
caret-4.24/caret/R/makeCubistFiles.R |only caret-4.25/caret/DESCRIPTION | 10 - caret-4.25/caret/R/misc.R | 11 + caret-4.25/caret/R/rfe.R | 238 +++++++++++++++++---------- caret-4.25/caret/inst/CHANGES | 7 caret-4.25/caret/inst/doc/caretMisc.tex |only caret-4.25/caret/inst/doc/caretSelection.tex |only caret-4.25/caret/inst/doc/caretTrain.tex |only caret-4.25/caret/inst/doc/caretVarImp.tex |only caret-4.25/caret/man/createGrid.Rd | 14 + caret-4.25/caret/man/rfe.Rd | 54 ++++++ caret-4.25/caret/man/rfeControl.Rd | 8 12 files changed, 250 insertions(+), 92 deletions(-)
Author: Andreas Ruckstuhl, Thomas Unternaehrer, Rene Locher
Title: Utilities of Institute of Data Analyses and Process Design
(www.idp.zhaw.ch)
Description: The IDPmisc package contains different high-level graphics
functions for displaying large datasets, displaying circular
data in a very flexible way, finding local maxima, brewing
color ramps, drawing nice arrows, zooming 2D-plots, creating
figures with differently colored margin and plot region. In
addition, the package contains auxiliary functions for data
manipulation like omitting observations with irregular values
or selecting data by logical vectors, which include NAs. Other
functions are especially useful in spectroscopy and analyses of
environmental data: robust baseline fitting, finding peaks in
spectra.
Diff between IDPmisc versions 1.1.03 dated 2009-08-04 and 1.1.05 dated 2009-10-06
IDPmisc-1.1.03/IDPmisc/R/longts.plot.R |only IDPmisc-1.1.05/IDPmisc/ChangeLog | 35 +- IDPmisc-1.1.05/IDPmisc/DESCRIPTION | 8 IDPmisc-1.1.05/IDPmisc/R/LegendAndTitle.R |only IDPmisc-1.1.05/IDPmisc/R/drawleg.R |only IDPmisc-1.1.05/IDPmisc/R/inf.omit.R |only IDPmisc-1.1.05/IDPmisc/R/longtsPlot.R | 344 +++++++++++++------------- IDPmisc-1.1.05/IDPmisc/R/plotdat.R |only IDPmisc-1.1.05/IDPmisc/R/rose.grob.R | 18 - IDPmisc-1.1.05/IDPmisc/man/IDPmisc-package.Rd | 4 IDPmisc-1.1.05/IDPmisc/man/longtsPlot.Rd | 36 +- 11 files changed, 236 insertions(+), 209 deletions(-)
Author: Patrick Brown
Title: Calculate observed and expected disease incidence counts from a
case file and population data.
Description: works with regular data set file and shape file.
Diff between diseasemapping versions 0.4 dated 2009-06-07 and 0.5.3 dated 2009-10-05
DESCRIPTION | 16 +++--- R/CanadaCancerRates.R |only R/expandCensus.r |only R/formatCases.R | 5 + R/formatPopulation.data.frame.R | 3 + R/formatPopulation.list.R | 8 +-- R/getRates.R | 103 ++++++++++++++++++++++++++++++++++------ R/getSMR.data.frame.R | 74 +++++++++++++++++++++++----- R/getSMR.list.r | 35 ++++++++++--- R/mergeBugsData.R | 4 - data/popdata.RData |binary man/CanadaCancerRates.Rd |only man/diseasemapping-package.Rd | 2 man/expandCensus.Rd |only man/formatPopulation.Rd | 3 - man/getRates.Rd | 3 - man/getSMR.Rd | 20 +++---- 17 files changed, 214 insertions(+), 62 deletions(-)
More information about diseasemapping at CRAN
Permanent link
Author: Edzer J. Pebesma
Diff between gstat versions 0.9-62 dated 2009-07-18 and 0.9-63 dated 2009-10-05
Title: geostatistical modelling, prediction and simulation
Description: variogram modelling; simple, ordinary and universal point
or block (co)kriging, sequential Gaussian or indicator
(co)simulation; variogram and variogram map plotting utility
functions.
gstat-0.9-62/gstat/inst/ChangeLog |only
gstat-0.9-63/gstat/DESCRIPTION | 8
gstat-0.9-63/gstat/R/fit.lmc.R | 2
gstat-0.9-63/gstat/R/gstat.cv.R | 4
gstat-0.9-63/gstat/R/krige.cv.R | 14
gstat-0.9-63/gstat/R/krigeTg.R | 2
gstat-0.9-63/gstat/inst/doc/gstat.pdf |30544 ++++++++++++++++------------------
gstat-0.9-63/gstat/man/krige.cv.Rd | 6
gstat-0.9-63/gstat/man/krigeTg.Rd | 8
gstat-0.9-63/gstat/src/data.c | 10
gstat-0.9-63/gstat/src/defs.h | 2
gstat-0.9-63/gstat/src/lex.c | 28
gstat-0.9-63/gstat/src/lex.l | 3
gstat-0.9-63/gstat/src/random.c | 2
gstat-0.9-63/gstat/src/sem.c | 4
gstat-0.9-63/gstat/src/version.h | 6
16 files changed, 14920 insertions(+), 15723 deletions(-)
Author: John Fox
Diff between Rcmdr versions 1.5-2 dated 2009-09-06 and 1.5-3 dated 2009-10-05
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 | 4
R/startup.R | 5
inst/CHANGES | 12
inst/po/fr/LC_MESSAGES/R-Rcmdr.mo |binary
inst/po/id/LC_MESSAGES/R-Rcmdr.mo |binary
inst/po/ja/LC_MESSAGES/R-Rcmdr.mo |binary
inst/po/ro/LC_MESSAGES/R-Rcmdr.mo |binary
man/Rcmdr-package.Rd | 4
po/R-fr.po | 166
po/R-id.po | 7253 +++++++++++++++++++------------------
po/R-ja.po | 7387 +++++++++++++++++++-------------------
po/R-ro.po | 1554 ++++---
13 files changed, 8577 insertions(+), 7818 deletions(-)
Author: Frank E Harrell Jr
Diff between rms versions 2.0-2 dated 2009-09-07 and 2.1-0 dated 2009-10-05
Title: Regression Modeling Strategies
Description: Regression modeling, testing, estimation, validation,
graphics, prediction, and typesetting by storing enhanced model
design attributes in the fit. rms is a collection of about 225
functions that assist with and streamline modeling. It also
contains functions for binary and ordinal logistic regression
models and the Buckley-James multiple regression model for
right-censored responses, and implements penalized maximum
likelihood estimation for logistic and ordinary linear models.
rms works with almost any regression model, but it was
especially written to work with binary or ordinal logistic
regression, Cox regression, accelerated failure time models,
ordinary linear models, the Buckley-James model, generalized
least squares for serially or spatially correlated
observations, generalized linear models, and quantile
regression.
rms-2.0-2/rms/changes.txt |only
rms-2.1-0/rms/DESCRIPTION | 29 ++---
rms-2.1-0/rms/INDEX | 2
rms-2.1-0/rms/NEWS |only
rms-2.1-0/rms/R/Predict.s | 24 ++++
rms-2.1-0/rms/R/bj.s | 6 -
rms-2.1-0/rms/R/bplot.s | 33 ++++--
rms-2.1-0/rms/R/calibrate.cph.s | 155 ++++++++++++++++++++----------
rms-2.1-0/rms/R/calibrate.default.s | 73 +++++++-------
rms-2.1-0/rms/R/calibrate.psm.s | 143 +++++++++++++++++++---------
rms-2.1-0/rms/R/calibrate.s | 128 ++++++++++++++++++++-----
rms-2.1-0/rms/R/cph.s | 6 -
rms-2.1-0/rms/R/datadist.s | 12 +-
rms-2.1-0/rms/R/groupkm.s | 19 +--
rms-2.1-0/rms/R/plot.Predict.s | 35 ++++--
rms-2.1-0/rms/R/predictrms.s | 36 +++----
rms-2.1-0/rms/R/residuals.lrm.s | 6 -
rms-2.1-0/rms/R/sensuc.s | 2
rms-2.1-0/rms/R/survest.cph.s | 12 +-
rms-2.1-0/rms/R/survreg.distributions.s | 5
rms-2.1-0/rms/R/val.prob.s | 157 -------------------------------
rms-2.1-0/rms/R/val.surv.s |only
rms-2.1-0/rms/R/validate.lrm.s | 8 -
rms-2.1-0/rms/man/Function.Rd | 2
rms-2.1-0/rms/man/Predict.Rd | 15 ++
rms-2.1-0/rms/man/Rq.Rd | 27 +++--
rms-2.1-0/rms/man/anova.rms.Rd | 2
rms-2.1-0/rms/man/bootcov.Rd | 2
rms-2.1-0/rms/man/bplot.Rd | 8 +
rms-2.1-0/rms/man/calibrate.Rd | 78 ++++++++++-----
rms-2.1-0/rms/man/cph.Rd | 2
rms-2.1-0/rms/man/hazard.ratio.plot.Rd | 2
rms-2.1-0/rms/man/latex.cph.Rd | 2
rms-2.1-0/rms/man/plot.Predict.Rd | 27 ++++-
rms-2.1-0/rms/man/plot.xmean.ordinaly.Rd | 2
rms-2.1-0/rms/man/predictrms.Rd | 8 -
rms-2.1-0/rms/man/print.cph.Rd | 2
rms-2.1-0/rms/man/print.cph.fit.Rd | 2
rms-2.1-0/rms/man/summary.rms.Rd | 2
rms-2.1-0/rms/man/survplot.Rd | 4
rms-2.1-0/rms/man/val.prob.Rd | 6 -
rms-2.1-0/rms/man/val.surv.Rd | 124 ++++++++++++++++++++----
rms-2.1-0/rms/man/validate.cph.Rd | 2
rms-2.1-0/rms/man/zzzrmsOverview.Rd | 4
44 files changed, 734 insertions(+), 480 deletions(-)
Author: Timothy H. Keitt
Diff between rgdal versions 0.6-18 dated 2009-09-06 and 0.6-19 dated 2009-10-05
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 | 18 ++++++++++++++++--
DESCRIPTION | 8 ++++----
R/sp_gdal.R | 11 ++++++++---
inst/ChangeLog | 18 ++++++++++++++++--
man/readGDAL.Rd | 8 +++++++-
5 files changed, 51 insertions(+), 12 deletions(-)
Author: S original by Alessandra R. Brazzale
Diff between nlreg versions 1.1-3 dated 2009-09-24 and 1.2-0 dated 2009-10-05
Title: Higher Order Inference for Nonlinear Heteroscedastic Models
Description: Likelihood inference based on higher order approximations
for nonlinear models with possibly non constant variance
CHANGES | 8 +++++++-
DESCRIPTION | 8 ++++----
R/nlreg.R | 2 +-
R/zzz.R | 2 +-
inst/doc/Rnews-paper.pdf |binary
man/nlreg-package.Rd | 12 ++----------
man/nlreg.object.Rd | 2 +-
man/var2cor.Rd | 2 +-
8 files changed, 17 insertions(+), 19 deletions(-)
Author: Jose Pinheiro
Diff between nlme versions 3.1-94 dated 2009-09-04 and 3.1-95 dated 2009-10-05
Title: Linear and Nonlinear Mixed Effects Models
Description: Fit and compare Gaussian linear and nonlinear
mixed-effects models.
ChangeLog | 7 ++++++-
DESCRIPTION | 8 ++++----
R/nlme.R | 10 ++++------
3 files changed, 14 insertions(+), 11 deletions(-)
Author: S original by Alessandra R. Brazzale
Diff between marg versions 1.1-3 dated 2009-09-24 and 1.2-0 dated 2009-10-05
Title: Approximate marginal inference for regression-scale models
Description: Likelihood inference based on higher order approximations
for linear nonnormal regression models
CHANGES | 8 +++++++-
DESCRIPTION | 8 ++++----
R/marg.R | 2 +-
R/zzz.R | 2 +-
inst/doc/Rnews-paper.pdf |binary
man/darwin.Rd | 2 +-
man/marg-package.Rd | 12 ++----------
man/rsm.Rd | 4 ++--
man/rsm.object.Rd | 2 +-
man/rsm.surv.Rd | 2 +-
man/update.rsm.Rd | 4 ++--
11 files changed, 22 insertions(+), 24 deletions(-)
Author: Tarn Duong
Diff between ks versions 1.6.6 dated 2009-08-05 and 1.6.7 dated 2009-10-05
Title: Kernel smoothing
Description: Kernel density estimators and kernel discriminant analysis
for multivariate data
DESCRIPTION | 8
R/deconv-kde.R | 18 -
R/kdde.R | 26 -
R/mise.R | 217 +++++-------
R/normal.R | 915 ++++++-----------------------------------------------
R/prelim.R | 49 ++
R/psins.R | 2
R/selector.R | 20 -
README | 139 +++-----
inst/doc/kde.pdf |binary
man/Hamise.mixt.Rd | 14
man/Hpi.Rd | 6
man/ks-package.Rd | 17
13 files changed, 368 insertions(+), 1063 deletions(-)
Author: S original by Alessandra R. Brazzale
Diff between csampling versions 1.1-3 dated 2009-09-24 and 1.2-0 dated 2009-10-05
Title: Functions for Conditional Simulation in Regression-Scale Models
Description: Monte Carlo conditional inference for the parameters of a
linear nonnormal regression model
CHANGES | 8 +++++++-
DESCRIPTION | 8 ++++----
R/csampling.R | 2 +-
R/zzz.R | 2 +-
man/csampling-package.Rd | 12 ++----------
man/mt.Rd | 4 ++--
man/rsm.sample.Rd | 2 +-
7 files changed, 18 insertions(+), 20 deletions(-)
Author: S original by Alessandra R. Brazzale
Diff between cond versions 1.1-3 dated 2009-09-24 and 1.2-0 dated 2009-10-05
Title: Approximate conditional inference for logistic and loglinear
models
Description: Higher order likelihood-based inference for logistic and
loglinear models
CHANGES | 8 +++++++-
DESCRIPTION | 8 ++++----
R/cond.R | 2 +-
R/zzz.R | 2 +-
inst/doc/Rnews-paper.pdf |binary
man/cond-package.Rd | 12 ++----------
6 files changed, 15 insertions(+), 17 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,
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 2.3-3 dated 2009-09-22 and 2.4 dated 2009-10-05
ape-2.3-3/ape/R/heterozygosity.R |only ape-2.3-3/ape/R/klastorin.R |only ape-2.3-3/ape/R/mlphylo.R |only ape-2.3-3/ape/R/sh.test.R |only ape-2.3-3/ape/R/theta.R |only ape-2.3-3/ape/man/DNAmodel.Rd |only ape-2.3-3/ape/man/heterozygosity.Rd |only ape-2.3-3/ape/man/mlphylo.Rd |only ape-2.3-3/ape/man/nuc.div.Rd |only ape-2.3-3/ape/man/sh.test.Rd |only ape-2.3-3/ape/man/theta.h.Rd |only ape-2.3-3/ape/man/theta.k.Rd |only ape-2.3-3/ape/man/theta.s.Rd |only ape-2.3-3/ape/src/mlphylo.c |only ape-2.4/ape/ChangeLog | 52 ++++ ape-2.4/ape/DESCRIPTION | 21 - ape-2.4/ape/R/DNA.R | 26 -- ape-2.4/ape/R/ape-defunct.R |only ape-2.4/ape/R/nodelabels.R | 19 - ape-2.4/ape/R/plot.phylo.R | 444 +++++++++++++++++++++--------------- ape-2.4/ape/R/scales.R | 40 ++- ape-2.4/ape/R/write.nexus.data.R | 2 ape-2.4/ape/Thanks | 4 ape-2.4/ape/inst/doc/MoranI.pdf |binary ape-2.4/ape/man/CADM.global.Rd | 1 ape-2.4/ape/man/add.scale.bar.Rd | 6 ape-2.4/ape/man/ape-defunct.Rd |only ape-2.4/ape/man/ape-internal.Rd | 4 ape-2.4/ape/man/base.freq.Rd | 8 ape-2.4/ape/man/bionj.Rd | 2 ape-2.4/ape/man/dist.gene.Rd | 2 ape-2.4/ape/man/fastme.Rd | 2 ape-2.4/ape/man/nj.Rd | 2 ape-2.4/ape/man/nodelabels.Rd | 7 ape-2.4/ape/man/seg.sites.Rd | 5 ape-2.4/ape/man/summary.phylo.Rd | 4 ape-2.4/ape/man/yule.time.Rd | 10 ape-2.4/ape/src/dist_dna.c | 10 ape-2.4/ape/src/plot_phylo.c | 19 + 39 files changed, 416 insertions(+), 274 deletions(-)
Author: Federico Girosi
Diff between YourCast versions 1.1-3 dated 2009-09-19 and 1.1-5 dated 2009-10-05
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 ++++----
inst/doc/copyRd.Rout | 2 +-
inst/doc/index.shtml | 2 +-
man/yourprep.Rd | 9 ++++++---
4 files changed, 12 insertions(+), 9 deletions(-)
Author: Alexandre Brouste
Diff between FieldSim versions 1.2 dated 2007-11-20 and 2.1 dated 2009-10-05
Title: Random fields simulations
Description: This package provides routines for simulate random fields.
FieldSim-1.2/FieldSim/R/vf.r |only
FieldSim-2.1/FieldSim/DESCRIPTION | 14 +-
FieldSim-2.1/FieldSim/NAMESPACE | 4
FieldSim-2.1/FieldSim/R/hypersim.R |only
FieldSim-2.1/FieldSim/R/hypersimgrid.R |only
FieldSim-2.1/FieldSim/R/printhyper.R |only
FieldSim-2.1/FieldSim/R/printsphere.R |only
FieldSim-2.1/FieldSim/R/spheresim.R |only
FieldSim-2.1/FieldSim/R/spheresimgrid.R |only
FieldSim-2.1/FieldSim/man/C2D.Rd | 65 ++++-----
FieldSim-2.1/FieldSim/man/FieldSim-internal.Rd | 1
FieldSim-2.1/FieldSim/man/H.test.Rd | 101 +++++++-------
FieldSim-2.1/FieldSim/man/fieldsim.Rd | 173 +++++++++++--------------
FieldSim-2.1/FieldSim/man/hypersim.Rd |only
FieldSim-2.1/FieldSim/man/hypersimgrid.Rd |only
FieldSim-2.1/FieldSim/man/locquadvar.Rd | 131 +++++++++---------
FieldSim-2.1/FieldSim/man/midpoint.Rd | 139 +++++++++-----------
FieldSim-2.1/FieldSim/man/printhyper.Rd |only
FieldSim-2.1/FieldSim/man/printsphere.Rd |only
FieldSim-2.1/FieldSim/man/quadvar.Rd | 106 +++++++--------
FieldSim-2.1/FieldSim/man/spheresim.Rd |only
FieldSim-2.1/FieldSim/man/spheresimgrid.Rd |only
FieldSim-2.1/FieldSim/src/vf3.c |only
23 files changed, 361 insertions(+), 373 deletions(-)
Author: William Revelle
Diff between psych versions 1.0-80 dated 2009-09-30 and 1.0-81 dated 2009-10-05
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-1.0-80/psych/man/fa.graph.Rd |only
psych-1.0-81/psych/CHANGES | 8
psych-1.0-81/psych/DESCRIPTION | 8
psych-1.0-81/psych/R/ICLUST.diagram.R | 156
psych-1.0-81/psych/R/dia.rect.R | 77
psych-1.0-81/psych/R/fa.diagram.R | 21
psych-1.0-81/psych/R/omega.R | 4
psych-1.0-81/psych/R/omega.diagram.R | 18
psych-1.0-81/psych/R/structure.diagram.R | 15
psych-1.0-81/psych/R/test.psych.r | 3
psych-1.0-81/psych/inst/NEWS | 5
psych-1.0-81/psych/inst/doc/overview.pdf |10484 +++++++++++++-------------
psych-1.0-81/psych/inst/doc/psych_for_sem.pdf | 7952 +++++++++----------
psych-1.0-81/psych/man/00.psych-package.Rd | 4
psych-1.0-81/psych/man/dia.rect.Rd | 65
psych-1.0-81/psych/man/fa.diagram.Rd |only
psych-1.0-81/psych/man/iclust.diagram.Rd | 3
psych-1.0-81/psych/man/omega.graph.Rd | 9
18 files changed, 9353 insertions(+), 9479 deletions(-)
Author: Deepayan Sarkar
Diff between lattice versions 0.17-25 dated 2009-05-15 and 0.17-26 dated 2009-10-05
Title: Lattice Graphics
Description: Implementation of Trellis Graphics. See ?Lattice for a
brief introduction
DESCRIPTION | 8 -
INDEX | 2
NEWS | 2
R/levelplot.R | 1
R/panel.smoothscatter.R | 3
R/rfs.R | 5
SvnLog | 228 +++++++++++++++++++++++++++++++
inst/po/de/LC_MESSAGES/R-lattice.mo |binary
inst/po/en@quot/LC_MESSAGES/R-lattice.mo |binary
man/Lattice.Rd | 37 ++---
man/Rows.Rd | 2
man/axis.default.Rd | 2
man/banking.Rd | 2
man/barchart.table.Rd | 5
man/barley.Rd | 2
man/cloud.Rd | 19 --
man/draw.colorkey.Rd | 2
man/draw.key.Rd | 2
man/environmental.Rd | 2
man/ethanol.Rd | 2
man/histogram.Rd | 2
man/interaction.Rd | 2
man/lattice.options.Rd | 2
man/latticeParseFormula.Rd | 2
man/level.colors.Rd | 2
man/levelplot.Rd | 2
man/llines.Rd | 2
man/lset.Rd | 2
man/make.groups.Rd | 2
man/melanoma.Rd | 2
man/oneway.Rd | 2
man/packet.panel.default.Rd | 2
man/panel.axis.Rd | 2
man/panel.barchart.Rd | 2
man/panel.bwplot.Rd | 2
man/panel.cloud.Rd | 2
man/panel.densityplot.Rd | 2
man/panel.dotplot.Rd | 2
man/panel.functions.Rd | 2
man/panel.histogram.Rd | 2
man/panel.levelplot.Rd | 2
man/panel.number.Rd | 2
man/panel.pairs.Rd | 2
man/panel.parallel.Rd | 2
man/panel.qqmath.Rd | 2
man/panel.qqmathline.Rd | 2
man/panel.smoothScatter.Rd | 6
man/panel.stripplot.Rd | 2
man/panel.superpose.Rd | 2
man/panel.violin.Rd | 2
man/panel.xyplot.Rd | 2
man/prepanel.default.Rd | 2
man/prepanel.functions.Rd | 2
man/print.trellis.Rd | 2
man/qq.Rd | 2
man/qqmath.Rd | 3
man/rfs.Rd | 2
man/shingles.Rd | 2
man/simpleKey.Rd | 2
man/simpleTheme.Rd | 2
man/singer.Rd | 2
man/splom.Rd | 7
man/strip.default.Rd | 2
man/tmd.Rd | 2
man/trellis.device.Rd | 2
man/trellis.object.Rd | 2
man/trellis.par.get.Rd | 2
man/update.trellis.Rd | 2
man/utilities.3d.Rd | 2
man/xyplot.Rd | 3
po/R-de.po | 6
po/R-en@quot.po | 6
po/R-lattice.pot | 4
73 files changed, 336 insertions(+), 117 deletions(-)
Author: Edzer Pebesma
Diff between intamapInteractive versions 1.0-6 dated 2009-10-02 and 1.0-7 dated 2009-10-05
More information about intamapInteractive at CRAN
Title: procedures for automated interpolation - methods only to be used
interactively, not included in intamap package
Description: A package that provides classes and methods for automated
spatial interpolation.
DESCRIPTION | 8
tests/optimizingTest.R | 8
tests/optimizingTest.Rout.save | 1938 +----------------------------------------
3 files changed, 60 insertions(+), 1894 deletions(-)
Permanent link
Author: Spencer Graves, Sundar Dorai-Raj, and Romain Francois
Title: RSiteSearch
Description: Alternative interfaces to RSiteSearch; deprecated: use
'sos'
Diff between RSiteSearch versions 1.0-4 dated 2009-06-29 and 1.0-6 dated 2009-10-05
DESCRIPTION | 11 ++++++----- R/RSiteSearch.function.R | 4 ++++ man/RSiteSearch.function.Rd | 2 +- 3 files changed, 11 insertions(+), 6 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 0.0-5 dated 2009-10-01 and 0.0-6 dated 2009-10-05
DESCRIPTION | 8 ++++---- NAMESPACE | 2 ++ R/coef.mlcm.R | 2 +- R/mlcm.formula.R | 6 +++--- R/plot.mlcm.R | 21 +++++++++++++++++++++ R/print.summary.mlcm.R | 17 +++++++++++------ R/summary.mlcm.R | 6 +++++- inst/NEWS | 15 ++++++++++++++- inst/ToDo | 7 ++++++- man/mlcm.Rd | 27 ++++++++++++++++++++++++++- man/plot.mlcm.Rd | 6 +++++- 11 files changed, 98 insertions(+), 19 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 1.0-4 dated 2009-09-18 and 1.0-5 dated 2009-10-05
ChangeLog | 9 DESCRIPTION | 8 R/planMCPMod.R | 17 inst/doc/MCPMod.pdf | 1994 +++++++++++++++++++++++++------------------------- inst/doc/Rplots.pdf | 736 +++++++++--------- man/MCPMod-package.Rd | 4 man/MCPMod.Rd | 12 7 files changed, 1408 insertions(+), 1372 deletions(-)
Author: Compiled by Adrian Trapletti
Diff between tseries versions 0.10-20 dated 2009-09-10 and 0.10-21 dated 2009-10-04
Title: Time series analysis and computational finance
Description: Package for time series analysis and computational finance
ChangeLog | 7 +++++++
DESCRIPTION | 8 ++++----
man/portfolio.optim.Rd | 6 ++++++
3 files changed, 17 insertions(+), 4 deletions(-)
Author: S original by Trevor Hastie
Diff between princurve versions 1.1-9 dated 2007-07-13 and 1.1-10 dated 2009-10-04
Title: Fits a Principal Curve in Arbitrary Dimension
Description: fits a principal curve to a data matrix in arbitrary
dimensions
ChangeLog | 8 +
DESCRIPTION | 14 +--
R/principal.curve.R | 214 +++++++++++++++++++++++++++++++++-------------
man/principal.curve.Rd | 11 +-
man/princurve-internal.Rd | 6 -
5 files changed, 183 insertions(+), 70 deletions(-)
Author: S original by David James
Diff between chron versions 2.3-31 dated 2009-09-10 and 2.3-32 dated 2009-10-04
Title: Chronological objects which can handle dates and times
Description: Chronological objects which can handle dates and times
ChangeLog | 6 ++++++
DESCRIPTION | 8 ++++----
R/times.R | 5 ++++-
3 files changed, 14 insertions(+), 5 deletions(-)
Author: Marek Gagolewski
Diff between phull versions 0.1-1 dated 2009-10-03 and 0.2-1 dated 2009-10-04
Title: p-hull: a generalization of convex hull, X-Y hull and bounding
rectangle
Description: The package computes the p-hull of a finite planar set,
which is a generalization of the convex hull, X-Y hull and
bounding rectangle. A fast, O(n log n) Graham-scan based
routine is used.
CHANGELOG |only
DESCRIPTION | 8 ++++----
NAMESPACE | 3 ++-
R/as.matrix.phull.R | 19 +++++++++++++++----
R/draw.phull.R | 37 +++++++++++++++++++++++++++----------
R/phull.R | 16 ++--------------
R/phull_computewithr.R | 8 ++++++--
demo/00Index | 3 ++-
demo/rotate.R |only
inst |only
man/phull.Rd | 2 +-
11 files changed, 59 insertions(+), 37 deletions(-)
Author: Julien Martin
Title: Power analysis for random effects in mixed models
Description: Simulation functions to assess or explore the power of a
dataset to estimates significant random effects (intercept or
slope) in a mixed model. The functions are based on the "lme4"
package.
Diff between pamm versions 0.2 dated 2009-06-14 and 0.5 dated 2009-10-04
DESCRIPTION | 8 ++--- R/EAMM.R | 4 +- R/PAMM.R | 4 +- R/SSF.R | 4 +- R/plot.EAMM.R | 21 ++++++++------ man/EAMM.Rd | 33 ++++++++++++----------- man/PAMM.Rd | 28 ++++++++++--------- man/SSF.Rd | 22 ++++++++------- man/pamm-package.Rd | 7 ++-- man/plot.EAMM.Rd | 18 ++++++------ man/plot.PAMM.Rd | 73 ++++++++++++++++++++++++++-------------------------- man/plot.SSF.Rd | 14 ++++----- 12 files changed, 122 insertions(+), 114 deletions(-)
Author: David A. James
Title: SQLite interface for R
Description: Database Interface R driver for SQLite. This package
embeds the SQLite database engine in R and provides an
interface compliant with the DBI package. The source for the
SQLite engine (version 3.6.4) is included.
Diff between RSQLite versions 0.7-2 dated 2009-08-14 and 0.7-3 dated 2009-10-04
DESCRIPTION | 6 configure | 1520 +++++++++++++++++++-------------------------- configure.in | 2 inst/NEWS | 8 man/SQLite.Rd | 4 man/dbReadTable-methods.Rd | 4 man/safe.write.Rd | 4 7 files changed, 667 insertions(+), 881 deletions(-)
Author: Lin et al.
Title: Testing for monotonic relationship between gene expression and
doses in a microarray experiment.
Description: Several testing procedures including the global likelihood
ratio test (Bartholomew, 1961), Williams (1971, 1972), Marcus
(1976), M (Hu et al. 2005) and the modified M (Lin et al. 2007)
are used to test for the monotonic trend in gene expression
with respect to doses. BH (Benjamini and Hochberg 1995) and BY
(Benjamini and Yekutilie 2004) FDR controlling procedures are
applied to adjust the raw p-values obtained from the
permutations.
Diff between IsoGene versions 1.0-14 dated 2009-06-14 and 1.0-15 dated 2009-10-04
DESCRIPTION | 12 ++++++------ NAMESPACE | 1 + R/IsoGene1.R | 48 ++++++++++++++++++++++++------------------------ R/IsoGenem.R | 6 +++--- R/IsoGenemSAM.R | 4 ++-- R/IsoPlot.R | 4 ++-- R/IsoTestSAM.R | 2 +- R/Isofudge.R | 4 ++-- data/dopamine.rda |only inst/NEWS | 2 ++ man/IsoSAMPlot.Rd | 4 ++-- man/IsoTestSAM.Rd | 16 ++++++++++------ man/Isoallfdr.Rd | 4 ++-- man/Isofudge.Rd | 9 ++++----- man/Isoqqstat.Rd | 9 ++++----- man/Isoqval.Rd | 4 ++-- man/dopamine.Rd |only 17 files changed, 67 insertions(+), 62 deletions(-)
Author: Richard M. Heiberger
Title: Statistical Analysis and Data Display: Heiberger and Holland
Description: Support software for Statistical Analysis and Data Display
(Springer, ISBN 0-387-40270-5). This contemporary presentation
of statistical methods features extensive use of graphical
displays for exploring data and for displaying the analysis.
The authors demonstrate how to analyze data---showing code,
graphics, and accompanying computer listings---for all the
methods they cover. They emphasize how to construct and
interpret graphs, discuss principles of graphical design, and
show how accompanying traditional tabular results are used to
confirm the visual impressions derived directly from the
graphs. Many of the graphical formats are novel and appear here
for the first time in print. All chapters have exercises.
Diff between HH versions 2.1-30 dated 2009-08-19 and 2.1-32 dated 2009-10-04
HH-2.1-30/HH/R/glht.new.R |only HH-2.1-30/HH/R/mcp.993.R |only HH-2.1-30/HH/man/glht.mcp.993.Rd |only HH-2.1-32/HH/DESCRIPTION | 12 ++-- HH-2.1-32/HH/R/F.curve.R | 52 ++++++++++++----- HH-2.1-32/HH/R/chisq.curve.R | 27 ++++++++- HH-2.1-32/HH/R/norm.curve.R | 1 HH-2.1-32/HH/demo/MMC.WoodEnergy.R | 2 HH-2.1-32/HH/demo/MMC.cc176.R | 4 - HH-2.1-32/HH/man/F.curve.Rd | 28 +++++++-- HH-2.1-32/HH/man/GSremove.Rd | 10 +++ HH-2.1-32/HH/man/HH_regsubsets.Rd | 9 +-- HH-2.1-32/HH/man/X.residuals.Rd | 18 +++++- HH-2.1-32/HH/man/ae.dotplot.Rd | 25 ++++++-- HH-2.1-32/HH/man/ancova.Rd | 14 +++- HH-2.1-32/HH/man/anova.mean.Rd | 16 +++-- HH-2.1-32/HH/man/aov.sufficient.Rd | 30 ++++++++-- HH-2.1-32/HH/man/arima.diag.hh.Rd | 28 ++++++++- HH-2.1-32/HH/man/arma.loop.Rd | 20 +++++- HH-2.1-32/HH/man/as.multicomp.Rd | 64 ++++++++++++++++++--- HH-2.1-32/HH/man/cp.Rd | 30 +++++++++- HH-2.1-32/HH/man/diag.maybe.null.Rd | 10 +++ HH-2.1-32/HH/man/export.eps.Rd | 38 ++++++++++++- HH-2.1-32/HH/man/gof.calculation.Rd | 20 ++++++ HH-2.1-32/HH/man/interaction2wt.Rd | 21 +++++-- HH-2.1-32/HH/man/ladder.Rd | 10 ++- HH-2.1-32/HH/man/lm.case.Rd | 11 +++ HH-2.1-32/HH/man/lm.regsubsets.Rd | 5 + HH-2.1-32/HH/man/lmatRows.Rd | 10 ++- HH-2.1-32/HH/man/mmc.Rd | 67 +++++++++++++++++++---- HH-2.1-32/HH/man/mmc.mean.Rd | 27 ++++++++- HH-2.1-32/HH/man/objip.Rd | 11 +++ HH-2.1-32/HH/man/panel.bwplot.intermediate.hh.Rd | 4 - HH-2.1-32/HH/man/panel.bwplott.Rd | 20 +++++- HH-2.1-32/HH/man/panel.dotplot.tb.Rd | 6 +- HH-2.1-32/HH/man/panel.pairs.hh.Rd | 19 +++++- HH-2.1-32/HH/man/plot.multicomp.Rd | 17 +++++ HH-2.1-32/HH/man/position.Rd | 35 +++++++++--- HH-2.1-32/HH/man/regr2.plot.Rd | 31 +++++++++- HH-2.1-32/HH/man/residual.plots.Rd | 11 +++ HH-2.1-32/HH/man/summary.arma.loop.Rd | 10 +++ HH-2.1-32/HH/man/t.trellis.Rd | 13 +++- HH-2.1-32/HH/man/tsdiagplot.Rd | 18 +++++- HH-2.1-32/HH/man/vif.Rd | 20 ++++++ HH-2.1-32/HH/man/xysplom.Rd | 21 ++++++- 45 files changed, 697 insertions(+), 148 deletions(-)
Author: Jeffrey A. Ryan
Title: Quantitative Financial Modelling Framework
Description: Specify, build, trade, and analyse quantitative financial
trading strategies
Diff between quantmod versions 0.3-11 dated 2009-07-22 and 0.3-12 dated 2009-10-03
DESCRIPTION | 8 ++++---- R/OHLC.transformations.R | 8 ++++---- R/addTA.R | 12 ++++++------ R/getDividends.R | 2 +- R/getSplits.R | 2 +- R/getSymbols.R | 12 ++++++------ man/addBBands.Rd | 4 ++-- man/addRSI.Rd | 4 ++-- man/adjustOHLC.Rd | 1 - man/getFinancials.Rd | 10 +++++----- man/getOptionChain.Rd | 2 ++ man/getQuote.Rd | 2 +- man/getSymbols.oanda.Rd | 6 +++--- man/periodReturn.Rd | 2 +- 14 files changed, 38 insertions(+), 37 deletions(-)
Author: Jarrod Hadfield
Title: MCMC Generalised Linear Mixed Models
Description: MCMC Generalised Linear Mixed Models
Diff between MCMCglmm versions 1.11 dated 2009-09-03 and 1.12 dated 2009-10-03
MCMCglmm-1.11/MCMCglmm/R/find.componets.R |only 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.toc |only MCMCglmm-1.12/MCMCglmm/DESCRIPTION | 8 MCMCglmm-1.12/MCMCglmm/NAMESPACE | 2 MCMCglmm-1.12/MCMCglmm/R/MCMCglmm.R | 167 +++++++++++-------- MCMCglmm-1.12/MCMCglmm/R/find.components.R |only MCMCglmm-1.12/MCMCglmm/R/plotprior.R | 9 - MCMCglmm-1.12/MCMCglmm/R/plotsubspace.R | 49 ++--- MCMCglmm-1.12/MCMCglmm/R/posterior.cor.R |only MCMCglmm-1.12/MCMCglmm/R/posterior.evals.R |only MCMCglmm-1.12/MCMCglmm/R/posterior.mode.R | 15 - MCMCglmm-1.12/MCMCglmm/R/rIW.R | 4 MCMCglmm-1.12/MCMCglmm/data/SShorns.tab |only MCMCglmm-1.12/MCMCglmm/inst/doc/Figures/TEST.R | 8 MCMCglmm-1.12/MCMCglmm/inst/doc/Figures/Tutorial.Rnw | 7 MCMCglmm-1.12/MCMCglmm/inst/doc/Figures/defaults.R |only MCMCglmm-1.12/MCMCglmm/inst/doc/Tutorial.Rnw | 7 MCMCglmm-1.12/MCMCglmm/inst/doc/Tutorial.pdf |binary MCMCglmm-1.12/MCMCglmm/man/MCMCglmm.Rd | 10 - MCMCglmm-1.12/MCMCglmm/man/PlodiaRB.Rd | 2 MCMCglmm-1.12/MCMCglmm/man/SShorns.Rd |only MCMCglmm-1.12/MCMCglmm/man/posterior.cor.Rd |only MCMCglmm-1.12/MCMCglmm/man/posterior.evals.Rd |only MCMCglmm-1.12/MCMCglmm/man/posterior.mode.Rd | 3 MCMCglmm-1.12/MCMCglmm/src/MCMCglmm.cc | 8 MCMCglmm-1.12/MCMCglmm/src/cs_invR.c | 8 30 files changed, 180 insertions(+), 127 deletions(-)
Author: Dan Kelley
Diff between oce versions 0.1-77 dated 2009-09-13 and 0.1-78 dated 2009-10-02
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 | 3
R/ctd.R | 7
data/RRprofile.rda |only
inst/doc/oce.pdf | 652 ++++++++++++++++++++++++-------------------------
man/RRprofile.Rd |only
man/draw.isopycnals.Rd | 4
man/plot.TS.Rd | 3
man/read.ctd.Rd | 2
man/tidem.astron.Rd | 2
man/tidem.vuf.Rd | 2
11 files changed, 345 insertions(+), 338 deletions(-)
More information about intamapInteractive at CRAN
Permanent link
Author: Francois Husson, Sebastien Le
Title: Sensory data analysis with R
Description: an R package for analysing sensory data
Diff between SensoMineR versions 1.09 dated 2009-05-05 and 1.10 dated 2009-10-02
DESCRIPTION | 8 ++++---- R/averagetable.R | 4 ++-- R/decat.R | 6 +++--- R/paneliperf.R | 8 ++++---- R/panelperf.R | 8 ++++---- 5 files changed, 17 insertions(+), 17 deletions(-)
Author: Arnaud Estoup, Gilles Guillot, Filipe Santos
Title: Detection of structure from multilocus genetic data.
Description: Stochastic simulation and MCMC inference of structure from
genetic (optionnaly georeferenced) data
Diff between Geneland versions 3.1.4 dated 2008-11-25 and 3.1.5 dated 2009-10-02
ChangeLog | 7 ++- DESCRIPTION | 19 ++++++---- R/EstimateFreqNA.R | 2 - R/FormatGenotypes.R | 2 - R/Fstat.R | 2 - R/Fstat.output.R | 2 - R/Geneland.GUI.R | 2 - R/MCMC.R | 2 - R/PlotDrift.R | 2 - R/PlotFreq.R | 2 - R/PlotFreqA.R | 2 - R/PlotTessellation.R | 2 - R/Plotnpop.R | 2 - R/Plotntile.R | 2 - R/PostProcessChain.R | 2 - R/PostProcessMultChain.R | 2 - R/PosteriorMode.R | 2 - R/gl2gp.R | 2 - R/nullify.R | 2 - R/show.simdata.R | 2 - R/simFmodel.R | 2 - R/simdata.R | 2 - R/zzz.R | 2 - inst/doc/Geneland-Doc.pdf |binary man/Geneland-package.Rd | 48 +++++++++++++++------------ man/MCMC.Rd | 81 ++++++++++++++++++++++++++++------------------ man/PlotFreq.Rd | 5 +- man/simFmodel.Rd | 2 - 28 files changed, 118 insertions(+), 86 deletions(-)
Author: Spencer Graves, Sundar Dorai-Raj, and Romain Francois
Title: sos
Description: R related Search Engines
Diff between sos versions 1.1-3 dated 2009-09-07 and 1.1-5 dated 2009-10-01
DESCRIPTION | 8 - R/PackageSum2.R | 30 ++++ R/findFn.R | 22 +-- R/findFn2.R | 67 +++++---- R/writeFindFn2xls.R | 24 ++- inst/doc/RJournal.sty | 180 +++++++++++++------------ inst/doc/RSiteSearch.bbl | 82 +++++------ inst/doc/RSiteSearch.blg | 48 ++++++ inst/doc/RSiteSearch.pdf |binary inst/doc/RSiteSearch.tex | 4 inst/doc/RSiteSearch_body.tex | 292 +++++++++++++++++++++++++----------------- inst/doc/sos.pdf |binary man/PackageSum2.Rd | 19 ++ man/findFn.Rd | 8 - man/writeFindFn2xls.Rd | 12 + 15 files changed, 488 insertions(+), 308 deletions(-)
Author: Karl W Broman
Diff between qtl versions 1.13-7 dated 2009-09-10 and 1.14-2 dated 2009-10-01
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 ++++----
R/qtlcart_io.R | 6 +++---
R/read.cross.mm.R | 5 ++---
inst/README.txt | 12 ++++++------
inst/STATUS.txt | 12 ++++++++++++
inst/TODO.txt | 2 ++
6 files changed, 29 insertions(+), 16 deletions(-)
Author: Jochen Einbeck, Ross Darnell and John Hinde
Title: Nonparametric maximum likelihood estimation for random effect
models
Description: Nonparametric maximum likelihood estimation or Gaussian
quadrature for overdispersed generalized linear models and
variance component models
Diff between npmlreg versions 0.43 dated 2007-09-04 and 0.44 dated 2009-10-01
npmlreg-0.43/npmlreg/inst/doc/npmlreg-v-008.eps |only npmlreg-0.43/npmlreg/inst/doc/npmlreg-v-008.pdf |only npmlreg-0.43/npmlreg/inst/doc/npmlreg-v-012.eps |only npmlreg-0.43/npmlreg/inst/doc/npmlreg-v-012.pdf |only npmlreg-0.43/npmlreg/inst/doc/npmlreg-v-015.eps |only npmlreg-0.43/npmlreg/inst/doc/npmlreg-v-015.pdf |only npmlreg-0.43/npmlreg/inst/doc/npmlreg-v-035.eps |only npmlreg-0.43/npmlreg/inst/doc/npmlreg-v-035.pdf |only npmlreg-0.43/npmlreg/inst/doc/npmlreg-v-042.eps |only npmlreg-0.43/npmlreg/inst/doc/npmlreg-v-042.pdf |only npmlreg-0.43/npmlreg/inst/doc/npmlreg-v.aux |only npmlreg-0.43/npmlreg/inst/doc/npmlreg-v.log |only npmlreg-0.43/npmlreg/inst/doc/npmlreg-v.tex |only npmlreg-0.43/npmlreg/inst/doc/npmlreg-v.toc |only npmlreg-0.44/npmlreg/DESCRIPTION | 33 +++++++++-------- npmlreg-0.44/npmlreg/R/alldist.R | 35 +++++++++++++----- npmlreg-0.44/npmlreg/R/allvc.R | 28 +++++++++----- npmlreg-0.44/npmlreg/data/fabric.rda |only npmlreg-0.44/npmlreg/inst/doc/npmlreg-v.Stex | 10 ++--- npmlreg-0.44/npmlreg/inst/doc/npmlreg-v.pdf |binary npmlreg-0.44/npmlreg/man/alldist.Rd | 46 ++++++++++++++++-------- npmlreg-0.44/npmlreg/man/fabric.Rd |only npmlreg-0.44/npmlreg/man/gqz.Rd | 2 - npmlreg-0.44/npmlreg/man/hosp.Rd | 2 - npmlreg-0.44/npmlreg/man/npmlreg.package.Rd | 8 ++-- npmlreg-0.44/npmlreg/man/plot.glmmNPML.Rd | 4 +- npmlreg-0.44/npmlreg/man/predict.glmmNPML.Rd | 4 +- npmlreg-0.44/npmlreg/man/summary.glmmNPML.Rd | 15 +++++++ 28 files changed, 122 insertions(+), 65 deletions(-)
Author: Andrew Gelman
Diff between mi versions 0.08-04.01 dated 2009-08-13 and 0.08-04.02 dated 2009-10-01
Title: Missing Data Imputation and Model Checking
Description: Missing-data imputation and model checking
DESCRIPTION | 10 ++++++----
man/write.mi.Rd | 2 +-
2 files changed, 7 insertions(+), 5 deletions(-)
Author: Sinnwell JP, Schaid DJ
Title: Statistical Analysis of Haplotypes with Traits and Covariates
when Linkage Phase is Ambiguous
Description: A suite of S-PLUS/R routines for the analysis of
indirectly measured haplotypes. The statistical methods assume
that all subjects are unrelated and that haplotypes are
ambiguous (due to unknown linkage phase of the genetic
markers). The main functions are: haplo.em, haplo.glm,
haplo.score, haplo.power, and seqhap. Copyright: 2003 Mayo
Foundation for Medical Education and Research.
Diff between haplo.stats versions 1.4.3 dated 2009-04-28 and 1.4.4 dated 2009-10-01
DESCRIPTION | 8 ++++---- NEWS | 16 ---------------- man/geno1to2.Rd | 24 +++++++++--------------- man/get.hapPair.Rd | 21 ++++++++------------- man/glm.fit.nowarn.Rd | 12 ++---------- man/haplo.cc.Rd | 34 +++++++++++++++++++--------------- man/haplo.design.Rd | 33 ++++++++++++++++++++++++--------- man/haplo.em.Rd | 17 ++++++++--------- man/haplo.model.frame.Rd | 27 +++++++++++---------------- man/haplo.power.cc.Rd | 7 ++----- man/haplo.power.qt.Rd | 7 ++----- man/haplo.scan.Rd | 43 ++++++++++++++++++++++++++----------------- man/internalHaploStats.Rd | 38 +++++++++++--------------------------- man/louis.info.Rd | 32 ++++++++++---------------------- 14 files changed, 136 insertions(+), 183 deletions(-)
Author: Vincent Calcagno
Diff between glmulti versions 0.5-1 dated 2009-06-24 and 0.5-2 dated 2009-10-01
Title: GLM model selection and multimodel inference made easy
Description: Automated model selection for GLMs. Provides a wrapper for
glm and similar functions, automatically generating all
possible models (under constraints set by the user) with the
specified response and explanatory variables, and finding the
best models in terms of some Information Criterion (AIC, AICc
or BIC). Can handle very large numbers of candidate models.
Features a Genetic Algorithm to find the best models when an
exhaustive screening of the candidates is not feasible.
DESCRIPTION | 8 ++++----
R/glmulti.R | 9 +++++----
inst/java/glmulti.jar |binary
inst/java/glmulti/GLMModel.class |binary
inst/java/glmulti/ModelGenerator.class |binary
inst/java/glmulti/Resumator.class |binary
man/glmulti.Rd | 10 +---------
7 files changed, 10 insertions(+), 17 deletions(-)
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 1.4 dated 2009-09-09 and 1.4.1 dated 2009-10-01
CHANGES | 3 +++ DESCRIPTION | 8 ++++---- R/ez-internal.R | 3 ++- 3 files changed, 9 insertions(+), 5 deletions(-)
Author: Virasakdi Chongsuvivatwong
Diff between epicalc versions 2.9.2.3 dated 2009-09-28 and 2.9.2.5 dated 2009-10-01
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.
DESCRIPTION | 8 ++--
R/epicalc.R | 109 +++++++++++++++++++++++++++++++++++++++---------------------
man/use.rd | 3 +
3 files changed, 78 insertions(+), 42 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 1.1.9.1 dated 2009-09-04 and 1.1.9.2 dated 2009-10-01
DESCRIPTION | 12 ++++++------ NAMESPACE | 5 ++++- R/ccf.series.rwl.R |only R/corr.rwl.seg.R |only R/corr.series.seg.R |only R/normalize.xdate.R |only R/plot.series.rwl.R |only R/qa.xdate.R |only man/ccf.series.rwl.Rd |only man/chron.Rd | 4 ++-- man/corr.rwl.seg.Rd |only man/corr.series.seg.Rd |only man/dplR-internal.Rd | 2 ++ man/series.rwl.plot.Rd |only man/skel.plot.Rd | 2 +- 15 files changed, 15 insertions(+), 10 deletions(-)
Author: Andrew Gelman
Diff between arm versions 1.2-9 dated 2009-04-29 and 1.2-9.01 dated 2009-10-01
Title: Data Analysis Using Regression and Multilevel/Hierarchical
Models
Description: R functions for processing lm, glm, mer and polr outputs.
DESCRIPTION | 10 ++++++----
man/coefplot.Rd | 2 +-
2 files changed, 7 insertions(+), 5 deletions(-)
Author: Martin Becker
Title: Pearson Distribution System
Description: Implementation of the Pearson distribution system,
including full support for the (d,p,q,r)-family of functions
for probability distributions and fitting via method of moments
and maximum likelihood method.
Diff between PearsonDS versions 0.90 dated 2009-09-19 and 0.91 dated 2009-10-01
PearsonDS-0.90/PearsonDS/config.guess |only PearsonDS-0.90/PearsonDS/config.sub |only PearsonDS-0.90/PearsonDS/install-sh |only PearsonDS-0.91/PearsonDS/DESCRIPTION | 8 ++--- PearsonDS-0.91/PearsonDS/cleanup |only PearsonDS-0.91/PearsonDS/cleanup.win |only PearsonDS-0.91/PearsonDS/configure | 54 +++++++++++++++++++++++++++------- PearsonDS-0.91/PearsonDS/configure.ac | 13 +++++++- PearsonDS-0.91/PearsonDS/inst/CHANGES | 7 ++++ 9 files changed, 66 insertions(+), 16 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 0.0-3 dated 2009-09-22 and 0.0-5 dated 2009-10-01
DESCRIPTION | 8 ++++---- NAMESPACE | 3 ++- R/coef.mlcm.R | 17 +++++++++++++++-- R/logLik.mlcm.R | 9 ++++++--- R/mlcm.default.R | 7 +++++-- R/mlcm.formula.R |only R/print.summary.mlcm.R | 7 ++++++- R/summary.mlcm.R | 5 ++++- R/vcov.mlcm.R | 4 +++- inst/NEWS | 6 +++++- inst/ToDo | 2 +- man/mlcm.Rd | 30 ++++++++++++++++++++++++------ man/plot.mlcm.Rd | 3 ++- 13 files changed, 77 insertions(+), 24 deletions(-)
Author: Jouni Lehtonen
Diff between KFAS versions 0.4.3 dated 2009-09-28 and 0.4.4 dated 2009-10-01
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 | 8 +++----
R/KFAS.R | 38 +++++++--------------------------
src/ks.f90 | 59 ++--------------------------------------------------
src/simsmoother.f90 | 44 +++++++++-----------------------------
4 files changed, 27 insertions(+), 122 deletions(-)
Author: David Ardia and Katharine Mullen
Title: Optimization by Differential Evolution
Description: This package provides the DEoptim function which performs
optimization by Differential Evolution.
Diff between DEoptim versions 1.3-3 dated 2009-05-14 and 2.0-0 dated 2009-10-01
DEoptim-1.3-3/DEoptim/demo |only DEoptim-2.0-0/DEoptim/COPYRIGHTS | 2 DEoptim-2.0-0/DEoptim/DESCRIPTION | 16 - DEoptim-2.0-0/DEoptim/NAMESPACE |only DEoptim-2.0-0/DEoptim/NEWS | 25 + DEoptim-2.0-0/DEoptim/R/DEoptim.R | 396 +++++++-------------------- DEoptim-2.0-0/DEoptim/R/methods.R |only DEoptim-2.0-0/DEoptim/R/zzz.R | 8 DEoptim-2.0-0/DEoptim/README | 11 DEoptim-2.0-0/DEoptim/THANKS | 3 DEoptim-2.0-0/DEoptim/inst/CITATION | 7 DEoptim-2.0-0/DEoptim/man/DEoptim-methods.Rd | 102 +++++- DEoptim-2.0-0/DEoptim/man/DEoptim.Rd | 159 ++++------ DEoptim-2.0-0/DEoptim/man/DEoptim.control.Rd |only DEoptim-2.0-0/DEoptim/src |only 15 files changed, 302 insertions(+), 427 deletions(-)