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(-)